10001 lines
1.9 MiB
10001 lines
1.9 MiB
##fileformat=VCFv4.0
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##FILTER=<ID=ABFilter,Description="AB 0.75 && DP 40">
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##FILTER=<ID=DPFilter,Description="DP 120 || SB -0.10">
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##FILTER=<ID=FDRtranche0.00to0.10,Description="FDR tranche level at qual 0.06">
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##FILTER=<ID=FDRtranche0.10to1.00,Description="FDR tranche level at qual 0.03">
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##FILTER=<ID=FDRtranche1.00to2.00,Description="FDR tranche level at qual 0.02">
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##FILTER=<ID=FDRtranche2.00to10.00+,Description="FDR tranche level at qual > 0.06">
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##FILTER=<ID=HARD_TO_VALIDATE,Description="MQ0 = 4 && ((MQ0 / (1.0 * DP)) 0.1)">
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##FILTER=<ID=Indel,Description="Overlaps a user-input mask">
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##FILTER=<ID=LowQual,Description="Low quality">
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##FILTER=<ID=LowQual,Description="QUAL 50.0">
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##FILTER=<ID=SnpCluster,Description="SNPs found in clusters">
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##FORMAT=<ID=AD,Number=.,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
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##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth (only filtered reads used for calling)">
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##FORMAT=<ID=GL,Number=3,Type=Float,Description="Log-scaled likelihoods for AA,AB,BB genotypes where A=ref and B=alt; not applicable if site is not biallelic">
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##FORMAT=<ID=GQ,Number=1,Type=Float,Description="Genotype Quality">
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##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
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##INFO=<ID=AC,Number=.,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
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##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed">
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##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
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##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP Membership">
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##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
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##INFO=<ID=Dels,Number=1,Type=Float,Description="Fraction of Reads Containing Spanning Deletions">
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##INFO=<ID=HRun,Number=1,Type=Integer,Description="Largest Contiguous Homopolymer Run of Variant Allele In Either Direction">
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##INFO=<ID=HaplotypeScore,Number=1,Type=Float,Description="Consistency of the site with two (and only two) segregating haplotypes">
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##INFO=<ID=MQ,Number=1,Type=Float,Description="RMS Mapping Quality">
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##INFO=<ID=MQ0,Number=1,Type=Integer,Description="Total Mapping Quality Zero Reads">
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##INFO=<ID=OQ,Number=1,Type=Float,Description="The original variant quality score">
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##INFO=<ID=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth">
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##INFO=<ID=SB,Number=1,Type=Float,Description="Strand Bias">
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##UnifiedGenotyper="analysis_type=UnifiedGenotyper input_file=[/humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-23/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-24/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-5/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-9/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-6/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-19/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-25/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-4/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-14/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-22/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-2/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-3/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-7/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-16/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-1/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-17/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-8/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-10/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-18/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-20/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-11/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-15/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-21/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-12/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam, /humgen/1kg/analysis/bamsForDataProcessingPapers/scriptsToMakeBams/Q-2970@gsa2-1-temp-13/NA12878.HiSeq.WGS.bwa.cleaned.recal.bam] read_buffer_size=null read_filter=[] intervals=[chrX] excludeIntervals=[chrM, chrY] reference_sequence=/seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta rodBind=[dbsnp,dbsnp,/humgen/gsa-scr1/GATK_Data/dbsnp_129_hg18.rod, interval,Intervals,chrX] rodToIntervalTrackName=null BTI_merge_rule=UNION DBSNP=/humgen/gsa-scr1/GATK_Data/dbsnp_129_hg18.rod hapmap=null hapmap_chip=null out=null err=null outerr=null filterZeroMappingQualityReads=false downsampling_type=NONE downsample_to_fraction=null downsample_to_coverage=null useOriginalQualities=false validation_strictness=SILENT unsafe=null max_reads_at_locus=10000 num_threads=1 interval_merging=ALL read_group_black_list=null genotype_model=JOINT_ESTIMATE base_model=EMPIRICAL heterozygosity=7.8E-4 genotype=false output_all_callable_bases=false standard_min_confidence_threshold_for_calling=30.0 standard_min_confidence_threshold_for_emitting=10.0 trigger_min_confidence_threshold_for_calling=30.0 trigger_min_confidence_threshold_for_emitting=30.0 noSLOD=false assume_single_sample_reads=null platform=null min_base_quality_score=20 min_mapping_quality_score=20 max_mismatches_in_40bp_window=3 use_reads_with_bad_mates=false max_deletion_fraction=0.05 cap_base_quality_by_mapping_quality=false"
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##VariantFiltration="analysis_type=VariantFiltration input_file=[] read_buffer_size=null read_filter=[] intervals=null excludeIntervals=[chrM, chrY] reference_sequence=/seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta rodBind=[variant,VCF,wgs.v9/HiSeq.WGS.cleaned.ug.snpfiltered.vcf, mask,Bed,wgs.v9/HiSeq.WGS.cleaned.indels.10.mask] rodToIntervalTrackName=null BTI_merge_rule=UNION DBSNP=null hapmap=null hapmap_chip=null out=wgs.v9/HiSeq.WGS.cleaned.ug.snpfiltered.indelfiltered.vcf err=null outerr=null filterZeroMappingQualityReads=false downsampling_type=NONE downsample_to_fraction=null downsample_to_coverage=null useOriginalQualities=false validation_strictness=SILENT unsafe=null max_reads_at_locus=2147483647 num_threads=1 interval_merging=ALL read_group_black_list=null filterExpression=[] filterName=[] genotypeFilterExpression=[] genotypeFilterName=[] clusterSize=3 clusterWindowSize=0 maskName=Indel NO_HEADER=false"
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##VariantFiltration="analysis_type=VariantFiltration input_file=[] read_buffer_size=null read_filter=[] intervals=null excludeIntervals=[chrM, chrY] reference_sequence=/seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta rodBind=[variant,VCF,wgs.v9/HiSeq.WGS.cleaned.ug.vcf] rodToIntervalTrackName=null BTI_merge_rule=UNION DBSNP=null hapmap=null hapmap_chip=null out=wgs.v9/HiSeq.WGS.cleaned.ug.snpfiltered.vcf err=null outerr=null filterZeroMappingQualityReads=false downsampling_type=NONE downsample_to_fraction=null downsample_to_coverage=null useOriginalQualities=false validation_strictness=SILENT unsafe=null max_reads_at_locus=2147483647 num_threads=1 interval_merging=ALL read_group_black_list=null filterExpression=[QUAL < 50.0, MQ0 >= 4 && ((MQ0 / (1.0 * DP)) > 0.1), AB > 0.75 && DP > 40, DP > 120 || SB > -0.10] filterName=[LowQual, HARD_TO_VALIDATE, ABFilter, DPFilter] genotypeFilterExpression=[] genotypeFilterName=[] clusterSize=3 clusterWindowSize=10 maskName=Mask NO_HEADER=false"
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##source=VariantOptimizer
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#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA12878
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chr1 109 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1019;Dels=0.00;HRun=0;HaplotypeScore=686.65;MQ=19.20;MQ0=288;OQ=2175.54;QD=2.13;SB=-1042.18 GT:AD:DP:GL:GQ 0/1:610,327:308:-316.30,-95.47,-803.03:99
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chr1 147 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=348;Dels=0.01;HRun=2;HaplotypeScore=268.66;MQ=20.23;MQ0=105;OQ=196.24;QD=0.56;SB=-76.48 GT:AD:DP:GL:GQ 0/1:294,49:118:-57.87,-34.96,-338.46:99
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chr1 177 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=432;Dels=0.02;HRun=2;HaplotypeScore=404.17;MQ=17.76;MQ0=153;OQ=697.20;QD=1.61;SB=-140.54 GT:AD:DP:GL:GQ 0/1:283,140:122:-108.58,-35.57,-292.84:99
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chr1 180 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=630;Dels=0.01;HRun=2;HaplotypeScore=495.41;MQ=14.22;MQ0=327;OQ=885.33;QD=1.41;SB=-412.44 GT:AD:DP:GL:GQ 0/1:466,154:104:-122.27,-30.46,-246.17:99
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chr1 234 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=336;Dels=0.00;HRun=1;HaplotypeScore=423.95;MQ=19.45;MQ0=111;OQ=596.60;QD=1.78;SB=-230.12 GT:AD:DP:GL:GQ 0/1:267,67:106:-94.87,-31.93,-297.68:99
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chr1 235 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=326;Dels=0.00;HRun=2;HaplotypeScore=391.04;MQ=19.68;MQ0=106;OQ=580.03;QD=1.78;SB=-219.50 GT:AD:DP:GL:GQ 0/1:274,47:105:-99.60,-38.31,-293.27:99
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chr1 250 . A C 22.88 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=182;Dels=0.01;HRun=3;HaplotypeScore=244.83;MQ=21.91;MQ0=52;QD=0.13;SB=-23.67 GT:AD:DP:GL:GQ 0/1:148,33:70:-26.66,-21.09,-215.78:55.69
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chr1 291 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=135;Dels=0.00;HRun=0;HaplotypeScore=284.50;MQ=20.72;MQ0=39;OQ=529.94;QD=3.93;SB=-160.31 GT:AD:DP:GL:GQ 0/1:87,43:32:-69.55,-13.28,-54.44:99
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chr1 297 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=214.52;MQ=20.93;MQ0=36;OQ=101.21;QD=0.82;SB=-38.97 GT:AD:DP:GL:GQ 0/1:98,15:30:-33.20,-19.79,-87.91:99
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chr1 309 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=153.70;MQ=21.12;MQ0=35;OQ=53.98;QD=0.46;SB=-50.01 GT:AD:DP:GL:GQ 0/1:103,9:32:-18.33,-9.64,-96.32:86.82
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chr1 321 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=0;HaplotypeScore=612.30;MQ=19.11;MQ0=29;OQ=136.39;QD=0.67;SB=-61.25 GT:AD:DP:GL:GQ 0/1:171,23:33:-33.14,-16.22,-92.98:99
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chr1 327 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=3;HaplotypeScore=227.75;MQ=19.74;MQ0=24;OQ=143.34;QD=0.69;SB=-63.56 GT:AD:DP:GL:GQ 0/1:183,21:38:-34.61,-16.99,-113.13:99
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chr1 352 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=325;Dels=0.00;HRun=1;HaplotypeScore=437.89;MQ=18.90;MQ0=142;OQ=774.23;QD=2.38;SB=-355.54 GT:AD:DP:GL:GQ 0/1:238,84:81:-104.82,-24.11,-183.81:99
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chr1 354 . C A 24.89 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=486;Dels=0.01;HRun=1;HaplotypeScore=281.11;MQ=16.12;MQ0=261;QD=0.05;SB=17.54 GT:AD:DP:GL:GQ 0/1:459,24:90:-32.28,-26.51,-269.47:57.71
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chr1 469 . C A 22.04 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=82.51;MQ=26.50;MQ0=12;QD=0.39;SB=-7.00 GT:AD:DP:GL:GQ 0/1:34,21:20:-11.52,-6.03,-45.07:54.85
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chr1 664 . C G 30.66 PASS AC=2;AF=1.00;AN=2;DP=2;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=50.85;QD=25.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-8.49,-0.60,-0.00:6.02
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chr1 666 . C G 10.99 LowQual AC=1;AF=0.50;AN=2;DP=1;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=10.99;SB=-10.00 GT:AD:DP:GL:GQ 0/1:0,1:1:-4.35,-0.30,-0.00:1.76
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chr1 2646 rs62635284 G A 0.15 PASS AC=2;AF=1.00;AN=2;DB;DP=128;Dels=0.00;HRun=0;HaplotypeScore=9.27;MQ=6.23;MQ0=107;OQ=89.13;QD=0.70;SB=-10.00 GT:AD:DP:GL:GQ 1/1:53,75:3:-12.40,-0.90,-0.00:9.03
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chr1 2979 rs62635286 T G 83.67 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=11.99;MQ0=41;OQ=300.29;QD=4.77;SB=-10.00 GT:AD:DP:GL:GQ 1/1:31,32:9:-33.61,-2.71,-0.00:27.09
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chr1 2981 rs62028691 A G 14.69 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=11.89;MQ0=42;OQ=285.31;QD=4.46;SB=-10.00 GT:AD:DP:GL:GQ 1/1:31,33:9:-32.12,-2.71,-0.00:27.08
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chr1 3759 . C A 0.19 PASS AC=1;AF=0.50;AN=2;DP=146;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=9.71;MQ0=116;OQ=458.45;QD=3.14;SB=-211.61 GT:AD:DP:GL:GQ 0/1:106,40:25:-56.66,-7.53,-33.77:99
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chr1 4536 rs11582131 G C 0.18 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=9.63;MQ=12.37;MQ0=52;OQ=335.66;QD=4.48;SB=8.06 GT:AD:DP:GL:GQ 0/1:42,33:16:-41.67,-4.82,-26.29:99
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chr1 4540 . G A 47.71 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=2;HaplotypeScore=11.12;MQ=11.52;MQ0=49;QD=0.67;SB=8.05 GT:AD:DP:GL:GQ 0/1:66,5:13:-11.97,-3.92,-35.35:80.54
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chr1 4562 rs11490464 C G 0.14 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=2.62;MQ=11.28;MQ0=37;OQ=136.40;QD=2.44;SB=-10.00 GT:AD:DP:GL:GQ 0/1:26,30:9:-19.64,-2.72,-14.87:99
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chr1 4770 rs6682375 A G 0.32 PASS AC=2;AF=1.00;AN=2;DB;DP=121;Dels=0.00;HRun=1;HaplotypeScore=1.93;MQ=26.23;MQ0=31;OQ=2992.25;QD=24.73;SB=-1410.84 GT:AD:DP:GL:GQ 1/1:9,111:84:-306.27,-28.58,-3.46:99
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chr1 4793 rs6682385 A G 0.15 PASS AC=2;AF=1.00;AN=2;DB;DP=119;Dels=0.00;HRun=0;HaplotypeScore=8.98;MQ=29.61;MQ0=5;OQ=3517.41;QD=29.56;SB=-1722.01 GT:AD:DP:GL:GQ 1/1:4,115:109:-350.74,-32.88,-0.10:99
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chr1 5074 rs11586607 T G 0.01 FDRtranche2.00to10.00 AC=2;AF=1.00;AN=2;DB;DP=126;Dels=0.00;HRun=1;HaplotypeScore=24.34;MQ=21.42;MQ0=68;OQ=1230.02;QD=9.76;SB=-234.94 GT:AD:DP:GL:GQ 1/1:29,97:39:-130.41,-11.75,-3.82:79.31
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chr1 5137 rs62636497 A T 140.49 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=21.69;MQ0=25;OQ=1453.92;QD=17.73;SB=-222.33 GT:AD:DP:GL:GQ 1/1:0,74:39:-148.99,-11.75,-0.01:99
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chr1 5966 . T G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=129;Dels=0.18;HRun=5;HaplotypeScore=140.84;MQ=21.40;MQ0=8;OQ=1764.68;QD=13.68;SB=-234.42 GT:AD:DP:GL:GQ 1/1:0,106:53:-180.07,-15.66,-0.02:99
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chr1 6092 . C A 11.16 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=9.08;MQ=27.90;MQ0=10;QD=0.08;SB=14.05 GT:AD:DP:GL:GQ 0/1:125,11:94:-32.68,-28.32,-307.61:43.65
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chr1 6120 rs11489794 G C 0.46 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=3.83;MQ=27.31;MQ0=11;OQ=181.15;QD=2.01;SB=8.06 GT:AD:DP:GL:GQ 0/1:73,17:66:-41.29,-19.89,-251.91:99
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chr1 6151 rs62028673 C G 0.34 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=22.13;MQ0=10;OQ=58.79;QD=1.73;SB=-6.99 GT:AD:DP:GL:GQ 0/1:24,10:14:-13.38,-4.22,-45.26:91.62
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chr1 6241 rs17041382 T C 5.47 PASS AC=1;AF=0.50;AN=2;DB;DP=138;Dels=0.00;HRun=0;HaplotypeScore=4.98;MQ=14.62;MQ0=74;OQ=755.36;QD=5.47;SB=-258.37 GT:AD:DP:GL:GQ 0/1:39,99:33:-88.77,-9.95,-20.05:99
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chr1 6358 rs3210724 G C 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=174;Dels=0.00;HRun=0;HaplotypeScore=19.20;MQ=25.41;MQ0=15;OQ=678.86;QD=3.90;SB=-150.77 GT:AD:DP:GL:GQ 0/1:131,42:113:-105.24,-34.07,-360.44:99
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chr1 6360 rs7359297 A G 49.26 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=171;Dels=0.00;HRun=2;HaplotypeScore=19.20;MQ=25.54;MQ0=15;QD=0.29;SB=20.10 GT:AD:DP:GL:GQ 0/1:155,16:111:-41.64,-33.43,-398.12:82.10
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chr1 6397 rs15642 C T 157.37 PASS AC=1;AF=0.50;AN=2;DB;DP=108;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=21.39;MQ0=24;OQ=850.53;QD=7.88;SB=-122.64 GT:AD:DP:GL:GQ 0/1:45,63:33:-98.28,-9.94,-33.57:99
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chr1 7270 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=0;HaplotypeScore=18.12;MQ=8.37;MQ0=128;OQ=66.01;QD=0.43;SB=-47.55 GT:AD:DP:GL:GQ 0/1:137,16:8:-12.30,-2.42,-14.38:98.84
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chr1 7558 rs7357853 G A 28.66 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=123;Dels=0.00;HRun=0;HaplotypeScore=2.85;MQ=11.88;MQ0=88;QD=0.23;SB=-10.00 GT:AD:DP:GL:GQ 0/1:113,10:21:-12.48,-6.33,-62.63:61.49
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chr1 7609 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=1;HaplotypeScore=4.53;MQ=19.87;MQ0=60;OQ=69.47;QD=0.58;SB=-10.00 GT:AD:DP:GL:GQ 0/1:98,22:48:-24.69,-14.46,-166.38:99
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chr1 7766 . C T 24.46 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=9.88;MQ=9.94;MQ0=60;QD=0.35;SB=-10.00 GT:AD:DP:GL:GQ 0/1:66,3:7:-7.84,-2.11,-15.08:57.28
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chr1 9089 rs28609851 T A 1.71 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.90;MQ=14.01;MQ0=34;OQ=172.68;QD=2.93;SB=-37.66 GT:AD:DP:GL:GQ 0/1:50,9:19:-26.28,-5.72,-45.27:99
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chr1 9185 rs2974813 C T 45.14 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=3.92;MQ0=67;QD=0.65;SB=-47.56 GT:AD:DP:GL:GQ 1/1:67,2:2:-7.92,-0.60,-0.00:6.02
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chr1 9721 rs12354145 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=128;Dels=0.00;HRun=2;HaplotypeScore=26.09;MQ=12.03;MQ0=77;OQ=197.90;QD=1.55;SB=-10.00 GT:AD:DP:GL:GQ 0/1:97,31:18:-28.50,-5.42,-36.05:99
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chr1 9805 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=195;Dels=0.00;HRun=1;HaplotypeScore=1.10;MQ=10.83;MQ0=134;OQ=142.73;QD=0.73;SB=-10.00 GT:AD:DP:GL:GQ 0/1:171,24:24:-24.81,-7.25,-68.77:99
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chr1 9993 rs7354882 G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=155;Dels=0.00;HRun=0;HaplotypeScore=22.48;MQ=21.20;MQ0=19;OQ=727.76;QD=4.70;SB=-285.16 GT:AD:DP:GL:GQ 0/1:126,29:124:-113.46,-37.39,-308.40:99
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chr1 10108 rs6682921 G A 129.70 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=249;Dels=0.00;HRun=1;HaplotypeScore=98.13;MQ=8.71;MQ0=185;QD=0.52;SB=-64.03 GT:AD:DP:GL:GQ 0/1:175,74:25:-23.78,-7.53,-70.54:99
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chr1 10113 rs11490226 T C 60.45 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=252;Dels=0.00;HRun=0;HaplotypeScore=99.00;MQ=8.29;MQ0=191;QD=0.24;SB=-6.56 GT:AD:DP:GL:GQ 0/1:200,52:22:-15.96,-6.63,-68.61:93.28
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chr1 10117 . G A 27.78 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=251;Dels=0.00;HRun=0;HaplotypeScore=92.18;MQ=8.29;MQ0=191;QD=0.11;SB=-12.58 GT:AD:DP:GL:GQ 0/1:210,41:21:-12.39,-6.33,-58.67:60.61
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chr1 10375 rs6683179 G T 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=229;Dels=0.00;HRun=0;HaplotypeScore=2.35;MQ=7.78;MQ0=173;OQ=50.55;QD=0.22;SB=-10.00 GT:AD:DP:GL:GQ 0/1:152,76:16:-13.16,-4.82,-44.89:83.39
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chr1 10410 rs11489908 A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=236;Dels=0.00;HRun=2;HaplotypeScore=3.67;MQ=7.06;MQ0=196;OQ=84.39;QD=0.36;SB=-10.00 GT:AD:DP:GL:GQ 0/1:188,48:18:-17.15,-5.42,-52.83:99
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chr1 16862 rs376349 A G 0.50 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=2;HaplotypeScore=2.47;MQ=20.73;MQ0=3;OQ=399.27;QD=24.95;SB=-188.41 GT:AD:DP:GL:GQ 1/1:2,14:12:-43.52,-3.61,-0.00:36.11
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chr1 18110 rs4413987 G A 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=114;Dels=0.00;HRun=0;HaplotypeScore=6.99;MQ=6.98;MQ0=101;OQ=80.12;QD=0.70;SB=-10.00 GT:AD:DP:GL:GQ 0/1:95,19:5:-12.80,-1.51,-7.39:58.87
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chr1 18357 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=8.76;MQ=5.01;MQ0=96;OQ=60.18;QD=0.60;SB=-6.99 GT:AD:DP:GL:GQ 0/1:80,21:4:-10.51,-1.20,-3.97:27.63
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chr1 18421 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=23.14;MQ=14.44;MQ0=48;OQ=339.38;QD=4.35;SB=-90.89 GT:AD:DP:GL:GQ 0/1:55,23:25:-44.76,-7.53,-46.87:99
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chr1 18426 rs4099234 A G 0.05 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=22.14;MQ=14.77;MQ0=46;OQ=857.23;QD=11.13;SB=-429.56 GT:AD:DP:GL:GQ 1/1:24,53:25:-89.32,-7.53,-0.01:75.22
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chr1 18451 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=15;HaplotypeScore=19.76;MQ=19.64;MQ0=16;OQ=152.23;QD=2.67;SB=-85.40 GT:AD:DP:GL:GQ 0/1:45,12:33:-28.45,-9.95,-82.12:99
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chr1 18454 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=47.13;MQ=19.20;MQ0=19;OQ=58.45;QD=0.99;SB=-20.71 GT:AD:DP:GL:GQ 0/1:53,6:35:-19.67,-10.55,-115.15:91.28
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chr1 18526 rs2418705 T A 37.69 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.43;MQ=4.16;MQ0=59;QD=0.62;SB=-10.00 GT:AD:DP:GL:GQ 1/1:52,9:2:-7.18,-0.60,-0.00:6.02
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chr1 18698 rs3871714 A G 0.86 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=9.06;MQ0=38;OQ=98.37;QD=2.19;SB=-10.00 GT:AD:DP:GL:GQ 1/1:27,18:4:-13.37,-1.21,-0.00:12.03
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chr1 18726 rs16924801 C A 45.81 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=3.57;MQ=10.40;MQ0=25;QD=1.27;SB=-10.00 GT:AD:DP:GL:GQ 1/1:31,5:2:-7.99,-0.60,-0.00:6.02
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chr1 20391 rs4248192 C T 0.40 PASS AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=17.17;MQ0=74;OQ=114.21;QD=1.08;SB=-10.00 GT:AD:DP:GL:GQ 0/1:95,11:32:-24.34,-9.64,-88.28:99
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chr1 20411 rs62028215 T G 8.08 PASS AC=1;AF=0.50;AN=2;DB;DP=109;Dels=0.00;HRun=0;HaplotypeScore=3.84;MQ=18.51;MQ0=71;OQ=573.84;QD=5.26;SB=-10.00 GT:AD:DP:GL:GQ 0/1:56,53:38:-72.12,-11.45,-46.57:99
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chr1 20723 rs28673882 G C 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=113;Dels=0.00;HRun=0;HaplotypeScore=9.28;MQ=29.99;MQ0=37;OQ=163.32;QD=1.45;SB=40.84 GT:AD:DP:GL:GQ 0/1:100,13:69:-40.42,-20.80,-251.48:99
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chr1 20786 rs806731 G T 139.58 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=34.31;MQ0=5;OQ=1407.60;QD=31.99;SB=-624.57 GT:AD:DP:GL:GQ 1/1:0,44:38:-144.35,-11.44,-0.01:99
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chr1 21158 rs806729 A C 233.61 PASS AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.41;MQ0=5;OQ=71.14;QD=7.90;SB=-10.00 GT:AD:DP:GL:GQ 1/1:6,3:3:-10.60,-0.90,-0.00:9.03
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chr1 30569 rs62101646 G A 24.23 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=13.59;MQ0=55;QD=0.37;SB=-0.99 GT:AD:DP:GL:GQ 0/1:53,12:8:-8.12,-2.41,-18.79:57.05
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chr1 30757 rs56954914 G A 38.24 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=7.79;MQ0=81;QD=0.44;SB=-10.00 GT:AD:DP:GL:GQ 0/1:56,30:4:-8.31,-1.20,-6.94:57.33
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chr1 30916 . C T 44.25 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=6.25;MQ0=41;QD=1.03;SB=-10.00 GT:AD:DP:GL:GQ 1/1:40,3:2:-7.83,-0.60,-0.00:6.02
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chr1 41536 rs2531251 T C 28.51 LowQual AC=1;AF=0.50;AN=2;DB;DP=6;Dels=0.00;HRun=2;HaplotypeScore=0.95;MQ=19.20;MQ0=3;QD=4.75;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,2:3:-7.04,-0.90,-3.46:25.52
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chr1 41761 . C A 0.43 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=4.86;MQ=27.62;MQ0=8;OQ=172.06;QD=5.55;SB=14.07 GT:AD:DP:GL:GQ 0/1:17,14:19:-26.21,-5.72,-39.58:99
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chr1 41791 . G A 3.24 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.83;MQ=30.13;MQ0=12;OQ=368.88;QD=8.20;SB=14.07 GT:AD:DP:GL:GQ 0/1:28,17:31:-49.51,-9.34,-69.71:99
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chr1 42101 rs2691277 T G 379.72 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=32.14;MQ0=8;OQ=1117.45;QD=27.25;SB=-498.06 GT:AD:DP:GL:GQ 1/1:0,41:32:-115.34,-9.64,-0.01:96.29
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chr1 44243 rs2691279 T C 13.38 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=44.42;MQ0=2;QD=0.32;SB=29.13 GT:AD:DP:GL:GQ 0/1:35,7:40:-16.65,-12.05,-143.10:46.01
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chr1 44449 . T C 10.02 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=30.96;MQ0=0;QD=0.25;SB=38.15 GT:AD:DP:GL:GQ 0/1:31,9:34:-14.48,-10.24,-121.45:42.40
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chr1 44539 rs2462492 C T 2.85 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=48.14;MQ0=0;OQ=219.90;QD=4.40;SB=-111.03 GT:AD:DP:GL:GQ 0/1:40,10:50:-40.33,-15.06,-146.68:99
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chr1 44571 . G C 349.91 SnpCluster AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=22.88;MQ=46.02;MQ0=0;QD=5.74;SB=-120.67 GT:AD:DP:GL:GQ 0/1:43,18:49:-53.04,-14.77,-155.67:99
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chr1 44573 . A T 77.97 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=5;HaplotypeScore=28.86;MQ=46.27;MQ0=0;QD=1.22;SB=18.79 GT:AD:DP:GL:GQ 0/1:55,9:53:-27.05,-15.97,-167.03:99
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chr1 44575 . T C 100.77 SnpCluster AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=36.58;MQ=45.60;MQ0=1;QD=1.53;SB=-17.16 GT:AD:DP:GL:GQ 0/1:57,9:54:-29.63,-16.27,-179.47:99
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chr1 44579 . C T 185.88 SnpCluster AC=1;AF=0.50;AN=2;DP=83;Dels=0.04;HRun=5;HaplotypeScore=85.91;MQ=43.82;MQ0=2;QD=2.24;SB=-100.05 GT:AD:DP:GL:GQ 0/1:66,14:58:-39.34,-17.47,-169.22:99
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chr1 44707 . G A 14.95 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=25.67;MQ0=14;OQ=285.82;QD=6.35;SB=-102.92 GT:AD:DP:GL:GQ 0/1:29,16:26:-39.70,-7.83,-56.06:99
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chr1 44948 . T A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=3.69;MQ=36.35;MQ0=4;OQ=152.52;QD=2.99;SB=0.17 GT:AD:DP:GL:GQ 0/1:39,12:36:-29.38,-10.84,-106.91:99
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chr1 45027 rs3091274 C A 22.40 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=21.32;MQ0=9;OQ=324.14;QD=13.51;SB=-88.90 GT:AD:DP:GL:GQ 1/1:0,24:10:-36.00,-3.01,-0.00:30.09
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chr1 45162 rs10399749 C T 268.24 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=27.59;MQ0=3;OQ=1749.04;QD=37.21;SB=-889.19 GT:AD:DP:GL:GQ 1/1:1,46:44:-178.50,-13.25,-0.01:99
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chr1 45189 rs3107975 T C 528.74 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.64;MQ0=0;OQ=1690.04;QD=36.74;SB=-682.96 GT:AD:DP:GL:GQ 1/1:0,46:46:-172.60,-13.85,-0.01:99
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chr1 45408 rs28396308 C T 25.10 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=23.65;MQ0=4;OQ=659.03;QD=19.97;SB=-174.67 GT:AD:DP:GL:GQ 1/1:0,33:17:-69.49,-5.12,-0.00:51.17
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chr1 46501 rs2691308 C T 1.65 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=36.83;MQ0=2;OQ=218.70;QD=3.22;SB=47.17 GT:AD:DP:GL:GQ 0/1:55,13:65:-44.73,-19.58,-190.42:99
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chr1 46662 rs2691309 T C 45.27 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=41.65;MQ0=3;QD=1.29;SB=26.11 GT:AD:DP:GL:GQ 0/1:27,8:32:-17.45,-9.64,-107.04:78.10
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chr1 46896 rs2691311 T C 94.73 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=47.00;MQ0=0;OQ=492.79;QD=6.48;SB=-211.35 GT:AD:DP:GL:GQ 0/1:55,21:75:-75.15,-22.59,-219.09:99
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chr1 46927 rs2548884 G A 0.20 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=44.33;MQ0=0;OQ=115.48;QD=1.89;SB=-71.32 GT:AD:DP:GL:GQ 0/1:53,8:60:-32.90,-18.07,-195.48:99
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chr1 47021 rs6658003 G C 0.57 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=8.74;MQ0=44;OQ=79.96;QD=1.45;SB=-46.90 GT:AD:DP:GL:GQ 0/1:36,19:6:-13.09,-1.81,-12.99:99
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chr1 47109 rs2691313 C G 35.94 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=36.99;MQ0=0;OQ=346.71;QD=6.80;SB=47.18 GT:AD:DP:GL:GQ 0/1:38,13:51:-53.32,-15.37,-164.95:99
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chr1 47155 . C T 135.45 PASS AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=34.92;MQ0=10;OQ=1281.86;QD=17.56;SB=-510.08 GT:AD:DP:GL:GQ 0/1:34,39:60:-149.57,-18.10,-69.03:99
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chr1 47239 rs2854673 C T 32.39 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=43.73;MQ0=3;OQ=244.39;QD=4.61;SB=47.16 GT:AD:DP:GL:GQ 0/1:39,14:49:-42.48,-14.76,-140.73:99
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chr1 47719 . T A 0.78 PASS AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=2;HaplotypeScore=3.14;MQ=19.08;MQ0=29;OQ=670.79;QD=8.49;SB=-194.63 GT:AD:DP:GL:GQ 0/1:47,32:46:-84.22,-13.86,-89.29:99
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chr1 48074 rs2691335 A G 2.10 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=24.51;MQ0=2;OQ=156.22;QD=22.32;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:5:-19.18,-1.51,-0.00:15.05
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chr1 48634 . T C 2.39 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=2;HaplotypeScore=1.66;MQ=33.49;MQ0=8;OQ=733.26;QD=12.22;SB=-133.25 GT:AD:DP:GL:GQ 0/1:32,28:50:-91.67,-15.06,-103.96:99
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chr1 50195 rs62637816 T C 137.58 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=17.45;MQ0=31;OQ=544.88;QD=7.46;SB=-273.42 GT:AD:DP:GL:GQ 0/1:46,26:42:-70.43,-12.65,-88.66:99
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chr1 50884 rs3844232 G A 43.24 PASS AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=19.69;MQ0=8;OQ=74.12;QD=4.12;SB=-10.00 GT:AD:DP:GL:GQ 0/1:11,7:6:-12.50,-1.81,-9.19:73.80
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chr1 51151 . T A 30.50 LowQual AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=24.43;MQ0=2;QD=5.08;SB=-37.96 GT:AD:DP:GL:GQ 0/1:4,2:4:-7.54,-1.20,-7.68:63.33
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chr1 51152 . A G 76.91 PASS AC=1;AF=0.50;AN=2;DP=7;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=26.59;MQ0=2;OQ=62.44;QD=8.92;SB=-39.93 GT:AD:DP:GL:GQ 0/1:4,3:5:-11.03,-1.51,-8.33:68.29
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chr1 51305 rs2531261 A G 318.95 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.94;MQ0=3;OQ=1035.37;QD=25.88;SB=-471.86 GT:AD:DP:GL:GQ 1/1:0,40:29:-107.13,-8.73,-0.01:87.27
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chr1 51850 . A G 82.68 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=39.81;MQ0=7;OQ=720.99;QD=12.22;SB=-171.50 GT:AD:DP:GL:GQ 0/1:32,27:50:-90.45,-15.06,-94.52:99
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chr1 51852 . G C 25.49 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=40.15;MQ0=6;OQ=1021.36;QD=17.61;SB=-245.09 GT:AD:DP:GL:GQ 0/1:31,27:50:-120.48,-15.06,-101.09:99
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chr1 52066 rs28402963 T C 139.56 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.83;MQ=39.80;MQ0=3;OQ=684.28;QD=9.50;SB=-320.22 GT:AD:DP:GL:GQ 0/1:42,30:68:-92.19,-20.48,-169.52:99
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chr1 52134 rs28599927 A G 180.85 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.03;MQ=31.13;MQ0=5;OQ=314.17;QD=8.73;SB=-124.71 GT:AD:DP:GL:GQ 0/1:23,13:30:-43.74,-9.04,-73.62:99
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chr1 52441 rs2531315 G A 15.83 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=19.89;MQ0=7;OQ=286.62;QD=17.91;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:8:-32.24,-2.41,-0.00:24.08
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chr1 52640 rs3844233 A T 1.57 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=20.92;MQ0=32;OQ=114.33;QD=2.04;SB=-23.31 GT:AD:DP:GL:GQ 0/1:45,11:17:-19.84,-5.12,-46.79:99
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chr1 53560 . T C 39.15 PASS AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=3.43;MQ=25.49;MQ0=11;OQ=919.76;QD=11.22;SB=-454.58 GT:AD:DP:GL:GQ 0/1:47,35:69:-116.05,-20.79,-145.77:99
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chr1 54476 rs1627939 T A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=2;HaplotypeScore=1.16;MQ=27.48;MQ0=38;OQ=233.94;QD=2.36;SB=-139.05 GT:AD:DP:GL:GQ 0/1:84,15:50:-41.74,-15.06,-148.46:99
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chr1 54790 rs996010 G T 31.78 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=23.12;MQ0=20;QD=0.47;SB=29.08 GT:AD:DP:GL:GQ 0/1:55,13:40:-18.51,-12.05,-121.17:64.61
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chr1 54839 rs2854687 C T 10.60 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=27.08;MQ0=0;OQ=1633.87;QD=34.04;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,48:40:-166.98,-12.05,-0.01:99
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chr1 55660 . T C 47.12 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=8.71;MQ0=70;QD=0.52;SB=-10.00 GT:AD:DP:GL:GQ 0/1:73,17:9:-10.71,-2.71,-24.43:79.96
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chr1 55735 . T G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=7.24;MQ0=61;OQ=58.14;QD=0.81;SB=-10.00 GT:AD:DP:GL:GQ 0/1:55,17:5:-10.60,-1.51,-6.69:51.83
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chr1 56025 rs62639105 A T 0.18 PASS AC=1;AF=0.50;AN=2;DB;DP=12;Dels=0.00;HRun=3;HaplotypeScore=1.00;MQ=23.00;MQ0=0;OQ=377.29;QD=31.44;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,11:12:-44.38,-3.61,-3.44:2.23
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chr1 60591 . C T 1.69 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=14.15;MQ0=46;OQ=324.67;QD=4.39;SB=-159.64 GT:AD:DP:GL:GQ 0/1:50,24:28:-44.18,-8.43,-61.59:99
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chr1 60624 . T C 29.51 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=5.38;MQ0=69;QD=0.40;SB=-6.99 GT:AD:DP:GL:GQ 0/1:53,20:3:-7.14,-0.90,-3.77:28.64
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chr1 63704 rs3020697 C T 122.92 PASS AC=2;AF=1.00;AN=2;DB;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.04;MQ=34.36;MQ0=1;OQ=168.10;QD=12.93;SB=-51.56 GT:AD:DP:GL:GQ 1/1:0,13:6:-20.39,-1.81,-0.01:18.05
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chr1 64418 . A G 43.84 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=98;Dels=0.00;HRun=1;HaplotypeScore=8.82;MQ=6.47;MQ0=82;QD=0.45;SB=-10.00 GT:AD:DP:GL:GQ 1/1:82,16:2:-7.79,-0.60,-0.00:6.02
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chr1 64433 . T A 31.10 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=2.89;MQ=7.92;MQ0=71;QD=0.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:82,12:3:-7.30,-0.90,-3.84:29.36
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chr1 64544 rs13328683 G T 4.16 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=1.57;MQ=18.78;MQ0=9;OQ=435.52;QD=13.61;SB=-10.00 GT:AD:DP:GL:GQ 1/1:10,22:12:-47.14,-3.61,-0.00:36.12
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chr1 67325 rs2462497 G A 48.02 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.51;MQ0=2;QD=12.01;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,4:2:-8.21,-0.60,-0.00:6.02
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chr1 72009 . A G 32.65 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=5.60;MQ=18.28;MQ0=7;QD=1.72;SB=-38.67 GT:AD:DP:GL:GQ 0/1:14,5:11:-9.86,-3.31,-31.53:65.48
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chr1 72112 rs1851945 A G 1.46 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=25.77;MQ0=4;OQ=504.38;QD=26.55;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,15:15:-54.03,-4.52,-0.00:45.14
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chr1 72166 rs2907073 T C 81.98 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=27.95;MQ0=1;OQ=468.64;QD=33.47;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,14:13:-50.45,-3.91,-0.00:39.13
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chr1 72179 rs2260604 A C 22.50 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=24.51;MQ0=4;OQ=244.12;QD=17.44;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,10:10:-28.01,-3.01,-0.01:30.03
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chr1 72195 . T C 61.39 PASS AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=19.33;MQ0=10;OQ=206.79;QD=10.34;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,7:10:-26.97,-3.01,-11.90:88.90
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chr1 73690 . A G 59.97 Indel AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=8.93;MQ=23.64;MQ0=3;QD=4.28;SB=-6.99 GT:AD:DP:GL:GQ 0/1:7,7:8:-11.69,-2.41,-21.22:92.80
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chr1 73692 . G A 71.09 Indel AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=3;HaplotypeScore=9.93;MQ=23.64;MQ0=3;QD=5.08;SB=-6.99 GT:AD:DP:GL:GQ 0/1:7,7:8:-12.80,-2.41,-18.45:99
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chr1 73996 . A T 22.55 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=27.59;MQ0=22;OQ=466.23;QD=7.40;SB=-57.87 GT:AD:DP:GL:GQ 0/1:36,27:38:-61.35,-11.44,-82.94:99
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chr1 74170 rs4118012 C A 85.72 PASS AC=2;AF=1.00;AN=2;DB;DP=6;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=197.97;QD=32.99;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:6:-23.37,-1.81,-0.00:18.06
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chr1 74355 rs3871778 C G 11.43 PASS AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.46;MQ0=2;OQ=92.52;QD=18.50;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:3:-12.74,-0.90,-0.00:9.03
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chr1 74885 . G A 80.42 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=18.46;MQ0=14;OQ=538.01;QD=13.12;SB=-187.68 GT:AD:DP:GL:GQ 0/1:20,21:26:-64.92,-7.83,-36.63:99
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chr1 80719 . G A 41.54 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=8.20;MQ0=31;QD=1.19;SB=-10.00 GT:AD:DP:GL:GQ 0/1:32,2:3:-8.34,-0.91,-2.50:15.90
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chr1 81004 rs4245761 G T 39.81 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=13.75;MQ0=7;QD=3.32;SB=-10.00 GT:AD:DP:GL:GQ 1/1:7,5:2:-7.39,-0.60,-0.00:6.02
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chr1 81077 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=13;HaplotypeScore=2.26;MQ=18.21;MQ0=7;OQ=85.86;QD=5.05;SB=-62.92 GT:AD:DP:GL:GQ 0/1:11,6:5:-13.38,-1.51,-3.74:22.35
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chr1 81199 rs4245763 A T 30.68 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=13.70;MQ0=7;QD=3.07;SB=-10.00 GT:AD:DP:GL:GQ 1/1:6,4:2:-6.48,-0.60,-0.00:6.01
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chr1 81378 . A C 3.99 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=33.30;MQ0=0;OQ=188.72;QD=4.72;SB=-114.61 GT:AD:DP:GL:GQ 0/1:31,9:34:-32.39,-10.24,-89.64:99
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chr1 81399 rs6702460 G T 307.92 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=32.81;MQ0=0;OQ=1379.58;QD=33.65;SB=-370.87 GT:AD:DP:GL:GQ 1/1:0,41:37:-141.55,-11.14,-0.01:99
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chr1 81444 rs1524604 G A 325.75 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.68;MQ0=1;OQ=1101.93;QD=36.73;SB=-340.44 GT:AD:DP:GL:GQ 1/1:0,30:28:-113.78,-8.43,-0.01:84.28
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chr1 81611 rs4256762 C T 100.30 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=17.29;MQ0=34;OQ=684.35;QD=12.01;SB=-10.00 GT:AD:DP:GL:GQ 1/1:14,43:19:-75.91,-5.72,-3.90:18.23
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chr1 82517 . T C 0.75 PASS AC=2;AF=1.00;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=13.00;MQ0=6;OQ=70.17;QD=3.19;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,22:3:-10.51,-0.90,-0.00:9.03
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chr1 86134 . C G 0.28 PASS AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=17.64;MQ0=31;OQ=214.58;QD=2.38;SB=-33.05 GT:AD:DP:GL:GQ 0/1:81,9:51:-40.11,-15.36,-187.83:99
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chr1 88546 . G A 0.08 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=24.25;MQ0=8;OQ=736.28;QD=19.90;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,24:26:-84.74,-7.83,-23.08:99
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chr1 88616 rs4504463 T C 1.95 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=19.27;MQ0=29;OQ=80.37;QD=1.55;SB=-10.00 GT:AD:DP:GL:GQ 0/1:43,9:21:-17.65,-6.33,-64.09:99
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chr1 88704 . G A 26.43 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=13.14;MQ0=25;QD=0.76;SB=-10.00 GT:AD:DP:GL:GQ 0/1:33,2:8:-8.34,-2.41,-22.88:59.26
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chr1 88715 . A G 0.29 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=13.96;MQ0=21;OQ=53.96;QD=1.74;SB=-10.00 GT:AD:DP:GL:GQ 0/1:28,3:8:-11.09,-2.41,-20.54:86.80
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chr1 88808 . C T 3.03 PASS AC=2;AF=1.00;AN=2;DP=25;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=19.56;MQ0=9;OQ=459.05;QD=18.36;SB=-49.56 GT:AD:DP:GL:GQ 1/1:1,24:12:-49.49,-3.61,-0.00:36.12
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chr1 88856 rs1851939 G A 178.37 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=30.10;MQ0=10;QD=3.64;SB=-37.62 GT:AD:DP:GL:GQ 0/1:36,12:37:-32.26,-11.14,-102.50:99
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chr1 88918 . C A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=6.89;MQ=32.20;MQ0=8;OQ=309.74;QD=3.64;SB=-68.70 GT:AD:DP:GL:GQ 0/1:64,21:74:-56.55,-22.29,-199.33:99
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chr1 88963 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=30.09;MQ=26.41;MQ0=31;OQ=291.13;QD=2.62;SB=-116.74 GT:AD:DP:GL:GQ 0/1:88,23:71:-53.80,-21.40,-203.68:99
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chr1 88966 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=0;HaplotypeScore=24.42;MQ=26.07;MQ0=32;OQ=253.10;QD=2.32;SB=-149.24 GT:AD:DP:GL:GQ 0/1:88,21:67:-48.78,-20.19,-197.64:99
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chr1 89000 . A G 0.14 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=15.31;MQ0=39;OQ=157.34;QD=2.76;SB=-51.84 GT:AD:DP:GL:GQ 0/1:48,9:10:-22.04,-3.02,-12.09:90.71
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chr1 89029 . C T 23.46 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.84;MQ=12.16;MQ0=50;QD=0.36;SB=5.02 GT:AD:DP:GL:GQ 0/1:50,16:9:-8.34,-2.71,-21.03:56.28
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chr1 89043 . T C 25.04 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=9.57;MQ0=58;QD=0.36;SB=-0.97 GT:AD:DP:GL:GQ 0/1:54,16:6:-7.59,-1.81,-16.33:57.86
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chr1 89188 . C T 0.06 PASS AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=1;HaplotypeScore=2.43;MQ=17.90;MQ0=10;OQ=61.10;QD=3.39;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,3:7:-11.50,-2.11,-14.49:93.93
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chr1 89528 . C T 1.15 PASS AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=22.04;MQ0=0;OQ=168.19;QD=24.03;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,6:5:-20.38,-1.51,-0.00:15.05
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chr1 90974 rs62639107 G T 14.16 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=10.20;MQ0=34;QD=0.33;SB=-0.97 GT:AD:DP:GL:GQ 0/1:33,10:6:-6.49,-1.81,-14.67:46.83
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chr1 91131 . G A 0.50 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=10.39;MQ0=55;OQ=206.73;QD=2.79;SB=-10.00 GT:AD:DP:GL:GQ 0/1:41,33:9:-26.67,-2.71,-7.60:48.84
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chr1 91212 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=134;Dels=0.01;HRun=13;HaplotypeScore=35.68;MQ=19.40;MQ0=63;OQ=147.19;QD=1.10;SB=-6.99 GT:AD:DP:GL:GQ 0/1:107,25:41:-30.37,-12.37,-109.55:99
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chr1 91252 . A C 43.23 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=148;Dels=0.00;HRun=1;HaplotypeScore=36.75;MQ=16.93;MQ0=85;QD=0.29;SB=-10.00 GT:AD:DP:GL:GQ 0/1:138,10:43:-20.56,-12.95,-127.64:76.06
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chr1 91549 . A G 49.47 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=209;Dels=0.00;HRun=0;HaplotypeScore=15.98;MQ=27.81;MQ0=39;QD=0.24;SB=65.80 GT:AD:DP:GL:GQ 0/1:179,30:144:-51.61,-43.38,-519.29:82.31
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chr1 91758 . G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.60;MQ=22.49;MQ0=25;OQ=143.40;QD=2.17;SB=15.64 GT:AD:DP:GL:GQ 0/1:56,10:34:-27.86,-10.24,-97.22:99
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chr1 91835 . T C 60.94 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.01;MQ0=36;OQ=785.45;QD=10.47;SB=-10.00 GT:AD:DP:GL:GQ 0/1:43,32:33:-91.79,-9.96,-12.24:22.78
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chr1 91851 rs4109800 G C 35.73 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=19.96;MQ0=33;OQ=1198.57;QD=15.98;SB=-10.00 GT:AD:DP:GL:GQ 0/1:41,34:33:-133.08,-9.94,-16.89:69.53
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chr1 91938 . G A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=1;HaplotypeScore=2.53;MQ=14.92;MQ0=47;OQ=298.50;QD=3.21;SB=-10.00 GT:AD:DP:GL:GQ 0/1:77,15:21:-39.46,-6.32,-39.15:99
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chr1 92459 rs3912701 G A 1.57 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=1.98;MQ=17.65;MQ0=34;OQ=809.52;QD=14.99;SB=-10.00 GT:AD:DP:GL:GQ 1/1:30,24:20:-84.54,-6.02,-0.00:60.20
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chr1 92527 rs4618909 A G 1.05 PASS AC=1;AF=0.50;AN=2;DB;DP=102;Dels=0.00;HRun=1;HaplotypeScore=7.26;MQ=22.11;MQ0=40;OQ=1083.35;QD=10.62;SB=-10.00 GT:AD:DP:GL:GQ 0/1:55,47:51:-126.98,-15.36,-75.91:99
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chr1 92632 rs3872168 C A 251.56 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=17.40;MQ0=16;OQ=274.62;QD=10.98;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,25:9:-31.05,-2.71,-0.00:27.07
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chr1 92814 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=170;Dels=0.00;HRun=1;HaplotypeScore=9.83;MQ=30.05;MQ0=21;OQ=659.75;QD=3.88;SB=-292.33 GT:AD:DP:GL:GQ 0/1:135,35:144:-112.64,-43.38,-415.54:99
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chr1 93070 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=1;HaplotypeScore=8.90;MQ=17.00;MQ0=65;OQ=190.64;QD=1.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:83,17:34:-32.59,-10.25,-92.04:99
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chr1 93104 rs62642109 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=120;Dels=0.00;HRun=0;HaplotypeScore=24.91;MQ=20.20;MQ0=60;OQ=819.40;QD=6.83;SB=-0.98 GT:AD:DP:GL:GQ 0/1:72,48:57:-102.42,-17.19,-99.00:99
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chr1 93113 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=0;HaplotypeScore=17.60;MQ=21.02;MQ0=51;OQ=474.12;QD=4.23;SB=5.03 GT:AD:DP:GL:GQ 0/1:79,33:56:-67.57,-16.87,-129.01:99
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chr1 93181 . T C 7.86 PASS AC=1;AF=0.50;AN=2;DP=106;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=15.97;MQ0=67;OQ=759.85;QD=7.17;SB=20.10 GT:AD:DP:GL:GQ 0/1:53,53:35:-89.81,-10.54,-44.53:99
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chr1 93248 rs62639110 G A 30.22 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=8.07;MQ0=76;QD=0.36;SB=-10.00 GT:AD:DP:GL:GQ 0/1:62,22:6:-8.11,-1.81,-14.17:63.05
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chr1 93307 . G A 47.02 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=5.80;MQ0=48;QD=0.94;SB=-10.00 GT:AD:DP:GL:GQ 1/1:44,6:2:-8.11,-0.60,-0.00:6.02
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chr1 93757 . T C 30.28 LowQual AC=2;AF=1.00;AN=2;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=23.68;MQ0=1;QD=10.09;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,2:2:-6.44,-0.60,-0.00:6.01
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chr1 93896 rs4287120 T C 0.17 PASS AC=2;AF=1.00;AN=2;DB;DP=174;Dels=0.00;HRun=0;HaplotypeScore=2.70;MQ=4.84;MQ0=151;OQ=128.63;QD=0.74;SB=-81.37 GT:AD:DP:GL:GQ 1/1:41,133:5:-16.43,-1.51,-0.00:15.04
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chr1 93971 rs4492556 A G 12.01 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=2.58;MQ=7.18;MQ0=71;QD=0.15;SB=-31.93 GT:AD:DP:GL:GQ 0/1:47,34:7:-6.57,-2.11,-19.60:44.57
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chr1 94001 . G T 0.94 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=16.11;MQ0=45;OQ=194.11;QD=3.35;SB=-41.38 GT:AD:DP:GL:GQ 0/1:51,7:13:-26.61,-3.91,-21.51:99
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chr1 94049 rs4288537 T C 0.39 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=10.96;MQ=20.93;MQ0=24;OQ=438.79;QD=10.45;SB=-71.88 GT:AD:DP:GL:GQ 0/1:18,24:17:-52.28,-5.12,-8.24:31.18
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chr1 94088 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=1;HaplotypeScore=3.06;MQ=13.40;MQ0=57;OQ=79.42;QD=1.15;SB=-38.36 GT:AD:DP:GL:GQ 0/1:64,5:10:-14.24,-3.02,-19.96:99
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chr1 94312 . C A 18.04 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.87;MQ=10.70;MQ0=65;QD=0.24;SB=-10.00 GT:AD:DP:GL:GQ 0/1:72,2:9:-7.79,-2.71,-24.60:50.81
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chr1 98160 rs4109806 A C 199.96 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=17.46;MQ0=21;OQ=505.68;QD=12.97;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,39:15:-54.16,-4.52,-0.00:45.14
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chr1 98173 . T C 2.30 PASS AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=16.05;MQ0=20;OQ=109.74;QD=3.05;SB=-45.95 GT:AD:DP:GL:GQ 0/1:14,22:12:-17.87,-3.61,-27.89:99
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chr1 98191 rs4109805 A G 15.99 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=16.84;MQ0=14;QD=0.50;SB=5.05 GT:AD:DP:GL:GQ 0/1:28,4:15:-9.39,-4.52,-49.05:48.72
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chr1 98276 rs4457511 T G 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=105;Dels=0.00;HRun=0;HaplotypeScore=9.15;MQ=5.64;MQ0=97;OQ=125.84;QD=1.20;SB=-67.98 GT:AD:DP:GL:GQ 0/1:81,24:6:-17.67,-1.81,-3.90:20.89
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chr1 99188 . T C 0.10 PASS AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=8.00;MQ0=82;OQ=57.15;QD=0.64;SB=-10.00 GT:AD:DP:GL:GQ 0/1:85,4:6:-10.81,-1.81,-11.97:89.99
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chr1 99237 . G A 48.25 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=4.41;MQ0=117;QD=0.40;SB=-10.00 GT:AD:DP:GL:GQ 1/1:114,6:2:-8.23,-0.60,-0.00:6.02
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chr1 99503 rs4126043 T A 232.13 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=24.79;MQ0=3;OQ=79.29;QD=11.33;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:3:-11.42,-0.90,-0.00:9.03
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chr1 110568 rs4117992 T C 36.28 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=23.68;MQ0=1;QD=12.09;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-7.04,-0.60,-0.00:6.02
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chr1 110846 . C T 29.97 PASS AC=2;AF=1.00;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=21.24;MQ0=9;OQ=175.53;QD=12.54;SB=-93.11 GT:AD:DP:GL:GQ 1/1:6,8:5:-21.11,-1.51,-0.00:15.05
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chr1 110872 rs1851943 C T 61.13 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=26.59;MQ0=3;OQ=127.11;QD=18.16;SB=-91.11 GT:AD:DP:GL:GQ 1/1:0,7:4:-16.25,-1.20,-0.00:12.04
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chr1 117436 . G A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=9.09;MQ0=104;OQ=195.33;QD=1.58;SB=-97.57 GT:AD:DP:GL:GQ 0/1:100,24:19:-28.54,-5.73,-40.13:99
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chr1 119192 . C G 13.29 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=6.87;MQ0=19;QD=0.58;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,8:1:-4.59,-0.30,-0.00:1.76
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chr1 125911 rs11531330 C T 87.12 PASS AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=18.40;MQ0=3;OQ=89.79;QD=11.22;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,3:3:-12.47,-0.90,-0.00:9.03
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chr1 217782 . A T 46.88 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=14.40;MQ0=4;QD=5.86;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:2:-8.10,-0.60,-0.00:6.02
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chr1 219536 rs6678242 A C 214.27 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=14.88;MQ0=9;OQ=112.38;QD=6.61;SB=-45.01 GT:AD:DP:GL:GQ 1/1:0,17:4:-14.77,-1.20,-0.00:12.04
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chr1 219731 . C T 12.21 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.96;MQ0=44;QD=0.17;SB=38.14 GT:AD:DP:GL:GQ 0/1:62,9:27:-12.61,-8.14,-82.06:44.77
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chr1 219921 rs12239119 T G 63.08 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=23.26;MQ0=4;OQ=606.74;QD=25.28;SB=-312.56 GT:AD:DP:GL:GQ 1/1:0,24:18:-64.26,-5.42,-0.01:54.16
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chr1 221068 rs10047119 T A 39.88 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=254;Dels=0.00;HRun=1;HaplotypeScore=6.12;MQ=8.79;MQ0=135;QD=0.16;SB=-10.00 GT:AD:DP:GL:GQ 1/1:167,87:2:-7.40,-0.60,-0.00:6.02
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chr1 221077 rs10047174 C A 38.69 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=271;Dels=0.00;HRun=0;HaplotypeScore=6.64;MQ=8.55;MQ0=150;QD=0.14;SB=-10.00 GT:AD:DP:GL:GQ 1/1:181,90:2:-7.28,-0.60,-0.00:6.02
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chr1 221092 rs10047175 C A 39.69 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=283;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=7.57;MQ0=174;QD=0.14;SB=-10.00 GT:AD:DP:GL:GQ 1/1:201,82:2:-7.38,-0.60,-0.00:6.02
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chr1 221109 rs10047121 T C 34.28 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=275;Dels=0.00;HRun=0;HaplotypeScore=3.23;MQ=7.06;MQ0=184;QD=0.12;SB=-10.00 GT:AD:DP:GL:GQ 1/1:197,78:2:-6.84,-0.60,-0.00:6.02
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chr1 221318 . T A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=241;Dels=0.00;HRun=0;HaplotypeScore=2.80;MQ=19.94;MQ0=85;OQ=462.52;QD=1.92;SB=39.55 GT:AD:DP:GL:GQ 0/1:212,29:108:-82.07,-32.53,-323.83:99
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chr1 221343 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=261;Dels=0.00;HRun=0;HaplotypeScore=2.12;MQ=22.79;MQ0=47;OQ=408.64;QD=1.57;SB=-215.29 GT:AD:DP:GL:GQ 0/1:222,38:157:-91.46,-47.31,-595.18:99
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chr1 221367 rs10047230 G A 0.14 PASS AC=1;AF=0.50;AN=2;DB;DP=278;Dels=0.00;HRun=0;HaplotypeScore=11.19;MQ=25.20;MQ0=11;OQ=1571.46;QD=5.65;SB=-527.77 GT:AD:DP:GL:GQ 0/1:197,80:212:-224.34,-63.91,-509.11:99
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chr1 221389 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=260;Dels=0.00;HRun=1;HaplotypeScore=1.74;MQ=24.37;MQ0=22;OQ=840.34;QD=3.23;SB=-412.02 GT:AD:DP:GL:GQ 0/1:209,50:201:-147.86,-60.54,-597.88:99
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chr1 221420 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=210;Dels=0.00;HRun=1;HaplotypeScore=4.60;MQ=20.04;MQ0=77;OQ=83.18;QD=0.40;SB=26.98 GT:AD:DP:GL:GQ 0/1:192,14:117:-46.84,-35.24,-385.27:99
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chr1 222364 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=186;Dels=0.03;HRun=0;HaplotypeScore=32.96;MQ=22.76;MQ0=12;OQ=2072.95;QD=11.14;SB=59.21 GT:AD:DP:GL:GQ 0/1:70,111:137:-251.84,-41.26,-268.25:99
|
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chr1 222793 . C G 25.72 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=260;Dels=0.00;HRun=1;HaplotypeScore=1.63;MQ=16.62;MQ0=87;QD=0.10;SB=81.54 GT:AD:DP:GL:GQ 0/1:230,30:110:-38.99,-33.14,-447.79:58.55
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chr1 223336 . C G 28.20 PASS AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=35.25;MQ0=2;OQ=1925.92;QD=21.40;SB=-854.31 GT:AD:DP:GL:GQ 0/1:39,51:87:-222.09,-26.21,-160.96:99
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chr1 224095 rs8179512 G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=229;Dels=0.00;HRun=2;HaplotypeScore=0.48;MQ=15.51;MQ0=125;OQ=91.58;QD=0.40;SB=-45.96 GT:AD:DP:GL:GQ 0/1:203,26:89:-39.28,-26.84,-255.40:99
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chr1 224171 rs7195389 A G 40.71 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=269;Dels=0.00;HRun=0;HaplotypeScore=47.18;MQ=22.11;MQ0=18;QD=0.15;SB=122.50 GT:AD:DP:GL:GQ 0/1:232,36:234:-77.87,-70.51,-842.48:73.55
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|
chr1 224176 rs56055731 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=276;Dels=0.00;HRun=1;HaplotypeScore=39.67;MQ=21.41;MQ0=32;OQ=545.76;QD=1.98;SB=-248.71 GT:AD:DP:GL:GQ 0/1:242,34:226:-125.93,-68.07,-709.89:99
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chr1 224241 rs62053733 A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=216;Dels=0.00;HRun=0;HaplotypeScore=20.29;MQ=17.49;MQ0=74;OQ=1752.30;QD=8.11;SB=-714.08 GT:AD:DP:GL:GQ 0/1:103,113:104:-209.87,-31.36,-152.51:99
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chr1 224344 rs8179403 T A 166.23 PASS AC=1;AF=0.50;AN=2;DB;DP=163;Dels=0.00;HRun=0;HaplotypeScore=2.75;MQ=23.92;MQ0=45;OQ=2824.26;QD=17.33;SB=-725.16 GT:AD:DP:GL:GQ 0/1:38,125:108:-318.26,-32.55,-66.31:99
|
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chr1 224419 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=187;Dels=0.00;HRun=1;HaplotypeScore=18.87;MQ=14.35;MQ0=100;OQ=127.03;QD=0.68;SB=8.05 GT:AD:DP:GL:GQ 0/1:161,26:49:-30.75,-14.76,-153.48:99
|
|
chr1 224472 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=261;Dels=0.00;HRun=1;HaplotypeScore=6.53;MQ=15.44;MQ0=125;OQ=992.61;QD=3.80;SB=-39.67 GT:AD:DP:GL:GQ 0/1:177,84:84:-127.86,-25.32,-192.69:99
|
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chr1 224623 rs7548182 A T 1.19 PASS AC=1;AF=0.50;AN=2;DB;DP=107;Dels=0.00;HRun=3;HaplotypeScore=1.37;MQ=26.54;MQ0=23;OQ=863.08;QD=8.07;SB=50.19 GT:AD:DP:GL:GQ 0/1:39,68:64:-108.87,-19.28,-138.61:99
|
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chr1 225707 rs6603780 C G 0.19 PASS AC=1;AF=0.50;AN=2;DB;DP=278;Dels=0.00;HRun=0;HaplotypeScore=6.28;MQ=15.73;MQ0=150;OQ=1742.87;QD=6.27;SB=-566.38 GT:AD:DP:GL:GQ 0/1:147,131:57:-194.74,-17.17,-58.86:99
|
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chr1 225839 rs6422503 C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=215;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=34.58;MQ0=26;OQ=4599.62;QD=21.39;SB=-1688.57 GT:AD:DP:GL:GQ 0/1:70,145:162:-458.96,-48.79,-124.49:99
|
|
chr1 226216 . T C 24.03 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=0;HaplotypeScore=3.20;MQ=9.23;MQ0=93;QD=0.13;SB=-10.00 GT:AD:DP:GL:GQ 0/1:162,19:7:-7.79,-2.11,-21.54:56.85
|
|
chr1 227048 . C A 43.64 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=2.13;MQ=9.30;MQ0=121;QD=0.28;SB=-44.79 GT:AD:DP:GL:GQ 0/1:134,21:22:-14.27,-6.63,-62.25:76.48
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chr1 227333 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=0;HaplotypeScore=5.51;MQ=14.65;MQ0=59;OQ=58.63;QD=0.42;SB=-10.00 GT:AD:DP:GL:GQ 0/1:125,16:25:-16.68,-7.54,-70.62:91.47
|
|
chr1 227353 . C A 20.49 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=140;Dels=0.00;HRun=1;HaplotypeScore=4.94;MQ=14.92;MQ0=62;QD=0.15;SB=-10.00 GT:AD:DP:GL:GQ 0/1:122,18:29:-14.07,-8.74,-90.83:53.29
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chr1 227461 rs28618397 A G 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=144;Dels=0.00;HRun=0;HaplotypeScore=6.94;MQ=8.17;MQ0=115;OQ=63.90;QD=0.44;SB=-10.00 GT:AD:DP:GL:GQ 0/1:131,13:8:-12.09,-2.41,-14.97:96.73
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chr1 227626 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=182;Dels=0.00;HRun=0;HaplotypeScore=4.92;MQ=20.49;MQ0=18;OQ=315.55;QD=1.73;SB=-168.42 GT:AD:DP:GL:GQ 0/1:163,19:138:-76.40,-41.57,-437.40:99
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chr1 227735 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=14.30;MQ=17.08;MQ0=35;OQ=66.90;QD=0.75;SB=20.77 GT:AD:DP:GL:GQ 0/1:78,11:41:-22.33,-12.35,-159.24:99
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chr1 230298 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=1;HaplotypeScore=4.58;MQ=24.72;MQ0=17;OQ=319.24;QD=2.47;SB=-97.27 GT:AD:DP:GL:GQ 0/1:109,19:104:-66.59,-31.38,-356.71:99
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chr1 230890 . G A 0.28 PASS AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=4.05;MQ=28.42;MQ0=10;OQ=452.11;QD=3.77;SB=-186.08 GT:AD:DP:GL:GQ 0/1:99,21:95:-77.11,-28.62,-272.62:99
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chr1 231027 rs1917217 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=16;HaplotypeScore=20.40;MQ=32.62;MQ0=10;OQ=363.52;QD=5.05;SB=32.11 GT:AD:DP:GL:GQ 0/1:47,24:50:-54.70,-15.07,-118.26:99
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chr1 231044 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=16;HaplotypeScore=28.71;MQ=27.06;MQ0=9;OQ=128.09;QD=1.69;SB=39.29 GT:AD:DP:GL:GQ 0/1:63,12:57:-36.63,-20.54,-166.03:99
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chr1 231045 . A T 16.10 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=26.04;MQ=26.31;MQ0=9;QD=0.22;SB=44.16 GT:AD:DP:GL:GQ 0/1:63,8:54:-21.15,-16.27,-182.36:48.82
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chr1 231183 . A G 0.09 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=8.45;MQ=28.02;MQ0=10;OQ=325.16;QD=6.25;SB=-110.63 GT:AD:DP:GL:GQ 0/1:19,32:27:-43.95,-8.15,-48.50:99
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chr1 231232 rs11490246 C T 142.56 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=27.55;MQ0=9;OQ=1010.69;QD=16.84;SB=-258.84 GT:AD:DP:GL:GQ 1/1:0,59:26:-104.66,-7.83,-0.01:78.25
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chr1 234887 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=210;Dels=0.00;HRun=0;HaplotypeScore=14.30;MQ=23.11;MQ0=12;OQ=591.52;QD=2.82;SB=-248.32 GT:AD:DP:GL:GQ 0/1:173,36:184:-117.86,-55.42,-542.00:99
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chr1 235002 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=3;HaplotypeScore=1.45;MQ=7.75;MQ0=92;OQ=65.10;QD=0.63;SB=-6.99 GT:AD:DP:GL:GQ 0/1:88,15:7:-11.90,-2.11,-15.26:97.93
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chr1 235268 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=1;HaplotypeScore=31.21;MQ=26.04;MQ0=17;OQ=96.26;QD=2.53;SB=-57.31 GT:AD:DP:GL:GQ 0/1:24,12:15:-17.43,-4.52,-39.23:99
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chr1 235318 . C G 0.88 PASS AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=31.66;MQ0=1;OQ=172.25;QD=9.57;SB=-27.84 GT:AD:DP:GL:GQ 0/1:12,6:17:-25.63,-5.12,-44.90:99
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chr1 237291 rs62639107 G T 22.08 PASS AC=1;AF=0.50;AN=2;DB;DP=126;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=12.32;MQ0=83;OQ=830.85;QD=6.59;SB=-342.75 GT:AD:DP:GL:GQ 0/1:51,75:34:-96.61,-10.24,-28.48:99
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chr1 237573 . T C 21.25 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=174;Dels=0.00;HRun=0;HaplotypeScore=8.41;MQ=14.44;MQ0=98;QD=0.12;SB=17.09 GT:AD:DP:GL:GQ 0/1:155,19:37:-16.55,-11.15,-125.38:54.05
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chr1 238151 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=9.86;MQ0=83;OQ=59.88;QD=0.63;SB=-10.00 GT:AD:DP:GL:GQ 0/1:91,4:10:-12.29,-3.01,-24.61:92.72
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chr1 238167 rs4109800 G C 1.40 PASS AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=9.69;MQ0=81;OQ=122.76;QD=1.31;SB=-10.00 GT:AD:DP:GL:GQ 0/1:83,11:9:-18.27,-2.71,-21.24:99
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chr1 238254 . G A 14.34 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=1;HaplotypeScore=1.20;MQ=10.94;MQ0=73;QD=0.13;SB=-10.00 GT:AD:DP:GL:GQ 0/1:101,9:10:-7.71,-3.01,-28.55:47.01
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chr1 242992 rs4109808 G C 0.33 PASS AC=1;AF=0.50;AN=2;DB;DP=205;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=17.96;MQ0=77;OQ=316.33;QD=1.54;SB=11.07 GT:AD:DP:GL:GQ 0/1:143,62:81:-59.32,-24.40,-284.11:99
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chr1 244543 rs62639119 A G 39.09 PASS AC=1;AF=0.50;AN=2;DB;DP=108;Dels=0.00;HRun=0;HaplotypeScore=1.69;MQ=13.13;MQ0=71;OQ=645.60;QD=5.98;SB=-100.72 GT:AD:DP:GL:GQ 0/1:56,52:34:-78.09,-10.25,-42.39:99
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chr1 244959 rs4096710 C T 45.82 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=3.93;MQ=13.07;MQ0=59;QD=0.54;SB=-26.62 GT:AD:DP:GL:GQ 0/1:74,11:15:-12.39,-4.52,-39.32:78.66
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chr1 245030 rs4247528 T G 34.76 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=14.80;MQ0=42;QD=0.49;SB=8.04 GT:AD:DP:GL:GQ 0/1:62,9:14:-10.98,-4.22,-38.66:67.59
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chr1 245496 . A G 44.84 LowQual AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.49;MQ0=2;QD=7.47;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:2:-7.89,-0.60,-0.00:6.02
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chr1 314685 . A T 13.26 PASS AC=2;AF=1.00;AN=2;DP=27;Dels=0.00;HRun=1;HaplotypeScore=1.75;MQ=14.76;MQ0=13;OQ=314.43;QD=11.65;SB=-42.39 GT:AD:DP:GL:GQ 1/1:12,15:9:-35.03,-2.71,-0.00:27.09
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chr1 314938 . G C 1.97 PASS AC=2;AF=1.00;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=12.45;MQ0=16;OQ=80.86;QD=3.23;SB=-10.00 GT:AD:DP:GL:GQ 1/1:16,9:3:-11.58,-0.91,-0.00:9.03
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chr1 314990 . T C 42.83 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=12.15;MQ0=12;QD=2.14;SB=-10.00 GT:AD:DP:GL:GQ 1/1:10,10:2:-7.69,-0.60,-0.00:6.02
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chr1 354114 rs3905534 G T 4.20 PASS AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=2;HaplotypeScore=1.96;MQ=17.14;MQ0=8;OQ=149.39;QD=8.30;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,8:10:-21.23,-3.01,-14.53:99
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chr1 374336 rs4959767 C G 48.85 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=9.01;MQ=5.04;MQ0=75;QD=0.57;SB=-10.00 GT:AD:DP:GL:GQ 1/1:78,7:2:-8.29,-0.60,-0.00:6.02
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chr1 374388 rs4120938 C T 0.16 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=7.85;MQ=3.88;MQ0=74;OQ=50.25;QD=0.61;SB=-10.00 GT:AD:DP:GL:GQ 1/1:76,7:2:-8.43,-0.60,-0.00:6.02
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chr1 374916 . A C 6.13 PASS AC=2;AF=1.00;AN=2;DP=12;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=19.92;MQ0=3;OQ=209.71;QD=17.48;SB=-40.56 GT:AD:DP:GL:GQ 1/1:2,10:8:-24.56,-2.41,-0.01:24.03
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chr1 391491 . T G 33.28 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=1;HaplotypeScore=4.00;MQ=5.85;MQ0=67;QD=0.45;SB=-10.00 GT:AD:DP:GL:GQ 0/1:70,4:3:-7.51,-0.90,-3.44:25.36
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chr1 394166 . C T 0.46 PASS AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=7.89;MQ0=95;OQ=178.49;QD=1.75;SB=-10.00 GT:AD:DP:GL:GQ 0/1:96,6:7:-23.23,-2.11,-3.57:14.61
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chr1 394272 . T G 16.31 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=17.93;MQ0=35;OQ=484.03;QD=7.81;SB=-10.00 GT:AD:DP:GL:GQ 0/1:39,23:22:-58.31,-6.63,-19.38:99
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chr1 394291 rs12121306 C T 153.03 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=16.59;MQ0=30;OQ=364.11;QD=7.75;SB=-10.00 GT:AD:DP:GL:GQ 0/1:31,16:14:-43.91,-4.22,-11.01:67.92
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chr1 394310 . C T 0.18 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=12.47;MQ0=36;OQ=147.86;QD=3.21;SB=-10.00 GT:AD:DP:GL:GQ 0/1:41,5:8:-20.48,-2.41,-10.61:81.97
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chr1 394537 . G A 2.58 PASS AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=0;HaplotypeScore=6.78;MQ=23.70;MQ0=52;OQ=1238.38;QD=11.79;SB=-421.21 GT:AD:DP:GL:GQ 0/1:65,40:50:-142.19,-15.07,-44.99:99
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chr1 394765 . A G 0.18 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=7.43;MQ0=57;OQ=65.19;QD=1.07;SB=-10.00 GT:AD:DP:GL:GQ 0/1:58,3:4:-11.01,-1.20,-3.46:22.51
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chr1 394834 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=7.99;MQ=12.79;MQ0=47;OQ=202.79;QD=3.56;SB=-10.00 GT:AD:DP:GL:GQ 0/1:49,8:10:-26.57,-3.01,-12.50:94.91
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chr1 394837 . A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=7.99;MQ=12.80;MQ0=51;OQ=216.52;QD=3.49;SB=-10.00 GT:AD:DP:GL:GQ 0/1:48,14:11:-28.25,-3.31,-11.97:86.56
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chr1 404035 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=20.45;MQ=17.63;MQ0=51;OQ=155.60;QD=2.22;SB=-84.79 GT:AD:DP:GL:GQ 0/1:62,8:17:-23.97,-5.12,-38.73:99
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chr1 511466 rs3902909 G A 114.88 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=25.37;MQ0=1;OQ=299.83;QD=6.00;SB=-10.00 GT:AD:DP:GL:GQ 0/1:35,15:40:-45.34,-12.07,-85.80:99
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chr1 513688 rs61767343 C T 0.33 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=5.41;MQ=21.22;MQ0=15;OQ=264.79;QD=2.88;SB=32.01 GT:AD:DP:GL:GQ 0/1:78,14:66:-49.68,-19.91,-161.21:99
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chr1 522943 . G A 31.72 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=14;HaplotypeScore=31.16;MQ=21.11;MQ0=30;QD=0.33;SB=74.23 GT:AD:DP:GL:GQ 0/1:84,11:55:-23.03,-16.58,-166.54:64.56
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chr1 523155 . C T 20.46 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=7.86;MQ=11.23;MQ0=37;QD=0.34;SB=-10.00 GT:AD:DP:GL:GQ 0/1:56,5:10:-8.34,-3.02,-25.17:53.26
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chr1 523163 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=7.11;MQ=11.49;MQ0=30;OQ=99.30;QD=1.99;SB=-10.00 GT:AD:DP:GL:GQ 0/1:37,13:9:-15.92,-2.71,-17.34:99
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chr1 523812 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=9.50;MQ=11.52;MQ0=31;OQ=145.45;QD=2.05;SB=-10.00 GT:AD:DP:GL:GQ 0/1:61,10:10:-20.85,-3.02,-13.58:99
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chr1 523821 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=9.21;MQ=15.64;MQ0=25;OQ=121.38;QD=1.84;SB=-10.00 GT:AD:DP:GL:GQ 0/1:57,9:12:-19.04,-3.62,-21.78:99
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chr1 523868 . G A 13.34 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=24.79;MQ0=4;OQ=177.69;QD=5.08;SB=-10.00 GT:AD:DP:GL:GQ 0/1:21,14:15:-25.58,-4.53,-24.67:99
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chr1 524029 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=26.24;MQ0=29;OQ=72.18;QD=0.99;SB=-17.85 GT:AD:DP:GL:GQ 0/1:58,15:34:-20.75,-10.24,-100.17:99
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chr1 524055 rs6680723 C T 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=2;HaplotypeScore=11.94;MQ=30.97;MQ0=23;OQ=525.09;QD=5.30;SB=-269.67 GT:AD:DP:GL:GQ 0/1:68,31:65:-75.37,-19.58,-166.45:99
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chr1 524061 rs6680725 C T 44.53 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=105;Dels=0.00;HRun=0;HaplotypeScore=14.45;MQ=31.89;MQ0=22;QD=0.42;SB=98.20 GT:AD:DP:GL:GQ 0/1:92,13:70:-28.85,-21.11,-204.21:77.37
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chr1 524105 rs2792879 C T 49.58 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=124;Dels=0.00;HRun=0;HaplotypeScore=3.46;MQ=35.66;MQ0=5;QD=0.40;SB=82.58 GT:AD:DP:GL:GQ 0/1:106,18:95:-36.89,-28.65,-274.71:82.42
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chr1 524187 . G T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=48;Dels=0.02;HRun=0;HaplotypeScore=13.69;MQ=38.72;MQ0=2;OQ=392.49;QD=8.18;SB=-133.62 GT:AD:DP:GL:GQ 0/1:25,22:25:-49.77,-7.23,-31.06:99
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chr1 524410 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=0;HaplotypeScore=27.66;MQ=40.25;MQ0=9;OQ=582.52;QD=5.34;SB=-205.05 GT:AD:DP:GL:GQ 0/1:82,27:83:-86.53,-25.00,-225.34:99
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chr1 524592 rs61767348 C T 0.12 PASS AC=1;AF=0.50;AN=2;DB;DP=125;Dels=0.00;HRun=1;HaplotypeScore=1.73;MQ=35.17;MQ0=0;OQ=230.33;QD=1.84;SB=-71.36 GT:AD:DP:GL:GQ 0/1:109,16:125:-63.96,-37.65,-391.79:99
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chr1 524704 . C G 0.30 PASS AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=15.62;MQ0=42;OQ=247.71;QD=3.26;SB=-10.00 GT:AD:DP:GL:GQ 0/1:63,13:16:-32.88,-4.82,-37.64:99
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chr1 525671 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=125;Dels=0.00;HRun=0;HaplotypeScore=16.72;MQ=18.80;MQ0=44;OQ=189.70;QD=1.52;SB=-93.64 GT:AD:DP:GL:GQ 0/1:113,12:40:-34.30,-12.05,-118.97:99
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chr1 525779 . A G 0.63 PASS AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=22.14;MQ0=11;OQ=348.30;QD=4.15;SB=-47.83 GT:AD:DP:GL:GQ 0/1:66,18:49:-52.88,-14.76,-137.92:99
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chr1 525958 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=0;HaplotypeScore=25.63;MQ=21.45;MQ0=28;OQ=60.59;QD=0.61;SB=-44.97 GT:AD:DP:GL:GQ 0/1:86,13:50:-24.43,-15.08,-139.15:93.42
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chr1 526007 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=0;HaplotypeScore=23.90;MQ=27.74;MQ0=20;OQ=72.77;QD=0.52;SB=-61.14 GT:AD:DP:GL:GQ 0/1:119,22:81:-34.97,-24.41,-279.63:99
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chr1 526679 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=6.10;MQ=15.23;MQ0=50;OQ=159.06;QD=1.64;SB=-10.00 GT:AD:DP:GL:GQ 0/1:72,25:19:-24.93,-5.74,-37.85:99
|
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chr1 526910 . C T 33.12 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=107;Dels=0.00;HRun=0;HaplotypeScore=15.09;MQ=12.21;MQ0=78;QD=0.31;SB=8.05 GT:AD:DP:GL:GQ 0/1:95,11:28:-15.03,-8.43,-86.21:65.95
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chr1 527066 rs1109924 C T 18.08 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=3.21;MQ=24.80;MQ0=20;QD=0.22;SB=56.20 GT:AD:DP:GL:GQ 0/1:74,8:55:-21.66,-16.57,-168.07:50.84
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chr1 527350 rs1105044 C T 0.77 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=5.45;MQ=30.46;MQ0=9;OQ=109.38;QD=3.91;SB=5.03 GT:AD:DP:GL:GQ 0/1:19,9:14:-18.45,-4.22,-27.73:99
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chr1 527399 . C G 0.15 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=4.45;MQ=22.48;MQ0=26;OQ=195.21;QD=3.42;SB=2.03 GT:AD:DP:GL:GQ 0/1:49,8:23:-29.74,-6.93,-66.80:99
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chr1 527400 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=1;HaplotypeScore=5.09;MQ=22.50;MQ0=26;OQ=149.94;QD=2.50;SB=3.82 GT:AD:DP:GL:GQ 0/1:51,8:23:-28.15,-9.87,-58.83:99
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chr1 527445 . C G 0.06 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=15.27;MQ0=33;OQ=120.74;QD=2.05;SB=-43.89 GT:AD:DP:GL:GQ 0/1:47,12:21:-21.68,-6.33,-71.74:99
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chr1 530476 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=150;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=20.30;MQ0=34;OQ=101.99;QD=0.68;SB=16.46 GT:AD:DP:GL:GQ 0/1:135,15:110:-46.63,-33.14,-338.24:99
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chr1 534258 rs61769278 G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=121;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=9.91;MQ0=64;OQ=75.11;QD=0.62;SB=-10.00 GT:AD:DP:GL:GQ 0/1:81,40:6:-12.60,-1.81,-10.89:90.82
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chr1 534650 rs61769279 G C 10.23 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=22.82;MQ0=11;OQ=171.47;QD=4.76;SB=-10.00 GT:AD:DP:GL:GQ 0/1:26,10:21:-26.76,-6.33,-62.71:99
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chr1 536560 rs12025928 A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=3;HaplotypeScore=20.90;MQ=24.04;MQ0=6;OQ=206.19;QD=3.49;SB=8.06 GT:AD:DP:GL:GQ 0/1:26,33:37:-35.06,-11.16,-99.03:99
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chr1 536665 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=0;HaplotypeScore=53.76;MQ=25.56;MQ0=32;OQ=200.39;QD=1.71;SB=-106.47 GT:AD:DP:GL:GQ 0/1:92,25:66:-43.22,-19.90,-241.56:99
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chr1 536668 rs61769283 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=116;Dels=0.00;HRun=0;HaplotypeScore=52.49;MQ=25.44;MQ0=31;OQ=176.14;QD=1.52;SB=-101.57 GT:AD:DP:GL:GQ 0/1:89,25:62:-39.59,-18.70,-187.95:99
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chr1 536745 rs9438485 T C 0.12 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=10.16;MQ=22.38;MQ0=21;OQ=208.92;QD=2.37;SB=-117.20 GT:AD:DP:GL:GQ 0/1:59,28:39:-35.93,-11.75,-108.78:99
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chr1 536815 rs9438487 T C 0.71 PASS AC=1;AF=0.50;AN=2;DB;DP=128;Dels=0.00;HRun=0;HaplotypeScore=5.65;MQ=26.07;MQ0=22;OQ=487.78;QD=3.81;SB=-195.14 GT:AD:DP:GL:GQ 0/1:76,52:82:-76.77,-24.71,-234.35:99
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chr1 536828 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=0;HaplotypeScore=2.07;MQ=25.55;MQ0=22;OQ=75.76;QD=0.57;SB=28.89 GT:AD:DP:GL:GQ 0/1:122,12:82:-35.59,-24.73,-235.80:99
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chr1 537100 . G A 12.85 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=13.16;MQ0=46;QD=0.12;SB=-7.00 GT:AD:DP:GL:GQ 0/1:81,22:25:-12.08,-7.53,-73.93:45.46
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chr1 537113 . C T 31 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=106;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=12.14;MQ0=51;QD=0.29;SB=-6.99 GT:AD:DP:GL:GQ 0/1:84,22:18:-11.81,-5.42,-56.12:63.83
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chr1 537596 . G A 46.75 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=170;Dels=0.00;HRun=0;HaplotypeScore=23.62;MQ=12.88;MQ0=95;QD=0.28;SB=83.26 GT:AD:DP:GL:GQ 0/1:155,15:50:-23.03,-15.07,-148.87:79.59
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chr1 537643 rs9438495 T C 0.24 PASS AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=12.92;MQ0=56;OQ=64.59;QD=0.65;SB=29.12 GT:AD:DP:GL:GQ 0/1:83,15:29:-18.49,-8.74,-88.70:97.43
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chr1 540378 . T C 1.66 PASS AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=10.44;MQ0=61;OQ=250.82;QD=2.82;SB=-10.00 GT:AD:DP:GL:GQ 0/1:69,20:17:-33.49,-5.12,-26.69:99
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chr1 543605 . G A 0.71 PASS AC=1;AF=0.50;AN=2;DP=122;Dels=0.00;HRun=0;HaplotypeScore=2.16;MQ=19.26;MQ0=44;OQ=534.14;QD=4.38;SB=-165.55 GT:AD:DP:GL:GQ 0/1:95,27:72:-78.41,-21.71,-168.45:99
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chr1 544671 rs4120954 G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=119;Dels=0.00;HRun=1;HaplotypeScore=17.61;MQ=20.21;MQ0=40;OQ=184.77;QD=1.55;SB=-112.49 GT:AD:DP:GL:GQ 0/1:103,16:61:-40.15,-18.39,-172.29:99
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chr1 549231 . A G 0.07 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=3.12;MQ=20.37;MQ0=37;OQ=179.14;QD=2.21;SB=30.55 GT:AD:DP:GL:GQ 0/1:67,14:40:-33.25,-12.05,-121.81:99
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chr1 549235 . C G 0.42 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=3.80;MQ=21.34;MQ0=35;OQ=329.96;QD=4.12;SB=-9.65 GT:AD:DP:GL:GQ 0/1:65,15:43:-49.24,-12.96,-142.49:99
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chr1 549756 . G A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=4.27;MQ=22.29;MQ0=22;OQ=255.07;QD=4.40;SB=-111.11 GT:AD:DP:GL:GQ 0/1:45,13:33:-38.73,-9.94,-83.62:99
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chr1 551019 . T G 0.10 PASS AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=0;HaplotypeScore=3.16;MQ=26.98;MQ0=20;OQ=197.80;QD=2.50;SB=4.26 GT:AD:DP:GL:GQ 0/1:67,12:53:-39.03,-15.96,-159.29:99
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chr1 551526 rs3908981 C A 0.27 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=9.51;MQ0=72;OQ=83.63;QD=0.93;SB=-10.00 GT:AD:DP:GL:GQ 0/1:72,18:8:-14.06,-2.41,-15.23:99
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chr1 552065 . T G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=3.65;MQ=19.90;MQ0=42;OQ=77.24;QD=1.04;SB=-15.93 GT:AD:DP:GL:GQ 0/1:68,6:22:-17.64,-6.63,-61.21:99
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chr1 553226 . C T 0.19 PASS AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=3;HaplotypeScore=1.62;MQ=24.97;MQ0=44;OQ=605.74;QD=6.51;SB=-203.18 GT:AD:DP:GL:GQ 0/1:67,26:42:-76.51,-12.65,-84.24:99
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chr1 553488 . T C 0.79 PASS AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=309.81;QD=34.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:9:-34.57,-2.71,-0.00:27.09
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chr1 555282 rs55668158 C G 1.90 PASS AC=1;AF=0.50;AN=2;DB;DP=111;Dels=0.00;HRun=0;HaplotypeScore=7.94;MQ=40.12;MQ0=17;OQ=1152.38;QD=10.38;SB=-595.15 GT:AD:DP:GL:GQ 0/1:77,33:92:-146.24,-27.72,-249.40:99
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chr1 555454 rs7416152 C T 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=134;Dels=0.00;HRun=0;HaplotypeScore=6.80;MQ=46.34;MQ0=10;OQ=133.21;QD=0.99;SB=31.52 GT:AD:DP:GL:GQ 0/1:100,33:107:-48.84,-32.23,-339.95:99
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chr1 555839 rs9283151 C T 3.01 PASS AC=1;AF=0.50;AN=2;DB;DP=135;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=45.60;MQ0=9;OQ=549.78;QD=4.07;SB=-291.62 GT:AD:DP:GL:GQ 0/1:100,35:123:-95.32,-37.06,-353.94:99
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chr1 555911 rs6421780 G A 0.18 PASS AC=1;AF=0.50;AN=2;DB;DP=128;Dels=0.00;HRun=0;HaplotypeScore=11.39;MQ=39.59;MQ0=14;OQ=584.19;QD=4.56;SB=-299.10 GT:AD:DP:GL:GQ 0/1:90,32:104:-93.03,-31.32,-293.74:99
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chr1 557751 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=2961;Dels=0.00;HRun=2;HaplotypeScore=55.38;MQ=12.90;MQ0=2051;OQ=15633.32;QD=5.28;SB=59.42 GT:AD:DP:GL:GQ 0/1:109,2851:490:-1562.33,-147.66,-305.00:99
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chr1 558077 . C T 9.05 PASS AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=0;HaplotypeScore=3.52;MQ=45.73;MQ0=8;OQ=1080.95;QD=8.72;SB=-436.58 GT:AD:DP:GL:GQ 0/1:87,37:109:-144.24,-32.87,-230.68:99
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chr1 559290 rs55665739 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=606;Dels=0.00;HRun=3;HaplotypeScore=17.31;MQ=15.96;MQ0=469;OQ=1033.33;QD=1.71;SB=-487.92 GT:AD:DP:GL:GQ 0/1:561,45:103:-137.67,-31.06,-222.34:99
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chr1 559575 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=286;Dels=0.00;HRun=0;HaplotypeScore=67.59;MQ=29.40;MQ0=143;OQ=1081.89;QD=3.78;SB=-504.88 GT:AD:DP:GL:GQ 0/1:248,38:131:-150.96,-39.49,-301.87:99
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chr1 560501 rs3912527 T C 0.59 PASS AC=1;AF=0.50;AN=2;DB;DP=105;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=42.53;MQ0=1;OQ=256.32;QD=2.44;SB=101.36 GT:AD:DP:GL:GQ 0/1:81,24:98:-58.45,-29.53,-320.39:99
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chr1 561486 rs4951848 T G 0.07 PASS AC=1;AF=0.50;AN=2;DB;DP=125;Dels=0.00;HRun=3;HaplotypeScore=1.10;MQ=14.41;MQ0=91;OQ=408.98;QD=3.27;SB=-10.00 GT:AD:DP:GL:GQ 0/1:75,49:28:-52.62,-8.43,-47.04:99
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chr1 561492 rs4951847 T C 0.48 PASS AC=1;AF=0.50;AN=2;DB;DP=117;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=12.50;MQ0=93;OQ=266.80;QD=2.28;SB=-10.00 GT:AD:DP:GL:GQ 0/1:73,44:19:-35.69,-5.72,-37.10:99
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chr1 561756 rs4092521 C A 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=234;Dels=0.00;HRun=0;HaplotypeScore=3.92;MQ=28.08;MQ0=93;OQ=133.54;QD=0.57;SB=-15.37 GT:AD:DP:GL:GQ 0/1:211,23:136:-57.61,-40.97,-421.13:99
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chr1 574427 rs4317776 G T 26.75 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=197;Dels=0.00;HRun=9;HaplotypeScore=3.53;MQ=6.95;MQ0=179;QD=0.14;SB=-30.89 GT:AD:DP:GL:GQ 0/1:180,17:17:-11.08,-5.12,-48.02:59.57
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chr1 575363 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=108;Dels=0.00;HRun=0;HaplotypeScore=13.77;MQ=11.89;MQ0=66;OQ=93.79;QD=0.87;SB=-10.00 GT:AD:DP:GL:GQ 0/1:97,11:18:-18.09,-5.43,-51.57:99
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chr1 575571 . A G 44.95 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=5.95;MQ=12.50;MQ0=35;QD=0.49;SB=-7.00 GT:AD:DP:GL:GQ 0/1:88,3:9:-10.49,-2.71,-23.69:77.78
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chr1 575656 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=119;Dels=0.00;HRun=0;HaplotypeScore=17.86;MQ=21.34;MQ0=33;OQ=102.29;QD=0.86;SB=-15.11 GT:AD:DP:GL:GQ 0/1:101,18:60:-31.59,-18.08,-183.63:99
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chr1 577203 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=2;HaplotypeScore=18.06;MQ=18.60;MQ0=50;OQ=68.56;QD=0.90;SB=-15.46 GT:AD:DP:GL:GQ 0/1:71,5:16:-14.96,-4.82,-42.28:99
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chr1 578945 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=108;Dels=0.01;HRun=3;HaplotypeScore=26.60;MQ=35.12;MQ0=11;OQ=422.46;QD=3.91;SB=-212.09 GT:AD:DP:GL:GQ 0/1:86,21:88:-72.04,-26.51,-252.61:99
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chr1 581862 rs428603 C T 12.84 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=117;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=16.17;MQ0=62;QD=0.11;SB=5.04 GT:AD:DP:GL:GQ 0/1:112,5:25:-12.07,-7.53,-76.64:45.44
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chr1 582131 rs2808300 G T 0.12 PASS AC=1;AF=0.50;AN=2;DB;DP=133;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=20.19;MQ0=60;OQ=103.03;QD=0.77;SB=74.25 GT:AD:DP:GL:GQ 0/1:113,20:71:-34.97,-21.38,-223.52:99
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chr1 590341 . G A 2.32 PASS AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=4.02;MQ=31.66;MQ0=1;OQ=697.92;QD=5.91;SB=-148.83 GT:AD:DP:GL:GQ 0/1:88,30:101:-103.52,-30.45,-248.69:99
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chr1 591004 . C T 96.57 PASS AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=34.15;MQ0=0;OQ=697.04;QD=7.58;SB=-276.23 GT:AD:DP:GL:GQ 0/1:66,26:89:-99.83,-26.84,-204.19:99
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chr1 591498 rs2531322 C A 0.53 PASS AC=1;AF=0.50;AN=2;DB;DP=129;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=32.80;MQ0=0;OQ=356.51;QD=2.76;SB=131.06 GT:AD:DP:GL:GQ 0/1:108,21:125:-76.61,-37.67,-331.80:99
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chr1 592316 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=5.89;MQ=8.09;MQ0=42;OQ=58.17;QD=0.88;SB=-10.00 GT:AD:DP:GL:GQ 0/1:52,12:5:-10.61,-1.51,-6.31:48.04
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chr1 592508 rs2686868 C T 15.96 PASS AC=1;AF=0.50;AN=2;DB;DP=119;Dels=0.00;HRun=1;HaplotypeScore=3.16;MQ=34.52;MQ0=0;OQ=1500.76;QD=12.61;SB=-645.23 GT:AD:DP:GL:GQ 0/1:71,48:113:-187.40,-34.04,-240.50:99
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chr1 616184 rs2808330 A G 13.87 PASS AC=1;AF=0.50;AN=2;DB;DP=103;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=40.61;MQ0=5;OQ=348.18;QD=3.38;SB=86.31 GT:AD:DP:GL:GQ 0/1:75,28:95:-66.73,-28.63,-299.16:99
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chr1 625884 rs3857304 G A 2.14 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=6.38;MQ0=48;OQ=115.97;QD=2.23;SB=-51.67 GT:AD:DP:GL:GQ 1/1:47,5:4:-15.13,-1.21,-0.00:12.03
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chr1 625907 rs4030160 G A 213.52 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=11.50;MQ0=27;OQ=320.38;QD=8.90;SB=-93.34 GT:AD:DP:GL:GQ 1/1:25,11:9:-35.62,-2.71,-0.00:27.09
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chr1 625979 rs3871845 G C 249.04 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=11.96;MQ0=27;OQ=358.10;QD=9.68;SB=-129.40 GT:AD:DP:GL:GQ 1/1:26,11:9:-39.40,-2.71,-0.00:27.09
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chr1 626181 rs3873089 G A 177.45 PASS AC=2;AF=1.00;AN=2;DB;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=25.43;MQ0=3;OQ=376.84;QD=28.99;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,13:10:-41.27,-3.01,-0.00:30.10
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chr1 638976 . C T 0.12 PASS AC=2;AF=1.00;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=4.06;MQ=23.85;MQ0=8;OQ=648.49;QD=24.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,27:17:-68.44,-5.12,-0.00:51.17
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chr1 640686 . A G 25.04 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=108;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=6.84;MQ0=102;QD=0.23;SB=-10.00 GT:AD:DP:GL:GQ 0/1:98,10:6:-7.60,-1.81,-15.47:57.87
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chr1 641012 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=157;Dels=0.00;HRun=1;HaplotypeScore=5.72;MQ=12.45;MQ0=138;OQ=282.66;QD=1.80;SB=-113.62 GT:AD:DP:GL:GQ 0/1:142,15:18:-36.97,-5.42,-32.71:99
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chr1 647651 . G C 91.46 PASS AC=2;AF=1.00;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.68;MQ=15.14;MQ0=31;OQ=441.56;QD=9.39;SB=-238.61 GT:AD:DP:GL:GQ 1/1:28,19:11:-47.74,-3.31,-0.00:33.11
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chr1 652720 rs62639125 G A 47.02 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=8.82;MQ0=19;QD=1.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:13,20:2:-8.11,-0.60,-0.00:6.02
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chr1 652960 rs61769340 G C 105.13 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=20.58;MQ0=11;OQ=1522.59;QD=27.68;SB=-684.47 GT:AD:DP:GL:GQ 1/1:10,45:39:-155.88,-11.77,-0.03:99
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chr1 656406 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=0;HaplotypeScore=2.49;MQ=11.93;MQ0=83;OQ=127.34;QD=1.14;SB=-0.98 GT:AD:DP:GL:GQ 0/1:95,17:17:-21.14,-5.12,-45.67:99
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chr1 662072 . G A 11.72 PASS AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=0;HaplotypeScore=4.71;MQ=27.50;MQ0=7;OQ=1481.48;QD=11.06;SB=-511.41 GT:AD:DP:GL:GQ 0/1:80,54:118:-187.00,-35.57,-233.79:99
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chr1 662535 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=1;HaplotypeScore=4.63;MQ=12.94;MQ0=86;OQ=221.86;QD=1.71;SB=-10.00 GT:AD:DP:GL:GQ 0/1:117,13:31:-34.81,-9.34,-77.61:99
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chr1 664297 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=194;Dels=0.00;HRun=1;HaplotypeScore=8.91;MQ=25.89;MQ0=44;OQ=139.99;QD=0.72;SB=29.32 GT:AD:DP:GL:GQ 0/1:135,59:118:-52.83,-35.54,-396.03:99
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chr1 664319 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=197;Dels=0.00;HRun=1;HaplotypeScore=4.98;MQ=25.84;MQ0=39;OQ=562.89;QD=2.86;SB=-70.36 GT:AD:DP:GL:GQ 0/1:152,44:131:-101.81,-42.24,-385.33:99
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chr1 665009 . G A 0.15 PASS AC=2;AF=1.00;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=7.66;MQ=13.29;MQ0=30;OQ=394.21;QD=6.36;SB=-10.00 GT:AD:DP:GL:GQ 1/1:20,42:11:-43.01,-3.32,-0.01:33.10
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chr1 665981 . C T 314.88 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=21.49;MQ0=9;OQ=1228.86;QD=15.36;SB=-521.03 GT:AD:DP:GL:GQ 0/1:42,38:68:-146.65,-20.48,-114.04:99
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chr1 678857 . T C 37.39 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=9.96;MQ0=52;QD=0.58;SB=-41.94 GT:AD:DP:GL:GQ 0/1:58,5:10:-10.04,-3.02,-24.70:70.23
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chr1 681407 . T A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=56;Dels=0.00;HRun=13;HaplotypeScore=8.39;MQ=28.14;MQ0=23;OQ=991.49;QD=17.71;SB=-487.41 GT:AD:DP:GL:GQ 1/1:17,39:33:-109.19,-9.95,-6.46:34.91
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chr1 681927 . C G 40.97 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=4.89;MQ=4.61;MQ0=72;QD=0.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:72,2:3:-8.29,-0.90,-4.05:31.44
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chr1 684740 rs1829739 A C 31.20 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=3;HaplotypeScore=24.15;MQ=12.41;MQ0=41;QD=0.60;SB=-34.97 GT:AD:DP:GL:GQ 0/1:47,5:9:-9.12,-2.71,-21.21:64.03
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chr1 684742 . C A 14.57 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=37.61;MQ=12.41;MQ0=41;QD=0.28;SB=-31.35 GT:AD:DP:GL:GQ 0/1:46,6:9:-7.44,-2.71,-24.53:47.25
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chr1 684781 . C T 48.14 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=48;Dels=0.00;HRun=2;HaplotypeScore=2.66;MQ=4.69;MQ0=46;QD=1.00;SB=-49.56 GT:AD:DP:GL:GQ 1/1:40,8:2:-8.22,-0.60,-0.00:6.02
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chr1 684978 . A T 38.37 PASS AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=21.29;MQ0=2;OQ=86.08;QD=14.35;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:3:-12.10,-0.90,-0.00:9.03
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chr1 690691 rs6685320 T A 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=41.41;MQ0=1;OQ=71.22;QD=0.76;SB=149.48 GT:AD:DP:GL:GQ 0/1:83,11:90:-37.51,-27.11,-298.94:99
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chr1 692785 . C T 0.89 PASS AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=27.63;MQ0=14;OQ=282.72;QD=2.30;SB=-80.41 GT:AD:DP:GL:GQ 0/1:107,16:98:-61.07,-29.52,-300.46:99
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chr1 692834 . C T 2.02 PASS AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=26.70;MQ0=10;OQ=722.71;QD=6.12;SB=-381.76 GT:AD:DP:GL:GQ 0/1:89,29:108:-108.08,-32.53,-294.03:99
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chr1 692878 rs12124557 G C 71.38 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.28;MQ0=34;OQ=350.61;QD=4.61;SB=-168.38 GT:AD:DP:GL:GQ 0/1:61,15:41:-50.70,-12.35,-126.27:99
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chr1 694230 rs9727436 T C 8.89 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=32.48;MQ0=2;OQ=333.56;QD=17.56;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,18:12:-36.95,-3.62,-0.01:36.08
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chr1 695745 . G A 102.02 PASS AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=41.82;MQ0=0;OQ=1169.68;QD=16.02;SB=-501.47 GT:AD:DP:GL:GQ 0/1:36,37:71:-141.66,-21.41,-112.07:99
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chr1 696231 rs12029736 A G 92.82 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=39.21;MQ0=1;OQ=1205.31;QD=20.78;SB=-587.73 GT:AD:DP:GL:GQ 0/1:5,53:49:-138.60,-14.79,-16.39:15.94
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chr1 696641 . G A 0.05 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DP=84;Dels=0.00;HRun=0;HaplotypeScore=11.92;MQ=21.76;MQ0=28;OQ=1527.01;QD=18.18;SB=-47.56 GT:AD:DP:GL:GQ 1/1:26,58:39:-156.30,-11.75,-0.02:99
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chr1 704290 rs12028261 G A 67.98 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.14;MQ=38.97;MQ0=0;OQ=1407.21;QD=35.18;SB=-656.37 GT:AD:DP:GL:GQ 1/1:0,40:36:-144.32,-10.85,-0.01:99
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chr1 705211 rs3131984 T G 181.58 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=48.59;MQ0=0;OQ=1797.71;QD=32.69;SB=-808.10 GT:AD:DP:GL:GQ 1/1:0,55:52:-183.37,-15.66,-0.02:99
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chr1 705859 rs4614203 A T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=9;HaplotypeScore=9.09;MQ=20.66;MQ0=19;OQ=690.18;QD=13.80;SB=-46.39 GT:AD:DP:GL:GQ 1/1:1,48:20:-72.61,-6.03,-0.01:60.18
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chr1 708249 rs10900602 A G 1.62 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.93;MQ=25.93;MQ0=21;OQ=1118.18;QD=17.47;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,63:38:-115.46,-11.48,-0.05:99
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chr1 708418 rs10751453 T C 415.24 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.69;MQ0=5;OQ=1667.51;QD=27.79;SB=-566.12 GT:AD:DP:GL:GQ 1/1:4,56:54:-174.43,-16.28,-4.09:99
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chr1 710103 rs3121393 T C 439.85 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=25.62;MQ0=19;OQ=1791.16;QD=20.59;SB=-717.22 GT:AD:DP:GL:GQ 1/1:0,87:51:-182.72,-15.36,-0.02:99
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chr1 710660 rs3115846 G A 23.98 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=3;HaplotypeScore=0.95;MQ=32.94;MQ0=7;OQ=1843.21;QD=32.91;SB=-738.02 GT:AD:DP:GL:GQ 1/1:0,56:47:-187.92,-14.16,-0.01:99
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chr1 713754 rs2977670 G C 680.35 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.16;MQ0=0;OQ=1954.35;QD=36.87;SB=-819.16 GT:AD:DP:GL:GQ 1/1:0,53:49:-199.05,-14.78,-0.03:99
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chr1 714052 . G A 38.81 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=1;HaplotypeScore=27.06;MQ=47.82;MQ0=13;QD=0.40;SB=-19.66 GT:AD:DP:GL:GQ 0/1:88,9:69:-27.95,-20.79,-220.66:71.64
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chr1 714724 rs12123401 G A 77.21 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=38.16;MQ=32.18;MQ0=19;QD=1.19;SB=53.18 GT:AD:DP:GL:GQ 0/1:50,14:32:-20.64,-9.64,-97.41:99
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chr1 714732 rs12735556 C A 597.50 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=35.96;MQ=32.37;MQ0=15;QD=9.34;SB=-186.20 GT:AD:DP:GL:GQ 0/1:31,30:31:-72.37,-9.34,-42.36:99
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chr1 714734 rs12735557 C G 606.51 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=32.96;MQ=32.01;MQ0=15;QD=9.48;SB=-232.37 GT:AD:DP:GL:GQ 0/1:31,33:32:-73.58,-9.64,-63.94:99
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chr1 714811 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=1;HaplotypeScore=105.18;MQ=32.80;MQ0=13;OQ=394.82;QD=4.11;SB=-25.79 GT:AD:DP:GL:GQ 0/1:48,48:42:-55.42,-12.65,-93.88:99
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chr1 714830 . G A 44.58 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=2;HaplotypeScore=123.02;MQ=32.55;MQ0=17;QD=0.46;SB=2.03 GT:AD:DP:GL:GQ 0/1:60,27:26:-15.57,-7.83,-82.81:77.42
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chr1 714865 . G A 118.87 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=2;HaplotypeScore=72.07;MQ=36.16;MQ0=17;QD=1.19;SB=45.52 GT:AD:DP:GL:GQ 0/1:83,11:39:-26.94,-11.77,-99.77:99
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chr1 714869 . G A 210.22 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=70.54;MQ=36.82;MQ0=18;QD=2.08;SB=89.30 GT:AD:DP:GL:GQ 0/1:78,22:52:-39.97,-15.66,-154.79:99
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chr1 714870 . G C 132.10 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=0;HaplotypeScore=64.77;MQ=36.96;MQ0=18;QD=1.33;SB=86.32 GT:AD:DP:GL:GQ 0/1:81,18:51:-31.86,-15.37,-195.72:99
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chr1 714885 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=1;HaplotypeScore=11.63;MQ=42.34;MQ0=19;OQ=59.67;QD=0.80;SB=57.28 GT:AD:DP:GL:GQ 0/1:59,16:42:-21.91,-12.66,-130.29:92.50
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chr1 714965 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.06;HRun=0;HaplotypeScore=109.90;MQ=37.50;MQ0=15;OQ=104.38;QD=1.12;SB=93.07 GT:AD:DP:GL:GQ 0/1:76,7:50:-34.61,-20.89,-189.48:99
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chr1 714987 . A T 75.82 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=80;Dels=0.03;HRun=1;HaplotypeScore=85.54;MQ=37.34;MQ0=12;QD=0.95;SB=77.28 GT:AD:DP:GL:GQ 0/1:70,6:44:-26.77,-15.90,-141.85:99
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chr1 714990 . A G 169.75 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=75;Dels=0.04;HRun=1;HaplotypeScore=76.84;MQ=38.08;MQ0=11;QD=2.26;SB=1.07 GT:AD:DP:GL:GQ 0/1:50,19:44:-36.22,-15.96,-136.58:99
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chr1 714991 . A G 49.83 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=75;Dels=0.01;HRun=0;HaplotypeScore=63.75;MQ=38.08;MQ0=11;QD=0.66;SB=86.30 GT:AD:DP:GL:GQ 0/1:68,6:44:-21.52,-13.26,-154.68:82.67
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chr1 714995 . C A 39.02 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=2;HaplotypeScore=68.11;MQ=38.07;MQ0=12;QD=0.54;SB=48.86 GT:AD:DP:GL:GQ 0/1:52,10:39:-31.66,-24.48,-125.33:71.86
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chr1 715012 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=28.31;MQ=43.81;MQ0=11;OQ=81.07;QD=1.33;SB=77.26 GT:AD:DP:GL:GQ 0/1:50,6:42:-27.43,-16.04,-129.03:99
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chr1 715014 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=1;HaplotypeScore=28.31;MQ=44.76;MQ0=10;OQ=135.00;QD=2.29;SB=80.30 GT:AD:DP:GL:GQ 0/1:48,10:43:-29.74,-12.96,-149.46:99
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chr1 715704 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=1;HaplotypeScore=25.25;MQ=54.80;MQ0=2;OQ=145.06;QD=1.23;SB=-43.38 GT:AD:DP:GL:GQ 0/1:97,21:107:-50.01,-32.22,-342.89:99
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chr1 716048 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=178;Dels=0.00;HRun=1;HaplotypeScore=18.47;MQ=39.54;MQ0=8;OQ=52.50;QD=0.29;SB=34.27 GT:AD:DP:GL:GQ 0/1:78,99:81:-32.94,-24.40,-274.16:85.34
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chr1 716061 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=185;Dels=0.00;HRun=0;HaplotypeScore=21.67;MQ=39.51;MQ0=6;OQ=115.15;QD=0.62;SB=43.85 GT:AD:DP:GL:GQ 0/1:135,49:85:-40.41,-25.61,-331.38:99
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chr1 716222 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=2;HaplotypeScore=139.36;MQ=31.95;MQ0=27;OQ=92.92;QD=0.79;SB=-50.76 GT:AD:DP:GL:GQ 0/1:103,13:47:-26.73,-14.16,-149.22:99
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chr1 716344 rs3131980 T G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=39.71;MQ=55.45;MQ0=6;OQ=2415.81;QD=31.79;SB=-1086.51 GT:AD:DP:GL:GQ 1/1:2,74:68:-245.18,-20.48,-0.02:99
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chr1 716802 rs4520358 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=160;Dels=0.00;HRun=0;HaplotypeScore=127.95;MQ=28.01;MQ0=48;OQ=1542.52;QD=9.64;SB=-717.92 GT:AD:DP:GL:GQ 0/1:109,49:76:-180.46,-22.93,-134.20:99
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chr1 716807 rs3131979 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=169;Dels=0.00;HRun=1;HaplotypeScore=146.45;MQ=27.53;MQ0=52;OQ=2520.74;QD=14.92;SB=-1257.54 GT:AD:DP:GL:GQ 0/1:69,89:79:-286.20,-30.85,-56.55:99
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chr1 717392 . A G 3.52 PASS AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=1;HaplotypeScore=3.37;MQ=24.74;MQ0=13;OQ=554.36;QD=8.66;SB=-175.95 GT:AD:DP:GL:GQ 0/1:36,28:38:-70.17,-11.45,-77.18:99
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chr1 717776 . A G 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=0;HaplotypeScore=2.77;MQ=36.84;MQ0=8;OQ=198.21;QD=1.82;SB=-48.31 GT:AD:DP:GL:GQ 0/1:82,26:93:-51.12,-28.02,-315.62:99
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chr1 717825 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=45.12;MQ0=3;OQ=93.24;QD=0.90;SB=-41.95 GT:AD:DP:GL:GQ 0/1:87,17:97:-41.83,-29.22,-341.26:99
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chr1 718022 rs3131978 C T 227.01 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=24.78;MQ0=12;OQ=2206.38;QD=27.93;SB=-528.20 GT:AD:DP:GL:GQ 1/1:0,79:55:-224.24,-16.57,-0.01:99
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chr1 718105 rs3131977 C G 701.77 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.42;MQ0=9;OQ=2564.24;QD=33.30;SB=-886.52 GT:AD:DP:GL:GQ 1/1:0,77:61:-260.03,-18.38,-0.02:99
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chr1 718468 rs2977661 C A 0.97 PASS AC=1;AF=0.50;AN=2;DB;DP=98;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=44.88;MQ0=1;OQ=306.65;QD=3.13;SB=125.41 GT:AD:DP:GL:GQ 0/1:81,17:92:-61.67,-27.72,-254.10:99
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chr1 719542 rs4951859 C G 20.03 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=3;HaplotypeScore=0.73;MQ=51.87;MQ0=0;OQ=2314.11;QD=40.60;SB=-1158.05 GT:AD:DP:GL:GQ 1/1:0,57:55:-235.02,-16.58,-0.02:99
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chr1 722635 . G A 178.90 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.65;MQ0=17;OQ=703.25;QD=9.38;SB=-329.31 GT:AD:DP:GL:GQ 0/1:40,35:48:-88.07,-14.46,-95.92:99
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chr1 723861 rs3094321 C T 2.53 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=4.03;MQ=14.10;MQ0=13;OQ=171.30;QD=5.53;SB=-52.67 GT:AD:DP:GL:GQ 1/1:0,31:5:-20.69,-1.51,-0.00:15.05
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chr1 723905 rs3115866 G A 435.39 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.45;MQ0=11;OQ=1488.74;QD=31.02;SB=-417.55 GT:AD:DP:GL:GQ 1/1:0,48:37:-152.47,-11.14,-0.01:99
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chr1 724152 rs2427932 G A 28.59 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=40.65;MQ0=10;OQ=544.36;QD=7.78;SB=29.11 GT:AD:DP:GL:GQ 0/1:46,24:57:-74.91,-17.19,-123.40:99
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chr1 724325 rs12564807 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.02;HRun=14;HaplotypeScore=12.95;MQ=25.23;MQ0=25;OQ=486.84;QD=10.36;SB=-195.27 GT:AD:DP:GL:GQ 0/1:7,39:20:-57.99,-6.03,-17.33:99
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chr1 724354 rs7518433 T C 213.81 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=16.24;MQ0=8;OQ=108.50;QD=7.23;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:4:-14.38,-1.21,-0.00:12.04
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chr1 724429 . G A 5.67 PASS AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=1;HaplotypeScore=1.73;MQ=39.71;MQ0=12;OQ=1919.08;QD=16.26;SB=-856.39 GT:AD:DP:GL:GQ 0/1:56,62:102:-225.91,-30.72,-172.49:99
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chr1 724483 rs2427930 A G 156.88 PASS AC=1;AF=0.50;AN=2;DB;DP=120;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=45.92;MQ0=8;OQ=1015.40;QD=8.46;SB=-368.74 GT:AD:DP:GL:GQ 0/1:73,47:110:-137.96,-33.13,-289.42:99
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chr1 724814 rs61770166 A G 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.01;HRun=0;HaplotypeScore=8.00;MQ=38.81;MQ0=11;OQ=57.16;QD=0.57;SB=101.37 GT:AD:DP:GL:GQ 0/1:74,25:85:-34.30,-25.30,-302.54:90
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chr1 725289 rs10900603 G A 319.30 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.84;MQ0=12;OQ=1308.47;QD=22.56;SB=-614.32 GT:AD:DP:GL:GQ 1/1:0,58:33:-134.44,-9.94,-0.01:99
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chr1 727603 rs3893479 G A 3.33 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=20.83;MQ0=35;OQ=241.46;QD=3.71;SB=-122.11 GT:AD:DP:GL:GQ 0/1:49,15:27:-35.56,-8.14,-65.14:99
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chr1 729005 rs2340527 T A 17.56 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=11;HaplotypeScore=0.00;MQ=42.93;MQ0=12;QD=0.18;SB=2.25 GT:AD:DP:GL:GQ 0/1:70,25:68:-25.52,-20.49,-222.57:50.31
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chr1 729073 rs2427917 A G 0.66 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=3;HaplotypeScore=1.32;MQ=36.83;MQ0=11;OQ=1725.34;QD=25.00;SB=-386.59 GT:AD:DP:GL:GQ 1/1:8,61:54:-180.20,-16.27,-4.08:99
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chr1 729289 rs3131973 A G 242.97 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.01;MQ0=22;OQ=768.10;QD=13.48;SB=-48.96 GT:AD:DP:GL:GQ 1/1:0,57:23:-80.40,-6.93,-0.01:69.20
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chr1 729391 rs3094317 G A 25.41 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=29.31;MQ0=14;OQ=1050.45;QD=23.87;SB=-501.02 GT:AD:DP:GL:GQ 1/1:0,44:27:-108.64,-8.13,-0.01:81.26
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chr1 731442 rs3115865 T C 10.98 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=14.78;MQ0=18;OQ=257.65;QD=3.79;SB=-147.73 GT:AD:DP:GL:GQ 1/1:0,68:9:-29.35,-2.71,-0.01:27.07
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chr1 732688 . A G 132.94 PASS AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=40.79;MQ0=0;OQ=1231.30;QD=15.02;SB=-638.22 GT:AD:DP:GL:GQ 0/1:40,42:81:-150.81,-24.40,-157.55:99
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chr1 732884 rs2488925 T C 45.12 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=12.78;MQ0=54;QD=0.47;SB=-0.97 GT:AD:DP:GL:GQ 0/1:72,25:9:-10.51,-2.71,-24.07:77.96
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chr1 732935 rs2488505 C A 405.73 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.91;MQ=25.42;MQ0=21;OQ=984.68;QD=12.62;SB=-456.35 GT:AD:DP:GL:GQ 1/1:10,68:28:-102.06,-8.43,-0.01:84.26
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chr1 734986 rs61823337 A C 21.52 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=121;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=22.23;MQ0=45;QD=0.18;SB=23.10 GT:AD:DP:GL:GQ 0/1:104,17:71:-26.81,-21.38,-234.10:54.33
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chr1 735210 rs2488501 T C 0.42 PASS AC=1;AF=0.50;AN=2;DB;DP=117;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=29.20;MQ0=16;OQ=204.37;QD=1.75;SB=-126.97 GT:AD:DP:GL:GQ 0/1:101,16:100:-53.85,-30.13,-340.21:99
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chr1 736231 rs3925106 C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=38.77;MQ0=4;OQ=87.62;QD=1.33;SB=28.85 GT:AD:DP:GL:GQ 0/1:58,8:62:-30.72,-18.67,-192.09:99
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chr1 736257 rs28622890 G A 34.58 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=41.58;MQ0=5;QD=0.43;SB=53.57 GT:AD:DP:GL:GQ 0/1:73,8:73:-28.75,-22.01,-217.76:67.42
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chr1 737271 rs2427896 G A 1.34 PASS AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.89;MQ0=27;OQ=95.91;QD=0.96;SB=26.10 GT:AD:DP:GL:GQ 0/1:78,22:62:-31.55,-18.68,-198.47:99
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chr1 737583 rs2488922 A G 0.48 PASS AC=1;AF=0.50;AN=2;DB;DP=123;Dels=0.00;HRun=0;HaplotypeScore=2.70;MQ=42.10;MQ0=2;OQ=266.56;QD=2.17;SB=-121.05 GT:AD:DP:GL:GQ 0/1:92,31:105:-61.60,-31.66,-333.56:99
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chr1 738741 rs2519043 G T 42.42 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=26.82;MQ0=11;OQ=2109.65;QD=29.30;SB=-875.26 GT:AD:DP:GL:GQ 1/1:7,65:57:-214.56,-17.17,-0.01:99
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chr1 739128 rs2519041 G A 43.02 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=8.37;MQ0=49;QD=0.61;SB=-10.00 GT:AD:DP:GL:GQ 1/1:19,51:2:-7.71,-0.60,-0.00:6.02
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chr1 739546 rs12184332 C T 184.94 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=12.22;MQ0=29;OQ=412.05;QD=9.81;SB=-172.22 GT:AD:DP:GL:GQ 1/1:0,15:11:-44.79,-3.31,-0.00:33.11
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chr1 739719 rs12409679 C T 476.33 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=19.16;MQ0=31;OQ=1249.90;QD=19.53;SB=-559.74 GT:AD:DP:GL:GQ 1/1:9,55:32:-128.58,-9.64,-0.01:96.31
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chr1 739852 rs12409693 C T 32.23 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=4;HaplotypeScore=0.83;MQ=11.24;MQ0=16;QD=1.29;SB=-3.98 GT:AD:DP:GL:GQ 0/1:9,16:4:-7.71,-1.20,-7.59:63.88
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chr1 739860 rs12410209 A G 6.46 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=11.03;MQ0=14;OQ=69.01;QD=3.14;SB=-6.99 GT:AD:DP:GL:GQ 0/1:7,15:4:-11.39,-1.20,-4.06:28.52
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chr1 742429 rs3094315 G A 709.48 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.17;MQ0=0;OQ=3081.43;QD=40.02;SB=-1319.35 GT:AD:DP:GL:GQ 1/1:0,77:77:-311.75,-23.19,-0.02:99
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chr1 742584 rs3131972 A G 25.55 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=3;HaplotypeScore=0.95;MQ=43.52;MQ0=0;OQ=2970.98;QD=35.37;SB=-1399.49 GT:AD:DP:GL:GQ 1/1:0,84:83:-300.71,-25.00,-0.02:99
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chr1 742757 rs3131971 T C 41.65 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=1.21;MQ=23.17;MQ0=17;OQ=516.07;QD=12.59;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,37:19:-55.23,-5.74,-0.04:57.08
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chr1 743132 rs3115861 C G 14.67 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.96;MQ=27.06;MQ0=17;OQ=1234.23;QD=26.26;SB=-15.29 GT:AD:DP:GL:GQ 1/1:0,46:29:-129.86,-11.46,-2.85:86.17
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chr1 743268 rs3115860 C A 75.43 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=21.75;MQ0=7;OQ=486.16;QD=22.10;SB=-153.55 GT:AD:DP:GL:GQ 1/1:0,22:14:-52.20,-4.22,-0.00:42.13
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chr1 743288 rs3131970 T C 362.63 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.31;MQ0=12;OQ=231.44;QD=11.57;SB=-100.85 GT:AD:DP:GL:GQ 1/1:0,20:8:-26.73,-2.41,-0.01:24.06
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chr1 743337 rs2073814 C G 1.55 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=4;HaplotypeScore=1.47;MQ=27.30;MQ0=10;OQ=1125.84;QD=30.43;SB=-429.30 GT:AD:DP:GL:GQ 1/1:1,36:27:-116.18,-8.13,-0.01:81.27
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chr1 743712 rs56101360 G T 37.36 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=10.96;MQ0=18;OQ=73.40;QD=3.50;SB=-44.39 GT:AD:DP:GL:GQ 1/1:0,21:3:-10.83,-0.90,-0.00:9.03
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chr1 744045 rs3131969 A G 233.56 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.14;MQ0=6;OQ=1104.31;QD=23.50;SB=-502.19 GT:AD:DP:GL:GQ 1/1:0,47:36:-114.05,-10.86,-0.03:99
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chr1 744055 rs3131968 A G 489.63 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.65;MQ0=5;OQ=1245.81;QD=27.08;SB=-566.90 GT:AD:DP:GL:GQ 1/1:0,46:40:-128.20,-12.07,-0.04:99
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chr1 744197 rs3131967 T C 119.26 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=53.80;MQ0=2;OQ=2119.16;QD=28.26;SB=-841.48 GT:AD:DP:GL:GQ 1/1:1,74:67:-215.56,-20.21,-0.06:99
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chr1 744366 rs3115859 G A 143.80 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.48;MQ0=0;OQ=2152.98;QD=37.77;SB=-958.79 GT:AD:DP:GL:GQ 1/1:0,55:55:-218.90,-16.57,-0.02:99
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chr1 744827 rs3131966 C T 120.29 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=47.82;MQ0=1;OQ=2882.74;QD=38.96;SB=-1406.06 GT:AD:DP:GL:GQ 1/1:1,73:72:-291.88,-21.69,-0.02:99
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chr1 745638 rs3131965 A G 37.34 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.96;MQ=59.56;MQ0=0;OQ=1308.09;QD=25.16;SB=-645.91 GT:AD:DP:GL:GQ 1/1:2,50:45:-138.61,-13.58,-4.21:93.63
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chr1 745750 rs3131964 C G 3.97 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.26;MQ=53.42;MQ0=0;OQ=1959.71;QD=42.60;SB=-541.05 GT:AD:DP:GL:GQ 1/1:0,46:45:-199.57,-13.56,-0.01:99
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chr1 745753 rs3115858 A T 53.72 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=52.51;MQ0=0;OQ=1749.78;QD=37.23;SB=-548.77 GT:AD:DP:GL:GQ 1/1:0,47:47:-178.57,-14.15,-0.01:99
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chr1 745791 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=2;HaplotypeScore=18.24;MQ=43.86;MQ0=9;OQ=50.05;QD=0.65;SB=68.26 GT:AD:DP:GL:GQ 0/1:71,6:65:-27.87,-19.59,-256.05:82.88
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chr1 745803 rs3115857 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=56.59;MQ=40.14;MQ0=10;OQ=1678.77;QD=22.69;SB=-752.72 GT:AD:DP:GL:GQ 0/1:24,50:53:-187.11,-15.98,-16.89:9.18
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chr1 745905 . G C 40.04 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=1;HaplotypeScore=109.46;MQ=39.52;MQ0=1;QD=0.47;SB=41.16 GT:AD:DP:GL:GQ 0/1:44,42:46:-21.15,-13.87,-174.52:72.88
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chr1 745926 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=1;HaplotypeScore=71.25;MQ=39.59;MQ0=1;OQ=190.93;QD=2.22;SB=53.16 GT:AD:DP:GL:GQ 0/1:47,39:55:-38.95,-16.57,-157.39:99
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chr1 745944 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=34.08;MQ=37.55;MQ0=2;OQ=183.15;QD=2.23;SB=41.15 GT:AD:DP:GL:GQ 0/1:68,13:63:-40.58,-18.98,-189.40:99
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chr1 745947 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=35.45;MQ=37.64;MQ0=2;OQ=144.60;QD=1.76;SB=41.13 GT:AD:DP:GL:GQ 0/1:61,21:63:-36.72,-18.98,-195.32:99
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chr1 745969 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=26.39;MQ=43.31;MQ0=1;OQ=191.12;QD=2.62;SB=65.24 GT:AD:DP:GL:GQ 0/1:56,17:62:-41.07,-18.68,-205.74:99
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chr1 745970 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=53.14;MQ=43.05;MQ0=1;OQ=181.87;QD=2.46;SB=65.22 GT:AD:DP:GL:GQ 0/1:57,13:62:-40.15,-18.68,-186.08:99
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chr1 746120 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=2;HaplotypeScore=45.83;MQ=41.92;MQ0=5;OQ=178.43;QD=2.66;SB=1.10 GT:AD:DP:GL:GQ 0/1:36,31:38:-32.58,-11.45,-99.35:99
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chr1 746127 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=64.18;MQ=39.79;MQ0=5;OQ=90.17;QD=1.29;SB=23.10 GT:AD:DP:GL:GQ 0/1:61,9:40:-24.35,-12.05,-113.93:99
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chr1 746131 rs12567639 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=86.22;MQ=40.15;MQ0=5;OQ=1193.97;QD=14.74;SB=-198.46 GT:AD:DP:GL:GQ 0/1:23,47:41:-137.40,-14.72,-24.14:94.15
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chr1 746140 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=67.36;MQ=39.96;MQ0=6;OQ=451.51;QD=4.47;SB=-226.37 GT:AD:DP:GL:GQ 0/1:64,37:56:-65.31,-16.87,-128.04:99
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chr1 746183 rs61768169 G A 45.64 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=15.14;MQ=43.93;MQ0=4;QD=0.48;SB=0.06 GT:AD:DP:GL:GQ 0/1:84,10:80:-31.96,-24.11,-251.75:78.48
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chr1 746197 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=9.62;MQ=45.83;MQ0=2;OQ=266.46;QD=3.10;SB=-143.52 GT:AD:DP:GL:GQ 0/1:62,24:69:-50.72,-20.79,-191.84:99
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chr1 746210 . C G 29.36 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=1;HaplotypeScore=12.28;MQ=48.57;MQ0=1;QD=0.39;SB=83.30 GT:AD:DP:GL:GQ 0/1:61,15:60:-24.30,-18.08,-232.38:62.19
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chr1 746211 . A C 19.28 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=1;HaplotypeScore=12.28;MQ=48.88;MQ0=1;QD=0.26;SB=56.68 GT:AD:DP:GL:GQ 0/1:55,20:60:-23.28,-18.07,-191.05:52.07
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chr1 746241 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=1;HaplotypeScore=37.04;MQ=43.41;MQ0=2;OQ=460.88;QD=4.90;SB=-102.94 GT:AD:DP:GL:GQ 0/1:66,28:77:-72.58,-23.21,-260.56:99
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chr1 746243 rs3131963 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=108;Dels=0.00;HRun=0;HaplotypeScore=38.28;MQ=42.00;MQ0=2;OQ=2225.83;QD=20.61;SB=-986.67 GT:AD:DP:GL:GQ 0/1:37,71:77:-249.07,-23.20,-37.48:99
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chr1 746259 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=53.13;MQ=42.82;MQ0=2;OQ=115.63;QD=1.04;SB=-45.40 GT:AD:DP:GL:GQ 0/1:89,21:81:-39.28,-24.43,-223.64:99
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chr1 746271 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=108;Dels=0.00;HRun=0;HaplotypeScore=62.70;MQ=43.89;MQ0=1;OQ=73.67;QD=0.68;SB=-12.36 GT:AD:DP:GL:GQ 0/1:82,19:79:-37.12,-26.47,-271.48:99
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chr1 746467 rs3131962 A G 256.08 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.92;MQ0=2;OQ=1247.82;QD=23.54;SB=-557.88 GT:AD:DP:GL:GQ 1/1:1,52:40:-128.40,-12.06,-0.04:99
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chr1 747503 rs3115853 G A 25.12 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=3.30;MQ=58.23;MQ0=2;OQ=3098.30;QD=37.78;SB=-1549.56 GT:AD:DP:GL:GQ 1/1:0,81:79:-317.18,-27.31,-3.76:99
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chr1 747597 rs4951929 C T 626.13 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2652.10;QD=38.44;SB=-1324.28 GT:AD:DP:GL:GQ 1/1:0,69:67:-268.81,-20.18,-0.02:99
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chr1 747799 rs4951862 C A 77.67 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=57.90;MQ0=0;OQ=1743.44;QD=32.90;SB=-442.30 GT:AD:DP:GL:GQ 1/1:0,53:51:-177.95,-15.36,-0.02:99
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chr1 748007 rs3131956 A G 613.10 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=1973.59;QD=34.03;SB=-931.61 GT:AD:DP:GL:GQ 1/1:0,58:58:-200.97,-17.48,-0.03:99
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chr1 748187 rs3131955 T C 137.90 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.43;MQ=57.23;MQ0=0;OQ=1684.65;QD=30.08;SB=-868.87 GT:AD:DP:GL:GQ 1/1:0,56:51:-172.08,-15.37,-0.03:99
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chr1 748489 rs3131954 C T 606.26 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.38;MQ0=0;OQ=1957.02;QD=37.63;SB=-957.97 GT:AD:DP:GL:GQ 1/1:0,52:51:-199.31,-15.37,-0.02:99
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chr1 749563 rs3115852 T C 295.01 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=24.43;MQ0=19;OQ=1638.73;QD=24.46;SB=-694.62 GT:AD:DP:GL:GQ 1/1:0,67:46:-167.47,-13.85,-0.01:99
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chr1 749700 rs3115851 T A 246.72 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=37.92;MQ0=12;OQ=2113.34;QD=28.18;SB=-566.84 GT:AD:DP:GL:GQ 1/1:0,75:55:-214.93,-16.56,-0.01:99
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chr1 750775 rs1048488 C T 147.65 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.94;MQ=55.79;MQ0=0;OQ=2544.23;QD=37.42;SB=-1282.72 GT:AD:DP:GL:GQ 1/1:0,68:64:-258.02,-19.28,-0.02:99
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chr1 751010 rs3115850 T C 532.65 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=53.77;MQ0=0;OQ=2501.23;QD=35.73;SB=-1116.81 GT:AD:DP:GL:GQ 1/1:0,70:69:-253.73,-20.78,-0.02:99
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chr1 751595 rs2286139 C T 599.50 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=41.46;MQ0=7;OQ=1283.06;QD=32.08;SB=-543.21 GT:AD:DP:GL:GQ 1/1:0,40:32:-131.90,-9.64,-0.01:96.32
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chr1 751615 rs1057213 C T 31.34 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=31.78;MQ0=12;OQ=906.27;QD=25.17;SB=-453.10 GT:AD:DP:GL:GQ 1/1:0,36:23:-94.22,-6.93,-0.00:69.23
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chr1 751674 rs1057212 G A 293.40 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=15.73;MQ0=12;OQ=176.65;QD=10.39;SB=-51.56 GT:AD:DP:GL:GQ 1/1:0,17:5:-21.22,-1.51,-0.00:15.05
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chr1 752136 rs3115849 G A 60.54 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=27.04;MQ0=8;OQ=733.35;QD=26.19;SB=-160.21 GT:AD:DP:GL:GQ 1/1:0,28:19:-76.93,-5.73,-0.01:57.18
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chr1 752452 rs3115848 G C 110.74 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=44.19;MQ0=1;OQ=1521.80;QD=34.59;SB=-621.54 GT:AD:DP:GL:GQ 1/1:1,43:40:-155.80,-12.08,-0.04:99
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chr1 752455 rs3131950 C G 3.82 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=4.46;MQ=42.62;MQ0=2;OQ=1386.15;QD=32.24;SB=-555.07 GT:AD:DP:GL:GQ 1/1:1,42:36:-142.24,-10.87,-0.04:99
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chr1 752464 rs3131949 T C 84.88 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=40.87;MQ0=2;OQ=1077.25;QD=28.35;SB=-454.51 GT:AD:DP:GL:GQ 1/1:1,37:32:-111.32,-9.64,-0.01:96.27
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chr1 752495 rs3131948 T A 77.80 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.33;MQ=37.91;MQ0=2;OQ=926.17;QD=28.94;SB=-390.81 GT:AD:DP:GL:GQ 1/1:1,31:26:-96.21,-7.83,-0.01:78.23
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chr1 753257 rs3115847 G A 0.46 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=4.58;MQ=27.21;MQ0=9;OQ=840.10;QD=24.71;SB=-20.92 GT:AD:DP:GL:GQ 1/1:5,28:22:-89.90,-8.89,-2.30:65.88
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chr1 755968 rs2519015 T A 366.75 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.21;MQ0=48;OQ=1019.18;QD=12.90;SB=-121.94 GT:AD:DP:GL:GQ 1/1:23,56:29:-105.51,-8.74,-0.01:87.26
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chr1 757643 rs2905042 G A 71.81 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=34.85;MQ0=1;OQ=1607.55;QD=32.81;SB=-663.38 GT:AD:DP:GL:GQ 1/1:0,49:41:-164.35,-12.35,-0.01:99
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chr1 758116 rs2977608 A C 58.89 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=47.69;MQ0=11;OQ=2396.98;QD=30.34;SB=-914.67 GT:AD:DP:GL:GQ 1/1:4,75:68:-243.30,-20.48,-0.02:99
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chr1 759692 rs2977607 C A 65.29 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=47.39;MQ0=6;OQ=1539.69;QD=31.42;SB=-733.73 GT:AD:DP:GL:GQ 1/1:0,49:42:-157.56,-12.65,-0.01:99
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chr1 759938 rs2977606 C T 514.72 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.63;MQ0=7;OQ=1693.07;QD=33.20;SB=-574.34 GT:AD:DP:GL:GQ 1/1:0,51:44:-172.91,-13.26,-0.01:99
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chr1 760431 rs3131943 A G 213.11 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=31.32;MQ0=2;OQ=527.61;QD=27.77;SB=-87.92 GT:AD:DP:GL:GQ 1/1:0,19:16:-56.35,-4.82,-0.00:48.14
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chr1 760781 rs3095826 T G 40.05 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=11;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=15.14;MQ0=8;QD=3.64;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,11:2:-7.41,-0.60,-0.00:6.02
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chr1 761273 rs2519006 C T 29.93 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=0.96;MQ=27.71;MQ0=20;OQ=1719.34;QD=22.33;SB=-558.69 GT:AD:DP:GL:GQ 1/1:18,59:45:-179.00,-13.55,-3.48:99
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chr1 761686 rs2977605 T C 284.90 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=40.99;MQ0=4;OQ=744.87;QD=26.60;SB=-283.54 GT:AD:DP:GL:GQ 1/1:0,28:24:-78.09,-7.24,-0.02:72.16
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chr1 762618 rs2905039 A C 494.84 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.90;MQ0=0;OQ=1864.52;QD=29.13;SB=-798.77 GT:AD:DP:GL:GQ 1/1:0,64:60:-190.09,-18.09,-0.06:99
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chr1 764599 rs28830877 A C 154.63 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=49.78;MQ0=3;OQ=2217.13;QD=30.37;SB=-1008.12 GT:AD:DP:GL:GQ 1/1:0,73:64:-225.32,-19.28,-0.02:99
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chr1 764648 rs28873693 G A 193.89 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=40.27;MQ0=2;OQ=1900.97;QD=32.22;SB=-951.98 GT:AD:DP:GL:GQ 1/1:0,59:49:-193.70,-14.76,-0.02:99
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chr1 764732 rs55994826 G A 15.73 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=36.88;MQ0=1;QD=0.58;SB=17.08 GT:AD:DP:GL:GQ 0/1:24,3:23:-11.77,-6.93,-72.32:48.45
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chr1 764737 rs28810152 A C 715.74 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=38.33;MQ0=0;QD=28.63;SB=-297.55 GT:AD:DP:GL:GQ 1/1:0,25:22:-75.17,-6.63,-0.01:66.18
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chr1 764742 . A T 46.72 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=39.13;MQ0=0;QD=2.03;SB=-38.86 GT:AD:DP:GL:GQ 0/1:19,4:18:-13.38,-5.42,-51.11:79.56
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chr1 764746 . G A 393.33 SnpCluster AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=40.70;MQ0=1;QD=17.88;SB=-221.92 GT:AD:DP:GL:GQ 0/1:8,14:19:-48.34,-5.72,-22.76:99
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chr1 764763 rs28797844 C G 118.37 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=44.74;MQ0=1;OQ=234.91;QD=8.39;SB=-89.25 GT:AD:DP:GL:GQ 0/1:20,8:26:-34.62,-7.84,-73.94:99
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chr1 764786 rs28769076 G C 293.91 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=38.71;MQ0=4;OQ=1154.38;QD=32.98;SB=-346.74 GT:AD:DP:GL:GQ 1/1:0,35:27:-119.03,-8.14,-0.01:81.27
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chr1 765119 . T G 7.65 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=15.72;MQ0=15;OQ=87.25;QD=4.15;SB=-66.98 GT:AD:DP:GL:GQ 0/1:15,6:6:-13.82,-1.81,-7.64:58.28
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chr1 765289 rs2905037 G A 284.46 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=48.40;MQ0=0;OQ=3000.65;QD=37.51;SB=-1455.38 GT:AD:DP:GL:GQ 1/1:0,80:75:-303.67,-22.59,-0.02:99
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chr1 765522 rs2905035 A G 84.99 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=40.77;MQ0=3;OQ=2096.78;QD=30.39;SB=-645.26 GT:AD:DP:GL:GQ 1/1:0,68:58:-213.28,-17.47,-0.02:99
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chr1 766409 rs12124819 A G 273.30 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=3.66;MQ=51.01;MQ0=0;OQ=1354.31;QD=15.75;SB=-621.86 GT:AD:DP:GL:GQ 0/1:41,45:85:-164.32,-25.60,-163.76:99
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chr1 766985 rs2980319 A T 684.18 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.93;MQ0=0;OQ=2347.43;QD=37.26;SB=-849.94 GT:AD:DP:GL:GQ 1/1:0,63:62:-238.35,-18.68,-0.02:99
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chr1 768432 rs2977615 A G 315.81 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=46.80;MQ0=5;OQ=1414.86;QD=25.27;SB=-618.23 GT:AD:DP:GL:GQ 1/1:0,56:46:-145.13,-13.88,-0.05:99
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chr1 769890 rs2977613 G T 314.36 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=53.23;MQ0=0;OQ=2549.06;QD=34.45;SB=-1034.15 GT:AD:DP:GL:GQ 1/1:0,74:70:-258.51,-21.09,-0.02:99
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chr1 770648 rs2977612 T A 316.89 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=55.02;MQ0=0;OQ=2471.78;QD=34.81;SB=-1070.63 GT:AD:DP:GL:GQ 1/1:1,70:68:-253.32,-20.49,-2.56:99
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chr1 773167 rs2980295 T C 625.67 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=32.46;MQ0=0;OQ=2479.28;QD=34.43;SB=-1064.87 GT:AD:DP:GL:GQ 1/1:0,72:71:-251.54,-21.39,-0.02:99
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chr1 774913 rs2905062 G A 647.91 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.25;MQ0=0;OQ=2057.09;QD=38.09;SB=-793.69 GT:AD:DP:GL:GQ 1/1:0,54:52:-209.31,-15.66,-0.01:99
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chr1 775852 rs2980300 T C 398.92 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.91;MQ0=0;OQ=1925.83;QD=36.34;SB=-289.45 GT:AD:DP:GL:GQ 1/1:0,53:52:-196.18,-15.66,-0.01:99
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chr1 776110 rs59319764 G A 135.46 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=22.95;MQ0=5;OQ=708.27;QD=21.46;SB=-330.44 GT:AD:DP:GL:GQ 1/1:5,28:18:-74.41,-5.42,-0.00:54.18
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chr1 776673 rs2905061 G A 271.44 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.77;MQ0=2;OQ=243.21;QD=12.80;SB=-51.67 GT:AD:DP:GL:GQ 1/1:0,19:7:-27.90,-2.11,-0.00:21.07
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chr1 776882 rs2905060 C T 28.05 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=24.47;MQ0=13;OQ=680.11;QD=21.25;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,32:18:-71.60,-5.42,-0.01:54.17
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chr1 776908 . C G 26.94 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=1;HaplotypeScore=2.47;MQ=23.04;MQ0=7;QD=1.35;SB=-10.00 GT:AD:DP:GL:GQ 0/1:11,8:6:-7.79,-1.82,-13.09:59.77
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chr1 776998 rs28753393 A G 1.62 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=22.78;MQ0=8;OQ=492.59;QD=20.52;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,24:14:-52.85,-4.22,-0.00:42.13
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chr1 777048 rs2905058 G A 64.34 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=2.66;MQ=17.04;MQ0=12;OQ=310.80;QD=12.43;SB=-128.67 GT:AD:DP:GL:GQ 1/1:0,25:9:-34.67,-2.71,-0.01:27.08
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chr1 777068 rs2905057 G A 256.67 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=15.61;MQ0=17;OQ=265.15;QD=9.14;SB=-131.67 GT:AD:DP:GL:GQ 1/1:0,29:8:-30.10,-2.41,-0.01:24.07
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chr1 777125 rs2905056 C G 369.51 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=42.20;MQ0=14;OQ=1716.63;QD=32.39;SB=-514.60 GT:AD:DP:GL:GQ 1/1:0,53:39:-175.26,-11.75,-0.01:99
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chr1 777262 rs2905055 G T 436.57 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=43.93;MQ0=5;OQ=1457.00;QD=33.11;SB=-678.96 GT:AD:DP:GL:GQ 1/1:0,44:39:-149.29,-11.74,-0.01:99
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chr1 777290 . C T 29.42 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=32.80;MQ0=5;OQ=855.45;QD=17.11;SB=-308.80 GT:AD:DP:GL:GQ 0/1:21,29:44:-102.09,-13.26,-62.10:99
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chr1 777548 rs2905054 G T 500.83 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.40;MQ0=0;OQ=2267.93;QD=36.00;SB=-851.89 GT:AD:DP:GL:GQ 1/1:0,63:62:-230.39,-18.67,-0.01:99
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chr1 777707 rs2905053 C T 334.21 PASS AC=2;AF=1.00;AN=2;DB;DP=100;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=44.44;MQ0=2;OQ=3957.07;QD=39.57;SB=-1940.72 GT:AD:DP:GL:GQ 1/1:0,100:95:-394.71,-28.61,-0.02:99
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chr1 778576 rs2980306 T C 128.68 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=33.51;MQ0=34;OQ=1562.02;QD=19.05;SB=-268.41 GT:AD:DP:GL:GQ 1/1:13,69:45:-159.81,-13.56,-0.02:99
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chr1 778703 rs10157303 T C 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=3;HaplotypeScore=7.41;MQ=38.85;MQ0=14;OQ=444.81;QD=5.30;SB=-42.81 GT:AD:DP:GL:GQ 0/1:40,44:57:-64.95,-17.19,-138.39:99
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chr1 778707 rs10159337 C G 0.38 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=6.67;MQ=39.47;MQ0=14;OQ=423.04;QD=5.29;SB=32.36 GT:AD:DP:GL:GQ 0/1:47,33:53:-61.57,-15.98,-162.13:99
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chr1 778752 rs10159341 C T 0.26 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.10;MQ=43.79;MQ0=4;OQ=82.84;QD=1.45;SB=53.17 GT:AD:DP:GL:GQ 0/1:50,7:44:-24.83,-13.27,-122.87:99
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chr1 778808 . G C 4.86 PASS AC=2;AF=1.00;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=23.40;MQ0=13;OQ=99.43;QD=5.52;SB=-51.47 GT:AD:DP:GL:GQ 1/1:11,7:3:-13.43,-0.90,-0.00:9.03
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chr1 778958 . C G 0.12 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=6.83;MQ=13.77;MQ0=12;OQ=373.21;QD=7.46;SB=-3.98 GT:AD:DP:GL:GQ 0/1:40,10:17:-45.73,-5.12,-29.92:99
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chr1 778962 rs10158938 G A 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=6.77;MQ=13.74;MQ0=12;OQ=114.14;QD=2.24;SB=-77.09 GT:AD:DP:GL:GQ 0/1:17,34:17:-19.83,-5.13,-36.56:99
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chr1 779001 . C G 62.18 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=43.25;MQ=17.50;MQ0=24;QD=0.60;SB=-3.98 GT:AD:DP:GL:GQ 0/1:92,11:44:-22.76,-13.26,-160.88:95.02
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chr1 779004 . G C 379.18 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=0;HaplotypeScore=41.31;MQ=17.52;MQ0=26;QD=3.61;SB=-3.98 GT:AD:DP:GL:GQ 0/1:83,21:42:-55.98,-14.78,-128.84:99
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chr1 779007 . G C 125.98 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=41.47;MQ=17.84;MQ0=24;QD=1.21;SB=-3.98 GT:AD:DP:GL:GQ 0/1:82,22:45:-29.45,-13.56,-167.32:99
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chr1 779046 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=0;HaplotypeScore=13.36;MQ=16.85;MQ0=30;OQ=85.18;QD=0.76;SB=-0.98 GT:AD:DP:GL:GQ 0/1:103,9:39:-23.55,-11.75,-110.84:99
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chr1 779119 rs3131939 T C 14.51 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=38.97;MQ0=6;OQ=1691.71;QD=26.03;SB=-847.52 GT:AD:DP:GL:GQ 1/1:0,65:53:-172.80,-15.99,-0.05:99
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chr1 782126 rs1044922 A G 199.05 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=35.10;MQ0=8;OQ=1304.52;QD=20.38;SB=-463.86 GT:AD:DP:GL:GQ 1/1:3,61:42:-134.08,-12.67,-0.04:99
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chr1 782343 rs2905036 C T 605.33 PASS AC=2;AF=1.00;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=44.88;MQ0=2;OQ=3789.97;QD=39.07;SB=-1780.39 GT:AD:DP:GL:GQ 1/1:0,97:94:-378.00,-28.32,-0.03:99
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chr1 783071 rs2905029 C G 4.69 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=24.02;MQ0=7;OQ=636.50;QD=15.91;SB=29.13 GT:AD:DP:GL:GQ 0/1:20,20:32:-76.58,-9.64,-67.00:99
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chr1 783292 rs2519067 T C 14.72 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=32.87;MQ0=7;OQ=1046.72;QD=28.29;SB=-162.84 GT:AD:DP:GL:GQ 1/1:5,32:30:-108.26,-9.03,-0.01:90.27
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chr1 785455 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=20;HaplotypeScore=3.33;MQ=47.34;MQ0=4;OQ=246.17;QD=4.48;SB=-56.75 GT:AD:DP:GL:GQ 0/1:43,12:47:-42.06,-14.16,-132.17:99
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chr1 786397 . T C 0.59 PASS AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=41.18;MQ0=9;OQ=325.37;QD=4.52;SB=-24.72 GT:AD:DP:GL:GQ 0/1:50,22:59:-53.59,-17.77,-179.67:99
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chr1 786590 rs2909612 G T 160.63 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=27.34;MQ0=10;OQ=1960.56;QD=30.63;SB=-1001.80 GT:AD:DP:GL:GQ 1/1:0,64:54:-199.65,-16.26,-0.01:99
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chr1 786630 rs12076540 G A 0.40 PASS AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=7.41;MQ=41.01;MQ0=13;OQ=2659.94;QD=26.60;SB=-1327.51 GT:AD:DP:GL:GQ 0/1:23,77:83:-294.28,-25.01,-36.59:99
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chr1 786634 rs2909613 T C 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=7.24;MQ=42.00;MQ0=12;OQ=84.11;QD=0.83;SB=12.37 GT:AD:DP:GL:GQ 0/1:80,21:85:-37.30,-25.61,-300.66:99
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chr1 786902 . A G 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=48.19;MQ0=15;OQ=198.92;QD=1.55;SB=-72.06 GT:AD:DP:GL:GQ 0/1:96,32:111:-56.61,-33.43,-385.87:99
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chr1 787026 . G A 14.82 LowQual AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=46.76;MQ0=8;QD=0.17;SB=-27.80 GT:AD:DP:GL:GQ 0/1:74,15:80:-28.85,-24.10,-261.80:47.51
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chr1 787041 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=44.71;MQ0=13;OQ=84.25;QD=0.90;SB=-23.86 GT:AD:DP:GL:GQ 0/1:71,22:80:-37.92,-26.21,-271.06:99
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chr1 787889 rs4951864 C T 266.17 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=45.78;MQ0=1;OQ=2714.18;QD=38.77;SB=-989.31 GT:AD:DP:GL:GQ 1/1:1,69:67:-275.02,-20.18,-0.01:99
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chr1 789326 rs4245756 T C 211.89 PASS AC=2;AF=1.00;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=58.75;MQ0=0;OQ=3107.92;QD=34.53;SB=-1502.55 GT:AD:DP:GL:GQ 1/1:0,90:89:-314.41,-26.81,-0.04:99
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chr1 789870 rs6681049 T C 615.97 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=47.06;MQ0=1;OQ=2660.56;QD=34.55;SB=-1115.14 GT:AD:DP:GL:GQ 1/1:0,77:73:-269.66,-21.99,-0.02:99
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chr1 790246 rs4951931 C T 190.77 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.16;MQ=47.97;MQ0=4;OQ=2808.35;QD=36.95;SB=-1258.17 GT:AD:DP:GL:GQ 1/1:1,75:70:-284.44,-21.09,-0.02:99
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chr1 791806 rs7516866 C T 78.65 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.85;MQ=49.91;MQ0=4;OQ=2127.43;QD=34.88;SB=-1017.37 GT:AD:DP:GL:GQ 1/1:0,61:56:-216.36,-16.88,-0.03:99
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chr1 791858 rs7553084 G A 0.25 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=36.92;MQ0=13;OQ=63.33;QD=1.47;SB=-33.64 GT:AD:DP:GL:GQ 0/1:29,14:21:-15.95,-6.33,-55.40:96.17
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chr1 791869 rs9700144 T C 36.55 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=30.98;MQ0=16;OQ=499.95;QD=11.90;SB=-156.35 GT:AD:DP:GL:GQ 0/1:18,24:19:-59.00,-5.72,-11.19:54.70
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chr1 791956 rs7553197 G A 67.79 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=36.93;MQ0=8;OQ=1294.09;QD=27.53;SB=-402.66 GT:AD:DP:GL:GQ 1/1:3,44:34:-133.00,-10.24,-0.01:99
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chr1 792054 . G A 0.09 PASS AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=2.92;MQ=30.80;MQ0=19;OQ=223.16;QD=2.37;SB=-57.50 GT:AD:DP:GL:GQ 0/1:66,28:40:-37.67,-12.07,-95.70:99
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chr1 792085 rs61768213 G A 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=11.76;MQ=27.41;MQ0=19;OQ=204.34;QD=1.93;SB=-8.44 GT:AD:DP:GL:GQ 0/1:88,18:55:-40.31,-16.60,-140.17:99
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chr1 792094 rs59334306 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=46.76;MQ=26.45;MQ0=20;OQ=280.32;QD=2.64;SB=-7.86 GT:AD:DP:GL:GQ 0/1:75,30:53:-47.28,-15.96,-151.37:99
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chr1 792103 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=25.85;MQ=29.18;MQ0=20;OQ=339.53;QD=3.09;SB=-172.66 GT:AD:DP:GL:GQ 0/1:84,26:61:-55.65,-18.41,-142.90:99
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chr1 792163 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=94;Dels=0.02;HRun=3;HaplotypeScore=9.77;MQ=36.34;MQ0=8;OQ=472.25;QD=5.02;SB=-153.68 GT:AD:DP:GL:GQ 0/1:49,43:64:-69.50,-18.99,-156.72:99
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chr1 792183 . G A 7.22 PASS AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=4.86;MQ=42.20;MQ0=9;OQ=1359.41;QD=15.27;SB=-245.27 GT:AD:DP:GL:GQ 0/1:36,53:59:-157.01,-17.79,-57.64:99
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chr1 792201 . G A 0.06 PASS AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=4.58;MQ=43.46;MQ0=8;OQ=234.21;QD=2.47;SB=6.27 GT:AD:DP:GL:GQ 0/1:68,27:69:-47.53,-20.82,-170.85:99
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chr1 792244 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=1;HaplotypeScore=3.46;MQ=47.18;MQ0=4;OQ=75.38;QD=1.05;SB=92.33 GT:AD:DP:GL:GQ 0/1:49,23:53:-26.79,-15.97,-181.50:99
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chr1 793978 rs9725068 G A 105.15 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=25.47;MQ0=13;OQ=1474.93;QD=26.34;SB=-321.42 GT:AD:DP:GL:GQ 1/1:0,56:37:-151.09,-11.15,-0.01:99
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chr1 794403 rs11240778 T C 115.53 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.32;MQ0=0;OQ=2475.68;QD=30.95;SB=-1150.98 GT:AD:DP:GL:GQ 1/1:0,80:77:-251.22,-23.23,-0.07:99
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chr1 797375 rs10751454 A G 614.93 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=53.93;MQ0=1;OQ=2184.15;QD=34.67;SB=-971.41 GT:AD:DP:GL:GQ 1/1:0,63:61:-222.02,-18.37,-0.02:99
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chr1 797624 rs4951932 C A 532.14 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.69;MQ0=0;OQ=2699.27;QD=36.48;SB=-1270.15 GT:AD:DP:GL:GQ 1/1:0,74:72:-273.52,-21.68,-0.01:99
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chr1 798086 rs4951933 G C 74.24 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=48.23;MQ0=3;OQ=1918.57;QD=25.24;SB=-881.14 GT:AD:DP:GL:GQ 1/1:5,71:54:-198.81,-16.33,-3.37:99
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chr1 798494 rs11240779 G A 160.91 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=54.32;MQ0=0;OQ=2346.63;QD=37.85;SB=-859.15 GT:AD:DP:GL:GQ 1/1:0,62:60:-238.27,-18.08,-0.02:99
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chr1 798785 rs6594027 G A 211.91 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.48;MQ=43.75;MQ0=6;OQ=1743.42;QD=29.06;SB=-625.73 GT:AD:DP:GL:GQ 1/1:3,57:47:-180.84,-14.16,-2.92:99
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chr1 798791 rs11240780 C T 1.58 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=5.98;MQ=44.87;MQ0=5;OQ=1874.68;QD=30.73;SB=-625.19 GT:AD:DP:GL:GQ 1/1:3,58:49:-194.73,-14.76,-3.68:99
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chr1 801153 rs6683530 G C 58.35 Indel AC=1;AF=0.50;AN=2;DB;DP=8;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=47.12;MQ0=0;QD=7.29;SB=-48.46 GT:AD:DP:GL:GQ 0/1:3,5:6:-10.93,-1.81,-12.15:91.19
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chr1 801443 . G C 0.04 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DP=3;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=38.48;MQ0=1;OQ=52.85;QD=17.62;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-8.69,-0.60,-0.00:6.02
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chr1 801493 . G A 49.74 LowQual AC=1;AF=0.50;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=43.23;MQ0=0;QD=5.53;SB=-18.25 GT:AD:DP:GL:GQ 0/1:2,4:4:-12.63,-4.37,-6.30:19.25
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chr1 801563 . C G 14.05 LowQual AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=3.71;MQ=42.60;MQ0=0;QD=1.40;SB=-3.98 GT:AD:DP:GL:GQ 0/1:8,2:7:-6.79,-2.12,-21.33:46.71
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chr1 801598 . T C 10.44 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=49.26;MQ0=0;OQ=130.47;QD=6.21;SB=-25.63 GT:AD:DP:GL:GQ 0/1:13,8:15:-20.85,-4.52,-36.05:99
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chr1 801628 . C T 6.09 PASS AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=52.56;MQ0=0;OQ=245.60;QD=14.45;SB=-39.65 GT:AD:DP:GL:GQ 0/1:7,10:12:-31.46,-3.62,-11.96:83.42
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chr1 802130 rs7541694 A G 69.50 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=3.34;MQ=55.65;MQ0=0;OQ=1955.23;QD=29.18;SB=-933.35 GT:AD:DP:GL:GQ 1/1:0,67:63:-199.17,-19.00,-0.06:99
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chr1 802147 rs7545373 C G 33.64 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=3.57;MQ=55.54;MQ0=0;OQ=2348.31;QD=37.27;SB=-1198.48 GT:AD:DP:GL:GQ 1/1:2,61:60:-246.74,-18.09,-8.33:97.66
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chr1 802165 . G A 18.16 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.79;MQ=55.42;MQ0=0;QD=0.31;SB=71.21 GT:AD:DP:GL:GQ 0/1:51,8:51:-20.46,-15.37,-155.58:50.93
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chr1 802175 . C T 26.53 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=55.08;MQ0=0;QD=0.48;SB=56.20 GT:AD:DP:GL:GQ 0/1:46,8:48:-20.39,-14.46,-154.35:59.35
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chr1 802189 . G A 11.38 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.39;MQ=55.49;MQ0=0;QD=0.20;SB=56.19 GT:AD:DP:GL:GQ 0/1:49,8:51:-19.75,-15.37,-163.52:43.89
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chr1 802470 . T C 21.38 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=54.38;MQ0=1;QD=0.34;SB=62.23 GT:AD:DP:GL:GQ 0/1:57,6:59:-23.19,-17.77,-210.98:54.19
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chr1 802488 . G T 29.03 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=3.58;MQ=53.89;MQ0=1;QD=0.53;SB=65.21 GT:AD:DP:GL:GQ 0/1:49,6:52:-21.85,-15.66,-163.62:61.86
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chr1 802614 rs4246500 T C 405.83 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.84;MQ0=0;OQ=1600.84;QD=34.80;SB=-568.88 GT:AD:DP:GL:GQ 1/1:0,46:45:-163.68,-13.56,-0.02:99
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chr1 803503 rs16973606 A G 11.51 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.56;MQ=28.75;MQ0=1;OQ=1669.54;QD=28.30;SB=-566.93 GT:AD:DP:GL:GQ 1/1:0,58:52:-170.59,-15.68,-0.05:99
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chr1 803610 rs4970388 G A 620.03 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.63;MQ0=0;OQ=2297.43;QD=38.94;SB=-1171.71 GT:AD:DP:GL:GQ 1/1:0,59:58:-233.34,-17.47,-0.02:99
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chr1 803950 . C A 24.11 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=7.91;MQ=35.01;MQ0=10;QD=0.32;SB=59.14 GT:AD:DP:GL:GQ 0/1:54,21:50:-20.76,-15.06,-152.32:56.93
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chr1 803957 rs61768235 A G 0.17 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=7.75;MQ=34.03;MQ0=10;OQ=322.16;QD=4.30;SB=35.12 GT:AD:DP:GL:GQ 0/1:42,30:47:-49.67,-14.18,-120.05:99
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chr1 803968 . C T 1.63 PASS AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=30.80;MQ0=12;OQ=418.55;QD=4.81;SB=59.13 GT:AD:DP:GL:GQ 0/1:53,34:61:-63.53,-18.39,-146.32:99
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chr1 804010 rs4268301 G C 0.65 PASS AC=1;AF=0.50;AN=2;DB;DP=98;Dels=0.00;HRun=0;HaplotypeScore=6.53;MQ=32.14;MQ0=12;OQ=1062.36;QD=10.84;SB=53.20 GT:AD:DP:GL:GQ 0/1:43,55:71:-130.91,-21.39,-167.36:99
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chr1 804023 . C G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=2;HaplotypeScore=7.44;MQ=36.24;MQ0=5;OQ=967.44;QD=10.63;SB=62.24 GT:AD:DP:GL:GQ 0/1:48,43:70:-121.12,-21.09,-190.26:99
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chr1 804036 . A T 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=7.15;MQ=36.45;MQ0=7;OQ=717.66;QD=8.34;SB=65.21 GT:AD:DP:GL:GQ 0/1:47,38:68:-95.53,-20.48,-155.46:99
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chr1 804078 rs4468103 A G 426.89 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=12.81;MQ=43.94;MQ0=3;QD=5.62;SB=77.26 GT:AD:DP:GL:GQ 0/1:53,23:63:-64.96,-18.98,-178.46:99
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chr1 804080 rs34234497 C A 381.14 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=12.71;MQ=43.70;MQ0=3;QD=4.95;SB=89.27 GT:AD:DP:GL:GQ 0/1:53,24:67:-61.57,-20.18,-178.60:99
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chr1 804083 . C A 27.31 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=12.71;MQ=43.58;MQ0=4;QD=0.34;SB=86.24 GT:AD:DP:GL:GQ 0/1:70,11:67:-26.19,-20.18,-214.42:60.14
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chr1 804127 rs4571914 C T 3.06 PASS AC=2;AF=1.00;AN=2;DB;DP=96;Dels=0.00;HRun=1;HaplotypeScore=3.93;MQ=47.10;MQ0=4;OQ=2988.66;QD=31.13;SB=-1433.34 GT:AD:DP:GL:GQ 1/1:3,93:75:-302.47,-22.59,-0.02:99
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chr1 804160 . T A 1.44 PASS AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=46.18;MQ0=5;OQ=470.49;QD=4.06;SB=48.91 GT:AD:DP:GL:GQ 0/1:72,44:82:-75.03,-24.70,-237.11:99
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chr1 804163 . T A 0.61 PASS AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=0;HaplotypeScore=2.87;MQ=45.72;MQ0=5;OQ=536.43;QD=4.62;SB=45.90 GT:AD:DP:GL:GQ 0/1:71,45:81:-81.32,-24.40,-231.88:99
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chr1 804176 . C T 0.11 PASS AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=1.87;MQ=42.84;MQ0=5;OQ=284.28;QD=2.41;SB=31.59 GT:AD:DP:GL:GQ 0/1:90,28:84:-57.01,-25.30,-251.94:99
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chr1 804255 rs61768236 C T 415.82 PASS AC=1;AF=0.50;AN=2;DB;DP=108;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=27.82;MQ0=7;OQ=1235.94;QD=11.44;SB=-464.41 GT:AD:DP:GL:GQ 0/1:49,59:70:-147.96,-21.08,-123.48:99
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chr1 804268 rs61768237 T C 267.05 PASS AC=1;AF=0.50;AN=2;DB;DP=128;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.38;MQ0=8;OQ=1449.21;QD=11.32;SB=-624.62 GT:AD:DP:GL:GQ 0/1:53,75:88:-174.71,-26.51,-156.34:99
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chr1 804322 . T C 170.65 PASS AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.67;MQ0=9;OQ=1734.45;QD=11.19;SB=-540.49 GT:AD:DP:GL:GQ 0/1:72,83:118:-212.27,-35.54,-249.66:99
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chr1 804353 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=4;HaplotypeScore=24.21;MQ=44.77;MQ0=2;OQ=299.39;QD=2.32;SB=-27.46 GT:AD:DP:GL:GQ 0/1:106,23:112:-66.96,-33.74,-330.98:99
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chr1 804358 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=1;HaplotypeScore=23.14;MQ=46.13;MQ0=0;OQ=958.19;QD=8.33;SB=-257.80 GT:AD:DP:GL:GQ 0/1:68,47:100:-129.23,-30.12,-232.16:99
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chr1 804472 . A T 0.19 PASS AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=0;HaplotypeScore=5.00;MQ=48.14;MQ0=4;OQ=798.74;QD=6.89;SB=107.38 GT:AD:DP:GL:GQ 0/1:75,41:98:-112.67,-29.52,-266.53:99
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chr1 804474 . A C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=2;HaplotypeScore=5.00;MQ=47.90;MQ0=4;OQ=704.41;QD=6.18;SB=101.34 GT:AD:DP:GL:GQ 0/1:73,41:96:-102.63,-28.91,-247.09:99
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chr1 804544 . A T 0.11 PASS AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=0;HaplotypeScore=3.62;MQ=40.45;MQ0=6;OQ=406.04;QD=3.15;SB=95.34 GT:AD:DP:GL:GQ 0/1:99,30:89:-70.69,-26.81,-271.16:99
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chr1 804557 . A C 0.23 PASS AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=0;HaplotypeScore=3.14;MQ=40.10;MQ0=5;OQ=416.51;QD=3.82;SB=86.28 GT:AD:DP:GL:GQ 0/1:65,43:73:-66.93,-21.99,-180.79:99
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chr1 804573 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=8.85;MQ=43.02;MQ0=4;OQ=579.16;QD=6.16;SB=83.29 GT:AD:DP:GL:GQ 0/1:56,38:69:-81.99,-20.79,-176.35:99
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chr1 804594 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=7.80;MQ=47.78;MQ0=4;OQ=294.82;QD=3.04;SB=104.36 GT:AD:DP:GL:GQ 0/1:66,31:74:-55.06,-22.29,-235.53:99
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chr1 804605 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=13.95;MQ=49.87;MQ0=3;OQ=284.24;QD=2.81;SB=113.40 GT:AD:DP:GL:GQ 0/1:73,28:82:-56.44,-24.73,-279.54:99
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chr1 804976 . T C 11.87 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=0;HaplotypeScore=17.62;MQ=47.74;MQ0=10;QD=0.07;SB=128.44 GT:AD:DP:GL:GQ 0/1:107,52:112:-38.18,-33.74,-401.64:44.42
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chr1 805001 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=241;Dels=0.00;HRun=1;HaplotypeScore=76.93;MQ=42.40;MQ0=12;OQ=1246.68;QD=5.17;SB=146.50 GT:AD:DP:GL:GQ 0/1:129,112:153:-174.09,-46.14,-468.17:99
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chr1 805002 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=243;Dels=0.00;HRun=0;HaplotypeScore=75.93;MQ=42.40;MQ0=13;OQ=1673.16;QD=6.89;SB=-6.76 GT:AD:DP:GL:GQ 0/1:105,138:154:-217.01,-46.41,-335.99:99
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chr1 805021 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=298;Dels=0.00;HRun=1;HaplotypeScore=153.68;MQ=38.48;MQ0=13;OQ=1337.90;QD=4.49;SB=-19.37 GT:AD:DP:GL:GQ 0/1:146,152:156:-184.06,-46.99,-421.14:99
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chr1 805031 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=318;Dels=0.00;HRun=0;HaplotypeScore=207.07;MQ=37.99;MQ0=12;OQ=1684.06;QD=5.30;SB=131.37 GT:AD:DP:GL:GQ 0/1:175,143:165:-221.39,-49.70,-405.98:99
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chr1 805042 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=340;Dels=0.00;HRun=0;HaplotypeScore=155.12;MQ=37.32;MQ0=17;OQ=677.06;QD=1.99;SB=140.48 GT:AD:DP:GL:GQ 0/1:285,55:199:-130.92,-59.93,-605.02:99
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chr1 805044 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=339;Dels=0.00;HRun=1;HaplotypeScore=156.13;MQ=36.94;MQ0=19;OQ=889.27;QD=2.62;SB=-0.09 GT:AD:DP:GL:GQ 0/1:243,95:179:-146.12,-53.91,-499.80:99
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chr1 805060 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=354;Dels=0.00;HRun=0;HaplotypeScore=82.46;MQ=36.20;MQ0=28;OQ=262.53;QD=0.74;SB=131.47 GT:AD:DP:GL:GQ 0/1:269,85:206:-91.58,-62.05,-725.20:99
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chr1 805070 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=335;Dels=0.00;HRun=0;HaplotypeScore=72.27;MQ=36.04;MQ0=29;OQ=243.31;QD=0.73;SB=122.43 GT:AD:DP:GL:GQ 0/1:284,51:196:-86.65,-59.04,-686.22:99
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chr1 805096 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=276;Dels=0.00;HRun=1;HaplotypeScore=49.35;MQ=36.73;MQ0=27;OQ=2126.16;QD=7.70;SB=101.36 GT:AD:DP:GL:GQ 0/1:81,194:152:-261.68,-45.78,-320.28:99
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chr1 805097 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=277;Dels=0.00;HRun=0;HaplotypeScore=50.14;MQ=36.84;MQ0=27;OQ=2166.21;QD=7.82;SB=104.34 GT:AD:DP:GL:GQ 0/1:80,196:153:-269.55,-49.64,-287.57:99
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chr1 805200 . G T 14.62 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=163;Dels=0.00;HRun=0;HaplotypeScore=25.70;MQ=44.88;MQ0=22;QD=0.09;SB=134.45 GT:AD:DP:GL:GQ 0/1:137,26:122:-41.47,-36.74,-399.49:47.31
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chr1 805236 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=139;Dels=0.00;HRun=3;HaplotypeScore=58.62;MQ=48.88;MQ0=19;OQ=385.49;QD=2.77;SB=18.48 GT:AD:DP:GL:GQ 0/1:87,52:105:-73.46,-31.63,-322.22:99
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chr1 805261 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=234;Dels=0.00;HRun=0;HaplotypeScore=375.75;MQ=40.95;MQ0=20;OQ=701.87;QD=3.00;SB=-184.24 GT:AD:DP:GL:GQ 0/1:132,101:136:-114.44,-40.97,-420.32:99
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chr1 805262 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=240;Dels=0.00;HRun=0;HaplotypeScore=355.61;MQ=40.41;MQ0=21;OQ=112.78;QD=0.47;SB=-10.32 GT:AD:DP:GL:GQ 0/1:195,42:136:-62.96,-48.40,-549.49:99
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chr1 805283 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=350;Dels=0.00;HRun=0;HaplotypeScore=86.54;MQ=35.73;MQ0=32;OQ=70.17;QD=0.20;SB=7.66 GT:AD:DP:GL:GQ 0/1:314,35:208:-72.95,-62.65,-681.33:99
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chr1 805284 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=355;Dels=0.00;HRun=0;HaplotypeScore=88.37;MQ=35.41;MQ0=32;OQ=4656.41;QD=13.12;SB=-1324.68 GT:AD:DP:GL:GQ 0/1:83,272:209:-464.64,-62.96,-333.94:99
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chr1 805326 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=520;Dels=0.00;HRun=0;HaplotypeScore=98.56;MQ=31.27;MQ0=33;OQ=692.81;QD=1.33;SB=-240.64 GT:AD:DP:GL:GQ 0/1:439,81:305:-164.43,-91.87,-1058.15:99
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chr1 805332 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=545;Dels=0.00;HRun=2;HaplotypeScore=105.70;MQ=31.02;MQ0=35;OQ=141.69;QD=0.26;SB=-23.90 GT:AD:DP:GL:GQ 0/1:483,62:326:-115.64,-98.18,-1059.59:99
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chr1 805355 . A G 982.52 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=566;Dels=0.00;HRun=0;HaplotypeScore=511.67;MQ=31.08;MQ0=42;QD=1.74;SB=-163.90 GT:AD:DP:GL:GQ 0/1:444,82:337:-230.52,-128.98,-1164.43:99
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chr1 805360 . A G 1795.44 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=565;Dels=0.00;HRun=0;HaplotypeScore=478.07;MQ=31.09;MQ0=46;QD=3.18;SB=-791.73 GT:AD:DP:GL:GQ 0/1:432,132:335:-287.21,-104.38,-1038.16:99
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chr1 805365 . T C 1655.74 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=542;Dels=0.00;HRun=0;HaplotypeScore=449.89;MQ=31.32;MQ0=44;QD=3.05;SB=-765.34 GT:AD:DP:GL:GQ 0/1:385,157:321:-265.54,-96.68,-1024.45:99
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chr1 805383 rs61768238 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=498;Dels=0.00;HRun=3;HaplotypeScore=98.26;MQ=31.16;MQ0=41;OQ=7913.78;QD=15.89;SB=-2299.71 GT:AD:DP:GL:GQ 0/1:75,423:268:-790.38,-80.71,-278.68:99
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chr1 805386 rs61768239 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=483;Dels=0.00;HRun=1;HaplotypeScore=91.10;MQ=31.39;MQ0=41;OQ=3141.51;QD=6.50;SB=-667.16 GT:AD:DP:GL:GQ 0/1:227,256:265:-397.24,-79.81,-626.74:99
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chr1 805419 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=411;Dels=0.00;HRun=1;HaplotypeScore=30.13;MQ=32.93;MQ0=34;OQ=719.57;QD=1.75;SB=-330.57 GT:AD:DP:GL:GQ 0/1:225,186:205:-136.99,-61.75,-686.74:99
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chr1 805436 rs61768240 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=352;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=34.71;MQ0=24;OQ=2408.76;QD=6.84;SB=-1167.64 GT:AD:DP:GL:GQ 0/1:93,259:163:-293.26,-49.10,-323.35:99
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chr1 805464 . T C 90.93 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=252;Dels=0.00;HRun=2;HaplotypeScore=145.78;MQ=37.92;MQ0=13;QD=0.36;SB=50.70 GT:AD:DP:GL:GQ 0/1:218,34:131:-51.84,-39.46,-473.80:99
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chr1 805469 . G A 411.01 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=232;Dels=0.00;HRun=0;HaplotypeScore=129.65;MQ=39.23;MQ0=10;QD=1.77;SB=-144.72 GT:AD:DP:GL:GQ 0/1:163,68:125:-82.03,-37.65,-380.30:99
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chr1 805474 . C T 980.44 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=4;HaplotypeScore=70.79;MQ=41.63;MQ0=7;QD=4.83;SB=-326.68 GT:AD:DP:GL:GQ 0/1:87,114:116:-136.29,-34.97,-264.49:99
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chr1 805480 . G T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=196;Dels=0.00;HRun=1;HaplotypeScore=5.97;MQ=42.07;MQ0=5;OQ=803.65;QD=4.10;SB=-259.91 GT:AD:DP:GL:GQ 0/1:87,109:116:-118.58,-34.93,-301.30:99
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chr1 805558 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=180;Dels=0.00;HRun=0;HaplotypeScore=21.59;MQ=45.69;MQ0=3;OQ=812.25;QD=4.51;SB=-279.67 GT:AD:DP:GL:GQ 0/1:110,69:130:-123.67,-39.16,-392.54:99
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chr1 805591 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=218;Dels=0.00;HRun=0;HaplotypeScore=34.23;MQ=41.40;MQ0=5;OQ=1850.17;QD=8.49;SB=-635.41 GT:AD:DP:GL:GQ 0/1:84,134:148:-232.88,-44.58,-338.13:99
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chr1 805603 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=239;Dels=0.00;HRun=0;HaplotypeScore=49.54;MQ=40.33;MQ0=6;OQ=1757.35;QD=7.35;SB=-559.93 GT:AD:DP:GL:GQ 0/1:109,130:154:-225.41,-46.39,-351.31:99
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chr1 805620 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=274;Dels=0.00;HRun=0;HaplotypeScore=50.16;MQ=37.51;MQ0=8;OQ=230.26;QD=0.84;SB=134.91 GT:AD:DP:GL:GQ 0/1:246,28:171:-77.81,-51.50,-552.70:99
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chr1 805666 . G A 1332.87 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=339;Dels=0.00;HRun=0;HaplotypeScore=203.60;MQ=35.75;MQ0=0;QD=3.93;SB=119.41 GT:AD:DP:GL:GQ 0/1:281,58:223:-203.73,-67.16,-610.84:99
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chr1 805667 . T G 1225.05 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=341;Dels=0.00;HRun=2;HaplotypeScore=286.55;MQ=35.76;MQ0=2;QD=3.59;SB=122.41 GT:AD:DP:GL:GQ 0/1:261,66:222:-230.10,-104.31,-623.63:99
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chr1 805699 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=311;Dels=0.00;HRun=0;HaplotypeScore=73.71;MQ=35.76;MQ0=12;OQ=1765.48;QD=5.68;SB=-47.39 GT:AD:DP:GL:GQ 0/1:139,171:182:-234.66,-54.83,-454.10:99
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chr1 805716 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=281;Dels=0.00;HRun=1;HaplotypeScore=131.75;MQ=37.99;MQ0=12;OQ=2170.35;QD=7.72;SB=-121.23 GT:AD:DP:GL:GQ 0/1:87,193:163:-269.41,-49.09,-357.63:99
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chr1 805720 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=282;Dels=0.00;HRun=0;HaplotypeScore=145.61;MQ=38.29;MQ0=13;OQ=527.98;QD=1.87;SB=137.43 GT:AD:DP:GL:GQ 0/1:237,44:165:-105.78,-49.70,-509.42:99
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chr1 805742 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=240;Dels=0.00;HRun=1;HaplotypeScore=47.83;MQ=40.90;MQ0=15;OQ=1225.89;QD=5.11;SB=-296.81 GT:AD:DP:GL:GQ 0/1:97,143:138:-167.44,-41.57,-348.72:99
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chr1 805786 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=0;HaplotypeScore=3.15;MQ=44.26;MQ0=7;OQ=155.59;QD=0.86;SB=-81.22 GT:AD:DP:GL:GQ 0/1:95,86:108:-51.37,-32.53,-383.93:99
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chr1 805792 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=0;HaplotypeScore=9.50;MQ=44.61;MQ0=6;OQ=192.56;QD=1.10;SB=-88.24 GT:AD:DP:GL:GQ 0/1:93,82:108:-55.07,-32.53,-377.29:99
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chr1 805825 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=165;Dels=0.00;HRun=0;HaplotypeScore=9.99;MQ=46.58;MQ0=3;OQ=327.36;QD=1.98;SB=-101.34 GT:AD:DP:GL:GQ 0/1:95,70:115:-70.67,-34.65,-378.60:99
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chr1 805831 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=154;Dels=0.00;HRun=0;HaplotypeScore=10.96;MQ=47.14;MQ0=3;OQ=324.94;QD=2.11;SB=-17.64 GT:AD:DP:GL:GQ 0/1:97,57:110:-68.91,-33.13,-331.34:99
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chr1 805897 . G T 104.51 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=0;HaplotypeScore=35.45;MQ=51.05;MQ0=2;QD=0.74;SB=119.34 GT:AD:DP:GL:GQ 0/1:121,19:121:-50.18,-36.44,-386.79:99
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chr1 805898 . C A 129.42 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=0;HaplotypeScore=35.61;MQ=51.05;MQ0=2;QD=0.91;SB=116.38 GT:AD:DP:GL:GQ 0/1:123,19:121:-52.67,-36.45,-375.35:99
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chr1 805905 . T G 13.51 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=0;HaplotypeScore=25.14;MQ=52.44;MQ0=2;QD=0.10;SB=92.42 GT:AD:DP:GL:GQ 0/1:98,32:107:-36.84,-32.23,-356.89:46.15
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chr1 806044 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=182;Dels=0.00;HRun=0;HaplotypeScore=16.71;MQ=40.59;MQ0=35;OQ=921.37;QD=5.06;SB=-438.60 GT:AD:DP:GL:GQ 0/1:71,111:106:-127.34,-31.92,-261.51:99
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chr1 806066 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=250;Dels=0.00;HRun=1;HaplotypeScore=9.43;MQ=37.37;MQ0=38;OQ=287.57;QD=1.15;SB=103.29 GT:AD:DP:GL:GQ 0/1:214,36:146:-76.01,-43.97,-467.77:99
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chr1 806081 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=255;Dels=0.00;HRun=0;HaplotypeScore=39.62;MQ=37.88;MQ0=27;OQ=908.24;QD=3.56;SB=97.71 GT:AD:DP:GL:GQ 0/1:178,77:158:-141.71,-47.60,-556.49:99
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chr1 806157 . T C 806.81 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=215;Dels=0.00;HRun=0;HaplotypeScore=71.06;MQ=40.64;MQ0=4;QD=3.75;SB=110.40 GT:AD:DP:GL:GQ 0/1:92,123:126:-121.92,-37.95,-368.73:99
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chr1 806159 . A C 141.17 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=219;Dels=0.00;HRun=0;HaplotypeScore=72.96;MQ=40.68;MQ0=4;QD=0.64;SB=110.38 GT:AD:DP:GL:GQ 0/1:166,49:128:-59.78,-42.38,-415.09:99
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chr1 806180 . A G 18.74 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=200;Dels=0.00;HRun=0;HaplotypeScore=59.33;MQ=41.65;MQ0=4;QD=0.09;SB=116.41 GT:AD:DP:GL:GQ 0/1:140,60:110:-38.29,-33.13,-408.92:51.52
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chr1 806197 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=201;Dels=0.00;HRun=1;HaplotypeScore=58.42;MQ=43.62;MQ0=5;OQ=190.94;QD=0.95;SB=134.47 GT:AD:DP:GL:GQ 0/1:110,91:116:-57.32,-34.94,-409.71:99
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chr1 806222 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=162;Dels=0.00;HRun=4;HaplotypeScore=6.94;MQ=47.96;MQ0=4;OQ=291.81;QD=1.80;SB=146.43 GT:AD:DP:GL:GQ 0/1:98,64:114:-66.80,-34.33,-354.69:99
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chr1 806232 . T A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=151;Dels=0.00;HRun=1;HaplotypeScore=11.98;MQ=49.02;MQ0=3;OQ=233.87;QD=1.55;SB=140.48 GT:AD:DP:GL:GQ 0/1:96,55:110:-59.80,-33.13,-362.79:99
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chr1 806258 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=162;Dels=0.00;HRun=0;HaplotypeScore=10.30;MQ=50.03;MQ0=8;OQ=407.17;QD=2.51;SB=100.40 GT:AD:DP:GL:GQ 0/1:106,56:126:-81.95,-37.95,-384.61:99
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chr1 806268 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=1;HaplotypeScore=25.82;MQ=48.78;MQ0=9;OQ=670.14;QD=4.09;SB=84.39 GT:AD:DP:GL:GQ 0/1:109,55:126:-108.24,-37.95,-362.57:99
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chr1 806273 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=170;Dels=0.00;HRun=0;HaplotypeScore=24.82;MQ=48.14;MQ0=9;OQ=549.55;QD=3.23;SB=88.59 GT:AD:DP:GL:GQ 0/1:119,51:130:-97.39,-39.15,-372.33:99
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chr1 806316 . T G 0.95 PASS AC=1;AF=0.50;AN=2;DP=225;Dels=0.00;HRun=0;HaplotypeScore=6.00;MQ=41.01;MQ0=11;OQ=1685.25;QD=7.49;SB=-248.74 GT:AD:DP:GL:GQ 0/1:86,139:148:-216.38,-44.57,-322.16:99
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chr1 806332 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=267;Dels=0.00;HRun=0;HaplotypeScore=118.47;MQ=40.66;MQ0=10;OQ=669.93;QD=2.51;SB=-242.01 GT:AD:DP:GL:GQ 0/1:204,61:176:-123.31,-53.03,-632.31:99
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chr1 806338 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=266;Dels=0.00;HRun=0;HaplotypeScore=122.42;MQ=40.64;MQ0=8;OQ=2439.01;QD=9.17;SB=-856.79 GT:AD:DP:GL:GQ 0/1:98,144:180:-333.38,-86.20,-389.89:99
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chr1 806349 . G A 3132.30 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=280;Dels=0.07;HRun=0;HaplotypeScore=186.48;MQ=39.25;MQ0=4;QD=11.19;SB=-1153.15 GT:AD:DP:GL:GQ 0/1:91,170:182:-371.34,-54.83,-329.61:99
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chr1 806378 rs61768241 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=371;Dels=0.00;HRun=0;HaplotypeScore=37.20;MQ=35.74;MQ0=10;OQ=1136.07;QD=3.06;SB=-392.71 GT:AD:DP:GL:GQ 0/1:284,87:244:-190.38,-73.49,-742.15:99
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chr1 806405 . A T 171.83 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=402;Dels=0.02;HRun=5;HaplotypeScore=383.28;MQ=34.90;MQ0=14;QD=0.43;SB=-100.81 GT:AD:DP:GL:GQ 0/1:350,43:240:-91.25,-70.78,-803.92:99
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chr1 806411 . A T 5745.19 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=405;Dels=0.00;HRun=5;HaplotypeScore=552.66;MQ=35.31;MQ0=14;QD=14.19;SB=-2306.85 GT:AD:DP:GL:GQ 0/1:102,301:243:-573.52,-72.58,-344.41:99
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chr1 806412 . A T 2395.75 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=407;Dels=0.00;HRun=0;HaplotypeScore=506.57;MQ=35.27;MQ0=14;QD=5.89;SB=-1049.34 GT:AD:DP:GL:GQ 0/1:219,186:244:-315.74,-72.89,-600.57:99
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chr1 806419 . G T 930.64 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=433;Dels=0.00;HRun=4;HaplotypeScore=220.68;MQ=34.42;MQ0=17;QD=2.15;SB=-419.01 GT:AD:DP:GL:GQ 0/1:342,91:258:-174.05,-77.70,-758.54:99
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chr1 806424 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=450;Dels=0.00;HRun=4;HaplotypeScore=249.41;MQ=33.94;MQ0=20;OQ=971.28;QD=2.16;SB=-437.51 GT:AD:DP:GL:GQ 0/1:358,92:263:-179.62,-79.21,-806.78:99
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chr1 806430 rs61768242 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=441;Dels=0.01;HRun=1;HaplotypeScore=160.65;MQ=34.18;MQ0=22;OQ=1511.20;QD=3.43;SB=-624.36 GT:AD:DP:GL:GQ 0/1:304,134:257:-231.81,-77.41,-730.64:99
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chr1 806460 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=368;Dels=0.01;HRun=0;HaplotypeScore=18.13;MQ=35.78;MQ0=21;OQ=826.67;QD=2.25;SB=-89.07 GT:AD:DP:GL:GQ 0/1:306,59:217:-150.70,-64.75,-660.76:99
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chr1 806471 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=290;Dels=0.00;HRun=0;HaplotypeScore=4.58;MQ=38.11;MQ0=12;OQ=2295.87;QD=7.92;SB=-836.85 GT:AD:DP:GL:GQ 0/1:88,202:166:-282.86,-49.99,-314.28:99
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chr1 806472 . T G 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=284;Dels=0.00;HRun=0;HaplotypeScore=4.58;MQ=38.55;MQ0=12;OQ=2108.07;QD=7.42;SB=-683.52 GT:AD:DP:GL:GQ 0/1:91,193:165:-263.78,-49.69,-338.75:99
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chr1 806498 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=2;HaplotypeScore=28.30;MQ=42.69;MQ0=9;OQ=436.81;QD=2.11;SB=-20.91 GT:AD:DP:GL:GQ 0/1:161,46:144:-90.38,-43.41,-400.65:99
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chr1 806543 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=195;Dels=0.00;HRun=1;HaplotypeScore=100.50;MQ=43.92;MQ0=14;OQ=975.93;QD=5.00;SB=-107.11 GT:AD:DP:GL:GQ 0/1:89,101:124:-149.49,-48.61,-281.82:99
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chr1 806545 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=211;Dels=0.00;HRun=0;HaplotypeScore=104.33;MQ=43.14;MQ0=16;OQ=1451.12;QD=6.88;SB=-262.10 GT:AD:DP:GL:GQ 0/1:103,108:137:-189.66,-41.27,-324.56:99
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chr1 806559 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=338;Dels=0.00;HRun=5;HaplotypeScore=96.33;MQ=38.72;MQ0=24;OQ=1155.72;QD=3.42;SB=-374.82 GT:AD:DP:GL:GQ 0/1:243,83:209:-199.57,-80.72,-560.52:99
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chr1 806579 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=382;Dels=0.00;HRun=0;HaplotypeScore=77.21;MQ=36.57;MQ0=25;OQ=319.95;QD=0.84;SB=31.35 GT:AD:DP:GL:GQ 0/1:306,63:241:-152.76,-117.48,-790.42:99
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chr1 806588 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=408;Dels=0.00;HRun=0;HaplotypeScore=158.67;MQ=35.58;MQ0=25;OQ=4390.20;QD=10.76;SB=-833.37 GT:AD:DP:GL:GQ 0/1:156,252:245:-438.02,-73.80,-510.93:99
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|
chr1 806591 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=423;Dels=0.00;HRun=0;HaplotypeScore=153.73;MQ=35.14;MQ0=25;OQ=116.80;QD=0.28;SB=22.12 GT:AD:DP:GL:GQ 0/1:359,64:250:-90.26,-75.29,-922.92:99
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chr1 806599 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=465;Dels=0.00;HRun=3;HaplotypeScore=92.78;MQ=34.88;MQ0=25;OQ=533.96;QD=1.15;SB=-62.62 GT:AD:DP:GL:GQ 0/1:398,67:259:-134.68,-78.00,-790.36:99
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chr1 806614 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=552;Dels=0.00;HRun=4;HaplotypeScore=128.97;MQ=33.43;MQ0=27;OQ=171.34;QD=0.31;SB=81.53 GT:AD:DP:GL:GQ 0/1:512,39:328:-122.57,-102.16,-1083.77:99
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chr1 806616 . A C 48.77 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=560;Dels=0.00;HRun=0;HaplotypeScore=145.79;MQ=33.35;MQ0=27;QD=0.09;SB=125.19 GT:AD:DP:GL:GQ 0/1:521,38:333:-108.15,-99.99,-1104.08:81.61
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chr1 806647 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=500;Dels=0.00;HRun=1;HaplotypeScore=106.37;MQ=33.16;MQ0=15;OQ=6479.54;QD=12.96;SB=-2653.75 GT:AD:DP:GL:GQ 0/1:87,413:252:-646.95,-75.89,-317.53:99
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chr1 806652 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=463;Dels=0.00;HRun=0;HaplotypeScore=119.18;MQ=33.47;MQ0=16;OQ=6167.91;QD=13.32;SB=-2596.35 GT:AD:DP:GL:GQ 0/1:76,386:224:-615.79,-67.46,-279.43:99
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|
chr1 806659 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=412;Dels=0.00;HRun=0;HaplotypeScore=138.09;MQ=33.68;MQ0=14;OQ=4821.66;QD=11.70;SB=-2064.94 GT:AD:DP:GL:GQ 0/1:127,285:208:-481.17,-62.64,-276.81:99
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chr1 806663 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=403;Dels=0.00;HRun=1;HaplotypeScore=116.74;MQ=34.29;MQ0=14;OQ=4902.23;QD=12.16;SB=-2019.44 GT:AD:DP:GL:GQ 0/1:76,327:212:-489.22,-63.85,-279.67:99
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|
chr1 806698 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=346;Dels=0.00;HRun=0;HaplotypeScore=104.08;MQ=36.06;MQ0=23;OQ=205.16;QD=0.59;SB=41.51 GT:AD:DP:GL:GQ 0/1:305,41:216:-88.85,-65.05,-740.73:99
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chr1 806719 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=212;Dels=0.00;HRun=0;HaplotypeScore=400.08;MQ=40.22;MQ0=20;OQ=582.43;QD=2.75;SB=89.75 GT:AD:DP:GL:GQ 0/1:145,66:134:-101.59,-40.07,-419.05:99
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chr1 806735 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=218;Dels=0.00;HRun=0;HaplotypeScore=24.14;MQ=41.77;MQ0=24;OQ=129.16;QD=0.59;SB=143.49 GT:AD:DP:GL:GQ 0/1:169,49:138:-57.78,-41.58,-482.40:99
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chr1 806755 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=213;Dels=0.00;HRun=0;HaplotypeScore=72.66;MQ=42.05;MQ0=23;OQ=1702.34;QD=7.99;SB=-97.29 GT:AD:DP:GL:GQ 0/1:86,127:148:-218.09,-44.57,-348.93:99
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chr1 806758 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=212;Dels=0.00;HRun=0;HaplotypeScore=66.82;MQ=42.51;MQ0=24;OQ=101.05;QD=0.48;SB=140.48 GT:AD:DP:GL:GQ 0/1:180,31:147:-57.67,-44.28,-533.12:99
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chr1 806774 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=188;Dels=0.00;HRun=0;HaplotypeScore=33.98;MQ=43.76;MQ0=28;OQ=1370.17;QD=7.29;SB=4.43 GT:AD:DP:GL:GQ 0/1:94,94:136:-181.26,-40.96,-326.53:99
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chr1 806807 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=247;Dels=0.00;HRun=1;HaplotypeScore=84.17;MQ=41.43;MQ0=32;OQ=1901.04;QD=7.70;SB=-364.66 GT:AD:DP:GL:GQ 0/1:93,133:161:-255.61,-62.23,-399.73:99
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chr1 806819 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=264;Dels=0.00;HRun=1;HaplotypeScore=51.78;MQ=39.46;MQ0=35;OQ=117.55;QD=0.45;SB=-52.87 GT:AD:DP:GL:GQ 0/1:235,29:167:-65.33,-50.29,-569.53:99
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chr1 806835 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=278;Dels=0.00;HRun=0;HaplotypeScore=24.93;MQ=38.15;MQ0=32;OQ=3184.79;QD=11.46;SB=-1086.54 GT:AD:DP:GL:GQ 0/1:75,203:179:-375.67,-53.91,-276.38:99
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chr1 806857 . A G 426.69 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=388;Dels=0.00;HRun=0;HaplotypeScore=416.26;MQ=36.42;MQ0=33;QD=1.10;SB=-205.00 GT:AD:DP:GL:GQ 0/1:336,52:260:-124.27,-78.32,-915.07:99
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chr1 806858 . A C 2180.12 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=390;Dels=0.00;HRun=1;HaplotypeScore=419.10;MQ=36.36;MQ0=33;QD=5.59;SB=-410.18 GT:AD:DP:GL:GQ 0/1:135,134:259:-523.35,-302.06,-691.29:99
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chr1 806860 . T C 364.40 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=414;Dels=0.02;HRun=1;HaplotypeScore=391.10;MQ=36.35;MQ0=33;QD=0.88;SB=-200.49 GT:AD:DP:GL:GQ 0/1:360,44:277:-126.33,-86.61,-1004.70:99
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chr1 806864 . G A 1874.70 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=430;Dels=0.00;HRun=0;HaplotypeScore=443.75;MQ=36.02;MQ0=32;QD=4.36;SB=-378.35 GT:AD:DP:GL:GQ 0/1:340,90:284:-276.29,-85.54,-766.79:99
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chr1 806872 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=439;Dels=0.00;HRun=3;HaplotypeScore=61.91;MQ=35.95;MQ0=27;OQ=241.94;QD=0.55;SB=-56.85 GT:AD:DP:GL:GQ 0/1:394,45:294:-116.03,-88.55,-994.05:99
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chr1 806914 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=433;Dels=0.00;HRun=1;HaplotypeScore=82.84;MQ=36.13;MQ0=15;OQ=91.45;QD=0.21;SB=145.33 GT:AD:DP:GL:GQ 0/1:380,53:292:-100.38,-87.95,-1073.99:99
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chr1 806929 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=394;Dels=0.00;HRun=1;HaplotypeScore=53.78;MQ=36.16;MQ0=12;OQ=628.62;QD=1.60;SB=165.96 GT:AD:DP:GL:GQ 0/1:300,94:257:-143.55,-77.40,-778.57:99
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chr1 806933 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=384;Dels=0.00;HRun=1;HaplotypeScore=52.56;MQ=36.30;MQ0=13;OQ=624.21;QD=1.63;SB=148.11 GT:AD:DP:GL:GQ 0/1:298,86:253:-141.91,-76.20,-801.85:99
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chr1 807097 rs4970387 A T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=141;Dels=0.00;HRun=4;HaplotypeScore=35.71;MQ=49.47;MQ0=9;OQ=3569.50;QD=25.32;SB=-1647.14 GT:AD:DP:GL:GQ 1/1:0,141:95:-355.95,-28.62,-0.03:99
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chr1 807120 . C T 28.74 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=148;Dels=0.00;HRun=5;HaplotypeScore=8.47;MQ=47.00;MQ0=10;QD=0.19;SB=107.30 GT:AD:DP:GL:GQ 0/1:82,66:90:-33.27,-27.11,-295.41:61.57
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chr1 807127 . C G 240.31 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=0;HaplotypeScore=32.57;MQ=46.64;MQ0=10;QD=1.61;SB=107.38 GT:AD:DP:GL:GQ 0/1:80,69:92:-55.04,-27.72,-340.23:99
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chr1 807132 . T C 652.10 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=152;Dels=0.00;HRun=1;HaplotypeScore=41.20;MQ=46.24;MQ0=10;QD=4.29;SB=107.38 GT:AD:DP:GL:GQ 0/1:77,75:102:-99.22,-30.73,-310.86:99
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chr1 807136 . C A 59.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=162;Dels=0.00;HRun=2;HaplotypeScore=75.46;MQ=45.64;MQ0=10;QD=0.36;SB=6.21 GT:AD:DP:GL:GQ 0/1:135,27:108:-41.72,-32.53,-330.47:91.87
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chr1 807137 . T G 132.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=0;HaplotypeScore=74.46;MQ=45.79;MQ0=10;QD=0.83;SB=113.39 GT:AD:DP:GL:GQ 0/1:140,19:114:-50.84,-34.34,-356.98:99
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chr1 807144 . G C 321.19 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=0;HaplotypeScore=33.44;MQ=44.89;MQ0=10;QD=1.96;SB=17.66 GT:AD:DP:GL:GQ 0/1:131,27:122:-82.39,-46.99,-445.41:99
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chr1 807168 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=0;HaplotypeScore=236.47;MQ=42.45;MQ0=9;OQ=1209.57;QD=6.91;SB=-394.74 GT:AD:DP:GL:GQ 0/1:124,51:131:-163.71,-39.47,-414.74:99
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chr1 807169 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=262.45;MQ=42.56;MQ0=9;OQ=108.48;QD=0.61;SB=74.80 GT:AD:DP:GL:GQ 0/1:162,17:135:-54.79,-40.66,-456.43:99
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chr1 807188 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=186;Dels=0.01;HRun=8;HaplotypeScore=227.66;MQ=43.88;MQ0=1;OQ=1264.52;QD=6.80;SB=-460.79 GT:AD:DP:GL:GQ 0/1:118,67:149:-174.32,-44.58,-377.47:99
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chr1 807190 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=185;Dels=0.00;HRun=0;HaplotypeScore=246.34;MQ=43.75;MQ0=1;OQ=529.31;QD=2.86;SB=137.46 GT:AD:DP:GL:GQ 0/1:148,37:145:-99.89,-43.67,-443.33:99
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chr1 807204 . A C 36.37 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=188;Dels=0.00;HRun=0;HaplotypeScore=12.98;MQ=42.45;MQ0=6;QD=0.19;SB=109.90 GT:AD:DP:GL:GQ 0/1:167,21:153:-53.00,-46.08,-519.54:69.21
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chr1 807245 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=165;Dels=0.00;HRun=1;HaplotypeScore=17.90;MQ=38.97;MQ0=18;OQ=1145.58;QD=6.94;SB=-550.34 GT:AD:DP:GL:GQ 0/1:87,78:121:-154.28,-36.44,-312.35:99
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chr1 807259 . G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=152;Dels=0.00;HRun=1;HaplotypeScore=3.00;MQ=39.36;MQ0=20;OQ=646.71;QD=4.25;SB=-192.93 GT:AD:DP:GL:GQ 0/1:96,56:108:-100.48,-32.53,-300.21:99
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chr1 807350 rs4082611 G A 0.14 PASS AC=1;AF=0.50;AN=2;DB;DP=152;Dels=0.00;HRun=0;HaplotypeScore=9.97;MQ=44.42;MQ0=8;OQ=866.67;QD=5.70;SB=98.31 GT:AD:DP:GL:GQ 0/1:80,69:106:-125.51,-35.56,-282.07:99
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chr1 807353 . C A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=0;HaplotypeScore=8.92;MQ=43.77;MQ0=8;OQ=867.33;QD=5.45;SB=95.29 GT:AD:DP:GL:GQ 0/1:76,83:108:-122.54,-32.52,-265.26:99
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chr1 807384 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=204;Dels=0.00;HRun=0;HaplotypeScore=61.52;MQ=40.31;MQ0=13;OQ=503.09;QD=2.47;SB=116.39 GT:AD:DP:GL:GQ 0/1:145,57:132:-93.37,-39.78,-338.75:99
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chr1 807385 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=1;HaplotypeScore=61.52;MQ=40.32;MQ0=13;OQ=1779.01;QD=8.76;SB=73.73 GT:AD:DP:GL:GQ 0/1:76,126:131:-220.64,-39.46,-278.09:99
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chr1 807400 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=243;Dels=0.00;HRun=1;HaplotypeScore=26.31;MQ=38.88;MQ0=12;OQ=2472.80;QD=10.18;SB=76.74 GT:AD:DP:GL:GQ 0/1:81,162:155:-297.25,-46.69,-297.33:99
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chr1 807412 rs4082610 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=262;Dels=0.00;HRun=4;HaplotypeScore=30.19;MQ=38.31;MQ0=9;OQ=2516.42;QD=9.60;SB=119.38 GT:AD:DP:GL:GQ 0/1:109,153:168:-305.53,-50.60,-311.50:99
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chr1 807432 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=262;Dels=0.00;HRun=0;HaplotypeScore=25.55;MQ=38.32;MQ0=6;OQ=4433.84;QD=16.92;SB=-160.81 GT:AD:DP:GL:GQ 0/1:80,182:176:-442.38,-53.03,-343.20:99
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chr1 807469 . C T 416.75 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=210;Dels=0.00;HRun=0;HaplotypeScore=92.28;MQ=41.14;MQ0=1;QD=1.98;SB=-49.34 GT:AD:DP:GL:GQ 0/1:84,126:97:-74.18,-29.22,-280.73:99
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chr1 807471 . A C 318.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=213;Dels=0.00;HRun=2;HaplotypeScore=90.45;MQ=41.29;MQ0=1;QD=1.49;SB=-31.35 GT:AD:DP:GL:GQ 0/1:85,128:99:-64.91,-29.81,-297.50:99
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chr1 807475 . C T 356.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=213;Dels=0.00;HRun=0;HaplotypeScore=174.77;MQ=40.93;MQ0=2;QD=1.67;SB=-36.29 GT:AD:DP:GL:GQ 0/1:85,128:101:-69.35,-30.45,-273.00:99
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chr1 807484 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=215;Dels=0.00;HRun=1;HaplotypeScore=266.19;MQ=40.31;MQ0=2;OQ=100.09;QD=0.47;SB=95.09 GT:AD:DP:GL:GQ 0/1:168,47:127:-51.55,-38.26,-450.15:99
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chr1 807508 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=185;Dels=0.00;HRun=1;HaplotypeScore=7.00;MQ=41.28;MQ0=4;OQ=211.72;QD=1.14;SB=90.69 GT:AD:DP:GL:GQ 0/1:142,43:119:-60.30,-35.84,-379.49:99
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chr1 807527 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=161;Dels=0.00;HRun=2;HaplotypeScore=9.95;MQ=41.68;MQ0=7;OQ=177.85;QD=1.10;SB=146.44 GT:AD:DP:GL:GQ 0/1:119,42:108:-53.60,-32.53,-346.10:99
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chr1 807556 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=137;Dels=0.00;HRun=1;HaplotypeScore=66.91;MQ=41.77;MQ0=6;OQ=532.40;QD=3.89;SB=-236.01 GT:AD:DP:GL:GQ 0/1:68,69:85:-82.13,-25.60,-230.23:99
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chr1 807561 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=140;Dels=0.00;HRun=0;HaplotypeScore=70.93;MQ=41.65;MQ0=7;OQ=124.65;QD=0.89;SB=101.32 GT:AD:DP:GL:GQ 0/1:96,44:87:-41.95,-26.20,-282.69:99
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chr1 807571 rs34106744 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=135;Dels=0.00;HRun=3;HaplotypeScore=33.63;MQ=41.31;MQ0=9;OQ=377.46;QD=2.80;SB=-157.65 GT:AD:DP:GL:GQ 0/1:62,73:80:-65.12,-24.09,-230.06:99
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chr1 807588 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=0;HaplotypeScore=29.86;MQ=39.35;MQ0=12;OQ=1527.96;QD=9.32;SB=-255.65 GT:AD:DP:GL:GQ 0/1:60,104:105:-187.72,-31.65,-191.88:99
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chr1 807611 . G C 0.98 PASS AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=0;HaplotypeScore=7.78;MQ=38.64;MQ0=13;OQ=1984.90;QD=11.81;SB=-213.08 GT:AD:DP:GL:GQ 0/1:60,108:111:-235.21,-33.44,-245.33:99
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chr1 807628 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=194;Dels=0.00;HRun=0;HaplotypeScore=15.09;MQ=38.17;MQ0=13;OQ=1889.96;QD=9.74;SB=-59.93 GT:AD:DP:GL:GQ 0/1:68,126:123:-229.33,-37.05,-239.27:99
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chr1 807662 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=324;Dels=0.00;HRun=0;HaplotypeScore=5.25;MQ=35.02;MQ0=24;OQ=5029.36;QD=15.52;SB=-1355.57 GT:AD:DP:GL:GQ 0/1:79,245:206:-501.94,-62.04,-299.38:99
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chr1 807698 rs61768243 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=413;Dels=0.00;HRun=1;HaplotypeScore=119.83;MQ=33.65;MQ0=41;OQ=7356.92;QD=17.81;SB=-2911.42 GT:AD:DP:GL:GQ 0/1:85,328:252:-734.69,-75.92,-368.28:99
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chr1 807726 rs61768244 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=451;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=33.55;MQ0=36;OQ=2315.76;QD=5.13;SB=-928.19 GT:AD:DP:GL:GQ 0/1:303,148:263:-314.08,-79.22,-727.35:99
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chr1 807759 rs4034377 A C 755.20 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=336;Dels=0.00;HRun=0;HaplotypeScore=236.06;MQ=33.74;MQ0=39;QD=2.25;SB=-109.97 GT:AD:DP:GL:GQ 0/1:260,76:175:-131.50,-52.70,-521.92:99
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chr1 807761 . A G 2451.79 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=328;Dels=0.00;HRun=0;HaplotypeScore=310.08;MQ=33.84;MQ0=39;QD=7.47;SB=-739.45 GT:AD:DP:GL:GQ 0/1:164,163:171:-299.96,-51.50,-359.62:99
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chr1 807766 rs3969819 A C 564.07 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=320;Dels=0.00;HRun=0;HaplotypeScore=284.38;MQ=33.76;MQ0=45;QD=1.76;SB=-303.05 GT:AD:DP:GL:GQ 0/1:266,53:164:-109.08,-49.39,-509.36:99
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chr1 807787 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=301;Dels=0.00;HRun=1;HaplotypeScore=10.94;MQ=35.09;MQ0=34;OQ=678.04;QD=2.25;SB=50.87 GT:AD:DP:GL:GQ 0/1:179,122:124:-108.43,-37.34,-358.12:99
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chr1 807799 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=330;Dels=0.00;HRun=1;HaplotypeScore=46.01;MQ=35.31;MQ0=34;OQ=1300.39;QD=3.94;SB=-358.87 GT:AD:DP:GL:GQ 0/1:191,139:161:-181.81,-48.48,-410.83:99
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chr1 807817 rs4034379 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=305;Dels=0.00;HRun=0;HaplotypeScore=40.59;MQ=36.43;MQ0=47;OQ=1097.69;QD=3.60;SB=-508.19 GT:AD:DP:GL:GQ 0/1:205,100:154:-159.44,-46.39,-521.49:99
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chr1 807831 rs4034380 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=324;Dels=0.00;HRun=0;HaplotypeScore=53.25;MQ=36.07;MQ0=54;OQ=860.18;QD=2.65;SB=-52.35 GT:AD:DP:GL:GQ 0/1:235,89:165:-139.00,-49.70,-477.57:99
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chr1 807843 rs61768247 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=340;Dels=0.00;HRun=3;HaplotypeScore=25.24;MQ=35.61;MQ0=59;OQ=2917.98;QD=8.58;SB=-1176.92 GT:AD:DP:GL:GQ 0/1:93,247:179:-348.99,-53.91,-340.62:99
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chr1 807878 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=340;Dels=0.00;HRun=3;HaplotypeScore=1.68;MQ=33.99;MQ0=59;OQ=2636.13;QD=7.75;SB=-1148.59 GT:AD:DP:GL:GQ 0/1:141,199:182:-321.71,-54.82,-379.20:99
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chr1 807900 rs61768248 A G 107.46 PASS AC=1;AF=0.50;AN=2;DB;DP=254;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=36.51;MQ0=52;OQ=2423.92;QD=9.54;SB=-510.71 GT:AD:DP:GL:GQ 0/1:72,182:155:-292.36,-46.69,-288.83:99
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chr1 807921 rs4034381 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=238;Dels=0.00;HRun=0;HaplotypeScore=52.91;MQ=37.12;MQ0=38;OQ=730.38;QD=3.07;SB=87.15 GT:AD:DP:GL:GQ 0/1:169,69:152:-122.12,-45.80,-464.61:99
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chr1 807923 rs2311679 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=238;Dels=0.00;HRun=1;HaplotypeScore=53.91;MQ=36.90;MQ0=37;OQ=150.90;QD=0.63;SB=114.49 GT:AD:DP:GL:GQ 0/1:205,33:149:-63.25,-44.87,-483.89:99
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chr1 807940 rs61768249 C T 132.32 PASS AC=1;AF=0.50;AN=2;DB;DP=201;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=39.52;MQ0=18;OQ=2365.28;QD=11.77;SB=-227.57 GT:AD:DP:GL:GQ 0/1:70,131:135:-280.47,-40.66,-242.20:99
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chr1 807969 . G T 0.34 PASS AC=1;AF=0.50;AN=2;DP=201;Dels=0.00;HRun=0;HaplotypeScore=3.99;MQ=40.13;MQ0=16;OQ=852.49;QD=4.24;SB=25.59 GT:AD:DP:GL:GQ 0/1:139,62:138:-130.10,-41.57,-369.51:99
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chr1 807986 . G A 410.65 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=191;Dels=0.00;HRun=0;HaplotypeScore=37.75;MQ=40.61;MQ0=11;QD=2.15;SB=32.93 GT:AD:DP:GL:GQ 0/1:73,117:91:-71.78,-27.44,-235.41:99
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chr1 807989 . A G 41.79 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=1;HaplotypeScore=63.74;MQ=41.32;MQ0=11;QD=0.24;SB=71.44 GT:AD:DP:GL:GQ 0/1:71,104:80:-31.56,-24.09,-295.20:74.62
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chr1 807990 . G T 63.48 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=1;HaplotypeScore=63.74;MQ=41.32;MQ0=11;QD=0.36;SB=71.41 GT:AD:DP:GL:GQ 0/1:71,104:79:-33.42,-23.79,-250.10:96.32
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chr1 808001 rs2311681 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=186;Dels=0.00;HRun=1;HaplotypeScore=145.95;MQ=39.96;MQ0=12;OQ=189.55;QD=1.02;SB=-28.87 GT:AD:DP:GL:GQ 0/1:68,100:81:-53.53,-31.29,-271.83:99
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chr1 808002 . C T 30.08 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=188;Dels=0.00;HRun=1;HaplotypeScore=147.95;MQ=39.81;MQ0=12;QD=0.16;SB=5.97 GT:AD:DP:GL:GQ 0/1:124,64:83:-31.29,-25.00,-266.30:62.91
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chr1 808027 rs3969820 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=178;Dels=0.00;HRun=0;HaplotypeScore=57.38;MQ=38.17;MQ0=19;OQ=723.18;QD=4.06;SB=-165.45 GT:AD:DP:GL:GQ 0/1:134,44:108:-108.14,-32.53,-287.08:99
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chr1 808030 . A G 1086.71 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=167;Dels=0.00;HRun=0;HaplotypeScore=42.92;MQ=38.47;MQ0=18;QD=6.51;SB=-568.31 GT:AD:DP:GL:GQ 0/1:57,109:99:-141.80,-29.84,-220.97:99
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chr1 808043 . A G 970.86 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=1;HaplotypeScore=39.52;MQ=39.24;MQ0=20;QD=6.11;SB=-490.82 GT:AD:DP:GL:GQ 0/1:58,101:92:-128.08,-27.71,-229.15:99
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chr1 808058 rs4068670 A G 19.55 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=148;Dels=0.00;HRun=0;HaplotypeScore=41.67;MQ=39.19;MQ0=26;QD=0.13;SB=-33.62 GT:AD:DP:GL:GQ 0/1:54,74:61:-37.68,-32.44,-211.21:52.34
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chr1 808064 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=133;Dels=0.00;HRun=1;HaplotypeScore=40.55;MQ=38.61;MQ0=24;OQ=246.33;QD=1.85;SB=-81.77 GT:AD:DP:GL:GQ 0/1:48,85:54:-44.19,-16.27,-162.59:99
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chr1 808071 . C T 20.12 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=40.24;MQ=40.16;MQ0=22;QD=0.15;SB=14.54 GT:AD:DP:GL:GQ 0/1:54,82:58:-22.76,-17.47,-182.75:52.91
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chr1 808112 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=227;Dels=0.00;HRun=2;HaplotypeScore=125.36;MQ=37.91;MQ0=32;OQ=1776.62;QD=7.83;SB=-160.46 GT:AD:DP:GL:GQ 0/1:73,153:125:-218.60,-37.66,-274.51:99
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chr1 808131 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=257;Dels=0.00;HRun=1;HaplotypeScore=46.49;MQ=37.72;MQ0=22;OQ=2127.72;QD=8.28;SB=-282.13 GT:AD:DP:GL:GQ 0/1:106,150:146:-260.04,-43.99,-307.83:99
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chr1 808143 rs2871830 A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=266;Dels=0.00;HRun=0;HaplotypeScore=22.61;MQ=37.96;MQ0=21;OQ=255.61;QD=0.96;SB=23.44 GT:AD:DP:GL:GQ 0/1:214,51:151:-74.35,-45.50,-504.23:99
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chr1 808170 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=251;Dels=0.00;HRun=1;HaplotypeScore=39.92;MQ=39.75;MQ0=13;OQ=386.02;QD=1.54;SB=116.39 GT:AD:DP:GL:GQ 0/1:201,50:155:-88.58,-46.69,-468.07:99
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chr1 808187 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=220;Dels=0.00;HRun=7;HaplotypeScore=162.06;MQ=41.27;MQ0=11;OQ=363.00;QD=1.65;SB=17.72 GT:AD:DP:GL:GQ 0/1:176,44:136:-80.56,-40.98,-399.39:99
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chr1 808189 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=216;Dels=0.00;HRun=0;HaplotypeScore=288.29;MQ=41.39;MQ0=11;OQ=708.25;QD=3.28;SB=-149.01 GT:AD:DP:GL:GQ 0/1:142,53:138:-146.61,-72.50,-410.59:99
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chr1 808297 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=196;Dels=0.00;HRun=0;HaplotypeScore=21.45;MQ=38.78;MQ0=17;OQ=1228.84;QD=6.27;SB=-563.99 GT:AD:DP:GL:GQ 0/1:75,120:104:-157.52,-31.35,-213.62:99
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chr1 808336 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=282;Dels=0.00;HRun=1;HaplotypeScore=34.12;MQ=34.50;MQ0=28;OQ=414.84;QD=1.47;SB=-185.55 GT:AD:DP:GL:GQ 0/1:228,54:155:-91.47,-46.70,-585.75:99
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chr1 808347 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=278;Dels=0.00;HRun=0;HaplotypeScore=78.29;MQ=34.29;MQ0=30;OQ=600.10;QD=2.16;SB=-67.28 GT:AD:DP:GL:GQ 0/1:221,39:151:-138.41,-75.12,-545.71:99
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chr1 808349 rs61768250 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=274;Dels=0.00;HRun=0;HaplotypeScore=172.09;MQ=34.47;MQ0=30;OQ=2858.46;QD=10.43;SB=-822.44 GT:AD:DP:GL:GQ 0/1:82,190:149:-334.02,-44.89,-232.77:99
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chr1 808359 . C T 950.38 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=269;Dels=0.00;HRun=0;HaplotypeScore=192.43;MQ=34.52;MQ0=31;QD=3.53;SB=-243.11 GT:AD:DP:GL:GQ 0/1:178,83:148:-142.90,-44.58,-399.15:99
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chr1 808362 . G A 76.04 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=271;Dels=0.00;HRun=0;HaplotypeScore=113.80;MQ=34.64;MQ0=30;QD=0.28;SB=96.15 GT:AD:DP:GL:GQ 0/1:234,29:151:-56.37,-45.49,-495.71:99
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chr1 808363 . C A 14.91 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=279;Dels=0.00;HRun=0;HaplotypeScore=113.80;MQ=34.60;MQ0=34;QD=0.05;SB=125.29 GT:AD:DP:GL:GQ 0/1:250,29:157:-52.05,-47.29,-518.11:47.61
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chr1 808367 . G A 731.54 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=290;Dels=0.00;HRun=0;HaplotypeScore=120.25;MQ=34.34;MQ0=33;QD=2.52;SB=-82.29 GT:AD:DP:GL:GQ 0/1:229,61:165:-126.14,-49.70,-491.32:99
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chr1 808394 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=235;Dels=0.00;HRun=0;HaplotypeScore=10.16;MQ=37.74;MQ0=26;OQ=126.55;QD=0.54;SB=56.98 GT:AD:DP:GL:GQ 0/1:188,47:147:-60.25,-44.31,-434.17:99
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chr1 808413 . T G 317.98 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=2;HaplotypeScore=72.86;MQ=40.13;MQ0=20;QD=1.94;SB=-24.43 GT:AD:DP:GL:GQ 0/1:121,43:105:-66.71,-31.62,-317.98:99
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chr1 808417 . G A 68.93 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=0;HaplotypeScore=67.03;MQ=42.13;MQ0=16;QD=0.46;SB=83.26 GT:AD:DP:GL:GQ 0/1:135,13:103:-41.21,-31.03,-340.99:99
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chr1 808421 . G A 1042.35 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=135;Dels=0.00;HRun=0;HaplotypeScore=46.56;MQ=44.72;MQ0=15;QD=7.72;SB=-112.51 GT:AD:DP:GL:GQ 0/1:67,68:99:-137.34,-29.83,-234.94:99
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chr1 808447 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=2;HaplotypeScore=11.26;MQ=49.75;MQ0=9;OQ=392.50;QD=3.54;SB=-21.38 GT:AD:DP:GL:GQ 0/1:71,40:86:-68.46,-25.93,-223.10:99
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chr1 808451 . A T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=1;HaplotypeScore=9.78;MQ=50.21;MQ0=9;OQ=368.72;QD=3.29;SB=-63.61 GT:AD:DP:GL:GQ 0/1:73,39:88:-66.66,-26.51,-263.45:99
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chr1 808566 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=0;HaplotypeScore=42.07;MQ=40.72;MQ0=9;OQ=262.25;QD=1.45;SB=83.19 GT:AD:DP:GL:GQ 0/1:73,108:86:-55.43,-25.93,-233.09:99
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chr1 808594 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=249;Dels=0.00;HRun=0;HaplotypeScore=18.85;MQ=37.64;MQ0=16;OQ=690.50;QD=2.77;SB=110.37 GT:AD:DP:GL:GQ 0/1:80,169:110:-105.47,-33.14,-280.23:99
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chr1 808641 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=283;Dels=0.00;HRun=1;HaplotypeScore=21.83;MQ=33.64;MQ0=19;OQ=2063.93;QD=7.29;SB=28.04 GT:AD:DP:GL:GQ 0/1:72,211:133:-249.73,-40.06,-265.59:99
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chr1 808664 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=245;Dels=0.00;HRun=1;HaplotypeScore=236.43;MQ=34.77;MQ0=16;OQ=159.51;QD=0.65;SB=12.22 GT:AD:DP:GL:GQ 0/1:197,22:147:-105.83,-86.60,-492.17:99
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chr1 808677 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=233;Dels=0.00;HRun=0;HaplotypeScore=83.64;MQ=35.28;MQ0=11;OQ=206.00;QD=0.88;SB=113.55 GT:AD:DP:GL:GQ 0/1:190,43:144:-67.26,-43.38,-499.53:99
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chr1 808728 . C A 203.60 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=1;HaplotypeScore=31.96;MQ=45.04;MQ0=12;QD=1.82;SB=15.39 GT:AD:DP:GL:GQ 0/1:87,25:80:-47.74,-24.10,-238.32:99
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chr1 808731 . C T 444.24 SnpCluster AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=24.97;MQ=46.65;MQ0=11;QD=4.04;SB=-165.40 GT:AD:DP:GL:GQ 0/1:69,41:86:-73.64,-25.93,-224.50:99
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chr1 808732 . G A 408.16 SnpCluster AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=24.97;MQ=46.65;MQ0=11;QD=3.71;SB=-130.98 GT:AD:DP:GL:GQ 0/1:69,41:85:-69.72,-25.62,-220.30:99
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chr1 808802 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=0;HaplotypeScore=47.94;MQ=46.85;MQ0=10;OQ=50.85;QD=0.45;SB=55.37 GT:AD:DP:GL:GQ 0/1:67,39:74:-30.66,-22.29,-262.89:83.69
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chr1 808813 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=0;HaplotypeScore=9.12;MQ=42.90;MQ0=8;OQ=68.22;QD=0.48;SB=65.92 GT:AD:DP:GL:GQ 0/1:121,22:85:-35.73,-25.62,-328.85:99
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chr1 808837 . A G 640.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=187;Dels=0.00;HRun=0;HaplotypeScore=190.29;MQ=37.94;MQ0=4;QD=3.42;SB=66.67 GT:AD:DP:GL:GQ 0/1:64,123:88:-93.80,-26.51,-252.52:99
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chr1 808839 . G A 725.93 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=188;Dels=0.01;HRun=3;HaplotypeScore=118.63;MQ=37.90;MQ0=4;QD=3.86;SB=63.76 GT:AD:DP:GL:GQ 0/1:65,112:89:-102.68,-26.81,-229.73:99
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chr1 808842 . A G 234.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=195;Dels=0.00;HRun=1;HaplotypeScore=215.12;MQ=37.45;MQ0=5;QD=1.20;SB=62.67 GT:AD:DP:GL:GQ 0/1:152,43:87:-52.93,-26.20,-300.50:99
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chr1 808844 . C A 211.39 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=194;Dels=0.00;HRun=1;HaplotypeScore=139.43;MQ=37.30;MQ0=5;QD=1.09;SB=62.33 GT:AD:DP:GL:GQ 0/1:151,43:87:-50.63,-26.20,-257.94:99
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chr1 808878 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=228;Dels=0.00;HRun=0;HaplotypeScore=11.87;MQ=35.54;MQ0=6;OQ=484.59;QD=2.13;SB=67.42 GT:AD:DP:GL:GQ 0/1:69,159:88:-78.25,-26.50,-268.80:99
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chr1 808900 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=211;Dels=0.00;HRun=0;HaplotypeScore=53.01;MQ=34.26;MQ0=7;OQ=319.52;QD=1.51;SB=101.36 GT:AD:DP:GL:GQ 0/1:68,143:78:-58.73,-23.49,-234.89:99
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chr1 808952 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=0;HaplotypeScore=8.99;MQ=30.36;MQ0=16;OQ=684.75;QD=4.08;SB=-303.13 GT:AD:DP:GL:GQ 0/1:69,99:91:-99.17,-27.41,-260.34:99
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chr1 808969 rs57185426 C T 0.56 PASS AC=1;AF=0.50;AN=2;DB;DP=167;Dels=0.00;HRun=0;HaplotypeScore=6.98;MQ=27.19;MQ0=22;OQ=1308.35;QD=7.83;SB=-543.36 GT:AD:DP:GL:GQ 0/1:64,103:97:-163.35,-29.23,-183.79:99
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chr1 809028 rs61768251 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=152;Dels=0.00;HRun=0;HaplotypeScore=24.74;MQ=37.22;MQ0=19;OQ=1197.89;QD=7.88;SB=-487.91 GT:AD:DP:GL:GQ 0/1:69,83:107:-155.31,-32.23,-252.53:99
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chr1 809058 . T C 0.11 PASS AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=4.46;MQ=47.89;MQ0=8;OQ=300.60;QD=2.95;SB=-111.38 GT:AD:DP:GL:GQ 0/1:71,31:84:-58.65,-25.31,-262.00:99
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chr1 809087 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=12.78;MQ=44.45;MQ0=38;OQ=174.63;QD=1.20;SB=29.35 GT:AD:DP:GL:GQ 0/1:79,66:90:-47.85,-27.11,-283.45:99
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chr1 809147 . A G 708.22 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=385;Dels=0.00;HRun=0;HaplotypeScore=142.43;MQ=32.08;MQ0=67;QD=1.84;SB=-338.08 GT:AD:DP:GL:GQ 0/1:273,112:167:-124.42,-50.31,-531.00:99
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chr1 809152 . A G 2828.87 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=380;Dels=0.00;HRun=0;HaplotypeScore=142.28;MQ=32.36;MQ0=64;QD=7.44;SB=-821.16 GT:AD:DP:GL:GQ 0/1:76,304:165:-335.87,-49.70,-295.78:99
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chr1 809155 . G A 906.28 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=379;Dels=0.00;HRun=1;HaplotypeScore=107.83;MQ=32.25;MQ0=64;QD=2.39;SB=-437.76 GT:AD:DP:GL:GQ 0/1:271,108:165:-143.61,-49.69,-484.11:99
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chr1 809196 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=249;Dels=0.00;HRun=2;HaplotypeScore=63.80;MQ=34.67;MQ0=22;OQ=1194.90;QD=4.80;SB=-269.68 GT:AD:DP:GL:GQ 0/1:67,182:101:-153.20,-30.42,-236.52:99
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chr1 809260 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=41.08;MQ0=8;OQ=376.66;QD=3.30;SB=116.36 GT:AD:DP:GL:GQ 0/1:80,34:93:-68.96,-28.01,-266.36:99
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chr1 809273 . T C 463.34 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=121;Dels=0.00;HRun=0;HaplotypeScore=8.66;MQ=40.73;MQ0=7;QD=3.83;SB=119.42 GT:AD:DP:GL:GQ 0/1:85,36:100:-79.74,-30.12,-319.61:99
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chr1 809278 . T A 448.40 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=125;Dels=0.00;HRun=0;HaplotypeScore=9.66;MQ=40.70;MQ0=10;QD=3.59;SB=128.40 GT:AD:DP:GL:GQ 0/1:95,30:101:-78.54,-30.42,-301.76:99
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chr1 809279 . C A 472.08 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=0;HaplotypeScore=9.66;MQ=40.57;MQ0=10;QD=3.72;SB=128.43 GT:AD:DP:GL:GQ 0/1:97,30:103:-81.51,-31.02,-300.46:99
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chr1 809374 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=126;Dels=0.00;HRun=0;HaplotypeScore=40.85;MQ=49.25;MQ0=14;OQ=274.74;QD=2.18;SB=128.46 GT:AD:DP:GL:GQ 0/1:85,41:95:-59.38,-28.62,-356.10:99
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chr1 809396 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=153;Dels=0.03;HRun=0;HaplotypeScore=81.33;MQ=46.63;MQ0=11;OQ=370.18;QD=2.42;SB=128.42 GT:AD:DP:GL:GQ 0/1:90,59:107:-71.93,-31.63,-311.43:99
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chr1 809418 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=208;Dels=0.00;HRun=0;HaplotypeScore=18.59;MQ=42.45;MQ0=17;OQ=1574.87;QD=7.57;SB=-383.90 GT:AD:DP:GL:GQ 0/1:84,123:141:-203.25,-42.48,-331.17:99
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chr1 809463 . T C 270.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=218;Dels=0.00;HRun=0;HaplotypeScore=113.69;MQ=41.23;MQ0=17;QD=1.24;SB=22.33 GT:AD:DP:GL:GQ 0/1:180,37:141:-72.78,-42.48,-486.18:99
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chr1 809466 . G A 91.66 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=213;Dels=0.00;HRun=2;HaplotypeScore=122.84;MQ=41.24;MQ0=16;QD=0.43;SB=110.32 GT:AD:DP:GL:GQ 0/1:181,32:144:-55.83,-43.38,-458.71:99
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chr1 809470 . T C 630.75 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=208;Dels=0.00;HRun=2;HaplotypeScore=238.78;MQ=41.40;MQ0=14;QD=3.03;SB=-114.41 GT:AD:DP:GL:GQ 0/1:153,55:135:-107.03,-40.67,-427.65:99
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chr1 809480 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=183;Dels=0.00;HRun=0;HaplotypeScore=103.82;MQ=41.73;MQ0=11;OQ=1974.03;QD=10.79;SB=-338.07 GT:AD:DP:GL:GQ 0/1:66,116:122:-237.45,-36.76,-206.62:99
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chr1 809721 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=3;HaplotypeScore=9.02;MQ=53.95;MQ0=4;OQ=80.85;QD=0.86;SB=59.35 GT:AD:DP:GL:GQ 0/1:75,18:84:-36.67,-25.30,-283.82:99
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chr1 809780 rs6605057 A G 0.76 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=11.81;MQ=56.13;MQ0=2;OQ=3054.85;QD=32.85;SB=-1362.55 GT:AD:DP:GL:GQ 1/1:0,93:85:-309.09,-25.60,-0.02:99
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chr1 809879 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=195;Dels=0.00;HRun=0;HaplotypeScore=59.97;MQ=40.35;MQ0=14;OQ=622.51;QD=3.19;SB=42.71 GT:AD:DP:GL:GQ 0/1:76,119:98:-95.05,-29.52,-272.29:99
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chr1 809895 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=204;Dels=0.00;HRun=1;HaplotypeScore=66.59;MQ=38.60;MQ0=19;OQ=465.46;QD=2.28;SB=92.30 GT:AD:DP:GL:GQ 0/1:110,94:92:-77.54,-27.71,-254.54:99
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chr1 809906 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=201;Dels=0.00;HRun=0;HaplotypeScore=107.86;MQ=38.19;MQ0=19;OQ=204.28;QD=1.02;SB=98.35 GT:AD:DP:GL:GQ 0/1:163,38:93:-51.72,-28.01,-294.59:99
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chr1 810152 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=0;HaplotypeScore=23.45;MQ=46.60;MQ0=18;OQ=256.17;QD=1.80;SB=89.22 GT:AD:DP:GL:GQ 0/1:80,62:93:-56.93,-28.03,-260.32:99
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chr1 810179 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=166;Dels=0.00;HRun=0;HaplotypeScore=40.97;MQ=43.29;MQ0=18;OQ=423.48;QD=2.55;SB=-10.82 GT:AD:DP:GL:GQ 0/1:90,76:99:-75.44,-29.81,-289.52:99
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chr1 810200 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=157;Dels=0.00;HRun=0;HaplotypeScore=91.89;MQ=44.44;MQ0=8;OQ=93.53;QD=0.60;SB=79.37 GT:AD:DP:GL:GQ 0/1:113,44:97:-41.85,-29.21,-309.84:99
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|
chr1 810211 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=3;HaplotypeScore=28.81;MQ=44.83;MQ0=8;OQ=438.48;QD=2.67;SB=-23.86 GT:AD:DP:GL:GQ 0/1:92,72:104:-78.46,-31.33,-303.09:99
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|
chr1 810249 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=162;Dels=0.00;HRun=0;HaplotypeScore=54.95;MQ=45.56;MQ0=5;OQ=532.92;QD=3.29;SB=-263.19 GT:AD:DP:GL:GQ 0/1:92,70:108:-89.11,-32.53,-336.39:99
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chr1 810266 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=139;Dels=0.00;HRun=0;HaplotypeScore=6.95;MQ=49.31;MQ0=7;OQ=320.58;QD=2.31;SB=3.34 GT:AD:DP:GL:GQ 0/1:87,51:105:-66.97,-31.63,-352.01:99
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chr1 810282 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=2;HaplotypeScore=2.11;MQ=50.38;MQ0=7;OQ=214.82;QD=1.51;SB=75.99 GT:AD:DP:GL:GQ 0/1:98,44:111:-58.20,-33.43,-338.53:99
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|
chr1 810326 . T C 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=51.92;MQ0=10;OQ=89.69;QD=0.81;SB=59.40 GT:AD:DP:GL:GQ 0/1:87,24:95:-40.87,-28.62,-338.92:99
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chr1 810564 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=172;Dels=0.00;HRun=0;HaplotypeScore=14.88;MQ=44.23;MQ0=6;OQ=498.14;QD=2.90;SB=-150.99 GT:AD:DP:GL:GQ 0/1:102,70:118:-88.65,-35.55,-364.99:99
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chr1 810629 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=38.71;MQ=50.61;MQ0=2;OQ=253.97;QD=2.29;SB=-143.03 GT:AD:DP:GL:GQ 0/1:83,27:94:-56.99,-28.31,-290.69:99
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|
chr1 810683 . T C 21.46 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=45.49;MQ0=13;QD=0.17;SB=104.38 GT:AD:DP:GL:GQ 0/1:80,50:88:-31.93,-26.50,-325.33:54.27
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chr1 810696 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=154;Dels=0.00;HRun=0;HaplotypeScore=34.97;MQ=44.00;MQ0=14;OQ=294.30;QD=1.91;SB=110.32 GT:AD:DP:GL:GQ 0/1:85,69:98:-62.23,-29.52,-298.08:99
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chr1 810711 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=186;Dels=0.00;HRun=0;HaplotypeScore=44.23;MQ=40.46;MQ0=17;OQ=839.07;QD=4.51;SB=107.39 GT:AD:DP:GL:GQ 0/1:81,105:106:-119.13,-31.94,-347.53:99
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chr1 810733 . C A 43.01 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=225;Dels=0.00;HRun=1;HaplotypeScore=56.61;MQ=40.22;MQ0=16;QD=0.19;SB=125.38 GT:AD:DP:GL:GQ 0/1:192,33:131:-47.04,-39.45,-426.81:75.84
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chr1 810794 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=186;Dels=0.00;HRun=3;HaplotypeScore=52.64;MQ=44.21;MQ0=2;OQ=1066.68;QD=5.73;SB=31.06 GT:AD:DP:GL:GQ 0/1:92,94:128:-148.50,-38.55,-332.75:99
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chr1 810798 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=183;Dels=0.00;HRun=0;HaplotypeScore=60.51;MQ=44.84;MQ0=1;OQ=1224.15;QD=6.69;SB=34.50 GT:AD:DP:GL:GQ 0/1:93,90:127:-163.96,-38.27,-393.95:99
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chr1 810830 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=3;HaplotypeScore=77.56;MQ=44.23;MQ0=2;OQ=74.26;QD=0.42;SB=98.47 GT:AD:DP:GL:GQ 0/1:145,25:125:-59.06,-48.35,-399.04:99
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chr1 810842 . C G 7.71 PASS AC=1;AF=0.50;AN=2;DP=180;Dels=0.00;HRun=1;HaplotypeScore=2.42;MQ=44.02;MQ0=3;OQ=1687.26;QD=9.37;SB=-373.48 GT:AD:DP:GL:GQ 0/1:84,96:131:-211.48,-39.47,-372.20:99
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|
chr1 810901 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=0;HaplotypeScore=76.75;MQ=45.85;MQ0=4;OQ=1193.00;QD=8.40;SB=-508.15 GT:AD:DP:GL:GQ 0/1:72,70:110:-155.72,-33.14,-263.20:99
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|
chr1 810906 . T C 38.41 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=133;Dels=0.00;HRun=0;HaplotypeScore=84.75;MQ=46.22;MQ0=3;QD=0.29;SB=-42.29 GT:AD:DP:GL:GQ 0/1:104,29:99:-36.95,-29.82,-359.79:71.24
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chr1 810914 rs2871831 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=126;Dels=0.00;HRun=0;HaplotypeScore=29.97;MQ=47.06;MQ0=6;OQ=781.68;QD=6.20;SB=-314.19 GT:AD:DP:GL:GQ 0/1:70,55:96:-110.36,-28.91,-259.38:99
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chr1 810923 . A T 0.10 PASS AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=1;HaplotypeScore=7.81;MQ=46.94;MQ0=8;OQ=838.41;QD=6.60;SB=-348.34 GT:AD:DP:GL:GQ 0/1:70,57:101:-117.55,-30.42,-266.19:99
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chr1 810974 rs61768253 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=159;Dels=0.00;HRun=0;HaplotypeScore=90.96;MQ=39.12;MQ0=31;OQ=376.97;QD=2.37;SB=-131.06 GT:AD:DP:GL:GQ 0/1:90,68:97:-70.20,-29.22,-313.33:99
|
|
chr1 810984 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=2;HaplotypeScore=97.32;MQ=34.90;MQ0=35;OQ=108.00;QD=0.52;SB=94.23 GT:AD:DP:GL:GQ 0/1:166,41:109:-46.91,-32.83,-360.50:99
|
|
chr1 810998 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=239;Dels=0.00;HRun=0;HaplotypeScore=73.35;MQ=33.36;MQ0=43;OQ=73.40;QD=0.31;SB=-50.06 GT:AD:DP:GL:GQ 0/1:185,54:123:-47.67,-37.04,-404.38:99
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|
chr1 811006 rs61768254 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=248;Dels=0.00;HRun=1;HaplotypeScore=66.91;MQ=33.49;MQ0=48;OQ=832.91;QD=3.36;SB=-277.39 GT:AD:DP:GL:GQ 0/1:106,142:128:-125.13,-38.56,-331.35:99
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chr1 811069 rs35186927 T A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=481;Dels=0.00;HRun=1;HaplotypeScore=3.93;MQ=31.63;MQ0=35;OQ=1139.00;QD=2.37;SB=-237.78 GT:AD:DP:GL:GQ 0/1:346,135:257:-194.59,-77.40,-784.30:99
|
|
chr1 811112 rs2311684 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=350;Dels=0.00;HRun=0;HaplotypeScore=77.41;MQ=35.82;MQ0=8;OQ=2362.85;QD=6.75;SB=-654.92 GT:AD:DP:GL:GQ 0/1:216,134:219:-305.59,-66.02,-466.00:99
|
|
chr1 811131 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=248;Dels=0.00;HRun=0;HaplotypeScore=87.33;MQ=41.16;MQ0=2;OQ=4074.75;QD=16.43;SB=-1430.41 GT:AD:DP:GL:GQ 0/1:100,147:200:-406.47,-62.90,-355.42:99
|
|
chr1 811184 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=2;HaplotypeScore=27.77;MQ=43.71;MQ0=0;OQ=460.52;QD=3.74;SB=149.45 GT:AD:DP:GL:GQ 0/1:91,32:108:-81.87,-32.53,-317.70:99
|
|
chr1 811205 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=2;HaplotypeScore=18.01;MQ=44.82;MQ0=0;OQ=329.41;QD=2.86;SB=146.50 GT:AD:DP:GL:GQ 0/1:87,28:104:-67.56,-31.33,-345.48:99
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|
chr1 811285 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=150;Dels=0.00;HRun=0;HaplotypeScore=37.25;MQ=40.88;MQ0=3;OQ=828.79;QD=5.53;SB=-15.76 GT:AD:DP:GL:GQ 0/1:66,84:93:-114.20,-28.04,-207.99:99
|
|
chr1 811292 . G C 33.11 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=58.15;MQ=39.23;MQ0=3;QD=0.21;SB=95.35 GT:AD:DP:GL:GQ 0/1:79,14:72:-31.92,-25.33,-286.41:65.95
|
|
chr1 811309 . A C 218.07 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=180;Dels=0.00;HRun=0;HaplotypeScore=95.42;MQ=36.77;MQ0=3;QD=1.21;SB=75.78 GT:AD:DP:GL:GQ 0/1:95,84:77:-48.28,-23.19,-225.41:99
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|
chr1 811313 . C A 77.35 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=190;Dels=0.00;HRun=1;HaplotypeScore=126.41;MQ=36.87;MQ0=1;QD=0.41;SB=64.94 GT:AD:DP:GL:GQ 0/1:128,61:85:-36.63,-25.61,-260.99:99
|
|
chr1 811315 . G A 900.17 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=189;Dels=0.00;HRun=1;HaplotypeScore=96.44;MQ=36.96;MQ0=1;QD=4.76;SB=64.69 GT:AD:DP:GL:GQ 0/1:57,131:88:-122.19,-28.89,-207.10:99
|
|
chr1 811336 . T C 533.21 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=37.36;MQ0=1;QD=2.63;SB=59.62 GT:AD:DP:GL:GQ 0/1:62,140:81:-81.01,-24.41,-227.12:99
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|
chr1 811339 . T C 458.52 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=200;Dels=0.00;HRun=1;HaplotypeScore=44.80;MQ=38.07;MQ0=1;QD=2.29;SB=92.33 GT:AD:DP:GL:GQ 0/1:65,135:85:-74.74,-25.60,-261.77:99
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|
chr1 811347 . T G 278.98 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=226;Dels=0.00;HRun=3;HaplotypeScore=134.53;MQ=37.01;MQ0=0;QD=1.23;SB=83.27 GT:AD:DP:GL:GQ 0/1:65,161:80:-55.28,-24.10,-233.47:99
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|
chr1 811354 . C T 677.91 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=233;Dels=0.00;HRun=0;HaplotypeScore=163.01;MQ=36.31;MQ0=0;QD=2.91;SB=83.23 GT:AD:DP:GL:GQ 0/1:63,170:82:-95.80,-24.72,-187.92:99
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|
chr1 811362 . C T 454.65 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=231;Dels=0.00;HRun=0;HaplotypeScore=226.76;MQ=36.80;MQ0=0;QD=1.97;SB=83.14 GT:AD:DP:GL:GQ 0/1:64,167:80:-72.88,-24.13,-190.51:99
|
|
chr1 811364 . T C 196.31 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=230;Dels=0.00;HRun=1;HaplotypeScore=66.22;MQ=36.51;MQ0=0;QD=0.85;SB=79.92 GT:AD:DP:GL:GQ 0/1:84,145:75:-47.99,-25.07,-244.42:99
|
|
chr1 811375 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=231;Dels=0.00;HRun=0;HaplotypeScore=93.49;MQ=37.41;MQ0=0;OQ=1696.08;QD=7.34;SB=71.11 GT:AD:DP:GL:GQ 0/1:93,137:119:-208.77,-35.88,-209.62:99
|
|
chr1 811378 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=239;Dels=0.00;HRun=1;HaplotypeScore=193.97;MQ=37.86;MQ0=0;OQ=1149.75;QD=4.81;SB=77.23 GT:AD:DP:GL:GQ 0/1:188,51:123:-155.31,-37.05,-314.47:99
|
|
chr1 811386 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=227;Dels=0.00;HRun=2;HaplotypeScore=163.58;MQ=38.25;MQ0=0;OQ=516.99;QD=2.28;SB=29.28 GT:AD:DP:GL:GQ 0/1:149,78:121:-91.43,-36.45,-384.88:99
|
|
chr1 811400 . C T 562.85 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=209;Dels=0.00;HRun=0;HaplotypeScore=151.19;MQ=39.64;MQ0=0;QD=2.69;SB=23.60 GT:AD:DP:GL:GQ 0/1:96,113:102:-90.30,-30.73,-291.44:99
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|
chr1 811402 . C T 93.97 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=206;Dels=0.00;HRun=1;HaplotypeScore=101.45;MQ=39.46;MQ0=1;QD=0.46;SB=62.16 GT:AD:DP:GL:GQ 0/1:188,18:99:-42.50,-29.82,-326.30:99
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|
chr1 811408 . G T 250.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=192;Dels=0.00;HRun=0;HaplotypeScore=79.23;MQ=40.75;MQ0=2;QD=1.30;SB=59.20 GT:AD:DP:GL:GQ 0/1:111,80:98:-57.85,-29.52,-298.59:99
|
|
chr1 811413 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=188;Dels=0.00;HRun=0;HaplotypeScore=67.52;MQ=40.58;MQ0=2;OQ=77.44;QD=0.41;SB=62.19 GT:AD:DP:GL:GQ 0/1:97,91:86:-36.94,-25.92,-277.54:99
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|
chr1 811430 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=4;HaplotypeScore=58.87;MQ=40.65;MQ0=2;OQ=63.77;QD=0.39;SB=65.24 GT:AD:DP:GL:GQ 0/1:88,76:92:-37.38,-27.72,-324.79:96.61
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|
chr1 811435 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=19.26;MQ=40.95;MQ0=1;OQ=266.78;QD=1.72;SB=71.27 GT:AD:DP:GL:GQ 0/1:84,71:100:-60.08,-30.12,-340.43:99
|
|
chr1 811443 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=2;HaplotypeScore=30.32;MQ=41.18;MQ0=1;OQ=189.19;QD=1.39;SB=77.28 GT:AD:DP:GL:GQ 0/1:79,56:91:-52.39,-30.19,-304.45:99
|
|
chr1 811635 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=82.21;MQ=40.79;MQ0=16;OQ=141.45;QD=0.98;SB=-89.35 GT:AD:DP:GL:GQ 0/1:111,34:74:-39.73,-22.30,-281.80:99
|
|
chr1 811650 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=95.82;MQ=42.47;MQ0=12;OQ=224.58;QD=1.65;SB=-61.36 GT:AD:DP:GL:GQ 0/1:66,70:76:-48.64,-22.89,-228.84:99
|
|
chr1 811656 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=0;HaplotypeScore=71.17;MQ=43.15;MQ0=11;OQ=112.09;QD=0.87;SB=-75.98 GT:AD:DP:GL:GQ 0/1:102,27:76:-37.39,-22.90,-238.94:99
|
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chr1 811750 rs6677354 A G 0.61 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=3;HaplotypeScore=4.05;MQ=50.03;MQ0=0;OQ=1811.37;QD=31.78;SB=-810.16 GT:AD:DP:GL:GQ 1/1:0,56:52:-184.74,-15.66,-0.02:99
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|
chr1 811789 rs35660652 C G 23.26 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=4.89;MQ=49.27;MQ0=1;OQ=933.21;QD=16.97;SB=-483.19 GT:AD:DP:GL:GQ 0/1:25,30:48:-111.08,-14.47,-94.44:99
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|
chr1 811811 rs6671445 T C 60.28 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=51.17;MQ0=1;OQ=1096.50;QD=26.11;SB=-519.10 GT:AD:DP:GL:GQ 1/1:0,42:35:-113.27,-10.56,-0.03:99
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|
chr1 811899 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=32.15;MQ=43.49;MQ0=20;OQ=124.06;QD=1.01;SB=92.32 GT:AD:DP:GL:GQ 0/1:62,60:72:-37.38,-21.69,-248.07:99
|
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chr1 812359 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=1;HaplotypeScore=23.61;MQ=48.84;MQ0=1;OQ=66.32;QD=0.77;SB=71.21 GT:AD:DP:GL:GQ 0/1:52,34:57:-27.09,-17.17,-171.46:99
|
|
chr1 812367 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=15.11;MQ=47.39;MQ0=1;OQ=182.54;QD=1.77;SB=-16.56 GT:AD:DP:GL:GQ 0/1:55,46:66:-41.42,-19.89,-213.25:99
|
|
chr1 812395 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=147;Dels=0.00;HRun=0;HaplotypeScore=16.89;MQ=44.59;MQ0=4;OQ=290.02;QD=1.97;SB=-35.46 GT:AD:DP:GL:GQ 0/1:75,71:87:-58.50,-26.21,-278.39:99
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chr1 812396 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=150;Dels=0.00;HRun=0;HaplotypeScore=12.57;MQ=44.24;MQ0=4;OQ=510.01;QD=3.40;SB=-121.97 GT:AD:DP:GL:GQ 0/1:77,73:89:-81.09,-26.81,-250.00:99
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chr1 812452 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=237;Dels=0.00;HRun=1;HaplotypeScore=44.19;MQ=38.30;MQ0=6;OQ=174.18;QD=0.73;SB=140.46 GT:AD:DP:GL:GQ 0/1:178,59:128:-59.25,-38.55,-429.97:99
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chr1 812470 . G A 3027.24 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=266;Dels=0.00;HRun=2;HaplotypeScore=95.67;MQ=37.00;MQ0=5;QD=11.38;SB=-136.01 GT:AD:DP:GL:GQ 0/1:72,177:161:-375.45,-69.45,-279.59:99
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chr1 812474 . A G 225.39 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=282;Dels=0.00;HRun=0;HaplotypeScore=98.08;MQ=36.45;MQ0=4;QD=0.80;SB=107.36 GT:AD:DP:GL:GQ 0/1:225,57:173:-77.95,-52.13,-605.26:99
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chr1 812476 . G A 4194.86 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=280;Dels=0.00;HRun=1;HaplotypeScore=148.97;MQ=36.56;MQ0=4;QD=14.98;SB=-125.96 GT:AD:DP:GL:GQ 0/1:71,208:172:-418.49,-51.81,-254.37:99
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chr1 812496 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=383;Dels=0.00;HRun=3;HaplotypeScore=110.05;MQ=34.24;MQ0=3;OQ=4072.28;QD=10.63;SB=-60.38 GT:AD:DP:GL:GQ 0/1:191,192:229:-406.23,-68.97,-420.64:99
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chr1 812509 . A G 1306.01 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=390;Dels=0.00;HRun=0;HaplotypeScore=338.39;MQ=34.90;MQ0=4;QD=3.35;SB=113.39 GT:AD:DP:GL:GQ 0/1:88,302:134:-174.25,-40.36,-354.14:99
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chr1 812511 . C T 253.04 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=392;Dels=0.00;HRun=1;HaplotypeScore=342.27;MQ=34.93;MQ0=3;QD=0.65;SB=107.37 GT:AD:DP:GL:GQ 0/1:210,181:105:-60.21,-31.62,-326.58:99
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chr1 812536 . C T 6216.93 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=431;Dels=0.00;HRun=0;HaplotypeScore=21.13;MQ=33.82;MQ0=5;QD=14.42;SB=89.30 GT:AD:DP:GL:GQ 0/1:86,345:239:-620.69,-71.99,-300.06:99
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chr1 812546 . A T 6301.61 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=411;Dels=0.00;HRun=5;HaplotypeScore=527.01;MQ=34.23;MQ0=5;QD=15.33;SB=95.32 GT:AD:DP:GL:GQ 0/1:107,219:261:-629.16,-251.98,-546.86:99
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chr1 812557 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=384;Dels=0.00;HRun=0;HaplotypeScore=98.60;MQ=34.24;MQ0=5;OQ=4742.49;QD=12.35;SB=92.31 GT:AD:DP:GL:GQ 0/1:201,182:235:-473.25,-70.78,-414.34:99
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|
chr1 812581 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=273;Dels=0.00;HRun=0;HaplotypeScore=142.64;MQ=35.76;MQ0=4;OQ=1205.24;QD=4.41;SB=74.26 GT:AD:DP:GL:GQ 0/1:167,71:149:-175.85,-52.04,-375.17:99
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chr1 812582 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=267;Dels=0.00;HRun=0;HaplotypeScore=141.33;MQ=35.99;MQ0=4;OQ=1716.18;QD=6.43;SB=71.26 GT:AD:DP:GL:GQ 0/1:103,164:146:-218.89,-43.99,-346.52:99
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chr1 812608 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=165;Dels=0.00;HRun=1;HaplotypeScore=67.91;MQ=41.17;MQ0=4;OQ=693.18;QD=4.20;SB=50.19 GT:AD:DP:GL:GQ 0/1:102,63:97:-101.82,-29.21,-294.33:99
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chr1 812623 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=28.33;MQ=46.60;MQ0=1;OQ=165.38;QD=1.61;SB=41.15 GT:AD:DP:GL:GQ 0/1:59,44:68:-40.30,-20.48,-216.18:99
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chr1 812625 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=106;Dels=0.00;HRun=1;HaplotypeScore=28.33;MQ=46.70;MQ0=1;OQ=134.52;QD=1.27;SB=44.17 GT:AD:DP:GL:GQ 0/1:60,46:69:-37.52,-20.78,-218.11:99
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chr1 812637 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=0;HaplotypeScore=37.48;MQ=47.73;MQ0=2;OQ=214.50;QD=1.87;SB=-61.85 GT:AD:DP:GL:GQ 0/1:67,48:77:-47.94,-23.20,-220.91:99
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|
chr1 812655 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=121;Dels=0.00;HRun=0;HaplotypeScore=33.89;MQ=47.71;MQ0=3;OQ=405.95;QD=3.35;SB=-136.06 GT:AD:DP:GL:GQ 0/1:68,53:87:-70.08,-26.20,-247.74:99
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chr1 812661 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=2;HaplotypeScore=21.84;MQ=47.58;MQ0=5;OQ=365.64;QD=2.95;SB=-168.82 GT:AD:DP:GL:GQ 0/1:87,37:88:-66.35,-26.51,-263.64:99
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chr1 812666 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=21.15;MQ=47.18;MQ0=5;OQ=451.13;QD=3.67;SB=-190.13 GT:AD:DP:GL:GQ 0/1:65,57:86:-74.30,-25.91,-260.71:99
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chr1 812725 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=137;Dels=0.00;HRun=2;HaplotypeScore=17.99;MQ=47.07;MQ0=7;OQ=51.25;QD=0.37;SB=36.23 GT:AD:DP:GL:GQ 0/1:99,33:95:-37.06,-28.65,-279.36:84.09
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|
chr1 812740 . T A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=2;HaplotypeScore=10.99;MQ=47.57;MQ0=4;OQ=391.52;QD=3.08;SB=-178.55 GT:AD:DP:GL:GQ 0/1:69,58:85:-68.04,-25.60,-259.04:99
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|
chr1 812742 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=138;Dels=0.00;HRun=1;HaplotypeScore=11.99;MQ=46.41;MQ0=4;OQ=355.87;QD=2.58;SB=-160.38 GT:AD:DP:GL:GQ 0/1:72,66:89:-65.67,-26.80,-277.85:99
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chr1 812772 . C A 4524.81 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=340;Dels=0.00;HRun=1;HaplotypeScore=205.36;MQ=35.68;MQ0=5;QD=13.31;SB=-1151.01 GT:AD:DP:GL:GQ 0/1:83,257:202:-451.48,-60.83,-296.00:99
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chr1 812774 . G A 5465.17 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=359;Dels=0.00;HRun=1;HaplotypeScore=230.04;MQ=35.29;MQ0=5;QD=15.22;SB=-1392.69 GT:AD:DP:GL:GQ 0/1:83,276:217:-545.52,-65.36,-295.35:99
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chr1 812778 . A C 2967.60 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=395;Dels=0.00;HRun=0;HaplotypeScore=217.58;MQ=34.63;MQ0=8;QD=7.51;SB=-725.51 GT:AD:DP:GL:GQ 0/1:219,176:242:-372.92,-72.88,-512.65:99
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chr1 812823 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=734;Dels=0.00;HRun=0;HaplotypeScore=134.36;MQ=30.02;MQ0=41;OQ=617.75;QD=0.84;SB=-157.33 GT:AD:DP:GL:GQ 0/1:653,81:442:-198.19,-133.13,-1425.62:99
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chr1 812838 rs657923 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=716;Dels=0.00;HRun=1;HaplotypeScore=212.74;MQ=29.97;MQ0=41;OQ=1388.92;QD=1.94;SB=-7.94 GT:AD:DP:GL:GQ 0/1:599,117:439:-274.39,-132.21,-1407.52:99
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|
chr1 812875 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=465;Dels=0.00;HRun=0;HaplotypeScore=110.91;MQ=32.05;MQ0=37;OQ=83.36;QD=0.18;SB=55.37 GT:AD:DP:GL:GQ 0/1:398,67:296:-100.77,-89.15,-980.63:99
|
|
chr1 812885 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=346;Dels=0.00;HRun=1;HaplotypeScore=111.42;MQ=33.27;MQ0=30;OQ=5208.47;QD=15.05;SB=-2233.36 GT:AD:DP:GL:GQ 0/1:69,277:208:-519.85,-62.65,-238.95:99
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chr1 812886 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=335;Dels=0.00;HRun=1;HaplotypeScore=55.46;MQ=33.49;MQ0=30;OQ=451.06;QD=1.35;SB=-154.07 GT:AD:DP:GL:GQ 0/1:302,33:200:-108.62,-60.23,-633.51:99
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chr1 812900 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=183;Dels=0.00;HRun=0;HaplotypeScore=14.94;MQ=39.79;MQ0=13;OQ=813.81;QD=4.45;SB=92.87 GT:AD:DP:GL:GQ 0/1:73,110:100:-114.78,-30.12,-260.13:99
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chr1 812923 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=1;HaplotypeScore=27.88;MQ=50.22;MQ0=2;OQ=306.33;QD=2.95;SB=-30.81 GT:AD:DP:GL:GQ 0/1:70,34:81:-58.31,-24.40,-238.03:99
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chr1 812935 . G A 2.07 PASS AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=0;HaplotypeScore=2.66;MQ=47.53;MQ0=2;OQ=744.11;QD=5.55;SB=-223.02 GT:AD:DP:GL:GQ 0/1:69,65:96:-106.61,-28.92,-247.13:99
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|
chr1 812951 . G T 11.25 PASS AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=43.90;MQ0=5;OQ=1351.36;QD=8.72;SB=-400.31 GT:AD:DP:GL:GQ 0/1:63,92:108:-170.95,-32.53,-225.30:99
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|
chr1 812975 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=199;Dels=0.00;HRun=0;HaplotypeScore=28.65;MQ=40.87;MQ0=15;OQ=1862.55;QD=9.36;SB=-484.23 GT:AD:DP:GL:GQ 0/1:66,132:123:-230.20,-40.66,-212.95:99
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|
chr1 812981 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=1;HaplotypeScore=40.75;MQ=39.82;MQ0=15;OQ=1797.82;QD=8.86;SB=-460.63 GT:AD:DP:GL:GQ 0/1:63,140:120:-219.20,-36.14,-217.08:99
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chr1 812999 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=293;Dels=0.00;HRun=3;HaplotypeScore=112.34;MQ=35.70;MQ0=17;OQ=746.50;QD=2.55;SB=103.46 GT:AD:DP:GL:GQ 0/1:201,92:175:-130.64,-52.71,-522.15:99
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|
chr1 813018 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=409;Dels=0.00;HRun=4;HaplotypeScore=24.00;MQ=34.51;MQ0=18;OQ=2503.76;QD=6.12;SB=-85.25 GT:AD:DP:GL:GQ 0/1:266,142:285:-339.49,-85.83,-765.92:99
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chr1 813030 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=463;Dels=0.00;HRun=0;HaplotypeScore=48.87;MQ=34.17;MQ0=19;OQ=2316.95;QD=5.00;SB=-56.40 GT:AD:DP:GL:GQ 0/1:312,151:338:-336.77,-101.79,-911.65:99
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chr1 813038 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=491;Dels=0.00;HRun=0;HaplotypeScore=299.82;MQ=33.86;MQ0=19;OQ=574.58;QD=1.17;SB=49.00 GT:AD:DP:GL:GQ 0/1:442,49:363:-170.06,-109.32,-1157.10:99
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|
chr1 813041 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=493;Dels=0.00;HRun=0;HaplotypeScore=391.76;MQ=34.08;MQ0=19;OQ=10262.92;QD=20.82;SB=-1216.69 GT:AD:DP:GL:GQ 0/1:84,408:369:-1025.29,-114.38,-315.19:99
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chr1 813055 . T G 5105.47 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=534;Dels=0.00;HRun=1;HaplotypeScore=573.54;MQ=33.39;MQ0=15;QD=9.56;SB=-804.21 GT:AD:DP:GL:GQ 0/1:355,179:410:-509.55,-123.48,-999.47:99
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chr1 813070 . G T 1334.14 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=573;Dels=0.00;HRun=1;HaplotypeScore=588.05;MQ=33.10;MQ0=9;QD=2.33;SB=-193.13 GT:AD:DP:GL:GQ 0/1:472,101:440:-269.21,-132.51,-1306.87:99
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chr1 813073 . C G 2805.72 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=592;Dels=0.00;HRun=1;HaplotypeScore=532.94;MQ=33.08;MQ0=8;QD=4.74;SB=-566.71 GT:AD:DP:GL:GQ 0/1:469,123:455:-420.94,-137.09,-1553.33:99
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chr1 813077 . G A 139.61 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=606;Dels=0.00;HRun=1;HaplotypeScore=787.16;MQ=33.34;MQ0=7;QD=0.23;SB=20.29 GT:AD:DP:GL:GQ 0/1:564,42:462:-156.39,-139.14,-1597.16:99
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|
chr1 813078 . C G 7856.82 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=607;Dels=0.00;HRun=1;HaplotypeScore=894.22;MQ=33.34;MQ0=7;QD=12.94;SB=-567.18 GT:AD:DP:GL:GQ 0/1:367,165:476:-784.68,-363.52,-1514.16:99
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|
chr1 813086 . C G 6412.49 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=625;Dels=0.00;HRun=0;HaplotypeScore=667.82;MQ=33.46;MQ0=7;QD=10.26;SB=-767.41 GT:AD:DP:GL:GQ 0/1:438,186:509:-640.25,-153.35,-1590.01:99
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|
chr1 813088 . G A 7116.40 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=627;Dels=0.00;HRun=1;HaplotypeScore=625.87;MQ=33.36;MQ0=7;QD=11.35;SB=-863.76 GT:AD:DP:GL:GQ 0/1:405,186:507:-710.64,-256.24,-1344.66:99
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chr1 813094 . C T 2968.23 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=620;Dels=0.00;HRun=0;HaplotypeScore=211.21;MQ=33.22;MQ0=9;QD=4.79;SB=-1023.50 GT:AD:DP:GL:GQ 0/1:481,139:495:-449.19,-149.09,-1385.37:99
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chr1 813107 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=546;Dels=0.00;HRun=0;HaplotypeScore=55.14;MQ=33.11;MQ0=20;OQ=871.93;QD=1.60;SB=-175.62 GT:AD:DP:GL:GQ 0/1:477,69:368:-201.32,-110.84,-1286.63:99
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chr1 813112 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=540;Dels=0.00;HRun=1;HaplotypeScore=215.40;MQ=33.46;MQ0=24;OQ=633.86;QD=1.17;SB=-102.54 GT:AD:DP:GL:GQ 0/1:489,51:349:-171.78,-105.11,-1109.57:99
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|
chr1 813120 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=452;Dels=0.00;HRun=0;HaplotypeScore=223.96;MQ=34.07;MQ0=26;OQ=8026.64;QD=17.76;SB=-2723.00 GT:AD:DP:GL:GQ 0/1:104,348:294:-801.66,-88.56,-349.63:99
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chr1 813123 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=449;Dels=0.00;HRun=0;HaplotypeScore=337.04;MQ=33.84;MQ0=28;OQ=7271.87;QD=16.20;SB=-2574.23 GT:AD:DP:GL:GQ 0/1:72,377:266:-726.19,-80.11,-257.87:99
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chr1 813133 . G C 2818.75 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=399;Dels=0.00;HRun=0;HaplotypeScore=373.63;MQ=34.21;MQ0=30;QD=7.06;SB=-1307.24 GT:AD:DP:GL:GQ 0/1:279,119:209:-348.13,-62.97,-562.66:99
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chr1 813135 . A G 6195.50 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=391;Dels=0.00;HRun=0;HaplotypeScore=305.70;MQ=34.41;MQ0=29;QD=15.85;SB=-2650.19 GT:AD:DP:GL:GQ 0/1:69,321:237:-618.55,-71.38,-275.07:99
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|
chr1 813142 . T C 345.82 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=364;Dels=0.00;HRun=1;HaplotypeScore=286.54;MQ=33.82;MQ0=33;QD=0.95;SB=-108.69 GT:AD:DP:GL:GQ 0/1:317,47:188:-94.49,-56.62,-663.95:99
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chr1 813148 . C A 1435.04 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=349;Dels=0.00;HRun=2;HaplotypeScore=161.77;MQ=34.46;MQ0=34;QD=4.11;SB=-365.32 GT:AD:DP:GL:GQ 0/1:282,67:257:-224.19,-77.40,-705.20:99
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chr1 813156 . T A 297.72 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=308;Dels=0.00;HRun=0;HaplotypeScore=111.01;MQ=35.71;MQ0=35;QD=0.97;SB=9.92 GT:AD:DP:GL:GQ 0/1:276,32:221:-99.61,-66.55,-759.37:99
|
|
chr1 813157 . G C 549.74 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=307;Dels=0.00;HRun=0;HaplotypeScore=111.01;MQ=35.86;MQ0=35;QD=1.79;SB=-210.25 GT:AD:DP:GL:GQ 0/1:247,59:221:-124.85,-66.59,-828.88:99
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chr1 813168 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=254;Dels=0.00;HRun=2;HaplotypeScore=4.86;MQ=37.54;MQ0=37;OQ=984.94;QD=3.88;SB=44.86 GT:AD:DP:GL:GQ 0/1:209,45:173:-153.88,-52.11,-496.83:99
|
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chr1 813186 . G C 76.25 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=160;Dels=0.00;HRun=0;HaplotypeScore=72.20;MQ=40.71;MQ0=36;QD=0.48;SB=71.95 GT:AD:DP:GL:GQ 0/1:148,12:83:-35.91,-25.01,-332.34:99
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chr1 813187 . A G 513.33 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=147;Dels=0.00;HRun=1;HaplotypeScore=71.20;MQ=41.66;MQ0=35;QD=3.49;SB=-73.38 GT:AD:DP:GL:GQ 0/1:75,50:94:-82.93,-28.31,-287.29:99
|
|
chr1 813188 . C A 79.88 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=146;Dels=0.00;HRun=1;HaplotypeScore=71.20;MQ=41.50;MQ0=35;QD=0.55;SB=44.61 GT:AD:DP:GL:GQ 0/1:120,26:78:-34.77,-23.49,-243.41:99
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chr1 813189 . C A 521.18 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=144;Dels=0.00;HRun=0;HaplotypeScore=67.21;MQ=41.65;MQ0=35;QD=3.62;SB=-1.36 GT:AD:DP:GL:GQ 0/1:108,26:91:-101.37,-45.97,-249.59:99
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chr1 813208 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=2;HaplotypeScore=18.83;MQ=43.26;MQ0=23;OQ=418.24;QD=3.37;SB=-54.23 GT:AD:DP:GL:GQ 0/1:61,63:76:-68.00,-22.89,-206.10:99
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chr1 813240 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=154;Dels=0.00;HRun=2;HaplotypeScore=43.28;MQ=41.04;MQ0=25;OQ=943.89;QD=6.13;SB=-68.91 GT:AD:DP:GL:GQ 0/1:64,90:92:-125.38,-27.71,-227.61:99
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chr1 813250 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=195;Dels=0.00;HRun=0;HaplotypeScore=62.53;MQ=37.95;MQ0=22;OQ=226.25;QD=1.16;SB=14.99 GT:AD:DP:GL:GQ 0/1:153,42:96:-54.82,-28.92,-298.56:99
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chr1 813271 . T C 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=249;Dels=0.00;HRun=0;HaplotypeScore=8.46;MQ=34.98;MQ0=19;OQ=1147.61;QD=4.61;SB=-134.40 GT:AD:DP:GL:GQ 0/1:63,186:103:-149.07,-31.02,-256.47:99
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chr1 813292 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=382;Dels=0.00;HRun=2;HaplotypeScore=102.43;MQ=30.92;MQ0=23;OQ=1986.60;QD=5.20;SB=-566.46 GT:AD:DP:GL:GQ 0/1:105,277:133:-242.00,-40.06,-276.00:99
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chr1 813307 . A G 32.13 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=535;Dels=0.00;HRun=0;HaplotypeScore=181.84;MQ=30.25;MQ0=27;QD=0.06;SB=46.55 GT:AD:DP:GL:GQ 0/1:504,31:255:-83.31,-76.81,-935.22:64.97
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chr1 813316 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=619;Dels=0.00;HRun=2;HaplotypeScore=75.11;MQ=29.97;MQ0=27;OQ=3157.81;QD=5.10;SB=-1462.71 GT:AD:DP:GL:GQ 0/1:382,237:331:-418.76,-99.69,-846.79:99
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chr1 813335 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=826;Dels=0.00;HRun=1;HaplotypeScore=136.91;MQ=30.11;MQ0=21;OQ=7119.57;QD=8.62;SB=-2280.77 GT:AD:DP:GL:GQ 0/1:537,288:549:-710.96,-165.36,-1364.58:99
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|
chr1 813362 . A G 16357.98 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=920;Dels=0.00;HRun=1;HaplotypeScore=446.32;MQ=30.10;MQ0=24;QD=17.78;SB=-5014.09 GT:AD:DP:GL:GQ 0/1:273,494:683:-1634.80,-554.43,-1400.88:99
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|
chr1 813367 . T C 20902.62 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=914;Dels=0.00;HRun=0;HaplotypeScore=426.41;MQ=30.28;MQ0=24;QD=22.87;SB=-7448.46 GT:AD:DP:GL:GQ 0/1:141,716:687:-2089.26,-358.04,-691.48:99
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chr1 813368 rs13302980 T C 206.93 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=916;Dels=0.00;HRun=0;HaplotypeScore=426.41;MQ=30.25;MQ0=24;QD=0.23;SB=-118.41 GT:AD:DP:GL:GQ 0/1:843,73:685:-230.32,-206.34,-2521.41:99
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chr1 813385 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=888;Dels=0.00;HRun=0;HaplotypeScore=40.71;MQ=30.82;MQ0=25;OQ=1088.75;QD=1.23;SB=-408.14 GT:AD:DP:GL:GQ 0/1:783,105:699:-322.70,-210.54,-2232.26:99
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chr1 813404 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=750;Dels=0.00;HRun=2;HaplotypeScore=134.73;MQ=32.26;MQ0=17;OQ=670.55;QD=0.89;SB=-191.51 GT:AD:DP:GL:GQ 0/1:685,65:613:-254.96,-184.62,-2037.75:99
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|
chr1 813405 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=741;Dels=0.00;HRun=2;HaplotypeScore=133.74;MQ=32.36;MQ0=17;OQ=1633.92;QD=2.21;SB=-672.01 GT:AD:DP:GL:GQ 0/1:597,144:607:-349.50,-182.82,-2122.95:99
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chr1 813418 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=590;Dels=0.00;HRun=0;HaplotypeScore=47.11;MQ=33.33;MQ0=15;OQ=65.79;QD=0.11;SB=206.84 GT:AD:DP:GL:GQ 0/1:544,46:476:-153.22,-143.35,-1574.37:98.63
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chr1 813443 . T G 3848.11 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=275;Dels=0.00;HRun=0;HaplotypeScore=38.86;MQ=37.99;MQ0=5;QD=13.99;SB=-1241.58 GT:AD:DP:GL:GQ 0/1:79,195:186:-383.81,-56.02,-279.85:99
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chr1 813451 . C T 1033.45 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=197;Dels=0.01;HRun=0;HaplotypeScore=22.13;MQ=41.75;MQ0=4;QD=5.25;SB=-217.95 GT:AD:DP:GL:GQ 0/1:81,115:114:-140.97,-34.34,-279.86:99
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chr1 813452 . A G 765.89 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=186;Dels=0.01;HRun=0;HaplotypeScore=26.12;MQ=42.21;MQ0=4;QD=4.12;SB=-130.38 GT:AD:DP:GL:GQ 0/1:79,106:109:-112.71,-32.84,-316.56:99
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chr1 813514 rs61768255 T A 0.19 PASS AC=1;AF=0.50;AN=2;DB;DP=152;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=40.18;MQ0=52;OQ=194.92;QD=1.28;SB=-18.62 GT:AD:DP:GL:GQ 0/1:64,87:75:-45.36,-22.59,-238.39:99
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|
chr1 813576 . G T 36.42 DPFilter;Indel;LowQual AC=1;AF=0.50;AN=2;DP=256;Dels=0.00;HRun=0;HaplotypeScore=114.90;MQ=32.12;MQ0=13;QD=0.14;SB=80.27 GT:AD:DP:GL:GQ 0/1:231,25:108:-39.45,-32.53,-355.25:69.25
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chr1 813577 . C T 12.25 DPFilter;Indel;LowQual AC=1;AF=0.50;AN=2;DP=253;Dels=0.00;HRun=0;HaplotypeScore=118.76;MQ=32.29;MQ0=11;QD=0.05;SB=83.28 GT:AD:DP:GL:GQ 0/1:222,24:110:-47.87,-43.39,-370.50:44.82
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chr1 813595 . G A 14.36 DPFilter;Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=304;Dels=0.02;HRun=3;HaplotypeScore=679.47;MQ=32.56;MQ0=1;QD=0.05;SB=59.22 GT:AD:DP:GL:GQ 0/1:279,19:122:-44.63,-39.92,-398.76:47.04
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chr1 813600 . G A 274.89 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=326;Dels=0.00;HRun=2;HaplotypeScore=874.07;MQ=32.03;MQ0=1;QD=0.84;SB=65.24 GT:AD:DP:GL:GQ 0/1:247,78:142:-73.54,-42.77,-440.28:99
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chr1 813603 . G A 897.36 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=326;Dels=0.00;HRun=2;HaplotypeScore=1015.89;MQ=31.94;MQ0=0;QD=2.75;SB=17.55 GT:AD:DP:GL:GQ 0/1:201,125:138:-134.59,-41.57,-374.40:99
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chr1 813618 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=385;Dels=0.01;HRun=2;HaplotypeScore=1064.00;MQ=30.68;MQ0=0;OQ=4144.71;QD=10.77;SB=-60.77 GT:AD:DP:GL:GQ 0/1:139,193:174:-413.47,-52.40,-263.62:99
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chr1 813640 . G A 6008.25 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=492;Dels=0.03;HRun=2;HaplotypeScore=778.76;MQ=30.34;MQ0=0;QD=12.21;SB=-280.67 GT:AD:DP:GL:GQ 0/1:225,249:279:-599.83,-82.23,-444.10:99
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chr1 813644 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=499;Dels=0.00;HRun=2;HaplotypeScore=589.76;MQ=30.13;MQ0=0;OQ=1319.59;QD=2.64;SB=-65.34 GT:AD:DP:GL:GQ 0/1:370,128:286:-221.39,-86.15,-815.48:99
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|
chr1 813653 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=493;Dels=0.00;HRun=1;HaplotypeScore=439.06;MQ=30.75;MQ0=0;OQ=617.48;QD=1.25;SB=-157.65 GT:AD:DP:GL:GQ 0/1:455,38:256:-142.14,-77.10,-775.99:99
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|
chr1 813667 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=450;Dels=0.03;HRun=0;HaplotypeScore=1087.09;MQ=31.84;MQ0=0;OQ=612.31;QD=1.36;SB=24.15 GT:AD:DP:GL:GQ 0/1:310,99:290:-203.97,-139.46,-953.68:99
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chr1 813680 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=385;Dels=0.03;HRun=2;HaplotypeScore=1191.21;MQ=32.81;MQ0=0;OQ=1213.04;QD=3.15;SB=-10.63 GT:AD:DP:GL:GQ 0/1:276,97:229:-193.56,-68.97,-645.40:99
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|
chr1 813720 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=252;Dels=0.06;HRun=1;HaplotypeScore=327.60;MQ=37.03;MQ0=0;OQ=194.28;QD=0.77;SB=110.38 GT:AD:DP:GL:GQ 0/1:205,33:146:-66.38,-43.67,-457.57:99
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chr1 813729 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=187;Dels=0.00;HRun=0;HaplotypeScore=373.81;MQ=39.70;MQ0=0;OQ=281.23;QD=1.50;SB=15.00 GT:AD:DP:GL:GQ 0/1:127,60:111:-64.84,-33.43,-345.95:99
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|
chr1 813820 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=81;Dels=0.05;HRun=2;HaplotypeScore=42.41;MQ=49.74;MQ0=3;OQ=162.06;QD=2.00;SB=-100.42 GT:AD:DP:GL:GQ 0/1:56,21:59:-37.26,-17.77,-183.03:99
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chr1 813869 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=73.61;MQ=47.62;MQ0=2;OQ=155.20;QD=1.94;SB=41.14 GT:AD:DP:GL:GQ 0/1:71,9:54:-35.07,-16.26,-160.29:99
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chr1 813877 . G A 25.05 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=66.85;MQ=49.86;MQ0=1;QD=0.34;SB=32.11 GT:AD:DP:GL:GQ 0/1:64,9:51:-21.15,-15.36,-169.54:57.88
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chr1 813907 . G A 23.05 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=73;Dels=0.04;HRun=1;HaplotypeScore=56.30;MQ=49.27;MQ0=1;QD=0.32;SB=38.13 GT:AD:DP:GL:GQ 0/1:63,7:54:-21.25,-15.66,-171.08:55.87
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|
chr1 813910 . G A 12.29 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=61.37;MQ=49.27;MQ0=1;QD=0.17;SB=35.12 GT:AD:DP:GL:GQ 0/1:63,10:55:-21.06,-16.57,-179.39:44.87
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chr1 813923 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=75;Dels=0.03;HRun=2;HaplotypeScore=23.38;MQ=50.12;MQ0=1;OQ=138.74;QD=1.85;SB=-24.20 GT:AD:DP:GL:GQ 0/1:50,23:55:-33.43,-16.28,-173.24:99
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|
chr1 813957 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=2;HaplotypeScore=18.68;MQ=43.32;MQ0=1;OQ=871.71;QD=6.86;SB=-275.74 GT:AD:DP:GL:GQ 0/1:65,62:85:-116.06,-25.61,-200.91:99
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chr1 813978 . A C 0.71 PASS AC=1;AF=0.50;AN=2;DP=148;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=39.28;MQ0=4;OQ=705.69;QD=4.77;SB=-252.74 GT:AD:DP:GL:GQ 0/1:54,94:80:-97.95,-24.09,-193.62:99
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|
chr1 814078 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=191;Dels=0.00;HRun=1;HaplotypeScore=6.42;MQ=36.79;MQ0=24;OQ=486.46;QD=2.55;SB=-267.20 GT:AD:DP:GL:GQ 0/1:63,128:82:-76.63,-24.70,-247.64:99
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chr1 814121 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=0;HaplotypeScore=39.43;MQ=40.45;MQ0=17;OQ=289.94;QD=1.73;SB=-38.08 GT:AD:DP:GL:GQ 0/1:70,98:82:-56.99,-24.71,-295.92:99
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|
chr1 814147 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=151;Dels=0.00;HRun=0;HaplotypeScore=14.17;MQ=45.92;MQ0=13;OQ=964.78;QD=6.39;SB=-366.58 GT:AD:DP:GL:GQ 0/1:82,69:112:-133.50,-33.74,-285.66:99
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chr1 814171 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=1;HaplotypeScore=20.78;MQ=44.66;MQ0=14;OQ=904.13;QD=5.38;SB=-364.51 GT:AD:DP:GL:GQ 0/1:83,85:118:-129.23,-35.54,-305.53:99
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|
chr1 814202 . C A 1692.96 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=197;Dels=0.09;HRun=0;HaplotypeScore=162.31;MQ=41.97;MQ0=8;QD=8.59;SB=-578.48 GT:AD:DP:GL:GQ 0/1:79,100:139:-213.84,-41.26,-286.69:99
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|
chr1 814220 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=217;Dels=0.00;HRun=0;HaplotypeScore=50.82;MQ=39.65;MQ0=8;OQ=329.14;QD=1.52;SB=-86.50 GT:AD:DP:GL:GQ 0/1:161,56:136:-77.16,-40.96,-423.94:99
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|
chr1 814233 . G A 2067.86 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=224;Dels=0.00;HRun=0;HaplotypeScore=147.47;MQ=38.66;MQ0=13;QD=9.23;SB=-544.97 GT:AD:DP:GL:GQ 0/1:105,119:132:-249.86,-39.79,-228.63:99
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chr1 814239 . A G 1315.30 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=220;Dels=0.00;HRun=1;HaplotypeScore=123.50;MQ=38.45;MQ0=13;QD=5.98;SB=-142.40 GT:AD:DP:GL:GQ 0/1:70,150:114:-169.16,-34.34,-278.17:99
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chr1 814242 . A G 554.64 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=231;Dels=0.00;HRun=0;HaplotypeScore=125.56;MQ=38.13;MQ0=16;QD=2.40;SB=-155.01 GT:AD:DP:GL:GQ 0/1:172,59:130:-97.91,-39.16,-422.03:99
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chr1 814256 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=245;Dels=0.00;HRun=0;HaplotypeScore=21.41;MQ=37.07;MQ0=15;OQ=2324.45;QD=9.49;SB=-360.77 GT:AD:DP:GL:GQ 0/1:68,177:144:-279.11,-43.38,-270.96:99
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|
chr1 814273 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=271;Dels=0.00;HRun=0;HaplotypeScore=59.92;MQ=36.71;MQ0=15;OQ=51.68;QD=0.19;SB=122.32 GT:AD:DP:GL:GQ 0/1:221,49:163:-60.05,-51.60,-506.38:84.51
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|
chr1 814274 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=269;Dels=0.00;HRun=0;HaplotypeScore=59.77;MQ=36.62;MQ0=15;OQ=1850.48;QD=6.88;SB=-407.81 GT:AD:DP:GL:GQ 0/1:149,120:153:-234.45,-46.12,-315.76:99
|
|
chr1 814294 . A G 2410.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=266;Dels=0.00;HRun=2;HaplotypeScore=103.79;MQ=37.05;MQ0=15;QD=9.06;SB=-443.47 GT:AD:DP:GL:GQ 0/1:75,191:153:-290.38,-46.10,-295.34:99
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|
chr1 814296 . G A 1211.04 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=274;Dels=0.00;HRun=0;HaplotypeScore=219.20;MQ=36.82;MQ0=15;QD=4.42;SB=-351.23 GT:AD:DP:GL:GQ 0/1:200,74:158:-171.99,-47.60,-420.58:99
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|
chr1 814301 . A G 978.34 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=274;Dels=0.00;HRun=0;HaplotypeScore=220.77;MQ=36.41;MQ0=15;QD=3.57;SB=-180.08 GT:AD:DP:GL:GQ 0/1:73,201:110:-134.26,-33.14,-291.65:99
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|
chr1 814305 . T C 45.78 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=278;Dels=0.00;HRun=0;HaplotypeScore=232.83;MQ=35.76;MQ0=15;QD=0.16;SB=-43.14 GT:AD:DP:GL:GQ 0/1:206,71:102:-38.59,-30.73,-365.14:78.61
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|
chr1 814318 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=278;Dels=0.00;HRun=0;HaplotypeScore=167.17;MQ=36.26;MQ0=13;OQ=2113.99;QD=7.60;SB=-387.55 GT:AD:DP:GL:GQ 0/1:72,191:148:-269.75,-55.07,-295.63:99
|
|
chr1 814320 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=280;Dels=0.00;HRun=0;HaplotypeScore=167.17;MQ=36.49;MQ0=13;OQ=746.17;QD=2.66;SB=-108.14 GT:AD:DP:GL:GQ 0/1:218,62:140:-120.08,-42.18,-412.31:99
|
|
chr1 814333 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=285;Dels=0.00;HRun=0;HaplotypeScore=281.15;MQ=35.53;MQ0=9;OQ=1990.33;QD=6.98;SB=-447.96 GT:AD:DP:GL:GQ 0/1:95,190:142:-245.09,-42.77,-288.22:99
|
|
chr1 814346 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=251;Dels=0.00;HRun=0;HaplotypeScore=225.23;MQ=36.32;MQ0=4;OQ=1683.84;QD=6.71;SB=-421.88 GT:AD:DP:GL:GQ 0/1:107,144:128:-210.24,-38.57,-269.23:99
|
|
chr1 814360 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=225;Dels=0.00;HRun=2;HaplotypeScore=149.83;MQ=38.08;MQ0=4;OQ=172.19;QD=0.77;SB=51.61 GT:AD:DP:GL:GQ 0/1:195,28:117:-55.74,-35.24,-362.13:99
|
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chr1 814384 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=1;HaplotypeScore=42.51;MQ=45.49;MQ0=3;OQ=551.67;QD=3.70;SB=-145.33 GT:AD:DP:GL:GQ 0/1:76,73:99:-88.27,-29.82,-286.26:99
|
|
chr1 814428 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=0;HaplotypeScore=10.58;MQ=49.14;MQ0=17;OQ=342.52;QD=2.63;SB=-111.49 GT:AD:DP:GL:GQ 0/1:82,48:99:-67.35,-29.82,-298.71:99
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chr1 814439 . C T 20.82 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=0;HaplotypeScore=3.94;MQ=47.72;MQ0=20;QD=0.14;SB=152.46 GT:AD:DP:GL:GQ 0/1:137,12:115:-40.00,-34.64,-383.60:53.62
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|
chr1 814456 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=162;Dels=0.00;HRun=1;HaplotypeScore=15.28;MQ=46.84;MQ0=26;OQ=753.94;QD=4.65;SB=-138.63 GT:AD:DP:GL:GQ 0/1:92,70:122:-115.43,-36.75,-321.50:99
|
|
chr1 814470 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=189;Dels=0.00;HRun=1;HaplotypeScore=31.58;MQ=44.82;MQ0=39;OQ=884.58;QD=4.68;SB=-229.69 GT:AD:DP:GL:GQ 0/1:97,92:121:-128.25,-36.50,-368.74:99
|
|
chr1 814488 . C A 76.03 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=247;Dels=0.00;HRun=0;HaplotypeScore=105.09;MQ=41.14;MQ0=41;QD=0.31;SB=176.55 GT:AD:DP:GL:GQ 0/1:229,16:148:-55.47,-44.58,-476.50:99
|
|
chr1 814489 . C G 69.13 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=248;Dels=0.00;HRun=0;HaplotypeScore=89.81;MQ=41.12;MQ0=41;QD=0.28;SB=176.62 GT:AD:DP:GL:GQ 0/1:231,17:149:-55.10,-44.90,-596.57:99
|
|
chr1 814495 . T C 1858.16 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=258;Dels=0.00;HRun=0;HaplotypeScore=56.93;MQ=40.44;MQ0=47;QD=7.20;SB=-760.45 GT:AD:DP:GL:GQ 0/1:92,166:157:-236.40,-47.30,-370.00:99
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|
chr1 814529 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=433;Dels=0.00;HRun=0;HaplotypeScore=120.51;MQ=38.11;MQ0=39;OQ=500.57;QD=1.16;SB=-243.42 GT:AD:DP:GL:GQ 0/1:383,50:261:-131.95,-78.61,-806.43:99
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|
chr1 814534 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=446;Dels=0.00;HRun=0;HaplotypeScore=107.63;MQ=38.32;MQ0=36;OQ=359.59;QD=0.81;SB=-173.49 GT:AD:DP:GL:GQ 0/1:401,44:272:-121.18,-81.93,-841.90:99
|
|
chr1 814540 . A G 36.54 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=477;Dels=0.00;HRun=1;HaplotypeScore=62.33;MQ=38.25;MQ0=37;QD=0.08;SB=123.17 GT:AD:DP:GL:GQ 0/1:445,32:265:-86.76,-79.83,-986.21:69.37
|
|
chr1 814554 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=529;Dels=0.00;HRun=0;HaplotypeScore=89.36;MQ=37.97;MQ0=32;OQ=9731.93;QD=18.40;SB=-1976.66 GT:AD:DP:GL:GQ 0/1:80,449:318:-972.19,-95.79,-281.92:99
|
|
chr1 814557 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=552;Dels=0.00;HRun=0;HaplotypeScore=97.56;MQ=38.01;MQ0=31;OQ=8661.84;QD=15.69;SB=-1680.73 GT:AD:DP:GL:GQ 0/1:195,357:340:-865.18,-102.42,-472.42:99
|
|
chr1 814572 rs564838 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=625;Dels=0.00;HRun=1;HaplotypeScore=63.63;MQ=38.08;MQ0=27;OQ=2371.32;QD=3.79;SB=-326.77 GT:AD:DP:GL:GQ 0/1:480,145:413:-364.80,-124.39,-1136.05:99
|
|
chr1 814627 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=504;Dels=0.00;HRun=1;HaplotypeScore=183.33;MQ=39.27;MQ0=14;OQ=10984.00;QD=21.79;SB=-1265.89 GT:AD:DP:GL:GQ 0/1:67,203:343:-1097.40,-537.50,-676.52:99
|
|
chr1 814675 . G A 2732.90 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=265;Dels=0.00;HRun=1;HaplotypeScore=261.45;MQ=41.69;MQ0=11;QD=10.31;SB=-108.93 GT:AD:DP:GL:GQ 0/1:161,102:166:-330.09,-53.51,-314.61:99
|
|
chr1 814679 . A G 2402.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=237;Dels=0.00;HRun=1;HaplotypeScore=135.51;MQ=41.79;MQ0=13;QD=10.14;SB=-20.34 GT:AD:DP:GL:GQ 0/1:70,167:146:-287.52,-43.99,-273.83:99
|
|
chr1 814680 . C T 2092.18 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=238;Dels=0.00;HRun=0;HaplotypeScore=134.51;MQ=41.43;MQ0=17;QD=8.79;SB=-7.62 GT:AD:DP:GL:GQ 0/1:151,86:144:-255.88,-43.38,-283.23:99
|
|
chr1 814701 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=219;Dels=0.00;HRun=0;HaplotypeScore=51.82;MQ=41.75;MQ0=19;OQ=1622.55;QD=7.41;SB=-75.48 GT:AD:DP:GL:GQ 0/1:87,132:141:-208.02,-42.48,-267.24:99
|
|
chr1 814708 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=222;Dels=0.00;HRun=0;HaplotypeScore=76.68;MQ=40.68;MQ0=25;OQ=2028.26;QD=9.14;SB=-58.81 GT:AD:DP:GL:GQ 0/1:84,138:144:-249.49,-43.38,-267.28:99
|
|
chr1 814713 rs563211 T C 1374.69 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=232;Dels=0.00;HRun=0;HaplotypeScore=105.58;MQ=40.40;MQ0=29;QD=5.93;SB=29.72 GT:AD:DP:GL:GQ 0/1:146,86:143:-183.83,-43.08,-359.04:99
|
|
chr1 814720 . T C 689.97 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=243;Dels=0.00;HRun=0;HaplotypeScore=108.11;MQ=39.59;MQ0=32;QD=2.84;SB=46.65 GT:AD:DP:GL:GQ 0/1:85,157:115:-106.92,-34.64,-346.63:99
|
|
chr1 814722 . C G 183.01 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=254;Dels=0.00;HRun=0;HaplotypeScore=126.09;MQ=39.61;MQ0=33;QD=0.72;SB=68.61 GT:AD:DP:GL:GQ 0/1:217,37:122:-58.35,-36.76,-472.38:99
|
|
chr1 814737 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=299;Dels=0.00;HRun=0;HaplotypeScore=30.86;MQ=38.18;MQ0=38;OQ=2218.82;QD=7.42;SB=-36.77 GT:AD:DP:GL:GQ 0/1:186,113:186:-281.20,-56.03,-416.78:99
|
|
chr1 814767 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=365;Dels=0.00;HRun=2;HaplotypeScore=49.56;MQ=35.63;MQ0=43;OQ=5264.89;QD=14.42;SB=-427.42 GT:AD:DP:GL:GQ 0/1:96,269:216:-525.49,-65.13,-366.09:99
|
|
chr1 814784 . A G 211.71 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=402;Dels=0.00;HRun=0;HaplotypeScore=324.91;MQ=34.66;MQ0=41;QD=0.53;SB=-28.05 GT:AD:DP:GL:GQ 0/1:357,45:243:-97.65,-73.19,-885.32:99
|
|
chr1 814787 . A G 1988.10 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=404;Dels=0.00;HRun=0;HaplotypeScore=288.76;MQ=34.45;MQ0=41;QD=4.92;SB=-448.31 GT:AD:DP:GL:GQ 0/1:239,165:199:-262.08,-59.99,-467.56:99
|
|
chr1 814790 . G A 2076.12 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=406;Dels=0.00;HRun=0;HaplotypeScore=289.81;MQ=34.38;MQ0=42;QD=5.11;SB=-426.20 GT:AD:DP:GL:GQ 0/1:294,112:245:-284.69,-73.80,-651.34:99
|
|
chr1 814794 . G C 5521.90 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=400;Dels=0.00;HRun=0;HaplotypeScore=359.70;MQ=34.34;MQ0=40;QD=13.80;SB=-919.83 GT:AD:DP:GL:GQ 0/1:77,252:207:-551.19,-211.22,-478.27:99
|
|
chr1 814804 . C T 88.70 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=434;Dels=0.00;HRun=1;HaplotypeScore=347.22;MQ=35.87;MQ0=35;QD=0.20;SB=-33.30 GT:AD:DP:GL:GQ 0/1:387,47:188:-68.79,-56.64,-599.68:99
|
|
chr1 814807 . A C 912.16 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=446;Dels=0.00;HRun=1;HaplotypeScore=302.12;MQ=36.31;MQ0=35;QD=2.05;SB=-348.23 GT:AD:DP:GL:GQ 0/1:319,127:242:-167.40,-72.90,-690.79:99
|
|
chr1 814811 . C T 8629.57 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=472;Dels=0.00;HRun=2;HaplotypeScore=321.44;MQ=36.81;MQ0=35;QD=18.28;SB=-2662.56 GT:AD:DP:GL:GQ 0/1:133,339:310:-861.96,-93.38,-350.61:99
|
|
chr1 814815 . G A 1219.97 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=497;Dels=0.00;HRun=1;HaplotypeScore=253.88;MQ=37.19;MQ0=33;QD=2.45;SB=-308.28 GT:AD:DP:GL:GQ 0/1:414,82:332:-225.30,-100.02,-991.58:99
|
|
chr1 814833 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=552;Dels=0.00;HRun=0;HaplotypeScore=30.66;MQ=38.93;MQ0=25;OQ=13138.69;QD=23.80;SB=-5564.86 GT:AD:DP:GL:GQ 0/1:68,484:387:-1312.87,-116.58,-241.99:99
|
|
chr1 814846 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=600;Dels=0.00;HRun=1;HaplotypeScore=69.54;MQ=39.19;MQ0=23;OQ=3136.64;QD=5.23;SB=-1237.78 GT:AD:DP:GL:GQ 0/1:435,165:409:-440.13,-123.18,-1039.78:99
|
|
chr1 814879 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=693;Dels=0.00;HRun=0;HaplotypeScore=388.69;MQ=39.91;MQ0=7;OQ=8125.01;QD=11.72;SB=-2578.04 GT:AD:DP:GL:GQ 0/1:409,284:467:-811.50,-140.66,-960.39:99
|
|
chr1 814880 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=692;Dels=0.00;HRun=2;HaplotypeScore=381.90;MQ=39.95;MQ0=7;OQ=2413.57;QD=3.49;SB=-960.49 GT:AD:DP:GL:GQ 0/1:533,158:465:-387.57,-142.93,-1289.43:99
|
|
chr1 814900 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=699;Dels=0.00;HRun=0;HaplotypeScore=119.56;MQ=39.22;MQ0=14;OQ=14541.95;QD=20.80;SB=-4000.09 GT:AD:DP:GL:GQ 0/1:90,605:445:-1453.20,-134.09,-272.14:99
|
|
chr1 814929 . C T 1261.33 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=562;Dels=0.00;HRun=0;HaplotypeScore=644.78;MQ=37.11;MQ0=29;QD=2.24;SB=-29.99 GT:AD:DP:GL:GQ 0/1:384,176:313:-223.70,-94.28,-953.66:99
|
|
chr1 814931 . T C 7350.11 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=554;Dels=0.00;HRun=4;HaplotypeScore=616.85;MQ=36.93;MQ0=28;QD=13.27;SB=-1896.86 GT:AD:DP:GL:GQ 0/1:148,405:309:-734.01,-93.08,-440.40:99
|
|
chr1 814932 rs4475692 G A 10783.24 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=554;Dels=0.00;HRun=0;HaplotypeScore=621.95;MQ=36.79;MQ0=29;QD=19.46;SB=-2129.22 GT:AD:DP:GL:GQ 0/1:174,298:306:-1077.32,-380.57,-459.91:99
|
|
chr1 814939 . G A 1306.21 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=568;Dels=0.00;HRun=1;HaplotypeScore=479.84;MQ=36.20;MQ0=35;QD=2.30;SB=-170.45 GT:AD:DP:GL:GQ 0/1:402,165:327:-232.39,-98.48,-986.51:99
|
|
chr1 814952 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=543;Dels=0.00;HRun=0;HaplotypeScore=51.53;MQ=35.74;MQ0=35;OQ=140.17;QD=0.26;SB=144.16 GT:AD:DP:GL:GQ 0/1:482,61:349:-122.41,-105.11,-1207.38:99
|
|
chr1 814967 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=541;Dels=0.00;HRun=0;HaplotypeScore=312.71;MQ=35.10;MQ0=40;OQ=7468.20;QD=13.80;SB=-2338.34 GT:AD:DP:GL:GQ 0/1:256,284:360:-745.82,-108.45,-622.35:99
|
|
chr1 814975 . C T 35.90 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=483;Dels=0.00;HRun=0;HaplotypeScore=80.80;MQ=34.88;MQ0=44;QD=0.07;SB=387.40 GT:AD:DP:GL:GQ 0/1:418,42:326:-167.53,-160.66,-1098.08:68.73
|
|
chr1 815007 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=591;Dels=0.00;HRun=1;HaplotypeScore=71.67;MQ=32.27;MQ0=41;OQ=5134.52;QD=8.69;SB=-1587.17 GT:AD:DP:GL:GQ 0/1:388,203:408:-512.45,-122.89,-966.60:99
|
|
chr1 815060 rs7417801 G A 11239.90 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=650;Dels=0.00;HRun=0;HaplotypeScore=316.82;MQ=33.42;MQ0=19;QD=17.29;SB=-4737.34 GT:AD:DP:GL:GQ 0/1:178,470:421:-1122.99,-126.87,-458.77:99
|
|
chr1 815061 . C T 1691.04 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=650;Dels=0.00;HRun=1;HaplotypeScore=315.98;MQ=33.65;MQ0=19;QD=2.60;SB=-738.44 GT:AD:DP:GL:GQ 0/1:537,113:421:-299.19,-126.80,-1266.58:99
|
|
chr1 815070 rs61768257 T C 12258.60 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=631;Dels=0.00;HRun=0;HaplotypeScore=343.15;MQ=33.97;MQ0=16;QD=19.43;SB=-5504.71 GT:AD:DP:GL:GQ 0/1:80,551:412:-1224.86,-124.09,-309.22:99
|
|
chr1 815113 rs61768258 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=470;Dels=0.00;HRun=0;HaplotypeScore=109.35;MQ=33.63;MQ0=24;OQ=6584.76;QD=14.01;SB=-2185.39 GT:AD:DP:GL:GQ 0/1:114,356:254:-657.48,-76.51,-273.29:99
|
|
chr1 815129 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=382;Dels=0.00;HRun=3;HaplotypeScore=48.33;MQ=33.58;MQ0=23;OQ=4485.00;QD=11.74;SB=-986.12 GT:AD:DP:GL:GQ 0/1:120,260:190:-447.50,-57.26,-260.95:99
|
|
chr1 815155 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=321;Dels=0.00;HRun=2;HaplotypeScore=58.38;MQ=34.02;MQ0=21;OQ=1737.47;QD=5.41;SB=15.00 GT:AD:DP:GL:GQ 0/1:189,132:155:-223.72,-46.69,-361.30:99
|
|
chr1 815170 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=270;Dels=0.00;HRun=0;HaplotypeScore=137.94;MQ=34.80;MQ0=19;OQ=2424.70;QD=8.98;SB=14.59 GT:AD:DP:GL:GQ 0/1:64,205:125:-283.44,-37.69,-171.56:99
|
|
chr1 815209 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=213;Dels=0.00;HRun=4;HaplotypeScore=80.30;MQ=38.66;MQ0=0;OQ=2224.65;QD=10.44;SB=11.50 GT:AD:DP:GL:GQ 0/1:67,146:136:-266.72,-40.97,-258.01:99
|
|
chr1 815222 . C G 180.27 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=222;Dels=0.00;HRun=2;HaplotypeScore=142.18;MQ=38.40;MQ0=0;QD=0.81;SB=9.29 GT:AD:DP:GL:GQ 0/1:186,36:136:-62.35,-41.04,-500.13:99
|
|
chr1 815223 . G T 2117.77 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=216;Dels=0.00;HRun=1;HaplotypeScore=129.82;MQ=38.70;MQ0=0;QD=9.80;SB=21.09 GT:AD:DP:GL:GQ 0/1:67,149:140:-257.24,-42.18,-220.42:99
|
|
chr1 815225 . C A 1105.29 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=217;Dels=0.00;HRun=2;HaplotypeScore=129.82;MQ=38.83;MQ0=0;QD=5.09;SB=62.22 GT:AD:DP:GL:GQ 0/1:119,82:139:-174.62,-60.81,-341.62:99
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|
chr1 815273 rs13303179 G A 2565.92 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=228;Dels=0.03;HRun=0;HaplotypeScore=354.84;MQ=39.22;MQ0=2;QD=11.25;SB=-1159.78 GT:AD:DP:GL:GQ 0/1:137,80:90:-286.39,-26.51,-60.11:99
|
|
chr1 815278 . G T 761.09 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=240;Dels=0.00;HRun=1;HaplotypeScore=623.87;MQ=38.93;MQ0=0;QD=3.17;SB=80.36 GT:AD:DP:GL:GQ 0/1:181,48:118:-132.78,-53.39,-296.79:99
|
|
chr1 815284 . A T 612.72 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=234;Dels=0.01;HRun=0;HaplotypeScore=131.40;MQ=39.54;MQ0=0;QD=2.62;SB=-4.85 GT:AD:DP:GL:GQ 0/1:70,108:89:-96.12,-31.56,-237.53:99
|
|
chr1 815299 . C T 462.61 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=271;Dels=0.00;HRun=1;HaplotypeScore=228.02;MQ=37.95;MQ0=1;QD=1.71;SB=107.29 GT:AD:DP:GL:GQ 0/1:137,134:104:-80.88,-31.33,-296.80:99
|
|
chr1 815300 . A G 825.50 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=268;Dels=0.00;HRun=0;HaplotypeScore=227.74;MQ=37.73;MQ0=1;QD=3.08;SB=104.37 GT:AD:DP:GL:GQ 0/1:110,156:125:-123.50,-37.66,-346.20:99
|
|
chr1 815308 . A G 1233.06 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=264;Dels=0.00;HRun=0;HaplotypeScore=419.76;MQ=37.40;MQ0=1;QD=4.67;SB=68.40 GT:AD:DP:GL:GQ 0/1:127,137:154:-172.99,-46.40,-402.39:99
|
|
chr1 815312 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=276;Dels=0.00;HRun=0;HaplotypeScore=183.65;MQ=36.17;MQ0=1;OQ=3931.91;QD=14.25;SB=-32.81 GT:AD:DP:GL:GQ 0/1:62,214:156:-392.19,-47.02,-185.37:99
|
|
chr1 815328 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=297;Dels=0.00;HRun=0;HaplotypeScore=61.42;MQ=35.05;MQ0=1;OQ=1563.62;QD=5.26;SB=37.57 GT:AD:DP:GL:GQ 0/1:210,87:190:-216.89,-57.25,-456.11:99
|
|
chr1 815333 . A G 262.79 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=299;Dels=0.00;HRun=0;HaplotypeScore=239.02;MQ=35.16;MQ0=1;QD=0.88;SB=12.36 GT:AD:DP:GL:GQ 0/1:257,42:214:-94.06,-64.49,-716.97:99
|
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chr1 815339 . G A 1298.73 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=284;Dels=0.00;HRun=1;HaplotypeScore=174.26;MQ=34.74;MQ0=1;QD=4.57;SB=28.57 GT:AD:DP:GL:GQ 0/1:213,70:192:-191.01,-57.85,-488.27:99
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chr1 815340 . C A 157.45 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=279;Dels=0.00;HRun=0;HaplotypeScore=166.11;MQ=34.52;MQ0=1;QD=0.56;SB=56.17 GT:AD:DP:GL:GQ 0/1:238,39:195:-77.77,-58.74,-595.87:99
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|
chr1 815347 . C T 431.68 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=271;Dels=0.00;HRun=0;HaplotypeScore=149.67;MQ=34.21;MQ0=1;QD=1.59;SB=13.61 GT:AD:DP:GL:GQ 0/1:219,52:183:-101.60,-55.14,-567.56:99
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chr1 815356 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=282;Dels=0.00;HRun=0;HaplotypeScore=134.05;MQ=33.48;MQ0=1;OQ=648.64;QD=2.30;SB=53.15 GT:AD:DP:GL:GQ 0/1:240,42:173:-120.28,-52.13,-519.88:99
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|
chr1 815363 . G A 778.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=288;Dels=0.00;HRun=0;HaplotypeScore=145.91;MQ=33.47;MQ0=1;QD=2.70;SB=9.52 GT:AD:DP:GL:GQ 0/1:221,66:188:-137.76,-56.63,-540.20:99
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|
chr1 815371 . T A 4591.13 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=275;Dels=0.00;HRun=0;HaplotypeScore=258.43;MQ=32.98;MQ0=1;QD=16.70;SB=38.12 GT:AD:DP:GL:GQ 0/1:49,226:171:-458.11,-51.51,-170.42:99
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chr1 815373 . A T 533.41 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=286;Dels=0.00;HRun=2;HaplotypeScore=261.79;MQ=33.03;MQ0=1;QD=1.87;SB=35.14 GT:AD:DP:GL:GQ 0/1:246,39:154:-103.02,-46.39,-455.31:99
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|
chr1 815376 . C A 1170.34 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=282;Dels=0.00;HRun=0;HaplotypeScore=127.10;MQ=33.82;MQ0=1;QD=4.15;SB=38.15 GT:AD:DP:GL:GQ 0/1:188,94:146:-164.30,-43.98,-347.79:99
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|
chr1 815381 . G A 252.28 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=299;Dels=0.00;HRun=0;HaplotypeScore=149.34;MQ=33.65;MQ0=1;QD=0.84;SB=44.17 GT:AD:DP:GL:GQ 0/1:261,37:167:-78.82,-50.30,-512.70:99
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|
chr1 815393 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=275;Dels=0.00;HRun=2;HaplotypeScore=32.62;MQ=34.43;MQ0=1;OQ=361.63;QD=1.32;SB=59.23 GT:AD:DP:GL:GQ 0/1:214,61:130:-78.62,-39.18,-425.44:99
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|
chr1 815401 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=262;Dels=0.00;HRun=0;HaplotypeScore=139.53;MQ=35.48;MQ0=0;OQ=534.52;QD=2.04;SB=65.23 GT:AD:DP:GL:GQ 0/1:204,58:105:-88.37,-31.63,-309.51:99
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|
chr1 815405 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=256;Dels=0.00;HRun=0;HaplotypeScore=139.38;MQ=35.34;MQ0=0;OQ=1047.66;QD=4.09;SB=65.23 GT:AD:DP:GL:GQ 0/1:61,195:95:-136.67,-28.62,-215.61:99
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|
chr1 815412 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=227;Dels=0.00;HRun=1;HaplotypeScore=225.15;MQ=36.20;MQ0=0;OQ=276.35;QD=1.22;SB=65.25 GT:AD:DP:GL:GQ 0/1:61,166:74:-53.21,-22.29,-232.02:99
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|
chr1 815417 rs4970337 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=202;Dels=0.00;HRun=1;HaplotypeScore=585.49;MQ=36.06;MQ0=0;OQ=1433.41;QD=7.10;SB=-630.86 GT:AD:DP:GL:GQ 1/1:20,53:52:-158.74,-15.68,-11.81:38.71
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|
chr1 815425 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=183;Dels=0.00;HRun=0;HaplotypeScore=313.15;MQ=35.48;MQ0=0;OQ=58.46;QD=0.32;SB=65.13 GT:AD:DP:GL:GQ 0/1:47,51:54:-25.40,-16.27,-162.78:91.30
|
|
chr1 815458 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=13.84;MQ=40.96;MQ0=1;OQ=53.27;QD=0.51;SB=62.22 GT:AD:DP:GL:GQ 0/1:68,36:55:-25.19,-16.58,-184.48:86.11
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|
chr1 815470 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=23.44;MQ=43.10;MQ0=1;OQ=126.81;QD=1.44;SB=62.23 GT:AD:DP:GL:GQ 0/1:44,44:50:-31.03,-15.06,-165.46:99
|
|
chr1 815557 . T C 22.78 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=1;HaplotypeScore=22.31;MQ=51.18;MQ0=1;QD=0.27;SB=2.47 GT:AD:DP:GL:GQ 0/1:71,13:68:-26.06,-20.50,-237.08:55.60
|
|
chr1 815639 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=2;HaplotypeScore=38.60;MQ=52.07;MQ0=2;OQ=197.56;QD=2.27;SB=80.29 GT:AD:DP:GL:GQ 0/1:75,12:73:-45.07,-22.03,-247.37:99
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chr1 815714 rs4549984 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=282;Dels=0.00;HRun=0;HaplotypeScore=45.55;MQ=35.23;MQ0=6;OQ=3065.05;QD=10.87;SB=-490.50 GT:AD:DP:GL:GQ 0/1:131,151:198:-369.43,-59.64,-380.00:99
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|
chr1 815740 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=388;Dels=0.00;HRun=1;HaplotypeScore=91.19;MQ=33.31;MQ0=8;OQ=203.81;QD=0.53;SB=46.30 GT:AD:DP:GL:GQ 0/1:351,35:273:-111.13,-87.46,-857.56:99
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|
chr1 815759 . A T 981.66 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=425;Dels=0.00;HRun=0;HaplotypeScore=319.89;MQ=33.30;MQ0=16;QD=2.31;SB=-282.31 GT:AD:DP:GL:GQ 0/1:309,70:292:-258.47,-157.02,-944.68:99
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chr1 815760 . C A 1978.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=424;Dels=0.00;HRun=3;HaplotypeScore=319.89;MQ=33.21;MQ0=16;QD=4.67;SB=-361.60 GT:AD:DP:GL:GQ 0/1:311,113:290:-288.45,-87.35,-755.50:99
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chr1 815761 . C A 1757.71 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=422;Dels=0.00;HRun=1;HaplotypeScore=319.47;MQ=33.03;MQ0=16;QD=4.17;SB=-393.48 GT:AD:DP:GL:GQ 0/1:295,112:286:-275.36,-96.30,-763.46:99
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chr1 815762 . A G 1602.96 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=423;Dels=0.00;HRun=0;HaplotypeScore=319.57;MQ=33.04;MQ0=16;QD=3.79;SB=-325.52 GT:AD:DP:GL:GQ 0/1:273,113:288:-310.25,-146.67,-857.16:99
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chr1 815765 . G A 2936.95 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=427;Dels=0.00;HRun=3;HaplotypeScore=320.41;MQ=33.17;MQ0=17;QD=6.88;SB=-566.97 GT:AD:DP:GL:GQ 0/1:277,150:291:-384.73,-87.75,-614.82:99
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chr1 815777 . C T 24.19 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=434;Dels=0.00;HRun=0;HaplotypeScore=73.54;MQ=32.97;MQ0=17;QD=0.06;SB=99.73 GT:AD:DP:GL:GQ 0/1:393,41:292:-93.65,-87.95,-958.63:57.01
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chr1 815780 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=432;Dels=0.00;HRun=1;HaplotypeScore=75.21;MQ=32.79;MQ0=17;OQ=115.11;QD=0.27;SB=79.01 GT:AD:DP:GL:GQ 0/1:399,33:289:-101.84,-87.05,-1076.94:99
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chr1 815810 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=266;Dels=0.00;HRun=3;HaplotypeScore=40.23;MQ=35.68;MQ0=17;OQ=207.08;QD=0.78;SB=-57.21 GT:AD:DP:GL:GQ 0/1:229,35:180:-78.22,-54.22,-636.76:99
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chr1 815845 . C G 0.13 PASS AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=5.72;MQ=49.45;MQ0=9;OQ=487.79;QD=4.69;SB=-262.79 GT:AD:DP:GL:GQ 0/1:68,36:85:-77.68,-25.61,-285.79:99
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chr1 815857 . T A 21.33 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=5.01;MQ=54.04;MQ0=5;QD=0.23;SB=16.48 GT:AD:DP:GL:GQ 0/1:77,14:82:-30.11,-24.70,-281.02:54.14
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chr1 815931 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=2;HaplotypeScore=25.80;MQ=41.76;MQ0=34;OQ=413.34;QD=2.70;SB=-90.95 GT:AD:DP:GL:GQ 0/1:89,64:100:-74.74,-30.13,-291.31:99
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|
chr1 815936 . T G 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=0;HaplotypeScore=3.77;MQ=41.51;MQ0=35;OQ=307.08;QD=1.93;SB=-87.61 GT:AD:DP:GL:GQ 0/1:91,68:101:-64.41,-30.42,-308.26:99
|
|
chr1 815949 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=162;Dels=0.00;HRun=1;HaplotypeScore=25.06;MQ=39.71;MQ0=34;OQ=456.33;QD=2.82;SB=-102.31 GT:AD:DP:GL:GQ 0/1:134,28:100:-79.04,-30.12,-319.08:99
|
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chr1 815979 . A G 1177.05 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=1;HaplotypeScore=140.50;MQ=42.13;MQ0=3;QD=7.18;SB=-203.16 GT:AD:DP:GL:GQ 0/1:88,76:129:-159.86,-38.87,-326.00:99
|
|
chr1 815980 . T C 32.10 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=0;HaplotypeScore=144.97;MQ=42.03;MQ0=3;QD=0.19;SB=-40.00 GT:AD:DP:GL:GQ 0/1:145,23:122:-43.25,-36.76,-439.68:64.94
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chr1 815986 . A G 296.02 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=2;HaplotypeScore=92.41;MQ=40.86;MQ0=3;QD=1.64;SB=-47.33 GT:AD:DP:GL:GQ 0/1:153,28:121:-69.34,-36.45,-404.50:99
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|
chr1 816000 . G A 125.95 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=173;Dels=0.00;HRun=1;HaplotypeScore=82.29;MQ=39.25;MQ0=3;QD=0.73;SB=53.66 GT:AD:DP:GL:GQ 0/1:159,14:109:-48.71,-32.83,-348.18:99
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chr1 816001 . G A 216.96 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=171;Dels=0.00;HRun=0;HaplotypeScore=91.06;MQ=39.38;MQ0=3;QD=1.27;SB=50.65 GT:AD:DP:GL:GQ 0/1:127,38:117:-81.21,-56.23,-367.68:99
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chr1 816004 . G A 219.09 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=172;Dels=0.00;HRun=0;HaplotypeScore=92.89;MQ=39.19;MQ0=0;QD=1.27;SB=56.64 GT:AD:DP:GL:GQ 0/1:125,47:119:-61.04,-35.85,-362.44:99
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|
chr1 816007 . G A 88.79 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=173;Dels=0.02;HRun=1;HaplotypeScore=88.30;MQ=38.80;MQ0=0;QD=0.51;SB=95.33 GT:AD:DP:GL:GQ 0/1:131,39:117:-47.40,-35.24,-375.36:99
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chr1 816018 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=196;Dels=0.00;HRun=1;HaplotypeScore=112.53;MQ=36.89;MQ0=0;OQ=274.62;QD=1.40;SB=-52.14 GT:AD:DP:GL:GQ 0/1:173,23:109:-63.59,-32.85,-401.41:99
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|
chr1 816026 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=182;Dels=0.00;HRun=0;HaplotypeScore=509.63;MQ=37.96;MQ0=0;OQ=1247.86;QD=6.86;SB=56.18 GT:AD:DP:GL:GQ 0/1:108,73:128:-166.63,-38.56,-316.49:99
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chr1 816043 . A G 1178.79 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=281;Dels=0.00;HRun=0;HaplotypeScore=614.45;MQ=34.94;MQ0=1;QD=4.19;SB=56.21 GT:AD:DP:GL:GQ 0/1:198,83:191:-178.71,-57.55,-539.60:99
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chr1 816057 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=287;Dels=0.00;HRun=0;HaplotypeScore=198.13;MQ=34.34;MQ0=4;OQ=1603.81;QD=5.59;SB=62.23 GT:AD:DP:GL:GQ 0/1:144,109:196:-293.22,-129.56,-512.85:99
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chr1 816072 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=309;Dels=0.00;HRun=0;HaplotypeScore=33.06;MQ=33.48;MQ0=15;OQ=115.32;QD=0.37;SB=71.18 GT:AD:DP:GL:GQ 0/1:282,15:160:-71.44,-56.63,-531.53:99
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chr1 816077 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=299;Dels=0.00;HRun=0;HaplotypeScore=55.33;MQ=33.49;MQ0=15;OQ=4794.59;QD=16.04;SB=68.22 GT:AD:DP:GL:GQ 0/1:81,218:173:-478.46,-52.11,-201.39:99
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chr1 816088 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=278;Dels=0.00;HRun=1;HaplotypeScore=51.57;MQ=34.30;MQ0=16;OQ=4463.53;QD=16.06;SB=62.23 GT:AD:DP:GL:GQ 0/1:58,220:169:-445.35,-50.90,-214.04:99
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chr1 816103 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=237;Dels=0.00;HRun=0;HaplotypeScore=38.99;MQ=36.26;MQ0=16;OQ=1889.47;QD=7.97;SB=68.20 GT:AD:DP:GL:GQ 0/1:61,152:117:-237.42,-45.19,-199.18:99
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chr1 816115 . C T 1441.66 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=202;Dels=0.00;HRun=0;HaplotypeScore=145.73;MQ=37.27;MQ0=15;QD=7.14;SB=68.18 GT:AD:DP:GL:GQ 0/1:132,70:112:-181.22,-33.77,-214.53:99
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chr1 816118 . A T 125.43 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=191;Dels=0.00;HRun=0;HaplotypeScore=164.12;MQ=38.34;MQ0=15;QD=0.66;SB=77.28 GT:AD:DP:GL:GQ 0/1:145,37:109:-58.41,-42.58,-369.08:99
|
|
chr1 816122 . G C 132.11 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=182;Dels=0.00;HRun=0;HaplotypeScore=159.96;MQ=38.91;MQ0=15;QD=0.73;SB=80.30 GT:AD:DP:GL:GQ 0/1:155,27:96:-45.43,-28.94,-364.83:99
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chr1 816123 . A G 766.79 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=157.96;MQ=38.91;MQ0=14;QD=4.28;SB=80.30 GT:AD:DP:GL:GQ 0/1:86,89:106:-121.93,-41.97,-306.67:99
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chr1 816140 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=2;HaplotypeScore=35.96;MQ=45.77;MQ0=9;OQ=496.37;QD=3.82;SB=92.32 GT:AD:DP:GL:GQ 0/1:81,49:95:-81.53,-28.61,-273.48:99
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chr1 817130 rs2879698 C T 1.75 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=7.86;MQ=52.69;MQ0=4;OQ=2390.21;QD=32.30;SB=-1172.34 GT:AD:DP:GL:GQ 1/1:5,69:61:-242.62,-18.38,-0.02:99
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chr1 817140 rs4246498 T C 134.82 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=52.12;MQ0=4;OQ=2043.04;QD=29.61;SB=-1026.82 GT:AD:DP:GL:GQ 1/1:0,69:59:-207.91,-17.78,-0.03:99
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chr1 817186 rs4970386 C T 31.13 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=4.56;MQ=51.33;MQ0=3;OQ=2194.13;QD=35.39;SB=-970.28 GT:AD:DP:GL:GQ 1/1:3,59:55:-223.01,-16.57,-0.01:99
|
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chr1 819196 rs9778019 G A 567.53 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.32;MQ0=0;OQ=1941.14;QD=39.62;SB=-968.30 GT:AD:DP:GL:GQ 1/1:0,49:49:-197.71,-14.76,-0.01:99
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|
chr1 819500 rs4437820 C T 68.03 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.98;MQ=47.44;MQ0=2;OQ=2599.35;QD=37.13;SB=-1006.03 GT:AD:DP:GL:GQ 1/1:0,70:64:-263.53,-19.28,-0.01:99
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|
chr1 819787 . G A 25.28 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=9.99;MQ=51.75;MQ0=1;QD=0.29;SB=104.31 GT:AD:DP:GL:GQ 0/1:80,8:75:-28.42,-22.61,-220.79:58.10
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chr1 820044 rs28444699 A G 2.65 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=5.59;MQ=55.18;MQ0=2;OQ=1994.05;QD=28.49;SB=-1022.00 GT:AD:DP:GL:GQ 1/1:9,61:60:-210.82,-18.07,-7.83:99
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|
chr1 820670 rs6422669 G C 266.94 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.30;MQ0=1;OQ=1743.26;QD=40.54;SB=-467.22 GT:AD:DP:GL:GQ 1/1:1,42:42:-177.93,-12.66,-0.02:99
|
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chr1 821139 rs4024798 C T 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=239;Dels=0.00;HRun=1;HaplotypeScore=9.98;MQ=39.26;MQ0=24;OQ=434.25;QD=1.82;SB=23.91 GT:AD:DP:GL:GQ 0/1:189,50:167:-97.03,-50.32,-487.12:99
|
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chr1 821171 rs477080 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=308;Dels=0.00;HRun=0;HaplotypeScore=33.10;MQ=34.56;MQ0=43;OQ=282.37;QD=0.92;SB=137.47 GT:AD:DP:GL:GQ 0/1:233,75:190:-88.75,-57.23,-688.44:99
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chr1 821352 rs4970385 C T 0.69 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=12.93;MQ=49.51;MQ0=5;OQ=2978.23;QD=32.02;SB=-1308.26 GT:AD:DP:GL:GQ 1/1:14,79:78:-308.32,-23.50,-6.91:99
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chr1 821772 rs9697642 C T 1.09 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=6.48;MQ=53.07;MQ0=1;OQ=2639.96;QD=38.26;SB=-935.74 GT:AD:DP:GL:GQ 1/1:1,68:65:-267.59,-19.58,-0.01:99
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chr1 821923 rs9697378 G A 628.11 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=46.85;MQ0=2;OQ=2615.06;QD=34.87;SB=-1164.40 GT:AD:DP:GL:GQ 1/1:9,66:67:-268.90,-20.18,-3.81:99
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chr1 821929 rs9697380 G C 204.81 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=46.00;MQ0=2;OQ=2952.34;QD=37.85;SB=-1375.91 GT:AD:DP:GL:GQ 1/1:9,69:70:-303.53,-21.09,-4.71:99
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chr1 821975 rs9697725 T C 60.31 PASS AC=2;AF=1.00;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=42.31;MQ0=7;OQ=2446.13;QD=25.75;SB=-880.44 GT:AD:DP:GL:GQ 1/1:20,75:74:-256.35,-22.29,-8.15:99
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chr1 822041 rs13302934 A G 54.22 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=37.41;MQ0=11;OQ=2291.03;QD=26.64;SB=-1047.92 GT:AD:DP:GL:GQ 1/1:17,69:67:-236.77,-20.18,-4.08:99
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chr1 822181 rs4500250 C A 165.39 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=54.49;MQ0=0;OQ=2287.58;QD=33.15;SB=-1055.56 GT:AD:DP:GL:GQ 1/1:2,67:63:-232.36,-18.97,-0.02:99
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chr1 822261 rs4553118 T C 105.61 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=53.16;MQ0=0;OQ=2074.16;QD=32.41;SB=-1031.91 GT:AD:DP:GL:GQ 1/1:0,64:58:-211.02,-17.47,-0.02:99
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chr1 827077 . G C 11.08 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1103.43;QD=20.06;SB=-557.74 GT:AD:DP:GL:GQ 0/1:23,32:50:-128.70,-15.07,-86.51:99
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chr1 832688 rs7519340 A G 206.11 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.92;MQ0=0;OQ=2256.38;QD=34.19;SB=-897.99 GT:AD:DP:GL:GQ 1/1:0,66:64:-229.25,-19.28,-0.02:99
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chr1 833268 rs11516185 A G 180.02 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.49;MQ=58.03;MQ0=0;OQ=720.81;QD=12.65;SB=-270.98 GT:AD:DP:GL:GQ 0/1:24,33:50:-90.45,-15.09,-82.68:99
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chr1 834163 rs61769713 C G 7.44 PASS AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=34.66;MQ0=0;OQ=386.18;QD=32.18;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,12:11:-42.22,-3.32,-0.01:33.11
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chr1 834187 rs61769714 G A 6.81 PASS AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=34.17;MQ0=0;OQ=258.44;QD=25.84;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:8:-29.44,-2.42,-0.01:24.06
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chr1 834206 rs61769715 A G 21 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=32.88;MQ0=0;OQ=98.47;QD=14.07;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:4:-13.38,-1.21,-0.00:12.03
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chr1 834961 . T G 0.56 PASS AC=2;AF=1.00;AN=2;DP=11;Dels=0.00;HRun=2;HaplotypeScore=0.74;MQ=16.23;MQ0=3;OQ=70.14;QD=6.38;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,10:3:-10.50,-0.90,-0.00:9.03
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chr1 835146 rs7366404 G T 7.38 PASS AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=37.00;MQ0=0;OQ=260.28;QD=32.54;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:8:-29.61,-2.41,-0.00:24.08
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chr1 836201 rs4970334 A G 56.75 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.61;MQ=57.95;MQ0=0;OQ=1280.53;QD=26.68;SB=-522.83 GT:AD:DP:GL:GQ 1/1:0,47:43:-131.69,-12.98,-0.05:99
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chr1 836352 rs4970333 T C 54.39 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.98;MQ=58.58;MQ0=0;OQ=1607.31;QD=32.80;SB=-789.15 GT:AD:DP:GL:GQ 1/1:0,49:46:-164.33,-13.86,-0.02:99
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chr1 837113 rs7416129 G A 502.58 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=3431.98;QD=39.91;SB=-1125.99 GT:AD:DP:GL:GQ 1/1:0,85:84:-342.20,-25.31,-0.02:99
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chr1 839861 rs13303222 A G 170.66 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=2.35;MQ=59.09;MQ0=0;OQ=2748.15;QD=33.51;SB=-1203.79 GT:AD:DP:GL:GQ 1/1:0,81:78:-278.43,-23.50,-0.03:99
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chr1 840081 rs6664536 T A 113.50 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=58.64;MQ0=0;OQ=1837.58;QD=35.34;SB=-814.88 GT:AD:DP:GL:GQ 1/1:0,52:50:-187.36,-15.06,-0.02:99
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chr1 840234 rs6679046 G T 614.25 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.48;MQ0=0;OQ=2550.23;QD=33.56;SB=-1032.51 GT:AD:DP:GL:GQ 1/1:0,76:73:-258.64,-22.00,-0.04:99
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chr1 840643 rs6657440 C T 589.62 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=2334.22;QD=36.47;SB=-836.99 GT:AD:DP:GL:GQ 1/1:0,64:61:-237.03,-18.38,-0.02:99
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chr1 841253 . G T 87.70 PASS AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=2.68;MQ=59.70;MQ0=0;OQ=1174.44;QD=15.25;SB=-547.82 GT:AD:DP:GL:GQ 0/1:37,40:75:-143.32,-22.59,-125.03:99
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chr1 841362 rs4970465 A G 15.40 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=2.07;MQ=60.00;MQ0=0;OQ=1972.18;QD=30.34;SB=-856.55 GT:AD:DP:GL:GQ 1/1:0,65:61:-200.85,-18.39,-0.05:99
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chr1 841500 . G C 11.73 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=3;HaplotypeScore=11.47;MQ=56.60;MQ0=0;QD=0.26;SB=59.23 GT:AD:DP:GL:GQ 0/1:36,10:33:-14.38,-9.96,-126.72:44.27
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chr1 841620 rs62677860 A G 51.10 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=60.00;MQ0=0;OQ=1201.63;QD=27.31;SB=-317.48 GT:AD:DP:GL:GQ 1/1:0,43:38:-123.78,-11.46,-0.03:99
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chr1 841900 rs4970463 G A 437.16 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=1176.31;QD=36.76;SB=-508.18 GT:AD:DP:GL:GQ 1/1:0,32:31:-121.23,-9.34,-0.01:93.29
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chr1 841926 rs28436996 G A 99.38 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.22;MQ=58.05;MQ0=0;OQ=1247.42;QD=34.65;SB=-580.28 GT:AD:DP:GL:GQ 1/1:0,35:33:-128.34,-9.94,-0.01:99
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chr1 841996 rs7518702 C T 517.92 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1573.23;QD=37.46;SB=-692.34 GT:AD:DP:GL:GQ 1/1:0,41:40:-160.92,-12.05,-0.01:99
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chr1 842738 rs13303369 C T 76.16 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.63;MQ=58.47;MQ0=0;OQ=2145.17;QD=36.99;SB=-908.72 GT:AD:DP:GL:GQ 1/1:0,58:57:-218.13,-17.18,-0.03:99
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chr1 842827 rs4970461 T G 8.55 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=2.36;MQ=59.03;MQ0=0;OQ=1414.13;QD=29.46;SB=-684.25 GT:AD:DP:GL:GQ 1/1:0,48:47:-145.05,-14.17,-0.05:99
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chr1 843817 rs1806509 C A 190.21 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.61;MQ0=0;OQ=1993.99;QD=33.80;SB=-878.64 GT:AD:DP:GL:GQ 1/1:0,59:57:-203.01,-17.17,-0.02:99
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chr1 844640 rs13303019 A G 51.99 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.20;MQ0=0;OQ=644.86;QD=22.24;SB=-345.42 GT:AD:DP:GL:GQ 1/1:0,29:23:-68.11,-6.95,-0.04:69.10
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chr1 844841 rs13303057 A C 5.18 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.91;MQ=58.36;MQ0=0;OQ=1059.33;QD=26.48;SB=-412.87 GT:AD:DP:GL:GQ 1/1:0,40:35:-109.55,-10.55,-0.04:99
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chr1 844938 rs6673914 C G 24.53 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.27;MQ0=0;OQ=1048.92;QD=37.46;SB=-371.18 GT:AD:DP:GL:GQ 1/1:0,28:26:-108.49,-7.84,-0.02:78.26
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chr1 847591 rs6689107 T G 181.31 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.19;MQ0=0;OQ=1848.72;QD=32.43;SB=-803.49 GT:AD:DP:GL:GQ 1/1:0,57:54:-188.48,-16.27,-0.02:99
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chr1 848664 rs7418179 A G 160.64 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=1692.05;QD=34.53;SB=-783.00 GT:AD:DP:GL:GQ 1/1:0,49:48:-172.81,-14.46,-0.02:99
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chr1 850279 rs61464428 G A 12.90 PASS AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=57.66;MQ0=0;OQ=337.99;QD=33.80;SB=-134.01 GT:AD:DP:GL:GQ 1/1:0,10:10:-37.39,-3.02,-0.01:30.09
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chr1 850324 rs57465118 G A 8.27 PASS AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=54.65;MQ0=0;OQ=218.19;QD=24.24;SB=-48.67 GT:AD:DP:GL:GQ 1/1:0,9:7:-25.40,-2.11,-0.00:21.06
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chr1 850384 rs57924093 C A 117.02 PASS AC=2;AF=1.00;AN=2;DB;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.88;MQ0=0;OQ=151.15;QD=25.19;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:5:-18.67,-1.51,-0.00:15.05
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chr1 850551 rs60837925 G A 175.87 PASS AC=2;AF=1.00;AN=2;DB;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.04;MQ0=0;OQ=188.60;QD=31.43;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:6:-22.43,-1.81,-0.00:18.06
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chr1 850660 . G T 32.80 LowQual AC=2;AF=1.00;AN=2;DP=2;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=65.19;MQ0=0;QD=16.40;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-6.69,-0.60,-0.00:6.02
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chr1 850717 rs57816555 T C 168.04 PASS AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=49.96;MQ0=0;OQ=139.82;QD=27.96;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:5:-17.54,-1.51,-0.00:15.04
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chr1 850871 rs28521172 G C 136.83 PASS AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.04;MQ0=0;OQ=409.27;QD=34.11;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,12:11:-44.52,-3.32,-0.00:33.11
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chr1 851493 rs2879816 G A 181.32 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=58.51;MQ0=0;OQ=1761.97;QD=35.24;SB=-837.99 GT:AD:DP:GL:GQ 1/1:0,50:46:-179.80,-13.86,-0.02:99
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chr1 851671 rs13302982 A G 540.86 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.19;MQ0=0;OQ=1746.20;QD=30.64;SB=-800.68 GT:AD:DP:GL:GQ 1/1:0,57:56:-178.25,-16.89,-0.05:99
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chr1 851956 rs13303291 T C 0.63 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=5;HaplotypeScore=0.79;MQ=59.54;MQ0=0;OQ=1647.69;QD=32.95;SB=-763.57 GT:AD:DP:GL:GQ 1/1:0,50:48:-168.38,-14.46,-0.02:99
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chr1 851987 rs13303101 A G 75.91 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.28;MQ=58.42;MQ0=0;OQ=1718.71;QD=29.13;SB=-814.55 GT:AD:DP:GL:GQ 1/1:0,59:55:-175.51,-16.59,-0.06:99
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chr1 852246 rs6680268 C T 87.18 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.89;MQ0=0;OQ=1535.86;QD=36.57;SB=-649.38 GT:AD:DP:GL:GQ 1/1:0,42:40:-157.19,-12.05,-0.02:99
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chr1 852252 rs6693546 A G 8.74 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=57.97;MQ0=0;OQ=1460.23;QD=31.74;SB=-743.12 GT:AD:DP:GL:GQ 1/1:0,45:42:-149.63,-12.66,-0.02:99
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chr1 852729 rs3892970 C T 119.55 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=1397.63;QD=34.09;SB=-551.29 GT:AD:DP:GL:GQ 1/1:0,41:38:-143.37,-11.46,-0.02:99
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chr1 852987 rs4040604 G T 33.76 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=3.00;MQ=59.28;MQ0=0;OQ=1900.46;QD=32.77;SB=-758.90 GT:AD:DP:GL:GQ 1/1:0,58:55:-193.66,-16.57,-0.02:99
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chr1 853374 rs28626846 T C 176.60 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=56.72;MQ0=0;OQ=383.16;QD=9.12;SB=-198.44 GT:AD:DP:GL:GQ 0/1:24,18:39:-53.37,-11.77,-80.00:99
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chr1 853419 rs7410998 G A 181.10 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=49.05;MQ0=1;OQ=787.22;QD=31.49;SB=-167.67 GT:AD:DP:GL:GQ 1/1:1,24:21:-82.31,-6.33,-0.01:63.20
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chr1 853425 rs7417972 A C 3.94 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=2.00;MQ=51.24;MQ0=1;OQ=853.26;QD=25.86;SB=-413.26 GT:AD:DP:GL:GQ 1/1:1,32:29:-88.94,-8.74,-0.03:87.12
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chr1 853552 rs7417994 A G 58.67 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=47.89;MQ0=0;OQ=1045.12;QD=27.50;SB=-347.41 GT:AD:DP:GL:GQ 1/1:0,38:34:-108.13,-10.26,-0.03:99
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chr1 854589 rs2340590 T A 319.49 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.35;MQ0=0;OQ=1082.41;QD=34.92;SB=-267.73 GT:AD:DP:GL:GQ 1/1:0,31:30:-111.84,-9.04,-0.02:90.27
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chr1 854618 rs2340589 A G 2.04 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=57.47;MQ0=0;OQ=1104.04;QD=28.31;SB=-284.44 GT:AD:DP:GL:GQ 1/1:0,39:37:-114.04,-11.17,-0.05:99
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chr1 854620 rs2340588 G A 306.13 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.47;MQ0=0;OQ=1407.34;QD=36.09;SB=-288.88 GT:AD:DP:GL:GQ 1/1:0,39:36:-144.33,-10.85,-0.01:99
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chr1 854801 . G A 27.13 PASS AC=2;AF=1.00;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=59.52;MQ0=0;OQ=1814.99;QD=37.81;SB=-848.99 GT:AD:DP:GL:GQ 1/1:0,48:46:-185.10,-13.86,-0.01:99
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chr1 856182 rs9988021 G A 414.08 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=1807.60;QD=37.66;SB=-511.65 GT:AD:DP:GL:GQ 1/1:0,48:47:-184.36,-14.16,-0.02:99
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chr1 856756 rs2880024 T C 439.96 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.61;MQ0=0;OQ=1661.89;QD=33.92;SB=-660.32 GT:AD:DP:GL:GQ 1/1:0,49:47:-169.79,-14.16,-0.01:99
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chr1 856783 rs2341361 A G 391.16 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=1555.14;QD=34.56;SB=-535.20 GT:AD:DP:GL:GQ 1/1:0,45:44:-159.12,-13.26,-0.02:99
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chr1 857447 rs2341360 A T 453.14 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1951.43;QD=37.53;SB=-755.79 GT:AD:DP:GL:GQ 1/1:0,51:51:-198.74,-15.36,-0.01:99
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chr1 858192 rs2341359 A C 117.47 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=55.20;MQ0=0;OQ=1194.83;QD=30.64;SB=-603.64 GT:AD:DP:GL:GQ 1/1:0,39:36:-123.08,-10.85,-0.02:99
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chr1 858267 rs13302914 C T 413.34 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.75;MQ0=0;OQ=1181.60;QD=33.76;SB=-589.79 GT:AD:DP:GL:GQ 1/1:0,35:32:-121.76,-9.65,-0.02:96.30
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chr1 858654 rs13303003 C T 431.96 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=892.14;QD=35.69;SB=-459.35 GT:AD:DP:GL:GQ 1/1:1,24:23:-92.80,-6.93,-0.01:69.23
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chr1 858754 rs13303066 A G 117.57 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=59.96;MQ0=0;OQ=1127.68;QD=32.22;SB=-537.22 GT:AD:DP:GL:GQ 1/1:0,35:32:-116.36,-9.64,-0.01:96.29
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chr1 858844 rs13303037 C T 239.71 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.36;MQ0=0;OQ=920.18;QD=35.39;SB=-178.71 GT:AD:DP:GL:GQ 1/1:0,26:25:-95.62,-7.54,-0.02:75.23
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chr1 859186 rs13303207 T C 5.25 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=2;HaplotypeScore=1.75;MQ=49.46;MQ0=0;OQ=860.62;QD=31.87;SB=-321.13 GT:AD:DP:GL:GQ 1/1:0,27:25:-89.66,-7.53,-0.01:75.22
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chr1 859220 . G T 15.33 LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=1.46;MQ=44.47;MQ0=0;QD=0.73;SB=-4.00 GT:AD:DP:GL:GQ 0/1:18,3:16:-9.63,-4.82,-45.13:48.04
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chr1 859232 rs13303328 G T 26.22 PASS AC=1;AF=0.50;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=42.12;MQ0=0;OQ=238.10;QD=15.87;SB=-41.94 GT:AD:DP:GL:GQ 0/1:4,11:12:-30.71,-3.62,-8.58:49.58
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chr1 859236 rs13303330 G C 2.57 PASS AC=1;AF=0.50;AN=2;DB;DP=15;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=42.12;MQ0=0;OQ=289.97;QD=19.33;SB=-45.46 GT:AD:DP:GL:GQ 0/1:4,11:11:-35.60,-3.32,-10.54:72.26
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chr1 859264 rs13303353 G C 17.54 PASS AC=1;AF=0.50;AN=2;DB;DP=12;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=37.87;MQ0=1;OQ=164.66;QD=13.72;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,7:8:-22.16,-2.41,-12.54:99
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chr1 859992 . G C 97.38 PASS AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=19.96;MQ0=0;OQ=93.52;QD=10.39;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:3:-12.84,-0.90,-0.00:9.03
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chr1 860032 . G T 37.54 PASS AC=2;AF=1.00;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.43;MQ0=0;OQ=70.96;QD=5.46;SB=-10.00 GT:AD:DP:GL:GQ 1/1:8,5:3:-10.58,-0.90,-0.00:9.03
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chr1 860180 rs28451560 G A 12.62 PASS AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.95;MQ0=0;OQ=73.11;QD=18.28;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,3:3:-10.80,-0.90,-0.00:9.03
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chr1 860766 rs13303094 T C 16.65 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=59.17;MQ0=0;OQ=826.94;QD=29.53;SB=-125.69 GT:AD:DP:GL:GQ 1/1:0,28:25:-86.29,-7.54,-0.02:75.20
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chr1 861197 rs4072383 G T 400.06 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.63;MQ0=0;OQ=731.30;QD=30.47;SB=-355.85 GT:AD:DP:GL:GQ 1/1:0,24:22:-76.73,-6.63,-0.01:66.18
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chr1 861546 rs4504834 G A 1.38 PASS AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=53.70;MQ0=0;OQ=257.15;QD=25.71;SB=-133.67 GT:AD:DP:GL:GQ 1/1:0,10:8:-29.30,-2.41,-0.01:24.07
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chr1 863421 rs1110052 G T 380.03 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.84;MQ0=0;OQ=1308.42;QD=32.71;SB=-530.08 GT:AD:DP:GL:GQ 1/1:0,40:39:-134.45,-11.76,-0.03:99
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chr1 865499 . C T 29.46 LowQual AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.04;MQ0=0;QD=4.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,2:5:-7.74,-1.51,-8.99:62.30
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chr1 865506 rs7411115 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=5;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=55.21;MQ0=0;OQ=112.00;QD=22.40;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,4:5:-15.99,-1.51,-3.39:18.84
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chr1 866063 . G C 0.28 PASS AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.80;MQ=60.00;MQ0=0;OQ=689.42;QD=21.54;SB=-257.43 GT:AD:DP:GL:GQ 0/1:12,20:31:-81.58,-9.35,-46.59:99
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chr1 866362 rs4372192 A G 0.01 FDRtranche2.00to10.00 AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=6;HaplotypeScore=0.89;MQ=56.86;MQ0=0;OQ=933.15;QD=29.16;SB=-432.49 GT:AD:DP:GL:GQ 1/1:0,31:29:-96.92,-8.74,-0.02:87.21
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chr1 867578 rs6605066 C G 7.06 PASS AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=93.52;QD=31.17;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:3:-12.84,-0.90,-0.00:9.03
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chr1 867694 rs6672356 T C 3.72 PASS AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=52.96;QD=17.65;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:3:-8.79,-0.91,-0.01:9.01
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chr1 868792 . G C 15.78 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.02;HRun=2;HaplotypeScore=22.45;MQ=51.57;MQ0=2;QD=0.38;SB=59.22 GT:AD:DP:GL:GQ 0/1:36,4:34:-14.81,-9.96,-119.24:48.50
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chr1 869539 rs6605067 G A 19.27 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=3;HaplotypeScore=0.58;MQ=56.16;MQ0=0;OQ=2221.47;QD=39.67;SB=-1054.70 GT:AD:DP:GL:GQ 1/1:0,56:55:-225.74,-16.57,-0.01:99
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chr1 869550 rs2839 T C 133.50 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=56.64;MQ0=0;OQ=2001.68;QD=34.51;SB=-1024.77 GT:AD:DP:GL:GQ 1/1:0,58:57:-203.78,-17.17,-0.02:99
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chr1 870101 rs3748592 A G 495.56 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.39;MQ0=0;OQ=1890.23;QD=34.37;SB=-862.36 GT:AD:DP:GL:GQ 1/1:0,55:54:-192.63,-16.27,-0.02:99
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chr1 871490 rs2272757 G A 6.94 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=2.19;MQ=57.04;MQ0=0;OQ=1394.54;QD=37.69;SB=-510.64 GT:AD:DP:GL:GQ 1/1:0,37:36:-143.05,-10.85,-0.01:99
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chr1 872666 rs2340582 A G 42.12 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=4.34;MQ=59.14;MQ0=0;OQ=1872.55;QD=34.68;SB=-917.03 GT:AD:DP:GL:GQ 1/1:0,54:54:-190.86,-16.27,-0.02:99
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chr1 873488 rs4970378 A G 248.98 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.09;MQ0=0;OQ=1449.35;QD=35.35;SB=-732.23 GT:AD:DP:GL:GQ 1/1:0,41:41:-148.53,-12.35,-0.01:99
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chr1 873762 . T G 3.38 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=2;HaplotypeScore=3.82;MQ=57.58;MQ0=0;OQ=623.05;QD=12.98;SB=-319.82 GT:AD:DP:GL:GQ 0/1:24,24:47:-79.75,-14.16,-84.17:99
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chr1 873892 . A C 58.62 SnpCluster AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=53.03;MQ0=0;QD=2.09;SB=-41.91 GT:AD:DP:GL:GQ 0/1:23,5:28:-17.58,-8.43,-82.84:91.46
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chr1 873894 . C T 82.90 SnpCluster AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.03;MQ0=0;QD=2.96;SB=-56.23 GT:AD:DP:GL:GQ 0/1:23,5:28:-20.01,-8.43,-84.10:99
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chr1 873895 . C T 48.24 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=51.20;MQ0=0;QD=1.56;SB=-25.58 GT:AD:DP:GL:GQ 0/1:26,5:28:-16.54,-8.43,-88.26:81.07
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chr1 873901 . T G 115.57 SnpCluster AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.52;MQ0=0;QD=3.50;SB=-81.81 GT:AD:DP:GL:GQ 0/1:26,7:33:-24.78,-9.94,-99.02:99
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chr1 873954 rs7522415 C G 8.33 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=1.52;MQ=43.40;MQ0=0;OQ=1100.42;QD=22.93;SB=-415.98 GT:AD:DP:GL:GQ 0/1:16,32:45:-126.89,-13.56,-66.90:99
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chr1 873964 rs4970455 A C 1.05 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=3;HaplotypeScore=2.44;MQ=43.46;MQ0=0;OQ=358.55;QD=6.77;SB=-63.88 GT:AD:DP:GL:GQ 0/1:38,15:50:-54.21,-15.07,-122.51:99
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chr1 874630 . G A 13.69 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=47.61;MQ0=0;OQ=1000.31;QD=21.75;SB=-485.51 GT:AD:DP:GL:GQ 0/1:17,29:46:-117.17,-13.86,-57.54:99
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chr1 874678 rs4246503 A G 158.46 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=55.11;MQ0=0;OQ=1771.59;QD=30.03;SB=-814.69 GT:AD:DP:GL:GQ 1/1:0,59:55:-180.79,-16.58,-0.04:99
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chr1 875539 rs4970377 C A 535.35 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.40;MQ0=0;OQ=2636.42;QD=36.12;SB=-1177.36 GT:AD:DP:GL:GQ 1/1:1,72:71:-267.24,-21.38,-0.02:99
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chr1 875552 rs4970452 G A 0.79 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=10.99;MQ=56.01;MQ0=0;OQ=2730.82;QD=37.93;SB=-1364.34 GT:AD:DP:GL:GQ 1/1:1,71:70:-276.69,-21.09,-0.03:99
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chr1 875562 rs4970376 A G 1.74 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=9.96;MQ=55.41;MQ0=0;OQ=2063.84;QD=30.35;SB=-1045.24 GT:AD:DP:GL:GQ 1/1:1,67:64:-210.02,-19.30,-0.05:99
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chr1 875869 rs4970375 T C 458.99 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.16;MQ0=0;OQ=1904.11;QD=35.26;SB=-492.54 GT:AD:DP:GL:GQ 1/1:0,54:53:-194.01,-15.96,-0.01:99
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chr1 876651 rs10465242 G A 37.22 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.82;MQ=58.78;MQ0=0;OQ=1853.33;QD=37.07;SB=-743.49 GT:AD:DP:GL:GQ 1/1:0,50:47:-188.93,-14.16,-0.01:99
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chr1 876680 rs10465241 C T 139.09 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=1420.84;QD=37.39;SB=-598.99 GT:AD:DP:GL:GQ 1/1:0,38:38:-145.68,-11.45,-0.02:99
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chr1 877423 rs3748595 A C 60.20 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=58.73;MQ0=0;OQ=1913.10;QD=31.88;SB=-946.06 GT:AD:DP:GL:GQ 1/1:0,60:56:-194.92,-16.87,-0.02:99
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chr1 877664 rs3828047 A G 27.25 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.65;MQ=59.38;MQ0=0;OQ=1254.26;QD=33.90;SB=-513.49 GT:AD:DP:GL:GQ 1/1:0,37:36:-129.02,-10.84,-0.01:99
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chr1 878502 rs3748596 T C 69.46 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=55.26;MQ0=0;OQ=1390.46;QD=33.11;SB=-577.30 GT:AD:DP:GL:GQ 1/1:0,42:41:-142.65,-12.35,-0.02:99
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chr1 878522 rs3748597 T C 420.43 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.43;MQ0=0;OQ=1101.61;QD=31.47;SB=-433.56 GT:AD:DP:GL:GQ 1/1:0,35:33:-113.76,-9.94,-0.02:99
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chr1 879021 rs56262069 G C 15.32 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=1649.51;QD=39.27;SB=-490.55 GT:AD:DP:GL:GQ 1/1:0,42:39:-168.56,-11.76,-0.02:99
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chr1 879022 rs13302945 A C 102.46 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=1299.59;QD=30.94;SB=-461.34 GT:AD:DP:GL:GQ 1/1:0,42:39:-133.56,-11.75,-0.02:99
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chr1 879501 rs13303206 G C 38.13 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=58.78;MQ0=0;OQ=1536.75;QD=40.44;SB=-636.90 GT:AD:DP:GL:GQ 1/1:0,38:37:-157.27,-11.15,-0.01:99
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chr1 879576 rs13303051 C A 192.55 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.48;MQ=59.05;MQ0=0;OQ=1663.22;QD=33.94;SB=-850.81 GT:AD:DP:GL:GQ 1/1:1,48:46:-169.92,-13.85,-0.01:99
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chr1 880884 rs13302957 G A 138.98 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.43;MQ=59.32;MQ0=0;OQ=2228.59;QD=40.52;SB=-1097.37 GT:AD:DP:GL:GQ 1/1:0,55:55:-226.45,-16.57,-0.01:99
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chr1 880922 rs13303065 C T 237.80 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2022.89;QD=39.66;SB=-914.68 GT:AD:DP:GL:GQ 1/1:0,51:51:-205.89,-15.36,-0.01:99
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chr1 881808 rs13303106 A G 3.31 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=3.33;MQ=59.21;MQ0=0;OQ=1343.98;QD=25.36;SB=-644.88 GT:AD:DP:GL:GQ 1/1:0,53:43:-138.03,-12.97,-0.04:99
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chr1 882608 rs13303227 G A 569.43 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2091.00;QD=38.72;SB=-899.68 GT:AD:DP:GL:GQ 1/1:0,54:53:-212.70,-15.97,-0.01:99
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chr1 883143 rs4970371 G A 143.48 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.54;MQ=57.73;MQ0=0;OQ=2249.45;QD=37.49;SB=-940.26 GT:AD:DP:GL:GQ 1/1:0,60:57:-228.55,-17.17,-0.02:99
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chr1 883494 rs6605069 A G 58.53 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=1.99;MQ=58.62;MQ0=0;OQ=2094.43;QD=32.73;SB=-870.68 GT:AD:DP:GL:GQ 1/1:0,64:60:-213.05,-18.07,-0.02:99
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chr1 883582 rs4970445 G A 189.37 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.14;MQ0=0;OQ=1807.99;QD=33.48;SB=-798.52 GT:AD:DP:GL:GQ 1/1:1,53:49:-184.42,-14.78,-0.04:99
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chr1 884436 rs13303010 G A 1.14 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=3.16;MQ=58.63;MQ0=0;OQ=585.11;QD=34.42;SB=-52.67 GT:AD:DP:GL:GQ 1/1:0,17:16:-62.10,-4.82,-0.01:48.15
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chr1 885569 rs13303327 G A 161.74 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=61.07;MQ0=0;OQ=743.89;QD=37.19;SB=-245.00 GT:AD:DP:GL:GQ 1/1:0,20:20:-77.98,-6.03,-0.01:60.19
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chr1 887188 rs4970441 G C 2.34 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=60.00;MQ0=0;OQ=753.54;QD=39.66;SB=-289.25 GT:AD:DP:GL:GQ 1/1:0,19:18:-78.95,-5.42,-0.01:54.18
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chr1 887427 rs13303229 T C 257.67 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1210.82;QD=33.63;SB=-286.61 GT:AD:DP:GL:GQ 1/1:0,36:36:-124.69,-10.85,-0.02:99
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chr1 888186 rs6605071 T C 17.61 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=3.35;MQ=58.67;MQ0=0;OQ=1185.73;QD=33.88;SB=-618.22 GT:AD:DP:GL:GQ 1/1:0,35:34:-122.17,-10.24,-0.01:99
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chr1 889791 rs6677386 G C 245.35 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=39.71;MQ0=0;QD=16.36;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:8:-28.14,-2.43,-0.02:24.07
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chr1 889800 . G T 344.36 SnpCluster AC=2;AF=1.00;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=39.12;MQ0=0;QD=28.70;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,12:11:-38.03,-3.31,-0.01:33.08
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chr1 889801 . G C 465.29 SnpCluster AC=2;AF=1.00;AN=2;DP=12;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=39.12;MQ0=0;QD=38.77;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,12:11:-50.12,-3.31,-0.00:33.11
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chr1 889805 . G A 501.88 SnpCluster AC=2;AF=1.00;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=39.71;MQ0=0;QD=33.46;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:14:-53.78,-4.22,-0.01:42.13
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chr1 889852 rs6669071 A C 11.50 PASS AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=44.10;MQ0=0;OQ=318.72;QD=26.56;SB=-44.57 GT:AD:DP:GL:GQ 1/1:0,12:11:-35.46,-3.31,-0.01:33.07
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chr1 889864 rs28754834 G A 283.84 Indel AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=44.79;MQ0=0;QD=31.54;SB=-93.34 GT:AD:DP:GL:GQ 1/1:0,9:8:-31.97,-2.41,-0.00:24.08
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chr1 889872 rs6704181 C G 264.94 Indel AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=6;HaplotypeScore=0.00;MQ=42.50;MQ0=0;QD=33.12;SB=-56.93 GT:AD:DP:GL:GQ 1/1:0,8:7:-30.07,-2.11,-0.00:21.07
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chr1 890148 rs4970435 C T 1.99 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=54.37;MQ0=0;OQ=1059.65;QD=35.32;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,29:28:-109.56,-8.43,-0.01:84.27
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chr1 890149 rs4970434 A G 1.27 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=54.37;MQ0=0;OQ=1048.98;QD=34.97;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,30:29:-108.49,-8.74,-0.01:87.27
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chr1 890161 . C G 0.39 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=2.89;MQ=54.80;MQ0=0;OQ=464.33;QD=12.55;SB=-10.00 GT:AD:DP:GL:GQ 0/1:16,21:31:-59.09,-9.37,-60.44:99
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chr1 890593 rs3935066 G A 1827.67 Indel AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=54.80;MQ0=0;QD=38.08;SB=-380.50 GT:AD:DP:GL:GQ 1/1:0,48:46:-186.37,-13.86,-0.02:99
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chr1 890835 rs9697711 T G 5.70 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=3.09;MQ=57.77;MQ0=0;OQ=1087.73;QD=27.19;SB=-563.56 GT:AD:DP:GL:GQ 1/1:0,40:34:-112.38,-10.25,-0.03:99
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chr1 890886 rs13303351 T C 4.74 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=5.09;MQ=56.17;MQ0=0;OQ=1868.96;QD=27.89;SB=-762.95 GT:AD:DP:GL:GQ 1/1:0,67:61:-190.56,-18.41,-0.08:99
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chr1 891422 rs13303160 G A 335.14 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=1009.81;QD=38.84;SB=-456.35 GT:AD:DP:GL:GQ 1/1:0,26:26:-104.57,-7.83,-0.01:78.26
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chr1 891470 rs13302996 C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=6;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=1288.09;QD=33.03;SB=-383.20 GT:AD:DP:GL:GQ 1/1:0,39:34:-132.43,-10.27,-0.04:99
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chr1 891515 rs2879814 A G 4.78 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=3.80;MQ=59.05;MQ0=0;OQ=1360.05;QD=30.91;SB=-420.15 GT:AD:DP:GL:GQ 1/1:0,44:40:-139.61,-12.06,-0.03:99
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chr1 892627 rs28416780 C G 985.40 Indel AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=3.73;MQ=60.94;MQ0=0;QD=29.86;SB=-516.60 GT:AD:DP:GL:GQ 1/1:0,33:26:-102.16,-7.86,-0.03:78.25
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chr1 892860 rs7524174 G A 607.69 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2039.21;QD=35.78;SB=-884.69 GT:AD:DP:GL:GQ 1/1:0,57:52:-207.52,-15.67,-0.02:99
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chr1 893108 rs28690976 A G 19.77 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=2;HaplotypeScore=1.31;MQ=59.50;MQ0=0;OQ=1221.87;QD=33.02;SB=-508.55 GT:AD:DP:GL:GQ 1/1:0,37:34:-125.78,-10.24,-0.01:99
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chr1 893184 rs6669800 G A 536.30 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1821.94;QD=35.04;SB=-645.66 GT:AD:DP:GL:GQ 1/1:0,52:47:-185.80,-14.16,-0.02:99
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chr1 895023 rs7555426 C T 0.47 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.03;HRun=0;HaplotypeScore=12.36;MQ=55.36;MQ0=0;OQ=2346.52;QD=37.25;SB=-860.64 GT:AD:DP:GL:GQ 1/1:0,60:62:-238.26,-18.08,-0.02:99
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chr1 895028 rs7522959 A G 167.42 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=55.43;MQ0=0;OQ=2120.68;QD=33.14;SB=-824.97 GT:AD:DP:GL:GQ 1/1:0,63:62:-215.68,-18.68,-0.03:99
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chr1 899282 rs28548431 C T 198.63 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.43;MQ0=0;OQ=508.80;QD=15.42;SB=-237.75 GT:AD:DP:GL:GQ 0/1:15,18:31:-63.51,-9.35,-46.57:99
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chr1 899418 rs2340594 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=6;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=1231.29;QD=30.03;SB=-602.23 GT:AD:DP:GL:GQ 1/1:0,41:40:-126.75,-12.06,-0.03:99
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chr1 899631 rs2340593 A G 106.26 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1110.83;QD=35.83;SB=-387.48 GT:AD:DP:GL:GQ 1/1:0,31:31:-114.68,-9.34,-0.01:93.28
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chr1 900257 rs28477686 C T 200.51 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=716.99;QD=16.30;SB=-337.87 GT:AD:DP:GL:GQ 0/1:20,24:40:-87.03,-12.05,-62.41:99
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chr1 900301 rs6685581 A G 61.67 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=58.90;MQ0=0;OQ=1025.59;QD=26.99;SB=-469.48 GT:AD:DP:GL:GQ 1/1:0,38:34:-106.18,-10.26,-0.04:99
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chr1 900766 rs4970429 T C 21.40 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=1255.50;QD=27.90;SB=-520.11 GT:AD:DP:GL:GQ 1/1:0,45:41:-129.18,-12.37,-0.04:99
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chr1 901458 rs7417106 A G 62.69 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=56.69;MQ0=0;OQ=1131.68;QD=22.63;SB=-392.29 GT:AD:DP:GL:GQ 1/1:0,48:37:-116.79,-11.16,-0.04:99
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chr1 901912 rs9803103 T C 68.99 PASS AC=1;AF=0.50;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.16;MQ0=0;OQ=72.78;QD=4.85;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,5:15:-15.08,-4.52,-39.48:99
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chr1 901966 rs9803017 G A 5.21 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=48.89;MQ0=0;OQ=164.19;QD=23.46;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,5:5:-19.98,-1.51,-0.00:15.05
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chr1 903262 . C T 47.02 LowQual AC=2;AF=1.00;AN=2;DP=2;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.12;MQ0=0;QD=23.51;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-8.11,-0.60,-0.00:6.02
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chr1 903752 rs2340596 G A 213.15 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=58.63;MQ0=0;OQ=437.08;QD=12.86;SB=-239.73 GT:AD:DP:GL:GQ 0/1:19,15:34:-57.25,-10.26,-59.16:99
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chr1 904055 rs2340595 G C 462.22 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=1540.41;QD=36.68;SB=-743.79 GT:AD:DP:GL:GQ 1/1:0,42:38:-157.65,-11.46,-0.02:99
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chr1 904196 rs13302979 C G 14.38 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=2;HaplotypeScore=1.72;MQ=60.00;MQ0=0;OQ=238.96;QD=11.95;SB=-110.33 GT:AD:DP:GL:GQ 0/1:12,8:19:-32.91,-5.73,-43.20:99
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chr1 904715 rs13303368 G C 150.50 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=58.83;MQ0=0;OQ=429.52;QD=11.93;SB=-165.16 GT:AD:DP:GL:GQ 0/1:21,15:34:-56.48,-10.25,-87.94:99
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chr1 904739 rs13302983 T C 1.98 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=3.25;MQ=59.49;MQ0=0;OQ=1146.65;QD=25.48;SB=-382.24 GT:AD:DP:GL:GQ 1/1:0,45:37:-118.29,-11.16,-0.04:99
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chr1 904803 rs13303033 T C 97.04 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=3.63;MQ=59.44;MQ0=0;OQ=505.70;QD=12.33;SB=-138.55 GT:AD:DP:GL:GQ 0/1:20,21:40:-65.92,-12.07,-67.38:99
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chr1 905090 rs13303355 A G 1.94 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=8.34;MQ=56.14;MQ0=0;OQ=1675.03;QD=29.39;SB=-822.95 GT:AD:DP:GL:GQ 1/1:1,56:50:-171.12,-15.07,-0.03:99
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chr1 906412 rs6660139 A G 108.89 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=60.00;MQ0=0;OQ=506.06;QD=14.88;SB=-146.57 GT:AD:DP:GL:GQ 0/1:14,20:33:-63.84,-9.95,-51.10:99
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chr1 906453 rs28566954 G A 282.05 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.36;MQ0=0;OQ=491.61;QD=13.66;SB=-253.24 GT:AD:DP:GL:GQ 0/1:20,16:35:-62.99,-10.55,-63.70:99
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chr1 906697 rs6694632 G A 262.48 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.25;MQ0=0;OQ=424.41;QD=13.69;SB=-233.73 GT:AD:DP:GL:GQ 0/1:16,15:29:-54.46,-8.74,-53.31:99
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chr1 906923 rs6605058 C G 4.01 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=59.45;MQ0=0;OQ=1718.51;QD=40.92;SB=-739.75 GT:AD:DP:GL:GQ 1/1:0,42:41:-175.45,-12.36,-0.02:99
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chr1 907503 rs41285816 G A 149.42 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.47;MQ0=0;OQ=650.11;QD=15.12;SB=-327.85 GT:AD:DP:GL:GQ 0/1:21,22:41:-80.65,-12.35,-76.53:99
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chr1 908101 rs28552711 C G 269.46 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.03;MQ0=0;OQ=561.89;QD=11.71;SB=-234.09 GT:AD:DP:GL:GQ 0/1:27,21:45:-73.04,-13.57,-111.91:99
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chr1 908247 rs13303118 G T 75.04 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.58;MQ0=0;OQ=378.28;QD=8.60;SB=-112.78 GT:AD:DP:GL:GQ 0/1:27,17:40:-53.17,-12.06,-75.89:99
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chr1 908436 rs2341354 A G 288.04 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.75;MQ=59.09;MQ0=0;OQ=687.85;QD=13.49;SB=-217.36 GT:AD:DP:GL:GQ 0/1:22,29:47:-86.23,-14.17,-83.30:99
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chr1 908990 rs28469033 T C 203.63 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=58.06;MQ0=0;OQ=712.75;QD=12.29;SB=-242.27 GT:AD:DP:GL:GQ 0/1:29,28:55:-91.13,-16.57,-114.97:99
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chr1 909282 rs6605059 T C 230.41 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=181.71;QD=7.57;SB=-100.01 GT:AD:DP:GL:GQ 0/1:13,11:22:-28.09,-6.63,-51.27:99
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chr1 909352 rs61606412 C T 41.71 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=53.76;MQ0=0;OQ=576.99;QD=16.03;SB=-77.09 GT:AD:DP:GL:GQ 0/1:16,19:32:-70.62,-9.64,-54.85:99
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chr1 909718 . G A 32.42 PASS AC=1;AF=0.50;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.35;MQ0=0;OQ=82.61;QD=6.35;SB=-28.51 GT:AD:DP:GL:GQ 0/1:9,4:13:-15.46,-3.92,-29.36:99
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chr1 909851 . C T 379.69 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=2;HaplotypeScore=14.99;MQ=38.66;MQ0=0;QD=8.44;SB=-209.86 GT:AD:DP:GL:GQ 0/1:32,13:38:-52.70,-11.44,-90.66:99
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chr1 909854 . C A 33.53 Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=23.31;MQ=39.61;MQ0=0;QD=0.73;SB=-35.83 GT:AD:DP:GL:GQ 0/1:41,3:18:-18.90,-12.26,-52.66:66.37
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chr1 909858 . T A 34.25 Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=1;HaplotypeScore=85.24;MQ=39.71;MQ0=0;QD=0.69;SB=-24.32 GT:AD:DP:GL:GQ 0/1:46,4:25:-14.24,-7.53,-79.28:67.09
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chr1 909861 rs2341357 A C 442.96 Indel;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=92.23;MQ=37.93;MQ0=0;QD=9.23;SB=-187.18 GT:AD:DP:GL:GQ 0/1:13,31:32:-70.70,-23.12,-57.83:99
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chr1 909862 . T C 28.94 Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=90.34;MQ=37.54;MQ0=1;QD=0.59;SB=-27.89 GT:AD:DP:GL:GQ 0/1:45,4:23:-13.11,-6.93,-76.03:61.77
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chr1 909865 rs55746336 A C 368.04 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=65.88;MQ=38.28;MQ0=1;QD=7.51;SB=-150.94 GT:AD:DP:GL:GQ 0/1:20,29:28:-48.52,-8.43,-49.13:99
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chr1 910511 rs6677020 T C 126.81 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=58.99;MQ0=0;OQ=1842.74;QD=30.71;SB=-555.07 GT:AD:DP:GL:GQ 1/1:0,60:57:-187.90,-17.18,-0.04:99
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chr1 910596 rs6677131 T C 281.37 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.54;MQ0=0;OQ=1029.24;QD=25.10;SB=-459.07 GT:AD:DP:GL:GQ 1/1:0,41:35:-106.55,-10.56,-0.04:99
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chr1 911433 rs6662128 T C 65.09 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=42.74;MQ0=0;OQ=1332.64;QD=27.76;SB=-494.18 GT:AD:DP:GL:GQ 1/1:0,48:43:-136.89,-12.97,-0.04:99
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chr1 911523 rs6703008 C T 253.53 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=58.87;MQ0=0;OQ=592.10;QD=14.44;SB=-247.55 GT:AD:DP:GL:GQ 0/1:21,20:40:-74.55,-12.06,-68.34:99
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chr1 911579 rs13303278 C A 321.21 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=57.82;MQ0=0;OQ=846.22;QD=16.27;SB=-412.14 GT:AD:DP:GL:GQ 0/1:22,30:49:-102.67,-14.76,-65.25:99
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chr1 911872 rs6693747 G A 247.15 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=57.81;MQ0=0;OQ=692.72;QD=11.94;SB=-247.55 GT:AD:DP:GL:GQ 0/1:34,24:51:-87.93,-15.37,-94.90:99
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chr1 912939 rs6605060 A G 422.47 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1569.95;QD=29.62;SB=-431.82 GT:AD:DP:GL:GQ 1/1:0,53:52:-160.64,-15.69,-0.06:99
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chr1 913322 rs9442609 A G 120.23 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.67;MQ=58.95;MQ0=0;OQ=1780.01;QD=28.25;SB=-752.61 GT:AD:DP:GL:GQ 1/1:0,63:58:-181.64,-17.49,-0.06:99
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chr1 913612 rs9442610 T C 76.57 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.45;MQ0=1;OQ=2496.82;QD=28.70;SB=-1150.17 GT:AD:DP:GL:GQ 1/1:1,86:79:-253.33,-23.82,-0.07:99
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chr1 913974 rs28447224 T A 288.86 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.45;MQ0=0;OQ=731.87;QD=12.20;SB=-322.51 GT:AD:DP:GL:GQ 0/1:33,27:58:-93.94,-17.47,-123.87:99
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chr1 914034 . A T 3.99 PASS AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.53;MQ0=0;OQ=328.12;QD=3.57;SB=-36.46 GT:AD:DP:GL:GQ 0/1:74,18:90:-63.21,-27.12,-275.61:99
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chr1 914043 . A T 0.15 PASS AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=53.25;MQ0=0;OQ=310.60;QD=3.20;SB=-88.90 GT:AD:DP:GL:GQ 0/1:71,26:82:-59.05,-24.71,-248.58:99
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chr1 914057 rs36034299 T A 46.78 PASS AC=1;AF=0.50;AN=2;DB;DP=123;Dels=0.00;HRun=0;HaplotypeScore=4.71;MQ=52.48;MQ0=0;OQ=1254.45;QD=10.20;SB=-515.06 GT:AD:DP:GL:GQ 0/1:78,44:120:-164.87,-36.14,-292.57:99
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chr1 914062 rs34208189 G T 4.13 PASS AC=1;AF=0.50;AN=2;DB;DP=120;Dels=0.00;HRun=1;HaplotypeScore=4.71;MQ=52.50;MQ0=0;OQ=1304.79;QD=10.87;SB=-551.46 GT:AD:DP:GL:GQ 0/1:72,47:118:-172.13,-38.37,-252.01:99
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chr1 914098 rs28489602 G A 178.03 PASS AC=1;AF=0.50;AN=2;DB;DP=123;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=53.92;MQ0=0;OQ=1142.45;QD=9.29;SB=-414.29 GT:AD:DP:GL:GQ 0/1:80,43:115:-152.18,-34.65,-273.57:99
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chr1 914111 . T G 3.17 PASS AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=54.02;MQ0=0;OQ=717.31;QD=5.56;SB=-222.67 GT:AD:DP:GL:GQ 0/1:95,34:128:-113.56,-38.55,-355.41:99
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chr1 914118 rs59424352 T G 15.06 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=131;Dels=0.00;HRun=2;HaplotypeScore=1.56;MQ=54.89;MQ0=0;QD=0.11;SB=-22.32 GT:AD:DP:GL:GQ 0/1:103,28:116:-39.71,-34.94,-387.42:47.76
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chr1 914126 rs28607403 A T 0.47 PASS AC=1;AF=0.50;AN=2;DB;DP=126;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=56.46;MQ0=0;OQ=177.88;QD=1.41;SB=-25.34 GT:AD:DP:GL:GQ 0/1:106,20:118:-56.62,-35.55,-387.33:99
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chr1 914231 rs35562283 C T 2.83 PASS AC=2;AF=1.00;AN=2;DB;DP=100;Dels=0.00;HRun=2;HaplotypeScore=2.10;MQ=59.39;MQ0=0;OQ=4072.19;QD=40.72;SB=-2034.20 GT:AD:DP:GL:GQ 1/1:0,100:100:-406.22,-30.12,-0.03:99
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chr1 914391 rs34712273 C A 51.10 PASS AC=1;AF=0.50;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=5.23;MQ=56.94;MQ0=0;OQ=1123.83;QD=11.59;SB=-531.23 GT:AD:DP:GL:GQ 0/1:55,42:95:-144.28,-28.62,-196.31:99
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chr1 914466 rs28422907 T C 454.63 PASS AC=2;AF=1.00;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=3679.99;QD=36.08;SB=-1782.71 GT:AD:DP:GL:GQ 1/1:0,102:101:-367.00,-30.42,-0.03:99
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chr1 914492 rs28622096 A G 82.91 PASS AC=2;AF=1.00;AN=2;DB;DP=92;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.55;MQ0=0;OQ=2947.74;QD=32.04;SB=-1451.63 GT:AD:DP:GL:GQ 1/1:0,92:91:-298.43,-27.44,-0.07:99
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chr1 914761 rs6665000 C A 607.33 PASS AC=2;AF=1.00;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3789.11;QD=37.15;SB=-1446.45 GT:AD:DP:GL:GQ 1/1:0,101:101:-377.91,-33.59,-3.42:99
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chr1 915547 rs6605061 T C 196.60 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=57.81;MQ0=0;OQ=1982.79;QD=33.05;SB=-855.97 GT:AD:DP:GL:GQ 1/1:0,60:57:-201.89,-17.17,-0.03:99
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chr1 916214 rs6671243 C T 469.30 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2468.85;QD=39.82;SB=-737.98 GT:AD:DP:GL:GQ 1/1:0,62:61:-250.48,-18.37,-0.01:99
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chr1 916294 rs4970403 A T 304.51 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.55;MQ=59.43;MQ0=0;OQ=2680.54;QD=36.72;SB=-1154.05 GT:AD:DP:GL:GQ 1/1:1,72:71:-271.66,-21.39,-0.02:99
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chr1 916484 rs4970351 A C 485.68 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.76;MQ0=0;OQ=1740.98;QD=35.53;SB=-550.05 GT:AD:DP:GL:GQ 1/1:0,49:49:-177.70,-14.76,-0.01:99
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chr1 917172 rs2341362 T C 555.17 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1855.09;QD=30.92;SB=-890.64 GT:AD:DP:GL:GQ 1/1:0,60:59:-189.15,-17.80,-0.06:99
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chr1 917604 rs6665587 G A 343.04 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.08;MQ0=0;OQ=746.63;QD=16.23;SB=-250.74 GT:AD:DP:GL:GQ 0/1:23,23:45:-91.50,-13.55,-86.19:99
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chr1 918279 . G A 19.72 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.39;MQ=64.12;MQ0=0;OQ=347.49;QD=8.91;SB=-127.57 GT:AD:DP:GL:GQ 0/1:25,14:32:-47.68,-9.65,-62.78:99
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chr1 918383 rs35002855 A G 36.80 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.30;MQ0=0;OQ=923.20;QD=27.98;SB=-310.47 GT:AD:DP:GL:GQ 1/1:0,33:30:-95.93,-9.05,-0.03:90.20
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chr1 918441 rs28394749 G A 367.26 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.34;MQ0=0;OQ=1345.86;QD=38.45;SB=-480.97 GT:AD:DP:GL:GQ 1/1:0,35:35:-138.18,-10.55,-0.01:99
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chr1 918699 rs9777703 C T 463.81 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.88;MQ0=0;OQ=1525.43;QD=38.14;SB=-621.02 GT:AD:DP:GL:GQ 1/1:0,40:39:-156.14,-11.75,-0.01:99
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chr1 919053 rs9777939 A G 223.28 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.27;MQ0=0;OQ=1351.32;QD=33.78;SB=-678.95 GT:AD:DP:GL:GQ 1/1:0,40:38:-138.73,-11.45,-0.01:99
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chr1 919179 rs9777893 C T 85.58 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=55.86;MQ0=0;OQ=1631.07;QD=35.46;SB=-540.88 GT:AD:DP:GL:GQ 1/1:0,46:44:-166.72,-13.27,-0.03:99
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chr1 919184 rs13302916 A C 0.11 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=5;HaplotypeScore=2.13;MQ=54.60;MQ0=0;OQ=1536.74;QD=31.36;SB=-480.03 GT:AD:DP:GL:GQ 1/1:0,49:45:-157.28,-13.56,-0.02:99
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chr1 919190 rs13302924 A G 46.51 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=54.92;MQ0=0;OQ=1263.79;QD=24.30;SB=-518.21 GT:AD:DP:GL:GQ 1/1:0,52:42:-130.02,-12.68,-0.06:99
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chr1 919921 . C A 110.32 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=58.99;MQ0=0;OQ=1041.89;QD=15.10;SB=-490.89 GT:AD:DP:GL:GQ 0/1:34,35:65:-127.06,-19.58,-99.23:99
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chr1 920192 rs3128108 C T 194.44 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=58.69;MQ0=0;OQ=711.37;QD=14.23;SB=-187.15 GT:AD:DP:GL:GQ 0/1:24,26:47:-88.59,-14.17,-77.59:99
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chr1 920240 rs3128109 C T 215.53 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.70;MQ0=0;OQ=1131.05;QD=17.95;SB=-367.88 GT:AD:DP:GL:GQ 0/1:29,34:63:-135.38,-18.99,-92.17:99
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chr1 920396 rs3128110 C G 210.15 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=2.83;MQ=58.26;MQ0=0;OQ=1157.59;QD=14.84;SB=-599.54 GT:AD:DP:GL:GQ 0/1:41,37:77:-142.27,-23.22,-177.91:99
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chr1 920430 rs3121574 A G 364.31 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.06;MQ0=0;OQ=652.89;QD=9.60;SB=-349.53 GT:AD:DP:GL:GQ 0/1:41,27:65:-88.16,-19.59,-156.95:99
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chr1 920614 rs3128111 C G 139.72 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=58.99;MQ0=0;OQ=1461.73;QD=21.18;SB=-736.36 GT:AD:DP:GL:GQ 0/1:28,41:68:-169.95,-20.49,-124.60:99
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chr1 920786 rs2710882 A G 12.29 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=2.97;MQ=49.62;MQ0=0;OQ=1291.93;QD=28.71;SB=-670.84 GT:AD:DP:GL:GQ 1/1:0,45:41:-132.82,-12.37,-0.04:99
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chr1 920877 rs2710881 A G 324.40 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.30;MQ0=0;OQ=966.43;QD=26.85;SB=-364.34 GT:AD:DP:GL:GQ 1/1:0,36:31:-100.25,-9.35,-0.03:93.22
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chr1 921029 rs2710880 A G 58.88 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=3.24;MQ=56.56;MQ0=0;OQ=562.50;QD=14.06;SB=-270.38 GT:AD:DP:GL:GQ 0/1:15,25:36:-70.39,-10.85,-55.63:99
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chr1 921225 rs2799060 G A 150.73 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=3.04;MQ=54.08;MQ0=0;OQ=614.91;QD=17.08;SB=-332.87 GT:AD:DP:GL:GQ 0/1:15,21:29:-73.51,-8.74,-35.50:99
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chr1 921371 rs2799061 T A 126.55 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=52.82;MQ0=0;OQ=1479.30;QD=33.62;SB=-589.54 GT:AD:DP:GL:GQ 1/1:0,44:41:-151.53,-12.35,-0.02:99
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chr1 921411 rs2799062 G T 122.68 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=53.36;MQ0=0;OQ=738.91;QD=16.06;SB=-235.96 GT:AD:DP:GL:GQ 0/1:19,27:43:-90.13,-12.95,-62.40:99
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chr1 921593 rs2005437 A G 3.88 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=2;HaplotypeScore=3.71;MQ=50.61;MQ0=0;OQ=1146.23;QD=32.75;SB=-497.46 GT:AD:DP:GL:GQ 1/1:0,35:33:-118.22,-9.94,-0.01:99
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chr1 921666 rs1891908 C T 2.08 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=4.85;MQ=32.06;MQ0=2;OQ=160.89;QD=4.35;SB=-6.43 GT:AD:DP:GL:GQ 0/1:19,17:19:-25.09,-5.72,-45.39:99
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chr1 921743 rs2710878 G A 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=13.34;MQ=30.42;MQ0=11;OQ=92.22;QD=1.77;SB=38.12 GT:AD:DP:GL:GQ 0/1:43,9:31:-21.85,-9.35,-87.56:99
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chr1 921798 rs59581901 T C 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=13.36;MQ=44.02;MQ0=2;OQ=265.71;QD=4.66;SB=-27.22 GT:AD:DP:GL:GQ 0/1:37,20:42:-42.52,-12.66,-114.67:99
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chr1 921802 rs13303155 G A 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=12.88;MQ=43.29;MQ0=2;OQ=165.28;QD=2.85;SB=-96.56 GT:AD:DP:GL:GQ 0/1:44,13:47:-33.98,-14.17,-116.58:99
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chr1 921917 rs13302969 G T 74.55 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=2.19;MQ=21.41;MQ0=5;OQ=283.37;QD=8.86;SB=-65.73 GT:AD:DP:GL:GQ 0/1:6,26:13:-35.54,-3.92,-11.08:71.59
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chr1 921950 rs4350142 T G 3.51 PASS AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=16.76;MQ0=5;OQ=77.67;QD=4.32;SB=-39.55 GT:AD:DP:GL:GQ 0/1:13,5:9:-13.76,-2.71,-16.22:99
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chr1 922320 rs1891910 G A 55.08 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=1.92;MQ=54.96;MQ0=0;OQ=908.58;QD=18.93;SB=-365.40 GT:AD:DP:GL:GQ 0/1:20,28:47:-108.30,-14.16,-73.49:99
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chr1 922481 rs3128112 C G 140.23 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.00;MQ0=0;OQ=2826.91;QD=42.19;SB=-1373.36 GT:AD:DP:GL:GQ 1/1:0,67:66:-286.30,-19.89,-0.02:99
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chr1 923653 rs9442392 G A 34.86 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=57.66;MQ0=0;OQ=346.01;QD=17.30;SB=-99.62 GT:AD:DP:GL:GQ 0/1:8,12:18:-43.31,-5.43,-22.69:99
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chr1 923962 rs2710867 G C 179.76 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.52;MQ0=0;OQ=491.87;QD=30.74;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:14:-52.79,-4.24,-0.02:42.13
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chr1 923969 rs2799063 A G 177.71 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.52;MQ0=0;OQ=467.35;QD=31.16;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:15:-50.33,-4.52,-0.01:45.12
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chr1 923984 rs2488989 G A 4.47 PASS AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=52.45;MQ0=0;OQ=54.72;QD=4.21;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,4:12:-12.37,-3.61,-31.32:87.56
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chr1 924007 rs9697551 C G 2.08 PASS AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=52.65;MQ0=0;OQ=378.82;QD=37.88;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,10:10:-41.47,-3.01,-0.00:30.10
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chr1 925085 rs2298214 C A 41.67 PASS AC=1;AF=0.50;AN=2;DB;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=126.82;QD=15.85;SB=-10.00 GT:AD:DP:GL:GQ 0/1:3,5:8:-18.37,-2.41,-10.50:80.94
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chr1 925696 rs3128115 C G 0.04 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=4;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=341.24;QD=28.44;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,12:10:-37.72,-3.03,-0.02:30.09
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chr1 925974 rs1936360 C T 39.87 PASS AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=58.35;MQ0=0;OQ=214.61;QD=12.62;SB=-42.53 GT:AD:DP:GL:GQ 0/1:9,8:14:-28.97,-4.22,-22.12:99
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chr1 926057 rs3121570 A G 2.88 PASS AC=2;AF=1.00;AN=2;DB;DP=11;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=311.77;QD=28.34;SB=-100.02 GT:AD:DP:GL:GQ 1/1:0,11:11:-34.77,-3.32,-0.01:33.06
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chr1 926073 rs3121569 C A 189.59 PASS AC=2;AF=1.00;AN=2;DB;DP=11;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.87;MQ0=0;OQ=295.10;QD=26.83;SB=-77.88 GT:AD:DP:GL:GQ 1/1:0,11:10:-33.10,-3.01,-0.01:30.07
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chr1 927551 rs2489000 T C 23.57 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.20;MQ0=0;OQ=869.96;QD=30.00;SB=-383.48 GT:AD:DP:GL:GQ 1/1:0,29:26:-90.60,-7.84,-0.01:78.21
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chr1 927679 . G T 11.95 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=20;HaplotypeScore=4.44;MQ=51.49;MQ0=1;QD=0.30;SB=29.12 GT:AD:DP:GL:GQ 0/1:35,5:33:-14.39,-9.94,-101.16:44.50
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chr1 927979 rs2710869 T G 68.27 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=52.06;MQ0=0;OQ=1400.53;QD=31.83;SB=-711.32 GT:AD:DP:GL:GQ 1/1:0,44:41:-143.66,-12.35,-0.02:99
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chr1 927988 rs2710868 G A 255.30 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=53.36;MQ0=0;OQ=410.87;QD=10.02;SB=-73.54 GT:AD:DP:GL:GQ 0/1:27,14:38:-55.83,-11.46,-75.32:99
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chr1 928076 rs2799058 A G 513.54 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.12;MQ0=1;OQ=1982.35;QD=34.78;SB=-956.40 GT:AD:DP:GL:GQ 1/1:0,57:56:-201.84,-16.87,-0.02:99
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chr1 929868 rs2799056 A G 83.40 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=2.34;MQ=60.00;MQ0=0;OQ=292.67;QD=13.30;SB=-94.98 GT:AD:DP:GL:GQ 0/1:10,12:19:-38.28,-5.73,-31.90:99
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chr1 929959 rs4503294 C T 66.68 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.74;MQ=59.48;MQ0=0;OQ=871.55;QD=19.81;SB=-434.84 GT:AD:DP:GL:GQ 0/1:17,27:40:-102.50,-12.06,-44.62:99
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chr1 931147 rs3128116 C T 186.46 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.94;MQ=58.74;MQ0=0;OQ=584.87;QD=15.81;SB=-318.85 GT:AD:DP:GL:GQ 0/1:17,20:34:-72.02,-10.25,-50.30:99
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chr1 931197 rs57683598 G A 242.64 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=58.63;MQ0=0;OQ=443.86;QD=13.05;SB=-202.91 GT:AD:DP:GL:GQ 0/1:19,15:33:-57.62,-9.95,-57.41:99
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chr1 931402 rs9778087 C T 103.12 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.28;MQ=58.18;MQ0=0;OQ=521.73;QD=14.49;SB=-147.61 GT:AD:DP:GL:GQ 0/1:17,19:30:-64.50,-9.04,-41.68:99
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chr1 933113 rs3121568 C T 81.24 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=27.66;MQ0=1;OQ=764.02;QD=34.73;SB=-301.68 GT:AD:DP:GL:GQ 1/1:1,21:20:-79.99,-6.02,-0.00:60.20
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chr1 933331 rs3121567 T C 90.20 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=52.92;MQ0=0;OQ=1930.66;QD=28.39;SB=-605.93 GT:AD:DP:GL:GQ 1/1:0,67:59:-196.69,-17.79,-0.04:99
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chr1 933550 rs2465140 G C 10.53 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.74;MQ=52.98;MQ0=0;OQ=1826.77;QD=24.04;SB=-482.83 GT:AD:DP:GL:GQ 0/1:29,47:76:-208.87,-22.91,-115.72:99
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chr1 933770 rs2488992 C G 622.99 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=2496.05;QD=39.00;SB=-1249.63 GT:AD:DP:GL:GQ 1/1:1,63:62:-253.23,-18.70,-0.04:99
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chr1 933831 rs13303313 C T 77.45 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.33;MQ=54.98;MQ0=1;OQ=1022.40;QD=21.30;SB=-421.46 GT:AD:DP:GL:GQ 0/1:17,31:46:-119.39,-13.87,-49.73:99
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chr1 934427 rs3128117 T C 70.90 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=3.79;MQ=59.48;MQ0=0;OQ=1012.81;QD=12.50;SB=-424.88 GT:AD:DP:GL:GQ 0/1:46,35:81:-128.96,-24.40,-186.84:99
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chr1 934959 rs3135457 C T 611.86 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.45;MQ0=0;OQ=2185.20;QD=35.82;SB=-904.70 GT:AD:DP:GL:GQ 1/1:0,61:55:-222.12,-16.57,-0.02:99
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chr1 934974 rs13303172 C T 140.68 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.97;MQ=58.59;MQ0=0;OQ=2216.02;QD=34.63;SB=-887.19 GT:AD:DP:GL:GQ 1/1:0,63:58:-225.21,-17.48,-0.03:99
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chr1 935337 rs3121566 C T 64.84 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=2.42;MQ=57.82;MQ0=0;OQ=2650.36;QD=37.33;SB=-1265.29 GT:AD:DP:GL:GQ 1/1:0,71:68:-268.65,-20.49,-0.03:99
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chr1 935475 rs3121565 C T 3.95 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=5.58;MQ=54.82;MQ0=0;OQ=1712.26;QD=33.57;SB=-826.14 GT:AD:DP:GL:GQ 1/1:0,51:46:-174.83,-13.86,-0.02:99
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chr1 935997 rs2341364 T G 377.30 Indel AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=10.97;MQ=57.32;MQ0=2;QD=7.12;SB=-202.78 GT:AD:DP:GL:GQ 0/1:37,16:48:-55.47,-14.46,-118.77:99
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chr1 935998 rs9723307 T G 915.61 Indel AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=11.45;MQ=57.32;MQ0=2;QD=17.28;SB=-353.60 GT:AD:DP:GL:GQ 0/1:21,32:48:-109.30,-14.46,-57.43:99
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chr1 936897 rs2465126 G A 228.15 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.52;MQ0=0;OQ=1823.18;QD=37.98;SB=-798.06 GT:AD:DP:GL:GQ 1/1:0,48:47:-185.92,-14.16,-0.02:99
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chr1 937401 rs2465125 C T 186.23 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.20;MQ0=0;OQ=2163.80;QD=37.31;SB=-987.00 GT:AD:DP:GL:GQ 1/1:0,58:56:-219.99,-16.88,-0.02:99
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chr1 938555 rs2341365 G A 140.11 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.55;MQ0=0;OQ=1650.26;QD=34.38;SB=-693.43 GT:AD:DP:GL:GQ 1/1:0,47:44:-168.63,-13.26,-0.02:99
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chr1 938733 rs4615788 C G 63.76 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.65;MQ=59.05;MQ0=0;OQ=1777.68;QD=37.82;SB=-661.48 GT:AD:DP:GL:GQ 1/1:0,47:45:-181.39,-13.58,-0.03:99
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chr1 938784 rs15842 T C 63.77 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=51.15;MQ0=0;OQ=1180.61;QD=25.67;SB=-593.57 GT:AD:DP:GL:GQ 1/1:0,46:38:-121.68,-11.46,-0.04:99
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chr1 939098 rs2465124 G A 101.68 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=58.32;MQ0=0;OQ=1385.28;QD=35.52;SB=-635.85 GT:AD:DP:GL:GQ 1/1:0,39:36:-142.13,-10.85,-0.02:99
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chr1 939471 rs1921 G A 210.99 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=59.46;MQ0=0;OQ=818.95;QD=19.05;SB=-428.80 GT:AD:DP:GL:GQ 0/1:17,25:41:-97.53,-12.36,-57.36:99
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chr1 939517 rs8997 A G 93.12 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.52;MQ=58.71;MQ0=0;OQ=1127.57;QD=31.32;SB=-511.18 GT:AD:DP:GL:GQ 1/1:0,36:33:-116.36,-9.94,-0.02:99
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chr1 939788 rs2799070 C T 122.12 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=60.00;MQ0=0;OQ=1513.64;QD=36.92;SB=-701.35 GT:AD:DP:GL:GQ 1/1:0,40:39:-154.96,-11.75,-0.01:99
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chr1 940106 rs1891906 A C 58.36 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=59.38;MQ0=0;OQ=496.04;QD=13.41;SB=-49.04 GT:AD:DP:GL:GQ 0/1:19,18:37:-64.03,-11.14,-68.15:99
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chr1 940540 rs9331223 T C 228.94 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=58.40;MQ0=0;OQ=564.77;QD=13.45;SB=-287.31 GT:AD:DP:GL:GQ 0/1:17,25:39:-71.52,-11.76,-66.74:99
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chr1 940579 rs2799069 A T 132.14 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.75;MQ=57.66;MQ0=0;OQ=1217.27;QD=32.90;SB=-595.76 GT:AD:DP:GL:GQ 1/1:0,37:34:-125.32,-10.24,-0.01:99
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chr1 941146 rs9442363 C T 200.29 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=29.19;MQ0=1;OQ=502.68;QD=12.89;SB=-262.28 GT:AD:DP:GL:GQ 0/1:16,22:28:-61.99,-8.44,-37.57:99
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chr1 941158 rs9442388 C T 75.76 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.38;MQ=27.92;MQ0=1;OQ=496.98;QD=10.80;SB=-155.64 GT:AD:DP:GL:GQ 0/1:24,22:37:-64.14,-11.16,-65.52:99
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chr1 941185 rs9697362 C T 0.27 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=4;HaplotypeScore=0.96;MQ=26.62;MQ0=0;OQ=1253.78;QD=25.59;SB=-636.34 GT:AD:DP:GL:GQ 1/1:0,49:34:-128.98,-10.25,-0.02:99
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chr1 941193 rs9697717 G A 313.44 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=26.36;MQ0=0;OQ=1030.78;QD=25.77;SB=-468.62 GT:AD:DP:GL:GQ 1/1:0,40:27:-106.67,-8.14,-0.01:81.26
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chr1 941427 rs2465141 A G 200.39 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.01;MQ=50.56;MQ0=1;OQ=585.65;QD=10.65;SB=-303.21 GT:AD:DP:GL:GQ 0/1:29,26:48:-76.32,-14.47,-98.65:99
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chr1 941491 . A T 28.08 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=45.78;MQ0=3;QD=0.52;SB=41.14 GT:AD:DP:GL:GQ 0/1:46,8:45:-19.65,-13.56,-148.74:60.91
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chr1 941866 rs3128118 G A 182.23 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.48;MQ=58.42;MQ0=1;OQ=769.91;QD=13.27;SB=-278.19 GT:AD:DP:GL:GQ 0/1:30,27:54:-96.56,-16.28,-93.17:99
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chr1 942291 rs9442611 G A 158.27 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=58.27;MQ0=0;OQ=928.32;QD=19.34;SB=-479.01 GT:AD:DP:GL:GQ 0/1:19,29:48:-110.59,-14.48,-59.61:99
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chr1 943087 rs4970390 C T 107.20 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=50.43;MQ0=1;OQ=376.23;QD=6.60;SB=-175.84 GT:AD:DP:GL:GQ 0/1:38,19:49:-55.68,-14.78,-111.95:99
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chr1 943217 rs61766298 G A 33.08 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.91;MQ=54.66;MQ0=1;OQ=355.20;QD=4.80;SB=-58.95 GT:AD:DP:GL:GQ 0/1:57,16:65:-58.41,-19.60,-158.72:99
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chr1 943541 rs2952918 T C 3.09 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=5.78;MQ=53.39;MQ0=0;OQ=348.13;QD=8.70;SB=-186.61 GT:AD:DP:GL:GQ 0/1:24,16:38:-49.55,-11.46,-86.70:99
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chr1 943815 rs9442612 G A 205.15 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=57.73;MQ0=0;OQ=533.79;QD=13.02;SB=-257.75 GT:AD:DP:GL:GQ 0/1:22,19:39:-68.42,-11.76,-70.56:99
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chr1 944640 rs61766299 C A 104.63 PASS AC=1;AF=0.50;AN=2;DB;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=57.66;MQ0=0;OQ=76.34;QD=7.63;SB=-34.38 GT:AD:DP:GL:GQ 0/1:6,4:9:-13.63,-2.71,-15.11:99
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chr1 946715 rs9777931 C T 99.84 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=1.79;MQ=60.00;MQ0=0;OQ=313.20;QD=12.05;SB=-129.12 GT:AD:DP:GL:GQ 0/1:14,11:22:-41.23,-6.63,-41.31:99
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chr1 949018 rs3845291 G A 42.15 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=1.63;MQ=59.54;MQ0=0;OQ=843.29;QD=16.87;SB=-349.52 GT:AD:DP:GL:GQ 0/1:23,27:47:-101.78,-14.17,-66.18:99
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chr1 949032 rs3845292 G C 180 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.39;MQ=59.52;MQ0=0;OQ=777.11;QD=16.19;SB=-360.45 GT:AD:DP:GL:GQ 0/1:22,26:45:-94.57,-13.58,-90.66:99
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chr1 949094 rs4039721 G A 273.59 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.09;MQ0=0;OQ=688.73;QD=16.80;SB=-366.42 GT:AD:DP:GL:GQ 0/1:19,22:36:-83.01,-10.86,-46.17:99
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chr1 950272 rs4970392 G C 3.67 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=3;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=405.25;QD=17.62;SB=-227.38 GT:AD:DP:GL:GQ 0/1:10,13:21:-50.14,-6.33,-36.47:99
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chr1 951690 rs3121556 G A 175.37 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.46;MQ=59.49;MQ0=0;OQ=541.95;QD=12.04;SB=-261.27 GT:AD:DP:GL:GQ 0/1:25,20:39:-69.24,-11.76,-65.32:99
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chr1 952469 rs4970393 G A 53.25 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=4.24;MQ=58.80;MQ0=0;OQ=631.93;QD=18.06;SB=-331.90 GT:AD:DP:GL:GQ 0/1:14,21:33:-76.42,-9.95,-42.13:99
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chr1 952754 rs4970394 C T 113.27 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=59.23;MQ0=0;OQ=488.22;QD=16.27;SB=-210.21 GT:AD:DP:GL:GQ 0/1:14,15:29:-60.84,-8.74,-49.96:99
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chr1 953112 rs2710870 C T 198.18 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.50;MQ=60.00;MQ0=0;OQ=692.82;QD=14.74;SB=-280.19 GT:AD:DP:GL:GQ 0/1:24,23:46:-86.43,-13.86,-83.87:99
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chr1 953580 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=16;HaplotypeScore=1.95;MQ=42.79;MQ0=0;OQ=89.92;QD=8.17;SB=-0.97 GT:AD:DP:GL:GQ 0/1:7,4:8:-14.69,-2.41,-16.44:99
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chr1 953584 rs2465127 T C 0.45 PASS AC=1;AF=0.50;AN=2;DB;DP=12;Dels=0.00;HRun=3;HaplotypeScore=3.77;MQ=52.61;MQ0=0;OQ=94.29;QD=7.86;SB=-65.34 GT:AD:DP:GL:GQ 0/1:4,8:9:-15.43,-2.71,-16.16:99
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chr1 954093 . G A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=9.68;MQ=33.26;MQ0=5;OQ=209.72;QD=5.67;SB=-3.99 GT:AD:DP:GL:GQ 0/1:21,12:15:-28.78,-4.52,-24.72:99
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chr1 954161 rs61766303 C G 18.49 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=31.02;MQ0=1;OQ=184.53;QD=5.27;SB=-0.98 GT:AD:DP:GL:GQ 0/1:19,16:16:-26.57,-4.83,-37.31:99
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chr1 954252 rs4970397 C T 103.23 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=32.94;MQ0=3;OQ=204.52;QD=7.57;SB=-35.64 GT:AD:DP:GL:GQ 0/1:17,10:18:-29.16,-5.43,-34.74:99
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chr1 954703 rs4970343 T C 2.35 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=6.47;MQ=58.52;MQ0=0;OQ=457.55;QD=14.30;SB=-98.71 GT:AD:DP:GL:GQ 0/1:14,18:30:-58.08,-9.04,-50.50:99
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chr1 954711 rs4970344 A T 37.45 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.43;MQ0=0;OQ=626.99;QD=19.00;SB=-168.81 GT:AD:DP:GL:GQ 0/1:12,21:33:-75.92,-9.94,-45.13:99
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chr1 954872 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=20.43;MQ=48.78;MQ0=1;OQ=116.04;QD=3.14;SB=-52.28 GT:AD:DP:GL:GQ 0/1:25,12:25:-22.42,-7.54,-71.63:99
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chr1 955038 rs28373660 A G 250.76 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=55.30;MQ0=0;OQ=611.00;QD=13.28;SB=-229.46 GT:AD:DP:GL:GQ 0/1:20,26:39:-76.13,-11.75,-66.91:99
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chr1 955106 . A G 23.39 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=10.05;MQ=39.47;MQ0=7;QD=0.46;SB=-5.58 GT:AD:DP:GL:GQ 0/1:38,13:31:-14.97,-9.35,-98.23:56.21
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chr1 955141 rs28433148 T C 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.04;HRun=0;HaplotypeScore=16.86;MQ=40.85;MQ0=6;OQ=407.46;QD=7.41;SB=-215.36 GT:AD:DP:GL:GQ 0/1:25,28:41:-56.09,-12.06,-84.28:99
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chr1 955386 rs4970404 A G 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.02;HRun=0;HaplotypeScore=18.83;MQ=42.69;MQ0=11;OQ=218.68;QD=3.58;SB=-113.62 GT:AD:DP:GL:GQ 0/1:39,21:33:-35.11,-9.95,-82.73:99
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chr1 955467 rs4970345 C T 151.03 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=44.49;MQ0=2;OQ=398.93;QD=9.73;SB=-192.19 GT:AD:DP:GL:GQ 0/1:19,21:26:-51.01,-7.84,-42.93:99
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chr1 955802 rs4970398 A T 97.51 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=4.10;MQ=47.03;MQ0=2;OQ=550.07;QD=10.19;SB=-184.73 GT:AD:DP:GL:GQ 0/1:27,27:47:-72.45,-14.16,-100.00:99
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chr1 955812 rs4970399 A G 52.54 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.02;HRun=0;HaplotypeScore=3.69;MQ=45.58;MQ0=2;OQ=418.21;QD=7.47;SB=-156.96 GT:AD:DP:GL:GQ 0/1:27,28:43:-57.78,-12.67,-88.06:99
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chr1 955927 . T C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.47;MQ=51.74;MQ0=5;OQ=79.40;QD=1.80;SB=-44.68 GT:AD:DP:GL:GQ 0/1:30,14:34:-21.47,-10.25,-106.58:99
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chr1 955942 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=21.62;MQ=50.59;MQ0=7;OQ=96.72;QD=1.97;SB=-71.62 GT:AD:DP:GL:GQ 0/1:29,17:31:-22.31,-9.35,-90.50:99
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chr1 956010 . A G 17.59 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=45.86;MQ0=9;QD=0.35;SB=1.17 GT:AD:DP:GL:GQ 0/1:36,13:34:-15.29,-10.25,-111.87:50.35
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chr1 957521 rs4970349 C T 109.68 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.54;MQ=59.65;MQ0=0;OQ=696.48;QD=12.90;SB=-243.23 GT:AD:DP:GL:GQ 0/1:30,24:51:-88.30,-15.37,-100.68:99
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chr1 960023 . C T 7.39 PASS AC=1;AF=0.50;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=53.50;MQ0=0;OQ=70.28;QD=5.86;SB=-0.98 GT:AD:DP:GL:GQ 0/1:7,5:10:-13.33,-3.02,-17.80:99
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chr1 960078 rs9442364 G C 190.47 PASS AC=1;AF=0.50;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=59.38;QD=8.48;SB=-32.42 GT:AD:DP:GL:GQ 0/1:3,4:6:-11.04,-1.82,-11.54:92.22
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chr1 961087 rs2799055 A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=6;HaplotypeScore=0.98;MQ=59.32;MQ0=0;OQ=442.07;QD=13.00;SB=-186.63 GT:AD:DP:GL:GQ 0/1:16,18:32:-57.14,-9.65,-55.82:99
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chr1 961230 rs2710883 T C 342.64 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=662.38;QD=14.09;SB=-345.94 GT:AD:DP:GL:GQ 0/1:23,24:47:-83.68,-14.16,-90.90:99
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chr1 961997 rs3121575 C T 135.78 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=582.22;QD=15.32;SB=-286.19 GT:AD:DP:GL:GQ 0/1:17,20:35:-72.05,-10.55,-56.30:99
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chr1 962043 rs4970350 G A 118.77 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=60.00;MQ0=0;OQ=762.03;QD=19.05;SB=-359.38 GT:AD:DP:GL:GQ 0/1:16,24:38:-90.95,-11.46,-47.96:99
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chr1 963199 rs2488993 A G 276.26 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=691.22;QD=14.71;SB=-269.95 GT:AD:DP:GL:GQ 0/1:22,25:46:-86.26,-13.86,-87.86:99
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chr1 963240 rs2465129 G A 277.94 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.66;MQ=58.44;MQ0=0;OQ=598.48;QD=15.35;SB=-309.81 GT:AD:DP:GL:GQ 0/1:19,20:36:-73.98,-10.85,-56.47:99
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chr1 963321 rs2465130 C T 51.96 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=58.99;MQ0=0;OQ=517.87;QD=11.26;SB=-211.85 GT:AD:DP:GL:GQ 0/1:28,18:43:-68.02,-12.95,-92.79:99
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chr1 963531 rs2488994 A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=4;HaplotypeScore=7.50;MQ=58.37;MQ0=0;OQ=421.46;QD=9.80;SB=-94.66 GT:AD:DP:GL:GQ 0/1:26,17:40:-57.48,-12.05,-93.15:99
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chr1 964043 rs3121577 G T 194.69 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.07;MQ=59.29;MQ0=0;OQ=740.60;QD=11.39;SB=-370.98 GT:AD:DP:GL:GQ 0/1:36,29:64:-96.63,-19.29,-128.48:99
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chr1 964062 rs2465131 C T 262.80 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.28;MQ0=0;OQ=941.69;QD=14.71;SB=-361.86 GT:AD:DP:GL:GQ 0/1:34,30:62:-116.13,-18.68,-116.79:99
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chr1 964088 rs2488995 A G 204.47 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.99;MQ=60.00;MQ0=0;OQ=709.06;QD=12.66;SB=-311.29 GT:AD:DP:GL:GQ 0/1:29,27:55:-90.77,-16.58,-108.13:99
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chr1 964159 rs2488996 A G 168.04 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=2.14;MQ=59.09;MQ0=0;OQ=732.05;QD=15.91;SB=-365.63 GT:AD:DP:GL:GQ 0/1:18,28:43:-89.45,-12.96,-67.34:99
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chr1 964218 rs2488997 G A 8.67 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=4.51;MQ=58.80;MQ0=0;OQ=657.04;QD=18.77;SB=-348.46 GT:AD:DP:GL:GQ 0/1:15,20:35:-79.53,-10.55,-53.54:99
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chr1 964219 rs2465132 T C 152.74 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=3.54;MQ=58.80;MQ0=0;OQ=438.83;QD=12.54;SB=-221.28 GT:AD:DP:GL:GQ 0/1:15,20:33:-57.12,-9.95,-56.00:99
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chr1 964357 rs2465133 G T 31.32 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=5.89;MQ=58.66;MQ0=0;OQ=971.31;QD=14.72;SB=-505.87 GT:AD:DP:GL:GQ 0/1:30,36:62:-119.10,-18.68,-97.98:99
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chr1 964433 rs2465134 T G 140.23 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=2.32;MQ=58.54;MQ0=0;OQ=578.70;QD=12.58;SB=-251.93 GT:AD:DP:GL:GQ 0/1:22,23:38:-72.60,-11.45,-62.23:99
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chr1 964525 rs2465135 G T 124.08 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.24;MQ=58.59;MQ0=0;OQ=621.72;QD=18.84;SB=-320.48 GT:AD:DP:GL:GQ 0/1:13,20:32:-75.10,-9.64,-38.41:99
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chr1 964757 rs3121578 C T 344.84 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.81;MQ0=0;OQ=283.06;QD=10.11;SB=-156.67 GT:AD:DP:GL:GQ 0/1:18,10:26:-39.43,-7.84,-52.76:99
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chr1 964996 rs3121579 T A 109.73 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.40;MQ0=0;OQ=475.63;QD=15.34;SB=-146.82 GT:AD:DP:GL:GQ 0/1:15,16:30:-59.88,-9.04,-53.03:99
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chr1 965565 rs9331224 A G 58.24 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=2;HaplotypeScore=1.21;MQ=58.67;MQ0=0;OQ=414.04;QD=11.83;SB=-233.27 GT:AD:DP:GL:GQ 0/1:19,16:32:-54.33,-9.64,-64.60:99
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chr1 967066 rs3121552 G C 40.51 LowQual AC=1;AF=0.50;AN=2;DB;DP=5;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;QD=8.10;SB=-43.44 GT:AD:DP:GL:GQ 0/1:3,2:4:-8.54,-1.21,-8.39:71.79
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chr1 967193 rs2799066 T C 15.85 LowQual AC=1;AF=0.50;AN=2;DB;DP=8;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.05;MQ0=0;QD=1.98;SB=-24.63 GT:AD:DP:GL:GQ 0/1:6,2:8:-7.27,-2.41,-22.53:48.57
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chr1 967433 rs2710876 G A 2.15 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=7.34;MQ=57.29;MQ0=0;OQ=207.99;QD=8.00;SB=-101.60 GT:AD:DP:GL:GQ 0/1:14,12:21:-30.42,-6.34,-38.59:99
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chr1 967643 rs2710875 C T 1.07 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=4.71;MQ=57.25;MQ0=0;OQ=665.34;QD=21.46;SB=-289.34 GT:AD:DP:GL:GQ 0/1:11,20:28:-78.26,-8.44,-23.82:99
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chr1 970323 rs3128097 G A 1.18 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=9.72;MQ=59.47;MQ0=0;OQ=926.21;QD=16.84;SB=-308.84 GT:AD:DP:GL:GQ 0/1:24,31:51:-111.27,-15.36,-80.98:99
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chr1 970950 rs3128098 A G 264.56 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=57.28;MQ0=0;OQ=593.17;QD=14.83;SB=-270.38 GT:AD:DP:GL:GQ 0/1:15,24:36:-73.46,-10.85,-50.98:99
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chr1 971794 rs2465128 A G 68.21 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=60.00;MQ0=0;OQ=206.80;QD=7.66;SB=-83.65 GT:AD:DP:GL:GQ 0/1:13,14:23:-30.90,-6.93,-51.94:99
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chr1 972307 rs3128099 A G 0.33 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=3;HaplotypeScore=7.82;MQ=57.77;MQ0=0;OQ=622.11;QD=14.81;SB=-282.64 GT:AD:DP:GL:GQ 0/1:15,25:37:-76.65,-11.15,-58.34:99
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chr1 972325 rs3128100 T C 8.29 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=4.33;MQ=57.56;MQ0=0;OQ=1298.64;QD=27.06;SB=-459.21 GT:AD:DP:GL:GQ 1/1:0,48:42:-133.49,-12.67,-0.04:99
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chr1 972376 rs3128101 T C 10.73 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=5.66;MQ=56.76;MQ0=0;OQ=571.56;QD=13.94;SB=-141.55 GT:AD:DP:GL:GQ 0/1:15,25:36:-73.37,-12.93,-53.37:99
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chr1 972804 rs3128102 T C 4.22 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=3;HaplotypeScore=3.75;MQ=59.50;MQ0=0;OQ=547.08;QD=11.89;SB=-200.60 GT:AD:DP:GL:GQ 0/1:23,23:37:-69.14,-11.15,-71.89:99
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chr1 972857 rs10267 T C 1.79 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=2.51;MQ=58.63;MQ0=0;OQ=633.32;QD=18.63;SB=-175.96 GT:AD:DP:GL:GQ 0/1:12,21:33:-76.56,-9.94,-48.12:99
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chr1 974010 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=20;HaplotypeScore=11.22;MQ=50.83;MQ0=0;OQ=57.83;QD=3.04;SB=2.03 GT:AD:DP:GL:GQ 0/1:15,4:17:-14.19,-5.12,-41.74:90.67
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chr1 974165 rs9442391 T C 32.20 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=1.12;MQ=57.07;MQ0=0;OQ=302.47;QD=11.63;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,13:22:-40.16,-6.63,-43.34:99
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chr1 975129 rs2275813 C T 11.79 PASS AC=1;AF=0.50;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.16;MQ0=0;OQ=102.58;QD=20.52;SB=-45.66 GT:AD:DP:GL:GQ 0/1:1,4:5:-15.04,-1.51,-2.70:11.90
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chr1 975309 rs2275812 G T 1.40 PASS AC=1;AF=0.50;AN=2;DB;DP=11;Dels=0.00;HRun=0;HaplotypeScore=7.77;MQ=59.16;MQ0=0;OQ=108.56;QD=9.87;SB=-36.92 GT:AD:DP:GL:GQ 0/1:5,6:10:-17.15,-3.01,-16.77:99
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chr1 975312 rs56255212 G A 0.19 PASS AC=1;AF=0.50;AN=2;DB;DP=11;Dels=0.00;HRun=0;HaplotypeScore=7.96;MQ=57.00;MQ0=0;OQ=248.84;QD=22.62;SB=-118.97 GT:AD:DP:GL:GQ 0/1:2,9:10:-31.18,-3.01,-6.57:35.54
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chr1 976306 rs2710887 C T 180.42 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=498.86;QD=13.13;SB=-206.20 GT:AD:DP:GL:GQ 0/1:21,17:37:-64.33,-11.16,-66.50:99
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chr1 977063 rs9803031 C T 254.02 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.50;MQ0=0;OQ=585.89;QD=18.90;SB=-309.86 GT:AD:DP:GL:GQ 0/1:13,18:30:-70.92,-9.05,-35.55:99
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chr1 977533 rs13303287 T G 495.76 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=796.56;QD=13.73;SB=-424.70 GT:AD:DP:GL:GQ 0/1:25,33:58:-100.42,-17.48,-92.24:99
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chr1 978366 rs2799071 A T 261.84 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=60.00;MQ0=0;OQ=849.34;QD=16.33;SB=-440.60 GT:AD:DP:GL:GQ 0/1:23,29:48:-102.68,-14.47,-71.41:99
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chr1 978795 rs2710871 G C 22.28 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=3;HaplotypeScore=0.83;MQ=58.33;MQ0=0;OQ=743.65;QD=17.71;SB=-370.12 GT:AD:DP:GL:GQ 0/1:18,24:36:-88.51,-10.86,-57.89:99
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chr1 980143 rs4275402 C T 40.06 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=58.13;MQ0=0;OQ=896.64;QD=35.87;SB=-438.31 GT:AD:DP:GL:GQ 1/1:0,25:24:-93.26,-7.23,-0.01:72.23
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chr1 980380 rs2710872 C T 78.16 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=549.92;QD=18.33;SB=-189.29 GT:AD:DP:GL:GQ 0/1:12,18:27:-66.42,-8.14,-30.90:99
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chr1 980636 rs2799072 C T 101.12 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=60.00;MQ0=0;OQ=1104.80;QD=20.09;SB=-396.92 GT:AD:DP:GL:GQ 0/1:22,33:54:-130.03,-16.27,-75.12:99
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chr1 980669 rs2799073 G A 136.86 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.91;MQ=60.00;MQ0=0;OQ=1001.06;QD=20.02;SB=-407.16 GT:AD:DP:GL:GQ 0/1:17,32:47:-117.55,-14.17,-57.43:99
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chr1 980847 rs8014 G A 99.13 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=656.29;QD=17.27;SB=-261.26 GT:AD:DP:GL:GQ 0/1:18,20:38:-80.37,-11.45,-56.60:99
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chr1 981587 rs3121562 C T 350.10 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.79;MQ0=0;OQ=354.87;QD=13.14;SB=-164.15 GT:AD:DP:GL:GQ 0/1:12,15:25:-46.32,-7.55,-37.60:99
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chr1 981840 rs4970400 G A 115.33 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=38.45;MQ=54.81;MQ0=0;QD=3.04;SB=-51.02 GT:AD:DP:GL:GQ 0/1:30,8:33:-24.78,-9.96,-81.20:99
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chr1 981844 rs13303259 A G 138.38 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=33.28;MQ=55.32;MQ0=0;QD=3.29;SB=-90.63 GT:AD:DP:GL:GQ 0/1:32,10:37:-28.28,-11.16,-110.43:99
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chr1 981845 rs2710885 T C 325.46 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=29.31;MQ=55.32;MQ0=0;QD=7.75;SB=-95.70 GT:AD:DP:GL:GQ 0/1:24,18:34:-46.08,-10.25,-78.60:99
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chr1 981905 rs3121564 C T 503.25 Indel AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=2.81;MQ=56.07;MQ0=0;QD=13.24;SB=-230.23 GT:AD:DP:GL:GQ 0/1:19,19:34:-63.86,-10.25,-57.54:99
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chr1 981947 rs2710886 T C 139.57 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.81;MQ=57.30;MQ0=0;OQ=454.51;QD=9.88;SB=-191.43 GT:AD:DP:GL:GQ 0/1:25,21:45:-62.31,-13.57,-94.53:99
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chr1 981957 rs2799074 T C 39.32 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.69;MQ=57.39;MQ0=0;OQ=362.93;QD=6.48;SB=-127.51 GT:AD:DP:GL:GQ 0/1:32,23:44:-52.84,-13.27,-101.58:99
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chr1 982190 rs2245754 C T 115.77 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=2.93;MQ=56.87;MQ0=0;OQ=667.97;QD=12.60;SB=-322.42 GT:AD:DP:GL:GQ 0/1:29,24:49:-84.84,-14.76,-98.05:99
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chr1 982682 rs9331226 G A 139.28 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=47.23;MQ0=0;OQ=1563.99;QD=20.85;SB=-791.90 GT:AD:DP:GL:GQ 0/1:29,46:74:-181.97,-22.29,-107.08:99
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chr1 983223 rs13303240 C A 201.17 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=58.32;MQ0=0;OQ=838.66;QD=15.82;SB=-290.67 GT:AD:DP:GL:GQ 0/1:25,28:52:-102.82,-15.67,-74.49:99
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chr1 984254 rs2488991 G T 204.10 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=58.59;MQ0=0;OQ=458.34;QD=13.89;SB=-201.49 GT:AD:DP:GL:GQ 0/1:13,19:30:-58.16,-9.04,-45.43:99
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chr1 985344 rs9442393 T G 429.35 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=599.53;QD=14.99;SB=-298.50 GT:AD:DP:GL:GQ 0/1:18,22:39:-74.98,-11.75,-60.16:99
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chr1 987271 rs28397086 T C 29.44 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.90;MQ0=0;OQ=513.69;QD=32.11;SB=-117.05 GT:AD:DP:GL:GQ 1/1:0,16:15:-54.96,-4.52,-0.01:45.13
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chr1 988258 rs7526076 A G 181.81 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=59.56;MQ0=0;OQ=852.42;QD=16.08;SB=-332.31 GT:AD:DP:GL:GQ 0/1:24,29:52:-104.19,-15.67,-91.85:99
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chr1 988445 rs3813194 G C 229.28 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.48;MQ0=0;OQ=676.17;QD=16.90;SB=-324.02 GT:AD:DP:GL:GQ 0/1:19,21:38:-82.36,-11.46,-78.97:99
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chr1 990019 rs11584349 C T 5.80 PASS AC=1;AF=0.50;AN=2;DB;DP=12;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=221.74;QD=18.48;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,7:12:-29.08,-3.62,-14.98:99
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chr1 991040 rs4970401 G C 199.01 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=1348.36;QD=21.75;SB=-452.37 GT:AD:DP:GL:GQ 0/1:27,35:61:-156.51,-18.39,-101.07:99
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chr1 992297 rs11260596 C T 126.12 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.11;MQ0=0;OQ=235.14;QD=11.76;SB=-75.09 GT:AD:DP:GL:GQ 0/1:10,10:18:-32.23,-5.43,-30.14:99
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chr1 992795 rs4246502 C G 1.88 PASS AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.20;MQ0=0;OQ=331.32;QD=25.49;SB=-10.00 GT:AD:DP:GL:GQ 0/1:3,10:12:-40.03,-3.62,-11.85:82.27
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chr1 992916 rs4074992 C T 64.57 PASS AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.96;MQ0=0;OQ=236.09;QD=13.12;SB=-45.65 GT:AD:DP:GL:GQ 0/1:9,9:18:-32.32,-5.43,-28.25:99
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chr1 993492 rs4075116 C T 510.01 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=697.41;QD=15.16;SB=-277.76 GT:AD:DP:GL:GQ 0/1:23,23:43:-85.98,-12.96,-73.34:99
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chr1 994820 rs4073176 G A 10.79 PASS AC=1;AF=0.50;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=141.42;QD=15.71;SB=-0.98 GT:AD:DP:GL:GQ 0/1:4,5:9:-20.14,-2.71,-13.80:99
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chr1 994843 rs4073177 G A 1.13 PASS AC=1;AF=0.50;AN=2;DB;DP=11;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=225.74;QD=20.52;SB=-3.99 GT:AD:DP:GL:GQ 0/1:4,7:11:-29.17,-3.31,-13.13:98.16
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chr1 995932 rs55918415 G A 129.98 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=57.98;MQ0=1;OQ=500.10;QD=13.89;SB=-124.09 GT:AD:DP:GL:GQ 0/1:20,16:33:-63.24,-9.94,-54.88:99
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chr1 996086 rs9442394 G A 160.48 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=2.17;MQ=59.51;MQ0=0;OQ=685.95;QD=14.59;SB=-304.81 GT:AD:DP:GL:GQ 0/1:25,22:45:-85.44,-13.56,-78.07:99
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chr1 996853 rs4326571 G A 22.99 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=3.32;MQ=58.90;MQ0=0;OQ=529.40;QD=13.93;SB=-35.65 GT:AD:DP:GL:GQ 0/1:21,17:38:-67.68,-11.45,-66.25:99
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chr1 999097 rs9442366 T C 69.15 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=59.30;MQ0=0;OQ=217.52;QD=6.59;SB=-81.95 GT:AD:DP:GL:GQ 0/1:21,12:31:-34.38,-9.34,-81.07:99
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chr1 999304 . G A 28.33 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=57.94;MQ0=0;OQ=327.19;QD=9.62;SB=-182.19 GT:AD:DP:GL:GQ 0/1:21,13:31:-45.35,-9.34,-65.26:99
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chr1 999341 rs9442367 G C 25.99 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=2;HaplotypeScore=0.81;MQ=58.59;MQ0=0;OQ=590.30;QD=17.89;SB=-256.14 GT:AD:DP:GL:GQ 0/1:14,19:30:-71.37,-9.06,-48.75:99
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chr1 1000580 rs9442368 C T 47.69 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=4.96;MQ=54.71;MQ0=0;OQ=650.78;QD=15.49;SB=-262.79 GT:AD:DP:GL:GQ 0/1:21,21:39:-80.11,-11.75,-60.91:99
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chr1 1000958 rs11810785 A G 695.93 Indel AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=6;HaplotypeScore=2.96;MQ=54.24;MQ0=1;QD=26.77;SB=-339.63 GT:AD:DP:GL:GQ 1/1:0,26:21:-73.19,-6.33,-0.01:63.17
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chr1 1001394 . T C 34.95 LowQual AC=1;AF=0.50;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=41.30;MQ0=1;QD=3.88;SB=-6.99 GT:AD:DP:GL:GQ 0/1:6,3:8:-9.19,-2.41,-20.53:67.78
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chr1 1001500 . A T 20.13 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=16.78;MQ0=8;QD=0.81;SB=-10.00 GT:AD:DP:GL:GQ 0/1:19,5:9:-8.01,-2.72,-22.07:52.92
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chr1 1002064 . G C 10.08 LowQual AC=1;AF=0.50;AN=2;DP=2;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.77;MQ0=0;QD=5.04;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,1:1:-4.25,-0.30,-0.00:1.76
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chr1 1002464 . A T 1.23 PASS AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=18.46;MQ0=3;OQ=57.47;QD=3.59;SB=-37.37 GT:AD:DP:GL:GQ 0/1:8,7:4:-10.24,-1.21,-3.80:25.95
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chr1 1002488 . A T 34.11 LowQual AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=7.23;MQ=19.96;MQ0=3;QD=2.27;SB=-4.00 GT:AD:DP:GL:GQ 0/1:9,6:4:-7.90,-1.21,-5.60:43.89
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chr1 1002494 . A T 35.11 LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=4.75;MQ=19.72;MQ0=3;QD=2.51;SB=-7.00 GT:AD:DP:GL:GQ 0/1:7,7:3:-7.70,-0.90,-3.30:23.95
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chr1 1002516 . G A 46.02 LowQual AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=4.77;MQ=18.44;MQ0=1;QD=4.60;SB=-10.00 GT:AD:DP:GL:GQ 1/1:5,5:2:-8.01,-0.60,-0.00:6.02
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chr1 1002856 . T G 12.29 PASS AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.33;MQ0=1;OQ=106.33;QD=5.32;SB=-21.95 GT:AD:DP:GL:GQ 0/1:10,10:13:-17.84,-3.92,-27.80:99
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chr1 1003100 . C T 26.46 LowQual AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=39.70;MQ0=0;QD=2.65;SB=-3.99 GT:AD:DP:GL:GQ 0/1:8,2:6:-7.74,-1.81,-13.13:59.28
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chr1 1003243 . G C 4.11 PASS AC=2;AF=1.00;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=4.94;MQ=27.95;MQ0=9;OQ=330.47;QD=13.77;SB=-94.94 GT:AD:DP:GL:GQ 1/1:14,10:9:-36.64,-2.72,-0.01:27.09
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chr1 1003514 . C A 42.25 LowQual AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=28.30;MQ0=1;QD=7.04;SB=-46.39 GT:AD:DP:GL:GQ 1/1:0,6:2:-7.63,-0.60,-0.00:6.02
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chr1 1003557 . T A 0.08 PASS AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=5.02;MQ=17.13;MQ0=14;OQ=71.49;QD=2.98;SB=-43.38 GT:AD:DP:GL:GQ 0/1:21,3:4:-11.64,-1.20,-3.64:24.35
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chr1 1003864 . G C 10.99 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=9.87;MQ=5.60;MQ0=15;QD=0.58;SB=-10.00 GT:AD:DP:GL:GQ 0/1:17,2:1:-4.35,-0.30,-0.00:1.76
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chr1 1004168 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=12.18;MQ=19.95;MQ0=11;OQ=53.86;QD=2.56;SB=-37.95 GT:AD:DP:GL:GQ 0/1:14,6:6:-10.48,-1.81,-11.22:86.70
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chr1 1004254 . G C 33.05 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=1;HaplotypeScore=6.90;MQ=13.09;MQ0=11;QD=1.32;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,12:4:-7.80,-1.21,-8.59:65.89
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chr1 1004313 . G C 21.04 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=11.38;MQ0=14;QD=0.84;SB=-3.98 GT:AD:DP:GL:GQ 0/1:23,2:6:-7.19,-1.81,-17.58:53.84
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chr1 1004699 rs12401605 A G 193.45 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=54.82;MQ0=0;OQ=256.92;QD=8.56;SB=-154.32 GT:AD:DP:GL:GQ 0/1:17,12:28:-37.42,-8.44,-63.53:99
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chr1 1004727 rs12411041 T A 29.53 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=54.35;MQ0=0;OQ=225.92;QD=6.11;SB=-72.06 GT:AD:DP:GL:GQ 0/1:25,11:32:-35.52,-9.65,-76.83:99
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chr1 1004989 rs36027499 A G 65.38 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=54.55;MQ0=0;OQ=184.41;QD=7.38;SB=-109.60 GT:AD:DP:GL:GQ 0/1:16,9:24:-28.96,-7.24,-58.60:99
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chr1 1005120 rs9442369 A G 5.28 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.83;MQ=59.36;MQ0=0;OQ=146.76;QD=4.08;SB=-64.75 GT:AD:DP:GL:GQ 0/1:26,10:34:-28.21,-10.25,-99.59:99
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chr1 1005414 rs9442370 C T 185.20 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.23;MQ0=0;OQ=413.23;QD=13.77;SB=-165.25 GT:AD:DP:GL:GQ 0/1:14,16:26:-52.45,-7.84,-38.57:99
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chr1 1005680 rs12746483 G A 50.56 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=1;HaplotypeScore=2.06;MQ=55.16;MQ0=0;OQ=462.98;QD=16.54;SB=-241.55 GT:AD:DP:GL:GQ 0/1:13,15:28:-58.02,-8.44,-44.58:99
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chr1 1007033 rs3766193 C G 206.38 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=1.18;MQ=57.65;MQ0=0;OQ=606.89;QD=15.97;SB=-241.40 GT:AD:DP:GL:GQ 0/1:19,19:36:-74.82,-10.85,-77.35:99
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chr1 1007060 rs3766192 C T 263.39 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.29;MQ=59.03;MQ0=0;OQ=740.51;QD=17.22;SB=-335.87 GT:AD:DP:GL:GQ 0/1:19,24:42:-90.01,-12.67,-54.97:99
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chr1 1007204 rs1133647 G T 220.81 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=58.63;MQ0=0;OQ=352.30;QD=10.36;SB=-144.83 GT:AD:DP:GL:GQ 0/1:20,14:34:-48.76,-10.25,-68.42:99
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chr1 1008007 rs9442395 T C 79.76 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=3.17;MQ=58.20;MQ0=0;OQ=515.12;QD=11.71;SB=-260.59 GT:AD:DP:GL:GQ 0/1:23,21:43:-67.76,-12.96,-87.04:99
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chr1 1008425 rs9442371 C T 263.64 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=58.95;MQ0=0;OQ=629.69;QD=14.31;SB=-217.52 GT:AD:DP:GL:GQ 0/1:24,20:39:-78.01,-11.76,-59.01:99
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chr1 1008567 rs9442372 A G 252.74 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.72;MQ=58.97;MQ0=0;OQ=538.45;QD=11.97;SB=-254.34 GT:AD:DP:GL:GQ 0/1:20,24:42:-69.79,-12.66,-79.04:99
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chr1 1009038 rs2298215 C G 217.10 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=60.00;MQ0=0;OQ=687.91;QD=14.95;SB=-237.07 GT:AD:DP:GL:GQ 0/1:26,20:46:-85.94,-13.87,-107.64:99
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chr1 1009043 rs9442396 T C 432.81 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=537.22;QD=11.94;SB=-291.59 GT:AD:DP:GL:GQ 0/1:24,21:42:-69.65,-12.65,-93.39:99
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chr1 1010269 rs9442397 T C 3.22 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=2.96;MQ=59.38;MQ0=0;OQ=202.19;QD=5.46;SB=-53.82 GT:AD:DP:GL:GQ 0/1:25,12:35:-34.05,-10.54,-100.39:99
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chr1 1011278 rs3737728 A G 36.30 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=3.58;MQ=58.01;MQ0=0;OQ=401.40;QD=7.72;SB=-209.34 GT:AD:DP:GL:GQ 0/1:32,20:49:-58.20,-14.77,-121.11:99
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chr1 1011558 rs9442398 A G 416.42 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.92;MQ0=0;OQ=544.78;QD=12.67;SB=-280.28 GT:AD:DP:GL:GQ 0/1:17,25:38:-69.23,-11.47,-56.30:99
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chr1 1011900 rs6701114 C T 240.77 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.59;MQ=59.30;MQ0=0;OQ=587.87;QD=17.81;SB=-314.84 GT:AD:DP:GL:GQ 0/1:13,20:30:-71.11,-9.04,-40.79:99
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chr1 1013307 rs9442399 C G 25.25 PASS AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=338.37;QD=37.60;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:9:-37.42,-2.71,-0.00:27.09
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chr1 1015133 . C T 6.55 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=4.91;MQ=59.48;MQ0=0;OQ=504.60;QD=11.47;SB=-145.62 GT:AD:DP:GL:GQ 0/1:26,18:38:-65.20,-11.46,-67.24:99
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chr1 1015164 rs9442400 T C 212.54 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.61;MQ0=0;OQ=1416.80;QD=29.52;SB=-594.18 GT:AD:DP:GL:GQ 1/1:0,48:47:-145.32,-14.18,-0.06:99
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chr1 1016570 rs4074137 C A 81.77 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=60.00;MQ0=0;OQ=196.23;QD=6.33;SB=-112.43 GT:AD:DP:GL:GQ 0/1:22,9:30:-31.95,-9.04,-69.97:99
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chr1 1016664 rs4562563 T A 69.49 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=58.99;MQ0=0;OQ=428.33;QD=18.62;SB=-222.84 GT:AD:DP:GL:GQ 0/1:8,15:23:-53.05,-6.93,-28.44:99
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chr1 1021403 rs9651273 A G 292.85 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=648.57;QD=9.40;SB=-308.20 GT:AD:DP:GL:GQ 0/1:44,25:69:-88.92,-20.78,-180.93:99
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chr1 1022047 rs9651272 A G 123.66 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.74;MQ=59.58;MQ0=0;OQ=389.06;QD=8.84;SB=-195.60 GT:AD:DP:GL:GQ 0/1:25,19:42:-54.85,-12.66,-100.05:99
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chr1 1023862 rs4970353 C T 10.88 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=5;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=971.03;QD=16.18;SB=-472.48 GT:AD:DP:GL:GQ 0/1:30,30:59:-118.16,-17.77,-101.63:99
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chr1 1025668 rs12759295 G A 84.62 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=59.60;MQ0=0;OQ=2089.51;QD=36.03;SB=-522.67 GT:AD:DP:GL:GQ 1/1:0,58:54:-212.56,-16.27,-0.02:99
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chr1 1026680 rs61766341 T C 205.76 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=959.29;QD=13.51;SB=-415.84 GT:AD:DP:GL:GQ 0/1:32,39:68:-119.71,-20.50,-125.74:99
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chr1 1026910 rs12134754 C T 210.31 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=59.33;MQ0=0;OQ=1080.76;QD=17.43;SB=-366.87 GT:AD:DP:GL:GQ 0/1:30,32:60:-129.44,-18.08,-89.78:99
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chr1 1027893 . T A 15.04 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=20;HaplotypeScore=5.87;MQ=44.25;MQ0=4;QD=0.40;SB=32.13 GT:AD:DP:GL:GQ 0/1:33,5:23:-11.70,-6.93,-76.52:47.73
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chr1 1037844 rs11584392 G A 163.44 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.18;MQ=59.82;MQ0=0;OQ=608.74;QD=14.16;SB=-241.74 GT:AD:DP:GL:GQ 0/1:22,21:40:-76.22,-12.06,-65.82:99
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chr1 1043248 rs4970408 C T 441.42 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.36;MQ0=0;OQ=945.52;QD=17.51;SB=-425.94 GT:AD:DP:GL:GQ 0/1:25,29:54:-114.11,-16.27,-86.23:99
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chr1 1050037 rs7548798 C T 114.73 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=3.36;MQ=58.61;MQ0=0;OQ=733.89;QD=15.61;SB=-330.30 GT:AD:DP:GL:GQ 0/1:24,23:47:-90.84,-14.17,-83.86:99
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chr1 1050038 rs7556082 T C 10.07 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=4;HaplotypeScore=2.36;MQ=58.61;MQ0=0;OQ=528.95;QD=11.25;SB=-283.60 GT:AD:DP:GL:GQ 0/1:24,23:46:-70.05,-13.87,-95.38:99
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chr1 1050218 rs12567855 G C 18.84 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=1.10;MQ=59.48;MQ0=0;OQ=549.12;QD=15.25;SB=-150.55 GT:AD:DP:GL:GQ 0/1:19,17:33:-68.15,-9.95,-68.62:99
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chr1 1050923 . C G 38.31 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=2;HaplotypeScore=7.12;MQ=59.57;MQ0=0;QD=0.71;SB=62.24 GT:AD:DP:GL:GQ 0/1:40,14:36:-17.98,-10.86,-134.66:71.15
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chr1 1051029 rs11807848 T C 153.72 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.10;MQ=60.00;MQ0=0;OQ=328.64;QD=9.39;SB=-171.94 GT:AD:DP:GL:GQ 0/1:21,14:34:-46.39,-10.24,-82.90:99
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chr1 1051657 rs34530354 A G 139.07 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.25;MQ0=0;OQ=341.50;QD=11.02;SB=-128.73 GT:AD:DP:GL:GQ 0/1:17,14:30:-46.47,-9.04,-63.98:99
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chr1 1051711 rs35207507 A G 157.75 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=57.36;MQ0=0;OQ=232.59;QD=9.30;SB=-75.78 GT:AD:DP:GL:GQ 0/1:12,13:22:-33.17,-6.63,-47.34:99
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chr1 1051888 rs9329411 A G 8.12 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=3;HaplotypeScore=0.32;MQ=58.95;MQ0=0;OQ=307.14;QD=13.96;SB=-152.31 GT:AD:DP:GL:GQ 0/1:10,12:20:-40.02,-6.03,-35.33:99
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chr1 1052501 rs9442373 C A 218.78 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.03;MQ0=0;OQ=1229.67;QD=18.35;SB=-293.35 GT:AD:DP:GL:GQ 0/1:29,38:65:-145.84,-19.58,-78.11:99
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chr1 1052907 rs7545801 A G 1.69 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=2.49;MQ=60.00;MQ0=0;OQ=935.67;QD=29.24;SB=-247.57 GT:AD:DP:GL:GQ 1/1:0,32:30:-97.17,-9.04,-0.02:90.21
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chr1 1053104 rs4970413 G T 111.15 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.50;MQ=59.42;MQ0=0;OQ=637.82;QD=15.95;SB=-209.62 GT:AD:DP:GL:GQ 0/1:16,24:36:-77.92,-10.85,-38.08:99
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chr1 1053355 rs55945496 G A 154.74 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=58.97;MQ0=0;OQ=692.26;QD=15.38;SB=-240.56 GT:AD:DP:GL:GQ 0/1:24,21:40:-84.57,-12.06,-60.15:99
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chr1 1054398 rs6682475 G C 62.97 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=3.35;MQ=57.20;MQ0=0;OQ=522.88;QD=16.34;SB=-284.57 GT:AD:DP:GL:GQ 0/1:16,16:32:-65.22,-9.65,-67.94:99
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chr1 1054533 rs7547403 C G 0.36 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=4;HaplotypeScore=0.79;MQ=59.42;MQ0=0;OQ=1637.77;QD=40.94;SB=-672.45 GT:AD:DP:GL:GQ 1/1:0,40:39:-167.38,-11.75,-0.02:99
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chr1 1054665 rs2298216 T C 152.44 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=59.60;MQ0=0;OQ=1938.74;QD=34.01;SB=-772.11 GT:AD:DP:GL:GQ 1/1:0,57:57:-197.48,-17.17,-0.02:99
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chr1 1055159 rs4072537 T C 138.47 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=51.50;MQ0=0;OQ=1817.15;QD=30.80;SB=-665.83 GT:AD:DP:GL:GQ 1/1:0,59:56:-185.34,-16.89,-0.04:99
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chr1 1055460 rs9442357 C A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.04;HRun=20;HaplotypeScore=17.31;MQ=48.11;MQ0=2;OQ=1123.16;QD=23.90;SB=-311.46 GT:AD:DP:GL:GQ 1/1:9,36:37:-122.62,-11.15,-6.72:44.32
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chr1 1056122 rs4072496 G C 273.90 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=828.08;QD=31.85;SB=-146.57 GT:AD:DP:GL:GQ 1/1:0,26:22:-86.41,-6.64,-0.02:66.21
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chr1 1056145 rs10907181 A G 65.29 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=60.00;MQ0=0;OQ=849.61;QD=28.32;SB=-350.43 GT:AD:DP:GL:GQ 1/1:0,30:29:-88.58,-8.75,-0.04:87.15
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chr1 1056266 rs10907182 T C 152.84 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.47;MQ0=0;OQ=1343.61;QD=29.86;SB=-493.15 GT:AD:DP:GL:GQ 1/1:0,45:43:-137.99,-12.97,-0.04:99
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chr1 1056679 . A G 17.68 PASS AC=2;AF=1.00;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.92;MQ0=0;OQ=622.64;QD=23.06;SB=-77.91 GT:AD:DP:GL:GQ 1/1:0,27:19:-65.86,-5.72,-0.01:57.16
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chr1 1056682 rs7513297 A G 4.15 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=33.92;MQ0=0;OQ=613.60;QD=22.73;SB=-73.89 GT:AD:DP:GL:GQ 1/1:0,27:19:-64.96,-5.73,-0.01:57.15
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chr1 1056691 rs7553878 C G 182.98 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=38.04;MQ0=0;OQ=986.57;QD=30.83;SB=-182.68 GT:AD:DP:GL:GQ 1/1:0,32:25:-102.26,-7.54,-0.01:75.24
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chr1 1056809 rs7513404 A G 1483.16 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=11.12;MQ=36.69;MQ0=3;QD=26.02;SB=-571.97 GT:AD:DP:GL:GQ 1/1:2,55:47:-151.94,-14.18,-0.04:99
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chr1 1056815 rs7513405 A G 1422.20 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=12.03;MQ=35.94;MQ0=3;QD=26.83;SB=-591.02 GT:AD:DP:GL:GQ 1/1:4,49:44:-145.84,-13.27,-0.03:99
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chr1 1056816 rs7516160 T C 1466.09 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=12.03;MQ=36.53;MQ0=3;QD=27.15;SB=-727.28 GT:AD:DP:GL:GQ 1/1:3,50:47:-150.24,-14.18,-0.04:99
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chr1 1057725 rs9442374 T G 13.34 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=2;HaplotypeScore=0.48;MQ=58.50;MQ0=0;OQ=951.55;QD=30.70;SB=-471.37 GT:AD:DP:GL:GQ 1/1:0,31:29:-98.75,-8.74,-0.01:87.23
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chr1 1057728 rs9442358 A C 4.18 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=3;HaplotypeScore=0.48;MQ=58.50;MQ0=0;OQ=931.22;QD=30.04;SB=-418.04 GT:AD:DP:GL:GQ 1/1:1,30:28:-96.72,-8.44,-0.02:84.22
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chr1 1059288 rs9442375 C A 11.97 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.68;MQ=37.62;MQ0=0;OQ=1307.51;QD=33.53;SB=-359.86 GT:AD:DP:GL:GQ 1/1:0,39:37:-134.35,-11.15,-0.01:99
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chr1 1059306 rs9442376 G A 317.82 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=30.41;MQ0=0;OQ=1189.43;QD=32.15;SB=-404.66 GT:AD:DP:GL:GQ 1/1:0,37:31:-122.54,-9.34,-0.01:93.30
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chr1 1059314 rs9442377 G A 1.90 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=4.82;MQ=29.14;MQ0=0;OQ=1298.78;QD=30.92;SB=-496.01 GT:AD:DP:GL:GQ 1/1:0,42:35:-133.48,-10.55,-0.02:99
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chr1 1059991 rs9442378 T G 44.61 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=59.34;MQ0=0;OQ=1111.12;QD=31.75;SB=-500.92 GT:AD:DP:GL:GQ 1/1:0,35:33:-114.71,-9.94,-0.02:99
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chr1 1060304 rs9442379 C T 128.73 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=1793.65;QD=37.37;SB=-715.98 GT:AD:DP:GL:GQ 1/1:0,48:46:-182.96,-13.86,-0.01:99
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chr1 1060981 rs10907183 G C 289 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.17;MQ=58.88;MQ0=0;OQ=1986.90;QD=34.26;SB=-998.16 GT:AD:DP:GL:GQ 1/1:0,58:51:-202.32,-15.40,-0.05:99
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chr1 1061055 rs6604971 T C 165.65 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=59.35;MQ0=0;OQ=1959.28;QD=30.61;SB=-872.00 GT:AD:DP:GL:GQ 1/1:0,64:62:-199.57,-18.70,-0.06:99
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chr1 1062361 rs9442360 G C 41.74 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.77;MQ0=0;QD=13.91;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-7.58,-0.60,-0.00:6.02
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chr1 1063812 . C A 39.60 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=20;HaplotypeScore=10.99;MQ=49.89;MQ0=1;QD=0.94;SB=53.19 GT:AD:DP:GL:GQ 0/1:34,7:30:-16.28,-9.04,-89.71:72.44
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chr1 1064433 . T C 21.13 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=1.25;MQ=43.11;MQ0=1;QD=1.11;SB=5.04 GT:AD:DP:GL:GQ 0/1:14,5:14:-9.62,-4.23,-37.37:53.93
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chr1 1064508 . A G 48.32 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=5;HaplotypeScore=5.11;MQ=25.52;MQ0=20;QD=0.93;SB=-10.00 GT:AD:DP:GL:GQ 0/1:42,6:27:-16.25,-8.14,-83.13:81.15
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chr1 1064534 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=3;HaplotypeScore=5.91;MQ=22.24;MQ0=19;OQ=77.81;QD=1.62;SB=-10.00 GT:AD:DP:GL:GQ 0/1:26,22:23:-17.99,-6.93,-63.10:99
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chr1 1064544 . G A 18.70 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=9.26;MQ=23.84;MQ0=13;QD=0.45;SB=-10.00 GT:AD:DP:GL:GQ 0/1:39,3:23:-12.08,-6.93,-67.67:51.47
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chr1 1064666 . G A 28.24 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=4.04;MQ=17.49;MQ0=7;QD=1.34;SB=-10.00 GT:AD:DP:GL:GQ 0/1:19,2:4:-7.31,-1.21,-6.24:50.32
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chr1 1064676 . G A 32.25 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=1;HaplotypeScore=3.94;MQ=15.31;MQ0=8;QD=1.61;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,4:3:-7.41,-0.90,-3.57:26.65
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chr1 1064678 . A G 13.68 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=15.31;MQ0=8;QD=0.68;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,5:3:-5.54,-0.90,-4.06:31.54
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chr1 1065083 . T G 0.75 PASS AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=3;HaplotypeScore=1.47;MQ=13.28;MQ0=6;OQ=72.14;QD=8.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,7:3:-10.70,-0.90,-0.00:9.03
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chr1 1065545 . A T 15.58 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=6.82;MQ=15.84;MQ0=10;QD=0.78;SB=-20.32 GT:AD:DP:GL:GQ 0/1:16,4:8:-7.24,-2.41,-23.49:48.29
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chr1 1065754 . T G 10.50 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=3;HaplotypeScore=0.98;MQ=26.23;MQ0=5;QD=0.50;SB=-7.00 GT:AD:DP:GL:GQ 0/1:10,11:9:-7.00,-2.71,-25.01:42.93
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chr1 1065788 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=4;HaplotypeScore=1.91;MQ=35.15;MQ0=3;OQ=426.85;QD=16.42;SB=-65.33 GT:AD:DP:GL:GQ 0/1:10,16:20:-52.00,-6.03,-21.27:99
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chr1 1065876 rs34294086 G T 14.09 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=3.05;MQ=16.68;MQ0=19;QD=0.25;SB=-0.98 GT:AD:DP:GL:GQ 0/1:47,10:18:-10.10,-5.43,-46.58:46.75
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chr1 1065896 rs34976191 A G 3.15 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=5.11;MQ=25.24;MQ0=16;OQ=221.06;QD=5.02;SB=-47.30 GT:AD:DP:GL:GQ 0/1:32,12:17:-30.51,-5.13,-29.81:99
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chr1 1065898 rs35853231 G A 14.06 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=25.42;MQ0=15;OQ=228.24;QD=5.43;SB=-22.49 GT:AD:DP:GL:GQ 0/1:33,9:15:-30.63,-4.52,-21.87:99
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chr1 1066927 rs4970357 C A 263.23 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=704.25;QD=32.01;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,22:21:-74.02,-6.32,-0.01:63.19
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chr1 1067825 rs55750860 C T 23.40 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.51;MQ=58.95;MQ0=0;OQ=1494.41;QD=37.36;SB=-613.01 GT:AD:DP:GL:GQ 1/1:0,40:39:-153.04,-11.75,-0.01:99
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chr1 1070149 rs1539638 G A 498.18 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1278.23;QD=37.59;SB=-657.67 GT:AD:DP:GL:GQ 1/1:0,34:33:-131.42,-9.94,-0.01:99
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chr1 1070766 . C G 0.10 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.74;MQ=47.59;MQ0=0;OQ=113.71;QD=2.58;SB=-2.32 GT:AD:DP:GL:GQ 0/1:34,9:39:-26.42,-11.76,-133.80:99
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chr1 1070768 . C T 0.13 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=46.93;MQ0=0;OQ=115.95;QD=2.64;SB=-32.19 GT:AD:DP:GL:GQ 0/1:34,10:38:-26.33,-11.45,-104.66:99
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chr1 1070788 rs1539637 G C 8.38 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=3;HaplotypeScore=2.86;MQ=44.98;MQ0=0;OQ=574.54;QD=14.73;SB=-154.58 GT:AD:DP:GL:GQ 0/1:22,17:37:-71.91,-11.17,-77.14:99
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chr1 1070790 rs4512588 T C 118.97 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=1.33;MQ=44.52;MQ0=0;OQ=439.51;QD=11.57;SB=-120.73 GT:AD:DP:GL:GQ 0/1:20,18:36:-58.08,-10.85,-73.14:99
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chr1 1070804 . T C 317.73 Indel AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=1;HaplotypeScore=1.72;MQ=43.50;MQ0=0;QD=8.83;SB=-125.65 GT:AD:DP:GL:GQ 0/1:20,16:34:-45.31,-10.25,-78.50:99
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chr1 1070810 . T C 59.59 Indel AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=2;HaplotypeScore=0.92;MQ=42.56;MQ0=0;QD=1.92;SB=-21.88 GT:AD:DP:GL:GQ 0/1:21,10:26:-17.08,-7.83,-82.36:92.43
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chr1 1070825 . C T 12.15 LowQual AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=46.99;MQ0=0;QD=0.45;SB=-5.49 GT:AD:DP:GL:GQ 0/1:24,3:26:-12.31,-7.84,-75.55:44.71
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chr1 1070828 . C T 17.92 LowQual AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=46.99;MQ0=0;QD=0.66;SB=-11.45 GT:AD:DP:GL:GQ 0/1:24,3:24:-12.30,-7.23,-73.32:50.69
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chr1 1074807 . T G 14.10 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=4;HaplotypeScore=1.72;MQ=58.59;MQ0=0;QD=0.43;SB=59.21 GT:AD:DP:GL:GQ 0/1:24,8:27:-12.81,-8.13,-82.30:46.77
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chr1 1075432 . C T 38.87 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.24;MQ=57.97;MQ0=0;OQ=818.81;QD=17.80;SB=-345.86 GT:AD:DP:GL:GQ 0/1:20,26:46:-99.04,-13.88,-63.69:99
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chr1 1077546 rs9442380 T C 202.60 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.63;MQ0=0;OQ=2295.26;QD=29.81;SB=-1162.13 GT:AD:DP:GL:GQ 1/1:0,76:73:-233.18,-22.02,-0.07:99
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chr1 1079125 rs4970358 A G 12.32 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=5.70;MQ=59.35;MQ0=0;OQ=2374.58;QD=33.44;SB=-995.95 GT:AD:DP:GL:GQ 1/1:0,69:68:-244.00,-23.26,-2.96:99
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chr1 1079873 rs9442361 C A 5.87 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=3;HaplotypeScore=1.89;MQ=53.07;MQ0=0;OQ=1204.88;QD=33.47;SB=-532.76 GT:AD:DP:GL:GQ 1/1:0,36:34:-124.08,-10.24,-0.01:99
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chr1 1080440 rs6604972 A G 531.63 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.88;MQ0=0;OQ=1807.70;QD=30.64;SB=-735.76 GT:AD:DP:GL:GQ 1/1:0,59:56:-184.40,-16.89,-0.04:99
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chr1 1082462 rs56863140 G C 99.95 PASS AC=2;AF=1.00;AN=2;DB;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.04;MQ0=0;OQ=146.93;QD=24.49;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:5:-18.26,-1.52,-0.01:15.05
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chr1 1084348 rs4970360 C T 64.65 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=1.36;MQ=58.41;MQ0=0;OQ=1613.83;QD=36.68;SB=-777.04 GT:AD:DP:GL:GQ 1/1:0,44:42:-164.99,-12.66,-0.02:99
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chr1 1084535 rs4970361 A C 88.25 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.74;MQ=58.78;MQ0=1;OQ=1424.16;QD=32.37;SB=-688.05 GT:AD:DP:GL:GQ 1/1:1,43:41:-146.01,-12.35,-0.01:99
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chr1 1084601 rs4970362 A G 229.75 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.71;MQ=59.53;MQ0=0;OQ=1464.98;QD=29.90;SB=-668.84 GT:AD:DP:GL:GQ 1/1:0,49:47:-150.13,-14.18,-0.04:99
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chr1 1084842 rs7538773 G A 9.80 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=58.13;MQ0=0;OQ=1279.59;QD=36.56;SB=-199.76 GT:AD:DP:GL:GQ 1/1:0,33:33:-131.55,-9.94,-0.01:99
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chr1 1085246 rs6604973 G A 85.72 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.20;MQ=59.42;MQ0=0;OQ=1511.71;QD=37.79;SB=-646.86 GT:AD:DP:GL:GQ 1/1:0,40:38:-154.76,-11.45,-0.01:99
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chr1 1085482 rs4970419 C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=7;HaplotypeScore=2.24;MQ=59.45;MQ0=0;OQ=1670.84;QD=39.78;SB=-828.31 GT:AD:DP:GL:GQ 1/1:0,42:40:-170.69,-12.06,-0.02:99
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chr1 1085874 rs9442381 C G 314.67 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.11;MQ0=0;OQ=1195.39;QD=38.56;SB=-412.65 GT:AD:DP:GL:GQ 1/1:0,31:28:-123.13,-8.44,-0.01:84.28
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chr1 1086061 rs9442382 C T 139.37 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=990.01;QD=38.08;SB=-164.21 GT:AD:DP:GL:GQ 1/1:0,26:26:-102.60,-7.84,-0.01:78.25
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chr1 1086771 rs1539636 T C 148.49 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=60.00;MQ0=0;OQ=1262.30;QD=33.22;SB=-642.89 GT:AD:DP:GL:GQ 1/1:0,38:37:-129.83,-11.15,-0.02:99
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chr1 1086955 rs1539635 G A 48.48 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.31;MQ=56.37;MQ0=0;OQ=1687.66;QD=35.91;SB=-612.00 GT:AD:DP:GL:GQ 1/1:0,47:43:-172.36,-12.95,-0.01:99
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chr1 1086963 rs1539634 C T 83.45 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.95;MQ0=0;OQ=1761.33;QD=36.69;SB=-642.86 GT:AD:DP:GL:GQ 1/1:0,48:45:-179.73,-13.56,-0.02:99
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chr1 1087150 rs9442384 T C 36.04 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.26;MQ=59.81;MQ0=0;OQ=1429.90;QD=29.79;SB=-636.25 GT:AD:DP:GL:GQ 1/1:0,48:46:-146.63,-13.88,-0.05:99
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chr1 1087198 rs9442385 T G 89.37 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.13;MQ=57.84;MQ0=0;OQ=1240.37;QD=26.39;SB=-556.87 GT:AD:DP:GL:GQ 1/1:0,47:40:-127.66,-12.06,-0.04:99
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chr1 1087800 rs1891907 A G 2.98 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=57.36;MQ0=0;OQ=810.89;QD=32.44;SB=-193.80 GT:AD:DP:GL:GQ 1/1:0,25:24:-84.68,-7.23,-0.01:72.21
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chr1 1088284 rs12135382 C T 198.45 PASS AC=2;AF=1.00;AN=2;DB;DP=11;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=312.05;QD=28.37;SB=-50.56 GT:AD:DP:GL:GQ 1/1:0,11:9:-34.79,-2.71,-0.00:27.09
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chr1 1088577 rs4379629 C G 8.91 PASS AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=217.53;QD=24.17;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:7:-25.35,-2.12,-0.02:21.06
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chr1 1089205 rs9660710 A C 62.17 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.52;MQ=60.00;MQ0=0;OQ=1253.07;QD=26.66;SB=-477.88 GT:AD:DP:GL:GQ 1/1:0,47:40:-128.93,-12.06,-0.03:99
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chr1 1090080 rs1891905 C T 107.83 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.97;MQ=58.89;MQ0=0;OQ=1593.75;QD=37.95;SB=-678.31 GT:AD:DP:GL:GQ 1/1:0,42:41:-162.97,-12.35,-0.01:99
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chr1 1090182 rs1891904 C A 413.02 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=739.19;QD=30.80;SB=-375.45 GT:AD:DP:GL:GQ 1/1:0,24:22:-77.51,-6.63,-0.01:66.17
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chr1 1090866 rs7549819 C T 73.60 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=2.51;MQ=59.25;MQ0=0;OQ=998.72;QD=32.22;SB=-450.59 GT:AD:DP:GL:GQ 1/1:1,30:27:-103.47,-8.14,-0.02:81.25
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chr1 1091932 rs9442386 A G 1.23 PASS AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=172.84;QD=21.61;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:7:-20.87,-2.12,-0.01:21.04
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chr1 1093405 rs7518873 T C 57.10 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.77;MQ0=0;OQ=646.68;QD=30.79;SB=-268.71 GT:AD:DP:GL:GQ 1/1:0,21:20:-68.26,-6.03,-0.01:60.16
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chr1 1093821 rs7521584 T G 116.26 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.95;MQ0=0;OQ=1316.49;QD=29.92;SB=-587.88 GT:AD:DP:GL:GQ 1/1:0,44:43:-135.27,-12.96,-0.04:99
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chr1 1095101 rs9442362 T C 65.07 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.90;MQ=60.00;MQ0=0;OQ=375.39;QD=7.99;SB=-207.86 GT:AD:DP:GL:GQ 0/1:27,20:44:-54.09,-13.27,-100.76:99
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chr1 1095924 rs6656236 G A 130.43 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=57.77;MQ0=0;OQ=609.61;QD=16.04;SB=-273.30 GT:AD:DP:GL:GQ 0/1:18,20:34:-74.49,-10.25,-50.31:99
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chr1 1096647 rs4442317 T C 203.56 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=59.13;MQ0=0;OQ=506.89;QD=10.56;SB=-244.47 GT:AD:DP:GL:GQ 0/1:29,19:48:-68.44,-14.47,-111.87:99
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chr1 1114401 rs11577350 G A 483.74 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=1009.34;QD=13.28;SB=-463.05 GT:AD:DP:GL:GQ 0/1:45,31:75:-126.83,-22.61,-139.35:99
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chr1 1114613 rs6702156 T C 467.81 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.71;MQ0=0;OQ=978.73;QD=12.23;SB=-374.99 GT:AD:DP:GL:GQ 0/1:42,38:78:-124.66,-23.50,-162.90:99
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chr1 1127805 . C T 17.93 LowQual AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=4.76;MQ=47.96;MQ0=1;QD=0.48;SB=-4.44 GT:AD:DP:GL:GQ 0/1:29,6:21:-11.40,-6.33,-63.23:50.69
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chr1 1133298 rs55945303 G A 59.18 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.92;MQ0=0;OQ=925.55;QD=21.52;SB=-252.58 GT:AD:DP:GL:GQ 0/1:14,29:40:-107.89,-12.05,-42.24:99
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chr1 1139524 rs35878953 C T 131.94 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.33;MQ=58.24;MQ0=0;OQ=799.98;QD=18.60;SB=-423.99 GT:AD:DP:GL:GQ 0/1:17,25:37:-94.44,-11.16,-36.66:99
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chr1 1148494 rs6603781 A G 136.52 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.05;MQ0=0;OQ=1330.48;QD=27.15;SB=-433.29 GT:AD:DP:GL:GQ 1/1:0,49:42:-136.66,-12.66,-0.03:99
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chr1 1149380 rs6702268 T C 227.72 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.80;MQ0=0;OQ=961.17;QD=27.46;SB=-122.75 GT:AD:DP:GL:GQ 1/1:0,35:31:-99.73,-9.35,-0.03:93.18
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chr1 1152189 rs4970423 A G 15.48 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=59.39;MQ0=0;OQ=1088.52;QD=28.65;SB=-378.40 GT:AD:DP:GL:GQ 1/1:0,38:34:-112.46,-10.25,-0.02:99
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chr1 1161280 rs6603782 C T 102.99 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.25;MQ=59.00;MQ0=0;OQ=708.75;QD=16.88;SB=-201.20 GT:AD:DP:GL:GQ 0/1:20,22:40:-86.21,-12.05,-64.42:99
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chr1 1162770 rs715643 C T 309.12 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=2.45;MQ=57.65;MQ0=0;OQ=561.34;QD=14.77;SB=-301.32 GT:AD:DP:GL:GQ 0/1:18,19:36:-70.27,-10.85,-55.47:99
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chr1 1171665 . C T 4.62 PASS AC=1;AF=0.50;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.39;MQ0=0;OQ=105.76;QD=11.75;SB=-6.99 GT:AD:DP:GL:GQ 0/1:5,4:9:-16.57,-2.71,-16.65:99
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chr1 1178813 . G C 27.28 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=1;HaplotypeScore=10.95;MQ=55.60;MQ0=0;QD=0.43;SB=74.28 GT:AD:DP:GL:GQ 0/1:46,17:41:-18.38,-12.37,-155.87:60.10
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chr1 1182131 . G A 44.09 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.04;HRun=20;HaplotypeScore=11.11;MQ=50.33;MQ0=0;QD=0.85;SB=65.22 GT:AD:DP:GL:GQ 0/1:38,12:42:-20.05,-12.36,-125.30:76.92
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chr1 1183574 . T C 30.78 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=5;HaplotypeScore=13.00;MQ=56.93;MQ0=0;QD=0.83;SB=23.10 GT:AD:DP:GL:GQ 0/1:22,15:21:-12.69,-6.33,-67.62:63.61
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chr1 1186726 rs6659787 T C 444.24 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1920.21;QD=33.11;SB=-425.81 GT:AD:DP:GL:GQ 1/1:0,58:55:-195.63,-16.57,-0.02:99
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chr1 1194535 . A G 16.67 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=6.08;MQ=52.52;MQ0=1;QD=0.32;SB=29.11 GT:AD:DP:GL:GQ 0/1:42,10:39:-16.70,-11.76,-128.34:49.41
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chr1 1204684 rs34258594 C T 26.14 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=41.53;MQ0=1;OQ=534.60;QD=15.27;SB=-99.92 GT:AD:DP:GL:GQ 0/1:16,19:32:-66.39,-9.65,-50.26:99
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chr1 1206810 . C A 15.67 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=1;HaplotypeScore=1.82;MQ=59.17;MQ0=0;QD=0.56;SB=17.05 GT:AD:DP:GL:GQ 0/1:19,7:21:-11.17,-6.33,-52.97:48.38
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chr1 1212553 . C T 5.74 PASS AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=5.06;MQ=57.97;MQ0=0;OQ=298.13;QD=12.96;SB=-173.70 GT:AD:DP:GL:GQ 0/1:12,11:19:-38.83,-5.73,-27.23:99
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chr1 1213523 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=15.57;MQ=33.50;MQ0=4;OQ=59.03;QD=3.28;SB=2.04 GT:AD:DP:GL:GQ 0/1:9,9:9:-11.90,-2.71,-23.47:91.86
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chr1 1213617 . C T 7.11 PASS AC=2;AF=1.00;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=3.14;MQ=18.72;MQ0=10;OQ=134.34;QD=6.72;SB=-10.00 GT:AD:DP:GL:GQ 1/1:5,15:4:-16.97,-1.20,-0.00:12.04
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chr1 1213622 . T C 11.33 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=2;HaplotypeScore=3.30;MQ=19.74;MQ0=10;QD=0.49;SB=-3.98 GT:AD:DP:GL:GQ 0/1:20,3:7:-6.49,-2.11,-18.92:43.83
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chr1 1213635 . C T 23.33 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=18.06;MQ0=13;QD=0.75;SB=-33.62 GT:AD:DP:GL:GQ 0/1:24,7:9:-8.33,-2.71,-24.32:56.15
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chr1 1213653 . C T 47.94 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.74;MQ=17.89;MQ0=21;QD=1.00;SB=-23.48 GT:AD:DP:GL:GQ 0/1:37,11:13:-11.99,-3.92,-35.04:80.78
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chr1 1213671 . C T 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.88;MQ=22.77;MQ0=22;OQ=90.19;QD=1.80;SB=-17.46 GT:AD:DP:GL:GQ 0/1:28,22:20:-18.33,-6.03,-51.67:99
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chr1 1213694 . T C 39.97 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=2;HaplotypeScore=8.39;MQ=23.73;MQ0=21;QD=0.73;SB=-15.88 GT:AD:DP:GL:GQ 0/1:51,4:21:-13.61,-6.33,-64.53:72.80
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chr1 1213750 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=7.03;MQ=25.74;MQ0=11;OQ=59.44;QD=1.56;SB=-49.23 GT:AD:DP:GL:GQ 0/1:22,16:17:-14.35,-5.12,-45.82:92.28
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chr1 1213763 . C T 47.85 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=26.61;MQ0=8;QD=1.65;SB=-29.61 GT:AD:DP:GL:GQ 0/1:21,8:13:-11.99,-3.92,-33.55:80.68
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chr1 1213781 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=1;HaplotypeScore=3.20;MQ=28.82;MQ0=7;OQ=70.59;QD=2.82;SB=-20.63 GT:AD:DP:GL:GQ 0/1:21,4:13:-14.26,-3.92,-34.86:99
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chr1 1213884 . C T 18.32 PASS AC=2;AF=1.00;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=20.52;MQ0=9;OQ=123.88;QD=9.53;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,11:4:-15.92,-1.20,-0.00:12.04
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chr1 1213994 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=2;HaplotypeScore=2.99;MQ=9.42;MQ0=22;OQ=67.77;QD=1.94;SB=-42.68 GT:AD:DP:GL:GQ 0/1:31,4:4:-11.26,-1.21,-2.97:17.61
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chr1 1214386 . C T 18.53 PASS AC=2;AF=1.00;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=12.80;MQ0=7;OQ=79.89;QD=6.15;SB=-52.67 GT:AD:DP:GL:GQ 1/1:3,10:3:-11.48,-0.90,-0.00:9.03
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chr1 1214538 . C T 13.99 PASS AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=21.76;MQ0=3;OQ=222.41;QD=22.24;SB=-119.99 GT:AD:DP:GL:GQ 1/1:1,9:7:-25.82,-2.11,-0.00:21.06
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chr1 1214556 . C T 78.88 PASS AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=21.62;MQ0=3;OQ=125.22;QD=13.91;SB=-42.55 GT:AD:DP:GL:GQ 1/1:2,7:4:-16.06,-1.21,-0.00:12.04
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chr1 1214569 . C T 4.09 PASS AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=21.21;MQ0=3;OQ=121.10;QD=17.30;SB=-81.10 GT:AD:DP:GL:GQ 1/1:3,4:4:-15.65,-1.21,-0.00:12.04
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chr1 1214849 . T C 10.83 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=11.01;MQ0=15;QD=0.39;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,8:6:-6.14,-1.81,-16.12:43.30
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chr1 1214919 . A T 0.53 PASS AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=4.77;MQ=20.32;MQ0=10;OQ=98.85;QD=4.94;SB=-69.74 GT:AD:DP:GL:GQ 0/1:10,9:7:-15.28,-2.11,-10.80:86.87
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chr1 1215102 . A T 1.26 PASS AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=2.90;MQ=20.59;MQ0=9;OQ=98.25;QD=4.91;SB=-47.98 GT:AD:DP:GL:GQ 0/1:4,16:7:-15.22,-2.11,-12.20:99
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chr1 1215147 . T C 24.78 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=2;HaplotypeScore=5.19;MQ=18.98;MQ0=32;QD=0.28;SB=-36.82 GT:AD:DP:GL:GQ 0/1:83,7:38:-17.21,-11.45,-127.57:57.61
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chr1 1215165 . C T 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=3.30;MQ=20.48;MQ0=21;OQ=101.26;QD=1.35;SB=26.10 GT:AD:DP:GL:GQ 0/1:48,27:30:-22.45,-9.04,-79.18:99
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chr1 1215324 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=1;HaplotypeScore=4.60;MQ=26.05;MQ0=19;OQ=186.49;QD=2.49;SB=8.19 GT:AD:DP:GL:GQ 0/1:60,15:45:-35.50,-13.57,-130.76:99
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chr1 1227467 rs2296475 T C 67.24 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=2.76;MQ=59.44;MQ0=0;OQ=1380.81;QD=33.68;SB=-616.59 GT:AD:DP:GL:GQ 1/1:0,40:39:-141.68,-11.75,-0.01:99
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chr1 1227692 rs11586188 G A 13.68 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=2;HaplotypeScore=2.73;MQ=60.00;MQ0=0;OQ=456.88;QD=14.74;SB=-204.92 GT:AD:DP:GL:GQ 0/1:15,16:30:-58.02,-9.04,-49.24:99
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chr1 1228900 . T C 25.48 LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=4;HaplotypeScore=1.75;MQ=56.48;MQ0=0;QD=0.75;SB=-20.62 GT:AD:DP:GL:GQ 0/1:26,7:28:-14.27,-8.44,-89.93:58.30
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chr1 1229202 rs11260584 T G 37.45 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.34;MQ0=0;OQ=976.99;QD=27.91;SB=-499.87 GT:AD:DP:GL:GQ 1/1:0,35:32:-101.31,-9.64,-0.03:96.16
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chr1 1229816 rs10399878 A G 473.23 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1102.82;QD=26.90;SB=-522.83 GT:AD:DP:GL:GQ 1/1:0,41:37:-113.91,-11.17,-0.05:99
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chr1 1231392 rs1536168 A G 97.21 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.82;MQ0=0;OQ=1395.06;QD=27.90;SB=-606.94 GT:AD:DP:GL:GQ 1/1:0,50:45:-143.13,-13.57,-0.04:99
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chr1 1231663 rs3737720 A G 139.66 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.21;MQ=58.81;MQ0=0;OQ=1690.11;QD=30.73;SB=-679.26 GT:AD:DP:GL:GQ 1/1:0,55:50:-172.62,-15.06,-0.03:99
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chr1 1231766 rs3737719 C G 2.42 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=2;HaplotypeScore=1.43;MQ=58.78;MQ0=0;OQ=1400.23;QD=36.85;SB=-370.18 GT:AD:DP:GL:GQ 1/1:0,38:34:-143.63,-10.26,-0.03:99
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chr1 1232078 rs4970431 A G 216.41 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1612.70;QD=32.91;SB=-685.61 GT:AD:DP:GL:GQ 1/1:0,49:46:-164.87,-13.86,-0.01:99
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chr1 1232570 rs2274262 A G 6.01 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=1;HaplotypeScore=2.33;MQ=58.39;MQ0=0;OQ=927.22;QD=31.97;SB=-261.82 GT:AD:DP:GL:GQ 1/1:0,28:29:-99.47,-11.27,-3.16:81.12
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chr1 1232846 rs2887285 G A 7.05 PASS AC=2;AF=1.00;AN=2;DB;DP=6;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=60.00;MQ0=0;OQ=156.17;QD=26.03;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,5:5:-19.18,-1.51,-0.00:15.05
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chr1 1233759 rs61766198 C T 47.25 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;QD=23.62;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-8.13,-0.60,-0.00:6.02
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chr1 1235231 rs11590283 G A 557.67 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=1461.68;QD=36.54;SB=-745.00 GT:AD:DP:GL:GQ 1/1:1,39:37:-149.76,-11.15,-0.01:99
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chr1 1235867 rs2296474 A G 712.67 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.51;MQ0=0;OQ=1812.39;QD=34.20;SB=-908.32 GT:AD:DP:GL:GQ 1/1:0,53:53:-184.85,-15.97,-0.02:99
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chr1 1237357 rs12103 T C 207.29 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=647.94;QD=29.45;SB=-286.45 GT:AD:DP:GL:GQ 1/1:0,22:21:-68.40,-6.33,-0.02:63.15
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chr1 1237452 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=10;HaplotypeScore=2.81;MQ=58.76;MQ0=0;OQ=54.80;QD=4.98;SB=-3.98 GT:AD:DP:GL:GQ 0/1:7,4:6:-10.58,-1.82,-11.64:87.64
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chr1 1239050 rs12142199 G A 66.55 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=3;HaplotypeScore=1.62;MQ=58.97;MQ0=0;OQ=2440.21;QD=38.73;SB=-1144.03 GT:AD:DP:GL:GQ 1/1:1,62:62:-247.62,-18.68,-0.02:99
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chr1 1239352 . C G 26.31 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=58.82;MQ0=0;OQ=1214.59;QD=20.59;SB=-515.28 GT:AD:DP:GL:GQ 0/1:25,34:56:-141.62,-16.88,-95.25:99
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chr1 1242263 rs55998830 C T 160.41 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=57.24;MQ0=0;OQ=503.69;QD=12.29;SB=-134.60 GT:AD:DP:GL:GQ 0/1:23,18:39:-65.41,-11.76,-71.08:99
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chr1 1243999 rs4970432 G A 36.99 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=2.94;MQ=58.63;MQ0=0;OQ=2692.59;QD=39.60;SB=-1179.08 GT:AD:DP:GL:GQ 1/1:0,68:67:-272.86,-20.18,-0.01:99
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chr1 1244299 rs1886773 A G 203.79 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=59.11;MQ0=0;OQ=1463.44;QD=28.14;SB=-748.56 GT:AD:DP:GL:GQ 1/1:0,52:48:-149.98,-14.48,-0.05:99
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chr1 1244306 rs1886772 G A 170.95 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.23;MQ=58.89;MQ0=0;OQ=2428.21;QD=38.54;SB=-1150.05 GT:AD:DP:GL:GQ 1/1:0,63:62:-246.42,-18.68,-0.02:99
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chr1 1244704 rs10907179 C G 226.16 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=2474.22;QD=40.56;SB=-1116.55 GT:AD:DP:GL:GQ 1/1:0,61:58:-251.03,-17.48,-0.03:99
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chr1 1245150 rs10449892 C T 372.09 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1031.28;QD=35.56;SB=-512.17 GT:AD:DP:GL:GQ 1/1:0,29:28:-106.73,-8.44,-0.02:84.26
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chr1 1247456 rs1810745 A G 110.17 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=54.75;MQ0=0;OQ=1043.28;QD=28.20;SB=-313.49 GT:AD:DP:GL:GQ 1/1:0,37:33:-107.94,-9.95,-0.02:99
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chr1 1256339 rs28704486 A G 29.57 PASS AC=2;AF=1.00;AN=2;DB;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=16.01;MQ0=0;OQ=60.16;QD=4.63;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,13:3:-9.51,-0.90,-0.00:9.02
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chr1 1258710 rs307378 T G 2.23 PASS AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=76.83;QD=25.61;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:3:-11.17,-0.90,-0.00:9.03
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chr1 1259417 rs307377 T C 101.96 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=21.92;MQ0=3;OQ=105.39;QD=15.06;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:4:-14.07,-1.20,-0.00:12.04
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chr1 1260192 rs188647 A G 29.27 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=14.64;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-6.34,-0.60,-0.00:6.01
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chr1 1260222 rs307374 T C 0.04 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=63.98;QD=21.33;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:3:-9.89,-0.91,-0.00:9.02
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chr1 1262360 rs307372 A G 1.31 PASS AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=1;HaplotypeScore=0.52;MQ=35.06;MQ0=0;OQ=290.20;QD=24.18;SB=-151.34 GT:AD:DP:GL:GQ 1/1:0,12:11:-32.62,-3.32,-0.02:33.05
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chr1 1262979 rs307371 A G 118.35 PASS AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.17;MQ0=0;OQ=96.93;QD=24.23;SB=-72.91 GT:AD:DP:GL:GQ 1/1:0,4:4:-13.23,-1.21,-0.00:12.03
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chr1 1263141 rs307370 A G 373.13 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.14;MQ0=0;OQ=479.19;QD=34.23;SB=-188.41 GT:AD:DP:GL:GQ 1/1:0,14:14:-51.51,-4.22,-0.00:42.13
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chr1 1265154 rs11582808 G A 10.31 PASS AC=1;AF=0.50;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=1.46;MQ=44.52;MQ0=0;OQ=273.35;QD=19.53;SB=-116.97 GT:AD:DP:GL:GQ 0/1:5,9:13:-34.54,-3.92,-12.73:88.15
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chr1 1266341 rs307364 T G 24.11 PASS AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=1;HaplotypeScore=1.44;MQ=22.99;MQ0=5;OQ=64.81;QD=5.40;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,10:3:-9.97,-0.90,-0.00:9.02
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chr1 1267396 rs17854636 T C 111.78 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=34.81;MQ0=1;OQ=372.39;QD=23.27;SB=-142.72 GT:AD:DP:GL:GQ 1/1:0,16:13:-40.84,-3.92,-0.02:39.08
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chr1 1268100 rs307361 T C 193.77 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.78;MQ0=3;OQ=449.98;QD=25.00;SB=-194.71 GT:AD:DP:GL:GQ 1/1:0,18:15:-48.59,-4.52,-0.01:45.11
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chr1 1268888 rs307360 A G 2.79 PASS AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=29.77;MQ0=0;OQ=268.28;QD=26.83;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:9:-30.42,-2.71,-0.01:27.07
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chr1 1270382 rs307358 T C 22.61 PASS AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=83.45;QD=20.86;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,4:4:-11.88,-1.21,-0.01:12.02
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chr1 1276604 . G C 27.05 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=1;HaplotypeScore=0.66;MQ=11.97;MQ0=10;QD=1.29;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,12:4:-7.20,-1.21,-7.49:59.88
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chr1 1276657 rs35104845 C T 49.02 PASS AC=2;AF=1.00;AN=2;DB;DP=11;Dels=0.00;HRun=0;HaplotypeScore=2.90;MQ=23.40;MQ0=3;OQ=76.78;QD=6.98;SB=-10.00 GT:AD:DP:GL:GQ 1/1:5,5:3:-11.17,-0.90,-0.00:9.03
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chr1 1276684 rs61766214 G C 3.73 PASS AC=2;AF=1.00;AN=2;DB;DP=13;Dels=0.00;HRun=1;HaplotypeScore=0.98;MQ=32.46;MQ0=2;OQ=374.70;QD=28.82;SB=-82.81 GT:AD:DP:GL:GQ 1/1:1,12:10:-41.06,-3.02,-0.01:30.10
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chr1 1276760 rs34380086 G C 256.91 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.61;MQ0=0;OQ=915.51;QD=35.21;SB=-194.53 GT:AD:DP:GL:GQ 1/1:0,26:24:-95.15,-7.24,-0.02:72.23
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chr1 1276990 rs56165241 G A 0.14 PASS AC=2;AF=1.00;AN=2;DB;DP=6;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=23.71;MQ0=1;OQ=124.88;QD=20.81;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:4:-16.02,-1.20,-0.00:12.04
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chr1 1278208 rs13249 A G 0.03 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=4;HaplotypeScore=0.79;MQ=29.00;MQ0=0;OQ=519.51;QD=34.63;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:15:-55.54,-4.52,-0.01:45.13
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chr1 1278334 rs3766183 C T 70.79 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=12.77;MQ0=25;OQ=129.88;QD=4.48;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,29:4:-16.52,-1.20,-0.00:12.04
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chr1 1279774 rs4970365 G A 205.12 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=37.02;MQ0=1;OQ=413.00;QD=27.53;SB=-81.33 GT:AD:DP:GL:GQ 1/1:0,15:12:-44.89,-3.62,-0.01:36.11
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chr1 1283627 rs34841888 G C 242.04 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=17.25;MQ0=18;OQ=165.64;QD=7.20;SB=-87.83 GT:AD:DP:GL:GQ 1/1:0,23:5:-20.13,-1.51,-0.00:15.05
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chr1 1284791 rs2649608 A G 15.70 PASS AC=2;AF=1.00;AN=2;DB;DP=13;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=325.53;QD=25.04;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,13:12:-36.15,-3.62,-0.02:36.07
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chr1 1285186 rs34389364 G A 48.74 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=44.84;MQ0=0;OQ=775.48;QD=28.72;SB=-269.63 GT:AD:DP:GL:GQ 1/1:0,25:23:-81.16,-6.94,-0.03:69.18
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chr1 1285266 rs34876581 T C 166.99 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=42.89;MQ0=0;OQ=1629.47;QD=31.95;SB=-823.96 GT:AD:DP:GL:GQ 1/1:0,51:47:-166.55,-14.16,-0.02:99
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chr1 1285545 rs61766236 A G 14.70 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=53.58;MQ0=0;OQ=756.88;QD=26.10;SB=-99.85 GT:AD:DP:GL:GQ 1/1:0,29:25:-79.29,-7.54,-0.02:75.15
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chr1 1285750 . T C 31.55 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=14.50;MQ0=6;QD=3.94;SB=-38.95 GT:AD:DP:GL:GQ 1/1:0,8:2:-6.56,-0.60,-0.00:6.01
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chr1 1286016 rs2765027 T G 82.17 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=481.12;QD=30.07;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:16:-51.71,-4.82,-0.01:48.07
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chr1 1286554 rs2765025 C G 315.48 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=27.90;MQ0=0;OQ=1204.51;QD=36.50;SB=-193.69 GT:AD:DP:GL:GQ 1/1:0,33:29:-124.04,-8.74,-0.01:87.29
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chr1 1286681 rs2765024 C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=6;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=715.35;QD=35.77;SB=-192.69 GT:AD:DP:GL:GQ 1/1:0,20:18:-75.13,-5.42,-0.01:54.18
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chr1 1286922 rs35056373 G A 454.44 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.41;MQ0=1;OQ=1368.71;QD=34.22;SB=-459.59 GT:AD:DP:GL:GQ 1/1:0,40:36:-140.48,-10.85,-0.02:99
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chr1 1287079 rs2649611 A G 142 PASS AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.17;MQ0=0;OQ=99.93;QD=24.98;SB=-76.36 GT:AD:DP:GL:GQ 1/1:0,4:4:-13.53,-1.21,-0.00:12.03
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chr1 1287285 rs2765021 C T 19.52 PASS AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=27.13;MQ0=1;OQ=211.29;QD=26.41;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:6:-24.70,-1.81,-0.00:18.06
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chr1 1287346 . G A 32.26 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.41;MQ=19.54;MQ0=6;QD=3.23;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,5:4:-7.72,-1.21,-5.84:46.31
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chr1 1287498 rs34896744 G A 28.51 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=522.90;QD=37.35;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,14:14:-55.88,-4.22,-0.00:42.14
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chr1 1288153 . C T 10.16 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=6.84;MQ0=17;QD=0.56;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,3:1:-4.26,-0.30,-0.00:1.76
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chr1 1288274 rs4970439 C T 158.39 PASS AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.76;MQ0=1;OQ=198.94;QD=24.87;SB=-120.99 GT:AD:DP:GL:GQ 1/1:0,8:6:-23.47,-1.81,-0.00:18.06
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chr1 1288396 rs9700464 T G 39.49 LowQual AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=19.48;MQ0=3;QD=7.90;SB=-46.01 GT:AD:DP:GL:GQ 1/1:0,5:2:-7.36,-0.60,-0.00:6.02
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chr1 1288400 rs2477784 C T 45.25 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=21.37;MQ0=1;QD=15.08;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-7.93,-0.60,-0.00:6.02
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|
chr1 1288965 . T C 42.83 LowQual AC=2;AF=1.00;AN=2;DP=5;Dels=0.00;HRun=3;HaplotypeScore=1.16;MQ=15.81;MQ0=3;QD=8.57;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,2:2:-7.69,-0.60,-0.00:6.02
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chr1 1288989 . G A 32 LowQual AC=2;AF=1.00;AN=2;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=17.68;MQ0=2;QD=8.00;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,2:2:-6.61,-0.60,-0.00:6.01
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chr1 1288993 . G A 39.02 LowQual AC=2;AF=1.00;AN=2;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=17.68;MQ0=2;QD=9.75;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,2:2:-7.31,-0.60,-0.00:6.02
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chr1 1289038 . G A 46.02 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=8.33;MQ0=16;QD=2.56;SB=-10.00 GT:AD:DP:GL:GQ 1/1:16,2:2:-8.01,-0.60,-0.00:6.02
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chr1 1289229 rs28368296 C T 48.25 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=23.68;MQ0=1;QD=16.08;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,2:2:-8.23,-0.60,-0.00:6.02
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chr1 1292190 . A C 28.74 DPFilter;HARD_TO_VALIDATE;Indel;LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=31.67;MQ=32.93;MQ0=5;QD=1.44;SB=2.03 GT:AD:DP:GL:GQ 0/1:14,6:12:-9.77,-3.62,-33.18:61.57
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chr1 1292271 rs61766242 A G 18.08 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=30.84;MQ0=4;OQ=1066.32;QD=26.66;SB=-193.80 GT:AD:DP:GL:GQ 1/1:0,40:32:-110.23,-9.64,-0.01:96.27
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chr1 1292418 rs3104610 C T 418.78 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=45.84;MQ0=1;OQ=2220.73;QD=38.96;SB=-760.52 GT:AD:DP:GL:GQ 1/1:0,57:55:-225.67,-16.57,-0.01:99
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chr1 1297501 rs2649597 T C 2.48 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=25.11;MQ0=4;OQ=360.28;QD=22.52;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:12:-39.62,-3.62,-0.01:36.08
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|
chr1 1298491 rs2477775 A G 32.28 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=16.14;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-6.64,-0.60,-0.00:6.02
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|
chr1 1298734 rs2649595 A T 1.65 PASS AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=25.11;MQ0=1;OQ=88.08;QD=22.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,4:3:-12.30,-0.90,-0.00:9.03
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chr1 1300531 rs2242398 A C 250.70 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=40.82;MQ0=0;OQ=470.94;QD=31.40;SB=-111.01 GT:AD:DP:GL:GQ 1/1:0,15:15:-50.69,-4.52,-0.01:45.12
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|
chr1 1300838 rs2649594 C T 51.73 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=23.25;MQ0=5;OQ=315.14;QD=22.51;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,14:9:-35.10,-2.71,-0.01:27.08
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chr1 1300941 rs2649592 G T 12.43 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.29;MQ0=5;OQ=256.28;QD=18.31;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,14:8:-29.21,-2.41,-0.00:24.07
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chr1 1302674 rs34582295 C T 6.04 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=2;HaplotypeScore=3.06;MQ=25.59;MQ0=11;OQ=374.66;QD=16.29;SB=-144.64 GT:AD:DP:GL:GQ 1/1:0,23:11:-41.06,-3.32,-0.01:33.10
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|
chr1 1303447 rs11489820 G C 2.99 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=7.53;MQ0=41;OQ=125.53;QD=2.73;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,46:4:-16.09,-1.21,-0.00:12.04
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|
chr1 1304035 rs2477777 C T 175.22 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=34.74;MQ0=4;OQ=578.49;QD=28.92;SB=-248.33 GT:AD:DP:GL:GQ 1/1:0,20:15:-61.44,-4.52,-0.00:45.15
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chr1 1304333 rs2313135 T G 34.29 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=7;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.98;MQ0=4;QD=4.90;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,2:3:-7.61,-0.90,-3.34:24.36
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chr1 1304907 rs2368566 G A 186.02 PASS AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=25.16;MQ0=0;OQ=83.01;QD=27.67;SB=-45.55 GT:AD:DP:GL:GQ 1/1:0,3:3:-11.79,-0.90,-0.00:9.03
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chr1 1305206 rs2368565 G A 178.76 PASS AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=123.88;QD=30.97;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,4:4:-15.92,-1.20,-0.00:12.04
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chr1 1305756 rs2454652 C T 47.02 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=23.51;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-8.11,-0.60,-0.00:6.02
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chr1 1306033 rs2649587 G A 6.56 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=34.70;MQ0=1;OQ=503.12;QD=31.45;SB=-129.67 GT:AD:DP:GL:GQ 1/1:0,16:14:-53.90,-4.22,-0.01:42.13
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chr1 1306331 rs2649586 A G 0.26 PASS AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=2;HaplotypeScore=0.63;MQ=29.00;MQ0=0;OQ=293.94;QD=24.50;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,11:10:-32.98,-3.01,-0.01:30.07
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chr1 1307502 . C G 13.29 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=4.50;MQ0=24;QD=0.49;SB=-10.00 GT:AD:DP:GL:GQ 0/1:26,1:1:-4.59,-0.30,-0.00:1.76
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chr1 1307925 . G C 0.13 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=13.45;MQ0=29;OQ=83.85;QD=1.78;SB=-0.97 GT:AD:DP:GL:GQ 0/1:38,9:8:-14.08,-2.41,-22.17:99
|
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chr1 1307979 . T C 42.83 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=18;Dels=0.00;HRun=1;HaplotypeScore=2.20;MQ=7.67;MQ0=16;QD=2.38;SB=-10.00 GT:AD:DP:GL:GQ 1/1:13,5:2:-7.69,-0.60,-0.00:6.02
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|
chr1 1308095 . C G 10.99 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.17;HRun=1;HaplotypeScore=14.74;MQ=6.41;MQ0=25;QD=0.38;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,4:1:-4.35,-0.30,-0.00:1.76
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chr1 1321841 . G T 47.94 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=20;HaplotypeScore=6.03;MQ=23.98;MQ0=9;QD=1.65;SB=-0.97 GT:AD:DP:GL:GQ 0/1:18,11:6:-9.89,-1.81,-11.27:80.77
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chr1 1323299 rs1240743 C A 6.63 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.08;MQ=38.33;MQ0=6;OQ=144.07;QD=3.27;SB=50.03 GT:AD:DP:GL:GQ 0/1:30,14:36:-28.54,-10.85,-84.17:99
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chr1 1332475 rs2275915 G C 24.94 PASS AC=1;AF=0.50;AN=2;DB;DP=16;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=31.54;MQ0=6;OQ=92.26;QD=5.77;SB=-43.44 GT:AD:DP:GL:GQ 0/1:8,8:10:-15.53,-3.02,-24.58:99
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chr1 1346911 . G A 0.08 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=8.57;MQ=40.33;MQ0=2;OQ=331.50;QD=8.72;SB=-7.00 GT:AD:DP:GL:GQ 0/1:22,16:33:-46.38,-9.94,-72.87:99
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|
chr1 1349702 . C A 0.66 PASS AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=1;HaplotypeScore=5.78;MQ=19.45;MQ0=7;OQ=297.18;QD=9.29;SB=-141.76 GT:AD:DP:GL:GQ 0/1:14,17:13:-36.92,-3.92,-7.86:39.43
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chr1 1352746 rs58304223 G C 14.25 LowQual AC=1;AF=0.50;AN=2;DB;DP=1;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=14.25;SB=-10.00 GT:AD:DP:GL:GQ 0/1:0,1:1:-4.69,-0.30,-0.00:1.76
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chr1 1353363 . G T 42.81 LowQual AC=2;AF=1.00;AN=2;DP=2;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=37.00;MQ0=0;QD=21.40;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-7.69,-0.60,-0.00:6.02
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chr1 1355197 rs1781138 A G 15.22 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=39.89;MQ0=3;OQ=305.23;QD=16.96;SB=-38.95 GT:AD:DP:GL:GQ 1/1:0,18:10:-34.11,-3.01,-0.00:30.08
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|
chr1 1358462 rs1240703 A C 0.99 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=3;HaplotypeScore=0.32;MQ=21.92;MQ0=3;OQ=100.91;QD=14.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:4:-13.63,-1.21,-0.00:12.03
|
|
chr1 1358648 . C G 24.94 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=3;HaplotypeScore=2.70;MQ=19.30;MQ0=6;QD=1.19;SB=5.05 GT:AD:DP:GL:GQ 0/1:13,8:7:-7.89,-2.11,-21.96:57.76
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chr1 1377530 rs1781144 C G 16.31 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=20.51;MQ0=10;OQ=394.74;QD=19.74;SB=-103.85 GT:AD:DP:GL:GQ 1/1:0,20:10:-43.06,-3.01,-0.00:30.10
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chr1 1380491 . G A 10.40 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=6;HaplotypeScore=29.42;MQ=36.22;MQ0=8;QD=0.18;SB=26.07 GT:AD:DP:GL:GQ 0/1:33,26:17:-9.41,-5.13,-45.72:42.82
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chr1 1390605 rs1240723 T C 30.71 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=3.36;MQ=30.70;MQ0=2;OQ=239.92;QD=7.06;SB=-41.82 GT:AD:DP:GL:GQ 0/1:20,14:26:-35.12,-7.84,-56.30:99
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chr1 1390829 . C T 33.01 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=3;HaplotypeScore=8.88;MQ=28.73;MQ0=9;QD=1.00;SB=26.10 GT:AD:DP:GL:GQ 0/1:27,6:18:-12.01,-5.42,-52.81:65.84
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chr1 1394381 . T G 40.77 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=2.09;MQ=20.66;MQ0=17;QD=0.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:31,13:12:-10.98,-3.61,-30.75:73.61
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chr1 1398226 . C T 36.49 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=10.21;MQ0=21;QD=1.46;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,13:3:-7.84,-0.90,-3.10:21.92
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chr1 1410500 rs35871802 C T 116.85 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.49;MQ0=17;OQ=181.39;QD=6.05;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,18:11:-24.74,-3.31,-17.34:99
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chr1 1413144 . G A 12.73 PASS AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=0;HaplotypeScore=2.70;MQ=22.29;MQ0=2;OQ=489.12;QD=14.82;SB=-131.14 GT:AD:DP:GL:GQ 0/1:17,16:30:-61.25,-9.05,-41.87:99
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chr1 1414249 . G C 31.95 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=2;HaplotypeScore=6.60;MQ=15.28;MQ0=13;QD=1.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,6:4:-7.69,-1.21,-7.60:63.89
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chr1 1423959 rs1781141 T G 30.05 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=21.23;MQ0=4;QD=1.58;SB=5.04 GT:AD:DP:GL:GQ 0/1:13,6:14:-10.50,-4.22,-40.36:62.88
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chr1 1424829 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=20;HaplotypeScore=5.78;MQ=28.83;MQ0=9;OQ=77.31;QD=1.98;SB=59.13 GT:AD:DP:GL:GQ 0/1:32,7:28:-19.45,-8.44,-75.28:99
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chr1 1424855 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=20;HaplotypeScore=4.13;MQ=29.08;MQ0=4;OQ=54.78;QD=1.96;SB=29.12 GT:AD:DP:GL:GQ 0/1:21,7:17:-13.88,-5.12,-48.25:87.62
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chr1 1425922 rs28755011 C T 122.75 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=53.56;MQ0=1;OQ=756.68;QD=16.45;SB=-222.92 GT:AD:DP:GL:GQ 0/1:21,25:43:-91.92,-12.96,-62.88:99
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chr1 1430132 rs3104609 A G 485.47 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=42.69;MQ0=1;OQ=1088.71;QD=31.11;SB=-534.36 GT:AD:DP:GL:GQ 1/1:0,35:33:-112.47,-9.94,-0.02:99
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chr1 1447936 rs3118507 A G 40.78 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=47.98;MQ0=0;OQ=209.16;QD=6.97;SB=-124.72 GT:AD:DP:GL:GQ 0/1:20,10:26:-32.03,-7.83,-67.04:99
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chr1 1450120 rs6603789 G C 0.59 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=28.41;MQ0=9;OQ=784.91;QD=23.09;SB=-55.93 GT:AD:DP:GL:GQ 1/1:6,28:20:-82.08,-6.03,-0.01:60.20
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chr1 1450953 rs3128345 A G 6.78 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=8.00;MQ=58.21;MQ0=0;OQ=533.48;QD=10.67;SB=-234.27 GT:AD:DP:GL:GQ 0/1:28,22:48:-71.10,-14.47,-106.23:99
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chr1 1457784 . T A 85.12 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.74;MQ0=0;OQ=950.58;QD=15.09;SB=-335.63 GT:AD:DP:GL:GQ 0/1:32,31:63:-117.32,-18.98,-122.45:99
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chr1 1458041 rs6694994 T C 138.18 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=49.26;MQ0=0;OQ=499.68;QD=12.19;SB=-117.64 GT:AD:DP:GL:GQ 0/1:20,21:38:-64.71,-11.46,-68.00:99
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chr1 1459409 rs3128344 G A 558.61 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.45;MQ0=0;OQ=1638.56;QD=37.24;SB=-778.68 GT:AD:DP:GL:GQ 1/1:0,43:42:-167.45,-12.65,-0.01:99
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chr1 1461502 . A C 42.07 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=2;HaplotypeScore=1.74;MQ=57.05;MQ0=0;QD=2.63;SB=14.06 GT:AD:DP:GL:GQ 0/1:8,8:12:-11.11,-3.62,-27.42:74.90
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chr1 1461910 rs3118505 C T 45.13 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=4.75;MQ=58.35;MQ0=0;OQ=649.92;QD=17.57;SB=-339.91 GT:AD:DP:GL:GQ 0/1:17,20:34:-78.52,-10.25,-48.35:99
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chr1 1462403 rs1571148 T G 289.59 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=414.06;QD=9.41;SB=-126.87 GT:AD:DP:GL:GQ 0/1:27,17:41:-57.04,-12.35,-89.89:99
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chr1 1462736 rs4259576 T A 334.86 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.42;MQ=60.00;MQ0=0;OQ=380.45;QD=11.19;SB=-195.57 GT:AD:DP:GL:GQ 0/1:20,14:33:-51.27,-9.94,-69.97:99
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chr1 1464030 rs1571149 A G 400.49 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=60.00;MQ0=0;OQ=649.88;QD=11.01;SB=-311.08 GT:AD:DP:GL:GQ 0/1:30,29:55:-84.85,-16.58,-112.84:99
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chr1 1464167 rs1571150 C A 91.13 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.52;MQ0=0;OQ=665.06;QD=17.05;SB=-221.93 GT:AD:DP:GL:GQ 0/1:16,23:39:-81.54,-11.75,-55.47:99
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chr1 1464327 rs56239289 T C 341.41 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=60.00;MQ0=0;OQ=731.44;QD=11.99;SB=-372.97 GT:AD:DP:GL:GQ 0/1:31,30:58:-93.91,-17.48,-117.75:99
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chr1 1464734 rs9439465 G C 86.71 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=410.54;QD=15.21;SB=-187.22 GT:AD:DP:GL:GQ 0/1:13,14:25:-51.89,-7.55,-46.69:99
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chr1 1468557 rs55694463 C G 72.40 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.11;MQ0=0;OQ=367.44;QD=14.13;SB=-116.67 GT:AD:DP:GL:GQ 0/1:13,13:22:-46.66,-6.63,-46.00:99
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chr1 1468920 rs61777888 A T 11.23 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=40.58;MQ0=0;QD=1.12;SB=2.00 GT:AD:DP:GL:GQ 0/1:8,2:6:-6.19,-1.81,-11.86:43.73
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chr1 1471211 rs3766177 T C 144.43 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.26;MQ=59.42;MQ0=0;OQ=424.79;QD=8.50;SB=-61.74 GT:AD:DP:GL:GQ 0/1:28,22:46:-59.63,-13.86,-111.57:99
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chr1 1472873 rs7517401 G A 289.79 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.75;MQ=59.55;MQ0=0;OQ=742.89;QD=14.57;SB=-367.87 GT:AD:DP:GL:GQ 0/1:27,24:48:-92.05,-14.47,-78.97:99
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chr1 1474833 rs7515814 C G 227.61 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.23;MQ0=0;OQ=1418.95;QD=20.87;SB=-692.35 GT:AD:DP:GL:GQ 0/1:30,38:67:-165.38,-20.20,-121.41:99
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chr1 1476697 rs3128342 C A 175.56 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=1.77;MQ=59.37;MQ0=0;OQ=1038.77;QD=15.74;SB=-518.96 GT:AD:DP:GL:GQ 0/1:32,34:66:-127.04,-19.88,-111.54:99
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chr1 1478935 rs3930748 A G 131.03 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.27;MQ=57.35;MQ0=0;OQ=678.62;QD=14.44;SB=-210.49 GT:AD:DP:GL:GQ 0/1:18,29:41:-83.51,-12.36,-58.93:99
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chr1 1479484 rs11590038 T C 187.36 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=3.28;MQ=60.00;MQ0=0;OQ=498.05;QD=12.45;SB=-267.61 GT:AD:DP:GL:GQ 0/1:17,23:38:-64.56,-11.47,-62.93:99
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chr1 1479489 rs11588893 C T 162.61 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.54;MQ=60.00;MQ0=0;OQ=580.48;QD=15.69;SB=-263.76 GT:AD:DP:GL:GQ 0/1:17,20:34:-71.58,-10.25,-50.12:99
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chr1 1479533 rs7531530 C T 220.27 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.91;MQ=59.18;MQ0=1;OQ=444.32;QD=12.01;SB=-149.64 GT:AD:DP:GL:GQ 0/1:19,18:31:-57.07,-9.35,-49.87:99
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chr1 1479791 rs7366884 T C 122.14 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=59.38;MQ0=0;OQ=816.32;QD=13.61;SB=-418.23 GT:AD:DP:GL:GQ 0/1:30,30:57:-102.08,-17.17,-116.37:99
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chr1 1479937 rs7366635 A G 20.12 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=2.12;MQ=59.07;MQ0=0;OQ=292.89;QD=6.51;SB=-136.53 GT:AD:DP:GL:GQ 0/1:30,15:42:-45.23,-12.66,-112.08:99
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chr1 1480024 rs3753332 A G 36.05 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=1.31;MQ=59.44;MQ0=0;OQ=490.38;QD=11.96;SB=-170.97 GT:AD:DP:GL:GQ 0/1:21,20:37:-63.47,-11.15,-78.00:99
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chr1 1480095 rs3753331 T C 462.82 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=783.79;QD=15.07;SB=-339.35 GT:AD:DP:GL:GQ 0/1:24,28:51:-97.03,-15.37,-89.70:99
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chr1 1480422 rs3820075 A G 268.84 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.65;MQ0=0;OQ=768.88;QD=14.24;SB=-360.10 GT:AD:DP:GL:GQ 0/1:23,31:53:-96.15,-15.98,-92.13:99
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chr1 1480490 rs3753330 T A 237.50 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.22;MQ0=0;OQ=615.93;QD=11.41;SB=-300.65 GT:AD:DP:GL:GQ 0/1:28,26:50:-79.94,-15.07,-101.11:99
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chr1 1480556 . C T 26.64 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=1.18;MQ=59.59;MQ0=0;OQ=854.85;QD=18.58;SB=-376.92 GT:AD:DP:GL:GQ 0/1:20,26:44:-102.04,-13.27,-56.58:99
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chr1 1481114 rs12048706 T C 201.19 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=57.91;MQ0=0;OQ=878.58;QD=11.87;SB=-292.17 GT:AD:DP:GL:GQ 0/1:36,38:70:-112.24,-21.10,-138.24:99
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chr1 1484218 rs3118509 T C 19.29 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1926.74;QD=28.76;SB=-881.49 GT:AD:DP:GL:GQ 1/1:0,67:60:-196.31,-18.09,-0.05:99
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chr1 1484946 rs6667347 G C 188.55 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=59.64;MQ0=0;OQ=1104.15;QD=17.25;SB=-384.86 GT:AD:DP:GL:GQ 0/1:33,31:63:-132.69,-18.99,-142.09:99
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chr1 1485056 rs3118508 A G 123.40 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.54;MQ0=0;OQ=1673.18;QD=28.36;SB=-768.59 GT:AD:DP:GL:GQ 1/1:0,59:54:-170.96,-16.29,-0.05:99
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chr1 1486871 rs3766170 T C 6.17 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=4;HaplotypeScore=1.66;MQ=57.15;MQ0=0;OQ=440.82;QD=8.82;SB=-192.43 GT:AD:DP:GL:GQ 0/1:28,22:46:-61.23,-13.87,-105.72:99
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chr1 1488802 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=20;HaplotypeScore=27.79;MQ=52.29;MQ0=1;OQ=57.57;QD=0.82;SB=89.30 GT:AD:DP:GL:GQ 0/1:49,20:48:-23.51,-14.47,-151.88:90.40
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chr1 1489161 rs9439468 A G 111.48 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=2.15;MQ=56.25;MQ0=0;OQ=911.03;QD=16.56;SB=-250.50 GT:AD:DP:GL:GQ 0/1:21,34:50:-109.45,-15.06,-75.57:99
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chr1 1490804 rs6603791 A G 440.61 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=55.41;MQ0=0;OQ=778.85;QD=12.98;SB=-348.06 GT:AD:DP:GL:GQ 0/1:28,32:58:-98.65,-17.48,-110.76:99
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chr1 1490867 . C G 0.31 PASS AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=53.32;MQ0=0;OQ=206.00;QD=2.71;SB=-32.07 GT:AD:DP:GL:GQ 0/1:64,12:75:-46.49,-22.61,-271.24:99
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chr1 1490871 . A G 0.08 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=1.61;MQ=53.82;MQ0=0;OQ=220.05;QD=2.75;SB=-14.75 GT:AD:DP:GL:GQ 0/1:66,14:78:-48.79,-23.50,-263.73:99
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chr1 1490927 rs6656541 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=3;HaplotypeScore=23.59;MQ=53.32;MQ0=0;OQ=1558.39;QD=20.51;SB=-788.78 GT:AD:DP:GL:GQ 0/1:23,53:74:-181.42,-22.29,-76.04:99
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chr1 1490930 rs12730242 C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=22.45;MQ=53.65;MQ0=0;OQ=417.53;QD=5.49;SB=-224.35 GT:AD:DP:GL:GQ 0/1:55,21:70:-66.13,-21.09,-238.86:99
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chr1 1490948 rs12742689 T C 0.19 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=2.65;MQ=53.98;MQ0=0;OQ=96.30;QD=1.23;SB=-34.35 GT:AD:DP:GL:GQ 0/1:66,12:72:-34.61,-21.70,-240.60:99
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chr1 1490950 rs12730248 C T 0.53 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=2.65;MQ=54.06;MQ0=0;OQ=172.01;QD=2.18;SB=-98.81 GT:AD:DP:GL:GQ 0/1:67,11:73:-45.59,-25.10,-225.19:99
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chr1 1491329 rs7543799 G A 29 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=5.33;MQ=58.37;MQ0=0;OQ=592.32;QD=13.16;SB=-320.34 GT:AD:DP:GL:GQ 0/1:24,21:38:-73.97,-11.45,-67.99:99
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chr1 1492958 rs7367692 G A 226.72 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.69;MQ=59.16;MQ0=0;OQ=759.07;QD=13.80;SB=-311.80 GT:AD:DP:GL:GQ 0/1:31,24:51:-94.56,-15.37,-89.99:99
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chr1 1492962 rs7364711 A C 163.84 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.69;MQ=59.20;MQ0=0;OQ=581.10;QD=10.02;SB=-270.86 GT:AD:DP:GL:GQ 0/1:35,23:56:-78.26,-16.87,-122.50:99
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chr1 1493671 rs11578409 C G 251.66 PASS AC=1;AF=0.50;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=59.04;MQ0=0;OQ=1371.84;QD=13.45;SB=-443.87 GT:AD:DP:GL:GQ 0/1:57,45:96:-169.40,-28.93,-244.12:99
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chr1 1493791 rs7550471 G A 6.65 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=5.83;MQ=58.91;MQ0=0;OQ=1272.31;QD=21.21;SB=-593.09 GT:AD:DP:GL:GQ 0/1:20,38:56:-150.16,-19.64,-65.04:99
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chr1 1494423 rs7552586 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=6;HaplotypeScore=3.99;MQ=59.04;MQ0=0;OQ=1025.73;QD=12.36;SB=-469.22 GT:AD:DP:GL:GQ 0/1:45,38:80:-129.96,-24.11,-158.72:99
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chr1 1494904 rs6603792 T C 342.81 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=427.21;QD=9.94;SB=-158.94 GT:AD:DP:GL:GQ 0/1:24,19:43:-58.97,-12.96,-97.93:99
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chr1 1495118 rs6603793 C T 185.94 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=0.67;MQ=59.74;MQ0=0;OQ=1162.21;QD=15.92;SB=-407.71 GT:AD:DP:GL:GQ 0/1:38,35:73:-141.49,-21.99,-140.54:99
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chr1 1495830 rs7548959 C T 131.47 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=3.07;MQ=58.74;MQ0=0;OQ=1025.47;QD=14.65;SB=-444.99 GT:AD:DP:GL:GQ 0/1:38,32:69:-126.64,-20.81,-114.78:99
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chr1 1495898 rs7540231 G A 67.32 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=2;HaplotypeScore=1.75;MQ=58.44;MQ0=0;OQ=3508.72;QD=37.73;SB=-1621.33 GT:AD:DP:GL:GQ 1/1:0,92:90:-349.87,-27.12,-0.03:99
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chr1 1497229 rs9439469 G A 187.99 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.17;MQ0=0;OQ=210.39;QD=8.42;SB=-10.00 GT:AD:DP:GL:GQ 0/1:17,8:25:-31.85,-7.53,-57.26:99
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chr1 1497775 rs61774865 A C 52.62 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=53.97;MQ0=0;OQ=260.15;QD=7.88;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,13:31:-38.64,-9.34,-70.58:99
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chr1 1498322 rs9439473 A G 18.83 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=3.82;MQ=56.11;MQ0=0;OQ=610.76;QD=13.57;SB=-249.32 GT:AD:DP:GL:GQ 0/1:21,24:44:-77.63,-13.27,-79.03:99
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chr1 1498506 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=5;HaplotypeScore=2.45;MQ=50.85;MQ0=0;OQ=161.89;QD=3.37;SB=24.24 GT:AD:DP:GL:GQ 0/1:38,10:40:-31.52,-12.05,-112.23:99
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chr1 1498508 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=15;HaplotypeScore=1.82;MQ=51.05;MQ0=0;OQ=196.72;QD=4.01;SB=27.81 GT:AD:DP:GL:GQ 0/1:38,11:41:-35.31,-12.36,-104.62:99
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chr1 1498897 rs7520996 T C 291.45 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=2.95;MQ=56.74;MQ0=0;OQ=1344.56;QD=17.46;SB=-662.63 GT:AD:DP:GL:GQ 0/1:31,46:75:-160.33,-22.59,-123.58:99
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chr1 1499019 rs7518083 A G 453.47 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.97;MQ0=0;OQ=1144.84;QD=14.49;SB=-308.25 GT:AD:DP:GL:GQ 0/1:39,40:76:-140.66,-22.89,-155.49:99
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chr1 1499688 rs6666293 A G 47.16 LowQual AC=1;AF=0.50;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=1.90;MQ=53.03;MQ0=0;QD=6.74;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,3:5:-9.51,-1.51,-8.01:65.07
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chr1 1500664 rs7519837 C T 335.96 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=543.75;QD=13.59;SB=-294.78 GT:AD:DP:GL:GQ 0/1:21,19:39:-69.41,-11.75,-74.55:99
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chr1 1500967 rs7556282 G C 209.02 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=56.81;MQ0=0;OQ=874.72;QD=17.85;SB=-362.79 GT:AD:DP:GL:GQ 0/1:21,27:44:-104.04,-13.28,-69.73:99
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chr1 1501107 rs4590622 G A 74.70 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=2.06;MQ=35.43;MQ0=2;OQ=406.87;QD=8.30;SB=-78.55 GT:AD:DP:GL:GQ 0/1:30,19:38:-55.43,-11.46,-75.84:99
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chr1 1501178 rs4618908 T C 437.65 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.31;MQ0=1;OQ=645.96;QD=14.68;SB=-291.48 GT:AD:DP:GL:GQ 0/1:19,25:40:-79.93,-12.05,-65.32:99
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chr1 1504046 . C T 7.57 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=3.52;MQ=59.17;MQ0=0;OQ=1022.24;QD=18.25;SB=-279.21 GT:AD:DP:GL:GQ 0/1:26,30:52:-121.18,-15.67,-71.09:99
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chr1 1504960 rs9331751 T A 36.07 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=4.88;MQ=56.51;MQ0=1;OQ=1100.76;QD=14.11;SB=-360.40 GT:AD:DP:GL:GQ 0/1:39,39:73:-135.35,-21.99,-132.17:99
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chr1 1506133 rs9442407 C T 139.40 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=4.15;MQ=35.12;MQ0=12;OQ=825.82;QD=11.16;SB=-394.16 GT:AD:DP:GL:GQ 0/1:42,32:54:-102.14,-16.28,-92.88:99
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chr1 1509564 rs9442406 T C 136.95 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.76;MQ=56.80;MQ0=0;OQ=711.41;QD=13.42;SB=-198.20 GT:AD:DP:GL:GQ 0/1:27,26:51:-89.79,-15.37,-103.56:99
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chr1 1510588 rs28788874 C T 634.33 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.10;MQ0=1;OQ=2154.00;QD=35.90;SB=-1071.35 GT:AD:DP:GL:GQ 1/1:0,60:56:-219.01,-16.88,-0.03:99
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chr1 1510832 rs6666084 A G 27.92 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=29.16;MQ0=1;OQ=863.94;QD=22.15;SB=-357.32 GT:AD:DP:GL:GQ 1/1:0,34:29:-93.05,-11.63,-3.07:85.61
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chr1 1511143 rs6679999 C T 270.78 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=46.32;MQ0=0;OQ=967.03;QD=37.19;SB=-287.88 GT:AD:DP:GL:GQ 1/1:0,26:25:-100.30,-7.53,-0.01:75.24
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chr1 1511216 . T A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=2;HaplotypeScore=0.79;MQ=40.83;MQ0=0;OQ=921.95;QD=25.61;SB=-124.48 GT:AD:DP:GL:GQ 0/1:7,29:35:-106.02,-10.55,-27.02:99
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chr1 1511668 rs4648786 A G 87.12 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=58.14;MQ0=0;OQ=1843.13;QD=31.78;SB=-498.18 GT:AD:DP:GL:GQ 1/1:0,58:57:-187.94,-17.18,-0.05:99
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chr1 1511869 rs4648787 C T 29.58 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=3.56;MQ=56.20;MQ0=1;OQ=2155.57;QD=37.82;SB=-1079.94 GT:AD:DP:GL:GQ 1/1:1,56:55:-219.17,-16.58,-0.02:99
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chr1 1511922 rs4648612 C T 25.92 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=42.53;MQ0=1;OQ=1102.46;QD=35.56;SB=-299.68 GT:AD:DP:GL:GQ 1/1:1,30:28:-113.84,-8.43,-0.01:84.28
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chr1 1512199 rs4648613 T C 554.79 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.33;MQ0=0;OQ=1584.81;QD=33.02;SB=-688.28 GT:AD:DP:GL:GQ 1/1:0,48:45:-162.08,-13.55,-0.01:99
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chr1 1512230 rs28809773 G A 465.17 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=52.87;MQ0=0;OQ=1755.99;QD=36.58;SB=-748.51 GT:AD:DP:GL:GQ 1/1:0,48:45:-179.20,-13.56,-0.01:99
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chr1 1512325 . G A 85.65 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.80;MQ=55.47;MQ0=0;OQ=776.49;QD=14.65;SB=-378.86 GT:AD:DP:GL:GQ 0/1:28,24:51:-96.30,-15.37,-89.39:99
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chr1 1512595 rs4366263 A G 19.23 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=3.13;MQ=56.40;MQ0=0;OQ=1310.46;QD=34.49;SB=-610.36 GT:AD:DP:GL:GQ 1/1:0,38:38:-134.64,-11.45,-0.01:99
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chr1 1512656 rs28778974 C T 131.47 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=49.50;MQ0=1;OQ=1426.66;QD=34.80;SB=-730.49 GT:AD:DP:GL:GQ 1/1:1,40:37:-146.26,-11.15,-0.01:99
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chr1 1512790 rs61774869 C T 40.58 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.10;MQ=48.67;MQ0=1;OQ=1682.46;QD=36.58;SB=-840.63 GT:AD:DP:GL:GQ 1/1:2,44:43:-171.84,-12.95,-0.01:99
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chr1 1513302 rs9725077 G A 148.03 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=48.17;MQ0=1;OQ=1464.10;QD=34.05;SB=-687.33 GT:AD:DP:GL:GQ 1/1:1,42:38:-150.01,-11.45,-0.01:99
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chr1 1514300 rs9442423 T C 34.69 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.59;MQ0=0;OQ=266.23;QD=6.83;SB=-0.97 GT:AD:DP:GL:GQ 0/1:24,15:34:-40.16,-10.25,-85.89:99
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chr1 1514394 . C T 901.86 Indel AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.65;MQ0=0;QD=14.78;SB=-128.11 GT:AD:DP:GL:GQ 0/1:33,28:59:-111.26,-17.79,-98.57:99
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chr1 1514734 rs9442403 A G 0.24 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=12.23;MQ=53.49;MQ0=0;OQ=367.70;QD=7.99;SB=-54.31 GT:AD:DP:GL:GQ 0/1:25,19:37:-51.21,-11.16,-85.57:99
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chr1 1514861 . A T 164.64 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.34;MQ0=0;OQ=646.82;QD=13.76;SB=-331.07 GT:AD:DP:GL:GQ 0/1:25,22:46:-81.82,-13.86,-91.60:99
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chr1 1515925 rs6681422 T C 152.90 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.60;MQ=56.53;MQ0=0;OQ=534.97;QD=11.15;SB=-174.52 GT:AD:DP:GL:GQ 0/1:23,25:43:-69.74,-12.96,-84.05:99
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chr1 1516662 rs12735276 A G 21.98 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=2.05;MQ=57.32;MQ0=1;OQ=2133.75;QD=30.05;SB=-1092.47 GT:AD:DP:GL:GQ 1/1:2,69:66:-217.02,-19.91,-0.06:99
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chr1 1516946 rs10157140 T C 503.19 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.65;MQ0=0;OQ=1116.09;QD=14.69;SB=-475.23 GT:AD:DP:GL:GQ 0/1:37,39:76:-137.79,-22.90,-145.96:99
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chr1 1517815 . T C 151.98 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=58.19;MQ0=0;OQ=718.93;QD=11.41;SB=-330.87 GT:AD:DP:GL:GQ 0/1:32,31:61:-93.57,-18.39,-126.83:99
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chr1 1518089 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.01;HRun=19;HaplotypeScore=19.37;MQ=53.15;MQ0=1;OQ=397.54;QD=5.76;SB=50.30 GT:AD:DP:GL:GQ 0/1:45,23:60:-60.81,-17.78,-147.22:99
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chr1 1518109 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=82;Dels=0.01;HRun=19;HaplotypeScore=9.39;MQ=51.76;MQ0=1;OQ=216.06;QD=2.63;SB=62.19 GT:AD:DP:GL:GQ 0/1:54,27:58:-42.07,-17.18,-142.92:99
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chr1 1518112 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=77;Dels=0.01;HRun=4;HaplotypeScore=9.55;MQ=51.62;MQ0=1;OQ=92.02;QD=1.20;SB=65.18 GT:AD:DP:GL:GQ 0/1:56,20:51:-27.56,-15.07,-144.06:99
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chr1 1518863 rs12725297 G C 139.44 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=58.84;MQ0=0;OQ=1568.02;QD=18.67;SB=-365.83 GT:AD:DP:GL:GQ 0/1:39,45:81:-184.49,-24.41,-167.76:99
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chr1 1518975 rs12725449 G C 178.35 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.97;MQ0=0;OQ=2276.77;QD=38.59;SB=-1002.01 GT:AD:DP:GL:GQ 1/1:0,59:56:-231.29,-16.89,-0.03:99
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chr1 1519320 rs28566709 T C 64.56 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=4.25;MQ=59.59;MQ0=0;OQ=477.78;QD=8.53;SB=-190.61 GT:AD:DP:GL:GQ 0/1:33,23:51:-66.44,-15.38,-114.90:99
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chr1 1519374 rs28662991 T C 77.77 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.97;MQ=59.56;MQ0=0;OQ=635.95;QD=12.23;SB=-285.60 GT:AD:DP:GL:GQ 0/1:29,23:51:-82.25,-15.37,-108.55:99
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chr1 1519813 rs28503881 A G 211.45 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=58.02;MQ0=0;OQ=531.98;QD=8.58;SB=-234.91 GT:AD:DP:GL:GQ 0/1:35,27:58:-73.97,-17.49,-134.84:99
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chr1 1519842 rs4648788 T C 59.76 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.96;MQ=56.83;MQ0=0;OQ=1829.71;QD=27.72;SB=-554.05 GT:AD:DP:GL:GQ 1/1:0,66:57:-186.60,-17.18,-0.04:99
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chr1 1519857 . G C 3.15 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=1;HaplotypeScore=5.53;MQ=56.98;MQ0=0;OQ=985.46;QD=15.64;SB=-338.06 GT:AD:DP:GL:GQ 0/1:28,35:57:-119.03,-17.20,-116.72:99
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chr1 1519861 rs28689700 C G 213.40 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=56.88;MQ0=0;OQ=841.97;QD=13.80;SB=-287.94 GT:AD:DP:GL:GQ 0/1:30,31:57:-104.69,-17.21,-125.41:99
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chr1 1520060 rs4648789 A C 15.22 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=4;HaplotypeScore=1.27;MQ=50.71;MQ0=0;OQ=838.47;QD=14.46;SB=-329.82 GT:AD:DP:GL:GQ 0/1:26,32:54:-103.41,-16.28,-79.25:99
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chr1 1520063 rs4648790 C T 336.83 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=51.65;MQ0=0;OQ=926.60;QD=15.19;SB=-418.36 GT:AD:DP:GL:GQ 0/1:30,31:60:-114.03,-18.08,-107.59:99
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chr1 1520195 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=113;Dels=0.02;HRun=0;HaplotypeScore=46.04;MQ=50.13;MQ0=3;OQ=55.61;QD=0.49;SB=110.40 GT:AD:DP:GL:GQ 0/1:96,14:92:-36.27,-27.42,-356.52:88.45
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chr1 1520222 . G A 94.09 SnpCluster AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=0;HaplotypeScore=77.51;MQ=46.35;MQ0=0;QD=0.80;SB=-48.89 GT:AD:DP:GL:GQ 0/1:102,15:106:-44.62,-31.93,-348.40:99
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chr1 1520225 . G C 344.68 SnpCluster AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=69.75;MQ=44.94;MQ0=0;QD=2.92;SB=-153.13 GT:AD:DP:GL:GQ 0/1:100,18:110:-70.90,-33.15,-412.65:99
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chr1 1520229 . C G 412.05 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=121;Dels=0.00;HRun=0;HaplotypeScore=94.26;MQ=43.35;MQ0=0;QD=3.41;SB=-151.44 GT:AD:DP:GL:GQ 0/1:103,18:106:-76.44,-31.95,-372.75:99
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chr1 1520237 . G C 91.10 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=128;Dels=0.05;HRun=0;HaplotypeScore=131.86;MQ=42.98;MQ0=0;QD=0.71;SB=13.51 GT:AD:DP:GL:GQ 0/1:106,16:113:-45.55,-33.15,-430.26:99
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chr1 1520238 rs61774873 T A 718.56 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=125;Dels=0.05;HRun=0;HaplotypeScore=125.70;MQ=43.01;MQ0=0;QD=5.75;SB=-75.62 GT:AD:DP:GL:GQ 0/1:71,41:100:-122.71,-47.57,-247.49:99
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chr1 1520243 . C G 225.05 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=0;HaplotypeScore=118.32;MQ=42.36;MQ0=0;QD=1.77;SB=107.39 GT:AD:DP:GL:GQ 0/1:107,20:111:-59.26,-33.47,-404.28:99
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chr1 1520250 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=130;Dels=0.03;HRun=1;HaplotypeScore=70.65;MQ=43.20;MQ0=0;OQ=629.57;QD=4.84;SB=-297.59 GT:AD:DP:GL:GQ 0/1:85,37:107:-98.49,-32.25,-308.33:99
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chr1 1520281 rs61774874 G C 511.99 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=124;Dels=0.00;HRun=0;HaplotypeScore=95.68;MQ=43.19;MQ0=0;QD=4.13;SB=-246.08 GT:AD:DP:GL:GQ 0/1:99,25:103:-85.52,-31.04,-362.79:99
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chr1 1520285 . G C 387.17 SnpCluster AC=1;AF=0.50;AN=2;DP=119;Dels=0.01;HRun=0;HaplotypeScore=65.61;MQ=43.42;MQ0=0;QD=3.25;SB=-155.15 GT:AD:DP:GL:GQ 0/1:98,20:100:-71.84,-29.84,-355.29:99
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chr1 1520289 rs62642589 C G 93.31 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=121;Dels=0.01;HRun=0;HaplotypeScore=35.98;MQ=43.17;MQ0=0;QD=0.77;SB=134.48 GT:AD:DP:GL:GQ 0/1:107,13:109:-45.17,-32.56,-411.19:99
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chr1 1520331 rs28654137 C G 48.96 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.01;HRun=0;HaplotypeScore=27.98;MQ=47.63;MQ0=0;QD=0.60;SB=18.43 GT:AD:DP:GL:GQ 0/1:72,9:75:-30.78,-22.60,-290.44:81.79
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chr1 1520344 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=73;Dels=0.01;HRun=0;HaplotypeScore=35.55;MQ=46.62;MQ0=0;OQ=147.13;QD=2.02;SB=-55.25 GT:AD:DP:GL:GQ 0/1:57,14:62:-36.39,-18.39,-179.58:99
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chr1 1520377 . C G 26.02 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=20.54;MQ=46.26;MQ0=1;QD=0.42;SB=59.22 GT:AD:DP:GL:GQ 0/1:52,10:48:-20.35,-14.47,-182.03:58.84
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chr1 1520381 rs28593368 C G 11.70 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=9.32;MQ=47.21;MQ0=1;QD=0.18;SB=37.38 GT:AD:DP:GL:GQ 0/1:58,8:56:-21.30,-16.87,-217.45:44.23
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chr1 1520469 rs11488585 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.01;HRun=0;HaplotypeScore=36.86;MQ=43.53;MQ0=4;OQ=2355.10;QD=23.55;SB=-1049.66 GT:AD:DP:GL:GQ 0/1:35,63:89:-265.31,-26.51,-115.33:99
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chr1 1520498 . G A 0.22 PASS AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=42.41;MQ0=4;OQ=313.12;QD=3.48;SB=-164.48 GT:AD:DP:GL:GQ 0/1:71,19:76:-57.51,-22.91,-206.14:99
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chr1 1520609 . G C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=107;Dels=0.00;HRun=0;HaplotypeScore=16.97;MQ=45.11;MQ0=1;OQ=1017.74;QD=9.51;SB=-327.71 GT:AD:DP:GL:GQ 0/1:72,34:94:-133.38,-28.32,-275.79:99
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chr1 1520627 . T C 0.10 PASS AC=2;AF=1.00;AN=2;DP=106;Dels=0.00;HRun=0;HaplotypeScore=10.65;MQ=46.29;MQ0=2;OQ=3224.03;QD=30.42;SB=-1396.99 GT:AD:DP:GL:GQ 1/1:0,101:93:-329.81,-30.68,-3.83:99
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chr1 1520757 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=4.58;MQ=47.64;MQ0=6;OQ=89.81;QD=0.88;SB=110.39 GT:AD:DP:GL:GQ 0/1:91,11:89:-39.08,-26.81,-310.80:99
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chr1 1520774 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=99;Dels=0.01;HRun=0;HaplotypeScore=56.31;MQ=48.08;MQ0=6;OQ=62.24;QD=0.63;SB=110.34 GT:AD:DP:GL:GQ 0/1:89,9:83:-34.23,-24.72,-231.51:95.08
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chr1 1520787 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=96;Dels=0.04;HRun=0;HaplotypeScore=27.20;MQ=49.95;MQ0=4;OQ=173.92;QD=1.81;SB=77.51 GT:AD:DP:GL:GQ 0/1:78,14:87:-45.69,-25.01,-305.10:99
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chr1 1520821 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=37.97;MQ=51.43;MQ0=1;OQ=216.93;QD=2.55;SB=101.36 GT:AD:DP:GL:GQ 0/1:69,16:80:-49.07,-24.10,-269.00:99
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chr1 1520848 . G A 0.20 PASS AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=2.89;MQ=50.21;MQ0=2;OQ=302.35;QD=3.44;SB=74.15 GT:AD:DP:GL:GQ 0/1:72,16:76:-56.43,-22.92,-203.92:99
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chr1 1520892 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=1;HaplotypeScore=71.05;MQ=51.39;MQ0=2;OQ=950.76;QD=9.51;SB=-387.75 GT:AD:DP:GL:GQ 0/1:63,37:86:-124.27,-25.91,-211.22:99
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chr1 1520953 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=74;Dels=0.01;HRun=0;HaplotypeScore=47.85;MQ=52.80;MQ0=2;OQ=265.98;QD=3.59;SB=-146.32 GT:AD:DP:GL:GQ 0/1:59,14:61:-47.97,-18.09,-205.99:99
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chr1 1520957 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=21.78;MQ=53.36;MQ0=2;OQ=105.70;QD=1.55;SB=-47.11 GT:AD:DP:GL:GQ 0/1:59,9:55:-30.43,-16.57,-209.84:99
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chr1 1520979 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=45.80;MQ=49.11;MQ0=2;OQ=234.58;QD=3.72;SB=-118.04 GT:AD:DP:GL:GQ 0/1:53,10:50:-41.81,-15.07,-172.68:99
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chr1 1521029 . C G 208.12 Indel AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=31.42;MQ=47.45;MQ0=1;QD=3.20;SB=-33.62 GT:AD:DP:GL:GQ 0/1:53,12:61:-42.48,-18.38,-218.36:99
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chr1 1521111 . C G 34.71 LowQual AC=1;AF=0.50;AN=2;DP=75;Dels=0.05;HRun=0;HaplotypeScore=51.94;MQ=49.50;MQ0=5;QD=0.46;SB=-34.07 GT:AD:DP:GL:GQ 0/1:62,9:60:-24.84,-18.09,-231.30:67.54
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chr1 1521139 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=19.29;MQ=49.73;MQ0=4;OQ=471.32;QD=8.42;SB=-237.06 GT:AD:DP:GL:GQ 0/1:38,18:43:-63.38,-12.96,-121.81:99
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chr1 1521149 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=50;Dels=0.04;HRun=0;HaplotypeScore=25.97;MQ=51.25;MQ0=5;OQ=94.80;QD=1.90;SB=0.71 GT:AD:DP:GL:GQ 0/1:42,6:42:-25.43,-12.66,-151.77:99
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chr1 1521416 . G A 908.87 Indel AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=49.66;MQ0=7;QD=12.12;SB=-403.37 GT:AD:DP:GL:GQ 0/1:47,28:66:-114.05,-19.88,-141.06:99
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chr1 1521692 . G A 0.94 PASS AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=9.14;MQ=58.40;MQ0=0;OQ=1252.37;QD=15.27;SB=-600.00 GT:AD:DP:GL:GQ 0/1:41,41:79:-152.32,-23.80,-150.35:99
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chr1 1521772 rs36210710 A G 0.25 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=15.96;MQ=57.04;MQ0=1;OQ=875.12;QD=13.46;SB=-359.37 GT:AD:DP:GL:GQ 0/1:32,33:57:-107.96,-17.17,-110.70:99
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chr1 1522125 rs28569178 A G 2.98 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=5.24;MQ=53.41;MQ0=0;OQ=1519.29;QD=31.65;SB=-783.99 GT:AD:DP:GL:GQ 1/1:0,48:43:-155.53,-12.95,-0.01:99
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chr1 1522142 rs35051391 A C 34.82 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=4.14;MQ=53.19;MQ0=0;OQ=509.94;QD=11.86;SB=-251.92 GT:AD:DP:GL:GQ 0/1:20,23:38:-65.73,-11.45,-61.61:99
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chr1 1522705 . C T 4.71 PASS AC=1;AF=0.50;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=50.65;MQ0=0;OQ=133.19;QD=16.65;SB=-79.09 GT:AD:DP:GL:GQ 0/1:3,5:8:-19.01,-2.41,-10.59:81.80
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chr1 1524477 rs11552172 T C 56.64 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.17;MQ0=0;OQ=436.12;QD=15.58;SB=-113.68 GT:AD:DP:GL:GQ 0/1:12,16:28:-55.34,-8.44,-45.31:99
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chr1 1527039 rs4075469 A C 248.77 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.34;MQ0=0;OQ=696.22;QD=16.58;SB=-340.88 GT:AD:DP:GL:GQ 0/1:16,26:40:-84.95,-12.05,-59.28:99
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chr1 1527300 rs7554569 C T 296.92 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=424.42;QD=8.16;SB=-236.55 GT:AD:DP:GL:GQ 0/1:35,17:46:-59.60,-13.87,-96.44:99
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chr1 1527750 . C A 254.99 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.50;MQ0=0;OQ=986.18;QD=16.71;SB=-374.21 GT:AD:DP:GL:GQ 0/1:26,33:55:-118.47,-16.57,-69.65:99
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chr1 1527909 . G A 103.61 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.52;MQ0=0;OQ=783.03;QD=16.31;SB=-358.36 GT:AD:DP:GL:GQ 0/1:23,25:47:-95.76,-14.17,-71.60:99
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chr1 1528300 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=3;HaplotypeScore=10.61;MQ=58.05;MQ0=0;OQ=286.83;QD=5.98;SB=62.19 GT:AD:DP:GL:GQ 0/1:26,22:41:-44.32,-12.35,-90.74:99
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chr1 1529232 rs6656591 T C 65.49 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=3.39;MQ=56.33;MQ0=0;OQ=1005.79;QD=17.65;SB=-491.70 GT:AD:DP:GL:GQ 0/1:23,34:55:-120.43,-16.57,-83.35:99
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chr1 1529445 rs6691649 G A 161.84 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=59.46;MQ0=0;OQ=1057.94;QD=19.59;SB=-480.07 GT:AD:DP:GL:GQ 0/1:20,34:51:-124.45,-15.37,-67.92:99
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chr1 1529817 rs4075275 G C 15.87 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=2.13;MQ=58.35;MQ0=0;OQ=1607.65;QD=30.92;SB=-720.33 GT:AD:DP:GL:GQ 1/1:0,52:40:-164.38,-12.07,-0.03:99
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chr1 1530590 . C T 27.41 PASS AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=55.36;MQ0=0;OQ=363.07;QD=13.45;SB=-133.59 GT:AD:DP:GL:GQ 0/1:14,13:26:-47.43,-7.84,-42.81:99
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chr1 1530910 . G C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=6.92;MQ=37.58;MQ0=2;OQ=79.86;QD=5.32;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,8:5:-12.78,-1.51,-7.90:63.88
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chr1 1530912 . C G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=2;HaplotypeScore=4.15;MQ=38.11;MQ0=2;OQ=71.50;QD=5.11;SB=-6.99 GT:AD:DP:GL:GQ 0/1:4,10:6:-12.24,-1.81,-12.03:99
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chr1 1530952 . G C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=8.79;MQ=42.16;MQ0=2;OQ=53.35;QD=3.33;SB=-39.44 GT:AD:DP:GL:GQ 0/1:11,5:9:-11.33,-2.71,-25.48:86.19
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chr1 1530975 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=5.18;MQ=46.58;MQ0=0;OQ=57.06;QD=3.57;SB=5.04 GT:AD:DP:GL:GQ 0/1:12,4:12:-12.60,-3.61,-32.43:89.90
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chr1 1531008 . C G 10.82 LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=2;HaplotypeScore=6.64;MQ=46.16;MQ0=1;QD=0.52;SB=-26.85 GT:AD:DP:GL:GQ 0/1:16,5:11:-7.66,-3.33,-32.36:43.28
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chr1 1531060 . A C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=9.36;MQ=36.61;MQ0=1;OQ=116.93;QD=7.31;SB=-3.99 GT:AD:DP:GL:GQ 0/1:5,10:9:-17.69,-2.71,-12.57:98.57
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chr1 1531096 . C T 31.46 LowQual AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=8.94;MQ=35.04;MQ0=1;QD=3.15;SB=-6.99 GT:AD:DP:GL:GQ 0/1:5,5:4:-7.64,-1.21,-6.67:54.60
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chr1 1531214 . C T 12.58 LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=48.08;MQ0=0;QD=0.90;SB=-28.53 GT:AD:DP:GL:GQ 0/1:11,2:10:-7.53,-3.02,-23.43:45.17
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chr1 1531255 . G A 2.13 PASS AC=1;AF=0.50;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=2.57;MQ=54.60;MQ0=0;OQ=208.62;QD=17.39;SB=-121.64 GT:AD:DP:GL:GQ 0/1:2,10:8:-26.44,-2.41,-2.60:1.87
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chr1 1531316 . A T 48.17 LowQual AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=3.10;MQ=48.85;MQ0=0;QD=2.01;SB=-30.94 GT:AD:DP:GL:GQ 0/1:15,8:14:-12.32,-4.22,-35.65:81.01
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chr1 1531334 . C T 13.43 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=4.16;MQ=45.60;MQ0=1;QD=0.56;SB=5.01 GT:AD:DP:GL:GQ 0/1:15,7:11:-7.93,-3.32,-25.96:46.07
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chr1 1531359 . G A 17.07 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=4.20;MQ=46.76;MQ0=1;QD=0.74;SB=11.04 GT:AD:DP:GL:GQ 0/1:19,4:19:-10.71,-5.73,-55.15:49.82
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chr1 1531380 . C G 42.65 LowQual AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=3;HaplotypeScore=7.66;MQ=46.38;MQ0=2;QD=1.42;SB=-45.68 GT:AD:DP:GL:GQ 0/1:23,7:24:-14.78,-7.24,-85.75:75.49
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chr1 1531419 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=2;HaplotypeScore=5.63;MQ=45.92;MQ0=1;OQ=63.73;QD=3.03;SB=23.10 GT:AD:DP:GL:GQ 0/1:16,5:18:-15.09,-5.43,-50.86:96.57
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chr1 1531527 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=2;HaplotypeScore=3.70;MQ=32.41;MQ0=1;OQ=75.08;QD=3.75;SB=-44.95 GT:AD:DP:GL:GQ 0/1:9,10:9:-13.51,-2.71,-17.78:99
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chr1 1531545 . G C 27.47 LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=8.08;MQ=36.24;MQ0=1;QD=1.37;SB=-32.85 GT:AD:DP:GL:GQ 0/1:18,2:9:-8.74,-2.71,-27.23:60.30
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chr1 1531547 . C G 25.49 LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=2;HaplotypeScore=8.42;MQ=36.81;MQ0=1;QD=1.34;SB=-27.40 GT:AD:DP:GL:GQ 0/1:14,5:6:-7.64,-1.81,-15.17:58.31
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chr1 1532873 rs9442420 T C 73.52 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.50;MQ0=0;OQ=1279.49;QD=27.81;SB=-597.57 GT:AD:DP:GL:GQ 1/1:0,46:41:-131.57,-12.37,-0.04:99
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chr1 1533487 rs61774903 T C 6.43 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=2;HaplotypeScore=0.48;MQ=59.07;MQ0=0;OQ=267.71;QD=10.71;SB=-22.90 GT:AD:DP:GL:GQ 0/1:12,13:23:-36.99,-6.93,-45.73:99
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chr1 1533846 . C A 150.54 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=607.30;QD=13.20;SB=-294.38 GT:AD:DP:GL:GQ 0/1:23,23:45:-77.57,-13.56,-81.22:99
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chr1 1534313 . G A 286.31 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.20;MQ0=0;OQ=679.07;QD=15.09;SB=-355.53 GT:AD:DP:GL:GQ 0/1:22,23:43:-84.16,-12.97,-66.20:99
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chr1 1535152 rs6671612 G T 108.66 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=2.91;MQ=57.71;MQ0=0;OQ=838.64;QD=11.98;SB=-304.64 GT:AD:DP:GL:GQ 0/1:41,29:64:-106.43,-19.29,-110.69:99
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chr1 1536167 rs11492279 C T 248.42 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.77;MQ=60.00;MQ0=0;OQ=1040.79;QD=15.31;SB=-440.43 GT:AD:DP:GL:GQ 0/1:36,32:64:-126.65,-19.29,-102.67:99
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chr1 1536812 rs4612573 T C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.03;HRun=1;HaplotypeScore=39.15;MQ=49.08;MQ0=0;OQ=1478.03;QD=23.09;SB=-556.56 GT:AD:DP:GL:GQ 1/1:5,57:50:-162.89,-15.07,-11.50:35.64
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chr1 1537429 rs4369171 A G 1.14 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=7.54;MQ=57.32;MQ0=0;OQ=2121.87;QD=33.68;SB=-744.31 GT:AD:DP:GL:GQ 1/1:0,62:59:-215.79,-17.77,-0.02:99
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chr1 1537803 . G T 52.70 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=13;HaplotypeScore=28.28;MQ=58.09;MQ0=1;QD=0.71;SB=63.90 GT:AD:DP:GL:GQ 0/1:60,13:55:-25.14,-16.58,-155.96:85.54
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chr1 1537805 . T C 135.64 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=41.12;MQ=58.24;MQ0=1;QD=2.02;SB=15.89 GT:AD:DP:GL:GQ 0/1:57,10:56:-33.73,-16.88,-176.73:99
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chr1 1538333 . A G 136.38 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=58.86;MQ0=0;OQ=748.93;QD=13.87;SB=-356.58 GT:AD:DP:GL:GQ 0/1:27,27:53:-94.15,-15.98,-99.69:99
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chr1 1538565 rs9442431 T C 829.64 Indel AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=2;HaplotypeScore=7.58;MQ=50.06;MQ0=1;QD=21.83;SB=-151.73 GT:AD:DP:GL:GQ 1/1:0,37:28:-86.58,-8.45,-0.03:84.18
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chr1 1538664 rs9442430 T C 1.04 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.01;HRun=1;HaplotypeScore=8.39;MQ=59.12;MQ0=0;OQ=2182.53;QD=31.63;SB=-555.08 GT:AD:DP:GL:GQ 1/1:0,68:67:-221.88,-20.20,-0.05:99
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chr1 1539012 rs34501155 C T 24.47 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=2;HaplotypeScore=0.10;MQ=59.44;MQ0=0;OQ=1523.49;QD=20.31;SB=-698.38 GT:AD:DP:GL:GQ 0/1:29,46:74:-177.93,-22.30,-104.96:99
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chr1 1539217 rs12066 G A 112.48 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2269.66;QD=38.47;SB=-1077.37 GT:AD:DP:GL:GQ 1/1:0,59:57:-230.57,-17.17,-0.02:99
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chr1 1539583 . C T 13.58 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=2;HaplotypeScore=2.17;MQ=59.69;MQ0=0;OQ=849.58;QD=14.16;SB=-408.41 GT:AD:DP:GL:GQ 0/1:34,26:60:-106.31,-18.07,-125.62:99
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chr1 1540565 rs4648611 A G 1.07 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=2;HaplotypeScore=4.13;MQ=58.95;MQ0=0;OQ=632.46;QD=28.75;SB=-329.75 GT:AD:DP:GL:GQ 1/1:0,22:20:-66.85,-6.03,-0.02:60.13
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chr1 1541790 rs7418389 T C 9.16 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=60.00;MQ0=0;OQ=644.37;QD=28.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,23:21:-68.04,-6.33,-0.01:63.14
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chr1 1542618 rs6604985 T C 187.42 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.49;MQ0=0;OQ=2789.66;QD=34.02;SB=-860.05 GT:AD:DP:GL:GQ 1/1:0,82:81:-282.58,-24.40,-0.03:99
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chr1 1543361 rs28546565 G A 262.71 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.46;MQ0=0;OQ=627.76;QD=14.60;SB=-285.20 GT:AD:DP:GL:GQ 0/1:20,23:40:-78.11,-12.05,-70.94:99
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chr1 1543456 rs28623434 C G 8.50 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=2.93;MQ=59.20;MQ0=0;OQ=2332.23;QD=40.21;SB=-1030.14 GT:AD:DP:GL:GQ 1/1:0,58:55:-236.83,-16.57,-0.02:99
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chr1 1543533 rs9442410 G C 82.06 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=2713.47;QD=43.07;SB=-1108.14 GT:AD:DP:GL:GQ 1/1:0,63:62:-274.95,-18.68,-0.02:99
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chr1 1544225 rs9442425 G A 33.58 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=2.11;MQ=59.22;MQ0=0;OQ=1855.01;QD=38.65;SB=-869.17 GT:AD:DP:GL:GQ 1/1:0,48:47:-189.10,-14.16,-0.01:99
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chr1 1545229 rs9329576 T C 4.58 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=2.58;MQ=60.00;MQ0=0;OQ=1266.55;QD=28.15;SB=-625.18 GT:AD:DP:GL:GQ 1/1:0,45:39:-130.27,-11.76,-0.03:99
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chr1 1545852 rs7543265 G A 8.95 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=6.32;MQ=58.20;MQ0=0;OQ=611.29;QD=15.67;SB=-238.27 GT:AD:DP:GL:GQ 0/1:17,20:35:-74.97,-10.56,-46.23:99
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chr1 1546595 rs34983251 G A 45.65 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=2.69;MQ=59.23;MQ0=0;OQ=349.98;QD=11.67;SB=-133.57 GT:AD:DP:GL:GQ 0/1:16,14:26:-46.12,-7.83,-51.50:99
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chr1 1547538 rs28710339 G C 59.83 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=3.45;MQ=58.50;MQ0=0;OQ=866.08;QD=15.47;SB=-347.43 GT:AD:DP:GL:GQ 0/1:31,25:53:-105.89,-16.00,-107.63:99
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chr1 1547753 . C T 52.88 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=58.60;MQ0=0;OQ=1139.64;QD=19.99;SB=-512.06 GT:AD:DP:GL:GQ 0/1:22,35:54:-133.53,-16.28,-63.46:99
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chr1 1548655 rs12755088 T C 97.70 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=439.27;QD=24.40;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,18:16:-47.54,-4.84,-0.03:48.08
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chr1 1548983 . C G 40.73 LowQual AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=5;HaplotypeScore=1.58;MQ=47.12;MQ0=0;QD=6.79;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,5:2:-7.48,-0.61,-0.00:6.02
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chr1 1549329 rs28617190 G A 97.62 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=1.74;MQ=57.37;MQ0=0;OQ=547.08;QD=16.09;SB=-253.53 GT:AD:DP:GL:GQ 0/1:16,18:32:-67.63,-9.64,-54.05:99
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chr1 1549834 rs12748433 C T 442.94 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.23;MQ0=0;OQ=1400.65;QD=37.86;SB=-569.32 GT:AD:DP:GL:GQ 1/1:0,37:36:-143.66,-10.85,-0.01:99
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chr1 1549963 rs28441650 G A 319.81 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.05;MQ0=0;OQ=739.99;QD=15.10;SB=-342.91 GT:AD:DP:GL:GQ 0/1:25,24:48:-91.75,-14.47,-81.34:99
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chr1 1551048 . G A 13.72 PASS AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=55.20;MQ0=0;OQ=331.40;QD=13.81;SB=-96.94 GT:AD:DP:GL:GQ 0/1:12,12:21:-42.75,-6.33,-33.17:99
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chr1 1551194 . G A 9.75 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=59.45;MQ0=0;OQ=497.08;QD=14.62;SB=-108.95 GT:AD:DP:GL:GQ 0/1:18,16:33:-62.94,-9.95,-55.65:99
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chr1 1552758 rs12735861 C T 11.10 PASS AC=1;AF=0.50;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=56.58;MQ0=0;OQ=143.44;QD=15.94;SB=-6.99 GT:AD:DP:GL:GQ 0/1:3,6:8:-20.04,-2.41,-9.16:67.50
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chr1 1553652 . C A 57.28 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.41;MQ=59.52;MQ0=0;OQ=736.76;QD=15.35;SB=-347.43 GT:AD:DP:GL:GQ 0/1:23,25:44:-90.22,-13.26,-60.84:99
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chr1 1554057 rs3935032 C T 0.35 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=1.82;MQ=59.31;MQ0=0;OQ=580.92;QD=21.52;SB=-104.60 GT:AD:DP:GL:GQ 0/1:9,18:26:-69.21,-7.83,-32.29:99
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chr1 1555931 rs28730454 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=7;HaplotypeScore=0.32;MQ=55.21;MQ0=0;OQ=59.16;QD=11.83;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:3:-9.41,-0.90,-0.00:9.02
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chr1 1556023 rs28464684 T C 13.91 PASS AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=73.72;QD=24.57;SB=-40.68 GT:AD:DP:GL:GQ 1/1:0,3:3:-10.86,-0.90,-0.00:9.03
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chr1 1556952 rs28451771 T C 12.66 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.78;MQ0=0;OQ=601.05;QD=31.63;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,19:19:-63.70,-5.72,-0.01:57.14
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chr1 1561503 rs61774909 G T 0.68 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.92;MQ=9.65;MQ0=29;OQ=78.96;QD=2.47;SB=-10.00 GT:AD:DP:GL:GQ 1/1:16,16:3:-11.38,-0.90,-0.00:9.03
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chr1 1563882 rs61774911 A G 1.20 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=2.88;MQ=39.06;MQ0=5;OQ=124.38;QD=2.76;SB=-85.66 GT:AD:DP:GL:GQ 0/1:34,10:35:-26.27,-10.55,-104.24:99
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chr1 1563939 rs9442413 G A 8.49 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=40.26;MQ0=2;OQ=315.22;QD=4.50;SB=-153.56 GT:AD:DP:GL:GQ 0/1:51,19:59:-52.60,-17.79,-143.72:99
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chr1 1564183 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=20;HaplotypeScore=14.98;MQ=46.49;MQ0=5;OQ=64.66;QD=1.80;SB=35.13 GT:AD:DP:GL:GQ 0/1:31,5:28:-18.18,-8.44,-79.86:97.49
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chr1 1564572 rs28401288 T G 29.42 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=41.92;MQ0=1;OQ=1158.48;QD=27.58;SB=-476.97 GT:AD:DP:GL:GQ 1/1:0,42:35:-119.45,-10.55,-0.02:99
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chr1 1565479 rs28394074 T C 98.76 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=12.86;MQ0=16;OQ=207.25;QD=7.68;SB=-36.94 GT:AD:DP:GL:GQ 1/1:0,27:7:-24.31,-2.11,-0.00:21.06
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chr1 1565699 . C G 5.41 PASS AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=1;HaplotypeScore=2.34;MQ=26.47;MQ0=10;OQ=657.44;QD=8.65;SB=-346.42 GT:AD:DP:GL:GQ 0/1:55,21:62:-87.73,-18.71,-164.80:99
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chr1 1566499 rs3765908 G A 18.31 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.75;MQ=37.81;MQ0=3;OQ=1730.84;QD=29.34;SB=-752.15 GT:AD:DP:GL:GQ 1/1:8,51:54:-192.27,-16.27,-15.84:4.30
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chr1 1566866 rs3819995 C T 33.13 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.57;MQ=17.30;MQ0=34;OQ=418.63;QD=7.34;SB=-10.00 GT:AD:DP:GL:GQ 0/1:21,36:18:-50.57,-5.43,-18.99:99
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chr1 1567043 rs1137001 C T 0.22 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=9.65;MQ0=38;OQ=66.77;QD=1.34;SB=-10.00 GT:AD:DP:GL:GQ 0/1:35,15:6:-11.77,-1.81,-10.91:90.99
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chr1 1569585 rs61774912 C T 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=1;HaplotypeScore=8.98;MQ=13.84;MQ0=43;OQ=132.92;QD=1.51;SB=-3.99 GT:AD:DP:GL:GQ 0/1:64,24:26:-24.41,-7.83,-74.67:99
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chr1 1569917 rs6688326 C A 0.25 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=2.45;MQ=26.34;MQ0=26;OQ=227.69;QD=3.04;SB=-87.75 GT:AD:DP:GL:GQ 0/1:58,17:44:-39.31,-13.26,-117.30:99
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chr1 1570601 rs4648767 T A 243.47 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=24.85;MQ0=18;OQ=1006.84;QD=11.57;SB=-380.53 GT:AD:DP:GL:GQ 0/1:42,45:58:-121.45,-17.48,-87.58:99
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chr1 1570928 . G C 0.90 PASS AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=0;HaplotypeScore=3.62;MQ=32.27;MQ0=14;OQ=845.01;QD=5.52;SB=-333.79 GT:AD:DP:GL:GQ 0/1:113,40:123:-124.85,-37.07,-408.45:99
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chr1 1570959 . C T 0.27 PASS AC=1;AF=0.50;AN=2;DP=165;Dels=0.00;HRun=2;HaplotypeScore=4.89;MQ=34.90;MQ0=12;OQ=2272.40;QD=13.77;SB=-727.55 GT:AD:DP:GL:GQ 0/1:85,80:144:-273.90,-43.38,-268.43:99
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chr1 1571421 rs61774913 C T 442.63 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.06;MQ0=31;OQ=744.27;QD=14.31;SB=-218.78 GT:AD:DP:GL:GQ 1/1:0,52:19:-78.02,-5.72,-0.00:57.19
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chr1 1571449 rs61774914 T C 385.68 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=19.48;MQ0=37;OQ=993.50;QD=14.19;SB=-324.14 GT:AD:DP:GL:GQ 1/1:0,70:28:-102.94,-8.43,-0.01:84.26
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chr1 1571467 . G A 0.11 PASS AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=5.46;MQ=31.83;MQ0=25;OQ=330.51;QD=3.76;SB=-146.19 GT:AD:DP:GL:GQ 0/1:69,19:55:-52.91,-16.58,-135.58:99
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chr1 1571576 . A C 50.03 PASS AC=2;AF=1.00;AN=2;DP=93;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=35.58;MQ0=13;OQ=1974.59;QD=21.23;SB=-847.56 GT:AD:DP:GL:GQ 1/1:0,61:79:-282.59,-90.56,-81.54:90.13
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chr1 1571744 rs61774916 T C 0.32 PASS AC=1;AF=0.50;AN=2;DB;DP=124;Dels=0.00;HRun=0;HaplotypeScore=9.99;MQ=43.65;MQ0=18;OQ=618.53;QD=4.99;SB=-195.46 GT:AD:DP:GL:GQ 0/1:91,33:103:-96.17,-31.03,-294.76:99
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chr1 1571789 rs61774917 G T 99.17 PASS AC=1;AF=0.50;AN=2;DB;DP=114;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=40.38;MQ0=17;OQ=858.73;QD=7.53;SB=-166.41 GT:AD:DP:GL:GQ 0/1:66,48:94:-117.47,-28.31,-223.12:99
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chr1 1571821 rs4279785 T C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=125;Dels=0.00;HRun=1;HaplotypeScore=1.20;MQ=33.09;MQ0=22;OQ=74.70;QD=0.60;SB=13.40 GT:AD:DP:GL:GQ 0/1:103,22:85:-36.35,-25.60,-306.33:99
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chr1 1571969 rs4648753 T C 252.37 PASS AC=2;AF=1.00;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.21;MQ0=23;OQ=2308.47;QD=23.08;SB=-928.73 GT:AD:DP:GL:GQ 1/1:1,99:73:-234.50,-22.02,-0.07:99
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chr1 1572065 rs61774918 C T 271.62 PASS AC=1;AF=0.50;AN=2;DB;DP=124;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=40.98;MQ0=5;OQ=1993.46;QD=16.08;SB=-715.20 GT:AD:DP:GL:GQ 0/1:57,67:116:-237.58,-34.95,-201.11:99
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chr1 1572318 rs61774919 G A 28.59 PASS AC=1;AF=0.50;AN=2;DB;DP=173;Dels=0.00;HRun=0;HaplotypeScore=4.27;MQ=26.57;MQ0=15;OQ=1639.76;QD=9.48;SB=-550.56 GT:AD:DP:GL:GQ 0/1:104,69:121:-203.75,-36.49,-222.67:99
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chr1 1572479 . T C 0.14 PASS AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=45.14;MQ0=0;OQ=1750.04;QD=12.24;SB=-888.87 GT:AD:DP:GL:GQ 0/1:83,60:141:-220.76,-42.47,-332.08:99
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chr1 1572504 . T C 0.71 PASS AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=1.61;MQ=42.33;MQ0=3;OQ=1049.29;QD=7.72;SB=-546.16 GT:AD:DP:GL:GQ 0/1:84,52:129:-147.09,-38.88,-337.66:99
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chr1 1572657 rs4648754 C A 97.80 PASS AC=2;AF=1.00;AN=2;DB;DP=118;Dels=0.00;HRun=0;HaplotypeScore=3.13;MQ=39.40;MQ0=0;OQ=4131.60;QD=35.01;SB=-1448.13 GT:AD:DP:GL:GQ 1/1:1,117:114:-412.16,-34.34,-0.04:99
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chr1 1572704 rs61774920 A G 0.40 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=29.04;MQ0=13;OQ=131.71;QD=1.78;SB=23.25 GT:AD:DP:GL:GQ 0/1:54,20:56:-33.33,-16.87,-184.69:99
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chr1 1572707 rs61774921 G T 0.96 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=28.52;MQ0=13;OQ=177.56;QD=2.50;SB=-37.61 GT:AD:DP:GL:GQ 0/1:52,19:55:-37.61,-16.57,-159.55:99
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chr1 1572743 rs3820000 G C 38.18 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=26.84;MQ0=19;OQ=650.68;QD=7.75;SB=38.16 GT:AD:DP:GL:GQ 0/1:50,34:58:-85.85,-17.49,-156.24:99
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chr1 1572824 rs3820001 G C 184.22 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=3.61;MQ=41.82;MQ0=4;OQ=1359.68;QD=17.43;SB=-597.25 GT:AD:DP:GL:GQ 0/1:31,47:67:-159.47,-20.22,-110.10:99
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chr1 1572866 rs61776849 C T 39.28 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=1;HaplotypeScore=4.48;MQ=49.73;MQ0=0;OQ=1155.72;QD=12.70;SB=-351.36 GT:AD:DP:GL:GQ 0/1:50,41:84:-144.17,-25.32,-161.47:99
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chr1 1572951 . A G 0.08 PASS AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=47.33;MQ0=7;OQ=238.29;QD=2.91;SB=26.27 GT:AD:DP:GL:GQ 0/1:60,22:73:-49.11,-21.99,-235.06:99
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chr1 1573358 rs61774952 T C 32.21 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=47.33;MQ0=8;QD=0.37;SB=67.42 GT:AD:DP:GL:GQ 0/1:70,16:71:-27.89,-21.39,-252.84:65.04
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chr1 1573532 . C T 35.47 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=10.41;MQ0=15;QD=1.97;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,3:3:-7.73,-0.90,-3.80:28.93
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chr1 1573550 . T C 24.36 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.09;MQ=33.97;MQ0=17;QD=0.72;SB=-17.89 GT:AD:DP:GL:GQ 0/1:23,11:14:-9.94,-4.22,-42.08:57.18
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chr1 1573618 . C T 2.54 PASS AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=0;HaplotypeScore=5.35;MQ=45.15;MQ0=15;OQ=814.16;QD=7.75;SB=-232.64 GT:AD:DP:GL:GQ 0/1:66,38:82:-109.43,-24.73,-173.93:99
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chr1 1573625 . G A 3.56 PASS AC=1;AF=0.50;AN=2;DP=106;Dels=0.00;HRun=0;HaplotypeScore=3.46;MQ=45.17;MQ0=14;OQ=654.74;QD=6.18;SB=-207.09 GT:AD:DP:GL:GQ 0/1:70,36:84:-94.09,-25.34,-189.03:99
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chr1 1573865 rs6691927 A G 0.48 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=13.93;MQ=47.63;MQ0=8;OQ=1026.45;QD=17.40;SB=-411.69 GT:AD:DP:GL:GQ 0/1:13,46:46:-119.80,-13.87,-37.07:99
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chr1 1573965 rs28525262 G A 126.85 PASS AC=2;AF=1.00;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=48.13;MQ0=7;OQ=3091.70;QD=33.97;SB=-1505.87 GT:AD:DP:GL:GQ 1/1:7,83:80:-316.25,-24.10,-3.49:99
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chr1 1573980 rs4648756 G C 18.18 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=4.39;MQ=47.15;MQ0=6;OQ=3392.36;QD=38.99;SB=-1642.01 GT:AD:DP:GL:GQ 1/1:0,87:79:-338.24,-23.81,-0.03:99
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chr1 1574055 rs4648606 G A 59.73 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=37.73;MQ0=7;OQ=2424.32;QD=33.21;SB=-1231.00 GT:AD:DP:GL:GQ 1/1:0,72:61:-246.03,-18.38,-0.02:99
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chr1 1574081 rs4648607 T C 84.11 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=40.76;MQ0=4;OQ=2240.23;QD=31.55;SB=-1072.45 GT:AD:DP:GL:GQ 1/1:0,71:63:-227.63,-18.98,-0.02:99
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chr1 1574087 rs4648757 G C 98.21 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=43.14;MQ0=1;OQ=2791.35;QD=39.31;SB=-1268.99 GT:AD:DP:GL:GQ 1/1:0,71:65:-282.74,-19.59,-0.02:99
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chr1 1574123 . A C 149.77 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=169.77;MQ=39.72;MQ0=1;QD=1.63;SB=83.29 GT:AD:DP:GL:GQ 0/1:79,13:73:-40.25,-21.99,-225.95:99
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chr1 1574124 . A G 50.98 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=0;HaplotypeScore=170.51;MQ=39.99;MQ0=1;QD=0.55;SB=86.31 GT:AD:DP:GL:GQ 0/1:80,13:72:-30.08,-21.70,-250.90:83.81
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chr1 1574131 . A G 472.59 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=2;HaplotypeScore=66.93;MQ=41.08;MQ0=1;QD=5.25;SB=86.31 GT:AD:DP:GL:GQ 0/1:61,29:78:-74.04,-23.50,-234.93:99
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chr1 1574135 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=78.57;MQ=41.20;MQ0=1;OQ=155.65;QD=1.75;SB=86.32 GT:AD:DP:GL:GQ 0/1:76,13:71:-40.23,-21.39,-240.65:99
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chr1 1574143 . A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.67;MQ=43.74;MQ0=1;OQ=78.06;QD=1.07;SB=89.31 GT:AD:DP:GL:GQ 0/1:60,13:65:-30.68,-19.59,-219.52:99
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chr1 1574152 . C T 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=43.30;MQ0=0;OQ=130.78;QD=1.92;SB=41.52 GT:AD:DP:GL:GQ 0/1:58,10:59:-34.15,-17.79,-160.93:99
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chr1 1574339 . T A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=12.88;MQ=42.39;MQ0=0;OQ=429.14;QD=5.50;SB=104.35 GT:AD:DP:GL:GQ 0/1:59,19:76:-69.09,-22.90,-217.44:99
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chr1 1574367 rs12749208 C T 7.96 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.32;MQ=36.29;MQ0=0;OQ=733.94;QD=10.48;SB=80.18 GT:AD:DP:GL:GQ 0/1:43,27:66:-96.58,-19.90,-132.61:99
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chr1 1574398 rs12756960 A G 17.43 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.82;MQ=34.26;MQ0=0;QD=0.28;SB=39.57 GT:AD:DP:GL:GQ 0/1:29,33:32:-14.67,-9.65,-103.72:50.18
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chr1 1574404 rs12756961 A T 204.46 Indel AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.82;MQ=35.46;MQ0=0;QD=3.01;SB=-19.65 GT:AD:DP:GL:GQ 0/1:32,36:41:-36.08,-12.35,-112.04:99
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chr1 1574410 rs12749336 C G 884.89 Indel AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=10.32;MQ=35.72;MQ0=0;QD=12.82;SB=-17.81 GT:AD:DP:GL:GQ 0/1:40,29:35:-102.33,-10.56,-39.37:99
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chr1 1574434 rs61774954 A C 428.65 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=8.25;MQ=34.95;MQ0=1;QD=6.30;SB=56.20 GT:AD:DP:GL:GQ 0/1:39,29:57:-63.32,-17.18,-124.62:99
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chr1 1574437 rs61774955 A C 431.78 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=7.93;MQ=34.95;MQ0=1;QD=6.35;SB=56.19 GT:AD:DP:GL:GQ 0/1:38,30:51:-61.82,-15.36,-118.50:99
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chr1 1574456 rs12749364 C A 1380.74 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=20.46;MQ=37.20;MQ0=1;QD=17.26;SB=-577.01 GT:AD:DP:GL:GQ 1/1:30,50:46:-152.08,-13.86,-10.42:34.36
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chr1 1574458 . G C 45.27 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=79;Dels=0.01;HRun=0;HaplotypeScore=10.44;MQ=37.76;MQ0=1;QD=0.57;SB=71.27 GT:AD:DP:GL:GQ 0/1:52,26:51:-22.87,-15.06,-200.14:78.10
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chr1 1574459 . G A 19.52 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=78;Dels=0.01;HRun=1;HaplotypeScore=9.38;MQ=37.85;MQ0=1;QD=0.25;SB=68.24 GT:AD:DP:GL:GQ 0/1:50,27:51:-20.29,-15.06,-165.60:52.31
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chr1 1574490 . C T 446.32 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=13.97;MQ=40.46;MQ0=1;QD=6.11;SB=62.20 GT:AD:DP:GL:GQ 0/1:48,25:59:-65.69,-17.77,-151.07:99
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chr1 1574491 . A G 363.54 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=14.98;MQ=40.79;MQ0=1;QD=4.91;SB=65.24 GT:AD:DP:GL:GQ 0/1:48,26:58:-57.11,-17.48,-164.32:99
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chr1 1574495 . G A 435.54 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=16.96;MQ=40.97;MQ0=1;QD=5.73;SB=65.16 GT:AD:DP:GL:GQ 0/1:50,26:61:-65.23,-18.39,-146.68:99
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chr1 1574611 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=41.66;MQ0=2;OQ=80.08;QD=1.13;SB=68.24 GT:AD:DP:GL:GQ 0/1:54,17:60:-29.38,-18.09,-195.87:99
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chr1 1574622 . G A 0.30 PASS AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=40.91;MQ0=2;OQ=251.34;QD=3.44;SB=59.11 GT:AD:DP:GL:GQ 0/1:55,18:61:-46.81,-18.39,-160.50:99
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chr1 1574627 . C T 0.19 PASS AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.69;MQ=42.21;MQ0=2;OQ=221.98;QD=2.88;SB=74.24 GT:AD:DP:GL:GQ 0/1:61,16:67:-45.68,-20.20,-184.31:99
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chr1 1574705 rs12753686 C T 533.95 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=47.26;MQ0=1;OQ=2577.15;QD=38.46;SB=-1301.71 GT:AD:DP:GL:GQ 1/1:1,66:64:-261.31,-19.28,-0.01:99
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chr1 1574781 rs12753729 C T 0.96 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=7.51;MQ=55.74;MQ0=0;OQ=2039.46;QD=37.77;SB=-910.24 GT:AD:DP:GL:GQ 1/1:1,53:52:-207.55,-15.67,-0.02:99
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chr1 1575120 rs4648758 A G 435.58 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.79;MQ0=0;OQ=1070.30;QD=28.93;SB=-511.19 GT:AD:DP:GL:GQ 1/1:0,37:35:-110.65,-10.56,-0.04:99
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chr1 1575210 rs4648760 T C 43.48 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=63.90;MQ0=0;OQ=1693.31;QD=34.56;SB=-784.12 GT:AD:DP:GL:GQ 1/1:0,49:49:-172.94,-14.76,-0.02:99
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chr1 1575251 rs4648761 A G 5.46 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=60.80;MQ0=0;OQ=1436.67;QD=28.17;SB=-671.85 GT:AD:DP:GL:GQ 1/1:0,51:45:-147.29,-13.57,-0.04:99
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chr1 1575460 rs7531938 A G 536.50 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.20;MQ0=0;OQ=2059.81;QD=30.29;SB=-875.65 GT:AD:DP:GL:GQ 1/1:0,68:66:-209.63,-19.91,-0.06:99
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chr1 1575505 rs3936009 G T 209.53 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=57.75;MQ0=0;OQ=2310.00;QD=35.54;SB=-1127.37 GT:AD:DP:GL:GQ 1/1:0,65:65:-234.60,-19.58,-0.02:99
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chr1 1576615 rs11486023 T C 106.32 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=57.19;MQ0=0;OQ=1526.39;QD=31.15;SB=-484.14 GT:AD:DP:GL:GQ 1/1:0,49:47:-156.26,-14.17,-0.04:99
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chr1 1577178 rs4648762 A G 161.07 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=54.74;MQ0=0;OQ=2251.82;QD=30.85;SB=-761.70 GT:AD:DP:GL:GQ 1/1:0,72:69:-228.82,-20.80,-0.05:99
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chr1 1578533 rs61774958 G A 209.68 PASS AC=1;AF=0.50;AN=2;DB;DP=136;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.20;MQ0=11;OQ=1051.54;QD=7.73;SB=-56.39 GT:AD:DP:GL:GQ 0/1:86,50:122:-145.19,-36.75,-299.83:99
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chr1 1578580 rs61774959 G A 15.52 PASS AC=1;AF=0.50;AN=2;DB;DP=103;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=42.73;MQ0=4;OQ=297.29;QD=2.89;SB=-52.85 GT:AD:DP:GL:GQ 0/1:73,30:83:-58.01,-25.00,-251.41:99
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chr1 1578600 rs61776760 C T 0.35 PASS AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=43.98;MQ0=2;OQ=158.49;QD=1.69;SB=-47.28 GT:AD:DP:GL:GQ 0/1:69,25:74:-41.42,-22.29,-233.46:99
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chr1 1579194 rs28530622 C G 155.54 PASS AC=2;AF=1.00;AN=2;DB;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.72;MQ0=1;OQ=430.39;QD=33.11;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,13:10:-46.62,-3.01,-0.00:30.10
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chr1 1579428 rs61776762 A G 153.73 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=25.52;MQ0=1;OQ=97.37;QD=13.91;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:4:-13.27,-1.21,-0.00:12.02
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chr1 1580015 rs11486024 G A 46.74 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=22.93;MQ0=7;OQ=160.84;QD=5.96;SB=11.04 GT:AD:DP:GL:GQ 0/1:15,12:15:-23.90,-4.53,-24.75:99
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chr1 1580190 rs7547516 A G 298.92 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=32.87;MQ0=6;OQ=291.00;QD=13.23;SB=-79.37 GT:AD:DP:GL:GQ 1/1:0,22:11:-32.70,-3.32,-0.02:33.05
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chr1 1580389 rs9329573 G C 27.04 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.40;MQ=38.23;MQ0=0;OQ=1419.74;QD=36.40;SB=-378.04 GT:AD:DP:GL:GQ 1/1:0,39:37:-145.59,-11.17,-0.03:99
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chr1 1580438 rs9661285 G A 38.22 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=39.42;MQ0=4;OQ=1274.78;QD=31.87;SB=-484.63 GT:AD:DP:GL:GQ 1/1:2,38:33:-131.07,-9.94,-0.01:99
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chr1 1580544 rs9661500 G A 46.95 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=56.47;MQ0=0;OQ=1331.19;QD=35.03;SB=-445.09 GT:AD:DP:GL:GQ 1/1:0,38:35:-136.72,-10.55,-0.02:99
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chr1 1581642 . C T 0.06 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.20;MQ=10.78;MQ0=31;OQ=96.64;QD=2.06;SB=-42.54 GT:AD:DP:GL:GQ 0/1:28,19:6:-14.76,-1.81,-6.20:43.86
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chr1 1581652 rs61776763 A G 3.75 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=2.07;MQ=12.19;MQ0=23;OQ=234.90;QD=5.87;SB=-48.96 GT:AD:DP:GL:GQ 1/1:0,40:8:-27.08,-2.41,-0.00:24.06
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chr1 1581732 . C T 10.55 PASS AC=2;AF=1.00;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=19.72;MQ0=12;OQ=388.23;QD=16.18;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,24:11:-42.41,-3.31,-0.00:33.10
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chr1 1581758 rs61776764 C G 0.40 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=4.17;MQ=24.63;MQ0=12;OQ=1218.98;QD=26.50;SB=-184.87 GT:AD:DP:GL:GQ 1/1:2,44:29:-125.50,-8.74,-0.02:87.29
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chr1 1582007 rs28625763 T C 180.58 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.96;MQ0=0;OQ=1011.19;QD=29.74;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,34:31:-104.72,-9.34,-0.02:93.23
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chr1 1582130 rs4648770 T G 609.06 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=44.32;MQ0=0;OQ=2027.74;QD=33.24;SB=-1018.12 GT:AD:DP:GL:GQ 1/1:1,60:58:-206.38,-17.47,-0.02:99
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chr1 1582744 rs4648774 A C 3.99 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=4.26;MQ=37.79;MQ0=0;OQ=1971.73;QD=29.87;SB=-941.08 GT:AD:DP:GL:GQ 1/1:1,65:56:-200.78,-16.87,-0.02:99
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chr1 1582886 rs1062088 G C 0.12 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=28.33;MQ0=1;OQ=872.58;QD=39.66;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,22:20:-90.85,-6.03,-0.01:60.20
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chr1 1584178 rs1061892 C T 196.43 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=53.48;MQ0=0;OQ=3220.76;QD=38.34;SB=-1363.82 GT:AD:DP:GL:GQ 1/1:0,84:80:-325.67,-24.10,-0.02:99
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chr1 1584256 rs6659270 T A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=6;HaplotypeScore=1.24;MQ=50.39;MQ0=3;OQ=904.07;QD=12.05;SB=-396.42 GT:AD:DP:GL:GQ 0/1:40,35:71:-115.08,-21.39,-150.96:99
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chr1 1584361 rs7416520 C T 137.41 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=54.09;MQ0=1;OQ=651.60;QD=13.86;SB=-179.69 GT:AD:DP:GL:GQ 0/1:25,22:41:-80.80,-12.36,-66.61:99
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chr1 1585061 rs4307513 A G 66.26 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=51.44;MQ0=9;OQ=1311.89;QD=23.85;SB=-662.93 GT:AD:DP:GL:GQ 1/1:0,55:42:-134.81,-12.67,-0.04:99
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chr1 1585263 rs4313339 A G 2.76 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=25.65;MQ0=5;OQ=594.23;QD=25.84;SB=-123.88 GT:AD:DP:GL:GQ 1/1:0,23:18:-63.01,-5.42,-0.01:54.15
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chr1 1585730 rs4443835 C A 38.28 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=31.44;MQ0=8;OQ=878.16;QD=23.73;SB=-366.86 GT:AD:DP:GL:GQ 1/1:0,37:25:-91.41,-7.53,-0.01:75.22
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chr1 1586059 rs1109644 C T 45.13 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.16;MQ=26.30;MQ0=10;OQ=1336.40;QD=26.73;SB=-334.34 GT:AD:DP:GL:GQ 1/1:3,47:35:-137.24,-10.55,-0.01:99
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chr1 1586167 rs1109645 G A 15.01 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=25.64;MQ0=10;OQ=920.81;QD=25.58;SB=-127.66 GT:AD:DP:GL:GQ 1/1:5,31:24:-95.67,-7.23,-0.01:72.23
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chr1 1586837 rs4074020 C T 96.36 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=59.56;MQ0=0;OQ=1972.50;QD=37.93;SB=-886.69 GT:AD:DP:GL:GQ 1/1:0,52:51:-200.86,-15.37,-0.02:99
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chr1 1588296 . A C 37.76 DPFilter;Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=3.93;MQ=44.22;MQ0=1;QD=2.36;SB=20.08 GT:AD:DP:GL:GQ 0/1:12,4:13:-10.98,-3.92,-35.85:70.59
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chr1 1588297 . C T 55.71 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=2;HaplotypeScore=3.93;MQ=44.22;MQ0=1;QD=3.48;SB=17.08 GT:AD:DP:GL:GQ 0/1:12,4:12:-12.47,-3.61,-34.17:88.55
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chr1 1588300 . G T 70.59 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=2;HaplotypeScore=3.93;MQ=44.22;MQ0=1;QD=4.41;SB=-0.98 GT:AD:DP:GL:GQ 0/1:12,4:13:-14.26,-3.92,-32.75:99
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chr1 1588313 . A G 0.48 PASS AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=34.54;MQ0=0;OQ=106.39;QD=17.73;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:4:-14.17,-1.20,-0.00:12.04
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chr1 1588430 . A C 41.05 HARD_TO_VALIDATE;LowQual;SnpCluster AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;HRun=1;HaplotypeScore=7.96;MQ=16.51;MQ0=4;QD=5.86;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,5:2:-7.51,-0.60,-0.00:6.02
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chr1 1588435 . G A 88.13 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=3.96;MQ=17.24;MQ0=5;QD=8.81;SB=-10.00 GT:AD:DP:GL:GQ 1/1:5,5:3:-12.30,-0.90,-0.00:9.03
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chr1 1588436 . C T 85.79 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=17.47;MQ0=5;QD=9.53;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,5:3:-12.07,-0.90,-0.00:9.03
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chr1 1588443 . T A 229.32 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=32.72;MQ0=5;QD=15.29;SB=-115.17 GT:AD:DP:GL:GQ 1/1:5,10:7:-26.51,-2.11,-0.00:21.07
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chr1 1589024 rs6604981 A G 620.61 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.22;MQ0=0;OQ=1995.26;QD=35.00;SB=-949.98 GT:AD:DP:GL:GQ 1/1:0,57:56:-203.13,-16.87,-0.02:99
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chr1 1589224 rs6662227 A G 24.79 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=48.28;MQ0=4;OQ=837.14;QD=23.92;SB=-301.43 GT:AD:DP:GL:GQ 1/1:0,35:27:-87.33,-8.14,-0.03:81.18
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chr1 1589250 . A G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=2;HaplotypeScore=3.35;MQ=44.60;MQ0=6;OQ=197.93;QD=4.95;SB=-12.85 GT:AD:DP:GL:GQ 0/1:24,16:34:-33.32,-10.25,-92.46:99
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chr1 1589410 rs12725286 C T 1.49 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=10.99;MQ=39.64;MQ0=8;OQ=1191.02;QD=13.38;SB=-569.58 GT:AD:DP:GL:GQ 0/1:50,39:71:-143.77,-21.38,-134.51:99
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chr1 1589675 rs12729295 C T 309.36 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.48;MQ0=3;OQ=671.60;QD=8.72;SB=-350.30 GT:AD:DP:GL:GQ 0/1:53,24:68:-90.94,-20.50,-145.90:99
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chr1 1589751 rs2072923 A G 247.26 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=29.67;MQ0=6;OQ=1186.35;QD=17.98;SB=-547.83 GT:AD:DP:GL:GQ 0/1:14,52:56:-138.81,-16.89,-48.69:99
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chr1 1589844 . C T 0.07 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=10.53;MQ=52.48;MQ0=3;OQ=898.69;QD=17.28;SB=-297.81 GT:AD:DP:GL:GQ 0/1:24,28:47:-107.32,-14.16,-70.31:99
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chr1 1589914 . C G 0.11 PASS AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=2;HaplotypeScore=0.33;MQ=46.80;MQ0=0;OQ=573.53;QD=6.52;SB=39.39 GT:AD:DP:GL:GQ 0/1:67,21:88:-87.20,-26.56,-264.39:99
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chr1 1589924 . G A 1.33 PASS AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=1;HaplotypeScore=0.49;MQ=46.92;MQ0=0;OQ=633.71;QD=6.67;SB=49.65 GT:AD:DP:GL:GQ 0/1:70,25:92:-94.37,-27.71,-247.48:99
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chr1 1590019 . C G 30.30 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=49.37;MQ0=3;OQ=641.05;QD=9.29;SB=-314.06 GT:AD:DP:GL:GQ 0/1:47,21:64:-90.20,-22.81,-187.56:99
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chr1 1590023 . C T 0.46 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=8.72;MQ=48.76;MQ0=3;OQ=551.31;QD=8.89;SB=-275.75 GT:AD:DP:GL:GQ 0/1:40,22:54:-74.68,-16.27,-125.00:99
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chr1 1590878 . G A 29.06 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=3.16;MQ=58.63;MQ0=0;OQ=418.19;QD=12.30;SB=-160.22 GT:AD:DP:GL:GQ 0/1:18,16:32:-54.75,-9.64,-59.96:99
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chr1 1590915 . G A 47.89 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.20;MQ0=0;OQ=322.06;QD=8.26;SB=-141.18 GT:AD:DP:GL:GQ 0/1:27,12:38:-46.95,-11.46,-84.40:99
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chr1 1592399 rs4648609 G C 54.97 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=906.62;QD=20.60;SB=-310.97 GT:AD:DP:GL:GQ 0/1:19,25:42:-106.61,-12.66,-75.02:99
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chr1 1592450 rs4233029 C T 90.67 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.31;MQ=60.00;MQ0=0;OQ=849.63;QD=19.76;SB=-437.98 GT:AD:DP:GL:GQ 0/1:15,28:37:-99.40,-11.15,-39.71:99
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chr1 1592650 rs4639697 G T 61.57 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=1.87;MQ=58.92;MQ0=0;OQ=2757.17;QD=35.35;SB=-1369.99 GT:AD:DP:GL:GQ 1/1:1,77:76:-279.32,-22.89,-0.02:99
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chr1 1593099 rs11523819 G A 285.98 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.60;MQ0=0;OQ=1010.41;QD=14.43;SB=-280.29 GT:AD:DP:GL:GQ 0/1:39,31:68:-124.83,-20.51,-114.09:99
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chr1 1593297 rs6699975 G T 40.53 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=6.04;MQ=58.42;MQ0=0;OQ=872.27;QD=15.58;SB=-424.16 GT:AD:DP:GL:GQ 0/1:24,32:48:-104.97,-14.46,-59.27:99
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chr1 1594362 rs36048328 G A 212.33 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=3.65;MQ=53.76;MQ0=0;OQ=936.15;QD=14.86;SB=-437.40 GT:AD:DP:GL:GQ 0/1:33,30:61:-115.28,-18.38,-109.00:99
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chr1 1595120 rs12736155 A C 482.21 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=48.94;MQ0=1;OQ=857.21;QD=13.61;SB=-454.19 GT:AD:DP:GL:GQ 0/1:31,32:60:-107.08,-18.07,-108.87:99
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chr1 1595458 . A G 4.92 PASS AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=5.30;MQ=27.16;MQ0=16;OQ=685.03;QD=9.01;SB=-336.52 GT:AD:DP:GL:GQ 0/1:42,34:52:-87.45,-15.67,-106.28:99
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chr1 1595935 . C A 13.79 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=13;HaplotypeScore=5.11;MQ=47.25;MQ0=0;QD=0.27;SB=44.14 GT:AD:DP:GL:GQ 0/1:44,8:42:-17.30,-12.66,-119.04:46.44
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chr1 1596150 rs28678861 G C 0.01 FDRtranche2.00to10.00 AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=6;HaplotypeScore=0.16;MQ=35.71;MQ0=1;OQ=1428.28;QD=37.59;SB=-739.75 GT:AD:DP:GL:GQ 1/1:0,38:34:-146.42,-10.25,-0.01:99
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chr1 1596170 rs61776786 G A 218.03 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.46;MQ=33.82;MQ0=1;OQ=367.66;QD=11.86;SB=-172.25 GT:AD:DP:GL:GQ 0/1:17,14:26:-47.89,-7.84,-41.82:99
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chr1 1596393 . A G 1.96 PASS AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=2;HaplotypeScore=1.79;MQ=38.63;MQ0=2;OQ=223.84;QD=8.95;SB=-123.74 GT:AD:DP:GL:GQ 0/1:13,12:22:-32.30,-6.64,-46.25:99
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chr1 1596434 rs61776787 A G 239.06 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.20;MQ=27.74;MQ0=11;OQ=461.68;QD=12.82;SB=-213.08 GT:AD:DP:GL:GQ 1/1:0,36:16:-49.77,-4.83,-0.02:48.10
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chr1 1598092 rs61776790 C T 85.65 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=16.88;MQ0=18;OQ=268.46;QD=6.88;SB=-142.62 GT:AD:DP:GL:GQ 0/1:27,12:20:-36.16,-6.04,-33.65:99
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chr1 1599022 rs12724172 T G 248.35 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=48.86;MQ0=1;OQ=792.00;QD=12.00;SB=-236.82 GT:AD:DP:GL:GQ 0/1:30,36:59:-100.27,-17.78,-99.33:99
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chr1 1599028 rs12757736 A T 344.72 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=49.16;MQ0=1;OQ=842.96;QD=13.82;SB=-342.44 GT:AD:DP:GL:GQ 0/1:27,34:53:-103.55,-15.97,-87.26:99
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chr1 1600387 rs7544851 T C 182.79 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=59.17;MQ0=0;OQ=618.77;QD=11.05;SB=-250.34 GT:AD:DP:GL:GQ 0/1:28,28:48:-79.63,-14.47,-94.46:99
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chr1 1601295 rs6700884 A G 128.62 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=57.79;MQ0=0;OQ=747.49;QD=15.90;SB=-253.32 GT:AD:DP:GL:GQ 0/1:21,26:46:-91.89,-13.86,-83.83:99
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chr1 1601516 rs6695303 T C 234.37 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.59;MQ=57.63;MQ0=0;OQ=837.86;QD=14.45;SB=-344.58 GT:AD:DP:GL:GQ 0/1:27,31:54:-103.34,-16.27,-95.10:99
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chr1 1601858 rs4074196 A G 175.78 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=56.26;MQ0=0;OQ=386.06;QD=8.39;SB=-209.64 GT:AD:DP:GL:GQ 0/1:26,20:39:-53.65,-11.76,-84.70:99
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chr1 1601974 rs4074197 C T 305.80 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.98;MQ0=0;OQ=818.07;QD=17.41;SB=-411.47 GT:AD:DP:GL:GQ 0/1:22,25:46:-98.95,-13.86,-71.35:99
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chr1 1602466 rs4074198 G A 258.82 PASS AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.07;MQ0=0;OQ=1998.12;QD=19.98;SB=-732.09 GT:AD:DP:GL:GQ 0/1:43,57:99:-232.92,-29.82,-143.69:99
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chr1 1602672 rs4076580 T G 4.32 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=6.99;MQ=58.71;MQ0=0;OQ=379.11;QD=10.53;SB=-115.90 GT:AD:DP:GL:GQ 0/1:20,16:35:-51.74,-10.54,-71.19:99
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chr1 1603230 . C A 105.90 PASS AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.30;MQ0=0;OQ=439.60;QD=13.32;SB=-227.94 GT:AD:DP:GL:GQ 0/1:17,16:31:-56.59,-9.34,-45.91:99
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chr1 1605211 rs7520934 A C 437.30 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=732.80;QD=12.42;SB=-285.83 GT:AD:DP:GL:GQ 0/1:28,31:56:-93.43,-16.87,-99.80:99
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chr1 1605568 rs28774670 T C 204.99 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=58.50;MQ0=0;OQ=582.27;QD=9.87;SB=-203.22 GT:AD:DP:GL:GQ 0/1:33,26:57:-78.69,-17.18,-127.49:99
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chr1 1605610 rs28435953 G C 130.21 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=4.47;MQ=58.73;MQ0=0;OQ=779.25;QD=14.17;SB=-322.40 GT:AD:DP:GL:GQ 0/1:29,26:52:-96.88,-15.68,-122.76:99
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chr1 1605921 rs28464677 G A 40.24 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=6.09;MQ=58.05;MQ0=1;OQ=855.32;QD=14.50;SB=-377.37 GT:AD:DP:GL:GQ 0/1:31,28:56:-105.70,-16.88,-92.60:99
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chr1 1606119 rs61776792 G C 0.17 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=15.64;MQ=49.02;MQ0=1;OQ=469.22;QD=9.02;SB=-238.10 GT:AD:DP:GL:GQ 0/1:28,21:33:-60.17,-9.96,-72.09:99
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chr1 1606735 . G A 20.16 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=18;HaplotypeScore=5.53;MQ=52.51;MQ0=0;QD=0.29;SB=62.21 GT:AD:DP:GL:GQ 0/1:55,14:41:-17.65,-12.36,-123.60:52.96
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chr1 1607449 rs28736713 T G 133.05 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=2.99;MQ=58.63;MQ0=0;OQ=1023.89;QD=16.00;SB=-507.80 GT:AD:DP:GL:GQ 0/1:29,35:64:-124.95,-19.28,-105.76:99
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chr1 1607623 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=18;HaplotypeScore=7.66;MQ=51.83;MQ0=1;OQ=52.14;QD=1.00;SB=0.53 GT:AD:DP:GL:GQ 0/1:41,11:37:-19.66,-11.16,-103.64:84.98
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chr1 1608184 rs28367203 T C 304.04 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=56.41;MQ0=0;OQ=680.60;QD=12.15;SB=-333.30 GT:AD:DP:GL:GQ 0/1:31,25:55:-87.91,-16.57,-127.27:99
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chr1 1608363 rs28463291 C T 163.50 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1453.08;QD=22.02;SB=-689.01 GT:AD:DP:GL:GQ 0/1:22,44:66:-168.48,-19.89,-77.76:99
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chr1 1608455 rs28366981 A G 89.05 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=1.13;MQ=57.97;MQ0=0;OQ=661.92;QD=12.98;SB=-317.10 GT:AD:DP:GL:GQ 0/1:21,30:45:-83.04,-13.57,-76.52:99
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chr1 1608461 rs28561498 G T 18.93 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=3.73;MQ=57.75;MQ0=0;OQ=745.42;QD=16.20;SB=-317.33 GT:AD:DP:GL:GQ 0/1:20,26:44:-91.08,-13.26,-59.03:99
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chr1 1608538 rs28541555 T G 156.62 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=1.73;MQ=57.89;MQ0=0;OQ=606.69;QD=12.91;SB=-204.78 GT:AD:DP:GL:GQ 0/1:20,27:44:-77.21,-13.26,-75.77:99
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chr1 1608823 rs4648780 T C 124.64 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=58.99;MQ0=0;OQ=1965.86;QD=28.49;SB=-779.58 GT:AD:DP:GL:GQ 1/1:0,69:63:-200.23,-19.00,-0.06:99
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chr1 1608945 rs7524863 G A 246.35 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.11;MQ=57.51;MQ0=0;OQ=796.58;QD=15.03;SB=-348.35 GT:AD:DP:GL:GQ 0/1:28,25:52:-98.61,-15.67,-100.29:99
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chr1 1609404 rs28487995 G A 270.45 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=56.05;MQ0=0;OQ=943.08;QD=14.97;SB=-428.82 GT:AD:DP:GL:GQ 0/1:34,29:58:-115.07,-17.48,-93.42:99
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chr1 1609630 rs9442411 T C 340.52 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.02;MQ0=2;OQ=562.05;QD=9.37;SB=-254.95 GT:AD:DP:GL:GQ 0/1:29,31:53:-75.47,-15.98,-117.16:99
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chr1 1609711 rs61776794 G C 177 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.99;MQ=50.27;MQ0=2;OQ=557.29;QD=11.15;SB=-303.13 GT:AD:DP:GL:GQ 0/1:25,25:40:-71.08,-12.07,-91.96:99
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chr1 1609833 . C T 8.33 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.64;MQ=46.17;MQ0=4;OQ=546.56;QD=9.42;SB=-24.96 GT:AD:DP:GL:GQ 0/1:34,24:50:-73.01,-15.07,-102.31:99
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chr1 1609872 . T A 2.74 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=43.11;MQ0=2;OQ=308.49;QD=7.17;SB=35.14 GT:AD:DP:GL:GQ 0/1:26,17:38:-45.58,-11.45,-97.07:99
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chr1 1609888 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=6.91;MQ=43.11;MQ0=0;OQ=145.44;QD=3.93;SB=26.10 GT:AD:DP:GL:GQ 0/1:23,14:31:-27.18,-9.35,-84.75:99
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chr1 1609946 . A G 0.35 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=42.17;MQ0=4;OQ=138.81;QD=3.39;SB=-12.69 GT:AD:DP:GL:GQ 0/1:29,12:37:-28.31,-11.14,-120.75:99
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chr1 1610085 rs61776797 A G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=4;HaplotypeScore=1.23;MQ=52.83;MQ0=0;OQ=168.50;QD=4.32;SB=29.12 GT:AD:DP:GL:GQ 0/1:29,10:36:-30.98,-10.85,-111.33:99
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chr1 1610720 rs3737622 A G 151.65 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=52.83;MQ0=0;OQ=742.56;QD=16.14;SB=-328.41 GT:AD:DP:GL:GQ 0/1:21,25:45:-91.09,-13.55,-80.03:99
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chr1 1610745 rs3737623 C T 272.53 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=54.47;MQ0=0;OQ=1103.20;QD=18.09;SB=-448.99 GT:AD:DP:GL:GQ 0/1:28,33:59:-131.40,-17.79,-81.29:99
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chr1 1610764 rs3737624 G A 559.02 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.35;MQ0=0;OQ=1181.67;QD=16.88;SB=-410.16 GT:AD:DP:GL:GQ 0/1:34,36:69:-142.24,-20.78,-119.02:99
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chr1 1612040 . T A 0.13 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=3;HaplotypeScore=1.10;MQ=42.64;MQ0=1;OQ=306.88;QD=6.39;SB=17.08 GT:AD:DP:GL:GQ 0/1:34,14:39:-45.73,-11.76,-89.73:99
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chr1 1612676 rs1855706 C T 48.38 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=4.57;MQ=18.63;MQ0=42;OQ=747.37;QD=8.59;SB=-370.40 GT:AD:DP:GL:GQ 0/1:52,35:41:-90.38,-12.36,-60.67:99
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chr1 1612716 rs61776798 T C 0.25 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=7.54;MQ0=54;OQ=87.83;QD=1.39;SB=-10.00 GT:AD:DP:GL:GQ 0/1:40,23:6:-13.87,-1.81,-8.21:64.05
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chr1 1613585 rs7542306 C A 20.92 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=2.83;MQ=15.32;MQ0=21;QD=0.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,13:6:-7.18,-1.81,-14.53:53.72
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chr1 1614256 rs368915 T G 26.47 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=13;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=20.52;MQ0=9;QD=2.04;SB=-32.98 GT:AD:DP:GL:GQ 1/1:0,13:2:-6.06,-0.60,-0.00:6
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chr1 1614726 rs4648651 G A 96.84 PASS AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=24.04;MQ0=5;OQ=94.30;QD=5.55;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,5:9:-15.42,-2.71,-17.14:99
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chr1 1615466 rs35947799 G A 107.06 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=52.41;MQ0=0;OQ=601.60;QD=18.23;SB=-258.27 GT:AD:DP:GL:GQ 0/1:13,20:32:-73.09,-9.64,-46.27:99
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chr1 1616758 rs28587348 A G 239 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=22.66;MQ0=5;OQ=648.18;QD=9.53;SB=-227.25 GT:AD:DP:GL:GQ 0/1:39,28:59:-88.06,-19.96,-129.14:99
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chr1 1617046 rs1932228 C T 15.28 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=15.02;MQ0=16;OQ=210.38;QD=4.29;SB=-111.61 GT:AD:DP:GL:GQ 0/1:30,19:14:-28.54,-4.22,-22.09:99
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chr1 1617416 rs61776801 G A 266.02 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=37.27;MQ0=15;OQ=982.95;QD=15.60;SB=-353.39 GT:AD:DP:GL:GQ 0/1:28,35:47:-115.75,-14.17,-56.63:99
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chr1 1617665 rs601141 A C 373.76 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=54.30;MQ0=0;OQ=987.22;QD=15.19;SB=-461.24 GT:AD:DP:GL:GQ 0/1:31,34:63:-120.98,-18.98,-104.99:99
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chr1 1618057 rs61776802 A G 60.56 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=53.96;MQ0=1;OQ=690.37;QD=9.86;SB=-238.28 GT:AD:DP:GL:GQ 0/1:36,33:62:-91.01,-18.69,-134.09:99
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chr1 1618313 rs61776803 G T 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=3;HaplotypeScore=2.46;MQ=39.85;MQ0=11;OQ=285.62;QD=3.97;SB=-133.03 GT:AD:DP:GL:GQ 0/1:51,21:59:-49.62,-17.77,-159.76:99
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chr1 1618571 rs12081891 G A 12.44 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.94;MQ=28.69;MQ0=14;OQ=348.19;QD=5.36;SB=-177.80 GT:AD:DP:GL:GQ 0/1:47,18:38:-49.56,-11.46,-83.32:99
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chr1 1618766 rs61776804 G A 86.02 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.82;MQ=43.94;MQ0=0;OQ=732.16;QD=19.27;SB=-352.49 GT:AD:DP:GL:GQ 0/1:16,22:37:-87.65,-11.15,-51.61:99
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chr1 1619321 rs4648621 G A 136.25 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=27.57;MQ0=5;OQ=508.21;QD=13.37;SB=-144.61 GT:AD:DP:GL:GQ 0/1:18,20:30:-63.15,-9.04,-45.60:99
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chr1 1619347 rs34716550 T C 0.89 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=6.10;MQ=29.73;MQ0=3;OQ=380.00;QD=9.05;SB=-24.63 GT:AD:DP:GL:GQ 0/1:23,19:33:-51.24,-9.95,-72.01:99
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chr1 1624864 rs874516 T C 339.91 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=46.52;MQ0=1;OQ=784.43;QD=15.38;SB=-383.28 GT:AD:DP:GL:GQ 0/1:22,29:49:-96.49,-14.76,-89.37:99
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chr1 1625479 rs2076329 T C 1.54 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=3.63;MQ=58.85;MQ0=0;OQ=346.77;QD=7.08;SB=-173.37 GT:AD:DP:GL:GQ 0/1:30,19:42:-50.63,-12.67,-103.10:99
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chr1 1625609 rs1136997 C A 28.98 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.88;MQ=49.57;MQ0=0;OQ=129.32;QD=4.62;SB=-74.73 GT:AD:DP:GL:GQ 0/1:19,9:24:-23.45,-7.23,-57.11:99
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chr1 1625904 rs1059822 G A 133.74 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=49.02;MQ0=1;OQ=290.88;QD=7.65;SB=-88.57 GT:AD:DP:GL:GQ 0/1:22,16:33:-42.33,-9.95,-69.30:99
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chr1 1626134 rs2179381 C T 246.87 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=42.93;MQ0=0;OQ=354.22;QD=9.84;SB=-190.16 GT:AD:DP:GL:GQ 0/1:22,14:30:-47.74,-9.04,-64.17:99
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chr1 1626190 . G A 71.25 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=48.48;MQ0=0;OQ=619.32;QD=15.48;SB=-321.82 GT:AD:DP:GL:GQ 0/1:21,19:40:-77.26,-12.05,-77.19:99
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chr1 1627098 rs61774911 A G 6.01 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.86;MQ0=3;OQ=57.73;QD=2.14;SB=17.07 GT:AD:DP:GL:GQ 0/1:19,8:19:-14.79,-5.73,-53.94:90.57
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chr1 1627115 rs9439480 A G 25.79 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=40.42;MQ0=0;QD=1.07;SB=26.10 GT:AD:DP:GL:GQ 0/1:18,5:21:-12.19,-6.33,-66.21:58.62
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chr1 1627865 rs17162876 G C 61.32 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=1.72;MQ=50.90;MQ0=0;OQ=596.59;QD=13.56;SB=-287.98 GT:AD:DP:GL:GQ 0/1:25,19:41:-75.32,-12.38,-88.05:99
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chr1 1628397 . C T 6.47 PASS AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=1;HaplotypeScore=1.69;MQ=17.03;MQ0=21;OQ=258.72;QD=7.19;SB=-86.31 GT:AD:DP:GL:GQ 0/1:19,17:11:-32.47,-3.31,-10.93:76.22
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chr1 1628516 . G A 0.42 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=23.14;MQ0=15;OQ=161.97;QD=3.60;SB=-32.64 GT:AD:DP:GL:GQ 0/1:32,13:24:-26.72,-7.23,-54.65:99
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chr1 1629661 . T C 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.57;MQ=34.50;MQ0=9;OQ=82.09;QD=2.22;SB=-48.26 GT:AD:DP:GL:GQ 0/1:21,16:24:-18.73,-7.24,-70.81:99
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chr1 1631887 rs61776845 C T 226.45 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.12;MQ0=0;OQ=487.31;QD=34.81;SB=-143.63 GT:AD:DP:GL:GQ 1/1:0,14:14:-52.32,-4.22,-0.01:42.13
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chr1 1633129 rs6688326 C A 4.88 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=11.56;MQ0=25;OQ=150.41;QD=4.30;SB=-10.00 GT:AD:DP:GL:GQ 0/1:25,10:8:-20.73,-2.41,-7.32:49.07
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chr1 1634432 rs2143105 A G 2.04 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=3.86;MQ=24.63;MQ0=4;OQ=286.53;QD=16.85;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,17:11:-32.26,-3.33,-0.02:33.05
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chr1 1634696 rs2179382 G A 8.71 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=32.34;MQ0=16;OQ=279.13;QD=3.58;SB=-95.45 GT:AD:DP:GL:GQ 0/1:61,16:59:-48.98,-17.78,-155.91:99
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chr1 1634768 rs2179383 C T 205.44 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=11.72;MQ0=13;OQ=127.00;QD=6.35;SB=-51.67 GT:AD:DP:GL:GQ 1/1:0,20:4:-16.23,-1.20,-0.00:12.04
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chr1 1634910 . C T 73.11 PASS AC=2;AF=1.00;AN=2;DP=32;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=12.98;MQ0=22;OQ=295.97;QD=9.25;SB=-135.01 GT:AD:DP:GL:GQ 1/1:0,32:8:-33.18,-2.41,-0.00:24.08
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chr1 1634953 . C T 62.81 PASS AC=2;AF=1.00;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=17.86;MQ0=18;OQ=384.85;QD=13.27;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,29:10:-42.07,-3.01,-0.00:30.10
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chr1 1634973 . T C 4.22 PASS AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=19.05;MQ0=18;OQ=118.84;QD=3.71;SB=-10.00 GT:AD:DP:GL:GQ 0/1:22,10:13:-19.08,-3.92,-33.24:99
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chr1 1634975 . C T 14.66 PASS AC=2;AF=1.00;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=19.05;MQ0=18;OQ=504.84;QD=15.78;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,32:13:-54.07,-3.92,-0.00:39.13
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chr1 1635050 rs4279785 T C 293.02 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=22.94;MQ0=12;OQ=364.98;QD=8.90;SB=-161.33 GT:AD:DP:GL:GQ 0/1:23,18:28:-48.21,-8.43,-62.26:99
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chr1 1635547 rs61774919 G A 162.09 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=14.59;MQ0=11;OQ=173.64;QD=7.55;SB=-50.56 GT:AD:DP:GL:GQ 1/1:6,17:5:-20.92,-1.51,-0.00:15.05
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chr1 1635860 rs3819996 T C 34.28 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=13.67;MQ0=7;QD=3.81;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:2:-6.84,-0.60,-0.00:6.02
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chr1 1635866 rs3819997 A G 27.83 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=14.50;MQ0=6;QD=3.48;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:2:-6.19,-0.60,-0.00:6.01
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chr1 1635934 rs3819998 A G 17.88 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=5.04;MQ=31.93;MQ0=9;OQ=462.29;QD=12.84;SB=-95.99 GT:AD:DP:GL:GQ 0/1:9,27:21:-55.85,-6.34,-11.59:52.52
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chr1 1635937 rs3819999 G T 0.54 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=5.04;MQ=31.93;MQ0=9;OQ=663.10;QD=18.42;SB=-104.11 GT:AD:DP:GL:GQ 0/1:9,26:24:-76.82,-7.23,-11.28:40.49
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chr1 1635973 rs3820000 G C 54.40 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=28.49;MQ0=15;OQ=883.63;QD=21.55;SB=-127.19 GT:AD:DP:GL:GQ 1/1:8,33:25:-95.91,-7.54,-3.96:35.78
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chr1 1636091 rs3820002 T C 108.62 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=27.55;MQ0=2;OQ=418.10;QD=27.87;SB=-161.84 GT:AD:DP:GL:GQ 1/1:0,15:13:-45.40,-3.92,-0.01:39.10
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chr1 1636096 rs61776849 C T 171.23 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=27.06;MQ0=2;OQ=513.34;QD=30.20;SB=-178.68 GT:AD:DP:GL:GQ 1/1:0,17:14:-54.92,-4.22,-0.01:42.13
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chr1 1636231 rs61776850 G T 45.78 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=2.84;MQ=41.85;MQ0=7;OQ=641.89;QD=13.95;SB=-342.30 GT:AD:DP:GL:GQ 0/1:20,26:39:-79.22,-11.75,-58.73:99
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chr1 1636287 rs61776851 T G 219.44 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=36.80;MQ0=8;OQ=1107.10;QD=20.13;SB=-508.74 GT:AD:DP:GL:GQ 1/1:4,51:37:-114.34,-11.16,-0.05:99
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chr1 1636310 rs3820004 G A 84.02 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=34.50;MQ0=11;OQ=1585.10;QD=27.33;SB=-811.33 GT:AD:DP:GL:GQ 1/1:6,52:41:-162.11,-12.35,-0.01:99
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chr1 1636434 rs56030177 T C 84.71 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=28.90;MQ0=10;OQ=1324.64;QD=27.60;SB=-500.48 GT:AD:DP:GL:GQ 1/1:0,48:38:-136.06,-11.45,-0.01:99
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chr1 1636517 rs760926 T C 66.97 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=26.90;MQ0=7;OQ=976.98;QD=25.05;SB=-384.56 GT:AD:DP:GL:GQ 1/1:1,38:28:-101.29,-8.43,-0.01:84.25
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chr1 1636649 rs760927 T C 127.83 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=25.47;MQ0=5;OQ=898.10;QD=25.66;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,35:25:-93.41,-7.53,-0.01:75.22
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chr1 1636735 . C G 66.44 PASS AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=39.28;MQ0=9;OQ=1254.01;QD=12.80;SB=-309.31 GT:AD:DP:GL:GQ 0/1:56,42:83:-153.70,-25.01,-208.71:99
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chr1 1636777 . C T 31.32 PASS AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=2.39;MQ=38.96;MQ0=9;OQ=1301.14;QD=13.41;SB=-647.75 GT:AD:DP:GL:GQ 0/1:49,48:84:-158.72,-25.32,-141.36:99
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chr1 1636840 rs61776853 A C 1.58 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=3;HaplotypeScore=0.97;MQ=31.48;MQ0=5;OQ=997.06;QD=27.70;SB=-256.95 GT:AD:DP:GL:GQ 1/1:0,36:30:-103.31,-9.04,-0.02:90.22
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chr1 1636845 rs61776854 C T 13.28 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=31.12;MQ0=5;OQ=595.02;QD=17.50;SB=-27.62 GT:AD:DP:GL:GQ 0/1:11,23:28:-71.23,-8.44,-30.58:99
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chr1 1636852 rs35642458 G A 71.80 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=28.10;MQ0=4;OQ=612.21;QD=24.49;SB=-39.52 GT:AD:DP:GL:GQ 0/1:3,22:20:-70.53,-6.02,-10.71:46.85
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chr1 1637044 rs61073446 G A 19.06 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=5.47;MQ=48.10;MQ0=1;OQ=604.36;QD=8.06;SB=-316.73 GT:AD:DP:GL:GQ 0/1:54,21:68:-84.21,-20.50,-156.95:99
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chr1 1637060 . G C 0.16 PASS AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=1;HaplotypeScore=3.23;MQ=46.92;MQ0=1;OQ=770.35;QD=8.37;SB=83.29 GT:AD:DP:GL:GQ 0/1:66,26:89:-107.18,-26.86,-257.87:99
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chr1 1637092 . A G 13.80 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=45.24;MQ0=3;OQ=524.47;QD=7.09;SB=62.24 GT:AD:DP:GL:GQ 0/1:50,24:71:-77.11,-21.38,-201.71:99
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chr1 1637137 rs4437818 C T 70.80 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.48;MQ=37.21;MQ0=3;OQ=419.91;QD=7.63;SB=-236.03 GT:AD:DP:GL:GQ 0/1:38,17:49:-60.03,-14.76,-127.40:99
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chr1 1637159 rs760928 C T 610.42 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.78;MQ0=3;OQ=1773.57;QD=35.47;SB=-891.67 GT:AD:DP:GL:GQ 1/1:0,50:45:-180.95,-13.56,-0.01:99
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chr1 1637161 rs760929 G A 499.31 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=39.49;MQ0=3;OQ=1819.83;QD=36.40;SB=-852.64 GT:AD:DP:GL:GQ 1/1:0,50:45:-185.58,-13.55,-0.01:99
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chr1 1637349 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=1;HaplotypeScore=12.15;MQ=53.21;MQ0=0;OQ=258.06;QD=3.04;SB=74.27 GT:AD:DP:GL:GQ 0/1:68,17:73:-51.13,-22.04,-238.97:99
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chr1 1637350 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=13.99;MQ=53.21;MQ0=0;OQ=156.60;QD=1.84;SB=74.27 GT:AD:DP:GL:GQ 0/1:68,16:78:-42.44,-23.50,-258.99:99
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chr1 1637384 rs760930 C T 155.40 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=57.38;MQ0=0;OQ=2369.71;QD=38.22;SB=-867.02 GT:AD:DP:GL:GQ 1/1:0,62:60:-240.58,-18.08,-0.02:99
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chr1 1637388 rs760931 G C 174.43 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=56.72;MQ0=0;OQ=2115.79;QD=36.48;SB=-781.25 GT:AD:DP:GL:GQ 1/1:0,58:53:-215.20,-15.99,-0.03:99
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chr1 1637546 rs56081394 A C 94.23 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=52.34;MQ0=0;OQ=2774.94;QD=32.65;SB=-1180.71 GT:AD:DP:GL:GQ 1/1:0,85:81:-281.12,-24.40,-0.04:99
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chr1 1637613 . C T 21.89 LowQual AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=3;HaplotypeScore=1.05;MQ=50.67;MQ0=0;QD=0.27;SB=-29.39 GT:AD:DP:GL:GQ 0/1:68,12:72:-27.16,-21.69,-231.62:54.70
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chr1 1637638 . C G 0.51 PASS AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=4.82;MQ=47.75;MQ0=0;OQ=459.74;QD=4.84;SB=-189.88 GT:AD:DP:GL:GQ 0/1:65,30:83:-74.29,-25.03,-272.64:99
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chr1 1637674 . T C 96.11 PASS AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.42;MQ0=0;OQ=794.87;QD=7.87;SB=-336.87 GT:AD:DP:GL:GQ 0/1:55,46:82:-107.47,-24.70,-217.72:99
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chr1 1637731 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=1;HaplotypeScore=1.79;MQ=47.58;MQ0=0;OQ=197.23;QD=2.38;SB=-124.83 GT:AD:DP:GL:GQ 0/1:61,22:74:-45.30,-22.29,-250.27:99
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chr1 1637788 rs1883424 A G 452.02 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.70;MQ0=0;OQ=1180.37;QD=13.26;SB=-539.57 GT:AD:DP:GL:GQ 0/1:48,41:89:-148.13,-26.81,-196.69:99
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chr1 1637887 rs61776857 T C 8.97 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=37.62;MQ0=3;OQ=1207.11;QD=23.21;SB=-211.69 GT:AD:DP:GL:GQ 1/1:2,49:41:-124.35,-12.38,-0.05:99
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chr1 1638000 . G C 4.04 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=49.72;MQ0=1;OQ=363.96;QD=6.17;SB=-28.72 GT:AD:DP:GL:GQ 0/1:37,21:48:-56.87,-17.19,-155.52:99
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chr1 1638008 . G C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=51.97;MQ0=1;OQ=62.73;QD=1.08;SB=29.80 GT:AD:DP:GL:GQ 0/1:41,17:44:-22.82,-13.26,-168.23:95.57
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chr1 1638068 rs61776858 C T 414.28 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=53.78;MQ0=0;OQ=1645.34;QD=38.26;SB=-705.35 GT:AD:DP:GL:GQ 1/1:1,42:42:-168.13,-12.65,-0.01:99
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chr1 1638095 rs28722732 A C 115.66 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=48.13;MQ0=1;OQ=1285.24;QD=32.95;SB=-522.05 GT:AD:DP:GL:GQ 1/1:1,38:38:-132.12,-11.45,-0.02:99
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chr1 1638236 . G A 17.91 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=2;HaplotypeScore=8.77;MQ=38.97;MQ0=0;QD=0.34;SB=23.08 GT:AD:DP:GL:GQ 0/1:43,6:25:-15.81,-10.75,-74.55:50.67
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chr1 1638252 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=56.73;MQ=41.68;MQ0=0;OQ=220.25;QD=3.86;SB=17.08 GT:AD:DP:GL:GQ 0/1:43,13:37:-36.47,-11.16,-97.19:99
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chr1 1638265 rs28669101 A G 1.73 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=5.08;MQ=44.94;MQ0=1;OQ=1841.80;QD=27.49;SB=-530.20 GT:AD:DP:GL:GQ 1/1:1,66:52:-187.79,-15.67,-0.02:99
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chr1 1638282 . T C 372.16 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=2;HaplotypeScore=20.32;MQ=48.81;MQ0=1;QD=5.64;SB=53.20 GT:AD:DP:GL:GQ 0/1:48,18:62:-59.18,-18.68,-176.85:99
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chr1 1638285 . G A 362.16 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=22.88;MQ=49.05;MQ0=1;QD=5.57;SB=50.16 GT:AD:DP:GL:GQ 0/1:45,17:60:-57.59,-18.09,-158.00:99
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chr1 1638291 . G T 350.74 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=1;HaplotypeScore=36.28;MQ=47.79;MQ0=1;QD=5.48;SB=47.16 GT:AD:DP:GL:GQ 0/1:46,17:57:-55.53,-17.18,-142.31:99
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chr1 1638353 . T C 4.41 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=49.10;MQ0=0;OQ=579.45;QD=7.24;SB=-118.38 GT:AD:DP:GL:GQ 0/1:52,28:75:-83.82,-22.59,-209.22:99
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chr1 1638397 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.02;HRun=4;HaplotypeScore=13.77;MQ=49.39;MQ0=0;OQ=1251.99;QD=12.16;SB=-214.10 GT:AD:DP:GL:GQ 0/1:54,47:95:-156.50,-28.02,-195.84:99
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chr1 1638484 rs61776859 C A 0.46 PASS AC=1;AF=0.50;AN=2;DB;DP=135;Dels=0.00;HRun=1;HaplotypeScore=3.66;MQ=44.01;MQ0=0;OQ=2573.54;QD=19.06;SB=-1062.18 GT:AD:DP:GL:GQ 0/1:54,81:126:-298.59,-37.95,-167.48:99
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chr1 1638485 . A G 2.65 PASS AC=1;AF=0.50;AN=2;DP=135;Dels=0.00;HRun=0;HaplotypeScore=2.76;MQ=44.20;MQ0=0;OQ=954.08;QD=7.07;SB=27.40 GT:AD:DP:GL:GQ 0/1:81,54:124:-136.06,-37.37,-329.92:99
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chr1 1638496 . A C 4.42 PASS AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=3.74;MQ=43.37;MQ0=0;OQ=1281.45;QD=9.42;SB=-10.58 GT:AD:DP:GL:GQ 0/1:80,56:126:-169.38,-37.95,-296.59:99
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chr1 1638502 . T C 3.56 PASS AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=1;HaplotypeScore=2.76;MQ=44.49;MQ0=0;OQ=1373.44;QD=10.25;SB=-79.40 GT:AD:DP:GL:GQ 0/1:76,58:123:-177.67,-37.05,-300.79:99
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chr1 1638544 . C T 171.39 PASS AC=1;AF=0.50;AN=2;DP=138;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=48.39;MQ0=0;OQ=1993.39;QD=14.44;SB=-439.97 GT:AD:DP:GL:GQ 0/1:62,76:123:-239.68,-37.06,-213.30:99
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chr1 1638628 . C T 21.95 PASS AC=1;AF=0.50;AN=2;DP=106;Dels=0.00;HRun=0;HaplotypeScore=3.46;MQ=49.90;MQ0=0;OQ=1604.78;QD=15.14;SB=-725.65 GT:AD:DP:GL:GQ 0/1:52,53:100:-193.90,-30.14,-170.77:99
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chr1 1638640 . A C 22.88 PASS AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=2.97;MQ=47.54;MQ0=0;OQ=1027.76;QD=10.18;SB=-470.68 GT:AD:DP:GL:GQ 0/1:56,45:93:-134.07,-28.01,-207.58:99
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chr1 1638645 . G C 1.18 PASS AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=6.44;MQ=47.94;MQ0=0;OQ=1189.28;QD=12.14;SB=-604.90 GT:AD:DP:GL:GQ 0/1:56,42:91:-149.63,-27.42,-247.05:99
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chr1 1638691 rs61777460 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=113;Dels=0.00;HRun=1;HaplotypeScore=70.95;MQ=45.55;MQ0=0;OQ=1598.01;QD=14.14;SB=-702.52 GT:AD:DP:GL:GQ 0/1:53,60:107:-195.32,-32.23,-214.62:99
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chr1 1638728 . T A 0.06 PASS AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=2;HaplotypeScore=1.47;MQ=48.71;MQ0=0;OQ=2481.89;QD=16.22;SB=-1020.86 GT:AD:DP:GL:GQ 0/1:71,82:150:-296.65,-45.18,-270.24:99
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chr1 1638806 rs909824 T C 0.61 PASS AC=1;AF=0.50;AN=2;DB;DP=154;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=50.30;MQ0=0;OQ=2209.99;QD=14.35;SB=-996.92 GT:AD:DP:GL:GQ 0/1:79,75:150:-269.47,-45.19,-301.46:99
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chr1 1638825 rs61777461 C T 0.09 PASS AC=1;AF=0.50;AN=2;DB;DP=143;Dels=0.00;HRun=1;HaplotypeScore=2.68;MQ=50.48;MQ0=0;OQ=2137.82;QD=14.95;SB=-1070.06 GT:AD:DP:GL:GQ 0/1:71,72:135:-257.74,-40.67,-255.42:99
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chr1 1638946 . C T 467.64 SnpCluster AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=32.37;MQ=43.71;MQ0=5;QD=7.19;SB=-205.68 GT:AD:DP:GL:GQ 0/1:44,21:47:-64.21,-14.16,-108.79:99
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chr1 1638954 . T C 736.34 SnpCluster AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=21.87;MQ=42.89;MQ0=5;QD=12.70;SB=-358.18 GT:AD:DP:GL:GQ 0/1:23,35:42:-89.58,-12.66,-57.09:99
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chr1 1638955 . G A 193.46 SnpCluster AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=28.88;MQ=42.53;MQ0=5;QD=3.39;SB=-66.48 GT:AD:DP:GL:GQ 0/1:44,13:42:-35.29,-12.66,-112.58:99
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chr1 1638965 rs61777464 A G 0.09 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=17.05;MQ=41.40;MQ0=5;OQ=280.02;QD=5.83;SB=-138.25 GT:AD:DP:GL:GQ 0/1:30,18:32:-40.93,-9.64,-84.27:99
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chr1 1638997 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=10.71;MQ=41.45;MQ0=4;OQ=154.17;QD=3.08;SB=35.12 GT:AD:DP:GL:GQ 0/1:37,12:37:-29.85,-11.15,-98.68:99
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chr1 1639030 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=25.29;MQ=40.65;MQ0=7;OQ=247.09;QD=2.75;SB=50.20 GT:AD:DP:GL:GQ 0/1:68,21:63:-46.97,-18.98,-193.46:99
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chr1 1639109 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=25.12;MQ=46.53;MQ0=4;OQ=115.22;QD=1.05;SB=83.25 GT:AD:DP:GL:GQ 0/1:96,13:84:-40.14,-25.34,-234.06:99
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chr1 1639113 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=0;HaplotypeScore=24.12;MQ=46.66;MQ0=4;OQ=396.71;QD=3.64;SB=8.10 GT:AD:DP:GL:GQ 0/1:82,27:87:-69.20,-26.24,-219.98:99
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chr1 1639145 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=119;Dels=0.00;HRun=1;HaplotypeScore=44.81;MQ=46.42;MQ0=3;OQ=230.67;QD=1.94;SB=-28.38 GT:AD:DP:GL:GQ 0/1:92,27:94:-54.66,-28.31,-297.41:99
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chr1 1639152 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=23.68;MQ=46.30;MQ0=1;OQ=1088.67;QD=9.07;SB=-62.94 GT:AD:DP:GL:GQ 0/1:69,50:95:-140.79,-28.64,-195.69:99
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chr1 1639166 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=19.38;MQ=46.56;MQ0=1;OQ=479.08;QD=3.89;SB=-121.97 GT:AD:DP:GL:GQ 0/1:92,31:101:-81.65,-30.45,-258.17:99
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chr1 1639203 . C T 59.61 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=106;Dels=0.01;HRun=4;HaplotypeScore=28.93;MQ=49.66;MQ0=0;QD=0.56;SB=37.04 GT:AD:DP:GL:GQ 0/1:84,20:85:-34.85,-25.61,-268.94:92.45
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chr1 1639204 . A G 88.80 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=1;HaplotypeScore=34.26;MQ=50.07;MQ0=0;QD=0.81;SB=122.42 GT:AD:DP:GL:GQ 0/1:87,23:90:-39.28,-27.11,-316.10:99
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chr1 1639210 . T G 106.61 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=119;Dels=0.00;HRun=1;HaplotypeScore=109.94;MQ=48.22;MQ0=0;QD=0.90;SB=107.36 GT:AD:DP:GL:GQ 0/1:99,20:91:-41.35,-27.41,-290.49:99
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chr1 1639221 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=0;HaplotypeScore=51.18;MQ=48.34;MQ0=0;OQ=110.59;QD=0.87;SB=-36.37 GT:AD:DP:GL:GQ 0/1:109,18:89:-41.16,-26.82,-305.73:99
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chr1 1639227 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=3;HaplotypeScore=53.65;MQ=47.85;MQ0=2;OQ=61.26;QD=0.48;SB=63.76 GT:AD:DP:GL:GQ 0/1:90,38:88:-35.92,-26.51,-284.90:94.09
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chr1 1639237 . A T 220.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=144;Dels=0.00;HRun=2;HaplotypeScore=39.50;MQ=47.38;MQ0=3;QD=1.53;SB=98.34 GT:AD:DP:GL:GQ 0/1:108,36:102:-56.01,-30.73,-323.39:99
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chr1 1639238 . T C 363.43 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=40.62;MQ=46.99;MQ0=4;QD=2.51;SB=-35.37 GT:AD:DP:GL:GQ 0/1:115,29:91:-67.04,-27.41,-296.52:99
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chr1 1639239 . T G 307.74 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=148;Dels=0.00;HRun=0;HaplotypeScore=40.46;MQ=46.55;MQ0=5;QD=2.08;SB=5.35 GT:AD:DP:GL:GQ 0/1:110,36:106:-65.98,-31.93,-325.39:99
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chr1 1639244 . C G 433.01 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=151;Dels=0.00;HRun=0;HaplotypeScore=72.81;MQ=46.68;MQ0=6;QD=2.87;SB=-83.32 GT:AD:DP:GL:GQ 0/1:112,37:109:-82.29,-35.70,-402.49:99
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chr1 1639252 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=152;Dels=0.00;HRun=2;HaplotypeScore=45.12;MQ=45.10;MQ0=7;OQ=932.16;QD=6.13;SB=-397.36 GT:AD:DP:GL:GQ 0/1:117,33:103:-127.53,-31.03,-261.51:99
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chr1 1639301 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=21.56;MQ=40.71;MQ0=20;OQ=622.52;QD=6.35;SB=-215.64 GT:AD:DP:GL:GQ 0/1:52,46:51:-80.90,-15.37,-137.71:99
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chr1 1639318 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=1;HaplotypeScore=38.28;MQ=34.31;MQ0=28;OQ=125.27;QD=1.35;SB=-14.91 GT:AD:DP:GL:GQ 0/1:76,17:35:-26.35,-10.54,-101.55:99
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chr1 1639325 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=5.46;MQ=33.52;MQ0=28;OQ=116.93;QD=1.38;SB=23.07 GT:AD:DP:GL:GQ 0/1:73,12:33:-24.93,-9.95,-86.29:99
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chr1 1639374 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=1;HaplotypeScore=20.02;MQ=34.37;MQ0=20;OQ=192.31;QD=2.19;SB=-88.00 GT:AD:DP:GL:GQ 0/1:73,15:45:-36.07,-13.55,-128.18:99
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chr1 1639407 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=0;HaplotypeScore=10.99;MQ=42.54;MQ0=9;OQ=114.05;QD=1.02;SB=-8.75 GT:AD:DP:GL:GQ 0/1:85,19:71:-46.36,-31.67,-236.26:99
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chr1 1639417 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=122;Dels=0.00;HRun=4;HaplotypeScore=17.30;MQ=43.78;MQ0=5;OQ=74.87;QD=0.61;SB=-8.76 GT:AD:DP:GL:GQ 0/1:106,16:83:-35.80,-25.03,-240.05:99
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chr1 1639441 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=3;HaplotypeScore=5.23;MQ=45.90;MQ0=8;OQ=109.77;QD=0.77;SB=-10.15 GT:AD:DP:GL:GQ 0/1:120,22:103:-45.28,-31.02,-334.31:99
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chr1 1639479 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=26.42;MQ=48.72;MQ0=12;OQ=76.35;QD=0.64;SB=70.54 GT:AD:DP:GL:GQ 0/1:100,20:90:-38.04,-27.12,-310.60:99
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chr1 1639492 . C T 15.20 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=3;HaplotypeScore=52.40;MQ=48.82;MQ0=15;QD=0.14;SB=67.73 GT:AD:DP:GL:GQ 0/1:90,22:79:-28.59,-23.80,-254.17:47.90
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chr1 1639499 rs36141200 G A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=107;Dels=0.01;HRun=0;HaplotypeScore=32.74;MQ=48.53;MQ0=15;OQ=2982.80;QD=27.88;SB=-1344.29 GT:AD:DP:GL:GQ 1/1:0,106:74:-301.88,-22.29,-0.02:99
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chr1 1639600 rs36135823 C T 0.07 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=3;HaplotypeScore=14.31;MQ=43.93;MQ0=12;OQ=2247.07;QD=26.44;SB=-416.38 GT:AD:DP:GL:GQ 1/1:10,75:60:-232.21,-18.08,-3.91:99
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chr1 1639610 rs34963151 A T 0.17 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=15.64;MQ=43.34;MQ0=11;OQ=1936.12;QD=25.14;SB=-344.48 GT:AD:DP:GL:GQ 1/1:5,72:55:-200.25,-16.56,-3.05:99
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chr1 1639612 rs36137888 T G 0.67 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=11.64;MQ=43.34;MQ0=11;OQ=1831.08;QD=23.78;SB=-311.74 GT:AD:DP:GL:GQ 1/1:2,72:55:-190.04,-16.56,-3.35:99
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chr1 1639702 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=132;Dels=0.00;HRun=0;HaplotypeScore=34.54;MQ=35.32;MQ0=37;OQ=98.37;QD=0.75;SB=39.28 GT:AD:DP:GL:GQ 0/1:59,72:53:-29.08,-15.96,-156.59:99
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chr1 1639726 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=0;HaplotypeScore=70.45;MQ=36.36;MQ0=39;OQ=52.18;QD=0.37;SB=48.69 GT:AD:DP:GL:GQ 0/1:67,74:65:-28.09,-19.58,-201.69:85.02
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chr1 1639861 . C T 25.55 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=0;HaplotypeScore=57.75;MQ=41.48;MQ0=14;QD=0.18;SB=-23.37 GT:AD:DP:GL:GQ 0/1:90,50:90:-32.98,-27.15,-260.27:58.37
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chr1 1639867 . C T 19.37 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=3;HaplotypeScore=75.47;MQ=41.18;MQ0=14;QD=0.14;SB=-17.32 GT:AD:DP:GL:GQ 0/1:97,46:92:-32.93,-27.71,-303.81:52.16
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chr1 1639892 rs61777469 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=134;Dels=0.04;HRun=2;HaplotypeScore=74.14;MQ=41.98;MQ0=12;OQ=2469.47;QD=18.43;SB=-1178.56 GT:AD:DP:GL:GQ 0/1:25,104:86:-276.13,-25.90,-32.75:68.49
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chr1 1639893 rs61777470 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=134;Dels=0.00;HRun=0;HaplotypeScore=137.24;MQ=41.98;MQ0=12;OQ=2615.52;QD=19.52;SB=-1204.51 GT:AD:DP:GL:GQ 0/1:44,90:89:-291.64,-26.81,-37.18:99
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chr1 1639911 . G A 14.93 LowQual AC=1;AF=0.50;AN=2;DP=119;Dels=0.00;HRun=0;HaplotypeScore=26.42;MQ=45.76;MQ0=10;QD=0.13;SB=-12.75 GT:AD:DP:GL:GQ 0/1:81,37:78:-28.28,-23.52,-231.19:47.63
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chr1 1639962 rs61777471 C T 260.52 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=54.09;MQ0=1;OQ=1805.36;QD=37.61;SB=-829.34 GT:AD:DP:GL:GQ 1/1:0,48:47:-184.14,-14.16,-0.02:99
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chr1 1640060 rs1969650 A C 38.33 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=47.36;MQ0=0;OQ=1283.12;QD=25.66;SB=-659.19 GT:AD:DP:GL:GQ 1/1:0,50:43:-131.95,-12.97,-0.05:99
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chr1 1640123 rs1967676 G T 619.20 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.68;MQ0=0;OQ=2013.64;QD=35.33;SB=-938.04 GT:AD:DP:GL:GQ 1/1:0,57:55:-204.96,-16.56,-0.01:99
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chr1 1640270 rs1967677 T C 0.01 FDRtranche2.00to10.00 AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=23.68;MQ=51.29;MQ0=1;OQ=2260.88;QD=25.69;SB=-1076.20 GT:AD:DP:GL:GQ 1/1:7,81:78:-241.90,-23.52,-12.23:99
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|
chr1 1640284 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=21.65;MQ=49.80;MQ0=1;OQ=283.77;QD=2.56;SB=107.23 GT:AD:DP:GL:GQ 0/1:95,16:94:-60.00,-28.34,-253.49:99
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chr1 1640321 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=0;HaplotypeScore=250.42;MQ=48.13;MQ0=0;OQ=561.76;QD=3.98;SB=122.35 GT:AD:DP:GL:GQ 0/1:98,27:119:-99.13,-39.67,-333.17:99
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chr1 1640332 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=158;Dels=0.00;HRun=0;HaplotypeScore=133.26;MQ=46.63;MQ0=0;OQ=950.96;QD=6.02;SB=119.36 GT:AD:DP:GL:GQ 0/1:94,64:124:-135.74,-37.36,-315.76:99
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chr1 1640347 . T C 550.46 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=148;Dels=0.00;HRun=0;HaplotypeScore=23.57;MQ=45.32;MQ0=0;QD=3.72;SB=95.35 GT:AD:DP:GL:GQ 0/1:118,30:114:-92.67,-34.34,-350.75:99
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chr1 1640368 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=1;HaplotypeScore=38.96;MQ=45.47;MQ0=0;OQ=414.73;QD=2.94;SB=65.22 GT:AD:DP:GL:GQ 0/1:119,22:108:-77.29,-32.53,-317.79:99
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chr1 1640378 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=4;HaplotypeScore=21.61;MQ=45.56;MQ0=0;OQ=227.10;QD=1.77;SB=59.14 GT:AD:DP:GL:GQ 0/1:110,18:98:-55.53,-29.53,-284.49:99
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chr1 1640389 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=23.69;MQ=45.00;MQ0=0;OQ=372.62;QD=3.11;SB=38.14 GT:AD:DP:GL:GQ 0/1:83,37:73:-62.56,-22.01,-186.44:99
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chr1 1640393 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=0;HaplotypeScore=31.49;MQ=46.43;MQ0=0;OQ=193.70;QD=1.67;SB=47.18 GT:AD:DP:GL:GQ 0/1:63,52:78:-46.16,-23.50,-255.92:99
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chr1 1640402 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=107;Dels=0.00;HRun=3;HaplotypeScore=44.61;MQ=47.57;MQ0=0;OQ=589.53;QD=5.51;SB=47.18 GT:AD:DP:GL:GQ 0/1:71,36:90:-89.34,-27.11,-243.28:99
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chr1 1640405 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=1;HaplotypeScore=32.67;MQ=47.67;MQ0=0;OQ=576.56;QD=5.54;SB=44.17 GT:AD:DP:GL:GQ 0/1:79,25:85:-86.54,-25.60,-227.82:99
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chr1 1640428 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=1;HaplotypeScore=12.31;MQ=51.68;MQ0=0;OQ=687.66;QD=7.47;SB=59.21 GT:AD:DP:GL:GQ 0/1:63,29:86:-97.95,-25.90,-226.28:99
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|
chr1 1640435 . T C 0.39 PASS AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=52.41;MQ0=0;OQ=479.95;QD=4.95;SB=65.24 GT:AD:DP:GL:GQ 0/1:69,28:91:-78.69,-27.41,-274.97:99
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|
chr1 1640479 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=10.56;MQ=53.01;MQ0=0;OQ=125.57;QD=1.23;SB=55.33 GT:AD:DP:GL:GQ 0/1:77,25:89:-42.65,-26.81,-277.44:99
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|
chr1 1640500 . C A 40.46 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=1;HaplotypeScore=5.00;MQ=52.43;MQ0=0;QD=0.42;SB=79.01 GT:AD:DP:GL:GQ 0/1:71,25:78:-30.82,-23.49,-254.06:73.30
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|
chr1 1640502 . T G 39.38 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=0;HaplotypeScore=5.00;MQ=52.41;MQ0=0;QD=0.40;SB=58.40 GT:AD:DP:GL:GQ 0/1:73,26:82:-31.92,-24.69,-274.53:72.21
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|
chr1 1640517 . C G 1.85 PASS AC=1;AF=0.50;AN=2;DP=119;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=50.82;MQ0=0;OQ=540.14;QD=4.54;SB=-210.84 GT:AD:DP:GL:GQ 0/1:81,38:99:-87.13,-29.83,-340.31:99
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chr1 1640647 rs17845218 T C 5.93 PASS AC=1;AF=0.50;AN=2;DB;DP=139;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=46.16;MQ0=1;OQ=829.41;QD=5.97;SB=-392.09 GT:AD:DP:GL:GQ 0/1:85,54:124:-123.60,-37.37,-339.83:99
|
|
chr1 1640657 rs1059830 A G 689.07 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=136;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=46.01;MQ0=1;QD=5.07;SB=-273.97 GT:AD:DP:GL:GQ 0/1:84,52:114:-106.55,-34.36,-315.05:99
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|
chr1 1640661 rs1137004 T C 924.56 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=137;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=45.08;MQ0=1;QD=6.75;SB=-478.80 GT:AD:DP:GL:GQ 0/1:82,55:116:-130.68,-34.94,-330.64:99
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chr1 1640667 rs3200657 T C 2206.14 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=133;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=43.98;MQ0=1;QD=16.59;SB=-708.39 GT:AD:DP:GL:GQ 0/1:59,73:112:-259.82,-35.92,-162.90:99
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chr1 1640692 . A G 15.57 PASS AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=41.55;MQ0=0;OQ=1129.49;QD=8.89;SB=-491.78 GT:AD:DP:GL:GQ 0/1:59,68:99:-146.06,-29.83,-231.81:99
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chr1 1640705 rs1059831 G A 307.80 PASS AC=1;AF=0.50;AN=2;DB;DP=118;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=41.79;MQ0=0;OQ=1854.51;QD=15.72;SB=-686.99 GT:AD:DP:GL:GQ 0/1:63,55:86:-214.65,-25.92,-105.31:99
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chr1 1640780 rs36191908 G A 2.57 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=50.84;MQ0=0;OQ=222.00;QD=2.52;SB=-69.38 GT:AD:DP:GL:GQ 0/1:66,22:78:-49.00,-23.51,-215.31:99
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chr1 1640799 . G A 26.24 LowQual AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=54.16;MQ0=0;QD=0.29;SB=-18.77 GT:AD:DP:GL:GQ 0/1:79,12:87:-32.13,-26.22,-265.70:59.07
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|
chr1 1640856 . T C 1.18 PASS AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=1.67;MQ=51.06;MQ0=0;OQ=537.04;QD=4.84;SB=42.60 GT:AD:DP:GL:GQ 0/1:73,38:93:-85.00,-28.02,-284.38:99
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chr1 1640863 . G A 0.15 PASS AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=2;HaplotypeScore=0.93;MQ=50.41;MQ0=0;OQ=682.37;QD=6.20;SB=40.52 GT:AD:DP:GL:GQ 0/1:69,41:93:-99.55,-28.03,-223.44:99
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chr1 1640907 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=91;Dels=0.01;HRun=2;HaplotypeScore=10.49;MQ=48.20;MQ0=0;OQ=731.52;QD=8.04;SB=71.23 GT:AD:DP:GL:GQ 0/1:53,37:73:-98.42,-21.99,-174.07:99
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|
chr1 1640923 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=64.78;MQ=43.84;MQ0=1;OQ=272.78;QD=3.17;SB=56.20 GT:AD:DP:GL:GQ 0/1:67,19:80:-54.67,-24.11,-250.01:99
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chr1 1640931 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=98.55;MQ=40.13;MQ0=1;OQ=147.14;QD=2.16;SB=38.15 GT:AD:DP:GL:GQ 0/1:57,11:64:-37.28,-19.28,-217.64:99
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chr1 1640986 . A C 0.64 PASS AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=0;HaplotypeScore=3.69;MQ=43.40;MQ0=0;OQ=371.72;QD=5.81;SB=77.22 GT:AD:DP:GL:GQ 0/1:47,17:62:-59.13,-18.68,-158.05:99
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chr1 1640996 . C T 0.49 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.63;MQ=45.56;MQ0=0;OQ=291.78;QD=4.63;SB=80.17 GT:AD:DP:GL:GQ 0/1:49,14:56:-49.34,-16.88,-145.60:99
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chr1 1641016 . C T 53.74 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=51.28;MQ0=0;QD=0.87;SB=74.21 GT:AD:DP:GL:GQ 0/1:47,15:50:-23.72,-15.06,-152.06:86.58
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chr1 1641017 . A G 257.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=51.43;MQ0=0;QD=4.08;SB=80.28 GT:AD:DP:GL:GQ 0/1:48,15:61:-47.39,-18.39,-179.46:99
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chr1 1641026 . C T 369.95 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.99;MQ=52.99;MQ0=0;QD=5.97;SB=74.25 GT:AD:DP:GL:GQ 0/1:47,15:60:-58.35,-18.07,-168.55:99
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chr1 1641040 . G C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=2;HaplotypeScore=2.80;MQ=51.94;MQ0=0;OQ=253.54;QD=4.23;SB=74.26 GT:AD:DP:GL:GQ 0/1:44,15:55:-45.26,-16.62,-168.61:99
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chr1 1641126 rs12137617 A G 24.87 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=2.12;MQ=54.87;MQ0=0;OQ=1275.18;QD=31.10;SB=-536.43 GT:AD:DP:GL:GQ 1/1:0,41:37:-131.12,-11.15,-0.02:99
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chr1 1641482 rs11260627 C T 34.89 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=55.33;MQ0=0;OQ=1435.98;QD=36.82;SB=-496.00 GT:AD:DP:GL:GQ 1/1:0,39:37:-147.19,-11.15,-0.01:99
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chr1 1641491 rs12135951 T G 20.84 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=56.50;MQ0=0;OQ=197.57;QD=5.20;SB=-66.56 GT:AD:DP:GL:GQ 0/1:25,13:35:-33.59,-10.55,-90.46:99
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chr1 1641587 rs12044811 G A 0.08 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=15.92;MQ=55.20;MQ0=1;OQ=1462.24;QD=35.66;SB=-578.76 GT:AD:DP:GL:GQ 1/1:1,40:37:-149.82,-11.15,-0.01:99
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chr1 1641608 rs12044814 G C 398.84 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.85;MQ0=0;OQ=998.26;QD=30.25;SB=-358.22 GT:AD:DP:GL:GQ 1/1:1,32:26:-103.43,-7.84,-0.02:78.25
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chr1 1641675 rs4648768 T C 52.50 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.85;MQ=49.39;MQ0=0;OQ=640.24;QD=18.29;SB=-205.57 GT:AD:DP:GL:GQ 1/1:0,32:21:-67.63,-6.34,-0.02:63.13
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chr1 1641761 rs4648772 T C 503.17 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.21;MQ0=0;OQ=1369.78;QD=30.44;SB=-625.00 GT:AD:DP:GL:GQ 1/1:0,45:43:-140.60,-12.97,-0.03:99
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chr1 1641771 rs4648773 C A 18.84 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=2.41;MQ=54.78;MQ0=0;OQ=1559.28;QD=33.90;SB=-751.90 GT:AD:DP:GL:GQ 1/1:0,46:44:-159.53,-13.25,-0.02:99
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chr1 1641797 rs4648775 G A 91.99 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=54.06;MQ0=0;OQ=1591.86;QD=36.18;SB=-734.99 GT:AD:DP:GL:GQ 1/1:0,44:41:-162.79,-12.35,-0.01:99
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chr1 1641822 rs4648776 G A 529.47 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.06;MQ0=0;OQ=1730.65;QD=38.46;SB=-774.66 GT:AD:DP:GL:GQ 1/1:0,45:44:-176.66,-13.26,-0.01:99
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chr1 1642086 rs4648777 A G 238.91 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.56;MQ0=1;OQ=1172.89;QD=24.44;SB=-406.15 GT:AD:DP:GL:GQ 1/1:1,47:39:-120.92,-11.77,-0.04:99
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chr1 1642864 rs36039898 T C 113.78 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=54.55;MQ0=0;OQ=2211.83;QD=36.26;SB=-727.29 GT:AD:DP:GL:GQ 1/1:0,61:61:-224.79,-18.37,-0.02:99
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chr1 1642888 rs16825265 C T 105.46 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=54.90;MQ0=0;OQ=2464.17;QD=40.40;SB=-985.30 GT:AD:DP:GL:GQ 1/1:0,61:61:-250.01,-18.37,-0.01:99
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chr1 1643163 rs35548050 T C 620.20 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.02;MQ0=0;OQ=2383.87;QD=34.06;SB=-1115.83 GT:AD:DP:GL:GQ 1/1:0,70:67:-241.99,-20.18,-0.02:99
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chr1 1643221 rs2206307 C T 629.97 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.40;MQ0=0;OQ=2196.71;QD=34.87;SB=-1116.03 GT:AD:DP:GL:GQ 1/1:0,63:57:-223.28,-17.18,-0.02:99
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chr1 1643274 rs2206308 C T 615.08 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.68;MQ0=0;OQ=2077.20;QD=37.77;SB=-1010.04 GT:AD:DP:GL:GQ 1/1:0,55:53:-211.32,-15.97,-0.02:99
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chr1 1643659 rs2223485 C T 454.72 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.70;MQ0=1;OQ=1724.40;QD=36.69;SB=-535.21 GT:AD:DP:GL:GQ 1/1:0,47:43:-176.03,-12.95,-0.01:99
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chr1 1643745 rs61777493 C A 268.51 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=53.15;MQ0=3;OQ=2449.58;QD=34.50;SB=-1240.29 GT:AD:DP:GL:GQ 1/1:3,68:66:-248.56,-19.87,-0.01:99
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chr1 1643867 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=19.40;MQ0=14;OQ=84.98;QD=3.04;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,15:12:-15.40,-3.61,-30.71:99
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chr1 1643873 . C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=27;Dels=0.41;HRun=0;HaplotypeScore=83.92;MQ=18.34;MQ0=14;OQ=350.65;QD=12.99;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:10:-42.29,-6.54,-3.64:28.97
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chr1 1643898 rs61777494 G A 157 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=25.17;MQ0=2;OQ=461.81;QD=27.17;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,16:12:-49.77,-3.61,-0.00:36.12
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chr1 1643918 rs61777495 C T 757.85 Indel AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.37;MQ0=1;QD=31.58;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,23:19:-79.37,-5.72,-0.00:57.19
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chr1 1643924 . A T 950.73 Indel AC=2;AF=1.00;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.62;MQ0=1;QD=30.67;SB=-180.94 GT:AD:DP:GL:GQ 1/1:1,30:26:-98.67,-7.83,-0.01:78.24
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chr1 1644591 rs61777496 G A 138.94 PASS AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.34;MQ0=0;OQ=130.88;QD=26.18;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:4:-16.62,-1.20,-0.00:12.04
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chr1 1644813 rs2056977 A G 170.73 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=26.65;MQ0=9;OQ=292.06;QD=7.69;SB=-147.83 GT:AD:DP:GL:GQ 1/1:7,31:10:-32.80,-3.01,-0.01:30.08
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chr1 1645334 rs11486024 G A 35.89 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=22.46;MQ0=10;OQ=345.89;QD=5.67;SB=32.11 GT:AD:DP:GL:GQ 0/1:46,15:32:-47.52,-9.65,-66.64:99
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chr1 1645788 rs28649027 G C 26.17 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=2.58;MQ=53.44;MQ0=0;OQ=593.92;QD=15.23;SB=-280.31 GT:AD:DP:GL:GQ 0/1:20,19:36:-73.54,-10.87,-73.49:99
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chr1 1646881 rs61777497 T C 0.39 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=11.68;MQ0=43;OQ=71.62;QD=1.23;SB=-32.65 GT:AD:DP:GL:GQ 0/1:40,18:10:-13.46,-3.01,-23.67:99
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chr1 1646928 . C T 0.40 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=15.38;MQ0=21;OQ=97.42;QD=2.87;SB=-39.65 GT:AD:DP:GL:GQ 0/1:20,14:7:-15.13,-2.11,-10.71:85.98
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chr1 1646938 rs61776763 A G 17.48 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=2.10;MQ=17.28;MQ0=15;OQ=266.90;QD=8.34;SB=-88.98 GT:AD:DP:GL:GQ 1/1:0,32:9:-30.28,-2.71,-0.01:27.04
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chr1 1646996 rs4648783 T C 206.37 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=31.62;MQ0=1;OQ=494.82;QD=9.00;SB=-214.36 GT:AD:DP:GL:GQ 0/1:25,30:43:-65.73,-12.96,-90.44:99
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chr1 1647044 rs4648784 C G 2.96 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=1.82;MQ=32.49;MQ0=8;OQ=1818.45;QD=23.93;SB=-827.04 GT:AD:DP:GL:GQ 0/1:14,62:58:-202.62,-17.49,-37.52:99
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chr1 1647352 rs9439501 G C 210.43 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=45.38;MQ0=4;OQ=1643.24;QD=34.96;SB=-614.99 GT:AD:DP:GL:GQ 1/1:0,47:39:-167.92,-11.75,-0.01:99
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chr1 1647425 rs11576302 G A 125.25 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=52.45;MQ0=0;OQ=868.24;QD=17.72;SB=-259.77 GT:AD:DP:GL:GQ 0/1:23,26:49:-104.87,-14.76,-83.38:99
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chr1 1647461 rs11589282 T C 44.46 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=0.94;MQ=51.71;MQ0=1;OQ=1927.78;QD=33.24;SB=-715.12 GT:AD:DP:GL:GQ 1/1:0,58:56:-196.39,-16.87,-0.02:99
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chr1 1648203 rs4648785 T C 8.14 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=3.12;MQ=39.29;MQ0=4;OQ=1376.56;QD=30.59;SB=-396.50 GT:AD:DP:GL:GQ 1/1:0,45:38:-141.25,-11.44,-0.01:99
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chr1 1648805 rs1062057 T C 6.42 PASS AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=1;HaplotypeScore=3.69;MQ=25.80;MQ0=25;OQ=1469.54;QD=13.86;SB=-734.60 GT:AD:DP:GL:GQ 0/1:45,61:78:-173.74,-23.50,-116.68:99
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chr1 1649970 rs1801781 C A 600.71 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.53;MQ0=0;OQ=2075.47;QD=36.41;SB=-874.83 GT:AD:DP:GL:GQ 1/1:0,57:57:-211.15,-17.17,-0.01:99
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chr1 1650495 rs2377220 T G 497.64 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=28.20;MQ0=1;OQ=1908.80;QD=31.81;SB=-547.03 GT:AD:DP:GL:GQ 1/1:0,60:54:-194.48,-16.27,-0.02:99
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chr1 1650579 . G C 24.29 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=1;HaplotypeScore=9.52;MQ=48.11;MQ0=12;QD=0.34;SB=80.30 GT:AD:DP:GL:GQ 0/1:60,12:43:-18.68,-12.97,-167.36:57.11
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chr1 1650586 rs28662997 T C 0.09 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=7.30;MQ=48.54;MQ0=13;OQ=175.02;QD=2.22;SB=-47.44 GT:AD:DP:GL:GQ 0/1:53,26:60:-38.86,-18.08,-194.29:99
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chr1 1650595 rs1061883 T C 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=49.38;MQ0=13;OQ=60.20;QD=0.69;SB=-8.74 GT:AD:DP:GL:GQ 0/1:58,29:65:-28.90,-19.59,-216.78:93.04
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chr1 1651158 rs1546882 A G 91.08 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=1.86;MQ=36.24;MQ0=1;OQ=1126.99;QD=14.09;SB=-474.67 GT:AD:DP:GL:GQ 0/1:32,48:73:-138.00,-22.01,-116.79:99
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chr1 1651704 rs61777505 G C 26.06 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=1.62;MQ=32.64;MQ0=2;OQ=1226.35;QD=32.27;SB=-479.52 GT:AD:DP:GL:GQ 1/1:4,34:33:-134.22,-9.95,-8.01:19.39
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chr1 1652175 . C G 107.65 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.31;MQ0=18;OQ=446.15;QD=8.42;SB=-112.32 GT:AD:DP:GL:GQ 0/1:32,21:35:-58.45,-10.56,-85.98:99
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chr1 1652288 rs2281171 A G 55.47 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.68;MQ=47.07;MQ0=0;OQ=1046.84;QD=33.77;SB=-483.46 GT:AD:DP:GL:GQ 1/1:0,31:31:-108.28,-9.34,-0.01:93.26
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chr1 1652674 rs61777506 T C 260.73 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.10;MQ0=0;OQ=1515.24;QD=32.94;SB=-289.56 GT:AD:DP:GL:GQ 1/1:0,46:45:-155.13,-13.56,-0.02:99
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chr1 1652697 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=17;HaplotypeScore=26.60;MQ=53.41;MQ0=0;OQ=216.45;QD=3.80;SB=47.16 GT:AD:DP:GL:GQ 0/1:42,15:40:-36.99,-12.06,-92.34:99
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chr1 1652700 . G A 48.19 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=2;HaplotypeScore=19.75;MQ=52.95;MQ0=0;QD=0.96;SB=53.18 GT:AD:DP:GL:GQ 0/1:40,10:33:-18.05,-9.95,-95.61:81.03
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chr1 1652755 rs61777507 A G 615.92 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.03;MQ0=0;OQ=1969.12;QD=34.55;SB=-927.86 GT:AD:DP:GL:GQ 1/1:0,57:57:-200.52,-17.17,-0.03:99
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chr1 1653262 rs34298494 A C 3.15 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=4.92;MQ=57.93;MQ0=0;OQ=1820.14;QD=28.89;SB=-933.22 GT:AD:DP:GL:GQ 1/1:0,63:59:-185.65,-17.78,-0.05:99
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chr1 1653465 . A G 0.67 PASS AC=2;AF=1.00;AN=2;DP=43;Dels=0.00;HRun=3;HaplotypeScore=0.82;MQ=58.69;MQ0=0;OQ=1218.77;QD=28.34;SB=-585.02 GT:AD:DP:GL:GQ 1/1:0,43:39:-125.50,-11.76,-0.03:99
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chr1 1653691 rs3817856 C T 262.98 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=59.21;MQ0=0;OQ=2006.29;QD=37.85;SB=-990.80 GT:AD:DP:GL:GQ 1/1:0,53:51:-204.23,-15.37,-0.02:99
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chr1 1653879 rs2294488 T C 118.63 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=52.10;MQ0=0;OQ=1419.75;QD=28.40;SB=-681.96 GT:AD:DP:GL:GQ 1/1:0,49:45:-145.60,-13.57,-0.04:99
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chr1 1653984 rs2294489 T C 14.56 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=3;HaplotypeScore=0.63;MQ=58.58;MQ0=0;OQ=1353.88;QD=31.49;SB=-691.09 GT:AD:DP:GL:GQ 1/1:0,43:40:-138.99,-12.05,-0.02:99
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chr1 1655431 rs61777508 T G 492.95 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.47;MQ0=3;OQ=2585.92;QD=31.92;SB=-532.88 GT:AD:DP:GL:GQ 1/1:0,81:75:-262.21,-22.59,-0.04:99
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chr1 1655473 rs4648764 A G 513.83 PASS AC=2;AF=1.00;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.46;MQ0=4;OQ=2874.97;QD=29.64;SB=-827.61 GT:AD:DP:GL:GQ 1/1:1,96:86:-291.13,-25.92,-0.05:99
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chr1 1655600 rs2281176 T C 43.16 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=43.78;MQ0=0;OQ=2374.61;QD=30.44;SB=-588.04 GT:AD:DP:GL:GQ 1/1:0,78:71:-241.09,-21.40,-0.04:99
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chr1 1655607 rs2281177 T C 16.19 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=43.12;MQ0=0;OQ=1801.45;QD=22.24;SB=-550.84 GT:AD:DP:GL:GQ 0/1:17,64:75:-206.03,-22.60,-57.34:99
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chr1 1656111 . G A 19.94 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=24.98;MQ0=9;OQ=1269.10;QD=20.14;SB=-363.89 GT:AD:DP:GL:GQ 0/1:20,43:51:-145.56,-15.37,-46.93:99
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chr1 1656198 rs2072924 G A 130.85 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=-0.06;MQ=29.23;MQ0=3;OQ=1510.31;QD=34.33;SB=-636.84 GT:AD:DP:GL:GQ 1/1:0,44:39:-154.63,-11.75,-0.02:99
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chr1 1656202 rs2072925 A G 35.86 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=31.20;MQ0=3;OQ=1130.90;QD=24.58;SB=-545.87 GT:AD:DP:GL:GQ 1/1:0,46:37:-116.71,-11.16,-0.04:99
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chr1 1656475 rs2076325 C T 114.33 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=50.53;MQ0=0;OQ=1787.32;QD=37.24;SB=-867.16 GT:AD:DP:GL:GQ 1/1:0,48:46:-182.33,-13.86,-0.01:99
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chr1 1657113 rs1474648 T C 589.09 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.20;MQ0=0;OQ=2447.49;QD=32.63;SB=-1145.82 GT:AD:DP:GL:GQ 1/1:0,75:68:-248.35,-20.48,-0.02:99
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chr1 1657231 rs1474649 A G 31.11 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=4.15;MQ=49.42;MQ0=0;OQ=1497.15;QD=33.27;SB=-642.31 GT:AD:DP:GL:GQ 1/1:0,45:43:-153.31,-12.95,-0.02:99
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chr1 1657279 rs2377208 A C 135.92 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=44.04;MQ0=1;OQ=1645.48;QD=30.47;SB=-668.23 GT:AD:DP:GL:GQ 1/1:0,54:48:-168.15,-14.46,-0.02:99
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chr1 1658028 rs28718827 G T 1.42 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=10.14;MQ=51.62;MQ0=0;OQ=1872.10;QD=31.73;SB=-828.68 GT:AD:DP:GL:GQ 1/1:2,57:55:-190.82,-16.57,-0.03:99
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chr1 1658119 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.03;HRun=18;HaplotypeScore=24.79;MQ=51.46;MQ0=0;OQ=102.87;QD=1.49;SB=-23.99 GT:AD:DP:GL:GQ 0/1:55,12:49:-28.05,-14.47,-131.71:99
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chr1 1658135 rs2889577 A G 0.64 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=15.54;MQ=53.86;MQ0=0;OQ=1611.78;QD=21.78;SB=-529.45 GT:AD:DP:GL:GQ 1/1:8,66:53:-172.54,-15.98,-7.77:82.05
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chr1 1658803 rs28537345 A C 60.48 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.02;HRun=1;HaplotypeScore=0.16;MQ=51.80;MQ0=0;OQ=1884.76;QD=31.95;SB=-820.50 GT:AD:DP:GL:GQ 1/1:0,58:56:-192.08,-16.57,-0.02:99
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chr1 1659088 rs11485870 T C 2.06 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=5.25;MQ=48.74;MQ0=0;OQ=1314.03;QD=25.77;SB=-582.00 GT:AD:DP:GL:GQ 1/1:2,49:46:-142.54,-13.87,-7.55:63.21
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chr1 1659426 rs9442408 C T 56.19 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.73;MQ=38.94;MQ0=1;OQ=469.40;QD=7.96;SB=-62.79 GT:AD:DP:GL:GQ 0/1:41,18:57:-67.39,-17.17,-141.22:99
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chr1 1659594 rs61777512 G T 329.49 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.52;MQ0=1;OQ=761.00;QD=27.18;SB=-349.52 GT:AD:DP:GL:GQ 1/1:2,26:23:-79.70,-6.93,-0.01:69.17
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chr1 1659896 . C A 16.91 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=18.32;MQ0=25;OQ=324.85;QD=7.55;SB=-33.35 GT:AD:DP:GL:GQ 0/1:14,29:14:-39.99,-4.22,-11.38:71.59
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chr1 1659905 . C T 19.49 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=18.62;MQ0=24;OQ=356.25;QD=8.28;SB=-31.52 GT:AD:DP:GL:GQ 0/1:14,29:15:-43.43,-4.52,-12.58:80.58
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chr1 1661214 rs2005995 G A 408.17 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=11.78;MQ0=23;OQ=327.72;QD=9.93;SB=-165.22 GT:AD:DP:GL:GQ 1/1:16,17:9:-36.36,-2.71,-0.00:27.09
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chr1 1661590 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=3.96;MQ=36.56;MQ0=3;OQ=54.36;QD=1.05;SB=68.26 GT:AD:DP:GL:GQ 0/1:38,14:35:-19.28,-10.56,-129.90:87.20
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chr1 1661642 rs4648793 C T 457.64 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.04;MQ0=0;OQ=1470.76;QD=37.71;SB=-587.27 GT:AD:DP:GL:GQ 1/1:0,39:38:-150.68,-11.45,-0.01:99
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chr1 1661726 rs7364986 A T 4.25 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=5.15;MQ=47.34;MQ0=1;OQ=2656.76;QD=33.63;SB=-1106.52 GT:AD:DP:GL:GQ 1/1:0,79:72:-269.28,-21.69,-0.02:99
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chr1 1662002 . C T 0.16 PASS AC=2;AF=1.00;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=5.72;MQ=52.52;MQ0=1;OQ=1857.08;QD=37.14;SB=-705.36 GT:AD:DP:GL:GQ 1/1:0,50:47:-189.31,-14.16,-0.02:99
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chr1 1662772 . C T 43.11 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=50.80;MQ0=2;QD=0.70;SB=83.20 GT:AD:DP:GL:GQ 0/1:53,9:53:-23.58,-15.98,-150.38:75.94
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chr1 1663032 . T C 46.58 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.24;MQ=53.54;MQ0=2;QD=0.93;SB=38.12 GT:AD:DP:GL:GQ 0/1:38,9:34:-18.20,-10.26,-102.10:79.41
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chr1 1663379 rs35790103 T C 8.23 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=-0.24;MQ=57.22;MQ0=0;OQ=1409.71;QD=33.56;SB=-634.30 GT:AD:DP:GL:GQ 1/1:0,42:41:-144.58,-12.35,-0.02:99
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chr1 1663767 rs35678883 G C 8.07 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=2.38;MQ=50.72;MQ0=2;OQ=2425.38;QD=39.12;SB=-647.42 GT:AD:DP:GL:GQ 1/1:0,62:56:-246.15,-16.88,-0.03:99
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chr1 1663886 rs36050429 G C 377.70 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.29;MQ0=3;OQ=1259.11;QD=34.03;SB=-328.71 GT:AD:DP:GL:GQ 1/1:0,37:30:-129.51,-9.04,-0.01:90.30
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chr1 1664767 . G C 282.90 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.97;MQ0=0;OQ=606.08;QD=13.77;SB=-320.01 GT:AD:DP:GL:GQ 0/1:24,20:40:-75.96,-12.06,-88.71:99
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chr1 1664855 . A G 129.97 Indel AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=1;HaplotypeScore=9.28;MQ=43.11;MQ0=1;QD=4.06;SB=-24.89 GT:AD:DP:GL:GQ 0/1:24,8:26:-24.12,-7.84,-71.93:99
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chr1 1664856 . G A 433.28 Indel AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=12;HaplotypeScore=9.83;MQ=42.77;MQ0=1;QD=12.74;SB=-25.59 GT:AD:DP:GL:GQ 0/1:18,16:29:-55.35,-8.74,-47.19:99
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chr1 1665027 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=13;HaplotypeScore=3.74;MQ=53.18;MQ0=0;OQ=78.07;QD=1.28;SB=0.76 GT:AD:DP:GL:GQ 0/1:47,14:45:-24.65,-13.56,-131.48:99
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chr1 1665395 . C T 17.70 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.53;MQ=22.06;MQ0=30;QD=0.34;SB=14.07 GT:AD:DP:GL:GQ 0/1:42,10:21:-11.37,-6.32,-66.25:50.46
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chr1 1667416 rs16824474 G C 10.38 LowQual AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=47.86;MQ0=3;QD=0.61;SB=-0.97 GT:AD:DP:GL:GQ 0/1:12,5:14:-8.50,-4.22,-50.97:42.79
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chr1 1670869 . G C 14.33 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=45.06;MQ0=4;QD=0.19;SB=74.28 GT:AD:DP:GL:GQ 0/1:64,12:62:-23.39,-18.69,-239.55:47
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chr1 1670881 . G C 19.24 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=4.38;MQ=42.81;MQ0=4;QD=0.27;SB=74.28 GT:AD:DP:GL:GQ 0/1:59,12:59:-22.99,-17.79,-226.11:52.02
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chr1 1670904 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=38.22;MQ0=4;OQ=63.86;QD=0.91;SB=56.13 GT:AD:DP:GL:GQ 0/1:50,20:51:-25.06,-15.39,-141.72:96.69
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chr1 1670928 . G A 848.58 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=30.83;MQ0=10;QD=13.91;SB=-297.25 GT:AD:DP:GL:GQ 0/1:30,31:35:-98.68,-10.54,-33.99:99
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chr1 1670936 . G T 255.10 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=3;HaplotypeScore=4.00;MQ=28.80;MQ0=12;QD=3.99;SB=20.07 GT:AD:DP:GL:GQ 0/1:33,31:36:-39.64,-10.84,-86.07:99
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chr1 1671525 rs35301881 C T 26.84 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=43.35;MQ0=4;OQ=980.88;QD=30.65;SB=-483.00 GT:AD:DP:GL:GQ 1/1:4,28:26:-101.68,-7.83,-0.01:78.25
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chr1 1672234 rs4648812 G A 127.32 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=26.23;MQ0=1;OQ=275.04;QD=7.86;SB=-150.63 GT:AD:DP:GL:GQ 0/1:24,11:30:-39.83,-9.05,-63.69:99
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chr1 1673187 rs14390 C T 78.82 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=730.68;QD=36.53;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,20:19:-76.66,-5.72,-0.00:57.19
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chr1 1673425 rs12588 G A 34.78 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.63;MQ=30.14;MQ0=16;OQ=466.02;QD=6.66;SB=-83.01 GT:AD:DP:GL:GQ 0/1:47,23:47:-64.06,-14.17,-100.00:99
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chr1 1675073 rs2072928 C G 44.21 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=1.71;MQ=59.55;MQ0=0;OQ=1934.62;QD=37.93;SB=-835.43 GT:AD:DP:GL:GQ 1/1:0,51:47:-197.07,-14.17,-0.02:99
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chr1 1675900 rs4751 G T 24.68 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=1.42;MQ=59.65;MQ0=0;OQ=1889.22;QD=34.99;SB=-617.91 GT:AD:DP:GL:GQ 1/1:0,54:52:-192.52,-15.66,-0.02:99
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chr1 1676803 rs2072929 T C 69.29 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.48;MQ0=0;OQ=1256.22;QD=28.55;SB=-491.53 GT:AD:DP:GL:GQ 1/1:0,44:41:-129.26,-12.37,-0.05:99
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chr1 1676822 rs2076327 C T 34.01 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=4.10;MQ=58.97;MQ0=0;OQ=1637.49;QD=36.39;SB=-774.03 GT:AD:DP:GL:GQ 1/1:0,45:43:-167.35,-12.96,-0.02:99
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chr1 1677485 rs34306661 T C 77.88 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.61;MQ=60.00;MQ0=0;OQ=1787.88;QD=27.94;SB=-566.94 GT:AD:DP:GL:GQ 1/1:0,64:57:-182.43,-17.19,-0.05:99
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chr1 1677651 . C T 157.32 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.08;MQ0=0;OQ=1381.04;QD=20.92;SB=-549.37 GT:AD:DP:GL:GQ 0/1:23,43:64:-160.68,-19.29,-80.55:99
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chr1 1677956 . C T 7.81 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.35;MQ=59.68;MQ0=0;OQ=1209.30;QD=20.50;SB=-531.10 GT:AD:DP:GL:GQ 0/1:22,37:56:-141.09,-16.88,-73.03:99
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chr1 1678052 rs2281173 A G 576.86 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=1215.40;QD=30.39;SB=-536.99 GT:AD:DP:GL:GQ 1/1:0,40:39:-125.17,-11.77,-0.04:99
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chr1 1678329 rs4648623 C G 0.20 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=58.16;MQ0=0;OQ=844.68;QD=36.73;SB=-124.74 GT:AD:DP:GL:GQ 1/1:0,23:22:-88.07,-6.64,-0.02:66.21
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chr1 1678373 rs4648624 G T 1.77 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=58.84;MQ0=0;OQ=639.15;QD=31.96;SB=-120.84 GT:AD:DP:GL:GQ 1/1:0,20:19:-67.51,-5.72,-0.01:57.16
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chr1 1679024 rs2235536 C T 173.64 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=58.47;MQ0=0;OQ=2302.66;QD=39.70;SB=-1126.49 GT:AD:DP:GL:GQ 1/1:0,58:58:-233.87,-17.47,-0.02:99
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chr1 1679622 rs2235537 T C 108.22 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=59.56;MQ0=0;OQ=1772.95;QD=33.45;SB=-589.32 GT:AD:DP:GL:GQ 1/1:0,53:52:-180.90,-15.67,-0.02:99
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chr1 1681624 . G A 66.45 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=58.28;MQ0=0;OQ=379.97;QD=10.00;SB=-141.64 GT:AD:DP:GL:GQ 0/1:24,13:33:-51.23,-9.94,-69.72:99
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chr1 1682181 rs1107910 T C 610.89 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1733.17;QD=30.41;SB=-652.94 GT:AD:DP:GL:GQ 1/1:0,57:55:-176.95,-16.58,-0.05:99
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chr1 1683963 rs2011384 A G 3.98 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=4.20;MQ=58.55;MQ0=0;OQ=1546.21;QD=34.36;SB=-525.21 GT:AD:DP:GL:GQ 1/1:0,45:43:-158.22,-12.95,-0.01:99
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chr1 1684111 . C T 6.27 PASS AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=0;HaplotypeScore=5.81;MQ=58.90;MQ0=0;OQ=1337.84;QD=16.12;SB=-601.14 GT:AD:DP:GL:GQ 0/1:40,41:79:-160.90,-23.83,-119.77:99
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chr1 1685322 rs4648629 C A 210.40 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.13;MQ0=0;OQ=2599.96;QD=34.67;SB=-1123.97 GT:AD:DP:GL:GQ 1/1:0,75:71:-263.60,-21.38,-0.02:99
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chr1 1685434 rs876029 G T 83.73 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1202.21;QD=31.64;SB=-492.27 GT:AD:DP:GL:GQ 1/1:0,38:36:-123.83,-10.85,-0.02:99
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chr1 1685691 rs63093560 C T 514.92 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.49;MQ0=0;OQ=1899.13;QD=37.98;SB=-713.35 GT:AD:DP:GL:GQ 1/1:0,50:49:-193.52,-14.77,-0.02:99
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chr1 1686194 rs35270315 A C 13.33 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=3.38;MQ=58.28;MQ0=0;OQ=2324.40;QD=30.19;SB=-1042.79 GT:AD:DP:GL:GQ 1/1:0,77:73:-236.08,-22.00,-0.06:99
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chr1 1686519 . A G 162.43 PASS AC=2;AF=1.00;AN=2;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=1839.98;QD=29.21;SB=-784.98 GT:AD:DP:GL:GQ 1/1:0,63:60:-187.66,-18.11,-0.08:99
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chr1 1687967 rs35086222 C T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=6;HaplotypeScore=6.25;MQ=58.18;MQ0=0;OQ=2341.51;QD=37.77;SB=-1078.61 GT:AD:DP:GL:GQ 1/1:1,61:60:-237.76,-18.08,-0.02:99
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chr1 1688667 rs4648826 C G 14.69 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.45;MQ=58.62;MQ0=0;OQ=2540.02;QD=41.64;SB=-864.78 GT:AD:DP:GL:GQ 1/1:0,61:58:-257.61,-17.48,-0.02:99
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chr1 1689061 rs4648827 C A 174 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2030.67;QD=34.42;SB=-1001.13 GT:AD:DP:GL:GQ 1/1:1,58:58:-206.68,-17.47,-0.02:99
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chr1 1692374 rs6658139 T C 285.34 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.82;MQ0=0;OQ=1093.26;QD=29.55;SB=-273.03 GT:AD:DP:GL:GQ 0/1:3,34:37:-123.62,-11.15,-11.29:1.44
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chr1 1694514 rs61774982 C A 248.31 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=53.73;MQ0=0;OQ=726.51;QD=34.60;SB=-285.07 GT:AD:DP:GL:GQ 1/1:0,21:21:-76.24,-6.33,-0.01:63.18
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chr1 1695016 . T A 11.74 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=37;Dels=0.03;HRun=0;HaplotypeScore=27.67;MQ=32.06;MQ0=0;QD=0.32;SB=-25.92 GT:AD:DP:GL:GQ 0/1:10,26:10:-7.44,-3.01,-29.53:44.28
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chr1 1695024 . T A 13.63 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=9.62;MQ=29.68;MQ0=0;QD=0.39;SB=-25.92 GT:AD:DP:GL:GQ 0/1:9,26:10:-7.64,-3.01,-29.53:46.28
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chr1 1695026 . T A 81.80 SnpCluster AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=6.65;MQ=32.06;MQ0=0;QD=2.21;SB=-59.89 GT:AD:DP:GL:GQ 0/1:8,29:12:-15.08,-3.61,-28.63:99
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chr1 1695028 . T A 128.81 SnpCluster AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=4.66;MQ=32.06;MQ0=0;QD=3.48;SB=-77.75 GT:AD:DP:GL:GQ 0/1:7,30:9:-18.88,-2.71,-13.92:99
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chr1 1695464 rs61774983 A G 565.11 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.28;MQ0=0;OQ=1675.23;QD=34.19;SB=-712.27 GT:AD:DP:GL:GQ 1/1:0,49:49:-171.13,-14.76,-0.02:99
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chr1 1695607 rs6603809 G A 610.11 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.73;MQ0=0;OQ=1827.34;QD=36.55;SB=-919.23 GT:AD:DP:GL:GQ 1/1:0,50:48:-186.34,-14.47,-0.02:99
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chr1 1695633 rs6603810 A G 70.23 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.63;MQ0=1;OQ=1141.91;QD=27.85;SB=-557.89 GT:AD:DP:GL:GQ 1/1:0,41:37:-117.81,-11.16,-0.04:99
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chr1 1695996 rs6603811 T C 513.06 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1134.00;QD=29.08;SB=-433.18 GT:AD:DP:GL:GQ 1/1:0,39:37:-117.03,-11.17,-0.04:99
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chr1 1696020 rs7531583 A G 565.84 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1293.98;QD=28.76;SB=-649.94 GT:AD:DP:GL:GQ 1/1:0,45:43:-133.03,-12.97,-0.04:99
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chr1 1697600 rs12041925 T G 3.96 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=58.61;MQ0=0;OQ=1724.62;QD=29.73;SB=-619.85 GT:AD:DP:GL:GQ 1/1:0,58:53:-176.09,-15.97,-0.04:99
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chr1 1702090 rs10907194 C T 0.75 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=5.73;MQ=57.94;MQ0=0;OQ=1197.78;QD=35.23;SB=-529.68 GT:AD:DP:GL:GQ 1/1:1,33:31:-123.37,-9.34,-0.01:93.30
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chr1 1703208 rs10907195 C T 76.64 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.55;MQ0=0;OQ=1814.27;QD=37.80;SB=-686.40 GT:AD:DP:GL:GQ 1/1:0,48:45:-185.02,-13.55,-0.01:99
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chr1 1703574 rs454577 T G 67.40 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.89;MQ0=0;OQ=652.72;QD=31.08;SB=-294.53 GT:AD:DP:GL:GQ 1/1:0,21:20:-68.87,-6.03,-0.01:60.16
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chr1 1703729 rs7534617 T G 38.29 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.32;MQ=59.38;MQ0=0;OQ=1200.11;QD=32.44;SB=-519.95 GT:AD:DP:GL:GQ 1/1:0,37:36:-123.61,-10.85,-0.02:99
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chr1 1704871 rs742359 C A 251.57 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.49;MQ0=0;OQ=1398.04;QD=31.07;SB=-698.80 GT:AD:DP:GL:GQ 1/1:0,45:41:-143.41,-12.36,-0.02:99
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chr1 1706848 . G A 26.61 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=2;HaplotypeScore=3.11;MQ=59.44;MQ0=0;QD=0.65;SB=62.22 GT:AD:DP:GL:GQ 0/1:33,8:34:-16.19,-10.25,-103.26:59.43
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chr1 1709327 . C A 45.07 LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=18;HaplotypeScore=15.97;MQ=51.18;MQ0=0;QD=1.07;SB=-1.26 GT:AD:DP:GL:GQ 0/1:34,8:30:-16.83,-9.04,-86.61:77.90
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chr1 1710980 . G C 20.70 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=2.37;MQ=53.66;MQ0=1;QD=0.48;SB=38.15 GT:AD:DP:GL:GQ 0/1:38,5:37:-16.51,-11.16,-138.32:53.50
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chr1 1712688 rs3737627 G A 389.56 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1534.00;QD=37.41;SB=-461.61 GT:AD:DP:GL:GQ 1/1:0,41:41:-157.01,-12.36,-0.03:99
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chr1 1715121 rs7545812 A G 362.56 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=2055.38;QD=33.69;SB=-1042.38 GT:AD:DP:GL:GQ 1/1:0,61:58:-209.15,-17.47,-0.02:99
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chr1 1715620 rs6690956 C T 11.88 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=5.08;MQ=58.81;MQ0=0;OQ=2937.89;QD=37.67;SB=-1197.36 GT:AD:DP:GL:GQ 1/1:0,77:75:-297.40,-22.60,-0.03:99
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chr1 1716741 . G A 184.26 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=52.39;MQ0=0;OQ=1148.50;QD=16.18;SB=-579.64 GT:AD:DP:GL:GQ 0/1:37,34:69:-138.94,-20.80,-109.67:99
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chr1 1718547 rs6603794 C G 73.37 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=3.81;MQ=57.85;MQ0=0;OQ=2921.36;QD=42.96;SB=-1363.94 GT:AD:DP:GL:GQ 1/1:0,68:67:-295.74,-20.18,-0.02:99
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chr1 1722071 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.01;HRun=18;HaplotypeScore=24.45;MQ=58.30;MQ0=0;OQ=60.55;QD=0.72;SB=155.39 GT:AD:DP:GL:GQ 0/1:70,13:70:-30.14,-20.80,-197.36:93.38
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chr1 1724830 rs12077553 C T 351.52 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.34;MQ0=0;OQ=2450.74;QD=39.53;SB=-952.27 GT:AD:DP:GL:GQ 1/1:0,62:62:-248.68,-18.68,-0.02:99
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chr1 1726513 rs12134783 T G 35.44 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=3.77;MQ=59.11;MQ0=0;OQ=1936.28;QD=28.47;SB=-959.69 GT:AD:DP:GL:GQ 1/1:0,68:64:-197.28,-19.30,-0.07:99
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chr1 1726715 rs11260613 A G 12.97 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=55.98;MQ0=0;OQ=727.27;QD=23.46;SB=-220.64 GT:AD:DP:GL:GQ 1/1:0,31:24:-76.34,-7.24,-0.02:72.14
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chr1 1728231 rs11585349 C T 444.74 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.78;MQ0=0;OQ=853.44;QD=13.13;SB=-325.29 GT:AD:DP:GL:GQ 0/1:37,28:63:-107.61,-18.98,-131.07:99
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chr1 1728793 . C A 11.24 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=87;Dels=0.01;HRun=20;HaplotypeScore=12.66;MQ=49.01;MQ0=7;QD=0.13;SB=83.42 GT:AD:DP:GL:GQ 0/1:67,19:60:-22.45,-18.07,-182.40:43.74
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chr1 1731385 rs12407008 A G 570.73 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=1462.68;QD=34.02;SB=-730.24 GT:AD:DP:GL:GQ 1/1:0,43:43:-149.87,-12.95,-0.02:99
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chr1 1733337 rs4648725 G C 64.92 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=54.96;MQ0=0;OQ=2515.07;QD=40.57;SB=-1047.66 GT:AD:DP:GL:GQ 1/1:0,62:59:-255.12,-17.78,-0.02:99
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chr1 1733967 rs6603795 T C 231.72 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.62;MQ0=0;OQ=1265.69;QD=28.77;SB=-184.41 GT:AD:DP:GL:GQ 1/1:0,44:42:-130.20,-12.68,-0.05:99
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chr1 1736016 rs12408690 A G 634.80 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1961.02;QD=35.02;SB=-638.31 GT:AD:DP:GL:GQ 1/1:0,56:56:-199.70,-16.87,-0.02:99
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chr1 1736120 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=20;HaplotypeScore=11.72;MQ=42.99;MQ0=2;OQ=648.30;QD=8.64;SB=8.14 GT:AD:DP:GL:GQ 0/1:44,31:58:-85.60,-17.49,-115.79:99
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chr1 1737932 . A T 32.39 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=5;HaplotypeScore=48.11;MQ=56.04;MQ0=0;QD=0.40;SB=116.40 GT:AD:DP:GL:GQ 0/1:65,15:66:-26.41,-19.89,-217.38:65.23
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chr1 1737943 . C T 27.67 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=20;HaplotypeScore=10.01;MQ=51.69;MQ0=1;QD=0.36;SB=101.33 GT:AD:DP:GL:GQ 0/1:61,16:52:-21.72,-15.67,-162.40:60.50
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chr1 1739272 . T G 33.88 PASS AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=1;HaplotypeScore=2.35;MQ=58.21;MQ0=0;OQ=1071.30;QD=13.56;SB=-555.72 GT:AD:DP:GL:GQ 0/1:40,39:77:-133.61,-23.19,-145.75:99
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chr1 1741546 rs12140085 T C 459.98 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.38;MQ0=0;OQ=960.01;QD=14.12;SB=-398.30 GT:AD:DP:GL:GQ 0/1:32,36:66:-119.17,-19.88,-129.12:99
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chr1 1741636 rs11260615 A G 471.98 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.06;MQ0=1;OQ=1308.14;QD=29.07;SB=-638.27 GT:AD:DP:GL:GQ 1/1:1,44:42:-134.44,-12.67,-0.04:99
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chr1 1742815 rs4648726 C T 274.47 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=3089.56;QD=40.12;SB=-1427.40 GT:AD:DP:GL:GQ 1/1:0,77:77:-312.56,-23.19,-0.02:99
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chr1 1743224 rs7542340 T C 171.92 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=3;HaplotypeScore=-0.06;MQ=58.50;MQ0=0;OQ=2101.69;QD=35.62;SB=-1028.76 GT:AD:DP:GL:GQ 1/1:0,59:59:-213.77,-17.77,-0.02:99
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chr1 1744541 . G A 32.03 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=61;Dels=0.03;HRun=20;HaplotypeScore=23.82;MQ=51.57;MQ0=1;QD=0.53;SB=71.26 GT:AD:DP:GL:GQ 0/1:45,13:49:-20.64,-14.16,-151.56:64.87
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chr1 1748886 rs9786963 T C 652.35 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1920.23;QD=32.55;SB=-686.89 GT:AD:DP:GL:GQ 1/1:0,59:59:-195.65,-17.79,-0.04:99
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chr1 1748914 rs10907187 G A 586.04 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2397.92;QD=36.89;SB=-817.09 GT:AD:DP:GL:GQ 1/1:0,65:65:-243.43,-19.61,-0.05:99
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chr1 1750849 rs12568603 A C 141.73 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=60.00;MQ0=0;OQ=1462.88;QD=34.02;SB=-618.64 GT:AD:DP:GL:GQ 1/1:0,43:43:-149.89,-12.95,-0.02:99
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chr1 1751196 rs1999704 A C 13.93 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=2.14;MQ=56.69;MQ0=1;OQ=2047.05;QD=32.49;SB=-593.04 GT:AD:DP:GL:GQ 1/1:1,62:59:-208.31,-17.77,-0.02:99
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chr1 1751865 rs11260616 A T 0.13 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=6;HaplotypeScore=1.13;MQ=59.11;MQ0=0;OQ=1852.12;QD=35.62;SB=-771.53 GT:AD:DP:GL:GQ 1/1:0,52:52:-188.82,-15.67,-0.02:99
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chr1 1751874 rs7553640 T C 711.95 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=1893.02;QD=35.06;SB=-889.04 GT:AD:DP:GL:GQ 1/1:0,54:53:-192.90,-15.97,-0.02:99
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chr1 1752558 rs6603796 T C 171.81 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=56.20;MQ0=0;OQ=1646.02;QD=32.27;SB=-583.16 GT:AD:DP:GL:GQ 1/1:0,51:48:-168.22,-14.47,-0.03:99
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chr1 1755443 rs6603797 T C 720.20 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=2694.93;QD=35.46;SB=-935.73 GT:AD:DP:GL:GQ 1/1:0,76:74:-273.10,-22.29,-0.02:99
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chr1 1755954 rs6663586 A C 220.63 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.45;MQ0=0;OQ=1370.69;QD=32.64;SB=-604.02 GT:AD:DP:GL:GQ 1/1:0,42:40:-140.67,-12.05,-0.02:99
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chr1 1756219 rs6603798 A G 29.08 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=55.51;MQ0=2;OQ=1475.64;QD=28.38;SB=-669.92 GT:AD:DP:GL:GQ 1/1:2,50:47:-151.19,-14.18,-0.04:99
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chr1 1757221 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=20;HaplotypeScore=10.23;MQ=53.30;MQ0=1;OQ=618.88;QD=9.67;SB=31.58 GT:AD:DP:GL:GQ 0/1:38,25:58:-82.66,-17.49,-122.37:99
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chr1 1758520 rs10752417 C G 0.14 PASS AC=2;AF=1.00;AN=2;DB;DP=106;Dels=0.00;HRun=1;HaplotypeScore=5.58;MQ=57.83;MQ0=0;OQ=4550.45;QD=42.93;SB=-2086.29 GT:AD:DP:GL:GQ 1/1:0,106:103:-454.04,-31.03,-0.03:99
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chr1 1758754 rs10907188 C T 32.55 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=2.66;MQ=58.85;MQ0=1;OQ=2558.37;QD=38.18;SB=-882.18 GT:AD:DP:GL:GQ 1/1:1,66:64:-259.44,-19.28,-0.02:99
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chr1 1759918 rs6603799 T C 1.47 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=10.20;MQ=56.09;MQ0=0;OQ=1988.53;QD=33.14;SB=-981.94 GT:AD:DP:GL:GQ 1/1:1,59:56:-202.45,-16.87,-0.02:99
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chr1 1760648 rs6657357 C G 301.74 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.38;MQ0=0;OQ=2954.84;QD=38.37;SB=-1347.06 GT:AD:DP:GL:GQ 1/1:0,77:74:-299.12,-22.32,-0.05:99
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chr1 1760649 rs6665287 T A 112.70 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=59.39;MQ0=0;OQ=2934.49;QD=37.15;SB=-1492.41 GT:AD:DP:GL:GQ 1/1:0,79:78:-297.05,-23.49,-0.02:99
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chr1 1762348 rs6603800 T G 88.85 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=59.54;MQ0=0;OQ=1401.85;QD=28.04;SB=-481.90 GT:AD:DP:GL:GQ 1/1:0,50:43:-143.80,-12.96,-0.03:99
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chr1 1762595 rs10907189 T C 215.16 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=58.73;MQ0=1;OQ=2558.08;QD=35.53;SB=-1178.50 GT:AD:DP:GL:GQ 1/1:1,71:71:-259.41,-21.39,-0.02:99
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chr1 1763512 rs11260618 A G 251.61 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=34.24;MQ0=0;OQ=1296.92;QD=19.36;SB=-537.23 GT:AD:DP:GL:GQ 1/1:0,67:42:-133.32,-12.67,-0.05:99
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chr1 1763520 rs11260619 C G 204.70 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=32.31;MQ0=0;OQ=1789.21;QD=27.11;SB=-722.93 GT:AD:DP:GL:GQ 1/1:0,66:41:-182.52,-12.35,-0.01:99
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chr1 1763525 rs11260620 T C 490.04 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.33;MQ0=0;OQ=1197.40;QD=18.42;SB=-469.25 GT:AD:DP:GL:GQ 1/1:0,65:37:-123.35,-11.15,-0.02:99
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chr1 1763536 rs11260621 T C 53.91 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=2.15;MQ=32.77;MQ0=1;OQ=1342.11;QD=19.74;SB=-614.98 GT:AD:DP:GL:GQ 1/1:1,67:42:-137.83,-12.66,-0.03:99
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chr1 1763632 rs10907190 G A 500.76 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.92;MQ0=0;OQ=2342.36;QD=38.40;SB=-955.26 GT:AD:DP:GL:GQ 1/1:0,61:60:-237.85,-18.08,-0.03:99
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chr1 1765035 rs11260622 A G 3.08 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=4.83;MQ=58.68;MQ0=1;OQ=1949.34;QD=28.25;SB=-876.43 GT:AD:DP:GL:GQ 1/1:0,68:61:-198.58,-18.40,-0.06:99
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chr1 1766129 rs4648727 C A 222.67 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=59.39;MQ0=0;OQ=2474.83;QD=35.87;SB=-1254.46 GT:AD:DP:GL:GQ 1/1:0,69:68:-251.09,-20.48,-0.02:99
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chr1 1768896 rs6692959 T C 606.28 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=2761.38;QD=31.74;SB=-1372.68 GT:AD:DP:GL:GQ 1/1:0,87:87:-279.80,-26.24,-0.08:99
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chr1 1769657 . A T 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=45;Dels=0.02;HRun=0;HaplotypeScore=8.89;MQ=56.00;MQ0=1;OQ=229.76;QD=5.11;SB=-125.76 GT:AD:DP:GL:GQ 0/1:24,18:27:-34.10,-7.84,-57.21:99
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chr1 1770738 rs6603801 T C 614.13 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1986.61;QD=34.85;SB=-910.02 GT:AD:DP:GL:GQ 1/1:0,57:57:-202.27,-17.17,-0.02:99
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chr1 1771205 rs6664578 G A 696.21 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=3186.74;QD=38.39;SB=-1518.58 GT:AD:DP:GL:GQ 1/1:0,83:81:-322.28,-24.40,-0.02:99
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chr1 1772480 rs12066667 C T 200.36 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.77;MQ0=0;OQ=1986.28;QD=37.48;SB=-1001.85 GT:AD:DP:GL:GQ 1/1:0,53:51:-202.23,-15.37,-0.02:99
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chr1 1773061 rs12402876 G A 282.08 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=57.70;MQ0=0;OQ=2522.68;QD=37.10;SB=-929.21 GT:AD:DP:GL:GQ 1/1:0,68:65:-255.88,-19.59,-0.03:99
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chr1 1773444 rs7526236 G A 531.06 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=1822.31;QD=37.96;SB=-748.50 GT:AD:DP:GL:GQ 1/1:0,48:47:-185.83,-14.16,-0.02:99
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chr1 1782409 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=18;HaplotypeScore=10.25;MQ=50.63;MQ0=2;OQ=451.92;QD=7.66;SB=-97.66 GT:AD:DP:GL:GQ 0/1:39,20:52:-64.14,-15.67,-118.24:99
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chr1 1782428 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=65;Dels=0.02;HRun=18;HaplotypeScore=18.34;MQ=52.25;MQ0=1;OQ=88.42;QD=1.36;SB=56.19 GT:AD:DP:GL:GQ 0/1:56,8:49:-26.89,-14.77,-145.13:99
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chr1 1782863 rs1889678 A G 536.70 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.83;MQ0=0;OQ=1352.43;QD=28.18;SB=-598.57 GT:AD:DP:GL:GQ 1/1:0,48:43:-138.86,-12.97,-0.04:99
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chr1 1782931 rs12076620 A G 575.25 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=1635.06;QD=34.79;SB=-754.18 GT:AD:DP:GL:GQ 1/1:0,47:46:-167.10,-13.85,-0.01:99
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chr1 1782971 rs10907192 A G 594.85 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=1599.36;QD=34.03;SB=-532.43 GT:AD:DP:GL:GQ 1/1:0,47:46:-163.54,-13.86,-0.02:99
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chr1 1783646 rs7511905 A C 266.52 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1582.35;QD=31.65;SB=-751.07 GT:AD:DP:GL:GQ 1/1:0,50:47:-161.84,-14.16,-0.02:99
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chr1 1785347 rs6660452 A C 506.81 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.51;MQ0=0;OQ=1748.60;QD=30.15;SB=-666.84 GT:AD:DP:GL:GQ 1/1:0,58:55:-178.49,-16.58,-0.04:99
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chr1 1785613 . C A 22.53 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=20;HaplotypeScore=2.54;MQ=46.56;MQ0=0;QD=0.48;SB=89.31 GT:AD:DP:GL:GQ 0/1:40,7:41:-17.88,-12.35,-133.39:55.34
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chr1 1785636 rs6697311 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=101;Dels=0.01;HRun=20;HaplotypeScore=31.36;MQ=43.36;MQ0=1;OQ=989.12;QD=9.79;SB=-44.45 GT:AD:DP:GL:GQ 0/1:50,49:75:-124.51,-22.31,-136.94:99
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chr1 1785639 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=98;Dels=0.01;HRun=4;HaplotypeScore=41.45;MQ=42.87;MQ0=1;OQ=381.85;QD=3.90;SB=86.26 GT:AD:DP:GL:GQ 0/1:59,38:65:-60.76,-19.29,-163.75:99
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chr1 1785649 rs12036384 C T 5.26 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=10.21;MQ=50.24;MQ0=1;OQ=2105.43;QD=30.96;SB=-932.26 GT:AD:DP:GL:GQ 1/1:2,63:54:-214.14,-16.27,-0.02:99
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chr1 1786577 rs12134553 A C 2.61 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=7.76;MQ=57.97;MQ0=1;OQ=1915.32;QD=26.98;SB=-959.05 GT:AD:DP:GL:GQ 1/1:3,68:63:-201.59,-18.99,-6.48:99
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chr1 1787250 rs6670246 T A 192 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.78;MQ0=0;OQ=2864.46;QD=33.70;SB=-1257.90 GT:AD:DP:GL:GQ 1/1:2,83:84:-296.95,-25.31,-6.91:99
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chr1 1789560 rs4648591 T C 58.31 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=47.68;MQ0=0;OQ=1563.80;QD=30.66;SB=-605.93 GT:AD:DP:GL:GQ 1/1:0,51:49:-160.01,-14.78,-0.04:99
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chr1 1789813 rs7516995 T C 114.34 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.57;MQ0=0;OQ=1801.38;QD=30.53;SB=-555.03 GT:AD:DP:GL:GQ 1/1:0,59:55:-183.76,-16.58,-0.04:99
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chr1 1790511 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=100;Dels=0.02;HRun=20;HaplotypeScore=40.13;MQ=50.15;MQ0=2;OQ=70.47;QD=0.70;SB=149.46 GT:AD:DP:GL:GQ 0/1:69,28:73:-32.03,-21.69,-222.30:99
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chr1 1790894 rs4648592 G A 598.36 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.49;MQ0=0;OQ=2599.64;QD=38.23;SB=-928.70 GT:AD:DP:GL:GQ 1/1:0,68:65:-263.57,-19.58,-0.02:99
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chr1 1792032 rs6666068 A G 457.40 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2160.60;QD=28.43;SB=-673.85 GT:AD:DP:GL:GQ 1/1:0,76:67:-219.70,-20.20,-0.05:99
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chr1 1794162 rs3855951 C T 52.04 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=2.26;MQ=59.71;MQ0=0;OQ=3179.43;QD=39.74;SB=-1555.57 GT:AD:DP:GL:GQ 1/1:0,80:79:-321.55,-23.80,-0.02:99
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chr1 1795251 rs10907193 G A 266.85 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.20;MQ=60.00;MQ0=0;OQ=1860.92;QD=32.65;SB=-731.44 GT:AD:DP:GL:GQ 1/1:0,56:50:-189.71,-15.08,-0.03:99
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chr1 1796166 rs10399762 A G 54.56 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=58.73;MQ0=0;OQ=1409.98;QD=25.64;SB=-484.50 GT:AD:DP:GL:GQ 1/1:0,55:46:-144.64,-13.88,-0.05:99
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chr1 1798609 . A T 162.96 SnpCluster AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=74.10;MQ=46.50;MQ0=2;QD=4.29;SB=-81.05 GT:AD:DP:GL:GQ 0/1:27,11:32:-29.22,-9.64,-87.24:99
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chr1 1798611 . A T 632.57 SnpCluster AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=43.92;MQ=46.08;MQ0=2;QD=17.10;SB=-306.76 GT:AD:DP:GL:GQ 0/1:10,25:30:-75.58,-9.04,-33.08:99
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chr1 1798613 rs57488553 A T 825.28 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=35.29;MQ=45.64;MQ0=2;QD=22.92;SB=-393.55 GT:AD:DP:GL:GQ 0/1:7,29:31:-95.15,-9.34,-18.41:90.67
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chr1 1798615 rs58263709 A T 846.29 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=33.82;MQ=45.64;MQ0=2;QD=23.51;SB=-402.56 GT:AD:DP:GL:GQ 0/1:6,30:30:-96.95,-9.04,-14.67:56.29
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chr1 1799369 rs11260624 C T 198.24 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.40;MQ0=0;OQ=2735.01;QD=39.07;SB=-1363.94 GT:AD:DP:GL:GQ 1/1:0,69:70:-279.86,-23.72,-2.77:99
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chr1 1799950 rs7525092 C T 160.98 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=3.58;MQ=59.72;MQ0=0;OQ=3051.79;QD=36.77;SB=-1420.35 GT:AD:DP:GL:GQ 1/1:0,83:79:-308.79,-23.80,-0.03:99
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chr1 1800981 rs12133865 G A 87.68 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=56.12;MQ0=0;OQ=1844.69;QD=38.43;SB=-730.97 GT:AD:DP:GL:GQ 1/1:0,48:48:-188.07,-14.47,-0.02:99
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chr1 1802311 . A G 78.46 Indel AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=3;HaplotypeScore=2.28;MQ=57.45;MQ0=0;QD=1.09;SB=-6.51 GT:AD:DP:GL:GQ 0/1:62,10:70:-32.22,-21.09,-246.49:99
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chr1 1802688 rs6670776 G A 560.73 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.03;MQ0=0;OQ=2301.44;QD=40.38;SB=-996.99 GT:AD:DP:GL:GQ 1/1:0,57:57:-233.74,-17.17,-0.01:99
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chr1 1805482 rs12138152 G A 76.26 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.49;MQ0=0;OQ=2306.96;QD=39.10;SB=-1138.66 GT:AD:DP:GL:GQ 1/1:0,59:59:-234.30,-17.78,-0.02:99
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chr1 1807030 rs10796396 G A 291.66 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=49.36;MQ0=0;OQ=1090.79;QD=38.96;SB=-403.67 GT:AD:DP:GL:GQ 1/1:0,28:28:-112.67,-8.43,-0.01:84.28
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chr1 1809238 rs6603804 T C 659.20 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=2030.11;QD=33.84;SB=-689.61 GT:AD:DP:GL:GQ 1/1:0,60:59:-206.62,-17.78,-0.03:99
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chr1 1809966 rs28608797 A C 520.78 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.00;MQ0=0;OQ=1235.99;QD=32.53;SB=-595.06 GT:AD:DP:GL:GQ 1/1:1,37:36:-127.20,-10.84,-0.01:99
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chr1 1813782 rs6688000 A G 233.16 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=58.61;MQ0=0;OQ=1439.33;QD=30.62;SB=-681.87 GT:AD:DP:GL:GQ 1/1:0,46:46:-147.56,-13.87,-0.04:99
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chr1 1818624 rs12045595 G A 59.58 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=59.53;MQ0=0;OQ=1836.38;QD=37.48;SB=-594.97 GT:AD:DP:GL:GQ 1/1:0,49:48:-187.24,-14.46,-0.02:99
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chr1 1821118 rs6603808 A G 79.87 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.43;MQ=60.00;MQ0=0;OQ=1052.30;QD=28.44;SB=-413.55 GT:AD:DP:GL:GQ 1/1:0,37:31:-108.83,-9.34,-0.01:93.27
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chr1 1822217 rs941531 G A 113.99 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=58.68;MQ0=0;OQ=2643.63;QD=39.46;SB=-1073.33 GT:AD:DP:GL:GQ 1/1:0,67:66:-267.97,-19.88,-0.02:99
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chr1 1822410 . A G 49.96 LowQual AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.13;MQ0=0;QD=0.89;SB=-35.78 GT:AD:DP:GL:GQ 0/1:49,7:55:-24.85,-16.57,-195.12:82.80
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chr1 1822442 rs4996032 G A 113.94 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.02;HRun=2;HaplotypeScore=1.09;MQ=59.55;MQ0=0;OQ=884.12;QD=14.03;SB=-419.83 GT:AD:DP:GL:GQ 0/1:35,27:62:-110.37,-18.67,-127.42:99
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chr1 1822448 rs4996031 A G 133.35 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=3.02;MQ=59.08;MQ0=1;OQ=897.87;QD=14.03;SB=-423.51 GT:AD:DP:GL:GQ 0/1:31,33:61:-111.45,-18.38,-115.75:99
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chr1 1823355 rs10454464 G A 100.58 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=57.95;MQ0=0;OQ=1113.42;QD=34.79;SB=-534.62 GT:AD:DP:GL:GQ 1/1:0,31:31:-117.34,-11.71,-2.42:92.95
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chr1 1824608 rs4648731 A G 30.88 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=54.33;MQ0=0;OQ=891.08;QD=28.74;SB=-233.75 GT:AD:DP:GL:GQ 1/1:0,31:26:-92.71,-7.84,-0.01:78.21
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chr1 1824902 rs11260625 G A 47.11 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=46.58;MQ0=0;OQ=814.82;QD=27.16;SB=-295.36 GT:AD:DP:GL:GQ 1/1:0,25:22:-85.08,-6.64,-0.02:66.19
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chr1 1824916 rs11260626 C T 92.97 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.94;MQ=48.72;MQ0=0;OQ=1289.62;QD=36.85;SB=-588.96 GT:AD:DP:GL:GQ 1/1:0,35:34:-132.56,-10.25,-0.01:99
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chr1 1825136 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=16;HaplotypeScore=8.80;MQ=56.14;MQ0=0;OQ=163.77;QD=3.72;SB=41.15 GT:AD:DP:GL:GQ 0/1:27,17:32:-29.31,-9.65,-83.86:99
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chr1 1826546 rs2748989 C G 308.42 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.60;MQ0=0;OQ=2438.44;QD=41.33;SB=-736.72 GT:AD:DP:GL:GQ 1/1:0,59:58:-247.45,-17.48,-0.02:99
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chr1 1827738 rs4648732 C T 470.86 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.97;MQ0=0;OQ=1741.59;QD=38.70;SB=-666.40 GT:AD:DP:GL:GQ 1/1:0,45:44:-177.75,-13.25,-0.01:99
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chr1 1828376 rs2377037 C A 189.26 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=60.00;MQ0=0;OQ=1605.71;QD=33.45;SB=-826.68 GT:AD:DP:GL:GQ 1/1:1,47:46:-164.17,-13.86,-0.02:99
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chr1 1828498 rs28672079 A G 314.26 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.92;MQ0=0;OQ=1270.30;QD=29.54;SB=-594.88 GT:AD:DP:GL:GQ 1/1:0,43:41:-130.66,-12.37,-0.05:99
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chr1 1829551 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=2;HaplotypeScore=17.55;MQ=56.35;MQ0=0;OQ=57.59;QD=1.48;SB=26.11 GT:AD:DP:GL:GQ 0/1:19,19:17:-14.19,-5.14,-50.87:90.43
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chr1 1829898 rs2474461 T C 40.50 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=579.60;QD=34.09;SB=-105.03 GT:AD:DP:GL:GQ 1/1:0,17:17:-61.55,-5.12,-0.01:51.14
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chr1 1830536 rs28384316 G T 112.96 PASS AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=125.10;QD=25.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:5:-16.07,-1.51,-0.01:15.03
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chr1 1832651 . A G 0.32 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=3;HaplotypeScore=1.47;MQ=60.00;MQ0=0;OQ=742.60;QD=18.11;SB=-247.32 GT:AD:DP:GL:GQ 0/1:17,24:40:-89.59,-12.05,-62.50:99
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chr1 1834219 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=20;HaplotypeScore=9.36;MQ=53.72;MQ0=0;OQ=93.63;QD=2.46;SB=11.06 GT:AD:DP:GL:GQ 0/1:25,13:25:-20.18,-7.53,-63.71:99
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chr1 1834282 . T C 14.27 PASS AC=2;AF=1.00;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=417.56;QD=26.10;SB=-221.65 GT:AD:DP:GL:GQ 1/1:0,16:14:-45.35,-4.22,-0.01:42.10
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chr1 1834553 rs28842562 C T 275.34 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.51;MQ0=1;OQ=892.93;QD=34.34;SB=-192.75 GT:AD:DP:GL:GQ 1/1:0,26:23:-92.88,-6.93,-0.01:69.22
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chr1 1836321 rs41306992 C T 57.34 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=59.24;MQ0=0;OQ=2100.54;QD=38.19;SB=-756.01 GT:AD:DP:GL:GQ 1/1:0,55:53:-213.65,-15.97,-0.01:99
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chr1 1836442 rs2748987 A G 431.11 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.71;MQ0=0;OQ=1604.85;QD=34.15;SB=-631.28 GT:AD:DP:GL:GQ 1/1:0,47:47:-164.09,-14.16,-0.02:99
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chr1 1838594 rs941532 A G 20.25 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=58.71;MQ0=0;OQ=477.15;QD=26.51;SB=-129.69 GT:AD:DP:GL:GQ 1/1:0,18:17:-51.32,-5.13,-0.02:51.08
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chr1 1839996 rs2295364 C T 1.07 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.59;MQ0=0;OQ=1245.14;QD=37.73;SB=-117.65 GT:AD:DP:GL:GQ 1/1:0,33:32:-128.11,-9.64,-0.01:96.31
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chr1 1841796 rs2474458 C A 22.03 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=3.16;MQ=58.78;MQ0=0;OQ=1243.51;QD=32.72;SB=-630.04 GT:AD:DP:GL:GQ 1/1:0,38:36:-127.95,-10.85,-0.01:99
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chr1 1842344 rs28508199 A G 34.17 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=58.67;MQ0=0;OQ=1404.62;QD=28.67;SB=-672.87 GT:AD:DP:GL:GQ 1/1:0,49:45:-144.09,-13.57,-0.04:99
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chr1 1843148 rs1884454 G T 340.59 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=56.74;MQ0=0;OQ=831.99;QD=14.34;SB=-322.02 GT:AD:DP:GL:GQ 0/1:28,30:55:-103.05,-16.57,-95.32:99
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chr1 1844181 rs2250833 A G 20.17 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=995.90;QD=27.66;SB=-313.46 GT:AD:DP:GL:GQ 1/1:0,36:31:-103.20,-9.35,-0.02:93.22
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chr1 1845310 rs28423370 A G 170.66 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.78;MQ0=0;OQ=608.06;QD=32.00;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,19:19:-64.40,-5.72,-0.01:57.14
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chr1 1845407 . C A 46.94 LowQual AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=55.21;MQ0=0;QD=9.39;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,3:5:-9.49,-1.51,-6.80:52.97
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chr1 1845958 rs752965 C T 17.19 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.17;MQ0=0;OQ=985.76;QD=35.21;SB=-88.34 GT:AD:DP:GL:GQ 1/1:0,28:26:-102.17,-7.83,-0.01:78.25
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chr1 1846560 rs2092922 C T 67.91 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=58.95;MQ0=0;OQ=1561.86;QD=36.32;SB=-529.71 GT:AD:DP:GL:GQ 1/1:0,43:41:-159.79,-12.36,-0.02:99
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chr1 1848991 rs4648734 C T 0.80 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=7.13;MQ=58.00;MQ0=0;OQ=1973.99;QD=36.56;SB=-772.04 GT:AD:DP:GL:GQ 1/1:0,53:53:-203.45,-18.19,-2.47:99
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chr1 1849418 rs28670388 T C 0.23 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=3;HaplotypeScore=7.22;MQ=55.28;MQ0=2;OQ=1025.15;QD=29.29;SB=-496.47 GT:AD:DP:GL:GQ 1/1:3,32:30:-106.11,-9.04,-0.01:90.24
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chr1 1850605 rs28685049 C T 18.19 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.84;MQ0=0;OQ=778.38;QD=38.92;SB=-47.56 GT:AD:DP:GL:GQ 1/1:0,20:20:-81.43,-6.03,-0.01:60.20
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chr1 1850678 . T A 0.69 PASS AC=1;AF=0.50;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=41.96;MQ0=0;OQ=61.03;QD=6.78;SB=5.04 GT:AD:DP:GL:GQ 0/1:6,3:9:-12.10,-2.71,-21.43:93.87
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chr1 1850683 . G A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=7;Dels=0.00;HRun=0;HaplotypeScore=10.93;MQ=35.14;MQ0=0;OQ=63.11;QD=9.02;SB=-3.99 GT:AD:DP:GL:GQ 0/1:4,3:6:-11.40,-1.81,-10.53:87.27
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chr1 1851012 rs55825112 G A 257.30 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.15;MQ0=0;OQ=1284.14;QD=38.91;SB=-355.97 GT:AD:DP:GL:GQ 1/1:0,33:33:-132.01,-9.94,-0.01:99
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chr1 1852535 rs2474449 C T 115.82 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=42.11;MQ0=1;OQ=2050.54;QD=37.28;SB=-856.64 GT:AD:DP:GL:GQ 1/1:1,54:53:-211.75,-15.96,-3.11:99
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chr1 1852731 . T A 22.37 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=63;Dels=0.05;HRun=20;HaplotypeScore=13.90;MQ=48.22;MQ0=0;QD=0.36;SB=16.21 GT:AD:DP:GL:GQ 0/1:42,18:40:-16.96,-11.45,-121.97:55.18
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chr1 1852818 rs4648595 A G 3.40 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=3.78;MQ=50.34;MQ0=1;OQ=917.27;QD=25.48;SB=-127.78 GT:AD:DP:GL:GQ 1/1:1,35:28:-95.33,-8.44,-0.02:84.22
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chr1 1853042 . C A 10.89 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=20;HaplotypeScore=9.56;MQ=49.02;MQ0=4;QD=0.19;SB=86.27 GT:AD:DP:GL:GQ 0/1:51,7:42:-16.99,-12.66,-132.54:43.35
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chr1 1853068 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=2;HaplotypeScore=13.43;MQ=48.98;MQ0=4;OQ=94.12;QD=1.00;SB=104.36 GT:AD:DP:GL:GQ 0/1:70,24:65:-32.29,-19.60,-195.03:99
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chr1 1853265 rs60147457 T C 26.01 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=56.17;MQ0=0;OQ=1299.21;QD=28.24;SB=-640.40 GT:AD:DP:GL:GQ 1/1:1,45:44:-136.91,-13.28,-3.40:98.74
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chr1 1855559 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=1;HaplotypeScore=1.77;MQ=58.15;MQ0=0;OQ=143.93;QD=1.87;SB=17.18 GT:AD:DP:GL:GQ 0/1:67,10:76:-40.57,-22.90,-237.26:99
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chr1 1855612 rs2748968 C T 224.03 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=2.51;MQ=53.49;MQ0=2;OQ=1207.94;QD=15.10;SB=-597.02 GT:AD:DP:GL:GQ 0/1:40,40:73:-146.08,-22.00,-120.30:99
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chr1 1855646 . T C 0.93 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=9.48;MQ=53.45;MQ0=2;OQ=1049.44;QD=14.78;SB=-537.98 GT:AD:DP:GL:GQ 0/1:31,40:66:-128.11,-19.89,-114.90:99
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chr1 1855674 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=15.63;MQ=50.86;MQ0=1;OQ=126.19;QD=2.25;SB=-24.71 GT:AD:DP:GL:GQ 0/1:49,7:53:-31.88,-15.98,-189.82:99
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chr1 1855675 . A G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=14.63;MQ=50.86;MQ0=1;OQ=886.43;QD=15.83;SB=-281.60 GT:AD:DP:GL:GQ 0/1:21,35:52:-107.60,-15.67,-76.26:99
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chr1 1856033 rs34454803 C G 2.87 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=4.56;MQ=48.03;MQ0=9;OQ=1928.44;QD=26.78;SB=-825.04 GT:AD:DP:GL:GQ 1/1:9,62:49:-203.74,-17.80,-7.31:99
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chr1 1856195 rs61775027 C T 136.98 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=55.46;MQ0=1;OQ=2158.57;QD=29.98;SB=-1089.45 GT:AD:DP:GL:GQ 1/1:8,64:59:-222.77,-17.79,-3.33:99
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chr1 1856465 rs34793596 C G 37.34 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=2.87;MQ=54.29;MQ0=1;OQ=3153.75;QD=39.92;SB=-1439.03 GT:AD:DP:GL:GQ 1/1:3,76:75:-323.13,-22.60,-4.17:99
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chr1 1856473 rs35531706 C G 44.13 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=2.23;MQ=55.29;MQ0=1;OQ=2974.48;QD=40.20;SB=-1193.83 GT:AD:DP:GL:GQ 1/1:1,73:71:-301.06,-21.40,-0.03:99
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chr1 1858345 rs28658236 G A 98.82 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=0.98;MQ=60.00;MQ0=0;OQ=1111.27;QD=16.34;SB=-403.37 GT:AD:DP:GL:GQ 0/1:35,33:68:-134.91,-20.49,-114.02:99
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chr1 1859106 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=2;HaplotypeScore=6.59;MQ=57.30;MQ0=0;OQ=100.83;QD=1.80;SB=56.18 GT:AD:DP:GL:GQ 0/1:31,25:39:-25.12,-11.75,-106.73:99
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chr1 1859766 rs28592294 C T 2.76 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=5.60;MQ=57.03;MQ0=0;OQ=2783.58;QD=37.62;SB=-907.72 GT:AD:DP:GL:GQ 1/1:1,72:73:-285.26,-22.00,-3.32:99
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chr1 1860070 rs2803323 G A 91.89 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=58.89;MQ0=0;OQ=1564.69;QD=37.25;SB=-659.28 GT:AD:DP:GL:GQ 1/1:0,42:41:-160.07,-12.36,-0.02:99
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chr1 1861277 rs2803324 T C 62.39 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.17;MQ0=0;OQ=848.26;QD=30.30;SB=-320.13 GT:AD:DP:GL:GQ 1/1:0,28:28:-88.44,-8.45,-0.03:84.18
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chr1 1863485 rs12758705 G A 595.32 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2263.21;QD=38.36;SB=-926.70 GT:AD:DP:GL:GQ 1/1:0,59:57:-229.92,-17.17,-0.01:99
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chr1 1864441 rs2803329 A G 280.82 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=1008.85;QD=27.27;SB=-491.17 GT:AD:DP:GL:GQ 1/1:0,37:33:-104.50,-9.95,-0.03:99
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chr1 1864697 rs2803330 A G 60.11 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.49;MQ0=0;OQ=756.37;QD=30.25;SB=-313.68 GT:AD:DP:GL:GQ 1/1:0,25:22:-79.23,-6.63,-0.01:66.20
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chr1 1865005 rs2803331 C T 233.79 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=58.84;MQ0=0;OQ=1354.55;QD=33.86;SB=-668.39 GT:AD:DP:GL:GQ 1/1:0,37:37:-139.06,-11.16,-0.02:99
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chr1 1865127 rs2262190 A G 525.82 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.03;MQ0=0;OQ=948.06;QD=30.58;SB=-404.33 GT:AD:DP:GL:GQ 1/1:0,31:30:-98.41,-9.05,-0.02:90.22
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chr1 1867098 rs2748978 T G 544.45 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.39;MQ0=0;OQ=1416.47;QD=34.55;SB=-657.23 GT:AD:DP:GL:GQ 1/1:0,41:41:-145.24,-12.35,-0.01:99
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chr1 1867212 rs2803339 T C 83.30 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=54.90;MQ0=0;OQ=1104.15;QD=27.60;SB=-492.17 GT:AD:DP:GL:GQ 1/1:1,39:37:-114.04,-11.17,-0.04:99
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chr1 1868944 rs2490543 C T 282.58 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=58.05;MQ0=0;OQ=849.11;QD=14.15;SB=-315.86 GT:AD:DP:GL:GQ 0/1:33,27:55:-104.77,-16.57,-95.97:99
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chr1 1868947 rs28573337 G A 161.30 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=57.95;MQ0=0;OQ=983.65;QD=17.26;SB=-292.79 GT:AD:DP:GL:GQ 0/1:26,31:55:-118.23,-16.58,-80.47:99
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chr1 1869420 rs28498068 T G 172.46 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=56.75;MQ0=0;OQ=395.95;QD=11.31;SB=-182.88 GT:AD:DP:GL:GQ 0/1:18,17:34:-53.12,-10.25,-61.66:99
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chr1 1869908 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=14;HaplotypeScore=14.65;MQ=46.99;MQ0=0;OQ=127.58;QD=2.90;SB=11.06 GT:AD:DP:GL:GQ 0/1:29,15:29:-24.78,-8.74,-71.11:99
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chr1 1870211 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=105;Dels=0.02;HRun=2;HaplotypeScore=156.21;MQ=37.45;MQ0=0;OQ=89.02;QD=0.85;SB=-10.74 GT:AD:DP:GL:GQ 0/1:91,12:93:-39.61,-27.42,-314.70:99
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chr1 1870216 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.13;HRun=3;HaplotypeScore=129.57;MQ=35.88;MQ0=0;OQ=216.82;QD=2.28;SB=-71.49 GT:AD:DP:GL:GQ 0/1:69,14:77:-47.26,-22.30,-241.64:99
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chr1 1870237 . C T 350.17 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=136.82;MQ=33.84;MQ0=0;QD=4.38;SB=-96.57 GT:AD:DP:GL:GQ 0/1:64,16:68:-58.79,-20.48,-197.51:99
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chr1 1870241 . T C 795.72 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=2;HaplotypeScore=105.65;MQ=33.28;MQ0=0;QD=10.33;SB=-171.98 GT:AD:DP:GL:GQ 0/1:49,28:68:-103.35,-20.49,-158.12:99
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chr1 1870246 . T C 783.37 SnpCluster AC=1;AF=0.50;AN=2;DP=75;Dels=0.01;HRun=3;HaplotypeScore=106.17;MQ=32.28;MQ0=0;QD=10.44;SB=-190.65 GT:AD:DP:GL:GQ 0/1:44,29:65:-101.22,-19.60,-139.10:99
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chr1 1870249 rs28490251 C T 536.49 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=65.25;MQ=33.25;MQ0=0;QD=8.01;SB=-19.48 GT:AD:DP:GL:GQ 0/1:45,22:60:-75.01,-18.07,-158.51:99
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chr1 1870263 . T C 67.37 SnpCluster AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=2;HaplotypeScore=102.33;MQ=35.77;MQ0=0;QD=1.07;SB=-0.98 GT:AD:DP:GL:GQ 0/1:55,8:53:-25.99,-15.97,-184.95:99
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chr1 1870272 . C T 96.33 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=2;HaplotypeScore=53.42;MQ=40.73;MQ0=0;QD=1.55;SB=5.03 GT:AD:DP:GL:GQ 0/1:52,10:55:-29.48,-16.57,-180.28:99
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chr1 1870273 . T C 72.37 SnpCluster AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=2;HaplotypeScore=53.42;MQ=40.73;MQ0=0;QD=1.17;SB=-0.98 GT:AD:DP:GL:GQ 0/1:55,7:53:-26.49,-15.97,-188.35:99
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chr1 1870281 . C T 187.69 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=96.79;MQ=44.56;MQ0=0;QD=3.24;SB=5.04 GT:AD:DP:GL:GQ 0/1:46,12:51:-37.41,-15.36,-160.10:99
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chr1 1870294 . T C 11.65 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=10.99;MQ=47.97;MQ0=0;QD=0.19;SB=8.05 GT:AD:DP:GL:GQ 0/1:55,6:59:-22.20,-17.78,-213.89:44.18
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chr1 1870405 . C A 16.24 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=38.44;MQ0=0;OQ=457.23;QD=8.97;SB=-4.29 GT:AD:DP:GL:GQ 0/1:33,18:50:-64.07,-15.06,-117.59:99
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chr1 1870410 . T C 0.86 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=38.95;MQ0=0;OQ=422.51;QD=8.80;SB=-31.25 GT:AD:DP:GL:GQ 0/1:31,17:47:-59.69,-14.16,-126.57:99
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chr1 1870428 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=1;HaplotypeScore=20.35;MQ=41.74;MQ0=0;OQ=75.20;QD=2.15;SB=23.10 GT:AD:DP:GL:GQ 0/1:27,8:31:-20.14,-9.34,-96.20:99
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chr1 1870432 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=16.08;MQ=42.82;MQ0=0;OQ=52.58;QD=1.81;SB=29.11 GT:AD:DP:GL:GQ 0/1:24,5:28:-16.98,-8.43,-86.35:85.42
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chr1 1870446 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=25;Dels=0.04;HRun=2;HaplotypeScore=17.65;MQ=47.45;MQ0=0;OQ=105.58;QD=4.22;SB=-62.85 GT:AD:DP:GL:GQ 0/1:18,6:24:-20.77,-6.93,-68.32:99
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chr1 1871370 rs2490541 C A 191.01 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.38;MQ0=1;OQ=2594.06;QD=33.69;SB=-1155.38 GT:AD:DP:GL:GQ 1/1:0,76:73:-263.01,-21.99,-0.02:99
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chr1 1872147 rs2490540 A G 201.87 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.87;MQ0=0;OQ=2121.33;QD=34.22;SB=-1028.42 GT:AD:DP:GL:GQ 1/1:0,62:60:-215.74,-18.07,-0.02:99
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chr1 1872797 rs28754760 C T 596.04 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.63;MQ0=0;OQ=2762.82;QD=40.63;SB=-1367.30 GT:AD:DP:GL:GQ 1/1:0,68:68:-279.88,-20.48,-0.01:99
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chr1 1872809 rs2490564 A G 614.38 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.49;MQ0=0;OQ=2664.00;QD=34.60;SB=-1257.66 GT:AD:DP:GL:GQ 1/1:0,77:76:-270.02,-22.89,-0.03:99
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chr1 1872820 rs2490563 C A 537.89 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.73;MQ0=0;OQ=2673.37;QD=36.62;SB=-1103.59 GT:AD:DP:GL:GQ 1/1:0,73:73:-270.94,-21.99,-0.02:99
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chr1 1872941 rs28505085 C T 182.42 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.70;MQ0=0;OQ=3049.13;QD=40.12;SB=-1406.71 GT:AD:DP:GL:GQ 1/1:0,76:76:-308.51,-22.89,-0.02:99
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chr1 1873219 rs2490562 A G 659.58 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.78;MQ0=0;OQ=2029.90;QD=31.23;SB=-828.58 GT:AD:DP:GL:GQ 1/1:0,65:64:-206.63,-19.30,-0.05:99
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chr1 1874915 rs2474455 C T 626.28 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=2935.86;QD=37.64;SB=-1349.01 GT:AD:DP:GL:GQ 1/1:0,78:74:-297.19,-22.29,-0.02:99
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chr1 1876080 rs4648738 C T 622.15 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.86;MQ0=0;OQ=2172.76;QD=36.21;SB=-969.30 GT:AD:DP:GL:GQ 1/1:0,60:56:-220.88,-16.87,-0.02:99
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chr1 1876082 rs2803287 T G 577.20 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.86;MQ0=0;OQ=1927.37;QD=32.12;SB=-839.09 GT:AD:DP:GL:GQ 1/1:0,60:56:-196.35,-16.87,-0.02:99
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chr1 1876206 . G A 152.24 Indel AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=32.79;MQ=48.52;MQ0=0;QD=4.91;SB=-65.27 GT:AD:DP:GL:GQ 0/1:20,7:27:-34.54,-16.03,-70.20:99
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chr1 1876245 rs2803286 T C 61.43 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=51.77;MQ0=0;OQ=999.35;QD=27.76;SB=-355.43 GT:AD:DP:GL:GQ 1/1:0,36:34:-103.57,-10.26,-0.05:99
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chr1 1876361 rs2748976 C A 113.55 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=45.22;MQ0=0;OQ=179.32;QD=6.90;SB=-106.45 GT:AD:DP:GL:GQ 0/1:18,8:25:-28.75,-7.53,-52.51:99
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chr1 1876371 . C A 48.69 LowQual AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=43.76;MQ0=0;QD=2.03;SB=-50.67 GT:AD:DP:GL:GQ 0/1:20,4:23:-15.08,-6.93,-60.82:81.52
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chr1 1876379 rs2748975 C A 111.71 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=47.73;MQ0=0;OQ=820.31;QD=34.18;SB=-360.86 GT:AD:DP:GL:GQ 1/1:0,24:23:-85.62,-6.93,-0.01:69.21
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chr1 1876719 rs3795290 C T 341.91 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.08;MQ0=0;OQ=1064.55;QD=38.02;SB=-422.06 GT:AD:DP:GL:GQ 1/1:0,28:28:-110.05,-8.44,-0.01:84.27
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chr1 1876879 rs28548017 A G 12.14 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=3.36;MQ=59.09;MQ0=0;OQ=1547.11;QD=33.63;SB=-748.91 GT:AD:DP:GL:GQ 1/1:0,45:45:-158.32,-13.56,-0.02:99
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chr1 1877105 rs28575980 G A 126.28 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=58.88;MQ0=0;OQ=2123.64;QD=39.33;SB=-940.36 GT:AD:DP:GL:GQ 1/1:0,54:54:-215.96,-16.27,-0.02:99
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chr1 1878053 rs3820011 C A 596.21 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1358.01;QD=33.95;SB=-534.23 GT:AD:DP:GL:GQ 1/1:0,40:39:-139.40,-11.75,-0.01:99
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chr1 1878190 rs28535696 C T 4.02 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=5.27;MQ=59.60;MQ0=0;OQ=1961.78;QD=33.82;SB=-651.37 GT:AD:DP:GL:GQ 1/1:0,56:52:-199.79,-15.68,-0.03:99
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chr1 1878229 rs2803285 A G 106.12 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.79;MQ=60.00;MQ0=0;OQ=1952.57;QD=31.49;SB=-789.62 GT:AD:DP:GL:GQ 1/1:0,62:61:-198.90,-18.40,-0.05:99
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chr1 1878313 rs28549710 G A 560.24 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=1883.77;QD=38.44;SB=-852.64 GT:AD:DP:GL:GQ 1/1:0,49:48:-191.98,-14.46,-0.02:99
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chr1 1878885 rs2748974 A G 5.77 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=2.37;MQ=58.15;MQ0=0;OQ=1276.90;QD=26.60;SB=-511.07 GT:AD:DP:GL:GQ 1/1:1,47:40:-131.31,-12.06,-0.03:99
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chr1 1878935 rs941533 C T 78.39 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=58.81;MQ0=0;OQ=1331.51;QD=34.14;SB=-642.34 GT:AD:DP:GL:GQ 1/1:0,39:35:-136.75,-10.55,-0.02:99
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chr1 1879652 rs2748973 A T 145.27 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=1566.33;QD=34.81;SB=-658.70 GT:AD:DP:GL:GQ 1/1:0,44:44:-160.23,-13.26,-0.02:99
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chr1 1881908 rs2803292 G C 343.50 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=1280.73;QD=16.85;SB=-445.74 GT:AD:DP:GL:GQ 0/1:41,35:73:-153.35,-22.00,-166.87:99
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chr1 1882185 rs2803291 T C 583.24 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1616.58;QD=28.87;SB=-749.95 GT:AD:DP:GL:GQ 1/1:0,56:52:-165.29,-15.68,-0.05:99
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chr1 1883521 rs9777849 T C 52.56 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=1.11;MQ=58.55;MQ0=0;OQ=2600.99;QD=33.78;SB=-793.15 GT:AD:DP:GL:GQ 1/1:0,77:75:-263.71,-22.59,-0.03:99
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chr1 1883775 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=18;HaplotypeScore=34.55;MQ=54.67;MQ0=0;OQ=115.46;QD=1.72;SB=60.06 GT:AD:DP:GL:GQ 0/1:50,15:53:-37.44,-22.61,-153.19:99
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chr1 1884144 rs4648739 T C 265.60 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=56.66;MQ0=0;OQ=1089.11;QD=12.10;SB=-234.30 GT:AD:DP:GL:GQ 0/1:41,48:84:-137.52,-25.33,-160.93:99
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chr1 1884622 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=2;HaplotypeScore=7.50;MQ=53.07;MQ0=0;OQ=108.82;QD=2.02;SB=71.24 GT:AD:DP:GL:GQ 0/1:31,23:39:-25.91,-11.75,-106.64:99
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chr1 1884705 rs9697615 G A 136.68 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=58.71;MQ0=0;OQ=608.41;QD=12.94;SB=-170.23 GT:AD:DP:GL:GQ 0/1:24,22:44:-77.39,-13.26,-79.80:99
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chr1 1884754 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=43.50;MQ=52.44;MQ0=1;OQ=107.17;QD=1.76;SB=65.22 GT:AD:DP:GL:GQ 0/1:47,13:52:-29.66,-15.66,-164.16:99
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chr1 1884755 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=20;HaplotypeScore=45.92;MQ=52.41;MQ0=1;OQ=326.78;QD=5.11;SB=65.23 GT:AD:DP:GL:GQ 0/1:48,16:59:-53.73,-17.77,-157.95:99
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chr1 1884837 rs35817970 T C 556.60 Indel AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.07;MQ=55.91;MQ0=0;QD=10.91;SB=-219.26 GT:AD:DP:GL:GQ 0/1:29,21:48:-73.41,-14.46,-106.68:99
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chr1 1885037 rs7523728 C T 495.93 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.35;MQ0=0;OQ=754.75;QD=13.98;SB=-403.19 GT:AD:DP:GL:GQ 0/1:30,24:50:-93.83,-15.07,-88.75:99
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chr1 1885400 rs28561741 A G 4.33 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=3;HaplotypeScore=1.47;MQ=59.52;MQ0=0;OQ=350.23;QD=7.30;SB=-137.55 GT:AD:DP:GL:GQ 0/1:31,17:46:-52.17,-13.87,-117.69:99
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chr1 1885962 rs13302978 G A 113.63 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=4.25;MQ=53.12;MQ0=0;OQ=689.28;QD=12.53;SB=-222.75 GT:AD:DP:GL:GQ 0/1:26,26:49:-87.00,-14.79,-79.84:99
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chr1 1886045 rs13303324 T C 252.63 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.41;MQ0=0;OQ=434.96;QD=11.15;SB=-181.59 GT:AD:DP:GL:GQ 0/1:18,21:37:-57.94,-11.16,-71.83:99
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chr1 1886083 rs13303202 C T 406.23 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=730.31;QD=16.98;SB=-346.33 GT:AD:DP:GL:GQ 0/1:21,22:43:-89.27,-12.95,-73.96:99
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chr1 1886300 rs16824585 G A 23.99 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=56.05;MQ0=0;OQ=933.53;QD=20.75;SB=-382.89 GT:AD:DP:GL:GQ 0/1:18,27:45:-110.19,-13.56,-62.00:99
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chr1 1886413 rs28625839 C T 106.43 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.20;MQ0=0;OQ=181.47;QD=6.98;SB=-69.07 GT:AD:DP:GL:GQ 0/1:17,9:21:-27.77,-6.34,-42.14:99
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chr1 1887329 rs28523363 A G 314.68 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.33;MQ=60.00;MQ0=0;OQ=843.98;QD=13.40;SB=-333.92 GT:AD:DP:GL:GQ 0/1:32,31:62:-106.36,-18.68,-128.89:99
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chr1 1887451 rs4648599 C T 245.43 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=58.01;MQ0=0;OQ=690.92;QD=14.70;SB=-275.28 GT:AD:DP:GL:GQ 0/1:24,23:44:-85.64,-13.26,-73.07:99
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chr1 1887613 rs4648600 C G 12.90 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=4.38;MQ=58.99;MQ0=0;OQ=734.25;QD=15.96;SB=-239.38 GT:AD:DP:GL:GQ 0/1:23,23:42:-89.37,-12.66,-89.33:99
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chr1 1887905 rs28712827 G A 21.15 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=6.31;MQ=57.89;MQ0=0;OQ=502.21;QD=13.22;SB=-250.22 GT:AD:DP:GL:GQ 0/1:20,17:35:-64.07,-10.57,-52.53:99
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chr1 1888209 rs28414188 C T 21.14 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=2.66;MQ=59.03;MQ0=0;OQ=593.85;QD=13.81;SB=-128.12 GT:AD:DP:GL:GQ 0/1:24,19:42:-75.32,-12.65,-82.23:99
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chr1 1888229 rs28629936 G A 50.03 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.95;MQ0=0;OQ=708.17;QD=17.70;SB=-204.21 GT:AD:DP:GL:GQ 0/1:19,21:39:-85.85,-11.75,-58.81:99
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chr1 1888545 rs17715950 T C 188.94 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=392.93;QD=12.68;SB=-143.27 GT:AD:DP:GL:GQ 0/1:16,15:29:-51.31,-8.74,-58.30:99
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chr1 1888637 rs34506333 G C 174.46 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.80;MQ=57.85;MQ0=0;OQ=1081.48;QD=18.97;SB=-492.64 GT:AD:DP:GL:GQ 0/1:26,30:56:-128.32,-16.89,-103.04:99
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chr1 1888639 rs35698161 C A 246.37 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.80;MQ=57.81;MQ0=0;OQ=901.53;QD=16.10;SB=-413.05 GT:AD:DP:GL:GQ 0/1:26,30:56:-110.30,-16.87,-89.43:99
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chr1 1888688 rs34824947 T C 245.62 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=58.71;MQ0=0;OQ=584.90;QD=12.44;SB=-198.60 GT:AD:DP:GL:GQ 0/1:25,22:46:-75.63,-13.86,-99.35:99
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chr1 1888695 rs34586002 C A 280.09 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.48;MQ0=0;OQ=561.20;QD=12.75;SB=-230.89 GT:AD:DP:GL:GQ 0/1:24,20:42:-72.05,-12.65,-79.10:99
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chr1 1888719 rs35031992 G A 261.38 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=534.91;QD=11.38;SB=-199.88 GT:AD:DP:GL:GQ 0/1:28,19:46:-70.65,-13.87,-88.35:99
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chr1 1888794 rs35186797 T C 29.82 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=2.78;MQ=57.65;MQ0=0;OQ=525.33;QD=10.94;SB=-267.94 GT:AD:DP:GL:GQ 0/1:23,25:43:-68.78,-12.96,-87.05:99
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chr1 1888798 rs13303138 G A 173.43 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=57.75;MQ0=0;OQ=779.95;QD=15.60;SB=-266.18 GT:AD:DP:GL:GQ 0/1:24,26:46:-95.14,-13.87,-72.15:99
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chr1 1888835 rs34940616 G A 9.86 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.88;MQ0=0;OQ=741.91;QD=23.93;SB=-335.86 GT:AD:DP:GL:GQ 0/1:9,22:29:-86.21,-8.74,-25.83:99
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chr1 1889024 rs17778128 G C 179.10 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=57.35;MQ0=0;OQ=668.72;QD=10.79;SB=-360.78 GT:AD:DP:GL:GQ 0/1:38,24:59:-87.94,-17.79,-162.55:99
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chr1 1889139 rs61775058 A T 458.44 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.25;MQ0=0;OQ=787.44;QD=13.58;SB=-299.67 GT:AD:DP:GL:GQ 0/1:31,27:58:-99.50,-17.47,-121.67:99
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chr1 1889179 rs61775059 T C 275.84 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=58.27;MQ0=0;OQ=765.16;QD=11.42;SB=-328.14 GT:AD:DP:GL:GQ 0/1:35,32:66:-99.69,-19.89,-140.70:99
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chr1 1889260 rs13303007 G A 42.33 Indel;LowQual AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=6.98;MQ=52.93;MQ0=0;QD=0.73;SB=-30.38 GT:AD:DP:GL:GQ 0/1:52,6:58:-24.99,-17.47,-182.54:75.16
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chr1 1889721 rs4648601 C T 94.28 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=56.35;MQ0=0;OQ=530.41;QD=10.20;SB=-77.51 GT:AD:DP:GL:GQ 0/1:33,19:47:-70.50,-14.17,-95.11:99
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chr1 1890092 rs16824588 T C 13.33 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=57.02;MQ0=0;OQ=150.77;QD=3.97;SB=-54.71 GT:AD:DP:GL:GQ 0/1:26,12:35:-28.91,-10.55,-104.30:99
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chr1 1890192 rs55709963 A G 31.87 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=56.20;MQ0=0;OQ=293.66;QD=11.75;SB=-65.87 GT:AD:DP:GL:GQ 0/1:12,13:24:-39.88,-7.23,-45.12:99
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chr1 1890199 rs56126097 A G 24.29 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=55.86;MQ0=0;OQ=270.97;QD=11.78;SB=-47.83 GT:AD:DP:GL:GQ 0/1:11,12:22:-37.01,-6.63,-43.67:99
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chr1 1890235 rs55676322 G A 36.70 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.45;MQ0=0;QD=2.82;SB=-3.98 GT:AD:DP:GL:GQ 0/1:10,3:12:-10.57,-3.62,-30.38:69.54
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chr1 1890236 . C T 56.05 SnpCluster AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=53.03;MQ0=0;QD=4.00;SB=-3.98 GT:AD:DP:GL:GQ 0/1:11,3:13:-12.81,-3.92,-36.41:88.89
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chr1 1890241 rs55784504 G A 37.70 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=53.95;MQ0=0;QD=2.36;SB=-0.97 GT:AD:DP:GL:GQ 0/1:13,3:15:-11.57,-4.52,-40.91:70.54
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chr1 1890268 rs61776961 A G 12.56 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=1;HaplotypeScore=1.72;MQ=53.61;MQ0=0;QD=0.66;SB=-31.93 GT:AD:DP:GL:GQ 0/1:15,4:17:-9.64,-5.12,-56.10:45.15
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chr1 1890270 rs61776962 C T 67.49 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=2.55;MQ=53.03;MQ0=0;QD=3.21;SB=-45.25 GT:AD:DP:GL:GQ 0/1:16,5:19:-15.77,-5.74,-45.89:99
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chr1 1890274 rs61776963 T C 59.17 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=2;HaplotypeScore=2.43;MQ=51.33;MQ0=0;QD=2.96;SB=-53.70 GT:AD:DP:GL:GQ 0/1:14,6:19:-14.93,-5.73,-56.51:92.01
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chr1 1890292 rs61776964 T G 172.84 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=50.53;MQ0=0;OQ=263.44;QD=9.08;SB=-95.94 GT:AD:DP:GL:GQ 0/1:17,12:28:-38.07,-8.44,-56.66:99
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chr1 1890305 rs61776965 C T 161.45 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=1.46;MQ=50.32;MQ0=0;OQ=365.34;QD=11.79;SB=-175.70 GT:AD:DP:GL:GQ 0/1:18,13:27:-47.95,-8.13,-56.49:99
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chr1 1890314 rs6681749 A G 143.47 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=50.65;MQ0=0;OQ=306.18;QD=9.57;SB=-129.77 GT:AD:DP:GL:GQ 0/1:17,15:29:-42.64,-8.74,-64.98:99
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chr1 1890507 . T C 42.73 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=2;HaplotypeScore=3.92;MQ=54.77;MQ0=0;QD=1.86;SB=14.07 GT:AD:DP:GL:GQ 0/1:16,7:17:-12.68,-5.13,-48.62:75.57
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chr1 1890548 . A T 8.30 PASS AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=2.73;MQ=60.00;MQ0=0;OQ=79.81;QD=7.98;SB=-57.71 GT:AD:DP:GL:GQ 0/1:6,4:10:-14.28,-3.01,-22.53:99
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chr1 1890778 rs28707401 G A 84.90 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=2.74;MQ=58.33;MQ0=0;OQ=401.02;QD=14.32;SB=-129.13 GT:AD:DP:GL:GQ 0/1:13,14:24:-53.53,-10.14,-35.22:99
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chr1 1892326 . A C 112.36 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.98;MQ=59.24;MQ0=0;OQ=852.28;QD=15.50;SB=-429.85 GT:AD:DP:GL:GQ 0/1:26,29:52:-104.18,-15.67,-81.22:99
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chr1 1892422 rs7367171 A G 220.04 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.60;MQ0=0;OQ=514.17;QD=9.02;SB=-267.96 GT:AD:DP:GL:GQ 0/1:32,25:54:-70.98,-16.28,-126.05:99
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chr1 1892426 rs7367879 G A 251.13 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=59.60;MQ0=0;OQ=832.91;QD=14.36;SB=-352.38 GT:AD:DP:GL:GQ 0/1:32,26:52:-102.26,-15.68,-81.39:99
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chr1 1892733 rs7366028 C T 234.62 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.35;MQ0=0;OQ=1086.69;QD=15.31;SB=-535.37 GT:AD:DP:GL:GQ 0/1:36,35:67:-132.15,-20.20,-106.68:99
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chr1 1893163 rs4648603 C T 25.39 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.03;MQ=59.48;MQ0=0;OQ=261.75;QD=5.95;SB=-111.10 GT:AD:DP:GL:GQ 0/1:32,12:41:-41.83,-12.38,-90.87:99
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chr1 1893572 rs13303201 C A 360.69 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=57.58;MQ0=0;OQ=726.40;QD=15.46;SB=-340.06 GT:AD:DP:GL:GQ 0/1:22,25:44:-89.18,-13.26,-62.88:99
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chr1 1895166 rs56313717 C A 171.85 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=635.59;QD=15.13;SB=-197.47 GT:AD:DP:GL:GQ 0/1:18,24:41:-79.20,-12.35,-61.36:99
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chr1 1897772 rs7528894 C T 135.70 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=58.63;MQ0=0;OQ=607.52;QD=11.91;SB=-152.65 GT:AD:DP:GL:GQ 0/1:30,21:44:-77.30,-13.26,-84.20:99
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chr1 1897865 rs7536087 T C 25.44 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=54.74;MQ0=0;OQ=378.78;QD=5.83;SB=-147.48 GT:AD:DP:GL:GQ 0/1:38,27:56:-58.05,-16.88,-148.17:99
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chr1 1897872 rs28588807 T C 29.81 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.38;MQ=53.22;MQ0=0;OQ=367.97;QD=6.24;SB=-166.50 GT:AD:DP:GL:GQ 0/1:36,23:50:-55.16,-15.08,-127.98:99
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chr1 1897899 rs4388640 C T 188.74 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=52.25;MQ0=0;OQ=499.97;QD=8.20;SB=-247.55 GT:AD:DP:GL:GQ 0/1:39,22:51:-68.65,-15.37,-112.84:99
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chr1 1897945 rs28410799 A G 3.16 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=5.71;MQ=54.36;MQ0=0;OQ=341.23;QD=5.59;SB=-142.90 GT:AD:DP:GL:GQ 0/1:39,21:52:-53.08,-15.68,-138.70:99
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chr1 1897960 rs28789409 G T 236.91 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=55.27;MQ0=0;OQ=569.89;QD=9.19;SB=-286.60 GT:AD:DP:GL:GQ 0/1:38,24:59:-78.04,-17.77,-137.70:99
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chr1 1898245 rs13303203 C T 367.31 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.47;MQ0=0;OQ=546.46;QD=10.31;SB=-185.87 GT:AD:DP:GL:GQ 0/1:33,20:47:-72.10,-14.17,-90.13:99
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chr1 1898289 rs28545809 T C 170.68 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=55.94;MQ0=0;OQ=320.54;QD=7.82;SB=-173.95 GT:AD:DP:GL:GQ 0/1:24,16:37:-46.49,-11.16,-87.43:99
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chr1 1898563 rs4233027 C G 427.81 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.18;MQ0=0;OQ=977.32;QD=15.27;SB=-297.92 GT:AD:DP:GL:GQ 0/1:36,28:63:-120.00,-18.99,-153.02:99
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chr1 1899064 rs35953639 A G 134.17 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=4.58;MQ=58.52;MQ0=0;OQ=901.65;QD=15.82;SB=-439.15 GT:AD:DP:GL:GQ 0/1:25,32:55:-110.02,-16.57,-94.81:99
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chr1 1899178 rs61776976 G A 36.91 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.28;MQ=59.15;MQ0=0;OQ=1106.44;QD=22.13;SB=-371.92 GT:AD:DP:GL:GQ 0/1:16,34:48:-128.39,-14.47,-53.19:99
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chr1 1899305 rs55863117 A G 206.03 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=3.39;MQ=59.24;MQ0=0;OQ=872.61;QD=14.31;SB=-340.17 GT:AD:DP:GL:GQ 0/1:25,35:57:-107.73,-17.18,-95.38:99
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chr1 1899354 rs28716654 C T 202.23 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=3.09;MQ=59.30;MQ0=0;OQ=1176.35;QD=17.82;SB=-612.15 GT:AD:DP:GL:GQ 0/1:31,35:62:-139.59,-18.67,-102.07:99
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chr1 1899413 rs28680595 T A 360.31 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.29;MQ0=0;OQ=1036.44;QD=15.95;SB=-464.88 GT:AD:DP:GL:GQ 0/1:30,35:63:-125.91,-18.98,-108.28:99
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chr1 1899561 rs28613404 C T 21.64 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=5.89;MQ=58.07;MQ0=0;OQ=742.01;QD=16.13;SB=-312.34 GT:AD:DP:GL:GQ 0/1:20,25:42:-90.15,-12.66,-60.03:99
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chr1 1899593 rs28491083 G T 384.56 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.79;MQ0=0;OQ=572.46;QD=14.31;SB=-222.49 GT:AD:DP:GL:GQ 0/1:17,23:37:-71.67,-11.14,-60.73:99
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chr1 1899703 rs28433557 C T 153.68 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=58.28;MQ0=0;OQ=695.04;QD=16.55;SB=-241.74 GT:AD:DP:GL:GQ 0/1:19,23:39:-84.54,-11.75,-59.04:99
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chr1 1899714 rs28448395 G A 59.92 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=57.87;MQ0=0;OQ=975.55;QD=21.68;SB=-411.21 GT:AD:DP:GL:GQ 0/1:16,29:43:-113.79,-12.96,-49.10:99
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chr1 1899728 rs28539219 G A 22.10 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=58.50;MQ0=0;OQ=1039.92;QD=21.66;SB=-531.16 GT:AD:DP:GL:GQ 0/1:16,32:45:-120.83,-13.56,-54.90:99
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chr1 1899861 rs28468541 C G 2.92 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=9.03;MQ=56.76;MQ0=0;OQ=898.89;QD=17.63;SB=-410.04 GT:AD:DP:GL:GQ 0/1:24,26:48:-107.64,-14.46,-99.37:99
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chr1 1899872 rs28588737 T C 12.45 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=3.04;MQ=57.56;MQ0=0;OQ=448.65;QD=9.35;SB=-239.28 GT:AD:DP:GL:GQ 0/1:25,23:43:-61.11,-12.96,-97.10:99
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chr1 1899946 rs28645949 G T 144.20 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=60.00;MQ0=0;OQ=332.80;QD=10.40;SB=-155.69 GT:AD:DP:GL:GQ 0/1:19,13:30:-45.61,-9.04,-50.81:99
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chr1 1900096 rs28651716 T C 225.12 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.87;MQ=54.90;MQ0=0;OQ=686.40;QD=12.71;SB=-338.36 GT:AD:DP:GL:GQ 0/1:28,26:53:-87.90,-15.97,-105.41:99
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chr1 1900231 rs28642304 G A 31.56 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=5.35;MQ=52.67;MQ0=2;OQ=686.17;QD=14.00;SB=-341.85 GT:AD:DP:GL:GQ 0/1:25,24:43:-84.86,-12.96,-72.07:99
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chr1 1900342 . C G 14.82 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=12.94;MQ=53.14;MQ0=2;QD=0.37;SB=26.12 GT:AD:DP:GL:GQ 0/1:35,5:34:-15.00,-10.25,-129.63:47.51
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chr1 1900344 . T C 47.56 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=13.10;MQ=54.07;MQ0=2;QD=1.16;SB=26.11 GT:AD:DP:GL:GQ 0/1:32,9:34:-18.29,-10.25,-109.75:80.39
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chr1 1900366 . T C 19.64 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=56.14;MQ0=0;QD=0.48;SB=17.08 GT:AD:DP:GL:GQ 0/1:34,7:35:-15.79,-10.55,-116.81:52.43
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chr1 1900466 rs7550407 A G 75.71 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=45.89;MQ0=2;OQ=380.59;QD=19.03;SB=-189.68 GT:AD:DP:GL:GQ 1/1:0,20:13:-41.66,-3.92,-0.01:39.09
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chr1 1900518 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=10.99;MQ=35.59;MQ0=6;OQ=55.62;QD=1.29;SB=-13.87 GT:AD:DP:GL:GQ 0/1:29,14:19:-14.57,-5.73,-56.56:88.46
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chr1 1900571 . C T 45.32 LowQual AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=19.95;MQ=36.93;MQ0=3;QD=0.91;SB=-24.62 GT:AD:DP:GL:GQ 0/1:41,9:25:-15.36,-7.54,-65.46:78.16
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chr1 1900816 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=6.83;MQ=47.18;MQ0=2;OQ=71.50;QD=1.79;SB=-42.78 GT:AD:DP:GL:GQ 0/1:30,10:31:-19.78,-9.34,-96.64:99
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chr1 1900861 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=8.07;MQ=42.04;MQ0=5;OQ=136.19;QD=2.67;SB=-39.59 GT:AD:DP:GL:GQ 0/1:31,18:36:-30.43,-13.53,-101.33:99
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chr1 1900880 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=21.93;MQ=42.64;MQ0=5;OQ=81.77;QD=1.99;SB=26.03 GT:AD:DP:GL:GQ 0/1:32,9:28:-19.91,-8.45,-71.11:99
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chr1 1900981 . G A 32.02 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=14.77;MQ=47.97;MQ0=0;QD=1.07;SB=20.08 GT:AD:DP:GL:GQ 0/1:27,3:20:-12.51,-6.03,-56.06:64.85
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chr1 1900982 . C T 11.94 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=14.77;MQ=47.50;MQ0=0;QD=0.41;SB=35.07 GT:AD:DP:GL:GQ 0/1:26,3:25:-11.99,-7.54,-69.22:44.49
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chr1 1900987 . C G 179.53 SnpCluster AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=1;HaplotypeScore=15.25;MQ=49.14;MQ0=0;QD=5.79;SB=-106.68 GT:AD:DP:GL:GQ 0/1:23,8:22:-27.88,-6.64,-59.47:99
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chr1 1901007 . A G 17.82 PASS AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=2.16;MQ=50.60;MQ0=0;OQ=269.42;QD=8.42;SB=-129.64 GT:AD:DP:GL:GQ 0/1:19,13:29:-38.97,-8.74,-66.56:99
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chr1 1901025 . T C 1.37 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=50.85;MQ0=0;OQ=146.63;QD=3.67;SB=-63.91 GT:AD:DP:GL:GQ 0/1:26,13:31:-27.31,-9.36,-79.17:99
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chr1 1901036 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=7.09;MQ=51.49;MQ0=1;OQ=87.37;QD=1.99;SB=-8.61 GT:AD:DP:GL:GQ 0/1:38,6:38:-23.49,-11.46,-98.15:99
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chr1 1901053 . T C 11.36 LowQual AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=52.41;MQ0=1;QD=0.25;SB=-25.22 GT:AD:DP:GL:GQ 0/1:37,8:38:-15.84,-11.45,-126.44:43.87
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chr1 1901418 rs28645431 C T 0.52 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=3.95;MQ=41.39;MQ0=1;OQ=172.22;QD=4.53;SB=-89.91 GT:AD:DP:GL:GQ 0/1:29,9:21:-26.84,-6.33,-42.67:99
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chr1 1901574 rs13303001 G A 41.49 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=7.68;MQ=10.86;MQ0=15;QD=1.66;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,5:3:-8.34,-0.90,-3.10:21.92
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chr1 1901637 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=16.41;MQ=17.84;MQ0=13;OQ=157.79;QD=2.87;SB=-10.00 GT:AD:DP:GL:GQ 0/1:44,10:26:-26.90,-7.83,-65.70:99
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chr1 1901664 . G A 34.02 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.20;MQ=18.33;MQ0=14;QD=0.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:42,9:17:-11.81,-5.13,-50.35:66.86
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chr1 1901668 . G A 0.06 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.04;MQ=18.51;MQ0=13;OQ=99.32;QD=2.03;SB=-7.00 GT:AD:DP:GL:GQ 0/1:40,9:16:-18.04,-4.83,-38.64:99
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chr1 1901732 rs13303290 T C 12.82 LowQual AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.55;MQ0=0;QD=0.64;SB=-24.62 GT:AD:DP:GL:GQ 0/1:15,5:16:-9.37,-4.82,-51.21:45.43
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chr1 1901798 rs4648740 A G 153 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=48.72;MQ0=0;OQ=495.24;QD=14.15;SB=-240.44 GT:AD:DP:GL:GQ 0/1:16,19:34:-63.06,-10.25,-57.72:99
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chr1 1901828 rs4648741 T A 223.12 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=49.47;MQ0=0;OQ=518.42;QD=14.01;SB=-218.56 GT:AD:DP:GL:GQ 0/1:16,21:33:-65.07,-9.94,-58.68:99
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chr1 1902252 rs35209771 G A 29.20 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=4.72;MQ=59.38;MQ0=0;OQ=570.39;QD=15.42;SB=-188.28 GT:AD:DP:GL:GQ 0/1:17,20:31:-69.66,-9.34,-43.55:99
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chr1 1902361 rs35032062 A G 8.53 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=3;HaplotypeScore=1.19;MQ=56.62;MQ0=0;OQ=288.56;QD=9.31;SB=-81.77 GT:AD:DP:GL:GQ 0/1:15,16:27:-40.29,-8.15,-49.29:99
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chr1 1902443 rs4648742 T G 2.74 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=3;HaplotypeScore=1.88;MQ=52.64;MQ0=0;OQ=307.57;QD=13.98;SB=-102.98 GT:AD:DP:GL:GQ 0/1:8,14:19:-39.76,-5.72,-27.07:99
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chr1 1902590 rs34957887 A G 5.37 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=54.60;MQ0=0;OQ=111.21;QD=3.83;SB=-42.82 GT:AD:DP:GL:GQ 0/1:21,8:27:-22.55,-8.14,-76.38:99
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chr1 1902594 rs34699657 T C 6.89 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=55.30;MQ0=0;OQ=114.19;QD=4.08;SB=-28.64 GT:AD:DP:GL:GQ 0/1:19,9:26:-22.55,-7.85,-71.28:99
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chr1 1902618 rs13302917 G C 80.21 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=55.30;MQ0=0;OQ=235.26;QD=8.40;SB=8.06 GT:AD:DP:GL:GQ 0/1:18,10:26:-34.65,-7.84,-76.52:99
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chr1 1902752 . G A 16.41 LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=23.04;MQ0=3;QD=0.82;SB=-30.52 GT:AD:DP:GL:GQ 0/1:17,3:9:-7.63,-2.71,-23.66:49.15
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chr1 1902780 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=12.84;MQ=20.15;MQ0=3;OQ=68.78;QD=3.62;SB=-7.00 GT:AD:DP:GL:GQ 0/1:14,5:6:-11.97,-1.81,-9.13:73.25
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chr1 1902787 . G A 0.55 PASS AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=20.15;MQ0=3;OQ=103.65;QD=5.46;SB=-46.55 GT:AD:DP:GL:GQ 0/1:13,6:5:-15.16,-1.51,-3.80:22.92
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chr1 1902803 . A G 0.43 PASS AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=19.89;MQ0=3;OQ=59.98;QD=3.75;SB=-6.99 GT:AD:DP:GL:GQ 0/1:11,5:6:-11.09,-1.81,-11.69:92.82
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chr1 1902817 . T C 41.42 LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=9.95;MQ=22.02;MQ0=2;QD=2.96;SB=-35.94 GT:AD:DP:GL:GQ 0/1:9,4:6:-9.23,-1.81,-11.87:74.25
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chr1 1902835 rs61776983 A C 26.37 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=1;HaplotypeScore=1.55;MQ=20.97;MQ0=2;OQ=78.83;QD=5.63;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,12:3:-11.37,-0.90,-0.00:9.03
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chr1 1903052 . G A 0.07 PASS AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=10.18;MQ=21.19;MQ0=5;OQ=185.24;QD=7.12;SB=-114.97 GT:AD:DP:GL:GQ 0/1:13,13:10:-24.83,-3.02,-9.74:67.23
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chr1 1903096 . C T 19.36 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=27.09;MQ=29.12;MQ0=4;QD=0.84;SB=-32.50 GT:AD:DP:GL:GQ 0/1:20,3:10:-8.23,-3.01,-26.23:52.14
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chr1 1903103 . G A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=11.25;MQ=32.31;MQ0=4;OQ=203.36;QD=8.13;SB=-108.63 GT:AD:DP:GL:GQ 0/1:11,14:13:-27.54,-3.92,-21.98:99
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chr1 1903122 . G A 1.51 PASS AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=5.86;MQ=37.50;MQ0=2;OQ=277.72;QD=11.11;SB=-116.63 GT:AD:DP:GL:GQ 0/1:11,14:14:-35.28,-4.22,-14.88:99
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chr1 1903133 . C T 26.70 DPFilter;HARD_TO_VALIDATE;Indel;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=14.79;MQ=33.51;MQ0=4;QD=0.92;SB=2.00 GT:AD:DP:GL:GQ 0/1:25,3:16:-10.78,-4.83,-41.60:59.53
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chr1 1903194 . G A 0.17 PASS AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=22.60;MQ0=6;OQ=59.87;QD=3.15;SB=-29.63 GT:AD:DP:GL:GQ 0/1:15,4:8:-11.68,-2.41,-15.55:92.71
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chr1 1903256 rs56273126 A C 0.43 PASS AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=1;HaplotypeScore=9.88;MQ=34.34;MQ0=2;OQ=157.91;QD=8.77;SB=-43.00 GT:AD:DP:GL:GQ 0/1:8,10:11:-22.39,-3.31,-17.60:99
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chr1 1903263 rs56067355 C T 0.21 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=9.27;MQ=35.40;MQ0=1;OQ=103.77;QD=4.72;SB=-3.99 GT:AD:DP:GL:GQ 0/1:16,6:17:-18.78,-5.12,-41.68:99
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chr1 1903283 . G A 8.07 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=3.95;MQ=39.68;MQ0=0;OQ=372.77;QD=10.96;SB=-73.09 GT:AD:DP:GL:GQ 0/1:17,16:22:-47.20,-6.63,-29.71:99
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chr1 1903404 . C T 39.84 LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=6.15;MQ=48.13;MQ0=1;QD=1.73;SB=-35.65 GT:AD:DP:GL:GQ 0/1:19,4:16:-12.09,-4.83,-40.40:72.68
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chr1 1903423 rs58434854 A G 0.71 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=7.95;MQ=46.73;MQ0=3;OQ=182.58;QD=6.30;SB=-71.95 GT:AD:DP:GL:GQ 0/1:18,11:23:-28.48,-6.94,-51.85:99
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chr1 1903439 rs58923167 C T 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=17.53;MQ=42.29;MQ0=6;OQ=136.42;QD=4.01;SB=-25.62 GT:AD:DP:GL:GQ 0/1:26,8:22:-23.56,-6.63,-53.26:99
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chr1 1903440 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=17.53;MQ=42.29;MQ0=6;OQ=187.84;QD=5.52;SB=-110.54 GT:AD:DP:GL:GQ 0/1:26,8:23:-29.00,-6.94,-48.31:99
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chr1 1903458 rs55879512 A G 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=7.35;MQ=44.38;MQ0=5;OQ=75.85;QD=1.85;SB=-63.75 GT:AD:DP:GL:GQ 0/1:26,14:24:-18.11,-7.24,-65.52:99
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chr1 1903493 . G A 1.04 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=47.31;MQ0=2;OQ=168.07;QD=4.31;SB=-57.28 GT:AD:DP:GL:GQ 0/1:31,8:25:-27.63,-7.54,-58.38:99
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chr1 1903509 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=11.62;MQ=39.25;MQ0=5;OQ=92.69;QD=2.73;SB=5.04 GT:AD:DP:GL:GQ 0/1:25,9:18:-17.98,-5.43,-46.46:99
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chr1 1903540 . G A 33.23 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=27.81;MQ=22.93;MQ0=9;QD=1.15;SB=-3.98 GT:AD:DP:GL:GQ 0/1:26,3:5:-8.11,-1.51,-11.06:66.06
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chr1 1903547 . T A 34.51 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=29.76;MQ=15.81;MQ0=9;QD=1.33;SB=-42.38 GT:AD:DP:GL:GQ 0/1:19,6:3:-7.64,-0.90,-3.64:27.36
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chr1 1903587 rs4648605 C T 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=14.50;MQ=19.08;MQ0=11;OQ=79.27;QD=1.98;SB=-3.99 GT:AD:DP:GL:GQ 0/1:27,13:10:-14.23,-3.02,-19.87:99
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chr1 1904125 rs4648745 T C 247.21 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=59.25;MQ0=0;OQ=694.34;QD=11.20;SB=-245.29 GT:AD:DP:GL:GQ 0/1:33,29:61:-91.10,-18.39,-129.32:99
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chr1 1904347 rs4648746 A G 176.14 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.39;MQ0=0;OQ=338.48;QD=8.91;SB=-150.90 GT:AD:DP:GL:GQ 0/1:21,17:36:-47.98,-10.85,-82.55:99
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chr1 1904465 rs28737396 A T 328.52 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1094.85;QD=18.56;SB=-354.42 GT:AD:DP:GL:GQ 0/1:24,35:59:-130.54,-17.77,-93.43:99
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chr1 1904806 rs61776990 C T 103.75 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=56.91;MQ0=0;OQ=639.60;QD=17.29;SB=-221.92 GT:AD:DP:GL:GQ 0/1:15,22:35:-77.80,-10.56,-46.60:99
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chr1 1905885 rs4648747 G A 213.38 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=54.80;MQ0=0;OQ=758.00;QD=15.16;SB=-295.79 GT:AD:DP:GL:GQ 0/1:26,24:49:-93.85,-14.76,-88.23:99
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chr1 1905894 rs13303091 C T 219.74 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=53.79;MQ0=0;OQ=656.87;QD=13.14;SB=-261.28 GT:AD:DP:GL:GQ 0/1:27,22:45:-82.54,-13.57,-75.64:99
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chr1 1905900 rs13302998 T C 119.27 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=54.88;MQ0=0;OQ=405.99;QD=8.83;SB=-193.60 GT:AD:DP:GL:GQ 0/1:27,19:44:-57.15,-13.26,-102.12:99
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chr1 1906158 rs13302999 C T 171.25 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=58.63;MQ0=0;OQ=813.49;QD=15.95;SB=-262.17 GT:AD:DP:GL:GQ 0/1:25,26:49:-99.40,-14.77,-77.74:99
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chr1 1906389 rs3795284 C T 21.30 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=3;HaplotypeScore=2.33;MQ=60.00;MQ0=0;OQ=758.20;QD=14.04;SB=-278.28 GT:AD:DP:GL:GQ 0/1:28,26:52:-94.77,-15.67,-93.68:99
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chr1 1906447 rs3795283 G T 377.61 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.33;MQ=60.00;MQ0=0;OQ=998.45;QD=16.37;SB=-378.14 GT:AD:DP:GL:GQ 0/1:26,35:60:-121.20,-18.07,-93.96:99
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chr1 1906750 rs3795280 C T 425.49 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=568.99;QD=13.55;SB=-250.75 GT:AD:DP:GL:GQ 0/1:24,18:42:-72.83,-12.65,-87.72:99
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chr1 1906918 rs34331632 A G 117.25 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=2.75;MQ=58.45;MQ0=0;OQ=396.71;QD=8.82;SB=-212.27 GT:AD:DP:GL:GQ 0/1:26,19:41:-55.32,-12.36,-92.05:99
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chr1 1907309 rs34567059 T G 9.37 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=3;HaplotypeScore=0.99;MQ=59.28;MQ0=0;OQ=266.80;QD=8.34;SB=-138.72 GT:AD:DP:GL:GQ 0/1:18,13:26:-37.80,-7.84,-51.38:99
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chr1 1907332 rs13303173 G A 219.11 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.91;MQ=59.50;MQ0=0;OQ=402.42;QD=8.75;SB=-215.71 GT:AD:DP:GL:GQ 0/1:30,16:41:-55.89,-12.37,-85.41:99
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chr1 1907475 rs13302992 A T 11.71 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=5.57;MQ=54.24;MQ0=0;OQ=373.16;QD=8.88;SB=-86.42 GT:AD:DP:GL:GQ 0/1:20,21:33:-50.55,-9.95,-63.90:99
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chr1 1907510 rs13302993 T C 10.65 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=3;HaplotypeScore=3.38;MQ=53.93;MQ0=0;OQ=691.42;QD=12.35;SB=-327.29 GT:AD:DP:GL:GQ 0/1:24,32:51:-87.80,-15.38,-95.79:99
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chr1 1907689 rs4648748 T G 25.50 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.34;MQ=60.00;MQ0=0;OQ=189.73;QD=5.93;SB=-95.86 GT:AD:DP:GL:GQ 0/1:21,11:31:-31.60,-9.34,-75.09:99
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chr1 1907731 rs4648749 T A 88.57 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=58.55;MQ0=0;OQ=1056.82;QD=33.03;SB=-482.74 GT:AD:DP:GL:GQ 1/1:0,32:31:-109.29,-9.34,-0.02:93.25
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chr1 1907768 rs4648750 A C 41.15 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.92;MQ=58.69;MQ0=0;OQ=501.71;QD=15.68;SB=-178.91 GT:AD:DP:GL:GQ 0/1:13,18:31:-62.79,-9.34,-46.86:99
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chr1 1908051 rs4233028 A G 0.83 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=11.36;MQ=58.24;MQ0=0;OQ=590.53;QD=10.36;SB=-318.09 GT:AD:DP:GL:GQ 0/1:28,29:51:-77.71,-15.37,-108.19:99
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chr1 1908348 rs4350140 A G 295.92 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=483.27;QD=11.51;SB=-249.48 GT:AD:DP:GL:GQ 0/1:22,19:40:-63.66,-12.05,-87.28:99
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chr1 1908395 rs4535948 A T 243.05 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.68;MQ=60.00;MQ0=0;OQ=561.16;QD=14.03;SB=-291.34 GT:AD:DP:GL:GQ 0/1:20,20:38:-70.85,-11.45,-68.83:99
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chr1 1908444 rs4603072 C T 95.97 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.91;MQ=59.00;MQ0=0;OQ=825.49;QD=16.19;SB=-274.16 GT:AD:DP:GL:GQ 0/1:24,27:46:-99.69,-13.86,-72.18:99
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chr1 1908455 rs4466593 G A 154 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=59.00;MQ0=0;OQ=749.94;QD=14.70;SB=-209.69 GT:AD:DP:GL:GQ 0/1:25,26:47:-92.45,-14.17,-73.64:99
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chr1 1910822 rs13303020 T C 316 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=58.07;MQ0=0;OQ=856.90;QD=15.30;SB=-348.06 GT:AD:DP:GL:GQ 0/1:22,34:54:-105.26,-16.29,-79.82:99
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chr1 1912163 rs13303195 C T 281.64 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.42;MQ0=0;OQ=1071.80;QD=15.76;SB=-460.45 GT:AD:DP:GL:GQ 0/1:35,33:67:-130.66,-20.19,-113.97:99
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chr1 1912512 rs13303233 T C 59.35 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=5.24;MQ=56.21;MQ0=1;OQ=632.02;QD=12.15;SB=-238.92 GT:AD:DP:GL:GQ 0/1:24,28:49:-81.26,-14.77,-90.12:99
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chr1 1912694 rs6605075 T C 195.05 PASS AC=2;AF=1.00;AN=2;DB;DP=97;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.81;MQ0=0;OQ=3518.98;QD=36.28;SB=-1667.64 GT:AD:DP:GL:GQ 1/1:0,97:97:-350.90,-29.22,-0.04:99
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chr1 1912989 rs13303332 A G 477.80 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.92;MQ0=0;OQ=1063.77;QD=12.66;SB=-392.88 GT:AD:DP:GL:GQ 0/1:42,42:74:-131.95,-22.29,-145.18:99
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chr1 1913060 rs13303315 T C 275.58 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=55.32;MQ0=0;OQ=932.62;QD=13.14;SB=-432.88 GT:AD:DP:GL:GQ 0/1:32,39:67:-116.74,-20.20,-124.71:99
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chr1 1913077 rs7529662 A G 28.09 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=4.09;MQ=51.94;MQ0=0;OQ=415.73;QD=6.60;SB=-158.33 GT:AD:DP:GL:GQ 0/1:37,26:55:-61.45,-16.59,-136.84:99
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chr1 1913121 rs6605076 G A 18.01 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=2.95;MQ=38.45;MQ0=0;OQ=1375.58;QD=22.55;SB=-647.86 GT:AD:DP:GL:GQ 1/1:0,60:36:-143.81,-13.38,-2.67:99
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chr1 1913134 rs6662056 C T 90.11 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=31.19;MQ0=0;OQ=470.14;QD=8.11;SB=-253.79 GT:AD:DP:GL:GQ 0/1:33,25:32:-59.95,-9.65,-52.35:99
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chr1 1913140 rs6605077 T C 265.58 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.82;MQ=26.77;MQ0=0;OQ=931.68;QD=17.25;SB=-415.14 GT:AD:DP:GL:GQ 1/1:0,54:27:-96.76,-8.13,-0.01:81.23
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chr1 1913166 rs6605078 A G 225.40 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=29.40;MQ0=0;OQ=379.61;QD=9.73;SB=-193.70 GT:AD:DP:GL:GQ 1/1:0,39:13:-41.56,-3.92,-0.01:39.09
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chr1 1913525 rs13303140 A G 349.47 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.90;MQ0=0;OQ=337.35;QD=9.92;SB=-170.51 GT:AD:DP:GL:GQ 0/1:16,18:26:-44.86,-7.84,-45.87:99
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chr1 1913541 rs6675865 A G 238.98 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=54.81;MQ0=0;OQ=476.22;QD=12.53;SB=-203.64 GT:AD:DP:GL:GQ 0/1:19,19:32:-60.55,-9.64,-59.13:99
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chr1 1914266 rs35822535 A G 10.16 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=4.48;MQ=52.01;MQ0=0;OQ=172.60;QD=5.57;SB=-106.80 GT:AD:DP:GL:GQ 0/1:17,12:25:-30.72,-10.17,-62.92:99
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chr1 1914406 rs28674034 C A 137.53 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.38;MQ=56.09;MQ0=0;OQ=479.30;QD=11.15;SB=-93.09 GT:AD:DP:GL:GQ 0/1:24,19:37:-62.36,-11.14,-73.40:99
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chr1 1914407 . C G 17.06 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=1;HaplotypeScore=1.38;MQ=56.18;MQ0=0;OQ=578.11;QD=13.14;SB=-126.71 GT:AD:DP:GL:GQ 0/1:24,20:35:-71.66,-10.56,-69.93:99
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chr1 1914645 rs58504758 G A 76.95 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=56.31;MQ0=0;OQ=649.38;QD=14.43;SB=-87.56 GT:AD:DP:GL:GQ 0/1:23,22:44:-81.48,-13.26,-81.33:99
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chr1 1914669 rs57460771 C G 59.99 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=52.90;MQ0=0;OQ=635.24;QD=15.88;SB=-152.79 GT:AD:DP:GL:GQ 0/1:17,23:37:-77.97,-11.16,-71.80:99
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chr1 1915019 rs5021356 C T 38.12 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=38.83;MQ0=0;OQ=299.26;QD=5.16;SB=-51.25 GT:AD:DP:GL:GQ 0/1:26,32:29:-41.96,-8.75,-54.57:99
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chr1 1915025 rs5021357 C T 0.49 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=37.79;MQ0=0;OQ=104.46;QD=1.66;SB=-36.16 GT:AD:DP:GL:GQ 0/1:31,32:32:-23.37,-9.64,-89.65:99
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chr1 1915153 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=18.97;MQ=41.21;MQ0=1;OQ=317.64;QD=7.56;SB=-31.63 GT:AD:DP:GL:GQ 0/1:23,16:24:-42.29,-7.24,-39.07:99
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chr1 1915186 rs2377036 C A 0.52 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=2.46;MQ=38.80;MQ0=2;OQ=789.31;QD=23.22;SB=-127.84 GT:AD:DP:GL:GQ 1/1:3,31:25:-82.54,-7.54,-0.02:75.13
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chr1 1915197 . C T 2.41 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=35.96;MQ0=2;OQ=151.83;QD=4.34;SB=2.02 GT:AD:DP:GL:GQ 0/1:24,11:24:-25.70,-7.23,-56.48:99
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chr1 1915324 rs2889540 C T 459.53 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.97;MQ0=0;OQ=2370.24;QD=35.38;SB=-497.01 GT:AD:DP:GL:GQ 1/1:1,66:63:-240.64,-18.99,-0.03:99
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chr1 1915581 rs6691182 G A 155.40 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=58.09;MQ0=0;OQ=1565.00;QD=18.20;SB=-799.86 GT:AD:DP:GL:GQ 0/1:40,46:84:-185.10,-25.32,-125.47:99
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chr1 1915947 rs6661597 T C 434.36 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=753.37;QD=11.59;SB=-273.59 GT:AD:DP:GL:GQ 0/1:32,33:62:-97.31,-18.69,-126.97:99
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chr1 1915962 rs6675751 G C 346.68 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1124.09;QD=17.56;SB=-315.97 GT:AD:DP:GL:GQ 0/1:34,30:64:-134.99,-19.30,-134.99:99
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chr1 1916138 rs6667687 A T 24.65 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=5.93;MQ=59.44;MQ0=0;OQ=1046.27;QD=14.14;SB=-543.64 GT:AD:DP:GL:GQ 0/1:37,36:71:-129.30,-21.39,-135.06:99
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chr1 1917124 rs13302991 A G 77.08 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=48.19;MQ0=0;OQ=664.15;QD=15.09;SB=-132.68 GT:AD:DP:GL:GQ 0/1:17,27:41:-82.05,-12.36,-62.14:99
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chr1 1918235 rs58325500 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.01;HRun=15;HaplotypeScore=12.28;MQ=47.41;MQ0=2;OQ=54.80;QD=0.68;SB=8.48 GT:AD:DP:GL:GQ 0/1:66,14:56:-25.35,-16.59,-150.42:87.64
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chr1 1918448 rs28827857 G A 289.35 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=57.61;MQ0=0;OQ=1091.40;QD=15.82;SB=-363.89 GT:AD:DP:GL:GQ 0/1:36,33:66:-132.32,-19.90,-105.59:99
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chr1 1918459 rs28770275 C T 156.31 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.33;MQ0=0;OQ=990.70;QD=15.98;SB=-272.19 GT:AD:DP:GL:GQ 0/1:31,31:62:-121.04,-18.69,-98.12:99
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chr1 1919267 rs6672175 T C 222.23 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=3.35;MQ=59.22;MQ0=0;OQ=1139.84;QD=14.61;SB=-513.90 GT:AD:DP:GL:GQ 0/1:38,40:77:-140.46,-23.19,-152.92:99
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chr1 1919526 rs7532409 A G 229.15 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.27;MQ0=0;OQ=832.47;QD=13.21;SB=-385.03 GT:AD:DP:GL:GQ 0/1:26,37:58:-104.01,-17.48,-104.69:99
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chr1 1919694 rs7532529 A C 228.41 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=57.10;MQ0=0;OQ=714.32;QD=14.58;SB=-265.84 GT:AD:DP:GL:GQ 0/1:24,25:47:-88.87,-14.15,-84.13:99
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chr1 1919719 rs7527169 T C 335.23 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.16;MQ0=0;OQ=729.87;QD=16.59;SB=-259.34 GT:AD:DP:GL:GQ 0/1:16,28:43:-89.23,-12.96,-64.51:99
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chr1 1919737 rs7520124 C A 233.30 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.52;MQ0=0;OQ=916.99;QD=20.84;SB=-414.85 GT:AD:DP:GL:GQ 0/1:15,29:44:-108.24,-13.26,-45.66:99
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chr1 1919954 rs7542825 G A 154.86 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=58.01;MQ0=0;OQ=805.39;QD=15.79;SB=-224.54 GT:AD:DP:GL:GQ 0/1:26,25:50:-98.90,-15.08,-78.21:99
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chr1 1920251 rs6605079 C G 333.78 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=1146.24;QD=15.08;SB=-200.61 GT:AD:DP:GL:GQ 0/1:45,31:76:-140.81,-22.90,-188.17:99
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chr1 1920372 rs6605080 A G 234.56 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=57.79;MQ0=0;OQ=682.29;QD=12.87;SB=-281.00 GT:AD:DP:GL:GQ 0/1:25,28:47:-85.67,-14.16,-99.05:99
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chr1 1920614 rs6605081 C T 426.14 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.03;MQ=58.39;MQ0=0;OQ=1403.83;QD=17.12;SB=-667.29 GT:AD:DP:GL:GQ 0/1:39,43:80:-167.77,-24.10,-135.75:99
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chr1 1920665 rs6605082 G C 238.27 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=58.49;MQ0=0;OQ=1324.95;QD=16.99;SB=-669.29 GT:AD:DP:GL:GQ 0/1:42,36:76:-158.70,-22.92,-158.25:99
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chr1 1920803 rs13303035 C T 159 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=2.47;MQ=59.45;MQ0=0;OQ=1062.14;QD=13.98;SB=-530.37 GT:AD:DP:GL:GQ 0/1:41,35:73:-131.51,-22.01,-125.50:99
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chr1 1920841 rs13303352 T C 445.18 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.82;MQ0=0;OQ=837.48;QD=11.63;SB=-306.06 GT:AD:DP:GL:GQ 0/1:38,34:70:-108.13,-21.10,-146.79:99
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chr1 1921055 rs13303031 G T 88.89 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=1.13;MQ=58.92;MQ0=0;OQ=786.34;QD=15.12;SB=-342.30 GT:AD:DP:GL:GQ 0/1:26,26:52:-97.58,-15.66,-91.48:99
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chr1 1921356 rs6685055 A G 17.33 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=2.97;MQ=59.49;MQ0=0;OQ=448.41;QD=9.96;SB=-237.28 GT:AD:DP:GL:GQ 0/1:26,19:44:-61.39,-13.26,-100.60:99
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chr1 1921389 rs6679335 T G 83.14 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=1.67;MQ=59.13;MQ0=0;OQ=685.03;QD=12.93;SB=-353.06 GT:AD:DP:GL:GQ 0/1:29,24:52:-87.45,-15.66,-100.08:99
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chr1 1922327 rs28588769 G A 183.28 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.89;MQ0=1;OQ=778.96;QD=15.58;SB=-259.18 GT:AD:DP:GL:GQ 0/1:25,25:47:-95.35,-14.17,-73.16:99
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chr1 1922868 rs2376808 G A 157.54 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=3.27;MQ=59.34;MQ0=0;OQ=723.69;QD=10.34;SB=-347.08 GT:AD:DP:GL:GQ 0/1:45,25:64:-94.96,-19.30,-123.08:99
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chr1 1922895 rs2376807 G A 266.63 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=1;HaplotypeScore=1.59;MQ=58.98;MQ0=0;OQ=1217.48;QD=13.99;SB=-488.00 GT:AD:DP:GL:GQ 0/1:49,38:84:-150.33,-25.30,-168.79:99
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chr1 1923727 rs4434797 T C 63.04 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.46;MQ0=0;OQ=1150.76;QD=28.77;SB=-542.44 GT:AD:DP:GL:GQ 1/1:1,39:35:-118.68,-10.55,-0.02:99
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chr1 1923976 rs2376806 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=7;HaplotypeScore=3.79;MQ=59.30;MQ0=0;OQ=886.58;QD=14.78;SB=-242.95 GT:AD:DP:GL:GQ 0/1:31,29:60:-110.01,-18.07,-107.98:99
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chr1 1924507 rs6682175 C G 459.83 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=1286.38;QD=16.93;SB=-654.00 GT:AD:DP:GL:GQ 0/1:39,37:74:-154.22,-22.30,-163.90:99
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chr1 1925440 . A C 17.47 PASS AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=54.31;MQ0=0;OQ=233.12;QD=9.71;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,12:20:-32.62,-6.03,-38.03:99
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chr1 1925994 rs13303219 G A 173.92 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.24;MQ0=0;OQ=2130.07;QD=38.04;SB=-927.23 GT:AD:DP:GL:GQ 1/1:0,56:55:-216.61,-16.57,-0.02:99
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chr1 1927245 . C A 6.32 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.74;MQ=50.81;MQ0=0;OQ=1490.54;QD=26.15;SB=-627.15 GT:AD:DP:GL:GQ 0/1:11,46:54:-168.60,-16.27,-27.03:99
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chr1 1929194 . G A 93.04 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.76;MQ=54.76;MQ0=0;OQ=934.74;QD=16.40;SB=-478.51 GT:AD:DP:GL:GQ 0/1:29,28:56:-113.63,-16.87,-101.37:99
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chr1 1929934 . G A 0.59 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=6.95;MQ=58.36;MQ0=1;OQ=902.25;QD=19.20;SB=-435.95 GT:AD:DP:GL:GQ 0/1:20,27:46:-107.37,-13.86,-69.60:99
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chr1 1931518 rs6605072 C T 176.76 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.65;MQ0=0;OQ=1960.94;QD=37.71;SB=-913.32 GT:AD:DP:GL:GQ 1/1:0,52:51:-199.70,-15.37,-0.02:99
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chr1 1931688 rs13303071 T C 1556.10 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.24;MQ0=0;QD=27.79;SB=-792.66 GT:AD:DP:GL:GQ 1/1:0,56:50:-159.24,-15.08,-0.05:99
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chr1 1931693 . A G 1848.16 SnpCluster AC=2;AF=1.00;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=49.03;MQ0=0;QD=33.60;SB=-934.96 GT:AD:DP:GL:GQ 1/1:0,55:53:-188.42,-15.97,-0.02:99
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chr1 1931694 . T A 1917.61 SnpCluster AC=2;AF=1.00;AN=2;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=49.24;MQ0=0;QD=35.51;SB=-952.61 GT:AD:DP:GL:GQ 1/1:0,54:52:-195.36,-15.66,-0.02:99
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chr1 1931789 rs6656398 G A 540.24 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.77;MQ0=0;OQ=2040.90;QD=38.51;SB=-804.04 GT:AD:DP:GL:GQ 1/1:0,53:51:-207.69,-15.36,-0.01:99
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chr1 1931893 rs13303124 C A 616.35 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.54;MQ0=0;OQ=2901.26;QD=36.72;SB=-1390.14 GT:AD:DP:GL:GQ 1/1:0,79:79:-293.73,-23.79,-0.02:99
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chr1 1933151 rs6672254 C T 447.19 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=1292.37;QD=33.14;SB=-431.53 GT:AD:DP:GL:GQ 1/1:0,39:34:-132.84,-10.25,-0.02:99
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chr1 1933961 rs6605073 C G 112.88 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=54.93;MQ0=0;OQ=3433.93;QD=42.39;SB=-1558.19 GT:AD:DP:GL:GQ 1/1:0,81:81:-342.39,-24.42,-0.04:99
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chr1 1936451 rs13303016 G A 86.32 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=58.88;MQ0=0;OQ=2221.58;QD=38.30;SB=-691.42 GT:AD:DP:GL:GQ 1/1:0,56:56:-225.76,-16.87,-0.02:99
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chr1 1936669 rs4648752 C T 217.65 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=60.00;MQ0=0;OQ=2508.96;QD=37.45;SB=-1210.99 GT:AD:DP:GL:GQ 1/1:0,67:64:-254.50,-19.28,-0.02:99
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chr1 1937615 rs2376804 C A 568.58 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.26;MQ0=0;OQ=1581.66;QD=34.38;SB=-723.87 GT:AD:DP:GL:GQ 1/1:0,46:45:-161.77,-13.56,-0.02:99
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chr1 1938260 rs13303344 C A 671.62 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.98;MQ0=0;OQ=1865.08;QD=33.91;SB=-728.87 GT:AD:DP:GL:GQ 1/1:0,55:54:-190.12,-16.27,-0.02:99
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chr1 1938665 rs4481796 T C 1.68 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=7.00;MQ=59.19;MQ0=0;OQ=1999.82;QD=33.90;SB=-790.00 GT:AD:DP:GL:GQ 1/1:1,58:55:-203.58,-16.56,-0.01:99
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chr1 1939404 rs3121818 G T 55.95 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=4.13;MQ=57.70;MQ0=0;OQ=2038.83;QD=32.88;SB=-977.56 GT:AD:DP:GL:GQ 1/1:1,61:60:-210.75,-18.07,-3.28:99
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chr1 1940481 rs28603108 G A 85.60 PASS AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=244.10;QD=30.51;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:7:-27.99,-2.11,-0.00:21.07
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chr1 1941687 rs3121819 A G 228.42 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2020.01;QD=32.58;SB=-994.40 GT:AD:DP:GL:GQ 1/1:0,62:62:-205.63,-18.69,-0.05:99
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chr1 1942465 rs28502222 T C 371.08 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=1719.40;QD=30.16;SB=-855.54 GT:AD:DP:GL:GQ 1/1:0,57:54:-175.57,-16.29,-0.05:99
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chr1 1942470 rs28407473 T C 563.92 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=1937.81;QD=31.25;SB=-894.53 GT:AD:DP:GL:GQ 1/1:0,62:60:-197.41,-18.09,-0.05:99
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chr1 1942642 rs3128318 C A 368.40 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=1363.24;QD=34.95;SB=-493.39 GT:AD:DP:GL:GQ 1/1:0,39:38:-139.92,-11.45,-0.01:99
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chr1 1943112 rs3128321 T C 309.66 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.60;MQ0=0;OQ=865.40;QD=28.85;SB=-224.64 GT:AD:DP:GL:GQ 1/1:0,30:27:-90.14,-8.14,-0.02:81.21
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chr1 1943436 rs28595482 G A 148.08 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.62;MQ0=0;OQ=1902.67;QD=38.83;SB=-885.18 GT:AD:DP:GL:GQ 1/1:0,49:48:-193.87,-14.46,-0.01:99
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chr1 1943672 rs4648614 C T 198.11 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.32;MQ0=0;OQ=2028.99;QD=36.89;SB=-959.37 GT:AD:DP:GL:GQ 1/1:0,55:53:-206.51,-15.97,-0.03:99
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chr1 1944296 rs3128322 G A 216.26 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=59.01;MQ0=0;OQ=2427.18;QD=36.78;SB=-1173.08 GT:AD:DP:GL:GQ 1/1:0,65:64:-246.33,-19.29,-0.03:99
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chr1 1944940 rs3128323 G A 20.33 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=4.15;MQ=59.13;MQ0=0;OQ=1516.55;QD=28.61;SB=-577.76 GT:AD:DP:GL:GQ 1/1:0,53:41:-155.26,-12.36,-0.02:99
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chr1 1945844 rs2889475 C T 626.28 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.31;MQ0=0;OQ=2161.84;QD=35.44;SB=-988.03 GT:AD:DP:GL:GQ 1/1:0,61:56:-219.79,-16.87,-0.02:99
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chr1 1946222 rs2376805 G A 202.65 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=58.86;MQ0=0;OQ=2273.19;QD=37.27;SB=-1064.36 GT:AD:DP:GL:GQ 1/1:0,61:58:-230.92,-17.47,-0.02:99
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chr1 1946897 rs2229110 T C 11.35 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=1.69;MQ=58.29;MQ0=0;OQ=1169.00;QD=28.51;SB=-410.54 GT:AD:DP:GL:GQ 1/1:1,40:35:-120.50,-10.54,-0.02:99
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chr1 1947159 rs3820007 C T 19.86 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=1.67;MQ=59.17;MQ0=0;OQ=557.21;QD=19.90;SB=-159.09 GT:AD:DP:GL:GQ 1/1:0,24:17:-62.02,-7.79,-2.71:50.81
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chr1 1949121 rs28574670 A G 500.63 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1666.55;QD=35.46;SB=-850.35 GT:AD:DP:GL:GQ 1/1:0,47:47:-170.25,-14.16,-0.02:99
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chr1 1949838 rs28409373 C T 14.57 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.07;MQ0=0;OQ=1034.54;QD=34.48;SB=-177.68 GT:AD:DP:GL:GQ 1/1:0,30:29:-107.06,-8.75,-0.02:87.26
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chr1 1950786 rs28581504 T C 332.55 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.64;MQ0=0;OQ=1013.22;QD=32.68;SB=-423.78 GT:AD:DP:GL:GQ 1/1:0,31:30:-104.92,-9.04,-0.02:90.23
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chr1 1953035 rs13302932 A G 11.68 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=3.55;MQ=60.00;MQ0=0;OQ=905.11;QD=24.46;SB=-434.83 GT:AD:DP:GL:GQ 1/1:0,37:30:-94.12,-9.05,-0.03:90.20
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chr1 1953275 rs17715203 A G 438.40 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=1126.75;QD=30.45;SB=-438.29 GT:AD:DP:GL:GQ 1/1:0,37:35:-116.28,-10.55,-0.02:99
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chr1 1955750 . G C 30.56 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=3;HaplotypeScore=5.70;MQ=42.68;MQ0=2;QD=0.27;SB=83.98 GT:AD:DP:GL:GQ 0/1:64,50:68:-26.83,-20.49,-269.17:63.39
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chr1 1955789 . C G 28.79 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=1;HaplotypeScore=3.29;MQ=41.60;MQ0=2;QD=0.26;SB=62.45 GT:AD:DP:GL:GQ 0/1:60,50:64:-25.45,-19.29,-247.08:61.62
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chr1 1956476 rs3128311 A G 7.52 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=2;HaplotypeScore=2.79;MQ=58.13;MQ0=0;OQ=1189.30;QD=33.98;SB=-560.89 GT:AD:DP:GL:GQ 1/1:0,35:34:-122.53,-10.24,-0.01:99
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chr1 1956519 rs3128312 A G 0.03 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=5;HaplotypeScore=2.16;MQ=57.85;MQ0=0;OQ=1010.92;QD=30.63;SB=-251.77 GT:AD:DP:GL:GQ 1/1:0,33:30:-104.69,-9.04,-0.02:90.25
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chr1 1956874 . G A 318.30 PASS AC=2;AF=1.00;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=1884.66;QD=38.46;SB=-687.34 GT:AD:DP:GL:GQ 1/1:0,49:48:-192.06,-14.46,-0.01:99
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chr1 1957814 rs2376803 C T 3.63 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=5.41;MQ=59.46;MQ0=0;OQ=1636.24;QD=38.05;SB=-662.40 GT:AD:DP:GL:GQ 1/1:0,43:42:-167.22,-12.65,-0.01:99
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chr1 1958691 rs9442614 A G 93.39 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.19;MQ0=0;OQ=1548.19;QD=27.16;SB=-690.61 GT:AD:DP:GL:GQ 1/1:0,57:50:-158.45,-15.08,-0.05:99
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chr1 1958819 rs13303086 G A 42.72 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.38;MQ0=0;OQ=1355.91;QD=36.65;SB=-559.75 GT:AD:DP:GL:GQ 1/1:0,37:35:-139.19,-10.54,-0.01:99
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chr1 1961249 rs3121820 G C 348.51 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.98;MQ0=0;OQ=1964.71;QD=40.10;SB=-703.68 GT:AD:DP:GL:GQ 1/1:0,49:48:-200.08,-14.47,-0.02:99
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chr1 1964088 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=20;HaplotypeScore=27.35;MQ=45.54;MQ0=0;OQ=216.77;QD=4.93;SB=-12.47 GT:AD:DP:GL:GQ 0/1:28,16:30:-34.00,-9.04,-73.59:99
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chr1 1966711 rs28394674 G T 70.40 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.59;MQ=58.47;MQ0=0;OQ=2068.09;QD=33.90;SB=-496.39 GT:AD:DP:GL:GQ 1/1:0,60:58:-210.42,-17.47,-0.02:99
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chr1 1974087 rs3128319 C T 215.82 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=59.66;MQ0=0;OQ=974.85;QD=17.72;SB=-353.37 GT:AD:DP:GL:GQ 0/1:25,30:52:-116.43,-15.67,-87.00:99
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chr1 1974552 rs3121826 A G 92.93 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.67;MQ0=0;OQ=1020.08;QD=29.15;SB=-506.02 GT:AD:DP:GL:GQ 1/1:0,35:33:-105.63,-9.96,-0.04:99
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chr1 1974671 rs3121827 G T 491.82 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.58;MQ0=0;OQ=1710.64;QD=34.91;SB=-820.86 GT:AD:DP:GL:GQ 1/1:0,49:48:-174.66,-14.46,-0.02:99
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chr1 1975030 rs35020387 G A 113.28 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.07;MQ=60.00;MQ0=0;OQ=1769.06;QD=36.10;SB=-889.65 GT:AD:DP:GL:GQ 1/1:0,49:46:-180.51,-13.86,-0.02:99
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chr1 1982066 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=2;HaplotypeScore=0.95;MQ=56.20;MQ0=0;OQ=60.60;QD=2.42;SB=35.14 GT:AD:DP:GL:GQ 0/1:18,7:19:-15.09,-5.75,-56.99:93.44
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chr1 1982837 rs17777295 G T 2.34 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=4.79;MQ=57.88;MQ0=0;OQ=1411.52;QD=35.29;SB=-620.56 GT:AD:DP:GL:GQ 1/1:0,40:39:-144.75,-11.75,-0.01:99
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chr1 1987331 rs56136180 A G 202.47 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=1.52;MQ=55.14;MQ0=0;OQ=1346.89;QD=15.85;SB=-685.93 GT:AD:DP:GL:GQ 0/1:38,47:81:-162.37,-24.40,-147.70:99
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chr1 1989540 rs28479788 G A 186.47 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.13;MQ=58.66;MQ0=0;OQ=851.87;QD=16.38;SB=-358.89 GT:AD:DP:GL:GQ 0/1:25,27:48:-102.94,-14.47,-69.44:99
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chr1 1995600 rs2459986 T C 313.08 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.14;MQ0=0;OQ=733.38;QD=27.16;SB=-310.12 GT:AD:DP:GL:GQ 1/1:0,27:25:-76.96,-7.55,-0.03:75.14
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chr1 1996588 rs2678943 T C 52.85 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.08;MQ0=0;OQ=1052.54;QD=26.99;SB=-491.16 GT:AD:DP:GL:GQ 1/1:0,38:34:-108.87,-10.26,-0.03:99
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chr1 1997534 rs2803307 A G 10.35 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=3.74;MQ=59.13;MQ0=0;OQ=1580.39;QD=29.82;SB=-788.60 GT:AD:DP:GL:GQ 1/1:0,53:50:-161.67,-15.08,-0.05:99
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chr1 1999411 . C T 1.67 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=5.65;MQ=58.95;MQ0=0;OQ=1145.66;QD=18.48;SB=-378.12 GT:AD:DP:GL:GQ 0/1:25,36:58:-135.32,-17.47,-87.50:99
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chr1 2004056 rs28436686 G A 119.72 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=59.61;MQ0=0;OQ=2326.78;QD=39.44;SB=-1079.37 GT:AD:DP:GL:GQ 1/1:0,59:59:-236.28,-17.77,-0.01:99
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chr1 2014367 rs9729600 T C 414.10 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.74;MQ0=0;OQ=1723.74;QD=27.36;SB=-655.55 GT:AD:DP:GL:GQ 1/1:0,63:57:-176.03,-17.20,-0.07:99
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chr1 2015467 rs61775405 G A 154 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=3.51;MQ=57.06;MQ0=0;OQ=444.57;QD=10.84;SB=-245.22 GT:AD:DP:GL:GQ 0/1:23,18:37:-58.92,-11.18,-62.94:99
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chr1 2015957 . T A 20.13 LowQual AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.77;MQ0=3;QD=0.75;SB=-6.99 GT:AD:DP:GL:GQ 0/1:17,10:5:-6.80,-1.51,-8.98:52.92
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chr1 2015991 . G T 43.95 LowQual AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=23.36;MQ0=2;QD=1.19;SB=-6.99 GT:AD:DP:GL:GQ 0/1:34,3:8:-10.09,-2.41,-13.96:76.78
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chr1 2017284 rs12123775 G A 100.24 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=256.85;QD=11.17;SB=-34.51 GT:AD:DP:GL:GQ 0/1:14,9:22:-35.60,-6.63,-46.44:99
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chr1 2019252 rs3128329 T C 18.82 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=2.93;MQ=58.39;MQ0=0;OQ=1634.16;QD=29.71;SB=-754.64 GT:AD:DP:GL:GQ 1/1:0,55:52:-167.05,-15.69,-0.05:99
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chr1 2019320 . T G 18.93 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=4;HaplotypeScore=7.98;MQ=58.04;MQ0=0;QD=0.34;SB=68.22 GT:AD:DP:GL:GQ 0/1:29,26:34:-15.41,-10.24,-102.90:51.71
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chr1 2019693 . T G 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=2;HaplotypeScore=1.11;MQ=51.54;MQ0=0;OQ=164.91;QD=4.34;SB=47.17 GT:AD:DP:GL:GQ 0/1:19,19:29:-28.51,-8.74,-68.55:99
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chr1 2023899 rs7521371 A G 276.27 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.14;MQ0=0;OQ=762.93;QD=15.26;SB=-284.46 GT:AD:DP:GL:GQ 0/1:23,27:49:-94.34,-14.76,-92.20:99
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chr1 2025239 rs10910029 A G 201.72 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.60;MQ0=0;OQ=1376.71;QD=29.29;SB=-649.94 GT:AD:DP:GL:GQ 1/1:0,47:44:-141.29,-13.27,-0.04:99
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chr1 2025544 rs10910030 C T 525.81 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1279.25;QD=36.55;SB=-479.12 GT:AD:DP:GL:GQ 1/1:0,35:34:-131.53,-10.25,-0.02:99
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chr1 2025659 rs10752741 G A 653.38 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2163.55;QD=37.96;SB=-800.07 GT:AD:DP:GL:GQ 1/1:0,57:55:-219.96,-16.57,-0.02:99
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chr1 2025837 rs10752742 G T 4.06 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=6.39;MQ=58.92;MQ0=0;OQ=1340.29;QD=31.17;SB=-640.07 GT:AD:DP:GL:GQ 1/1:0,43:38:-137.63,-11.45,-0.01:99
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chr1 2026123 rs10797413 G A 219.84 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.78;MQ0=0;OQ=1381.00;QD=36.34;SB=-700.35 GT:AD:DP:GL:GQ 1/1:0,38:36:-141.70,-10.85,-0.01:99
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chr1 2026457 rs3128332 G T 494.54 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.34;MQ0=0;OQ=1536.71;QD=35.74;SB=-400.25 GT:AD:DP:GL:GQ 1/1:0,43:42:-157.27,-12.65,-0.01:99
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chr1 2027806 . A G 242.28 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=33.01;MQ0=5;QD=9.69;SB=-135.79 GT:AD:DP:GL:GQ 0/1:9,16:13:-31.43,-3.92,-15.54:99
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chr1 2027817 . A G 86.37 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=28.31;MQ0=5;QD=5.08;SB=-66.32 GT:AD:DP:GL:GQ 0/1:7,10:8:-14.33,-2.41,-15.43:99
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chr1 2027825 rs7364595 T C 235.65 PASS AC=2;AF=1.00;AN=2;DB;DP=12;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=23.06;MQ0=5;OQ=93.65;QD=7.80;SB=-40.95 GT:AD:DP:GL:GQ 1/1:0,12:4:-12.90,-1.21,-0.00:12.03
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chr1 2027884 . A G 40.99 LowQual AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=37.48;MQ0=2;QD=4.10;SB=-10.00 GT:AD:DP:GL:GQ 0/1:3,7:4:-8.59,-1.21,-3.37:21.64
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chr1 2027902 . C T 0.78 PASS AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=45.01;MQ0=2;OQ=55.77;QD=3.49;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,3:11:-12.18,-3.32,-23.75:88.60
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chr1 2027903 . A G 47.94 LowQual AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=45.01;MQ0=2;QD=3.00;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,4:11:-11.39,-3.31,-30.54:80.77
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chr1 2027922 rs61775410 A G 254.38 Indel AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=10.71;MQ=52.34;MQ0=2;QD=12.11;SB=-40.68 GT:AD:DP:GL:GQ 0/1:8,13:15:-33.24,-4.52,-21.40:99
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chr1 2027961 rs12745429 G A 0.31 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=3.42;MQ=51.66;MQ0=4;OQ=50.47;QD=1.58;SB=-46.03 GT:AD:DP:GL:GQ 0/1:27,5:21:-14.67,-6.34,-51.74:83.30
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chr1 2027962 rs12723086 T C 0.38 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=3.42;MQ=51.66;MQ0=4;OQ=55.89;QD=1.75;SB=-41.82 GT:AD:DP:GL:GQ 0/1:25,7:25:-16.41,-7.54,-72.40:88.73
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chr1 2027980 . A G 0.42 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=49.52;MQ0=4;OQ=96.12;QD=2.75;SB=-41.28 GT:AD:DP:GL:GQ 0/1:27,8:28:-21.34,-8.45,-80.79:99
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chr1 2027991 . A G 34.81 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.55;MQ=51.01;MQ0=3;OQ=431.23;QD=9.58;SB=-194.62 GT:AD:DP:GL:GQ 0/1:24,21:36:-57.25,-10.85,-78.85:99
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chr1 2028038 rs7349084 A G 0.09 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=7.00;MQ=50.77;MQ0=1;OQ=115.20;QD=1.99;SB=-64.54 GT:AD:DP:GL:GQ 0/1:47,10:48:-29.27,-14.47,-151.97:99
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chr1 2028049 rs12133181 A G 36.56 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=65.95;MQ=50.10;MQ0=2;QD=0.48;SB=17.41 GT:AD:DP:GL:GQ 0/1:60,12:63:-25.92,-18.99,-218.94:69.39
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chr1 2028057 rs7514664 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=1;HaplotypeScore=92.07;MQ=50.08;MQ0=4;OQ=1734.98;QD=17.53;SB=-712.36 GT:AD:DP:GL:GQ 0/1:13,84:69:-197.59,-20.81,-27.48:66.63
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chr1 2028096 rs7349113 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=144;Dels=0.00;HRun=1;HaplotypeScore=338.66;MQ=50.60;MQ0=2;OQ=249.31;QD=1.73;SB=17.40 GT:AD:DP:GL:GQ 0/1:107,21:99:-60.23,-32.01,-282.27:99
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chr1 2028116 rs61775411 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=130;Dels=0.00;HRun=1;HaplotypeScore=156.17;MQ=50.22;MQ0=2;OQ=1368.71;QD=10.53;SB=-489.55 GT:AD:DP:GL:GQ 0/1:47,78:82:-164.90,-24.74,-105.56:99
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chr1 2028135 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=0;HaplotypeScore=77.77;MQ=49.84;MQ0=2;OQ=170.97;QD=2.04;SB=-24.42 GT:AD:DP:GL:GQ 0/1:67,11:63:-39.37,-18.98,-181.92:99
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chr1 2028136 rs12080420 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=76.98;MQ=49.85;MQ0=2;OQ=157.43;QD=1.94;SB=-74.46 GT:AD:DP:GL:GQ 0/1:62,16:61:-37.41,-18.38,-198.10:99
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chr1 2028154 rs3753241 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=33.73;MQ=52.95;MQ0=1;OQ=379.95;QD=7.31;SB=-7.96 GT:AD:DP:GL:GQ 0/1:34,16:44:-54.55,-13.27,-93.77:99
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chr1 2028522 rs3128334 G A 30.30 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=2.73;MQ=59.44;MQ0=0;OQ=1539.70;QD=37.55;SB=-534.21 GT:AD:DP:GL:GQ 1/1:0,39:39:-157.57,-11.75,-0.01:99
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chr1 2028753 rs908744 G A 89.13 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.73;MQ=58.80;MQ0=0;OQ=1922.45;QD=33.15;SB=-549.87 GT:AD:DP:GL:GQ 1/1:0,58:52:-195.86,-15.68,-0.03:99
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chr1 2029096 rs1040231 G T 78.45 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=3.23;MQ=58.48;MQ0=0;OQ=1527.94;QD=33.22;SB=-620.05 GT:AD:DP:GL:GQ 1/1:1,45:45:-156.40,-13.56,-0.02:99
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chr1 2029381 rs16824792 G T 92.11 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.28;MQ0=0;OQ=1106.74;QD=34.59;SB=-441.64 GT:AD:DP:GL:GQ 1/1:0,32:31:-114.27,-9.34,-0.01:93.28
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chr1 2029579 rs1878752 G A 107.74 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=58.58;MQ0=0;OQ=1364.65;QD=36.88;SB=-510.18 GT:AD:DP:GL:GQ 1/1:0,37:36:-140.06,-10.85,-0.01:99
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chr1 2029956 rs6666117 T C 57.04 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=967.27;QD=27.64;SB=-467.25 GT:AD:DP:GL:GQ 1/1:0,35:31:-100.34,-9.35,-0.03:93.22
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chr1 2030248 rs6683011 G A 365.12 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.46;MQ0=0;OQ=938.15;QD=36.08;SB=-369.99 GT:AD:DP:GL:GQ 1/1:0,26:24:-97.41,-7.23,-0.01:72.24
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chr1 2030623 rs4648805 G A 629.77 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.87;MQ0=0;OQ=1690.17;QD=38.41;SB=-769.01 GT:AD:DP:GL:GQ 1/1:0,44:44:-172.62,-13.26,-0.02:99
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chr1 2030637 rs4648806 C T 94.85 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=56.04;MQ0=0;OQ=1691.52;QD=35.24;SB=-723.01 GT:AD:DP:GL:GQ 1/1:0,48:44:-172.75,-13.26,-0.02:99
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chr1 2030645 rs6674878 A G 54.62 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=55.66;MQ0=0;OQ=1170.82;QD=26.61;SB=-567.76 GT:AD:DP:GL:GQ 1/1:0,44:39:-120.72,-11.78,-0.06:99
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chr1 2030758 rs4648807 T C 223.06 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.74;MQ=59.17;MQ0=0;OQ=1628.83;QD=29.09;SB=-733.30 GT:AD:DP:GL:GQ 1/1:0,56:52:-166.52,-15.69,-0.05:99
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chr1 2030796 rs4648808 T C 215.31 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=59.65;MQ0=0;OQ=1868.75;QD=28.75;SB=-846.52 GT:AD:DP:GL:GQ 1/1:0,65:59:-190.51,-17.80,-0.05:99
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chr1 2031015 rs10910046 C T 236.58 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.92;MQ0=0;OQ=619.66;QD=30.98;SB=-276.86 GT:AD:DP:GL:GQ 1/1:0,20:17:-65.56,-5.12,-0.01:51.16
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chr1 2031321 rs12059660 C T 236.90 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.27;MQ0=0;OQ=1048.92;QD=38.85;SB=-437.08 GT:AD:DP:GL:GQ 1/1:0,27:27:-108.48,-8.13,-0.01:81.26
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chr1 2032403 rs11584491 A G 58.20 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=2.87;MQ=59.38;MQ0=0;OQ=893.06;QD=29.77;SB=-424.80 GT:AD:DP:GL:GQ 1/1:0,30:30:-92.92,-9.05,-0.03:90.18
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chr1 2032854 rs3128336 C G 73.49 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.85;MQ=59.29;MQ0=0;OQ=1394.69;QD=35.76;SB=-622.82 GT:AD:DP:GL:GQ 1/1:0,39:35:-143.08,-10.56,-0.03:99
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chr1 2033844 rs3107141 C T 92.22 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=4.37;MQ=59.25;MQ0=0;OQ=2275.40;QD=36.70;SB=-1025.90 GT:AD:DP:GL:GQ 1/1:0,62:59:-231.15,-17.78,-0.02:99
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chr1 2033897 rs925905 T C 149.67 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.07;MQ0=0;OQ=2152.92;QD=34.17;SB=-821.32 GT:AD:DP:GL:GQ 1/1:0,63:61:-218.90,-18.38,-0.02:99
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chr1 2033914 rs925906 A C 279.99 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.02;HRun=0;HaplotypeScore=0.48;MQ=59.34;MQ0=0;OQ=1986.91;QD=33.12;SB=-865.63 GT:AD:DP:GL:GQ 1/1:0,59:59:-202.29,-17.47,-0.02:99
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chr1 2034402 rs3107142 T C 2.70 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.38;MQ0=0;OQ=862.83;QD=28.76;SB=-292.45 GT:AD:DP:GL:GQ 1/1:0,30:25:-89.88,-7.54,-0.02:75.20
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chr1 2035025 rs1467217 G A 101.18 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=58.81;MQ0=0;OQ=1215.26;QD=31.16;SB=-472.57 GT:AD:DP:GL:GQ 1/1:2,37:32:-125.13,-9.65,-0.02:96.30
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chr1 2035232 rs3107143 G C 1383.32 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=3;HaplotypeScore=1.46;MQ=53.42;MQ0=0;QD=40.69;SB=-202.29 GT:AD:DP:GL:GQ 1/1:0,34:32:-141.93,-9.65,-0.01:96.32
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chr1 2035236 rs61775448 A G 957.24 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.20;MQ=52.98;MQ0=0;QD=29.91;SB=-159.74 GT:AD:DP:GL:GQ 1/1:0,32:29:-99.32,-8.74,-0.01:87.24
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chr1 2035240 rs3107144 C A 1108.98 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=53.21;MQ0=0;QD=33.61;SB=-288.09 GT:AD:DP:GL:GQ 1/1:0,33:31:-114.49,-9.34,-0.01:93.28
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chr1 2035742 rs3128337 A G 495.13 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.14;MQ0=0;OQ=2084.14;QD=30.20;SB=-613.59 GT:AD:DP:GL:GQ 1/1:0,69:67:-212.07,-20.22,-0.07:99
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chr1 2036646 rs3128338 G A 633.58 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2283.85;QD=36.84;SB=-1084.46 GT:AD:DP:GL:GQ 1/1:0,61:60:-232.00,-18.09,-0.03:99
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chr1 2036798 rs3128339 G T 418.21 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.44;MQ0=0;OQ=1615.06;QD=33.65;SB=-604.54 GT:AD:DP:GL:GQ 1/1:0,48:46:-165.11,-13.86,-0.02:99
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chr1 2037356 rs3128340 C G 20.94 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=1.21;MQ=59.34;MQ0=0;OQ=2469.41;QD=39.20;SB=-820.16 GT:AD:DP:GL:GQ 1/1:0,63:62:-250.56,-18.70,-0.04:99
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chr1 2037407 rs3107145 G A 220.34 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=3.18;MQ=59.05;MQ0=0;OQ=2392.58;QD=37.38;SB=-1173.71 GT:AD:DP:GL:GQ 1/1:0,64:62:-242.87,-18.68,-0.02:99
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chr1 2037444 rs3107146 T C 445.88 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.92;MQ0=0;OQ=1708.25;QD=30.50;SB=-576.98 GT:AD:DP:GL:GQ 1/1:0,56:53:-174.45,-15.98,-0.04:99
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chr1 2038589 rs3107147 G A 179.13 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.78;MQ0=0;OQ=3375.92;QD=40.19;SB=-1379.05 GT:AD:DP:GL:GQ 1/1:0,83:83:-336.59,-25.00,-0.02:99
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chr1 2039293 . A T 534.23 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=3;HaplotypeScore=26.93;MQ=46.16;MQ0=1;QD=5.40;SB=50.36 GT:AD:DP:GL:GQ 0/1:64,35:82:-81.41,-24.70,-228.25:99
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chr1 2039297 . C T 849.12 Indel AC=1;AF=0.50;AN=2;DP=106;Dels=0.00;HRun=16;HaplotypeScore=37.86;MQ=45.71;MQ0=2;QD=8.01;SB=-44.28 GT:AD:DP:GL:GQ 0/1:72,34:90:-115.31,-27.11,-215.41:99
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chr1 2039368 rs3128290 G T 199.82 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=57.68;MQ0=0;OQ=1893.89;QD=32.65;SB=-943.62 GT:AD:DP:GL:GQ 1/1:0,58:54:-193.00,-16.27,-0.02:99
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chr1 2039459 rs3107148 T C 580.43 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.55;MQ0=0;OQ=1837.96;QD=36.04;SB=-792.00 GT:AD:DP:GL:GQ 1/1:0,51:51:-187.40,-15.36,-0.01:99
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chr1 2040055 rs3107149 A T 0.64 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=7.05;MQ=47.19;MQ0=2;OQ=1180.60;QD=26.83;SB=-338.84 GT:AD:DP:GL:GQ 1/1:1,43:33:-121.66,-9.94,-0.01:99
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chr1 2040785 rs3107150 T A 621.62 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.05;MQ0=0;OQ=2606.94;QD=34.76;SB=-964.53 GT:AD:DP:GL:GQ 1/1:0,75:72:-264.30,-21.69,-0.03:99
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chr1 2041373 rs3107151 T G 405.29 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.29;MQ0=0;OQ=1384.90;QD=30.11;SB=-485.99 GT:AD:DP:GL:GQ 1/1:0,46:41:-142.10,-12.35,-0.02:99
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chr1 2042357 rs3107152 T C 727.24 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2187.52;QD=34.72;SB=-1010.74 GT:AD:DP:GL:GQ 1/1:0,63:62:-222.36,-18.68,-0.02:99
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chr1 2042782 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=1;HaplotypeScore=3.57;MQ=44.83;MQ0=0;OQ=64.06;QD=1.26;SB=2.03 GT:AD:DP:GL:GQ 0/1:44,7:48:-24.15,-14.46,-148.69:96.90
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chr1 2042814 . C G 7.67 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=3.26;MQ=39.19;MQ0=0;OQ=415.49;QD=7.69;SB=-85.80 GT:AD:DP:GL:GQ 0/1:38,16:51:-60.21,-15.38,-162.70:99
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chr1 2042818 . A G 548.88 SnpCluster AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=2;HaplotypeScore=3.40;MQ=38.13;MQ0=0;QD=9.15;SB=-238.62 GT:AD:DP:GL:GQ 0/1:35,25:55:-74.74,-16.57,-136.02:99
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chr1 2042827 rs56946456 C T 974.86 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=3.38;MQ=37.16;MQ0=0;QD=15.23;SB=-13.45 GT:AD:DP:GL:GQ 0/1:33,30:59:-118.54,-17.77,-108.89:99
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chr1 2042828 rs59510407 A G 718.63 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=2.75;MQ=36.52;MQ0=0;QD=11.98;SB=-10.84 GT:AD:DP:GL:GQ 0/1:33,26:56:-92.01,-16.87,-122.40:99
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chr1 2042846 rs58866862 A G 74.49 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=35.77;MQ0=0;QD=1.16;SB=32.14 GT:AD:DP:GL:GQ 0/1:43,21:44:-23.99,-13.25,-151.62:99
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chr1 2042857 rs61526019 C T 19.11 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=37.11;MQ0=1;QD=0.30;SB=35.13 GT:AD:DP:GL:GQ 0/1:49,15:46:-19.05,-13.86,-151.53:51.90
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chr1 2042876 . G T 13.23 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=1;HaplotypeScore=9.69;MQ=38.17;MQ0=2;QD=0.18;SB=41.11 GT:AD:DP:GL:GQ 0/1:58,9:53:-20.55,-15.96,-167.03:45.86
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chr1 2042878 . T C 0.10 PASS AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=11.69;MQ=38.38;MQ0=2;OQ=1187.23;QD=16.96;SB=-479.73 GT:AD:DP:GL:GQ 0/1:15,55:50:-137.09,-15.08,-24.25:91.67
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chr1 2042931 . A G 53.02 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=15.54;MQ=37.98;MQ0=2;QD=0.69;SB=20.09 GT:AD:DP:GL:GQ 0/1:67,10:63:-27.57,-18.98,-213.37:85.85
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chr1 2042932 . C T 144.76 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=10.55;MQ=37.98;MQ0=2;QD=1.88;SB=20.04 GT:AD:DP:GL:GQ 0/1:64,13:62:-36.47,-18.71,-162.72:99
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chr1 2042933 rs61775451 A G 2056.36 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=7.24;MQ=37.41;MQ0=2;QD=27.79;SB=-304.45 GT:AD:DP:GL:GQ 1/1:0,74:61:-209.25,-18.38,-0.03:99
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chr1 2042939 rs61775452 A G 1556.23 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=44.30;MQ=35.88;MQ0=3;QD=19.21;SB=-241.65 GT:AD:DP:GL:GQ 0/1:26,55:67:-179.09,-20.18,-61.01:99
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chr1 2042967 . G A 494.62 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=42.03;MQ=31.07;MQ0=2;QD=5.75;SB=-10.00 GT:AD:DP:GL:GQ 0/1:65,21:57:-69.92,-17.17,-132.17:99
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chr1 2042968 . T C 324.84 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=41.51;MQ=30.57;MQ0=2;QD=3.82;SB=-7.00 GT:AD:DP:GL:GQ 0/1:68,17:56:-52.65,-16.88,-157.62:99
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chr1 2042975 . G A 918.15 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=43.08;MQ=30.97;MQ0=1;QD=11.92;SB=-7.00 GT:AD:DP:GL:GQ 0/1:43,34:50:-110.16,-15.06,-77.95:99
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chr1 2042993 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=37.83;MQ=26.92;MQ0=1;OQ=262.34;QD=4.60;SB=-10.00 GT:AD:DP:GL:GQ 0/1:38,19:39:-41.26,-11.74,-103.99:99
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chr1 2043003 . A G 593.68 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=39;Dels=0.03;HRun=0;HaplotypeScore=30.47;MQ=26.18;MQ0=1;QD=15.22;SB=-10.00 GT:AD:DP:GL:GQ 0/1:16,22:23:-69.27,-6.63,-8.02:13.91
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chr1 2043004 . C T 763.57 Indel;SnpCluster AC=2;AF=1.00;AN=2;DP=36;Dels=0.06;HRun=0;HaplotypeScore=22.21;MQ=26.52;MQ0=1;QD=21.21;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,31:22:-82.94,-6.33,-3.00:33.26
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chr1 2043011 . A G 85.38 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=1;HaplotypeScore=13.94;MQ=26.97;MQ0=0;QD=3.28;SB=-10.00 GT:AD:DP:GL:GQ 0/1:19,7:20:-17.84,-6.02,-61.94:99
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chr1 2043025 . C T 0.23 PASS AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=7.88;MQ=23.26;MQ0=0;OQ=89.13;QD=11.14;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,5:3:-12.40,-0.90,-0.00:9.03
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chr1 2043058 . C T 0.16 PASS AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=7.97;MQ=18.94;MQ0=5;OQ=124.33;QD=12.43;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,6:4:-15.97,-1.21,-0.00:12.04
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chr1 2043061 . C T 0.16 PASS AC=2;AF=1.00;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=9.08;MQ=17.30;MQ0=6;OQ=117.32;QD=9.78;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,8:4:-15.27,-1.21,-0.00:12.04
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chr1 2043097 . C T 1.40 PASS AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=4.78;MQ=17.14;MQ0=7;OQ=117.84;QD=7.86;SB=-10.00 GT:AD:DP:GL:GQ 0/1:11,4:5:-16.57,-1.51,-3.10:15.90
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chr1 2043134 rs62641630 A G 85.81 Indel AC=1;AF=0.50;AN=2;DB;DP=16;Dels=0.00;HRun=1;HaplotypeScore=34.82;MQ=24.20;MQ0=2;QD=5.36;SB=-10.00 GT:AD:DP:GL:GQ 0/1:8,7:9:-14.57,-2.71,-19.58:99
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chr1 2043141 . T G 143.26 Indel AC=2;AF=1.00;AN=2;DP=12;Dels=0.00;HRun=2;HaplotypeScore=1.47;MQ=21.33;MQ0=2;QD=11.94;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,9:5:-17.89,-1.51,-0.00:15.05
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chr1 2043178 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=18.82;MQ=19.76;MQ0=6;OQ=129.40;QD=2.70;SB=-10.00 GT:AD:DP:GL:GQ 0/1:34,14:15:-20.75,-4.53,-30.16:99
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chr1 2043181 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=18.51;MQ=19.26;MQ0=7;OQ=70.77;QD=1.31;SB=-10.00 GT:AD:DP:GL:GQ 0/1:41,12:15:-14.88,-4.52,-41.18:99
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chr1 2043199 . T C 326.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=71.39;MQ=18.51;MQ0=9;QD=3.23;SB=5.04 GT:AD:DP:GL:GQ 0/1:73,28:19:-41.66,-5.73,-27.12:99
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chr1 2043200 . G T 127.31 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=1;HaplotypeScore=109.06;MQ=18.45;MQ0=9;QD=1.24;SB=5.04 GT:AD:DP:GL:GQ 0/1:88,15:19:-21.74,-5.72,-47.36:99
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chr1 2043203 . A G 195.43 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=1;HaplotypeScore=58.32;MQ=18.15;MQ0=10;QD=1.74;SB=5.04 GT:AD:DP:GL:GQ 0/1:95,17:20:-28.85,-6.02,-47.43:99
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chr1 2043227 rs61775455 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=139;Dels=0.00;HRun=1;HaplotypeScore=26.18;MQ=17.76;MQ0=15;OQ=512.67;QD=3.69;SB=-282.20 GT:AD:DP:GL:GQ 0/1:22,117:18:-59.98,-5.43,-16.39:99
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chr1 2043250 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=40.25;MQ=18.52;MQ0=5;OQ=52.10;QD=0.80;SB=5.03 GT:AD:DP:GL:GQ 0/1:47,18:9:-11.21,-2.71,-18.54:84.93
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chr1 2043253 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=69.74;MQ=17.96;MQ0=6;OQ=126.28;QD=2.18;SB=-31.52 GT:AD:DP:GL:GQ 0/1:37,20:7:-18.02,-2.11,-6.74:46.31
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chr1 2043286 . C T 29.35 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=15.82;MQ=16.30;MQ0=5;QD=1.47;SB=-39.54 GT:AD:DP:GL:GQ 0/1:10,10:4:-7.42,-1.21,-6.19:49.87
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chr1 2043289 . C T 29.39 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=12.80;MQ=15.14;MQ0=5;QD=1.73;SB=-36.53 GT:AD:DP:GL:GQ 0/1:8,8:3:-7.13,-0.91,-2.70:17.92
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chr1 2043333 . T G 28.03 LowQual AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=18.60;MQ0=2;QD=4.00;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:2:-6.21,-0.60,-0.00:6.01
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chr1 2043370 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=30.96;MQ=17.94;MQ0=3;OQ=266.78;QD=3.51;SB=-158.18 GT:AD:DP:GL:GQ 0/1:20,55:9:-32.59,-2.71,-3.10:3.86
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chr1 2043387 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=305.93;MQ=17.79;MQ0=4;OQ=61.76;QD=0.60;SB=5.03 GT:AD:DP:GL:GQ 0/1:70,33:9:-12.17,-2.71,-18.55:94.59
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chr1 2043399 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=1;HaplotypeScore=80.07;MQ=17.30;MQ0=8;OQ=50.40;QD=0.46;SB=-41.37 GT:AD:DP:GL:GQ 0/1:77,30:6:-10.13,-1.81,-8.76:69.51
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chr1 2043410 . G A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=99;Dels=0.00;HRun=0;HaplotypeScore=62.95;MQ=16.84;MQ0=8;OQ=120.99;QD=1.22;SB=-42.66 GT:AD:DP:GL:GQ 1/1:14,85:4:-15.63,-1.21,-0.00:12.04
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chr1 2043421 . C T 40.51 LowQual AC=1;AF=0.50;AN=2;DP=97;Dels=0.01;HRun=0;HaplotypeScore=78.29;MQ=16.56;MQ0=9;QD=0.42;SB=-7.00 GT:AD:DP:GL:GQ 0/1:75,21:3:-8.24,-0.90,-2.77:18.65
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chr1 2043428 . G A 73.75 Indel AC=2;AF=1.00;AN=2;DP=84;Dels=0.00;HRun=0;HaplotypeScore=65.46;MQ=16.72;MQ0=6;QD=0.88;SB=-10.00 GT:AD:DP:GL:GQ 1/1:16,68:3:-10.87,-0.91,-0.00:9.02
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chr1 2043438 . G A 70.80 Indel AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=64.65;MQ=17.33;MQ0=2;QD=1.00;SB=-10.00 GT:AD:DP:GL:GQ 0/1:44,27:4:-11.57,-1.20,-3.47:22.64
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chr1 2043560 . G C 29.95 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=54.01;MQ=17.20;MQ0=4;QD=0.86;SB=-10.00 GT:AD:DP:GL:GQ 0/1:29,6:4:-7.49,-1.21,-7.00:57.86
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chr1 2043565 . C T 49.25 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=47.09;MQ=17.14;MQ0=4;QD=1.37;SB=-10.00 GT:AD:DP:GL:GQ 1/1:19,17:2:-8.33,-0.60,-0.00:6.02
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chr1 2043572 . G A 46.02 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=33.86;MQ=16.62;MQ0=6;QD=1.18;SB=-10.00 GT:AD:DP:GL:GQ 1/1:22,17:2:-8.01,-0.60,-0.00:6.02
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chr1 2043583 . C T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=32.32;MQ=16.61;MQ0=6;OQ=173.76;QD=4.57;SB=-10.00 GT:AD:DP:GL:GQ 1/1:16,22:5:-20.94,-1.51,-0.00:15.05
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chr1 2043590 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=0;HaplotypeScore=28.82;MQ=16.31;MQ0=5;OQ=78.84;QD=2.39;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,18:4:-12.37,-1.20,-2.87:16.64
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chr1 2043797 . C T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=30.70;MQ=15.39;MQ0=12;OQ=90.55;QD=2.66;SB=-10.00 GT:AD:DP:GL:GQ 1/1:10,21:4:-15.80,-4.21,-3.24:9.74
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chr1 2043818 . T C 79 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=39.74;MQ=12.98;MQ0=29;QD=1.39;SB=-10.00 GT:AD:DP:GL:GQ 1/1:42,15:3:-11.39,-0.90,-0.00:9.03
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chr1 2043819 . G T 74.28 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=66.63;MQ=12.86;MQ0=30;QD=1.28;SB=-10.00 GT:AD:DP:GL:GQ 1/1:43,15:3:-10.92,-0.90,-0.00:9.03
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chr1 2043822 . G A 85.78 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=66.31;MQ=12.73;MQ0=32;QD=1.41;SB=-10.00 GT:AD:DP:GL:GQ 1/1:35,26:3:-12.07,-0.90,-0.00:9.03
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chr1 2043840 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=53.86;MQ=13.17;MQ0=31;OQ=75.78;QD=1.28;SB=-3.99 GT:AD:DP:GL:GQ 0/1:33,26:5:-12.37,-1.51,-6.39:48.86
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chr1 2043865 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=1;HaplotypeScore=29.69;MQ=17.30;MQ0=6;OQ=56.87;QD=2.19;SB=-30.92 GT:AD:DP:GL:GQ 0/1:19,7:4:-10.17,-1.21,-3.00:17.97
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chr1 2043873 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=65.88;MQ=20.81;MQ0=0;OQ=78.81;QD=5.63;SB=-7.00 GT:AD:DP:GL:GQ 0/1:7,7:4:-12.37,-1.21,-3.20:19.92
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chr1 2044254 . A G 32.28 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=17;Dels=0.00;HRun=1;HaplotypeScore=4.00;MQ=14.52;MQ0=7;QD=1.90;SB=-10.00 GT:AD:DP:GL:GQ 1/1:8,9:2:-6.64,-0.60,-0.00:6.02
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chr1 2044261 . G T 34.69 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=14.97;MQ0=6;QD=2.17;SB=-10.00 GT:AD:DP:GL:GQ 1/1:8,8:2:-6.88,-0.60,-0.00:6.02
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chr1 2045053 . A G 0.05 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DP=13;Dels=0.00;HRun=1;HaplotypeScore=13.98;MQ=19.49;MQ0=2;OQ=141.20;QD=10.86;SB=-10.00 GT:AD:DP:GL:GQ 1/1:5,8:5:-17.68,-1.51,-0.00:15.04
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chr1 2045060 . G T 46.93 LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=16.54;MQ=19.21;MQ0=2;QD=3.35;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,5:5:-9.49,-1.51,-6.61:50.97
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chr1 2045064 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=17.54;MQ=18.55;MQ0=3;OQ=51.75;QD=3.45;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,9:5:-9.97,-1.51,-6.44:49.32
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chr1 2045454 . C T 0.01 FDRtranche2.00to10.00 AC=2;AF=1.00;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=19.88;MQ=20.43;MQ0=9;OQ=198.28;QD=7.34;SB=-10.00 GT:AD:DP:GL:GQ 1/1:7,20:6:-23.40,-1.81,-0.00:18.06
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chr1 2045469 . C T 0.06 PASS AC=2;AF=1.00;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=12.29;MQ=20.17;MQ0=11;OQ=284.41;QD=8.89;SB=-48.56 GT:AD:DP:GL:GQ 1/1:9,23:8:-32.02,-2.41,-0.00:24.08
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chr1 2045505 . C T 28.68 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=18.97;MQ=24.13;MQ0=5;QD=0.54;SB=11.04 GT:AD:DP:GL:GQ 0/1:44,9:20:-12.18,-6.03,-54.06:61.51
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chr1 2045518 . C G 738.24 SnpCluster AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=15.01;MQ=25.23;MQ0=2;QD=13.67;SB=-291.20 GT:AD:DP:GL:GQ 0/1:10,44:25:-84.64,-7.53,-25.69:99
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chr1 2045519 . G A 107.30 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=14.97;MQ=25.69;MQ0=2;QD=1.95;SB=11.06 GT:AD:DP:GL:GQ 0/1:46,9:22:-20.64,-6.63,-60.44:99
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chr1 2045523 rs61775456 C T 1156.65 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=31.40;MQ=26.13;MQ0=1;QD=21.03;SB=-340.35 GT:AD:DP:GL:GQ 1/1:5,50:30:-119.26,-9.04,-0.01:90.29
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chr1 2045530 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=38.81;MQ=25.91;MQ0=2;OQ=314.66;QD=4.56;SB=14.05 GT:AD:DP:GL:GQ 0/1:30,39:21:-41.08,-6.33,-36.84:99
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chr1 2045541 rs61775457 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=85.67;MQ=25.28;MQ0=4;OQ=1042.79;QD=14.28;SB=-111.96 GT:AD:DP:GL:GQ 0/1:30,43:36:-118.41,-10.85,-17.33:64.79
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chr1 2045548 rs61775458 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=80.30;MQ=24.94;MQ0=7;OQ=952.67;QD=11.48;SB=11.05 GT:AD:DP:GL:GQ 0/1:35,48:39:-110.31,-11.76,-31.30:99
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chr1 2045552 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=3;HaplotypeScore=82.09;MQ=25.54;MQ0=10;OQ=109.35;QD=1.09;SB=14.08 GT:AD:DP:GL:GQ 0/1:83,17:53:-30.20,-15.98,-173.43:99
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chr1 2045562 rs61775459 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=103;Dels=0.00;HRun=0;HaplotypeScore=44.83;MQ=25.87;MQ0=15;OQ=1085.84;QD=10.54;SB=-112.96 GT:AD:DP:GL:GQ 0/1:18,82:44:-125.15,-13.28,-24.49:99
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chr1 2045577 rs61776561 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=108;Dels=0.00;HRun=0;HaplotypeScore=71.26;MQ=25.93;MQ0=17;OQ=471.38;QD=4.36;SB=-66.29 GT:AD:DP:GL:GQ 0/1:83,25:48:-64.89,-14.47,-100.62:99
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chr1 2045590 rs61776562 C G 1122.80 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=71.62;MQ=27.29;MQ0=12;QD=12.62;SB=-466.47 GT:AD:DP:GL:GQ 0/1:38,51:51:-130.94,-15.38,-82.60:99
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chr1 2045591 . G A 91.87 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=67.28;MQ=27.29;MQ0=12;QD=1.03;SB=20.08 GT:AD:DP:GL:GQ 0/1:68,21:39:-24.23,-11.76,-108.70:99
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chr1 2045595 rs61776563 C T 1533.88 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=45.58;MQ=27.30;MQ0=11;QD=17.43;SB=-260.54 GT:AD:DP:GL:GQ 1/1:9,79:49:-170.95,-14.77,-14.14:6.27
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chr1 2045606 . A G 34.51 DPFilter;HARD_TO_VALIDATE;Indel;LowQual AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=3;HaplotypeScore=43.22;MQ=27.00;MQ0=12;QD=0.42;SB=23.11 GT:AD:DP:GL:GQ 0/1:76,7:41:-19.11,-12.37,-129.33:67.35
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chr1 2045616 . T C 78.88 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=250.84;MQ=27.16;MQ0=10;QD=1.21;SB=21.87 GT:AD:DP:GL:GQ 0/1:53,10:39:-22.94,-11.77,-110.81:99
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chr1 2045620 rs61776564 G A 378.54 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=91.32;MQ=25.99;MQ0=10;QD=7.14;SB=2.03 GT:AD:DP:GL:GQ 0/1:31,22:26:-48.98,-7.84,-44.75:99
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chr1 2045631 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=20.68;MQ=23.69;MQ0=10;OQ=345.67;QD=8.43;SB=-190.29 GT:AD:DP:GL:GQ 0/1:16,25:18:-43.28,-5.43,-21.54:99
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chr1 2045638 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=35.28;MQ=23.82;MQ0=10;OQ=167.44;QD=4.29;SB=-58.06 GT:AD:DP:GL:GQ 0/1:24,15:14:-24.25,-4.23,-24.00:99
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chr1 2045652 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=49.08;MQ=21.77;MQ0=9;OQ=173.85;QD=5.43;SB=-84.31 GT:AD:DP:GL:GQ 0/1:13,19:7:-22.76,-2.11,-3.10:9.89
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chr1 2045656 . G A 40.26 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=55.88;MQ=22.32;MQ0=8;QD=1.34;SB=-10.00 GT:AD:DP:GL:GQ 0/1:16,14:3:-8.21,-0.90,-3.07:21.65
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chr1 2045667 . C T 56.78 SnpCluster AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=27.04;MQ=25.03;MQ0=2;QD=2.18;SB=-3.99 GT:AD:DP:GL:GQ 0/1:9,17:7:-11.07,-2.11,-11.53:89.62
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chr1 2045670 . C T 22.25 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=24.25;MQ=25.19;MQ0=1;QD=0.93;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,19:3:-6.41,-0.91,-3.37:24.66
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chr1 2045674 . G A 38.46 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=35.09;MQ=29.74;MQ0=1;QD=1.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,15:4:-8.34,-1.21,-6.59:53.87
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chr1 2045688 rs61776565 C T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=37.51;MQ=32.86;MQ0=0;OQ=472.91;QD=12.78;SB=-219.35 GT:AD:DP:GL:GQ 1/1:8,29:13:-50.88,-3.92,-0.00:39.13
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chr1 2045716 rs11589827 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=37.92;MQ=32.79;MQ0=0;OQ=1051.52;QD=19.47;SB=-363.54 GT:AD:DP:GL:GQ 0/1:22,32:36:-119.28,-10.85,-21.22:99
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chr1 2045975 rs56260599 A G 8.24 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=2.17;MQ=48.30;MQ0=0;OQ=1370.04;QD=29.78;SB=-550.86 GT:AD:DP:GL:GQ 1/1:0,45:39:-140.61,-11.75,-0.02:99
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chr1 2047610 rs3107154 A C 149.56 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.43;MQ0=0;OQ=1416.93;QD=32.20;SB=-509.01 GT:AD:DP:GL:GQ 1/1:0,44:41:-145.30,-12.35,-0.02:99
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chr1 2047883 rs3128291 A G 544.70 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1311.92;QD=28.52;SB=-584.18 GT:AD:DP:GL:GQ 1/1:0,46:44:-134.83,-13.28,-0.06:99
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chr1 2050384 rs3107155 T C 5.04 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=1.93;MQ=59.45;MQ0=0;OQ=1167.72;QD=27.80;SB=-528.96 GT:AD:DP:GL:GQ 1/1:0,42:38:-120.40,-11.47,-0.04:99
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chr1 2050490 rs3107156 T C 249.61 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=60.00;MQ0=0;OQ=2021.38;QD=30.17;SB=-957.45 GT:AD:DP:GL:GQ 1/1:0,67:63:-205.77,-19.00,-0.05:99
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chr1 2050592 rs10797427 C T 209.13 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=2020.11;QD=36.73;SB=-999.03 GT:AD:DP:GL:GQ 1/1:0,54:53:-205.62,-15.97,-0.03:99
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chr1 2051236 rs6603815 T C 200 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.85;MQ0=0;OQ=2560.21;QD=35.07;SB=-874.04 GT:AD:DP:GL:GQ 1/1:0,73:73:-259.63,-21.99,-0.03:99
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chr1 2051829 rs3107157 T C 631.33 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.47;MQ0=0;OQ=1661.55;QD=30.21;SB=-807.71 GT:AD:DP:GL:GQ 1/1:0,55:52:-169.78,-15.68,-0.04:99
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chr1 2053024 rs2222217 G A 330.52 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.94;MQ0=0;OQ=1814.00;QD=39.43;SB=-879.02 GT:AD:DP:GL:GQ 1/1:0,46:46:-185.00,-13.86,-0.01:99
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chr1 2055199 rs3128293 A G 0.17 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=4;HaplotypeScore=2.50;MQ=57.87;MQ0=0;OQ=714.48;QD=32.48;SB=-354.81 GT:AD:DP:GL:GQ 1/1:0,22:21:-75.04,-6.33,-0.01:63.18
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chr1 2055203 rs3128294 G C 31.92 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=2.50;MQ=59.11;MQ0=0;OQ=958.73;QD=36.87;SB=-480.55 GT:AD:DP:GL:GQ 1/1:0,26:24:-99.47,-7.24,-0.01:72.23
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chr1 2056850 rs55958603 C T 1.19 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=3;HaplotypeScore=3.45;MQ=57.77;MQ0=0;OQ=633.04;QD=15.07;SB=-129.09 GT:AD:DP:GL:GQ 0/1:21,21:38:-78.03,-11.45,-68.95:99
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chr1 2058340 rs3128295 C T 135.04 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.75;MQ=57.98;MQ0=0;OQ=1478.85;QD=33.61;SB=-754.65 GT:AD:DP:GL:GQ 1/1:0,43:39:-151.49,-11.75,-0.02:99
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chr1 2058766 rs3128296 G T 62.70 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=59.52;MQ0=0;OQ=1387.47;QD=35.58;SB=-366.86 GT:AD:DP:GL:GQ 1/1:0,39:38:-142.34,-11.45,-0.01:99
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chr1 2060181 rs411021 T C 39.97 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.62;MQ0=0;OQ=1893.37;QD=29.58;SB=-877.01 GT:AD:DP:GL:GQ 1/1:0,64:60:-192.98,-18.10,-0.06:99
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chr1 2061200 rs424079 C A 282.41 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=59.70;MQ0=0;OQ=2061.38;QD=33.25;SB=-816.15 GT:AD:DP:GL:GQ 1/1:2,60:59:-209.75,-17.78,-0.03:99
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chr1 2061416 rs436045 A G 341.67 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=1852.88;QD=31.95;SB=-463.52 GT:AD:DP:GL:GQ 1/1:0,58:55:-188.90,-16.57,-0.02:99
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chr1 2061625 rs364677 A G 92.05 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=2.94;MQ=57.88;MQ0=0;OQ=1754.29;QD=33.10;SB=-829.10 GT:AD:DP:GL:GQ 1/1:0,53:50:-179.03,-15.06,-0.02:99
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chr1 2062860 rs2945573 A G 10.32 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=3.09;MQ=53.50;MQ0=0;OQ=1269.78;QD=34.32;SB=-473.51 GT:AD:DP:GL:GQ 1/1:0,37:36:-130.57,-10.84,-0.01:99
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chr1 2063413 rs643076 A G 32.55 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=23.27;MQ0=4;QD=3.26;SB=-41.68 GT:AD:DP:GL:GQ 1/1:0,9:2:-6.66,-0.60,-0.00:6.02
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chr1 2063477 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=1;HaplotypeScore=9.72;MQ=34.90;MQ0=16;OQ=82.45;QD=1.04;SB=5.04 GT:AD:DP:GL:GQ 0/1:72,7:47:-25.69,-14.16,-141.31:99
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chr1 2063706 rs56038539 T C 3.16 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=41.37;MQ0=1;OQ=139.38;QD=19.91;SB=-78.92 GT:AD:DP:GL:GQ 1/1:0,7:5:-17.50,-1.51,-0.00:15.04
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chr1 2068664 . C T 1.14 PASS AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=1;HaplotypeScore=4.59;MQ=58.77;MQ0=0;OQ=1604.59;QD=18.44;SB=-789.85 GT:AD:DP:GL:GQ 0/1:40,47:84:-189.05,-25.30,-139.35:99
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chr1 2076421 rs2459983 A G 9.14 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=6.88;MQ=57.31;MQ0=0;OQ=556.13;QD=9.43;SB=-262.92 GT:AD:DP:GL:GQ 0/1:36,23:54:-75.17,-16.28,-123.64:99
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chr1 2080370 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=7.10;MQ=51.87;MQ0=1;OQ=83.25;QD=1.63;SB=68.25 GT:AD:DP:GL:GQ 0/1:34,17:35:-22.19,-10.58,-111.66:99
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chr1 2084392 rs12132341 G A 174.47 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.02;MQ=59.31;MQ0=0;OQ=863.52;QD=15.99;SB=-268.13 GT:AD:DP:GL:GQ 0/1:26,28:52:-105.30,-15.67,-88.61:99
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chr1 2089742 rs12137653 G A 181.23 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=1.72;MQ=58.90;MQ0=0;OQ=1123.18;QD=19.04;SB=-544.82 GT:AD:DP:GL:GQ 0/1:23,36:56:-132.48,-16.88,-70.24:99
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chr1 2096700 rs12135175 T C 69.07 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=484.58;QD=34.61;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,14:14:-52.05,-4.22,-0.00:42.13
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chr1 2096756 rs12135178 T C 1.47 PASS AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=63.69;QD=21.23;SB=-45.69 GT:AD:DP:GL:GQ 1/1:0,3:3:-9.86,-0.91,-0.00:9.02
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chr1 2097150 . G T 29.88 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=2;HaplotypeScore=4.60;MQ=59.01;MQ0=0;QD=1.57;SB=20.09 GT:AD:DP:GL:GQ 0/1:12,7:13:-10.19,-3.92,-36.97:62.71
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chr1 2103132 . T G 33.73 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=2;HaplotypeScore=13.23;MQ=58.26;MQ0=0;QD=0.50;SB=77.26 GT:AD:DP:GL:GQ 0/1:40,27:45:-20.22,-13.56,-132.60:66.56
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chr1 2103519 . T G 34.88 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=1;HaplotypeScore=24.16;MQ=56.69;MQ0=0;QD=0.66;SB=65.20 GT:AD:DP:GL:GQ 0/1:32,21:34:-17.01,-10.24,-99.26:67.71
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chr1 2110321 rs12145923 A C 0.48 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=12.44;MQ=52.00;MQ0=0;OQ=558.55;QD=9.01;SB=-276.83 GT:AD:DP:GL:GQ 0/1:36,25:56:-76.01,-16.87,-110.27:99
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chr1 2119788 . T C 18.51 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=3;HaplotypeScore=2.86;MQ=58.76;MQ0=0;QD=0.33;SB=56.21 GT:AD:DP:GL:GQ 0/1:41,15:42:-17.79,-12.66,-139.27:51.28
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chr1 2129255 . C G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=12.54;MQ=53.09;MQ0=0;OQ=134.48;QD=3.96;SB=-44.78 GT:AD:DP:GL:GQ 0/1:28,6:25:-24.27,-7.54,-83.09:99
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chr1 2130727 . C A 3.24 PASS AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=883.89;QD=21.05;SB=-232.51 GT:AD:DP:GL:GQ 0/1:13,29:42:-104.32,-12.65,-47.37:99
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chr1 2133967 rs2503715 A G 158.02 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=60.00;MQ0=0;OQ=295.10;QD=12.30;SB=-168.37 GT:AD:DP:GL:GQ 0/1:13,11:24:-40.02,-7.23,-52.87:99
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chr1 2146787 . G T 26.55 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=20;HaplotypeScore=12.86;MQ=49.19;MQ0=1;QD=0.48;SB=62.22 GT:AD:DP:GL:GQ 0/1:43,12:38:-17.39,-11.45,-117.88:59.38
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chr1 2157661 . T G 18.80 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=2;HaplotypeScore=22.82;MQ=58.47;MQ0=0;QD=0.32;SB=110.33 GT:AD:DP:GL:GQ 0/1:45,13:50:-20.22,-15.06,-154.85:51.58
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chr1 2158219 . G A 102.84 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=58.11;MQ0=0;OQ=732.58;QD=15.59;SB=-362.51 GT:AD:DP:GL:GQ 0/1:23,24:45:-90.10,-13.56,-76.34:99
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chr1 2159397 . G A 168.87 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=557.34;QD=13.59;SB=-169.24 GT:AD:DP:GL:GQ 0/1:23,18:39:-70.77,-11.75,-72.68:99
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chr1 2162698 rs55996607 T A 417.68 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=618.41;QD=12.13;SB=-230.72 GT:AD:DP:GL:GQ 0/1:28,23:50:-80.19,-15.06,-104.77:99
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chr1 2164572 rs263525 T C 240.22 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.18;MQ=58.19;MQ0=0;OQ=1470.94;QD=30.02;SB=-709.84 GT:AD:DP:GL:GQ 1/1:0,49:48:-150.72,-14.48,-0.04:99
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chr1 2166877 rs4648817 C T 227.81 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.25;MQ=42.45;MQ0=0;OQ=888.81;QD=15.06;SB=-258.26 GT:AD:DP:GL:GQ 0/1:29,28:53:-108.14,-15.97,-85.30:99
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chr1 2167087 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=78;Dels=0.03;HRun=20;HaplotypeScore=33.19;MQ=45.08;MQ0=3;OQ=60.74;QD=0.78;SB=86.28 GT:AD:DP:GL:GQ 0/1:57,18:48:-23.51,-14.16,-146.86:93.57
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chr1 2172859 rs55827021 G A 215.80 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=60.00;MQ0=0;OQ=711.82;QD=15.47;SB=-343.87 GT:AD:DP:GL:GQ 0/1:21,25:42:-87.13,-12.66,-66.29:99
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chr1 2181828 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.01;HRun=5;HaplotypeScore=57.83;MQ=51.68;MQ0=2;OQ=160.28;QD=2.32;SB=74.25 GT:AD:DP:GL:GQ 0/1:46,21:51:-34.38,-15.07,-143.28:99
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chr1 2181834 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=20;HaplotypeScore=10.75;MQ=49.92;MQ0=3;OQ=651.07;QD=8.57;SB=86.24 GT:AD:DP:GL:GQ 0/1:47,28:67:-88.59,-20.20,-142.58:99
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chr1 2190201 rs4648625 G T 81.26 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=2.89;MQ=59.03;MQ0=0;OQ=1500.00;QD=34.88;SB=-738.07 GT:AD:DP:GL:GQ 1/1:0,43:43:-153.60,-12.95,-0.02:99
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chr1 2194650 rs4648819 G A 133.33 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=0.82;MQ=60.00;MQ0=0;OQ=743.48;QD=16.52;SB=-314.80 GT:AD:DP:GL:GQ 0/1:22,23:44:-90.89,-13.26,-76.95:99
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chr1 2200056 rs55778641 A C 21.64 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=4.74;MQ=60.00;MQ0=0;OQ=608.53;QD=12.95;SB=-87.63 GT:AD:DP:GL:GQ 0/1:21,26:44:-77.39,-13.25,-77.32:99
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chr1 2201955 . C T 11.73 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=16.61;MQ=30.48;MQ0=8;QD=0.49;SB=-3.98 GT:AD:DP:GL:GQ 0/1:18,6:8:-6.84,-2.41,-19.02:44.27
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chr1 2202003 . A G 11.74 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=1;HaplotypeScore=7.13;MQ=18.21;MQ0=12;QD=0.30;SB=-3.98 GT:AD:DP:GL:GQ 0/1:31,8:9:-7.14,-2.71,-26.71:44.28
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chr1 2202019 . C A 24.05 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=18.13;MQ0=6;QD=1.05;SB=-6.99 GT:AD:DP:GL:GQ 0/1:15,8:6:-7.50,-1.81,-11.06:56.87
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chr1 2202047 . A G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=1;HaplotypeScore=10.59;MQ=18.96;MQ0=8;OQ=148.17;QD=5.93;SB=-3.98 GT:AD:DP:GL:GQ 0/1:17,8:9:-20.81,-2.71,-12.59:98.81
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chr1 2202060 . C T 1.87 PASS AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=3.16;MQ=16.70;MQ0=15;OQ=178.09;QD=5.94;SB=-4.00 GT:AD:DP:GL:GQ 0/1:17,12:9:-23.81,-2.71,-8.44:57.22
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chr1 2202081 . C T 18.49 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=39;Dels=0.03;HRun=0;HaplotypeScore=43.99;MQ=16.84;MQ0=21;QD=0.47;SB=-6.99 GT:AD:DP:GL:GQ 0/1:31,7:8:-7.54,-2.41,-18.75:51.27
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chr1 2202085 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=40;Dels=0.03;HRun=0;HaplotypeScore=35.15;MQ=14.59;MQ0=24;OQ=74.01;QD=1.85;SB=-48.55 GT:AD:DP:GL:GQ 0/1:30,9:6:-12.50,-1.81,-8.79:69.79
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chr1 2202103 . C T 23.47 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=12.67;MQ=15.94;MQ0=20;QD=0.57;SB=-6.99 GT:AD:DP:GL:GQ 0/1:31,9:7:-7.74,-2.11,-15.15:56.28
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chr1 2202167 . C A 13.22 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=1;HaplotypeScore=11.12;MQ=8.91;MQ0=36;QD=0.22;SB=-10.00 GT:AD:DP:GL:GQ 0/1:51,9:4:-5.79,-1.21,-5.41:41.98
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chr1 2202296 . C A 18.94 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=1;HaplotypeScore=9.91;MQ=10.32;MQ0=37;QD=0.39;SB=-10.00 GT:AD:DP:GL:GQ 0/1:36,13:6:-6.98,-1.81,-13.53:51.72
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chr1 2202348 . A G 10.17 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=23.55;MQ=13.35;MQ0=40;QD=0.15;SB=-25.65 GT:AD:DP:GL:GQ 0/1:57,8:7:-6.37,-2.11,-18.82:42.57
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chr1 2202364 . C T 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.75;MQ=20.33;MQ0=13;OQ=62.56;QD=1.49;SB=-32.09 GT:AD:DP:GL:GQ 0/1:34,6:7:-15.23,-5.69,-14.13:84.42
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chr1 2202391 . A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=5.05;MQ=22.23;MQ0=9;OQ=175.98;QD=4.09;SB=-54.84 GT:AD:DP:GL:GQ 0/1:26,17:18:-26.30,-5.42,-41.13:99
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chr1 2202434 . A G 21.78 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=1;HaplotypeScore=15.47;MQ=13.87;MQ0=17;QD=0.81;SB=-34.93 GT:AD:DP:GL:GQ 0/1:19,8:5:-6.97,-1.51,-11.89:54.59
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chr1 2202602 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=59.56;MQ=10.62;MQ0=43;OQ=145.43;QD=2.24;SB=-6.99 GT:AD:DP:GL:GQ 0/1:30,35:7:-19.94,-2.11,-6.77:46.57
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chr1 2202632 . G T 82.62 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=11.21;MQ0=49;QD=1.18;SB=-10.00 GT:AD:DP:GL:GQ 0/1:61,9:9:-14.26,-2.71,-18.59:99
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chr1 2202667 . A C 16.33 DPFilter;HARD_TO_VALIDATE;Indel;LowQual AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=25.34;MQ=10.07;MQ0=49;QD=0.22;SB=8.05 GT:AD:DP:GL:GQ 0/1:64,9:8:-7.32,-2.41,-22.67:49.06
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chr1 2202682 . G A 36.23 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=1;HaplotypeScore=78.01;MQ=9.70;MQ0=44;QD=0.48;SB=-3.98 GT:AD:DP:GL:GQ 0/1:63,12:4:-8.11,-1.20,-7.39:61.88
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chr1 2202686 . G A 35.24 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=79.87;MQ=9.88;MQ0=42;QD=0.50;SB=-3.99 GT:AD:DP:GL:GQ 0/1:59,12:4:-8.01,-1.21,-5.99:47.86
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chr1 2202707 . C T 38.48 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=10.09;MQ=9.21;MQ0=26;QD=0.82;SB=-10.00 GT:AD:DP:GL:GQ 0/1:44,3:4:-8.34,-1.21,-5.59:43.85
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chr1 2202728 . T C 26.83 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=9.84;MQ=8.94;MQ0=16;QD=1.07;SB=-10.00 GT:AD:DP:GL:GQ 1/1:12,12:2:-6.09,-0.60,-0.00:6.01
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chr1 2202823 . G A 38.25 LowQual AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=1;HaplotypeScore=5.28;MQ=19.51;MQ0=2;QD=3.82;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,8:3:-8.01,-0.90,-3.57:26.65
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chr1 2203054 . A C 12.92 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.41;MQ=9.60;MQ0=26;QD=0.31;SB=-27.98 GT:AD:DP:GL:GQ 0/1:36,6:4:-5.76,-1.21,-6.84:45.53
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chr1 2203334 . C T 27.36 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=7.10;MQ=12.34;MQ0=21;QD=0.94;SB=-37.65 GT:AD:DP:GL:GQ 0/1:21,8:4:-7.23,-1.21,-5.77:45.59
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chr1 2203377 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=20.17;MQ=13.03;MQ0=22;OQ=140.31;QD=3.79;SB=-42.53 GT:AD:DP:GL:GQ 0/1:23,14:7:-19.42,-2.11,-7.14:50.30
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chr1 2203636 . C T 0.06 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=18.31;MQ0=12;OQ=75.25;QD=2.03;SB=-3.99 GT:AD:DP:GL:GQ 0/1:28,9:19:-16.53,-5.73,-47.88:99
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chr1 2203679 rs2643914 C T 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=6.14;MQ=18.30;MQ0=12;OQ=93.96;QD=1.92;SB=-63.48 GT:AD:DP:GL:GQ 0/1:36,12:24:-19.91,-7.23,-64.90:99
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chr1 2203718 rs2645079 T C 32.47 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.98;MQ0=8;OQ=123.75;QD=3.75;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,20:15:-20.18,-4.52,-29.86:99
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chr1 2203765 rs12117574 T C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=5.02;MQ=32.99;MQ0=11;OQ=133.28;QD=2.18;SB=-88.55 GT:AD:DP:GL:GQ 0/1:50,11:38:-28.07,-11.46,-111.19:99
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chr1 2204009 . C G 47.74 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=47.05;MQ0=0;OQ=366.61;QD=8.94;SB=-120.51 GT:AD:DP:GL:GQ 0/1:27,14:39:-51.71,-11.77,-108.96:99
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chr1 2206228 rs4648821 T G 261.20 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=59.19;MQ0=0;OQ=657.01;QD=12.63;SB=-349.05 GT:AD:DP:GL:GQ 0/1:29,23:51:-84.34,-15.36,-102.93:99
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chr1 2206251 rs6689315 A G 495.75 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.86;MQ0=0;OQ=794.59;QD=13.94;SB=-403.30 GT:AD:DP:GL:GQ 0/1:29,28:56:-99.61,-16.87,-113.15:99
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chr1 2206925 rs61759158 G A 51.82 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=54.01;MQ0=0;OQ=371.96;QD=12.40;SB=-7.00 GT:AD:DP:GL:GQ 0/1:17,13:28:-48.92,-8.45,-48.51:99
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chr1 2207673 . G C 46.34 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=3;HaplotypeScore=11.90;MQ=55.68;MQ0=0;QD=1.03;SB=71.27 GT:AD:DP:GL:GQ 0/1:33,12:36:-18.77,-10.85,-141.59:79.18
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chr1 2207894 . C T 62.11 PASS AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=0;HaplotypeScore=3.51;MQ=60.00;MQ0=0;OQ=1408.04;QD=16.96;SB=-562.41 GT:AD:DP:GL:GQ 0/1:38,45:79:-167.91,-23.82,-117.96:99
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chr1 2208688 rs10910049 G T 213.58 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=47.61;MQ0=2;OQ=399.96;QD=8.89;SB=-196.49 GT:AD:DP:GL:GQ 0/1:28,17:40:-55.33,-12.05,-79.33:99
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chr1 2208825 rs6691983 C T 81.79 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=2.59;MQ=52.03;MQ0=1;OQ=657.40;QD=17.30;SB=-233.73 GT:AD:DP:GL:GQ 0/1:18,20:35:-79.57,-10.55,-49.20:99
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chr1 2208828 rs6682474 G A 54.35 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=3.33;MQ=53.40;MQ0=1;OQ=696.36;QD=18.33;SB=-278.18 GT:AD:DP:GL:GQ 0/1:17,21:37:-84.07,-11.15,-57.35:99
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chr1 2209299 rs56051051 T G 55.14 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=58.49;MQ0=0;OQ=442.31;QD=9.41;SB=-244.75 GT:AD:DP:GL:GQ 0/1:22,25:42:-60.17,-12.66,-79.16:99
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chr1 2209740 rs17372827 A C 232.76 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=877.78;QD=13.10;SB=-279.93 GT:AD:DP:GL:GQ 0/1:36,31:66:-110.94,-19.88,-129.70:99
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chr1 2209930 rs4648823 T A 295.53 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.07;MQ=59.11;MQ0=0;OQ=697.00;QD=13.40;SB=-278.32 GT:AD:DP:GL:GQ 0/1:27,24:50:-88.05,-15.06,-97.62:99
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chr1 2210285 rs2643884 T C 4 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=5.32;MQ=58.60;MQ0=0;OQ=1465.33;QD=29.31;SB=-698.59 GT:AD:DP:GL:GQ 1/1:0,50:47:-150.17,-14.18,-0.05:99
|
|
chr1 2210377 rs1039065 A C 393.22 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.65;MQ0=0;OQ=1107.46;QD=29.14;SB=-383.86 GT:AD:DP:GL:GQ 1/1:0,38:36:-114.37,-10.85,-0.04:99
|
|
chr1 2210509 rs2017143 C T 306.58 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.15;MQ0=0;OQ=1280.02;QD=38.79;SB=-395.53 GT:AD:DP:GL:GQ 1/1:0,33:33:-131.60,-9.94,-0.01:99
|
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chr1 2211082 rs2643885 A C 289.56 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.73;MQ0=0;OQ=1017.95;QD=35.10;SB=-113.02 GT:AD:DP:GL:GQ 1/1:0,29:29:-105.39,-8.74,-0.01:87.26
|
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chr1 2211133 rs2843166 C A 247.56 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.20;MQ0=0;OQ=767.67;QD=31.99;SB=-111.83 GT:AD:DP:GL:GQ 1/1:0,24:23:-80.36,-6.93,-0.01:69.19
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chr1 2211394 rs903924 A G 577.26 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=1710.61;QD=33.54;SB=-819.09 GT:AD:DP:GL:GQ 1/1:0,51:49:-174.66,-14.76,-0.02:99
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chr1 2211494 rs903923 G C 2.57 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=5.22;MQ=56.20;MQ0=0;OQ=1828.69;QD=36.57;SB=-846.47 GT:AD:DP:GL:GQ 1/1:0,50:45:-186.48,-13.57,-0.02:99
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chr1 2211496 rs903922 A T 57.75 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.95;MQ=56.42;MQ0=0;OQ=1691.54;QD=31.92;SB=-801.63 GT:AD:DP:GL:GQ 1/1:0,53:49:-172.77,-14.77,-0.03:99
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chr1 2211936 rs903921 G A 86.49 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=3.09;MQ=57.20;MQ0=0;OQ=1373.97;QD=32.71;SB=-609.72 GT:AD:DP:GL:GQ 1/1:1,40:39:-143.60,-11.76,-2.62:91.42
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chr1 2212420 rs903920 A G 98.07 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.39;MQ0=0;OQ=1274.47;QD=33.54;SB=-555.35 GT:AD:DP:GL:GQ 1/1:0,38:37:-131.05,-11.15,-0.02:99
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chr1 2212443 rs903919 T C 439.40 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=897.63;QD=27.20;SB=-373.47 GT:AD:DP:GL:GQ 1/1:0,33:30:-93.38,-9.05,-0.03:90.19
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chr1 2212983 rs2172900 T C 377 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=1306.72;QD=32.67;SB=-161.75 GT:AD:DP:GL:GQ 1/1:0,40:40:-134.28,-12.05,-0.02:99
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chr1 2213118 rs2132303 T C 18.89 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.55;MQ0=0;OQ=1347.55;QD=32.08;SB=-116.87 GT:AD:DP:GL:GQ 1/1:0,41:39:-138.35,-11.75,-0.01:99
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chr1 2214142 rs903617 A G 32.99 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=2.29;MQ=58.97;MQ0=0;OQ=1261.61;QD=28.04;SB=-567.89 GT:AD:DP:GL:GQ 1/1:0,45:41:-129.80,-12.38,-0.05:99
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chr1 2214469 rs2643886 T G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=5;HaplotypeScore=4.66;MQ=57.70;MQ0=0;OQ=1258.31;QD=26.77;SB=-451.03 GT:AD:DP:GL:GQ 1/1:1,46:38:-129.44,-11.45,-0.02:99
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chr1 2214505 rs2645091 A G 160.46 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=58.58;MQ0=0;OQ=1430.84;QD=31.11;SB=-424.25 GT:AD:DP:GL:GQ 1/1:0,46:44:-146.70,-13.26,-0.03:99
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chr1 2214736 rs10910050 A C 929.01 Indel AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=9;HaplotypeScore=4.06;MQ=59.20;MQ0=0;QD=27.32;SB=-435.82 GT:AD:DP:GL:GQ 1/1:1,33:28:-96.50,-8.43,-0.01:84.23
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chr1 2215144 rs1532385 G A 183.41 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=59.56;MQ0=0;OQ=1969.69;QD=37.88;SB=-987.83 GT:AD:DP:GL:GQ 1/1:1,51:50:-200.57,-15.06,-0.01:99
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chr1 2216193 rs903918 T A 121.47 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.63;MQ=60.00;MQ0=0;OQ=1515.17;QD=34.44;SB=-696.39 GT:AD:DP:GL:GQ 1/1:0,44:41:-155.11,-12.35,-0.01:99
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chr1 2216414 . T G 45.79 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=2;HaplotypeScore=10.58;MQ=58.61;MQ0=0;QD=0.68;SB=86.26 GT:AD:DP:GL:GQ 0/1:37,30:42:-20.52,-12.66,-118.85:78.63
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chr1 2217282 rs2843163 C T 190.11 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=4.18;MQ=57.17;MQ0=0;OQ=844.33;QD=16.89;SB=-357.35 GT:AD:DP:GL:GQ 0/1:22,28:45:-101.28,-13.56,-64.72:99
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chr1 2217535 rs56117572 A C 228.37 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.09;MQ=59.71;MQ0=0;OQ=819.93;QD=12.61;SB=-293.99 GT:AD:DP:GL:GQ 0/1:33,32:61:-103.65,-18.38,-105.35:99
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chr1 2219307 rs2643888 A G 69.82 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=2.64;MQ=59.39;MQ0=0;OQ=1301.49;QD=34.25;SB=-624.24 GT:AD:DP:GL:GQ 1/1:0,38:38:-133.76,-11.45,-0.02:99
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chr1 2219413 rs2843161 C T 101.78 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=1668.32;QD=37.92;SB=-845.15 GT:AD:DP:GL:GQ 1/1:0,44:43:-170.43,-12.96,-0.01:99
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chr1 2219777 . C T 48.76 PASS AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=3.44;MQ=59.45;MQ0=0;OQ=599.56;QD=14.28;SB=-283.32 GT:AD:DP:GL:GQ 0/1:19,21:37:-74.40,-11.16,-63.66:99
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chr1 2220425 rs56341331 C G 57.44 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=2.43;MQ=59.52;MQ0=0;OQ=468.59;QD=12.02;SB=-132.55 GT:AD:DP:GL:GQ 0/1:23,16:35:-60.70,-10.56,-79.04:99
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chr1 2221427 rs1809823 G T 87.22 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=3.27;MQ=59.54;MQ0=0;OQ=673.61;QD=16.43;SB=-228.53 GT:AD:DP:GL:GQ 0/1:18,23:40:-82.70,-12.05,-57.34:99
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chr1 2221826 rs55710545 G C 290.21 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.48;MQ0=0;OQ=503.65;QD=11.45;SB=-276.95 GT:AD:DP:GL:GQ 0/1:26,18:42:-66.31,-12.67,-107.95:99
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chr1 2223172 rs903618 A G 139.54 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=1447.93;QD=30.17;SB=-664.81 GT:AD:DP:GL:GQ 1/1:0,48:47:-148.43,-14.18,-0.05:99
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chr1 2224111 rs1496555 A G 103.05 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=57.88;MQ0=0;OQ=1360.32;QD=32.39;SB=-504.48 GT:AD:DP:GL:GQ 1/1:0,42:39:-139.63,-11.75,-0.01:99
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chr1 2224763 rs2256178 C T 433.01 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.54;MQ0=0;OQ=665.60;QD=16.23;SB=-342.52 GT:AD:DP:GL:GQ 0/1:20,21:41:-82.21,-12.37,-61.19:99
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chr1 2225516 rs11577387 G A 98.98 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=58.87;MQ0=0;OQ=626.11;QD=16.92;SB=-209.93 GT:AD:DP:GL:GQ 0/1:17,20:32:-75.54,-9.65,-40.72:99
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chr1 2226199 rs4648825 T C 63.68 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=3.65;MQ=59.17;MQ0=0;OQ=999.95;QD=17.24;SB=-492.13 GT:AD:DP:GL:GQ 0/1:22,36:55:-119.85,-16.57,-85.50:99
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chr1 2226557 rs2643904 A G 112.25 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=1.91;MQ=59.50;MQ0=0;OQ=1489.85;QD=32.39;SB=-771.11 GT:AD:DP:GL:GQ 1/1:0,46:44:-152.59,-13.26,-0.02:99
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chr1 2226618 rs2843158 G C 77.30 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=1399.75;QD=34.99;SB=-297.26 GT:AD:DP:GL:GQ 1/1:0,40:37:-143.60,-11.18,-0.04:99
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chr1 2227108 rs11580302 A G 15.25 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.17;MQ=58.99;MQ0=0;OQ=1313.96;QD=28.56;SB=-483.14 GT:AD:DP:GL:GQ 1/1:0,46:42:-135.02,-12.67,-0.04:99
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chr1 2228420 . T C 34.45 PASS AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=59.20;MQ0=0;OQ=345.13;QD=11.90;SB=-158.70 GT:AD:DP:GL:GQ 0/1:16,13:29:-46.53,-8.74,-63.45:99
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chr1 2229866 rs2173049 T C 234.22 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.01;MQ0=0;OQ=1791.17;QD=29.36;SB=-845.65 GT:AD:DP:GL:GQ 1/1:0,60:57:-182.75,-17.19,-0.05:99
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chr1 2230243 rs2843157 C T 3.13 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=2;HaplotypeScore=5.43;MQ=58.16;MQ0=0;OQ=293.03;QD=7.71;SB=-52.03 GT:AD:DP:GL:GQ 0/1:21,15:25:-40.13,-7.54,-43.56:99
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chr1 2233378 rs2843156 C T 2.48 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=59.97;MQ0=0;OQ=1676.83;QD=39.00;SB=-476.64 GT:AD:DP:GL:GQ 1/1:0,43:42:-171.28,-12.65,-0.01:99
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chr1 2234765 rs2843154 C T 245.28 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.42;MQ0=0;OQ=364.59;QD=11.39;SB=-94.60 GT:AD:DP:GL:GQ 0/1:19,13:29:-48.48,-8.74,-59.24:99
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chr1 2235081 rs2843153 C T 158.69 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.00;MQ0=0;OQ=1550.87;QD=36.93;SB=-657.38 GT:AD:DP:GL:GQ 1/1:0,42:40:-158.69,-12.05,-0.01:99
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chr1 2235299 rs2643902 T C 83.90 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=58.80;MQ0=0;OQ=1694.87;QD=26.90;SB=-805.69 GT:AD:DP:GL:GQ 1/1:0,63:54:-173.12,-16.28,-0.05:99
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chr1 2235430 rs2843152 C G 36.95 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.38;MQ0=0;OQ=1353.71;QD=36.59;SB=-455.86 GT:AD:DP:GL:GQ 1/1:0,37:35:-138.99,-10.57,-0.03:99
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chr1 2235493 rs2843151 C T 341.97 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=1519.57;QD=37.99;SB=-552.74 GT:AD:DP:GL:GQ 1/1:0,40:39:-155.55,-11.75,-0.01:99
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chr1 2237259 rs2643903 T C 68.22 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.78;MQ0=0;OQ=1099.17;QD=28.93;SB=-371.38 GT:AD:DP:GL:GQ 1/1:0,38:35:-113.53,-10.55,-0.03:99
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chr1 2237347 rs2645076 A G 8.05 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=892.74;QD=27.90;SB=-347.40 GT:AD:DP:GL:GQ 1/1:0,32:29:-92.89,-8.75,-0.03:87.17
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chr1 2237604 rs2843150 G C 105.40 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=58.39;MQ0=0;OQ=929.83;QD=32.06;SB=-483.10 GT:AD:DP:GL:GQ 1/1:0,29:23:-96.58,-6.93,-0.01:69.23
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chr1 2237845 rs2643905 T C 349.37 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=1229.58;QD=32.36;SB=-467.52 GT:AD:DP:GL:GQ 1/1:0,38:37:-126.56,-11.15,-0.02:99
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chr1 2238243 rs60565777 G T 1452.57 Indel AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=60.48;MQ0=0;QD=34.58;SB=-671.66 GT:AD:DP:GL:GQ 1/1:0,42:42:-148.86,-12.66,-0.02:99
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chr1 2238484 rs12035836 A C 189.10 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.53;MQ0=0;OQ=471.85;QD=11.80;SB=-205.81 GT:AD:DP:GL:GQ 0/1:20,20:36:-61.31,-10.85,-64.85:99
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chr1 2239096 rs2645077 G A 27.69 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=2;HaplotypeScore=1.28;MQ=59.32;MQ0=0;OQ=1136.46;QD=33.43;SB=-382.99 GT:AD:DP:GL:GQ 1/1:0,33:31:-117.25,-9.35,-0.02:93.28
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chr1 2241682 . G A 17.89 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=4.02;MQ=57.94;MQ0=0;OQ=417.19;QD=12.27;SB=-164.16 GT:AD:DP:GL:GQ 0/1:17,17:31:-54.36,-9.35,-49.53:99
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chr1 2243754 rs56393204 G A 58.20 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=58.84;MQ0=0;OQ=282.27;QD=14.11;SB=-81.31 GT:AD:DP:GL:GQ 0/1:7,11:14:-35.73,-4.22,-15.87:99
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chr1 2244770 rs2645075 T C 149.18 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.02;MQ0=0;OQ=1276.49;QD=27.75;SB=-655.75 GT:AD:DP:GL:GQ 1/1:0,46:42:-131.28,-12.68,-0.05:99
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chr1 2245871 rs2645074 A G 281.10 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.11;MQ0=0;OQ=516.48;QD=10.99;SB=-220.38 GT:AD:DP:GL:GQ 0/1:24,23:43:-67.90,-12.97,-87.14:99
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chr1 2246105 rs2843148 A T 522.32 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.70;MQ0=0;OQ=1342.05;QD=33.55;SB=-593.22 GT:AD:DP:GL:GQ 1/1:0,40:36:-137.80,-10.84,-0.01:99
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chr1 2246150 . C T 22.21 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=51.90;MQ0=0;OQ=477.24;QD=15.39;SB=-219.23 GT:AD:DP:GL:GQ 0/1:15,16:26:-58.85,-7.84,-34.36:99
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chr1 2246331 . T A 1.20 PASS AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.33;MQ=56.18;MQ0=0;OQ=642.82;QD=20.09;SB=-121.93 GT:AD:DP:GL:GQ 0/1:11,21:32:-77.21,-9.64,-40.89:99
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chr1 2246422 . C T 17.03 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=2;HaplotypeScore=46.69;MQ=32.60;MQ0=2;QD=0.46;SB=17.08 GT:AD:DP:GL:GQ 0/1:33,4:25:-12.51,-7.53,-79.77:49.78
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chr1 2246424 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=2;HaplotypeScore=54.85;MQ=32.43;MQ0=2;OQ=173.30;QD=4.56;SB=-18.60 GT:AD:DP:GL:GQ 0/1:26,12:25:-28.15,-7.53,-68.25:99
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chr1 2246439 rs9725291 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=64.95;MQ=33.89;MQ0=1;OQ=86.92;QD=2.12;SB=-39.19 GT:AD:DP:GL:GQ 0/1:33,8:25:-19.51,-7.53,-71.60:99
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chr1 2246445 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=1;HaplotypeScore=48.09;MQ=35.48;MQ0=0;OQ=216.97;QD=4.82;SB=-10.56 GT:AD:DP:GL:GQ 0/1:34,11:29:-33.72,-8.74,-70.74:99
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chr1 2246456 . C T 34.43 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=1;HaplotypeScore=27.71;MQ=37.83;MQ0=0;QD=0.69;SB=1.58 GT:AD:DP:GL:GQ 0/1:43,7:33:-16.67,-9.94,-103.65:67.27
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chr1 2246469 . T C 28.75 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=49;Dels=0.02;HRun=2;HaplotypeScore=77.34;MQ=40.72;MQ0=0;QD=0.59;SB=44.16 GT:AD:DP:GL:GQ 0/1:38,10:28:-14.30,-8.14,-89.44:61.58
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chr1 2246471 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=2;HaplotypeScore=72.35;MQ=42.43;MQ0=0;OQ=76.08;QD=1.58;SB=-6.17 GT:AD:DP:GL:GQ 0/1:36,12:29:-19.64,-8.74,-87.84:99
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chr1 2246484 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=2;HaplotypeScore=51.65;MQ=47.04;MQ0=0;OQ=81.71;QD=2.15;SB=50.19 GT:AD:DP:GL:GQ 0/1:29,8:26:-19.29,-7.83,-83.08:99
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chr1 2246793 . G A 5.64 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=3.91;MQ=55.18;MQ0=1;OQ=1074.55;QD=18.53;SB=-560.61 GT:AD:DP:GL:GQ 0/1:23,35:54:-127.01,-16.27,-81.39:99
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chr1 2247067 rs35006635 C A 47.20 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.81;MQ0=0;OQ=1074.59;QD=21.07;SB=-429.40 GT:AD:DP:GL:GQ 1/1:0,28:51:-197.40,-96.91,-86.36:99
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chr1 2247213 rs12566205 C T 241.62 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.55;MQ=57.90;MQ0=0;OQ=759.24;QD=13.09;SB=-368.12 GT:AD:DP:GL:GQ 0/1:33,25:57:-96.39,-17.18,-106.07:99
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chr1 2247351 rs2643892 C T 241.87 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.94;MQ0=0;OQ=665.97;QD=19.59;SB=-340.91 GT:AD:DP:GL:GQ 0/1:14,20:33:-79.82,-9.94,-42.88:99
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chr1 2247555 rs10910051 G A 197.02 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=4.80;MQ=58.86;MQ0=0;OQ=1049.52;QD=16.15;SB=-447.98 GT:AD:DP:GL:GQ 0/1:31,34:61:-126.63,-18.39,-90.57:99
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chr1 2247587 rs2643893 C T 300.53 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=58.44;MQ0=0;OQ=2112.94;QD=35.22;SB=-1052.32 GT:AD:DP:GL:GQ 1/1:0,60:56:-214.91,-16.88,-0.03:99
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chr1 2247723 rs2645092 C T 700.02 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.71;MQ0=0;OQ=2085.22;QD=38.62;SB=-998.04 GT:AD:DP:GL:GQ 1/1:0,54:53:-212.12,-15.97,-0.01:99
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chr1 2247791 rs2645093 G A 189.38 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=60.00;MQ0=0;OQ=700.42;QD=15.92;SB=-289.76 GT:AD:DP:GL:GQ 0/1:22,22:42:-85.99,-12.66,-67.45:99
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chr1 2248183 rs2643894 C T 135.91 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.68;MQ=57.95;MQ0=0;OQ=1940.09;QD=35.27;SB=-797.32 GT:AD:DP:GL:GQ 1/1:0,55:52:-197.62,-15.67,-0.03:99
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chr1 2248333 rs2643895 G A 408.80 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.33;MQ0=0;OQ=2697.00;QD=39.09;SB=-1222.14 GT:AD:DP:GL:GQ 1/1:0,69:68:-273.30,-20.48,-0.02:99
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chr1 2248552 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=5.80;MQ=51.38;MQ0=0;OQ=50.72;QD=0.83;SB=23.47 GT:AD:DP:GL:GQ 0/1:53,7:56:-28.20,-19.84,-214.64:83.56
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chr1 2248554 . G A 35.21 LowQual AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=3;HaplotypeScore=5.80;MQ=51.10;MQ0=0;QD=0.57;SB=-8.06 GT:AD:DP:GL:GQ 0/1:56,6:58:-24.27,-17.47,-188.51:68.04
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chr1 2248658 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=56.92;MQ0=0;OQ=60.63;QD=0.88;SB=6.91 GT:AD:DP:GL:GQ 0/1:61,8:68:-29.84,-20.49,-240.21:93.47
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chr1 2249886 . C T 54.96 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=-0.12;MQ=60.00;MQ0=0;OQ=750.55;QD=14.72;SB=-348.88 GT:AD:DP:GL:GQ 0/1:25,26:44:-91.61,-13.27,-61.40:99
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chr1 2249910 rs2645063 G A 24.12 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=5.82;MQ=59.50;MQ0=0;OQ=758.18;QD=16.48;SB=-336.52 GT:AD:DP:GL:GQ 0/1:22,24:45:-92.67,-13.57,-67.35:99
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chr1 2250405 rs2645064 G A 151.63 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=58.71;MQ0=0;OQ=569.60;QD=15.82;SB=-242.53 GT:AD:DP:GL:GQ 0/1:16,20:34:-70.49,-10.25,-54.37:99
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chr1 2251037 rs35273536 C T 60.30 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=4.05;MQ=58.82;MQ0=0;OQ=1072.47;QD=18.18;SB=-334.93 GT:AD:DP:GL:GQ 0/1:24,34:52:-128.89,-18.36,-63.36:99
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chr1 2253264 . T C 16.56 Indel;LowQual AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=51.77;MQ0=0;QD=2.76;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,2:6:-6.74,-1.81,-16.62:49.30
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chr1 2253282 . C G 16.92 PASS AC=1;AF=0.50;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=51.16;MQ0=0;OQ=118.58;QD=9.88;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,6:11:-18.46,-3.32,-24.69:99
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chr1 2253362 rs12752072 T C 172.88 PASS AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.89;MQ0=0;OQ=253.44;QD=12.07;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,11:21:-34.96,-6.33,-38.76:99
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chr1 2254886 rs2645066 G A 78.79 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=5.62;MQ=59.17;MQ0=0;OQ=893.72;QD=15.96;SB=-436.47 GT:AD:DP:GL:GQ 0/1:25,31:52:-108.33,-15.67,-85.72:99
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chr1 2255036 rs2645067 T C 87.26 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.60;MQ0=0;OQ=995.78;QD=33.19;SB=-523.42 GT:AD:DP:GL:GQ 1/1:0,30:29:-103.17,-8.74,-0.01:87.25
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chr1 2255079 rs2643898 C T 28.85 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=5.95;MQ=59.03;MQ0=0;OQ=590.58;QD=13.73;SB=-262.25 GT:AD:DP:GL:GQ 0/1:23,20:42:-75.01,-12.66,-72.41:99
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chr1 2255654 rs7546567 G A 132.53 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.73;MQ0=0;OQ=454.68;QD=13.78;SB=-126.36 GT:AD:DP:GL:GQ 0/1:16,16:32:-61.47,-12.72,-52.76:99
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chr1 2255829 rs2843146 T G 0.05 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=5;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=441.34;QD=27.58;SB=-113.02 GT:AD:DP:GL:GQ 1/1:0,16:14:-47.73,-4.22,-0.01:42.10
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chr1 2255938 rs2643899 T C 18.62 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=2.33;MQ=58.69;MQ0=0;OQ=756.05;QD=23.63;SB=-323.76 GT:AD:DP:GL:GQ 1/1:0,32:26:-79.22,-7.85,-0.03:78.14
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chr1 2256793 rs903905 C T 99.15 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=58.29;MQ0=0;OQ=354.28;QD=16.10;SB=-192.21 GT:AD:DP:GL:GQ 0/1:10,12:21:-45.05,-6.33,-27.84:99
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chr1 2258430 rs12091632 A G 318.94 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.32;MQ0=0;OQ=1030.69;QD=30.31;SB=-507.55 GT:AD:DP:GL:GQ 1/1:0,34:33:-106.69,-9.95,-0.03:99
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chr1 2258440 rs12085675 G A 96.71 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.39;MQ0=0;OQ=1318.84;QD=34.71;SB=-520.68 GT:AD:DP:GL:GQ 1/1:0,37:35:-135.49,-10.55,-0.02:99
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chr1 2258510 rs28394874 C G 5.91 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=4.06;MQ=57.77;MQ0=0;OQ=783.94;QD=18.67;SB=-330.90 GT:AD:DP:GL:GQ 0/1:17,25:36:-92.55,-10.88,-48.65:99
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chr1 2258528 rs35986070 A G 102.16 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.27;MQ0=0;OQ=457.65;QD=16.95;SB=-106.83 GT:AD:DP:GL:GQ 0/1:11,16:27:-57.18,-8.13,-41.35:99
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chr1 2258538 rs2645069 T C 177.52 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.13;MQ0=0;OQ=677.36;QD=27.09;SB=-198.05 GT:AD:DP:GL:GQ 1/1:0,25:23:-71.35,-6.94,-0.03:69.14
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chr1 2258598 rs2645070 A G 16.76 PASS AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=60.00;MQ0=0;OQ=322.02;QD=18.94;SB=-156.34 GT:AD:DP:GL:GQ 0/1:4,13:17:-40.61,-5.13,-15.36:99
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chr1 2258651 rs2843145 A G 4.44 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=3;HaplotypeScore=2.01;MQ=59.14;MQ0=0;OQ=426.64;QD=15.80;SB=-196.02 GT:AD:DP:GL:GQ 0/1:8,19:23:-52.88,-6.93,-31.12:99
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chr1 2258910 . A G 4.11 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=1;HaplotypeScore=4.17;MQ=58.13;MQ0=0;OQ=457.98;QD=13.09;SB=-246.31 GT:AD:DP:GL:GQ 0/1:17,18:33:-59.02,-9.94,-70.06:99
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chr1 2259759 rs2036085 T C 103.79 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=626.01;QD=14.56;SB=-172.51 GT:AD:DP:GL:GQ 0/1:16,27:40:-77.94,-12.06,-63.91:99
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chr1 2259869 rs12734736 C T 347.07 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=60.00;MQ0=0;OQ=965.34;QD=16.64;SB=-492.13 GT:AD:DP:GL:GQ 0/1:29,29:54:-116.09,-16.28,-80.58:99
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chr1 2259958 rs2843142 A G 263.06 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=2.46;MQ=59.76;MQ0=0;OQ=1095.49;QD=13.87;SB=-502.48 GT:AD:DP:GL:GQ 0/1:40,39:78:-136.33,-23.50,-157.46:99
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chr1 2261724 rs2843141 C T 591.96 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=1956.29;QD=36.91;SB=-863.62 GT:AD:DP:GL:GQ 1/1:0,53:52:-199.24,-15.68,-0.03:99
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chr1 2262086 rs1472318 C T 44.42 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=57.36;MQ0=0;OQ=484.27;QD=19.37;SB=-215.23 GT:AD:DP:GL:GQ 0/1:8,16:22:-58.34,-6.63,-21.67:99
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chr1 2262763 rs2843139 A G 28.96 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=0.87;MQ=58.77;MQ0=0;OQ=1612.91;QD=30.43;SB=-829.43 GT:AD:DP:GL:GQ 1/1:0,53:52:-164.94,-15.69,-0.06:99
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chr1 2262883 . G A 16 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=49.61;MQ0=5;QD=0.44;SB=-17.46 GT:AD:DP:GL:GQ 0/1:28,8:25:-12.42,-7.54,-69.64:48.73
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chr1 2263004 rs12730050 A G 0.31 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=14.25;MQ=55.46;MQ0=1;OQ=1032.60;QD=11.35;SB=-477.87 GT:AD:DP:GL:GQ 0/1:51,40:84:-131.86,-25.32,-172.18:99
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chr1 2263146 rs2843138 T C 3.27 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.02;HRun=0;HaplotypeScore=5.34;MQ=54.41;MQ0=0;OQ=1335.96;QD=29.04;SB=-625.83 GT:AD:DP:GL:GQ 1/1:0,44:44:-137.23,-12.97,-0.04:99
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chr1 2263291 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=4;HaplotypeScore=15.31;MQ=57.02;MQ0=0;OQ=65.39;QD=1.72;SB=65.25 GT:AD:DP:GL:GQ 0/1:31,7:33:-19.78,-9.96,-120.76:98.22
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chr1 2263292 . A G 14.86 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=3.96;MQ=57.52;MQ0=0;QD=0.41;SB=62.21 GT:AD:DP:GL:GQ 0/1:29,6:31:-14.10,-9.35,-99.44:47.55
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chr1 2263765 rs1472319 T C 33.65 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=3.68;MQ=59.72;MQ0=0;OQ=1846.27;QD=27.56;SB=-842.46 GT:AD:DP:GL:GQ 1/1:0,67:60:-188.28,-18.10,-0.07:99
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chr1 2264170 rs12735747 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=4;HaplotypeScore=15.88;MQ=53.27;MQ0=1;OQ=600.98;QD=16.24;SB=-322.72 GT:AD:DP:GL:GQ 0/1:17,20:33:-73.32,-9.94,-46.93:99
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chr1 2264171 rs12740557 T A 0.25 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=15.88;MQ=53.27;MQ0=1;OQ=596.15;QD=16.11;SB=-294.37 GT:AD:DP:GL:GQ 0/1:17,20:33:-72.84,-9.94,-48.77:99
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chr1 2264298 rs61288374 A G 10.67 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=4.66;MQ=58.45;MQ0=0;OQ=219.39;QD=7.31;SB=-3.98 GT:AD:DP:GL:GQ 0/1:16,13:26:-33.06,-7.84,-58.70:99
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chr1 2264816 rs4648828 G A 38.81 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=2.55;MQ=58.44;MQ0=0;OQ=661.80;QD=16.97;SB=-286.79 GT:AD:DP:GL:GQ 0/1:17,22:36:-80.32,-10.86,-47.76:99
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chr1 2264998 rs4648829 C T 229.79 PASS AC=1;AF=0.50;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=58.45;MQ0=0;OQ=171.83;QD=11.46;SB=-76.07 GT:AD:DP:GL:GQ 0/1:9,6:13:-24.38,-3.92,-22.89:99
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chr1 2265236 rs4648830 T G 6.90 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=58.55;MQ0=0;OQ=452.22;QD=28.26;SB=-174.97 GT:AD:DP:GL:GQ 1/1:0,16:15:-48.82,-4.52,-0.01:45.09
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chr1 2265809 rs2643909 C G 56 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=57.02;MQ0=0;OQ=1592.56;QD=34.62;SB=-562.49 GT:AD:DP:GL:GQ 1/1:0,46:39:-162.87,-11.76,-0.03:99
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chr1 2265882 . G A 8.69 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.87;MQ0=0;OQ=753.33;QD=18.37;SB=-247.76 GT:AD:DP:GL:GQ 0/1:17,24:37:-89.77,-11.15,-48.26:99
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chr1 2265933 . T C 0.10 PASS AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=3;HaplotypeScore=2.25;MQ=58.59;MQ0=0;OQ=218.96;QD=6.64;SB=-11.87 GT:AD:DP:GL:GQ 0/1:21,12:30:-34.22,-9.04,-78.51:99
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chr1 2266056 rs11589063 C A 17.26 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=3.57;MQ=58.25;MQ0=0;OQ=453.86;QD=11.35;SB=-250.27 GT:AD:DP:GL:GQ 0/1:23,17:40:-60.72,-12.05,-77.71:99
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chr1 2266060 rs2843137 T A 278.60 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=57.66;MQ0=0;OQ=421.83;QD=10.55;SB=-226.71 GT:AD:DP:GL:GQ 0/1:23,17:37:-56.61,-11.15,-79.80:99
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chr1 2266231 rs11589451 C A 57.46 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=5.26;MQ=58.41;MQ0=0;OQ=597.75;QD=10.67;SB=-255.49 GT:AD:DP:GL:GQ 0/1:32,24:50:-78.13,-15.07,-90.69:99
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chr1 2266279 rs11590175 A G 185.77 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=59.15;MQ0=0;OQ=537.72;QD=10.97;SB=-262.22 GT:AD:DP:GL:GQ 0/1:22,25:41:-69.42,-12.37,-72.12:99
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chr1 2266621 . G A 34.89 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=3.35;MQ=59.21;MQ0=0;OQ=474.72;QD=13.56;SB=-211.70 GT:AD:DP:GL:GQ 0/1:17,18:29:-59.50,-8.75,-41.35:99
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chr1 2267026 . G A 47.30 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=58.99;MQ0=0;OQ=613.73;QD=16.59;SB=-254.78 GT:AD:DP:GL:GQ 0/1:17,20:34:-74.91,-10.25,-50.44:99
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chr1 2267073 . T C 188.99 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.75;MQ0=0;OQ=394.61;QD=9.87;SB=-211.55 GT:AD:DP:GL:GQ 0/1:22,18:38:-54.20,-11.45,-84.44:99
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chr1 2267410 rs61762093 G C 176.11 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=3.35;MQ=56.22;MQ0=0;OQ=747.58;QD=15.26;SB=-308.18 GT:AD:DP:GL:GQ 0/1:27,22:44:-91.30,-13.26,-97.18:99
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chr1 2267687 rs2843134 G A 624.83 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.67;MQ0=0;OQ=2217.24;QD=36.95;SB=-1015.91 GT:AD:DP:GL:GQ 1/1:0,60:58:-225.33,-17.48,-0.02:99
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chr1 2267975 rs12409523 G C 1.77 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=5.47;MQ=59.03;MQ0=0;OQ=822.23;QD=17.13;SB=-209.63 GT:AD:DP:GL:GQ 0/1:24,24:46:-99.39,-13.88,-93.78:99
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chr1 2268100 rs2132595 C T 240.52 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=58.35;MQ0=0;OQ=844.37;QD=16.56;SB=-387.19 GT:AD:DP:GL:GQ 0/1:23,28:47:-101.89,-14.17,-71.24:99
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chr1 2268508 rs2843133 A G 0.07 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=4;HaplotypeScore=2.38;MQ=57.65;MQ0=0;OQ=995.04;QD=26.19;SB=-340.62 GT:AD:DP:GL:GQ 1/1:0,38:30:-103.10,-9.04,-0.01:90.24
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chr1 2268841 rs2643910 C T 6.12 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=3.07;MQ=58.25;MQ0=0;OQ=784.65;QD=19.62;SB=-334.39 GT:AD:DP:GL:GQ 0/1:16,24:39:-93.50,-11.75,-52.91:99
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chr1 2269677 rs56030548 C T 80.69 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=57.12;MQ0=0;OQ=443.83;QD=15.85;SB=-131.12 GT:AD:DP:GL:GQ 0/1:13,15:27:-55.80,-8.14,-42.23:99
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chr1 2269999 rs35941092 C T 0.23 PASS AC=1;AF=0.50;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=8.68;MQ=48.71;MQ0=0;OQ=64.58;QD=4.61;SB=-21.48 GT:AD:DP:GL:GQ 0/1:10,4:14:-13.97,-4.23,-30.76:97.42
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chr1 2270100 . T A 5.69 PASS AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=56.04;MQ0=0;OQ=92.13;QD=5.12;SB=-47.85 GT:AD:DP:GL:GQ 0/1:13,5:18:-17.92,-5.42,-46.07:99
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chr1 2270283 rs2645072 A C 0.37 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=4;HaplotypeScore=0.16;MQ=56.22;MQ0=0;OQ=963.23;QD=33.21;SB=-173.01 GT:AD:DP:GL:GQ 1/1:0,29:28:-99.92,-8.44,-0.01:84.24
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chr1 2270521 rs2055204 G A 60.41 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=3.82;MQ=59.66;MQ0=0;OQ=983.74;QD=17.89;SB=-468.43 GT:AD:DP:GL:GQ 0/1:22,33:52:-117.32,-15.67,-79.90:99
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chr1 2271586 rs7527871 A C 436.10 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=784.91;QD=12.08;SB=-319.01 GT:AD:DP:GL:GQ 0/1:36,29:64:-101.05,-19.28,-130.62:99
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chr1 2271838 rs1039063 T G 2.04 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=5;HaplotypeScore=1.22;MQ=60.00;MQ0=0;OQ=495.93;QD=11.27;SB=-259.90 GT:AD:DP:GL:GQ 0/1:22,22:41:-65.23,-12.35,-74.62:99
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chr1 2271995 rs10910053 G A 269.15 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=60.00;MQ0=0;OQ=928.57;QD=18.95;SB=-437.81 GT:AD:DP:GL:GQ 0/1:20,29:47:-110.30,-14.16,-67.66:99
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chr1 2272064 . G A 22.07 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=4.67;MQ=59.48;MQ0=0;OQ=676.05;QD=15.36;SB=-356.51 GT:AD:DP:GL:GQ 0/1:22,22:42:-83.55,-12.66,-69.45:99
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chr1 2272233 . C T 4.84 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=3.42;MQ=59.14;MQ0=0;OQ=912.77;QD=16.90;SB=-354.47 GT:AD:DP:GL:GQ 0/1:26,28:53:-110.53,-15.96,-92.85:99
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chr1 2272335 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=2;HaplotypeScore=2.06;MQ=56.98;MQ0=0;OQ=124.90;QD=3.20;SB=56.19 GT:AD:DP:GL:GQ 0/1:24,15:32:-25.41,-9.64,-85.35:99
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chr1 2272540 rs2279704 C T 249.66 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.91;MQ=59.55;MQ0=0;OQ=742.26;QD=14.55;SB=-245.76 GT:AD:DP:GL:GQ 0/1:25,25:47:-91.67,-14.16,-87.05:99
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chr1 2272636 rs2254874 G C 9.15 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=3.74;MQ=56.62;MQ0=0;OQ=1562.16;QD=37.19;SB=-628.86 GT:AD:DP:GL:GQ 1/1:0,42:38:-159.82,-11.46,-0.02:99
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chr1 2272850 rs2036082 C T 429.96 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=669.32;QD=14.55;SB=-278.20 GT:AD:DP:GL:GQ 0/1:25,21:46:-84.08,-13.87,-81.55:99
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chr1 2273702 rs2643912 G T 414.73 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=338.96;QD=15.41;SB=-195.57 GT:AD:DP:GL:GQ 0/1:9,13:21:-43.50,-6.33,-31.88:99
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chr1 2273756 rs2840528 A G 171.15 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.44;MQ0=0;OQ=666.96;QD=16.27;SB=-294.48 GT:AD:DP:GL:GQ 0/1:18,23:41:-82.33,-12.35,-70.40:99
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chr1 2273863 rs2645082 T C 3.28 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=2.08;MQ=58.41;MQ0=0;OQ=1044.33;QD=23.73;SB=-369.45 GT:AD:DP:GL:GQ 1/1:0,44:35:-108.06,-10.56,-0.04:99
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chr1 2274055 rs3795272 T C 1.91 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=3;HaplotypeScore=4.58;MQ=58.20;MQ0=0;OQ=382.95;QD=8.15;SB=-128.51 GT:AD:DP:GL:GQ 0/1:28,19:44:-54.84,-13.26,-106.89:99
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chr1 2274346 rs12049067 C T 357.23 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=57.77;MQ0=0;OQ=508.21;QD=12.71;SB=-252.25 GT:AD:DP:GL:GQ 0/1:22,18:38:-65.56,-11.45,-75.12:99
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chr1 2274758 rs2840529 T G 24.15 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=3;HaplotypeScore=0.63;MQ=59.39;MQ0=0;OQ=311.73;QD=8.20;SB=-145.73 GT:AD:DP:GL:GQ 0/1:25,13:34:-44.70,-10.25,-72.81:99
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chr1 2275042 rs2036083 A T 221.53 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=3.71;MQ=59.63;MQ0=0;OQ=509.88;QD=10.20;SB=-241.63 GT:AD:DP:GL:GQ 0/1:29,21:43:-67.22,-12.95,-90.87:99
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chr1 2275274 rs2843129 G A 298.24 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.43;MQ0=0;OQ=2821.79;QD=38.65;SB=-1326.28 GT:AD:DP:GL:GQ 1/1:0,73:71:-285.78,-21.39,-0.02:99
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chr1 2276807 rs1039100 A G 434.33 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1195.19;QD=31.45;SB=-467.43 GT:AD:DP:GL:GQ 1/1:0,38:36:-123.12,-10.85,-0.02:99
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chr1 2277377 rs2645083 T C 625.87 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.89;MQ0=0;OQ=1448.36;QD=34.48;SB=-607.22 GT:AD:DP:GL:GQ 1/1:0,42:42:-148.44,-12.65,-0.02:99
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chr1 2277394 rs11577374 C T 128.24 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=58.95;MQ0=0;OQ=767.18;QD=17.44;SB=-322.88 GT:AD:DP:GL:GQ 0/1:20,24:40:-92.06,-12.06,-52.10:99
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chr1 2277476 rs2645085 T C 300.52 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.58;MQ0=0;OQ=627.13;QD=11.40;SB=-216.37 GT:AD:DP:GL:GQ 0/1:27,28:51:-81.37,-15.38,-100.48:99
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chr1 2277708 rs16825067 G C 15.92 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=3.52;MQ=58.92;MQ0=0;OQ=727.07;QD=18.64;SB=-379.89 GT:AD:DP:GL:GQ 0/1:17,22:37:-87.14,-11.15,-70.33:99
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chr1 2278607 rs2645086 T C 275.36 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.11;MQ0=0;OQ=269.17;QD=10.35;SB=-101.72 GT:AD:DP:GL:GQ 0/1:13,13:25:-37.74,-7.54,-47.79:99
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chr1 2279110 rs903912 C G 0.92 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=12.20;MQ=57.42;MQ0=0;OQ=679.10;QD=12.81;SB=-356.81 GT:AD:DP:GL:GQ 0/1:28,25:46:-85.06,-13.87,-109.25:99
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chr1 2279111 rs903913 T C 0.56 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.02;HRun=1;HaplotypeScore=12.09;MQ=57.42;MQ0=0;OQ=643.89;QD=12.15;SB=-297.64 GT:AD:DP:GL:GQ 0/1:27,25:52:-83.04,-15.37,-108.03:99
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chr1 2279181 rs903914 G A 327.01 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.55;MQ=59.27;MQ0=0;OQ=1113.86;QD=17.68;SB=-571.62 GT:AD:DP:GL:GQ 0/1:30,33:61:-133.06,-18.39,-88.20:99
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chr1 2280148 rs2840544 T C 12.55 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.46;MQ=59.49;MQ0=0;OQ=176.15;QD=3.91;SB=-95.61 GT:AD:DP:GL:GQ 0/1:34,11:43:-33.87,-12.97,-121.04:99
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chr1 2280520 rs2645088 T C 494.99 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=961.96;QD=28.29;SB=-437.29 GT:AD:DP:GL:GQ 1/1:0,34:31:-99.81,-9.35,-0.03:93.20
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chr1 2280750 rs2840543 C T 201 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.69;MQ0=0;OQ=2174.81;QD=36.25;SB=-926.73 GT:AD:DP:GL:GQ 1/1:0,60:56:-221.09,-16.88,-0.02:99
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chr1 2280771 rs2645089 G A 262.49 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.63;MQ0=0;OQ=676.44;QD=13.53;SB=-331.88 GT:AD:DP:GL:GQ 0/1:29,21:47:-85.09,-14.16,-84.51:99
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chr1 2281127 rs6424093 A G 144.23 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=59.16;MQ0=0;OQ=492.45;QD=11.73;SB=-156.68 GT:AD:DP:GL:GQ 0/1:23,19:40:-64.58,-12.05,-85.73:99
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chr1 2281540 rs2840542 T C 309.75 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=56.56;MQ0=0;OQ=2607.54;QD=33.86;SB=-1074.11 GT:AD:DP:GL:GQ 1/1:0,77:73:-264.36,-21.99,-0.02:99
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chr1 2282015 rs2840541 T C 311.98 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.30;MQ0=0;OQ=585.20;QD=9.75;SB=-280.12 GT:AD:DP:GL:GQ 0/1:36,24:60:-79.89,-18.08,-145.26:99
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chr1 2282269 rs2645090 T C 432.32 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=613.50;QD=9.16;SB=-290.16 GT:AD:DP:GL:GQ 0/1:38,29:64:-83.92,-19.29,-153.60:99
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chr1 2283026 rs2250799 G A 138.76 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.62;MQ0=0;OQ=1864.73;QD=38.06;SB=-791.54 GT:AD:DP:GL:GQ 1/1:0,49:48:-190.08,-14.47,-0.02:99
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chr1 2284017 rs10797420 G A 1.04 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=10.89;MQ=55.69;MQ0=1;OQ=1110.47;QD=17.63;SB=-493.05 GT:AD:DP:GL:GQ 0/1:28,34:55:-130.90,-16.57,-82.96:99
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chr1 2284704 rs55873848 C T 485.15 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.27;MQ0=0;OQ=939.68;QD=16.78;SB=-471.48 GT:AD:DP:GL:GQ 0/1:26,30:53:-113.22,-15.97,-82.15:99
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chr1 2284890 rs7530501 T G 19.05 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=5.02;MQ=57.51;MQ0=0;OQ=731.65;QD=13.80;SB=-124.84 GT:AD:DP:GL:GQ 0/1:25,28:51:-91.81,-15.36,-86.72:99
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chr1 2285068 rs57840322 G A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=6;HaplotypeScore=29.71;MQ=39.31;MQ0=0;OQ=1533.11;QD=35.65;SB=-660.69 GT:AD:DP:GL:GQ 1/1:0,43:40:-156.91,-12.05,-0.01:99
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chr1 2285112 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=42;Dels=0.05;HRun=7;HaplotypeScore=20.40;MQ=45.44;MQ0=0;OQ=661.72;QD=15.76;SB=-259.95 GT:AD:DP:GL:GQ 0/1:19,21:41:-81.21,-11.75,-63.70:99
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chr1 2285126 rs6682345 A T 200.65 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=50.08;MQ0=0;OQ=1898.67;QD=35.16;SB=-880.24 GT:AD:DP:GL:GQ 1/1:1,53:53:-197.20,-15.96,-3.75:99
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chr1 2285128 rs6682346 A T 359.27 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=50.28;MQ0=0;OQ=737.49;QD=13.41;SB=-376.75 GT:AD:DP:GL:GQ 0/1:30,25:55:-93.60,-16.56,-117.95:99
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chr1 2285638 rs10910055 A C 76.19 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=3.44;MQ=49.97;MQ0=2;OQ=838.51;QD=11.65;SB=-398.65 GT:AD:DP:GL:GQ 0/1:39,33:60:-105.20,-18.07,-117.50:99
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chr1 2285783 rs12026746 C T 166.61 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=27.98;MQ=27.61;MQ0=1;QD=3.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:32,15:30:-28.99,-9.05,-73.71:99
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chr1 2285784 . A G 712.90 SnpCluster AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=27.98;MQ=27.61;MQ0=1;QD=15.17;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,34:30:-83.61,-9.04,-20.49:99
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chr1 2285789 . T C 107.62 SnpCluster AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=51.95;MQ=27.67;MQ0=1;QD=2.20;SB=-10.00 GT:AD:DP:GL:GQ 0/1:37,12:31:-23.38,-9.34,-102.78:99
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chr1 2285797 . C T 99.87 SnpCluster AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=37.97;MQ=27.29;MQ0=3;QD=1.72;SB=-6.99 GT:AD:DP:GL:GQ 0/1:46,12:38:-24.73,-11.46,-107.35:99
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chr1 2285798 rs6685453 A G 587.05 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=37.13;MQ=27.02;MQ0=4;QD=10.12;SB=-34.94 GT:AD:DP:GL:GQ 0/1:35,23:38:-73.44,-11.45,-64.40:99
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chr1 2285805 rs2840539 G A 1277.62 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=29.98;MQ=27.32;MQ0=3;QD=21.65;SB=-159.63 GT:AD:DP:GL:GQ 0/1:13,46:41:-143.39,-12.35,-21.42:90.69
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chr1 2285956 rs7539098 A T 36.30 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=32.84;MQ0=4;OQ=256.31;QD=4.93;SB=-97.36 GT:AD:DP:GL:GQ 0/1:30,22:31:-38.25,-9.34,-84.38:99
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chr1 2285957 rs7539099 A T 39.69 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=32.84;MQ0=4;OQ=262.32;QD=5.04;SB=-99.37 GT:AD:DP:GL:GQ 0/1:29,23:31:-38.85,-9.34,-83.38:99
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chr1 2286519 rs12029098 A G 0.14 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=10.29;MQ=20.58;MQ0=25;OQ=214.67;QD=3.41;SB=-10.00 GT:AD:DP:GL:GQ 0/1:52,10:32:-34.39,-9.64,-87.93:99
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chr1 2286535 rs10910056 C T 41.85 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=18.11;MQ0=29;OQ=264.94;QD=4.49;SB=-10.00 GT:AD:DP:GL:GQ 0/1:49,10:24:-37.01,-7.23,-58.35:99
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chr1 2286632 rs12062221 G A 163.59 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.73;MQ0=23;OQ=318.86;QD=6.13;SB=-122.97 GT:AD:DP:GL:GQ 0/1:37,15:21:-41.50,-6.33,-38.58:99
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chr1 2286682 rs10910057 T C 259.25 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=21.36;MQ0=18;OQ=880.98;QD=17.98;SB=-392.60 GT:AD:DP:GL:GQ 1/1:18,31:25:-91.69,-7.53,-0.01:75.23
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chr1 2287320 rs7366927 T C 67.59 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=20.66;MQ0=24;OQ=467.32;QD=6.97;SB=-192.02 GT:AD:DP:GL:GQ 0/1:40,27:33:-59.96,-9.95,-57.33:99
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chr1 2287795 rs10910058 A T 108.02 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.68;MQ0=0;OQ=672.40;QD=13.18;SB=-131.84 GT:AD:DP:GL:GQ 0/1:26,25:50:-85.58,-15.06,-97.61:99
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chr1 2287854 rs10910059 G C 295.33 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.70;MQ0=0;OQ=1098.70;QD=16.90;SB=-242.39 GT:AD:DP:GL:GQ 0/1:34,31:65:-132.74,-19.58,-150.89:99
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chr1 2288115 rs4648834 A G 229.51 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=2.16;MQ=58.69;MQ0=0;OQ=974.25;QD=11.88;SB=-367.23 GT:AD:DP:GL:GQ 0/1:45,37:80:-124.81,-24.10,-176.65:99
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chr1 2288354 rs55960350 C A 363.99 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=56.19;MQ0=0;OQ=926.53;QD=15.44;SB=-445.49 GT:AD:DP:GL:GQ 0/1:29,31:60:-114.01,-18.07,-107.19:99
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chr1 2288496 rs10453826 G A 57.25 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=3;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=1349.11;QD=17.75;SB=-668.70 GT:AD:DP:GL:GQ 0/1:36,39:75:-160.78,-22.59,-131.92:99
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chr1 2288624 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.02;HRun=18;HaplotypeScore=24.48;MQ=54.73;MQ0=1;OQ=401.02;QD=6.57;SB=-41.45 GT:AD:DP:GL:GQ 0/1:43,17:55:-59.67,-16.28,-122.97:99
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chr1 2288630 rs28792725 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.02;HRun=6;HaplotypeScore=25.44;MQ=54.48;MQ0=1;OQ=211.43;QD=3.92;SB=68.22 GT:AD:DP:GL:GQ 0/1:42,11:47:-38.29,-13.87,-121.95:99
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chr1 2288943 rs6704200 G A 186.62 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.03;MQ0=0;OQ=2659.42;QD=39.69;SB=-1189.57 GT:AD:DP:GL:GQ 1/1:0,67:67:-269.55,-20.19,-0.02:99
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chr1 2289098 rs12069579 C T 14.78 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=4;HaplotypeScore=1.46;MQ=57.20;MQ0=1;OQ=865.75;QD=14.43;SB=-343.49 GT:AD:DP:GL:GQ 0/1:32,28:57:-107.04,-17.18,-97.55:99
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chr1 2289170 rs12069588 C T 455.09 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.87;MQ0=0;OQ=1016.01;QD=15.88;SB=-357.83 GT:AD:DP:GL:GQ 0/1:33,31:64:-124.17,-19.28,-114.93:99
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chr1 2289171 rs12071572 A G 466.33 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.87;MQ0=0;OQ=819.05;QD=12.80;SB=-318.26 GT:AD:DP:GL:GQ 0/1:33,31:63:-104.18,-18.99,-126.28:99
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chr1 2289487 rs7545940 T C 276.29 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.92;MQ=59.67;MQ0=0;OQ=618.09;QD=11.04;SB=-316.36 GT:AD:DP:GL:GQ 0/1:32,24:55:-81.66,-16.57,-127.86:99
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chr1 2289511 rs2840538 T C 82.58 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=3.41;MQ=59.24;MQ0=0;OQ=1874.35;QD=34.08;SB=-939.34 GT:AD:DP:GL:GQ 1/1:0,55:54:-191.04,-16.27,-0.02:99
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chr1 2289772 rs7546224 T C 223.24 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=58.97;MQ0=0;OQ=650.32;QD=11.02;SB=-248.17 GT:AD:DP:GL:GQ 0/1:33,26:58:-85.80,-17.48,-124.44:99
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chr1 2290017 rs12070927 C A 51.76 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=3;HaplotypeScore=0.98;MQ=59.12;MQ0=0;OQ=1316.41;QD=19.08;SB=-657.73 GT:AD:DP:GL:GQ 0/1:26,43:67:-155.11,-20.18,-89.64:99
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chr1 2290238 rs7514750 G C 5.37 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=1.63;MQ=56.12;MQ0=0;OQ=999.16;QD=16.93;SB=-161.14 GT:AD:DP:GL:GQ 0/1:29,30:55:-119.78,-16.58,-120.03:99
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chr1 2290509 rs7542190 C T 358.30 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.38;MQ0=0;OQ=592.85;QD=11.62;SB=-156.20 GT:AD:DP:GL:GQ 0/1:31,20:49:-77.34,-14.77,-99.87:99
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chr1 2290635 rs7554609 A G 100.55 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=2.39;MQ=57.81;MQ0=0;OQ=439.50;QD=11.27;SB=-190.14 GT:AD:DP:GL:GQ 0/1:19,19:37:-60.47,-13.23,-75.89:99
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chr1 2290654 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=20;HaplotypeScore=28.09;MQ=53.25;MQ0=0;OQ=241.28;QD=4.02;SB=92.32 GT:AD:DP:GL:GQ 0/1:44,16:53:-43.38,-15.97,-152.46:99
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chr1 2290675 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.01;HRun=20;HaplotypeScore=29.22;MQ=49.62;MQ0=0;OQ=64.81;QD=0.94;SB=71.20 GT:AD:DP:GL:GQ 0/1:52,14:46:-23.33,-13.56,-132.10:97.65
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chr1 2291469 rs2840535 G T 504.16 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=896.75;QD=14.95;SB=-459.55 GT:AD:DP:GL:GQ 0/1:30,30:59:-110.74,-17.78,-88.69:99
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chr1 2291551 rs6665546 G A 392.04 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=1434.00;QD=17.70;SB=-726.06 GT:AD:DP:GL:GQ 0/1:39,42:81:-171.09,-24.41,-128.82:99
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chr1 2292331 rs2453567 C T 202.13 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=54.48;MQ0=0;OQ=1114.28;QD=17.14;SB=-425.43 GT:AD:DP:GL:GQ 0/1:31,34:60:-132.80,-18.08,-88.05:99
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chr1 2292376 rs2453566 T C 254.25 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=52.46;MQ0=0;OQ=498.58;QD=10.18;SB=-208.48 GT:AD:DP:GL:GQ 0/1:22,27:40:-65.21,-12.06,-74.69:99
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chr1 2293426 rs2840534 A G 74.94 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=4.04;MQ=59.63;MQ0=0;OQ=998.53;QD=16.11;SB=-332.38 GT:AD:DP:GL:GQ 0/1:27,35:61:-121.51,-18.38,-106.86:99
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chr1 2297776 rs2843165 A C 120.65 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=714.07;QD=14.28;SB=-105.81 GT:AD:DP:GL:GQ 0/1:23,27:49:-89.45,-14.76,-84.29:99
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chr1 2298377 rs2843162 C G 368.81 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=490.57;QD=15.82;SB=-257.11 GT:AD:DP:GL:GQ 0/1:17,14:31:-61.68,-9.34,-73.31:99
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chr1 2298942 rs2843160 T G 117.23 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=5.47;MQ=59.17;MQ0=0;OQ=634.08;QD=11.32;SB=-278.70 GT:AD:DP:GL:GQ 0/1:27,29:53:-82.67,-15.98,-90.35:99
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chr1 2302255 rs2643908 C T 314.36 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.96;MQ=59.55;MQ0=0;OQ=684.01;QD=13.41;SB=-309.40 GT:AD:DP:GL:GQ 0/1:26,25:46:-85.54,-13.86,-88.50:99
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chr1 2303400 rs2843132 A G 8.40 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=3.40;MQ=59.58;MQ0=0;OQ=438.03;QD=9.96;SB=-158.56 GT:AD:DP:GL:GQ 0/1:24,20:38:-58.54,-11.45,-84.41:99
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chr1 2304179 rs2643901 T C 196.35 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.98;MQ=59.45;MQ0=0;OQ=721.33;QD=17.17;SB=-281.01 GT:AD:DP:GL:GQ 0/1:15,26:39:-87.17,-11.75,-56.36:99
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chr1 2305298 rs2645060 G A 178.67 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=3.33;MQ=60.00;MQ0=0;OQ=1082.92;QD=18.05;SB=-486.00 GT:AD:DP:GL:GQ 0/1:25,35:57:-128.76,-17.18,-76.49:99
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chr1 2305540 rs2843128 A G 194.82 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.87;MQ=59.59;MQ0=0;OQ=482.38;QD=10.49;SB=-248.93 GT:AD:DP:GL:GQ 0/1:24,22:42:-64.18,-12.66,-86.34:99
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chr1 2305577 rs2843127 A G 547.43 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.15;MQ0=0;OQ=527.20;QD=11.98;SB=-284.59 GT:AD:DP:GL:GQ 0/1:25,19:44:-69.26,-13.26,-98.42:99
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chr1 2306175 rs2843126 A G 188.97 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.18;MQ=58.39;MQ0=0;OQ=344.67;QD=9.07;SB=-143.56 GT:AD:DP:GL:GQ 0/1:18,19:33:-47.70,-9.95,-71.62:99
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chr1 2306848 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=13;HaplotypeScore=4.17;MQ=55.00;MQ0=0;OQ=100.30;QD=4.18;SB=17.09 GT:AD:DP:GL:GQ 0/1:17,7:16:-18.14,-4.82,-46.21:99
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chr1 2309288 rs903903 A G 560.94 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1265.25;QD=17.33;SB=-657.78 GT:AD:DP:GL:GQ 0/1:28,45:70:-150.90,-21.10,-100.41:99
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chr1 2309390 rs2645061 G T 558.68 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=773.84;QD=12.28;SB=-380.71 GT:AD:DP:GL:GQ 0/1:36,27:63:-99.64,-18.97,-129.32:99
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chr1 2310428 . G A 99.95 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=70;Dels=0.04;HRun=15;HaplotypeScore=39.00;MQ=46.05;MQ0=0;QD=1.43;SB=52.68 GT:AD:DP:GL:GQ 0/1:53,14:55:-29.56,-16.28,-149.90:99
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chr1 2313868 rs2840533 C T 252.17 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.46;MQ=59.24;MQ0=0;OQ=794.28;QD=14.44;SB=-234.49 GT:AD:DP:GL:GQ 0/1:29,26:54:-98.98,-16.27,-105.03:99
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chr1 2314319 . A G 42.45 LowQual AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=50.37;MQ0=0;QD=0.63;SB=-7.70 GT:AD:DP:GL:GQ 0/1:58,9:63:-26.51,-18.98,-220.77:75.28
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chr1 2314326 . A G 0.25 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=50.58;MQ0=0;OQ=173.32;QD=2.44;SB=-79.68 GT:AD:DP:GL:GQ 0/1:59,12:69:-41.40,-20.79,-226.63:99
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chr1 2314333 rs41315342 C T 21.24 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=49.96;MQ0=0;OQ=309.71;QD=4.62;SB=-180.11 GT:AD:DP:GL:GQ 0/1:53,14:62:-52.95,-18.70,-157.19:99
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chr1 2315408 . G A 4.80 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=1;HaplotypeScore=3.55;MQ=59.13;MQ0=0;OQ=1258.74;QD=16.78;SB=-356.05 GT:AD:DP:GL:GQ 0/1:37,38:74:-151.46,-22.30,-126.73:99
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chr1 2315869 rs1123571 G A 390.91 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=58.65;MQ0=0;OQ=976.67;QD=13.95;SB=-457.41 GT:AD:DP:GL:GQ 0/1:38,32:64:-120.23,-19.28,-120.05:99
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chr1 2316672 rs903911 A G 4.65 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=4.83;MQ=58.81;MQ0=0;OQ=646.68;QD=16.58;SB=-230.30 GT:AD:DP:GL:GQ 0/1:16,22:38:-79.40,-11.45,-61.89:99
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chr1 2317675 rs2840532 C T 230.75 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.10;MQ=59.63;MQ0=0;OQ=2453.68;QD=38.95;SB=-993.83 GT:AD:DP:GL:GQ 1/1:0,63:62:-248.97,-18.68,-0.02:99
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chr1 2318574 rs2645081 A G 8.21 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=6.83;MQ=58.95;MQ0=0;OQ=2467.67;QD=30.85;SB=-995.94 GT:AD:DP:GL:GQ 1/1:0,79:71:-250.38,-21.39,-0.03:99
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chr1 2319521 rs6698680 A G 273.51 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=59.27;MQ0=0;OQ=618.22;QD=12.12;SB=-195.44 GT:AD:DP:GL:GQ 0/1:27,24:49:-79.88,-14.77,-98.83:99
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chr1 2319668 rs3001344 A G 117.65 PASS AC=2;AF=1.00;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=59.27;MQ0=0;OQ=3223.06;QD=35.42;SB=-1436.46 GT:AD:DP:GL:GQ 1/1:0,91:90:-325.91,-27.11,-0.03:99
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chr1 2319862 rs6698978 A G 270.88 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=53.38;MQ0=0;OQ=935.78;QD=15.60;SB=-478.67 GT:AD:DP:GL:GQ 0/1:27,33:58:-114.34,-17.47,-100.10:99
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chr1 2319876 rs6685829 C T 18.19 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=6.10;MQ=50.59;MQ0=0;OQ=722.12;QD=12.24;SB=-192.86 GT:AD:DP:GL:GQ 0/1:35,24:57:-92.67,-17.18,-109.45:99
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chr1 2320050 rs6693447 T G 274.62 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=59.41;MQ0=0;OQ=1099.08;QD=15.48;SB=-483.82 GT:AD:DP:GL:GQ 0/1:33,38:70:-134.27,-21.08,-119.27:99
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chr1 2321898 rs55912310 A G 16.38 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=2;HaplotypeScore=6.30;MQ=59.22;MQ0=0;OQ=1063.46;QD=13.63;SB=-443.56 GT:AD:DP:GL:GQ 0/1:40,38:76:-132.53,-22.90,-155.79:99
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chr1 2322251 rs12037485 C T 255.22 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=54.76;MQ0=0;OQ=603.45;QD=12.57;SB=-317.81 GT:AD:DP:GL:GQ 0/1:27,21:45:-77.19,-13.56,-84.03:99
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chr1 2322525 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=3;HaplotypeScore=18.90;MQ=37.53;MQ0=0;OQ=105.39;QD=3.90;SB=-31.65 GT:AD:DP:GL:GQ 0/1:20,7:25:-21.36,-7.54,-75.64:99
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chr1 2322526 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=17.62;MQ=38.02;MQ0=0;OQ=76.24;QD=2.63;SB=-0.98 GT:AD:DP:GL:GQ 0/1:23,6:24:-18.14,-7.23,-69.35:99
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chr1 2322566 . C T 184.67 Indel AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=7.93;MQ=44.33;MQ0=0;QD=9.72;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,7:16:-26.58,-4.82,-31.47:99
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chr1 2322586 . T C 43.94 LowQual AC=1;AF=0.50;AN=2;DP=13;Dels=0.00;HRun=2;HaplotypeScore=6.02;MQ=50.39;MQ0=0;QD=3.38;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,4:11:-10.99,-3.32,-30.04:76.77
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chr1 2322650 . T C 18.09 LowQual AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=2;HaplotypeScore=5.99;MQ=43.00;MQ0=0;QD=3.01;SB=-3.98 GT:AD:DP:GL:GQ 0/1:4,2:6:-6.89,-1.81,-15.35:50.86
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chr1 2322668 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=1;HaplotypeScore=16.47;MQ=36.20;MQ0=0;OQ=99.28;QD=6.62;SB=-3.98 GT:AD:DP:GL:GQ 0/1:11,4:11:-16.52,-3.31,-24.94:99
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chr1 2322705 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=18.95;MQ=39.10;MQ0=0;OQ=127.82;QD=7.99;SB=-6.99 GT:AD:DP:GL:GQ 0/1:11,5:12:-19.68,-3.62,-24.01:99
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chr1 2322711 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=2;HaplotypeScore=13.96;MQ=44.08;MQ0=0;OQ=161.06;QD=8.05;SB=-38.94 GT:AD:DP:GL:GQ 0/1:13,7:16:-24.21,-4.82,-34.51:99
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chr1 2322848 rs3001337 T C 21.54 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.78;MQ0=0;OQ=436.82;QD=19.86;SB=-71.91 GT:AD:DP:GL:GQ 1/1:0,22:15:-47.28,-4.52,-0.02:45.08
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chr1 2322891 rs3001336 G A 52.42 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.61;MQ=57.77;MQ0=0;OQ=1380.55;QD=34.51;SB=-210.77 GT:AD:DP:GL:GQ 1/1:0,39:36:-141.66,-10.85,-0.02:99
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chr1 2324121 . G T 2.67 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=60.00;MQ0=0;OQ=1012.17;QD=19.85;SB=-217.60 GT:AD:DP:GL:GQ 0/1:19,32:51:-119.87,-15.37,-54.76:99
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chr1 2324716 rs41315648 C T 55.76 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=58.50;MQ0=0;OQ=419.39;QD=13.53;SB=-59.02 GT:AD:DP:GL:GQ 0/1:17,14:29:-53.97,-8.74,-50.19:99
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chr1 2325536 rs1129333 A G 283.63 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.63;MQ0=0;OQ=1733.67;QD=33.99;SB=-802.65 GT:AD:DP:GL:GQ 1/1:0,51:50:-176.97,-15.06,-0.02:99
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chr1 2327137 rs11586985 C T 102.53 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=429.81;QD=12.28;SB=-139.15 GT:AD:DP:GL:GQ 0/1:21,14:35:-56.82,-10.56,-64.66:99
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chr1 2327397 rs2494426 C G 233.81 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=927.58;QD=37.10;SB=-342.73 GT:AD:DP:GL:GQ 1/1:0,25:23:-96.36,-6.94,-0.02:69.23
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chr1 2327420 rs55746053 G A 222.42 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.19;MQ0=0;OQ=251.55;QD=10.94;SB=-144.16 GT:AD:DP:GL:GQ 0/1:13,10:21:-34.77,-6.33,-37.00:99
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chr1 2327986 rs3795269 C A 81.57 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=3.48;MQ=59.11;MQ0=0;OQ=721.54;QD=13.88;SB=-337.19 GT:AD:DP:GL:GQ 0/1:25,27:47:-89.60,-14.16,-76.64:99
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chr1 2328429 rs2494427 T C 699.34 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=1614.58;QD=34.35;SB=-832.33 GT:AD:DP:GL:GQ 1/1:0,47:46:-165.06,-13.86,-0.02:99
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chr1 2328739 rs6671420 G A 245.45 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.24;MQ=58.64;MQ0=0;OQ=433.47;QD=13.98;SB=-240.76 GT:AD:DP:GL:GQ 0/1:16,15:30:-55.68,-9.05,-50.08:99
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chr1 2328934 rs2494428 C T 252.86 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=60.00;MQ0=0;OQ=2537.82;QD=38.45;SB=-908.73 GT:AD:DP:GL:GQ 1/1:0,66:65:-257.39,-19.59,-0.03:99
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chr1 2328975 rs2494599 T C 150.34 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.94;MQ=60.00;MQ0=0;OQ=1601.93;QD=34.08;SB=-647.90 GT:AD:DP:GL:GQ 1/1:0,47:46:-163.80,-13.86,-0.02:99
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chr1 2328999 rs6671730 G A 141.04 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=617.02;QD=15.43;SB=-196.85 GT:AD:DP:GL:GQ 0/1:20,20:39:-76.74,-11.75,-69.55:99
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chr1 2329255 rs2494429 A G 318.55 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.40;MQ0=0;OQ=347.51;QD=11.21;SB=-114.76 GT:AD:DP:GL:GQ 0/1:16,15:29:-46.78,-8.74,-56.84:99
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chr1 2329287 rs4648634 C T 185.49 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.86;MQ=59.06;MQ0=0;OQ=270.55;QD=13.53;SB=-158.18 GT:AD:DP:GL:GQ 0/1:11,9:17:-35.47,-5.13,-24.67:99
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chr1 2329933 . C G 22.59 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=4.69;MQ=58.67;MQ0=0;OQ=614.01;QD=12.53;SB=-287.97 GT:AD:DP:GL:GQ 0/1:22,27:40:-76.76,-12.08,-83.82:99
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chr1 2330060 rs2494598 T C 290.44 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=58.95;MQ0=0;OQ=481.10;QD=12.03;SB=-246.32 GT:AD:DP:GL:GQ 0/1:19,21:39:-63.16,-11.76,-72.17:99
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chr1 2332427 . C T 0.21 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=10.66;MQ=58.03;MQ0=0;OQ=1034.47;QD=16.96;SB=-503.70 GT:AD:DP:GL:GQ 0/1:28,33:58:-124.21,-17.48,-97.70:99
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chr1 2333054 rs2494597 T C 55.95 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=59.48;MQ0=0;OQ=1376.62;QD=31.29;SB=-454.42 GT:AD:DP:GL:GQ 1/1:0,44:41:-141.27,-12.35,-0.02:99
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chr1 2334551 rs2494595 A G 104.16 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=58.99;MQ0=0;OQ=304.12;QD=13.22;SB=-164.34 GT:AD:DP:GL:GQ 0/1:12,11:22:-40.32,-6.63,-44.91:99
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chr1 2334785 rs9424320 T C 95.96 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=59.20;MQ0=0;OQ=385.94;QD=13.31;SB=-75.78 GT:AD:DP:GL:GQ 0/1:11,17:25:-49.42,-7.54,-38.41:99
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chr1 2335959 rs7556447 C G 349.75 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=56.82;MQ0=0;OQ=713.10;QD=13.71;SB=-329.23 GT:AD:DP:GL:GQ 0/1:30,22:47:-88.76,-14.16,-115.39:99
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chr1 2336342 rs4648839 T C 24.11 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=49.60;MQ0=0;OQ=479.90;QD=20.87;SB=-161.36 GT:AD:DP:GL:GQ 1/1:1,22:17:-51.60,-5.13,-0.02:51.09
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chr1 2336383 rs10910065 G C 120.25 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=52.63;MQ0=0;OQ=649.76;QD=18.05;SB=-286.56 GT:AD:DP:GL:GQ 0/1:17,19:34:-78.51,-10.25,-66.28:99
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chr1 2336384 rs10910066 T C 189.89 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=52.63;MQ0=0;OQ=539.82;QD=14.99;SB=-236.31 GT:AD:DP:GL:GQ 0/1:17,19:36:-68.12,-10.85,-65.37:99
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chr1 2336612 . G A 111.33 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=53.01;MQ0=0;OQ=620.89;QD=13.80;SB=-302.81 GT:AD:DP:GL:GQ 0/1:24,21:40:-77.43,-12.05,-71.03:99
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chr1 2337326 rs12746918 C T 6.83 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=7.69;MQ=54.86;MQ0=0;OQ=484.18;QD=9.68;SB=-259.25 GT:AD:DP:GL:GQ 0/1:29,21:42:-64.36,-12.66,-87.95:99
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chr1 2337359 . C T 7.61 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=4.85;MQ=55.32;MQ0=0;OQ=435.73;QD=9.68;SB=-169.11 GT:AD:DP:GL:GQ 0/1:27,17:41:-59.22,-12.37,-82.09:99
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chr1 2337436 . G T 34.30 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=57.73;MQ0=0;OQ=368.11;QD=11.87;SB=-146.62 GT:AD:DP:GL:GQ 0/1:16,15:30:-49.13,-9.04,-55.91:99
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chr1 2337592 rs12184328 G A 0.69 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=8.46;MQ=57.94;MQ0=0;OQ=510.09;QD=15.00;SB=-111.95 GT:AD:DP:GL:GQ 0/1:17,16:33:-64.24,-9.94,-57.68:99
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chr1 2337900 rs10910068 T C 14.61 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=3;HaplotypeScore=1.32;MQ=56.47;MQ0=0;OQ=310.27;QD=9.13;SB=-165.49 GT:AD:DP:GL:GQ 0/1:15,19:29:-43.06,-8.75,-59.62:99
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chr1 2339629 rs2494432 G A 402.74 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.15;MQ0=0;OQ=824.63;QD=16.83;SB=-334.87 GT:AD:DP:GL:GQ 0/1:23,26:44:-99.01,-13.26,-63.50:99
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chr1 2339896 . C T 167.28 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=60.00;MQ0=0;OQ=715.32;QD=13.50;SB=-333.31 GT:AD:DP:GL:GQ 0/1:31,22:52:-90.49,-15.68,-97.09:99
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chr1 2340772 rs10910070 G A 197.79 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.11;MQ=60.00;MQ0=0;OQ=631.24;QD=14.35;SB=-260.25 GT:AD:DP:GL:GQ 0/1:23,21:43:-79.37,-12.96,-74.56:99
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chr1 2340956 rs11577147 A G 10.98 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=289.51;QD=8.77;SB=-78.79 GT:AD:DP:GL:GQ 0/1:19,14:32:-41.88,-9.65,-72.03:99
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chr1 2341435 rs11590507 G A 0.61 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=5.72;MQ=57.66;MQ0=0;OQ=472.75;QD=15.76;SB=-44.54 GT:AD:DP:GL:GQ 0/1:14,15:29:-59.30,-8.74,-51.63:99
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chr1 2341559 rs3935659 T C 7.79 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=2;HaplotypeScore=3.23;MQ=59.25;MQ0=0;OQ=287.36;QD=11.49;SB=-29.91 GT:AD:DP:GL:GQ 0/1:13,12:25:-39.55,-7.53,-50.79:99
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chr1 2341739 rs3935660 C T 165.26 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=58.09;MQ0=0;OQ=670.17;QD=13.68;SB=-195.21 GT:AD:DP:GL:GQ 0/1:27,21:42:-82.97,-12.67,-64.00:99
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chr1 2342006 rs12731309 C T 203.63 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=58.88;MQ0=0;OQ=846.80;QD=15.68;SB=-399.13 GT:AD:DP:GL:GQ 0/1:28,26:51:-103.32,-15.36,-93.02:99
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chr1 2342252 . A T 13.40 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=20.03;MQ=56.40;MQ0=0;QD=0.29;SB=20.83 GT:AD:DP:GL:GQ 0/1:37,6:32:-14.24,-9.64,-106.31:46.04
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chr1 2342253 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=16;HaplotypeScore=7.92;MQ=56.40;MQ0=0;OQ=132.41;QD=2.82;SB=14.63 GT:AD:DP:GL:GQ 0/1:39,8:37:-27.67,-11.15,-101.20:99
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chr1 2342945 rs10910071 A G 300.82 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.46;MQ=58.83;MQ0=0;OQ=1016.43;QD=13.20;SB=-494.01 GT:AD:DP:GL:GQ 0/1:41,36:76:-127.82,-22.90,-155.86:99
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chr1 2343155 rs12143389 C T 127 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.76;MQ=58.70;MQ0=1;OQ=925.95;QD=15.69;SB=-402.44 GT:AD:DP:GL:GQ 0/1:31,28:58:-113.35,-17.47,-107.32:99
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chr1 2343729 rs35799953 G T 69.33 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.02;MQ0=0;OQ=852.19;QD=13.75;SB=-419.16 GT:AD:DP:GL:GQ 0/1:33,29:62:-107.18,-18.68,-104.15:99
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chr1 2343876 rs34574702 C T 503.31 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=1119.07;QD=15.54;SB=-507.56 GT:AD:DP:GL:GQ 0/1:37,35:71:-136.60,-21.41,-114.39:99
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chr1 2344230 rs12022832 T C 209.47 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=1.97;MQ=58.42;MQ0=0;OQ=1122.84;QD=12.62;SB=-438.76 GT:AD:DP:GL:GQ 0/1:44,45:86:-141.48,-25.92,-179.52:99
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chr1 2344260 rs12096965 C T 229.98 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=58.88;MQ0=0;OQ=1606.93;QD=18.26;SB=-801.37 GT:AD:DP:GL:GQ 0/1:41,47:83:-188.99,-25.01,-117.57:99
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chr1 2344423 rs12097032 C T 484.25 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=986.20;QD=13.33;SB=-465.97 GT:AD:DP:GL:GQ 0/1:43,31:74:-124.19,-22.29,-159.47:99
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chr1 2344746 rs10797421 G A 65.48 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.32;MQ0=1;OQ=3166.01;QD=39.09;SB=-1482.03 GT:AD:DP:GL:GQ 1/1:0,81:79:-320.20,-23.80,-0.02:99
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chr1 2345260 . A G 75.95 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=1;HaplotypeScore=1.32;MQ=59.23;MQ0=0;OQ=680.86;QD=11.35;SB=-282.57 GT:AD:DP:GL:GQ 0/1:36,24:58:-88.84,-17.47,-139.70:99
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chr1 2346437 rs4648840 A G 47.43 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=56.94;MQ0=0;OQ=537.49;QD=18.53;SB=-194.00 GT:AD:DP:GL:GQ 0/1:11,18:29:-65.77,-8.74,-43.90:99
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chr1 2346772 rs2494433 G A 58.11 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=3.58;MQ=56.91;MQ0=0;OQ=1163.67;QD=17.63;SB=-493.51 GT:AD:DP:GL:GQ 0/1:29,36:61:-138.03,-18.37,-99.55:99
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chr1 2347335 rs2494434 T C 559.97 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.75;MQ0=0;OQ=1472.38;QD=29.45;SB=-544.87 GT:AD:DP:GL:GQ 1/1:0,50:48:-150.87,-14.48,-0.05:99
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chr1 2347933 rs2494588 C T 188.87 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=57.48;MQ0=0;OQ=702.34;QD=16.33;SB=-327.35 GT:AD:DP:GL:GQ 0/1:19,24:41:-85.88,-12.36,-61.93:99
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chr1 2348381 rs55852252 G A 9.22 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=6.28;MQ=58.74;MQ0=0;OQ=406.10;QD=10.98;SB=-128.60 GT:AD:DP:GL:GQ 0/1:20,16:33:-53.85,-9.96,-60.26:99
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chr1 2348618 rs2494587 C T 128.74 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=3.39;MQ=58.45;MQ0=0;OQ=376.88;QD=12.56;SB=-173.14 GT:AD:DP:GL:GQ 0/1:17,13:28:-49.41,-8.44,-50.72:99
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chr1 2348708 rs12116913 G C 294.62 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.74;MQ0=0;OQ=640.63;QD=17.31;SB=-259.09 GT:AD:DP:GL:GQ 0/1:14,23:34:-77.61,-10.26,-60.10:99
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chr1 2349777 rs2494436 T C 163.31 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=59.34;MQ0=0;OQ=309.46;QD=8.84;SB=-92.69 GT:AD:DP:GL:GQ 0/1:19,16:32:-43.87,-9.64,-70.50:99
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chr1 2349800 rs7515934 C T 251.15 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=58.83;MQ0=0;OQ=424.25;QD=11.78;SB=-175.26 GT:AD:DP:GL:GQ 0/1:19,17:28:-54.15,-8.45,-42.69:99
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chr1 2350992 rs10910075 C T 473.62 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.99;MQ0=0;OQ=647.50;QD=14.08;SB=-334.47 GT:AD:DP:GL:GQ 0/1:24,22:45:-81.60,-13.57,-79.99:99
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chr1 2351241 . T G 21.83 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=2;HaplotypeScore=2.69;MQ=59.58;MQ0=0;QD=0.40;SB=68.21 GT:AD:DP:GL:GQ 0/1:36,19:40:-17.52,-12.05,-117.29:54.64
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chr1 2351880 rs4531246 G T 25.70 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=6.77;MQ=57.66;MQ0=0;OQ=504.52;QD=12.61;SB=-172.18 GT:AD:DP:GL:GQ 0/1:16,23:33:-63.68,-9.95,-50.73:99
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chr1 2352624 rs10797424 A T 924.88 Indel AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=6.64;MQ=59.45;MQ0=0;QD=16.52;SB=-353.59 GT:AD:DP:GL:GQ 0/1:25,31:52:-111.44,-15.67,-81.17:99
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chr1 2352687 rs2494641 C T 290.78 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=59.48;MQ0=0;OQ=558.90;QD=11.89;SB=-269.24 GT:AD:DP:GL:GQ 0/1:28,19:43:-72.14,-12.96,-80.82:99
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chr1 2353187 rs2494640 G C 26.97 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=4.41;MQ=59.56;MQ0=0;OQ=532.94;QD=10.25;SB=-240.06 GT:AD:DP:GL:GQ 0/1:33,18:51:-71.97,-15.39,-132.20:99
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chr1 2361858 rs12756220 T C 1.74 PASS AC=1;AF=0.50;AN=2;DB;DP=140;Dels=0.00;HRun=2;HaplotypeScore=7.14;MQ=34.26;MQ0=3;OQ=1721.38;QD=12.30;SB=-137.87 GT:AD:DP:GL:GQ 0/1:41,97:98:-204.99,-29.57,-118.98:99
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chr1 2361893 rs34648463 T G 24.56 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=1;HaplotypeScore=3.90;MQ=42.90;MQ0=5;OQ=1167.25;QD=12.83;SB=-195.79 GT:AD:DP:GL:GQ 0/1:32,58:69:-140.80,-20.79,-99.18:99
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chr1 2361936 rs28669301 A C 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=18.37;MQ=47.88;MQ0=0;OQ=797.11;QD=9.96;SB=-212.34 GT:AD:DP:GL:GQ 0/1:30,48:65:-102.59,-19.60,-99.90:99
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chr1 2361993 rs2494638 G C 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=3.02;MQ=48.10;MQ0=3;OQ=294.71;QD=3.68;SB=53.21 GT:AD:DP:GL:GQ 0/1:57,23:60:-50.84,-18.09,-206.36:99
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chr1 2363043 . G A 28.79 PASS AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=1;HaplotypeScore=1.42;MQ=59.14;MQ0=0;OQ=346.36;QD=12.83;SB=-157.68 GT:AD:DP:GL:GQ 0/1:14,13:24:-45.16,-7.24,-42.35:99
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chr1 2380627 . C G 34.70 LowQual AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=57.50;MQ0=0;QD=0.48;SB=-30.39 GT:AD:DP:GL:GQ 0/1:66,6:63:-25.74,-18.99,-243.93:67.54
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chr1 2380700 rs28508164 T C 2.51 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.08;MQ0=1;OQ=73.76;QD=1.76;SB=-56.90 GT:AD:DP:GL:GQ 0/1:36,6:33:-20.60,-9.94,-107.88:99
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chr1 2380723 . G C 46.32 LowQual AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=2;HaplotypeScore=2.29;MQ=49.69;MQ0=1;QD=2.72;SB=-23.39 GT:AD:DP:GL:GQ 0/1:12,5:11:-11.23,-3.32,-34.81:79.16
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chr1 2380725 . C T 43.06 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=4.03;MQ=49.69;MQ0=1;QD=2.53;SB=5.04 GT:AD:DP:GL:GQ 0/1:12,5:11:-10.90,-3.32,-27.83:75.90
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chr1 2380739 . G C 31.92 LowQual AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=2;HaplotypeScore=1.16;MQ=44.53;MQ0=1;QD=1.88;SB=-3.98 GT:AD:DP:GL:GQ 0/1:10,7:9:-9.19,-2.71,-29.02:64.75
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chr1 2380741 . C T 23.47 LowQual AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=43.38;MQ0=1;QD=1.47;SB=-3.99 GT:AD:DP:GL:GQ 0/1:10,6:8:-8.04,-2.42,-18.12:56.29
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chr1 2380787 . C G 11.87 PASS AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=3.66;MQ=41.08;MQ0=2;OQ=228.10;QD=9.12;SB=-107.32 GT:AD:DP:GL:GQ 0/1:13,12:14:-30.31,-4.22,-31.36:99
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chr1 2380789 . T C 0.06 PASS AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=2;HaplotypeScore=3.66;MQ=41.08;MQ0=2;OQ=146.59;QD=5.86;SB=-69.76 GT:AD:DP:GL:GQ 0/1:13,12:14:-22.16,-4.22,-27.36:99
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chr1 2380812 . C T 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=1;HaplotypeScore=13.92;MQ=46.38;MQ0=1;OQ=329.40;QD=9.98;SB=-91.91 GT:AD:DP:GL:GQ 0/1:15,18:19:-41.95,-5.73,-28.82:99
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chr1 2380819 . C G 37.83 LowQual AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=9.81;MQ=46.57;MQ0=1;QD=1.08;SB=-27.83 GT:AD:DP:GL:GQ 0/1:27,8:18:-12.49,-5.42,-65.92:70.67
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chr1 2382567 . A G 10.80 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.42;MQ0=0;OQ=573.70;QD=14.34;SB=-186.56 GT:AD:DP:GL:GQ 0/1:16,24:36:-71.50,-10.85,-55.65:99
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chr1 2390539 rs56368227 C T 147.22 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.76;MQ=58.63;MQ0=0;OQ=772.55;QD=15.15;SB=-231.31 GT:AD:DP:GL:GQ 0/1:25,25:47:-96.89,-16.35,-71.90:99
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chr1 2391510 rs942818 T C 169.46 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=58.03;MQ0=0;OQ=1503.43;QD=30.07;SB=-692.23 GT:AD:DP:GL:GQ 1/1:0,50:44:-153.95,-13.26,-0.02:99
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chr1 2393714 rs10910080 G A 120.05 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=2.52;MQ=58.38;MQ0=0;OQ=343.05;QD=13.19;SB=-140.60 GT:AD:DP:GL:GQ 0/1:13,13:24:-44.83,-7.24,-36.59:99
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chr1 2394116 rs2494626 C T 263.72 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.65;MQ=58.95;MQ0=0;OQ=492.85;QD=12.32;SB=-207.19 GT:AD:DP:GL:GQ 0/1:23,17:37:-63.72,-11.16,-67.50:99
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chr1 2398521 rs1536155 A G 7.46 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=3;HaplotypeScore=2.26;MQ=58.44;MQ0=0;OQ=280.60;QD=10.39;SB=-38.80 GT:AD:DP:GL:GQ 0/1:14,13:25:-38.88,-7.54,-51.71:99
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chr1 2399136 rs12049628 A G 275.01 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=58.16;MQ0=0;OQ=457.42;QD=9.94;SB=-243.30 GT:AD:DP:GL:GQ 0/1:24,22:43:-61.98,-12.96,-96.02:99
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chr1 2399220 rs59417818 G A 58.40 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=60.00;MQ0=0;OQ=406.26;QD=15.63;SB=-103.61 GT:AD:DP:GL:GQ 0/1:12,13:24:-51.14,-7.23,-38.48:99
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chr1 2399752 rs12727342 A G 0.92 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=4.77;MQ=57.40;MQ0=0;OQ=225.70;QD=6.10;SB=-108.60 GT:AD:DP:GL:GQ 0/1:20,17:31:-35.20,-9.35,-75.95:99
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chr1 2399993 . G C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=1;HaplotypeScore=4.11;MQ=57.31;MQ0=0;OQ=125.38;QD=3.58;SB=53.21 GT:AD:DP:GL:GQ 0/1:25,10:27:-23.96,-8.14,-94.75:99
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chr1 2400649 rs11799501 C T 116.65 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=4.89;MQ=60.00;MQ0=0;OQ=748.36;QD=14.39;SB=-393.78 GT:AD:DP:GL:GQ 0/1:28,24:51:-93.50,-15.38,-86.98:99
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chr1 2401311 rs10797428 A G 76.46 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=3;HaplotypeScore=1.05;MQ=59.53;MQ0=0;OQ=638.41;QD=15.96;SB=-314.23 GT:AD:DP:GL:GQ 0/1:15,25:38:-78.58,-11.46,-54.60:99
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chr1 2402139 rs4648638 A T 283.51 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.43;MQ0=0;OQ=382.69;QD=11.60;SB=-121.80 GT:AD:DP:GL:GQ 0/1:19,14:31:-50.89,-9.34,-63.99:99
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chr1 2403494 rs942817 G C 329.65 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=58.68;MQ0=0;OQ=865.92;QD=18.82;SB=-441.92 GT:AD:DP:GL:GQ 0/1:21,25:43:-102.83,-12.96,-79.86:99
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chr1 2404788 rs4995304 G A 54.16 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=55.45;MQ0=0;OQ=801.00;QD=19.54;SB=-282.18 GT:AD:DP:GL:GQ 0/1:16,24:39:-95.13,-11.75,-53.28:99
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chr1 2405062 . T G 6.04 PASS AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=55.86;MQ0=0;OQ=164.49;QD=7.15;SB=2.04 GT:AD:DP:GL:GQ 0/1:15,8:23:-26.66,-6.93,-55.71:99
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chr1 2405078 . C T 5.98 PASS AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.46;MQ=52.76;MQ0=0;OQ=151.99;QD=6.61;SB=-0.99 GT:AD:DP:GL:GQ 0/1:16,7:20:-24.51,-6.03,-50.27:99
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chr1 2405106 . G T 34.21 LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=1;HaplotypeScore=4.38;MQ=49.04;MQ0=0;QD=1.63;SB=-10.00 GT:AD:DP:GL:GQ 0/1:16,5:14:-10.92,-4.22,-37.23:67.05
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chr1 2405179 . T G 0.09 PASS AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=3;HaplotypeScore=3.52;MQ=52.14;MQ0=0;OQ=147.78;QD=8.21;SB=-98.66 GT:AD:DP:GL:GQ 0/1:11,7:13:-21.98,-3.92,-24.09:99
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chr1 2405189 . T C 0.04 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DP=19;Dels=0.00;HRun=3;HaplotypeScore=5.56;MQ=47.05;MQ0=0;OQ=344.28;QD=18.12;SB=-173.40 GT:AD:DP:GL:GQ 1/1:0,19:11:-38.02,-3.32,-0.01:33.08
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chr1 2405210 . C A 0.76 PASS AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=2.86;MQ=39.01;MQ0=0;OQ=86.77;QD=6.20;SB=-60.75 GT:AD:DP:GL:GQ 0/1:10,4:8:-14.37,-2.41,-11.67:92.61
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chr1 2405220 . G C 0.99 PASS AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=2.07;MQ=39.01;MQ0=0;OQ=62.38;QD=4.46;SB=-40.43 GT:AD:DP:GL:GQ 0/1:10,4:7:-11.64,-2.12,-15.93:95.21
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chr1 2405254 . T C 25.50 LowQual AC=1;AF=0.50;AN=2;DP=7;Dels=0.00;HRun=3;HaplotypeScore=1.85;MQ=37.93;MQ0=1;QD=3.64;SB=-6.99 GT:AD:DP:GL:GQ 0/1:3,4:4:-7.04,-1.21,-6.92:57.17
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chr1 2405275 . C A 10.07 PASS AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=1;HaplotypeScore=2.14;MQ=32.15;MQ0=1;OQ=98.76;QD=10.97;SB=-39.94 GT:AD:DP:GL:GQ 1/1:5,4:4:-13.41,-1.21,-0.00:12.03
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chr1 2405285 . G C 5.32 PASS AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=2.30;MQ=37.51;MQ0=1;OQ=185.89;QD=12.39;SB=-10.00 GT:AD:DP:GL:GQ 0/1:8,7:7:-23.98,-2.11,-4.50:23.85
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chr1 2405307 . G C 0.94 PASS AC=1;AF=0.50;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=44.11;MQ0=0;OQ=225.33;QD=17.33;SB=-6.99 GT:AD:DP:GL:GQ 0/1:5,8:9:-28.53,-2.71,-8.94:62.30
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chr1 2405357 rs61763948 T C 6.42 PASS AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=1.39;MQ=58.63;MQ0=0;OQ=296.15;QD=17.42;SB=-3.98 GT:AD:DP:GL:GQ 0/1:4,13:16:-37.72,-4.82,-15.46:99
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chr1 2406217 rs4648639 G A 225.22 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=51.38;MQ0=0;OQ=834.51;QD=18.14;SB=-265.24 GT:AD:DP:GL:GQ 0/1:20,26:45:-100.29,-13.55,-72.00:99
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chr1 2407818 rs4648640 G A 162.08 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=1.42;MQ=59.09;MQ0=0;OQ=709.86;QD=15.43;SB=-272.15 GT:AD:DP:GL:GQ 0/1:23,23:44:-87.53,-13.26,-76.87:99
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chr1 2408795 rs10910082 C T 122.37 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=59.49;MQ0=0;OQ=319.86;QD=7.11;SB=-107.45 GT:AD:DP:GL:GQ 0/1:33,12:44:-48.52,-13.25,-117.65:99
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chr1 2410450 rs10752744 T C 140.49 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=1.65;MQ=60.00;MQ0=0;OQ=499.26;QD=10.62;SB=-158.91 GT:AD:DP:GL:GQ 0/1:28,19:47:-67.37,-14.16,-113.54:99
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chr1 2410773 rs6668720 A G 120.35 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.41;MQ=58.84;MQ0=0;OQ=320.90;QD=8.02;SB=-52.83 GT:AD:DP:GL:GQ 0/1:24,16:36:-46.22,-10.85,-86.61:99
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chr1 2412474 rs2477699 G A 360.42 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=58.60;MQ0=0;OQ=676.25;QD=13.52;SB=-318.34 GT:AD:DP:GL:GQ 0/1:25,25:46:-84.77,-13.86,-87.14:99
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chr1 2413426 rs3001349 C G 122.02 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=4.47;MQ=59.07;MQ0=0;OQ=984.04;QD=19.68;SB=-507.27 GT:AD:DP:GL:GQ 0/1:22,28:50:-116.76,-15.07,-93.45:99
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chr1 2414277 rs2477701 T C 471.99 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=1313.31;QD=32.03;SB=-482.12 GT:AD:DP:GL:GQ 1/1:0,41:41:-134.95,-12.36,-0.03:99
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chr1 2414754 rs2477702 T C 257.38 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=58.58;MQ0=0;OQ=407.32;QD=11.31;SB=-181.54 GT:AD:DP:GL:GQ 0/1:18,17:33:-53.96,-9.95,-62.99:99
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chr1 2415234 . G A 52.54 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=3.50;MQ=58.25;MQ0=0;OQ=558.86;QD=13.97;SB=-294.85 GT:AD:DP:GL:GQ 0/1:20,20:36:-70.03,-10.86,-54.36:99
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chr1 2415852 rs2477703 C T 47.65 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=7.69;MQ=58.80;MQ0=0;OQ=763.15;QD=13.16;SB=-352.50 GT:AD:DP:GL:GQ 0/1:34,24:57:-96.78,-17.18,-104.35:99
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chr1 2416626 rs3001347 A G 166.06 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.25;MQ=58.74;MQ0=0;OQ=303.26;QD=8.20;SB=-170.50 GT:AD:DP:GL:GQ 0/1:20,17:33:-43.56,-9.95,-71.18:99
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chr1 2417572 rs3762444 C T 276.23 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=447.88;QD=14.93;SB=-199.90 GT:AD:DP:GL:GQ 0/1:15,15:29:-56.82,-8.74,-44.39:99
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chr1 2418734 rs2477706 T C 40.91 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.30;MQ=58.67;MQ0=0;OQ=224.99;QD=6.43;SB=-131.52 GT:AD:DP:GL:GQ 0/1:20,15:30:-34.83,-9.05,-71.11:99
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chr1 2422191 rs4648641 C A 142.70 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.65;MQ0=0;OQ=139.36;QD=6.33;SB=-88.78 GT:AD:DP:GL:GQ 0/1:13,9:20:-23.25,-6.03,-44.88:99
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chr1 2422622 rs4648642 G A 142.31 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=2.94;MQ=59.39;MQ0=0;OQ=411.20;QD=10.82;SB=-172.27 GT:AD:DP:GL:GQ 0/1:23,15:36:-55.26,-10.86,-70.83:99
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chr1 2422899 . G A 37.84 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.95;MQ=59.45;MQ0=0;OQ=458.87;QD=13.50;SB=-199.87 GT:AD:DP:GL:GQ 0/1:18,16:31:-58.52,-9.34,-51.58:99
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chr1 2423328 . G A 53.96 PASS AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=296.62;QD=12.90;SB=-35.64 GT:AD:DP:GL:GQ 0/1:13,10:22:-39.58,-6.63,-40.93:99
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chr1 2423754 rs55874156 G A 35.47 LowQual AC=1;AF=0.50;AN=2;DB;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;QD=5.91;SB=-7.00 GT:AD:DP:GL:GQ 0/1:3,3:5:-8.34,-1.51,-8.96:68.30
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chr1 2423760 rs12736998 C T 230.21 PASS AC=1;AF=0.50;AN=2;DB;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=70.89;QD=11.81;SB=-46.66 GT:AD:DP:GL:GQ 0/1:3,3:6:-12.18,-1.81,-9.71:78.98
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chr1 2424604 rs3814298 C T 190.56 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.41;MQ=60.00;MQ0=0;OQ=798.59;QD=18.57;SB=-384.92 GT:AD:DP:GL:GQ 0/1:19,24:41:-95.50,-12.36,-53.02:99
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chr1 2428628 rs12725663 C T 86.80 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.60;MQ=59.46;MQ0=0;OQ=892.70;QD=20.76;SB=-466.01 GT:AD:DP:GL:GQ 0/1:16,27:41:-104.92,-12.36,-47.45:99
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chr1 2429459 rs2494621 C A 2.75 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=3;HaplotypeScore=1.26;MQ=59.48;MQ0=0;OQ=889.11;QD=20.21;SB=-361.22 GT:AD:DP:GL:GQ 0/1:15,29:43:-105.15,-12.95,-49.46:99
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chr1 2429541 rs4648559 C T 370.29 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=862.47;QD=17.60;SB=-340.86 GT:AD:DP:GL:GQ 0/1:22,27:49:-104.31,-14.78,-68.65:99
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chr1 2429545 rs3791180 G C 362.92 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.63;MQ0=0;OQ=669.25;QD=13.12;SB=-329.42 GT:AD:DP:GL:GQ 0/1:24,27:45:-83.79,-13.58,-96.76:99
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chr1 2434274 rs7535528 G A 398.69 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=57.41;MQ0=0;OQ=974.09;QD=16.23;SB=-447.47 GT:AD:DP:GL:GQ 0/1:29,31:55:-117.28,-16.58,-80.59:99
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chr1 2440170 rs56168662 G C 440.84 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=641.06;QD=13.94;SB=-291.00 GT:AD:DP:GL:GQ 0/1:24,22:44:-80.67,-13.28,-95.39:99
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chr1 2442429 rs2985862 T C 118.89 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=58.11;MQ0=0;OQ=446.59;QD=12.07;SB=-57.29 GT:AD:DP:GL:GQ 0/1:20,17:36:-58.79,-10.85,-82.58:99
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chr1 2442985 . C G 26.50 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=2.73;MQ=57.66;MQ0=0;QD=0.66;SB=53.21 GT:AD:DP:GL:GQ 0/1:27,13:28:-14.38,-8.45,-107.19:59.33
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chr1 2443996 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=0;HaplotypeScore=42.41;MQ=51.42;MQ0=0;OQ=532.54;QD=4.29;SB=-103.57 GT:AD:DP:GL:GQ 0/1:93,31:115:-91.18,-34.64,-325.86:99
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chr1 2444008 rs12757829 A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=141;Dels=0.00;HRun=1;HaplotypeScore=24.89;MQ=51.04;MQ0=0;OQ=890.38;QD=6.31;SB=-413.05 GT:AD:DP:GL:GQ 0/1:89,52:127:-130.59,-38.27,-352.78:99
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chr1 2444025 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=0;HaplotypeScore=101.62;MQ=51.11;MQ0=0;OQ=575.04;QD=3.76;SB=-161.02 GT:AD:DP:GL:GQ 0/1:119,34:145:-104.47,-43.68,-467.68:99
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chr1 2444046 rs11582708 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=169;Dels=0.00;HRun=3;HaplotypeScore=36.45;MQ=48.57;MQ0=0;OQ=119.48;QD=0.71;SB=230.81 GT:AD:DP:GL:GQ 0/1:152,17:154:-61.64,-46.41,-606.32:99
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chr1 2444064 rs11583446 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=165;Dels=0.00;HRun=0;HaplotypeScore=21.72;MQ=47.52;MQ0=0;OQ=2894.91;QD=17.54;SB=-1278.77 GT:AD:DP:GL:GQ 0/1:56,109:148:-337.38,-44.60,-196.45:99
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chr1 2444078 rs2494629 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=179;Dels=0.00;HRun=0;HaplotypeScore=85.91;MQ=46.23;MQ0=1;OQ=3166.59;QD=17.69;SB=-903.91 GT:AD:DP:GL:GQ 0/1:79,100:143:-363.06,-43.11,-245.67:99
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chr1 2444084 rs11583448 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=183;Dels=0.00;HRun=0;HaplotypeScore=146.19;MQ=45.66;MQ0=1;OQ=1337.56;QD=7.31;SB=32.08 GT:AD:DP:GL:GQ 0/1:128,54:167:-187.36,-50.32,-447.47:99
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chr1 2444090 rs11582711 C T 0.69 PASS AC=1;AF=0.50;AN=2;DB;DP=184;Dels=0.00;HRun=1;HaplotypeScore=9.96;MQ=45.23;MQ0=1;OQ=1767.35;QD=9.61;SB=-110.22 GT:AD:DP:GL:GQ 0/1:119,64:165:-229.73,-49.72,-378.76:99
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chr1 2444114 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=167;Dels=0.00;HRun=1;HaplotypeScore=224.24;MQ=44.82;MQ0=1;OQ=1189.56;QD=7.12;SB=-484.53 GT:AD:DP:GL:GQ 0/1:105,62:153:-168.35,-46.11,-399.99:99
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chr1 2444123 rs60947977 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=164;Dels=0.00;HRun=1;HaplotypeScore=187.19;MQ=44.56;MQ0=1;OQ=222.03;QD=1.35;SB=140.46 GT:AD:DP:GL:GQ 0/1:146,18:145:-69.17,-43.68,-451.95:99
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chr1 2444144 rs12735280 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=159;Dels=0.00;HRun=0;HaplotypeScore=41.21;MQ=45.78;MQ0=2;OQ=126.97;QD=0.80;SB=158.55 GT:AD:DP:GL:GQ 0/1:146,13:126:-53.98,-38.00,-474.20:99
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chr1 2444156 rs61763952 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=143;Dels=0.00;HRun=1;HaplotypeScore=50.63;MQ=44.65;MQ0=2;OQ=841.78;QD=5.89;SB=-177.38 GT:AD:DP:GL:GQ 0/1:107,36:119:-123.33,-35.87,-307.59:99
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chr1 2444175 . A G 1992.57 SnpCluster AC=1;AF=0.50;AN=2;DP=119;Dels=0.00;HRun=1;HaplotypeScore=57.72;MQ=43.73;MQ0=1;QD=16.74;SB=-969.28 GT:AD:DP:GL:GQ 0/1:46,73:107:-234.78,-32.23,-167.74:99
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chr1 2444179 . C T 733.69 SnpCluster AC=1;AF=0.50;AN=2;DP=108;Dels=0.00;HRun=1;HaplotypeScore=94.68;MQ=43.15;MQ0=1;QD=6.79;SB=-249.70 GT:AD:DP:GL:GQ 0/1:79,29:94:-104.98,-28.32,-236.84:99
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chr1 2444180 . T C 74.50 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=1;HaplotypeScore=102.88;MQ=43.30;MQ0=1;QD=0.72;SB=40.74 GT:AD:DP:GL:GQ 0/1:89,15:92:-38.46,-27.73,-318.94:99
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chr1 2444188 . C T 230.63 SnpCluster AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=1;HaplotypeScore=69.58;MQ=42.94;MQ0=1;QD=2.33;SB=-68.96 GT:AD:DP:GL:GQ 0/1:80,18:83:-51.35,-25.01,-254.74:99
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chr1 2444203 rs12723596 A G 0.31 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=1;HaplotypeScore=13.04;MQ=41.89;MQ0=1;OQ=932.46;QD=10.25;SB=-166.34 GT:AD:DP:GL:GQ 0/1:48,43:72:-118.23,-21.70,-146.57:99
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chr1 2444214 . T G 33.51 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=1;HaplotypeScore=90.11;MQ=41.94;MQ0=0;QD=0.39;SB=20.19 GT:AD:DP:GL:GQ 0/1:75,10:71:-28.02,-21.39,-222.83:66.35
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chr1 2444236 rs3001351 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=107;Dels=0.00;HRun=1;HaplotypeScore=44.56;MQ=42.21;MQ0=1;OQ=1478.32;QD=13.82;SB=-341.03 GT:AD:DP:GL:GQ 0/1:32,75:79:-174.93,-23.81,-103.79:99
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chr1 2444239 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=1;HaplotypeScore=57.18;MQ=42.22;MQ0=1;OQ=253.01;QD=2.32;SB=-45.72 GT:AD:DP:GL:GQ 0/1:94,15:81:-52.98,-24.40,-242.61:99
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chr1 2444569 rs2494625 T C 30.67 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.30;MQ0=0;OQ=234.27;QD=7.10;SB=-122.64 GT:AD:DP:GL:GQ 0/1:20,13:30:-35.75,-9.04,-76.61:99
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chr1 2445722 rs12131236 C T 283.83 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.73;MQ0=0;OQ=971.15;QD=13.87;SB=-406.34 GT:AD:DP:GL:GQ 0/1:39,31:69:-121.19,-20.79,-133.37:99
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chr1 2446063 rs3122922 A G 422.66 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.95;MQ0=0;OQ=840.10;QD=14.48;SB=-338.93 GT:AD:DP:GL:GQ 0/1:28,30:57:-104.46,-17.17,-113.53:99
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chr1 2452678 rs2494603 T C 117.86 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.28;MQ0=0;OQ=471.49;QD=14.73;SB=-130.66 GT:AD:DP:GL:GQ 0/1:12,20:28:-58.88,-8.44,-38.02:99
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chr1 2452695 rs10910087 A G 48.63 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=58.97;MQ0=0;OQ=650.54;QD=14.46;SB=-235.28 GT:AD:DP:GL:GQ 0/1:22,23:45:-81.90,-13.56,-89.06:99
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chr1 2453274 rs11583602 G A 37.53 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.57;MQ0=0;OQ=1048.89;QD=19.42;SB=-532.12 GT:AD:DP:GL:GQ 0/1:23,31:52:-123.83,-15.66,-80.52:99
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chr1 2453609 rs4648645 G T 421.56 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=634.41;QD=13.22;SB=-255.25 GT:AD:DP:GL:GQ 0/1:25,23:48:-81.19,-14.46,-89.13:99
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chr1 2453905 rs6694195 G A 6.21 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=641.00;QD=22.10;SB=-187.27 GT:AD:DP:GL:GQ 0/1:9,20:26:-75.22,-7.83,-25.34:99
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chr1 2454427 rs12406506 G T 168.99 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=59.39;MQ0=0;OQ=384.63;QD=10.12;SB=-161.15 GT:AD:DP:GL:GQ 0/1:22,16:36:-52.59,-10.85,-75.30:99
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chr1 2454955 rs11585747 C T 158.41 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=58.68;MQ0=0;OQ=442.85;QD=9.63;SB=-209.92 GT:AD:DP:GL:GQ 0/1:30,16:43:-60.53,-12.97,-87.57:99
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chr1 2455004 rs9803764 C T 21.92 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=718.09;QD=21.76;SB=-255.79 GT:AD:DP:GL:GQ 0/1:12,21:31:-84.43,-9.34,-35.39:99
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chr1 2455189 rs11584295 G A 326.39 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.20;MQ=59.30;MQ0=0;OQ=897.10;QD=14.95;SB=-369.89 GT:AD:DP:GL:GQ 0/1:30,30:57:-110.18,-17.19,-92.60:99
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chr1 2455531 rs4648561 T C 59.57 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=4.71;MQ=60.00;MQ0=0;OQ=506.09;QD=9.04;SB=-221.92 GT:AD:DP:GL:GQ 0/1:28,28:51:-69.27,-15.38,-110.78:99
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chr1 2455652 rs3001339 C T 0.17 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=4;HaplotypeScore=3.44;MQ=59.16;MQ0=0;OQ=1028.71;QD=18.70;SB=-294.19 GT:AD:DP:GL:GQ 0/1:22,32:53:-122.12,-15.97,-77.91:99
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chr1 2455772 rs6661956 C T 143.28 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=60.00;MQ0=0;OQ=537.50;QD=14.93;SB=-189.16 GT:AD:DP:GL:GQ 0/1:19,17:35:-67.58,-10.55,-58.49:99
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chr1 2455810 rs2494605 A G 6.95 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=3.59;MQ=59.41;MQ0=0;OQ=1343.57;QD=34.45;SB=-641.25 GT:AD:DP:GL:GQ 1/1:0,39:38:-137.96,-11.45,-0.01:99
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chr1 2456285 rs2985860 T G 0.20 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=9.84;MQ=58.13;MQ0=0;OQ=394.22;QD=7.88;SB=-79.96 GT:AD:DP:GL:GQ 0/1:20,30:34:-52.96,-10.25,-63.38:99
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chr1 2456493 rs2494606 A G 522.55 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=1382.51;QD=30.72;SB=-394.30 GT:AD:DP:GL:GQ 1/1:0,45:44:-141.87,-13.27,-0.04:99
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chr1 2460535 . T C 626.63 Indel AC=1;AF=0.50;AN=2;DP=47;Dels=0.04;HRun=0;HaplotypeScore=9.81;MQ=45.54;MQ0=0;QD=13.33;SB=-234.30 GT:AD:DP:GL:GQ 0/1:22,23:45:-78.90,-12.95,-84.01:99
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chr1 2460708 rs12042279 G A 153.95 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.69;MQ=58.99;MQ0=0;OQ=696.74;QD=15.15;SB=-237.53 GT:AD:DP:GL:GQ 0/1:24,22:46:-86.83,-13.87,-76.84:99
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chr1 2461941 rs1886731 T C 87.33 PASS AC=1;AF=0.50;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=203.62;QD=14.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,9:14:-27.87,-4.22,-19.55:99
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chr1 2462004 rs4487972 G C 44.05 PASS AC=1;AF=0.50;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=1.24;MQ=56.62;MQ0=0;OQ=71.85;QD=10.26;SB=-10.00 GT:AD:DP:GL:GQ 0/1:3,4:6:-12.28,-1.81,-12.84:99
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chr1 2464065 rs942824 T C 72.36 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=1.60;MQ=59.36;MQ0=0;OQ=370.87;QD=10.30;SB=-61.73 GT:AD:DP:GL:GQ 0/1:20,16:34:-50.61,-10.24,-77.88:99
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chr1 2465072 rs10797429 G C 201.07 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=57.71;MQ0=0;OQ=487.96;QD=13.19;SB=-257.25 GT:AD:DP:GL:GQ 0/1:21,16:34:-62.33,-10.25,-80.32:99
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chr1 2465334 rs55929178 C T 11.28 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=4.63;MQ=56.91;MQ0=0;OQ=721.66;QD=14.73;SB=-233.74 GT:AD:DP:GL:GQ 0/1:26,23:43:-88.40,-12.95,-74.05:99
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chr1 2467218 rs12097268 T A 23.21 PASS AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=190.70;QD=11.22;SB=-35.94 GT:AD:DP:GL:GQ 0/1:9,8:17:-27.48,-5.13,-30.96:99
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chr1 2468371 rs2477678 T A 119.20 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=60.00;MQ0=0;OQ=463.47;QD=13.24;SB=-147.88 GT:AD:DP:GL:GQ 0/1:17,17:32:-59.27,-9.64,-59.80:99
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chr1 2469843 rs1974044 A G 45.39 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=3.40;MQ=59.34;MQ0=0;OQ=371.34;QD=10.61;SB=-193.60 GT:AD:DP:GL:GQ 0/1:21,14:32:-50.06,-9.64,-71.49:99
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chr1 2471303 . C T 62.24 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.70;MQ=41.42;MQ0=6;OQ=776.47;QD=14.38;SB=-282.22 GT:AD:DP:GL:GQ 0/1:29,25:42:-93.59,-12.66,-60.88:99
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chr1 2472781 rs2147905 T C 210.38 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=3.37;MQ=57.08;MQ0=0;OQ=779.17;QD=15.90;SB=-258.93 GT:AD:DP:GL:GQ 0/1:21,26:47:-95.36,-14.16,-80.25:99
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chr1 2473130 rs3748825 T C 24.77 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=50.53;MQ0=0;OQ=489.49;QD=14.40;SB=-174.97 GT:AD:DP:GL:GQ 0/1:17,17:34:-62.48,-10.24,-67.15:99
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chr1 2473158 rs2985858 C G 170.01 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.64;MQ=52.63;MQ0=0;OQ=759.64;QD=17.67;SB=-375.14 GT:AD:DP:GL:GQ 0/1:22,21:42:-91.90,-12.65,-91.93:99
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chr1 2474608 rs4449972 T C 1.07 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=17.16;MQ0=14;OQ=59.70;QD=2.60;SB=-42.68 GT:AD:DP:GL:GQ 0/1:13,10:7:-11.36,-2.11,-16.47:92.53
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chr1 2474629 rs2764846 G T 13.02 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=13.44;MQ0=12;OQ=72.28;QD=4.25;SB=-10.00 GT:AD:DP:GL:GQ 1/1:7,10:3:-10.72,-0.90,-0.00:9.03
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chr1 2474959 rs10910088 A G 3.08 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=22.58;MQ0=15;OQ=106.75;QD=3.44;SB=-10.00 GT:AD:DP:GL:GQ 0/1:16,14:12:-17.58,-3.63,-21.51:99
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chr1 2475164 rs2182176 C T 397.56 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=48.51;MQ0=0;OQ=552.02;QD=13.14;SB=-223.69 GT:AD:DP:GL:GQ 0/1:24,18:39:-70.24,-11.76,-69.97:99
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chr1 2475556 rs1555791 C G 11.33 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=3;HaplotypeScore=2.88;MQ=58.58;MQ0=0;OQ=550.02;QD=11.96;SB=-241.08 GT:AD:DP:GL:GQ 0/1:27,19:40:-70.37,-12.08,-87.80:99
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chr1 2475800 rs10910089 C A 3.66 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=9.04;MQ=58.28;MQ0=0;OQ=671.47;QD=13.70;SB=-238.39 GT:AD:DP:GL:GQ 0/1:23,26:46:-84.29,-13.86,-77.00:99
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chr1 2476366 rs61054170 G A 7.02 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=6.03;MQ=57.64;MQ0=0;OQ=224.60;QD=8.64;SB=-97.61 GT:AD:DP:GL:GQ 0/1:16,10:23:-32.68,-6.93,-48.70:99
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chr1 2476391 rs2495365 T C 262.15 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=56.62;MQ0=0;OQ=373.37;QD=12.04;SB=-190.59 GT:AD:DP:GL:GQ 0/1:16,15:29:-49.36,-8.74,-57.56:99
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chr1 2476740 rs11577783 T C 207.60 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=58.69;MQ0=0;OQ=459.72;QD=9.19;SB=-194.29 GT:AD:DP:GL:GQ 0/1:30,20:49:-64.03,-14.78,-111.22:99
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chr1 2476777 rs7550231 C T 162.70 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.21;MQ0=0;OQ=483.70;QD=13.44;SB=-69.05 GT:AD:DP:GL:GQ 0/1:20,15:32:-61.30,-9.65,-52.93:99
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chr1 2477765 rs7515633 T C 23.90 PASS AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=58.71;MQ0=0;OQ=253.35;QD=14.07;SB=-51.83 GT:AD:DP:GL:GQ 0/1:8,10:18:-34.04,-5.43,-30.81:99
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chr1 2477769 rs7544646 G C 297.66 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=2;HaplotypeScore=6.07;MQ=56.04;MQ0=0;QD=16.54;SB=-32.86 GT:AD:DP:GL:GQ 0/1:9,9:14:-37.27,-4.22,-20.23:99
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chr1 2477776 . G C 10.29 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=1;HaplotypeScore=18.19;MQ=56.92;MQ0=0;QD=0.45;SB=20.10 GT:AD:DP:GL:GQ 0/1:13,10:13:-8.19,-3.92,-49.87:42.70
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chr1 2477778 . A C 172 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=2;HaplotypeScore=22.60;MQ=57.66;MQ0=0;QD=5.73;SB=23.08 GT:AD:DP:GL:GQ 0/1:12,18:21:-26.81,-6.33,-40.53:99
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chr1 2477836 rs2843396 C G 11.98 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=3.04;MQ=59.36;MQ0=0;OQ=1290.53;QD=35.85;SB=-556.54 GT:AD:DP:GL:GQ 1/1:0,36:34:-132.68,-10.27,-0.04:99
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chr1 2478204 rs10910090 G A 182.29 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=59.53;MQ0=0;OQ=449.68;QD=11.24;SB=-202.69 GT:AD:DP:GL:GQ 0/1:23,17:38:-59.71,-11.46,-71.62:99
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chr1 2479633 rs8725 C T 49.19 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=1.46;MQ=59.51;MQ0=0;OQ=577.64;QD=12.29;SB=-219.70 GT:AD:DP:GL:GQ 0/1:27,20:42:-73.71,-12.66,-80.51:99
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chr1 2480088 rs2234167 C T 215.09 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=60.00;MQ0=0;OQ=519.75;QD=13.33;SB=-131.13 GT:AD:DP:GL:GQ 0/1:22,17:38:-66.72,-11.46,-63.96:99
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chr1 2481753 rs11573988 C A 159.02 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=59.54;MQ0=0;OQ=542.33;QD=13.23;SB=-158.65 GT:AD:DP:GL:GQ 0/1:20,21:37:-68.66,-11.14,-62.61:99
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chr1 2483213 rs2234161 G A 326.82 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.71;MQ0=0;OQ=435.68;QD=12.10;SB=-173.67 GT:AD:DP:GL:GQ 0/1:20,16:32:-56.50,-9.65,-56.89:99
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chr1 2483476 rs2281852 G T 352.55 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=59.50;MQ0=0;OQ=604.05;QD=13.13;SB=-299.46 GT:AD:DP:GL:GQ 0/1:23,23:43:-76.65,-12.96,-66.34:99
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chr1 2483520 rs2257763 G T 186.21 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.87;MQ=58.41;MQ0=0;OQ=599.64;QD=13.63;SB=-190.60 GT:AD:DP:GL:GQ 0/1:21,23:41:-75.60,-12.36,-64.98:99
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chr1 2485488 rs2495366 C T 214.98 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=59.54;MQ0=0;OQ=410.34;QD=10.01;SB=-177.87 GT:AD:DP:GL:GQ 0/1:24,17:33:-54.27,-9.95,-57.69:99
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chr1 2485810 rs1886730 A G 395.82 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=201.47;QD=10.07;SB=-95.61 GT:AD:DP:GL:GQ 0/1:11,9:20:-29.46,-6.03,-42.35:99
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chr1 2486265 rs4870 T C 17.43 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=53.94;MQ0=0;OQ=133.00;QD=5.54;SB=-10.85 GT:AD:DP:GL:GQ 0/1:16,8:22:-23.21,-6.63,-59.96:99
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chr1 2486652 rs2227313 A G 323.64 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=361.41;QD=9.04;SB=-171.95 GT:AD:DP:GL:GQ 0/1:24,16:39:-51.18,-11.76,-90.45:99
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chr1 2486755 rs2227312 G T 192.71 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.51;MQ0=0;OQ=435.37;QD=11.46;SB=-199.58 GT:AD:DP:GL:GQ 0/1:21,17:35:-57.36,-10.54,-70.01:99
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chr1 2489670 rs4449972 A G 6.05 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=14.84;MQ0=21;OQ=104.96;QD=3.09;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,15:5:-15.28,-1.51,-4.27:27.62
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chr1 2489758 rs4385650 G C 16.53 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=2;HaplotypeScore=2.00;MQ=35.98;MQ0=1;OQ=450.14;QD=15.00;SB=-208.64 GT:AD:DP:GL:GQ 0/1:17,13:27:-56.44,-8.15,-54.66:99
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chr1 2490753 rs4648647 G A 26.84 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=2;HaplotypeScore=1.33;MQ=50.09;MQ0=0;OQ=371.65;QD=10.04;SB=-147.20 GT:AD:DP:GL:GQ 0/1:24,13:35:-51.00,-10.56,-68.63:99
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chr1 2490924 . G A 58.67 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=40.19;MQ0=3;OQ=773.22;QD=14.59;SB=-281.28 GT:AD:DP:GL:GQ 0/1:27,26:42:-93.26,-12.65,-67.56:99
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chr1 2491198 rs10797432 C T 12.45 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=7.73;MQ=51.44;MQ0=1;OQ=449.43;QD=8.48;SB=-221.51 GT:AD:DP:GL:GQ 0/1:35,17:47:-62.39,-14.17,-101.99:99
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chr1 2491376 rs10910092 A G 353.95 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.86;MQ0=0;OQ=953.50;QD=15.89;SB=-479.29 GT:AD:DP:GL:GQ 0/1:27,33:59:-116.41,-17.77,-105.03:99
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chr1 2491870 rs10797433 T C 399.98 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.09;MQ0=0;OQ=643.74;QD=13.99;SB=-281.26 GT:AD:DP:GL:GQ 0/1:20,26:45:-81.22,-13.56,-79.26:99
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chr1 2492640 rs6667605 C T 284.33 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=60.00;MQ0=0;OQ=1076.76;QD=20.32;SB=-511.53 GT:AD:DP:GL:GQ 0/1:22,31:53:-126.92,-15.96,-81.92:99
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chr1 2492694 rs6672381 A G 59.10 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=2.96;MQ=59.67;MQ0=0;OQ=836.72;QD=14.68;SB=-261.21 GT:AD:DP:GL:GQ 0/1:25,31:56:-103.83,-16.88,-100.88:99
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chr1 2493042 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=3;HaplotypeScore=24.29;MQ=58.55;MQ0=0;OQ=229.07;QD=5.45;SB=41.17 GT:AD:DP:GL:GQ 0/1:24,18:31:-35.54,-9.35,-97.62:99
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chr1 2494094 rs6671426 C A 112.49 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=782.65;QD=13.98;SB=-297.63 GT:AD:DP:GL:GQ 0/1:30,26:56:-98.41,-16.86,-108.17:99
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chr1 2494223 rs28734787 T C 285.54 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.94;MQ=59.74;MQ0=0;OQ=1016.84;QD=14.32;SB=-488.08 GT:AD:DP:GL:GQ 0/1:37,34:71:-126.35,-21.38,-153.97:99
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chr1 2495573 rs10910093 C T 602.04 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1162.34;QD=15.92;SB=-466.49 GT:AD:DP:GL:GQ 0/1:38,35:73:-141.53,-22.01,-121.32:99
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chr1 2496089 rs55658746 T C 89.31 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.87;MQ=57.64;MQ0=0;OQ=790.54;QD=12.35;SB=-411.26 GT:AD:DP:GL:GQ 0/1:36,28:63:-101.32,-18.98,-139.07:99
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chr1 2496219 rs2477685 G T 165.82 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.18;MQ=55.91;MQ0=0;OQ=1646.89;QD=32.29;SB=-779.73 GT:AD:DP:GL:GQ 1/1:1,50:48:-168.30,-14.46,-0.02:99
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chr1 2496348 rs10910094 C T 138.18 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=47.91;MQ0=1;OQ=444.30;QD=9.66;SB=-141.63 GT:AD:DP:GL:GQ 0/1:26,19:40:-59.77,-12.06,-79.45:99
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chr1 2497303 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=4;HaplotypeScore=6.77;MQ=59.20;MQ0=0;OQ=63.06;QD=2.17;SB=17.06 GT:AD:DP:GL:GQ 0/1:13,16:15:-14.11,-4.52,-33.25:95.89
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chr1 2497798 rs10752745 A G 23.19 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=2.74;MQ=53.22;MQ0=0;OQ=566.34;QD=12.59;SB=-208.51 GT:AD:DP:GL:GQ 0/1:24,21:42:-72.57,-12.65,-89.49:99
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chr1 2498203 rs6675676 G C 138.01 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=30.17;MQ0=2;OQ=540.65;QD=15.02;SB=-227.70 GT:AD:DP:GL:GQ 0/1:18,18:32:-67.01,-9.66,-62.30:99
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chr1 2500615 rs10910095 G A 293.14 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=53.83;MQ0=0;OQ=619.40;QD=15.49;SB=-326.87 GT:AD:DP:GL:GQ 0/1:18,21:35:-75.77,-10.55,-51.15:99
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chr1 2501140 rs10797434 C T 359.97 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.30;MQ=59.72;MQ0=0;OQ=1006.21;QD=15.25;SB=-442.36 GT:AD:DP:GL:GQ 0/1:35,31:65:-123.49,-19.58,-121.16:99
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chr1 2501248 rs12129508 G A 509.24 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1099.72;QD=18.33;SB=-426.78 GT:AD:DP:GL:GQ 0/1:28,32:59:-131.03,-17.77,-95.59:99
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chr1 2502312 rs4648648 G A 10.75 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=5.67;MQ=56.86;MQ0=0;OQ=538.80;QD=17.96;SB=-254.77 GT:AD:DP:GL:GQ 0/1:13,17:27:-65.30,-8.13,-39.62:99
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chr1 2502510 rs4648649 T C 255.66 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=58.39;MQ0=0;OQ=590.46;QD=13.42;SB=-228.32 GT:AD:DP:GL:GQ 0/1:17,27:40:-74.40,-12.07,-60.31:99
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chr1 2502570 rs10910096 T C 112.48 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.22;MQ0=0;OQ=671.99;QD=19.20;SB=-218.66 GT:AD:DP:GL:GQ 0/1:13,22:35:-81.03,-10.54,-52.21:99
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chr1 2502755 . G A 190.59 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=20;HaplotypeScore=16.86;MQ=48.05;MQ0=1;QD=2.32;SB=89.22 GT:AD:DP:GL:GQ 0/1:62,20:60:-40.44,-18.10,-157.12:99
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chr1 2502759 . G A 95.63 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=4;HaplotypeScore=8.02;MQ=49.03;MQ0=1;QD=1.15;SB=92.21 GT:AD:DP:GL:GQ 0/1:62,21:60:-30.94,-18.09,-170.87:99
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chr1 2502764 . G A 61.94 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=4;HaplotypeScore=11.73;MQ=52.06;MQ0=1;QD=0.77;SB=101.27 GT:AD:DP:GL:GQ 0/1:64,16:66:-29.37,-19.89,-196.86:94.78
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chr1 2502769 . G A 36.83 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=4;HaplotypeScore=29.21;MQ=54.00;MQ0=1;QD=0.49;SB=101.32 GT:AD:DP:GL:GQ 0/1:66,9:67:-27.16,-20.19,-206.36:69.66
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chr1 2502915 rs4486391 A T 575.38 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=706.11;QD=12.61;SB=-348.36 GT:AD:DP:GL:GQ 0/1:31,25:55:-90.46,-16.56,-121.47:99
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chr1 2502965 rs735000 C T 134.95 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=59.41;MQ0=0;OQ=774.05;QD=19.85;SB=-347.38 GT:AD:DP:GL:GQ 0/1:16,23:37:-91.84,-11.15,-44.36:99
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chr1 2503076 rs734999 C T 284.99 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=51.96;MQ0=0;OQ=837.38;QD=13.51;SB=-164.65 GT:AD:DP:GL:GQ 0/1:35,27:61:-105.40,-18.37,-127.82:99
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chr1 2503492 rs2016175 C G 123.40 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.61;MQ=50.82;MQ0=0;OQ=1084.11;QD=19.71;SB=-398.00 GT:AD:DP:GL:GQ 0/1:24,31:54:-127.97,-16.28,-102.13:99
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chr1 2503538 rs2016366 A T 76.85 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=3.79;MQ=51.20;MQ0=0;OQ=1061.50;QD=16.33;SB=-509.95 GT:AD:DP:GL:GQ 0/1:31,34:63:-128.41,-18.98,-104.88:99
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chr1 2504435 rs2094074 C T 20.77 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=6.13;MQ=59.30;MQ0=0;OQ=1039.69;QD=17.04;SB=-426.84 GT:AD:DP:GL:GQ 0/1:29,32:61:-125.64,-18.39,-96.67:99
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chr1 2506299 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=2;HaplotypeScore=15.52;MQ=57.83;MQ0=0;OQ=93.19;QD=2.39;SB=56.19 GT:AD:DP:GL:GQ 0/1:27,12:31:-21.95,-9.34,-90.63:99
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chr1 2511290 rs10910097 C T 251.37 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=59.70;MQ0=0;OQ=1148.10;QD=18.52;SB=-511.69 GT:AD:DP:GL:GQ 0/1:27,35:61:-136.47,-18.38,-99.00:99
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chr1 2512252 rs2296443 G A 195.68 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=59.53;MQ0=0;OQ=544.43;QD=13.61;SB=-235.74 GT:AD:DP:GL:GQ 0/1:18,22:33:-67.68,-9.95,-51.18:99
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chr1 2515036 . A C 42.97 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=58.51;MQ0=0;OQ=337.76;QD=7.68;SB=-183.81 GT:AD:DP:GL:GQ 0/1:27,17:42:-49.72,-12.66,-93.24:99
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chr1 2517538 rs2260976 A G 4.94 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=2.14;MQ=56.76;MQ0=0;OQ=1272.91;QD=31.05;SB=-372.36 GT:AD:DP:GL:GQ 1/1:0,41:39:-130.90,-11.76,-0.03:99
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chr1 2517993 rs2843401 T C 105.48 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=57.77;MQ0=0;OQ=962.33;QD=26.73;SB=-342.23 GT:AD:DP:GL:GQ 1/1:0,36:31:-99.85,-9.36,-0.04:93.19
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chr1 2518542 rs2843402 T C 221.44 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=60.00;MQ0=0;OQ=1968.59;QD=35.79;SB=-942.98 GT:AD:DP:GL:GQ 1/1:0,55:55:-200.46,-16.56,-0.01:99
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chr1 2518859 rs2764845 G T 123.68 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.65;MQ=60.00;MQ0=0;OQ=1822.58;QD=33.75;SB=-893.66 GT:AD:DP:GL:GQ 1/1:0,54:52:-185.86,-15.67,-0.02:99
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chr1 2518957 rs2843403 T C 21.95 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=2;HaplotypeScore=1.02;MQ=56.17;MQ0=0;OQ=926.62;QD=29.89;SB=-317.56 GT:AD:DP:GL:GQ 1/1:0,31:28:-96.27,-8.44,-0.02:84.21
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chr1 2519052 rs2764842 A G 76.78 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=1201.00;QD=30.79;SB=-460.21 GT:AD:DP:GL:GQ 1/1:0,39:38:-123.72,-11.46,-0.03:99
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chr1 2519220 rs2764841 G A 268.55 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=59.01;MQ0=0;OQ=1602.47;QD=34.10;SB=-756.02 GT:AD:DP:GL:GQ 1/1:0,46:43:-163.85,-12.96,-0.02:99
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chr1 2519297 rs2764840 C T 22.50 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.04;MQ=57.55;MQ0=0;OQ=1701.90;QD=37.00;SB=-691.34 GT:AD:DP:GL:GQ 1/1:0,46:43:-173.78,-12.95,-0.01:99
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chr1 2520418 rs2843404 T C 200.03 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.75;MQ0=0;OQ=2535.27;QD=33.80;SB=-857.06 GT:AD:DP:GL:GQ 1/1:0,75:73:-257.13,-21.99,-0.02:99
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chr1 2520554 rs2764848 G A 508.37 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2620.71;QD=40.32;SB=-1288.71 GT:AD:DP:GL:GQ 1/1:0,65:65:-265.67,-19.58,-0.01:99
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chr1 2521232 rs2985855 A C 625.35 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.53;MQ0=0;OQ=2344.13;QD=34.47;SB=-1125.14 GT:AD:DP:GL:GQ 1/1:0,68:67:-238.02,-20.18,-0.02:99
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chr1 2521327 rs6689711 T C 152.61 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.71;MQ0=0;OQ=2140.18;QD=32.93;SB=-405.31 GT:AD:DP:GL:GQ 1/1:0,65:64:-217.64,-19.29,-0.04:99
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chr1 2521365 rs6681973 C T 205.20 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=1951.81;QD=38.27;SB=-716.95 GT:AD:DP:GL:GQ 1/1:0,51:50:-198.79,-15.07,-0.02:99
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chr1 2521374 rs6682043 C A 555.65 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.76;MQ0=0;OQ=1757.71;QD=35.87;SB=-715.96 GT:AD:DP:GL:GQ 1/1:0,49:49:-179.37,-14.76,-0.01:99
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chr1 2521839 . A G 1244.02 Indel AC=2;AF=1.00;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.74;MQ0=0;QD=31.90;SB=-233.75 GT:AD:DP:GL:GQ 1/1:1,38:37:-132.07,-11.15,-4.08:70.65
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chr1 2522276 rs2985859 T C 630.86 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=55.35;MQ0=0;OQ=2205.91;QD=35.58;SB=-1051.93 GT:AD:DP:GL:GQ 1/1:0,62:62:-224.19,-18.67,-0.02:99
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chr1 2522366 rs3001837 G A 528.70 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.76;MQ0=0;OQ=2660.16;QD=39.12;SB=-1251.03 GT:AD:DP:GL:GQ 1/1:0,68:68:-269.62,-20.49,-0.02:99
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chr1 2522484 rs2985857 C T 472.23 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=3579.52;QD=41.62;SB=-1476.96 GT:AD:DP:GL:GQ 1/1:0,86:86:-356.95,-25.90,-0.02:99
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chr1 2522759 rs6424092 C A 529.01 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2798.98;QD=36.83;SB=-1322.91 GT:AD:DP:GL:GQ 1/1:0,76:75:-283.50,-22.58,-0.01:99
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chr1 2523213 . A C 18.95 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=2;HaplotypeScore=7.65;MQ=59.48;MQ0=0;QD=0.43;SB=47.15 GT:AD:DP:GL:GQ 0/1:27,17:32:-14.82,-9.65,-87.52:51.73
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chr1 2530333 . T C 29.61 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=7.38;MQ=54.61;MQ0=1;QD=0.64;SB=33.57 GT:AD:DP:GL:GQ 0/1:37,5:39:-21.30,-15.06,-133.42:62.44
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chr1 2530381 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=20.91;MQ=54.33;MQ0=2;OQ=131.02;QD=2.85;SB=56.21 GT:AD:DP:GL:GQ 0/1:39,7:40:-28.44,-12.05,-138.25:99
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chr1 2537888 rs4379628 A G 6.62 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=4.46;MQ=59.75;MQ0=0;OQ=2299.26;QD=31.07;SB=-964.39 GT:AD:DP:GL:GQ 1/1:0,74:72:-233.58,-21.72,-0.07:99
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chr1 2541362 . T C 301.82 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.33;MQ0=0;OQ=1099.72;QD=15.94;SB=-567.63 GT:AD:DP:GL:GQ 0/1:31,38:67:-133.44,-20.18,-122.76:99
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chr1 2541645 rs12117343 C T 412.42 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=59.64;MQ0=0;OQ=1073.30;QD=16.77;SB=-513.05 GT:AD:DP:GL:GQ 0/1:32,32:63:-129.60,-18.99,-99.14:99
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chr1 2543980 rs61765771 T G 318.19 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=60.00;MQ0=0;OQ=635.63;QD=14.45;SB=-332.88 GT:AD:DP:GL:GQ 0/1:20,24:43:-79.80,-12.95,-72.63:99
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chr1 2546847 . G A 17.21 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=58.27;MQ0=0;OQ=1072.92;QD=19.87;SB=-329.89 GT:AD:DP:GL:GQ 0/1:19,35:49:-125.34,-14.77,-58.33:99
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chr1 2547051 rs7523364 C T 194.54 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=55.15;MQ0=0;OQ=3310.62;QD=39.41;SB=-1353.31 GT:AD:DP:GL:GQ 1/1:0,84:83:-330.06,-25.01,-0.03:99
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chr1 2547391 rs6422657 C T 186.53 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=60.00;MQ0=0;OQ=2783.42;QD=38.13;SB=-1334.38 GT:AD:DP:GL:GQ 1/1:1,71:72:-284.61,-21.69,-2.69:99
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chr1 2548168 rs6668149 A C 205.71 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.44;MQ0=0;OQ=2627.68;QD=35.04;SB=-1288.37 GT:AD:DP:GL:GQ 1/1:0,75:74:-266.37,-22.29,-0.02:99
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chr1 2548600 rs12748729 C T 627.69 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=2890.24;QD=37.05;SB=-1331.37 GT:AD:DP:GL:GQ 1/1:0,78:77:-292.65,-23.21,-0.04:99
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chr1 2549449 rs12730932 T G 82.44 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.16;MQ0=0;OQ=1601.53;QD=32.03;SB=-737.35 GT:AD:DP:GL:GQ 1/1:0,50:47:-163.76,-14.16,-0.02:99
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chr1 2550595 rs4648657 A G 5.77 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.33;MQ0=0;OQ=350.17;QD=25.01;SB=-43.68 GT:AD:DP:GL:GQ 1/1:0,14:13:-38.62,-3.93,-0.02:39.06
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chr1 2550742 rs4648658 G A 10.42 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.23;MQ0=0;OQ=551.80;QD=32.46;SB=-125.66 GT:AD:DP:GL:GQ 1/1:0,17:15:-58.77,-4.52,-0.01:45.14
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chr1 2550763 rs4648659 T G 0.34 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=55.52;MQ0=0;OQ=309.18;QD=19.32;SB=-86.14 GT:AD:DP:GL:GQ 1/1:0,16:12:-34.52,-3.62,-0.02:36.01
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chr1 2551146 rs28532547 T G 110.03 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=53.21;MQ0=0;OQ=1059.23;QD=30.26;SB=-548.02 GT:AD:DP:GL:GQ 1/1:0,35:32:-109.53,-9.64,-0.02:96.26
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chr1 2552029 rs4648564 C T 0.99 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=7.47;MQ=58.85;MQ0=1;OQ=2625.23;QD=39.18;SB=-1028.39 GT:AD:DP:GL:GQ 1/1:1,66:66:-266.13,-19.88,-0.02:99
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chr1 2553110 rs12749591 G T 349.46 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=723.50;QD=32.89;SB=-266.61 GT:AD:DP:GL:GQ 1/1:0,22:22:-75.95,-6.63,-0.01:66.17
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chr1 2553270 . G T 45.57 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=1;HaplotypeScore=10.71;MQ=58.27;MQ0=0;QD=1.69;SB=20.06 GT:AD:DP:GL:GQ 0/1:17,10:20:-13.87,-6.03,-50.95:78.40
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chr1 2554043 rs6698817 T C 9.96 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.30;MQ0=0;OQ=887.43;QD=26.89;SB=-424.17 GT:AD:DP:GL:GQ 1/1:0,33:29:-92.36,-8.75,-0.03:87.20
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chr1 2554325 rs12752515 T C 17.47 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.11;MQ0=0;OQ=775.65;QD=29.83;SB=-403.34 GT:AD:DP:GL:GQ 1/1:0,26:25:-81.17,-7.54,-0.02:75.18
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chr1 2554665 rs12723864 A G 160.30 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=60.00;MQ0=0;OQ=414.17;QD=9.86;SB=-197.61 GT:AD:DP:GL:GQ 0/1:26,16:42:-57.35,-12.65,-104.43:99
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chr1 2555187 rs55649610 G T 258.93 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.99;MQ0=0;OQ=951.34;QD=20.68;SB=-431.11 GT:AD:DP:GL:GQ 0/1:14,32:46:-112.28,-13.86,-47.81:99
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chr1 2555885 . C T 1.81 PASS AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=57.89;MQ0=0;OQ=690.84;QD=23.82;SB=-291.84 GT:AD:DP:GL:GQ 0/1:8,21:28:-80.81,-8.44,-25.16:99
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chr1 2556197 . T G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=1;HaplotypeScore=11.22;MQ=54.79;MQ0=0;OQ=66.20;QD=3.31;SB=-59.09 GT:AD:DP:GL:GQ 0/1:16,4:14:-14.12,-4.22,-33.87:99
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chr1 2556342 rs6657378 T G 21.29 LowQual AC=1;AF=0.50;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=3.31;MQ=37.32;MQ0=0;QD=3.04;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,2:5:-6.92,-1.51,-9.22:54.10
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chr1 2556350 rs6671623 G A 0.26 PASS AC=2;AF=1.00;AN=2;DB;DP=8;Dels=0.00;HRun=1;HaplotypeScore=6.12;MQ=40.03;MQ0=1;OQ=207.84;QD=25.98;SB=-95.34 GT:AD:DP:GL:GQ 1/1:1,7:6:-24.36,-1.81,-0.00:18.06
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chr1 2556357 rs6671625 G A 182.34 PASS AC=2;AF=1.00;AN=2;DB;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.68;MQ0=1;OQ=89.01;QD=14.84;SB=-50.56 GT:AD:DP:GL:GQ 1/1:1,5:3:-12.39,-0.90,-0.00:9.03
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chr1 2556483 rs61765773 C T 0.15 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=11.29;MQ=45.87;MQ0=1;OQ=153.35;QD=5.11;SB=26.06 GT:AD:DP:GL:GQ 0/1:23,7:20:-24.65,-6.03,-43.69:99
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chr1 2556797 rs61765774 G C 178.56 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.58;MQ0=0;OQ=587.02;QD=17.79;SB=-197.49 GT:AD:DP:GL:GQ 0/1:16,17:32:-71.63,-9.64,-64.58:99
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chr1 2557281 rs12756665 C T 187.45 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=3.25;MQ=59.28;MQ0=0;OQ=722.29;QD=11.29;SB=-327.75 GT:AD:DP:GL:GQ 0/1:40,24:64:-94.79,-19.28,-146.15:99
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chr1 2557351 rs12739597 A G 96.49 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.40;MQ=59.10;MQ0=0;OQ=470.82;QD=7.03;SB=-215.20 GT:AD:DP:GL:GQ 0/1:44,23:67:-70.56,-20.20,-177.79:99
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chr1 2557360 rs6666788 A G 33.09 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=2.28;MQ=59.11;MQ0=0;OQ=2385.56;QD=35.08;SB=-1067.87 GT:AD:DP:GL:GQ 1/1:0,68:67:-242.16,-20.18,-0.02:99
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chr1 2558285 rs4648661 T C 264.82 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.64;MQ=58.76;MQ0=0;OQ=708.13;QD=11.80;SB=-352.07 GT:AD:DP:GL:GQ 0/1:29,30:58:-91.59,-17.49,-110.76:99
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chr1 2559883 rs4648565 A G 68.89 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=1657.37;QD=34.53;SB=-734.30 GT:AD:DP:GL:GQ 1/1:0,48:47:-169.34,-14.16,-0.02:99
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chr1 2561683 rs28690427 A G 44.51 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.48;MQ0=0;OQ=1625.27;QD=33.17;SB=-564.36 GT:AD:DP:GL:GQ 1/1:0,49:47:-166.13,-14.16,-0.02:99
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chr1 2563059 rs4648662 A G 36.80 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=57.88;MQ0=0;OQ=986.78;QD=31.83;SB=-278.44 GT:AD:DP:GL:GQ 1/1:0,30:28:-102.27,-8.43,-0.01:84.25
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chr1 2563587 rs4648663 A C 432.35 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=1398.67;QD=33.30;SB=-656.05 GT:AD:DP:GL:GQ 1/1:0,42:41:-143.47,-12.35,-0.02:99
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chr1 2563763 rs12726651 C T 270.02 PASS AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.90;MQ0=0;OQ=164.81;QD=9.69;SB=-74.06 GT:AD:DP:GL:GQ 0/1:11,6:16:-24.59,-4.82,-34.68:99
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chr1 2563938 rs9970196 T C 22.23 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=0.81;MQ=59.28;MQ0=0;OQ=1014.31;QD=31.70;SB=-295.06 GT:AD:DP:GL:GQ 1/1:0,32:30:-105.04,-9.04,-0.02:90.22
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chr1 2566315 rs6604989 T C 18.73 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.60;MQ0=0;OQ=1647.45;QD=28.40;SB=-794.64 GT:AD:DP:GL:GQ 1/1:0,58:52:-168.38,-15.68,-0.05:99
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chr1 2568080 rs12744876 G T 183.89 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.61;MQ=58.84;MQ0=0;OQ=1106.09;QD=17.02;SB=-318.70 GT:AD:DP:GL:GQ 0/1:29,35:64:-133.17,-19.27,-104.78:99
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chr1 2571402 rs28611770 A G 632.64 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.32;MQ0=1;OQ=2534.42;QD=35.20;SB=-1124.79 GT:AD:DP:GL:GQ 1/1:0,72:70:-257.05,-21.08,-0.02:99
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chr1 2571473 . C T 26.42 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=54.51;MQ0=1;OQ=420.48;QD=8.58;SB=-192.15 GT:AD:DP:GL:GQ 0/1:33,16:41:-57.68,-12.35,-93.81:99
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chr1 2571476 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=3;HaplotypeScore=3.65;MQ=54.65;MQ0=1;OQ=290.92;QD=5.94;SB=-124.22 GT:AD:DP:GL:GQ 0/1:34,15:41:-44.73,-12.36,-110.26:99
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chr1 2571505 . C T 0.62 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=52.42;MQ0=0;OQ=231.01;QD=4.20;SB=-18.13 GT:AD:DP:GL:GQ 0/1:42,13:52:-42.05,-15.67,-144.47:99
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chr1 2571527 . A T 14.96 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.42;MQ=51.64;MQ0=0;OQ=434.87;QD=7.91;SB=-142.65 GT:AD:DP:GL:GQ 0/1:35,20:51:-62.14,-15.37,-122.01:99
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chr1 2572200 rs12732266 C G 51.91 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=5.49;MQ=58.04;MQ0=0;OQ=559.70;QD=11.91;SB=-261.11 GT:AD:DP:GL:GQ 0/1:26,21:41:-71.62,-12.36,-99.19:99
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chr1 2573315 rs12738064 C T 887.13 DPFilter;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=133;Dels=0.00;HRun=0;HaplotypeScore=171.89;MQ=24.26;MQ0=9;QD=6.67;SB=-137.01 GT:AD:DP:GL:GQ 1/1:10,119:25:-96.41,-11.12,-4.11:70.06
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chr1 2573322 . T G 343.20 DPFilter;SnpCluster AC=2;AF=1.00;AN=2;DP=144;Dels=0.01;HRun=0;HaplotypeScore=333.45;MQ=22.10;MQ0=11;QD=2.38;SB=-10.00 GT:AD:DP:GL:GQ 1/1:29,104:11:-37.91,-3.31,-0.00:33.09
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chr1 2573323 . C G 95.88 DPFilter;SnpCluster AC=2;AF=1.00;AN=2;DP=144;Dels=0.01;HRun=1;HaplotypeScore=342.46;MQ=22.10;MQ0=11;QD=0.67;SB=-10.00 GT:AD:DP:GL:GQ 1/1:103,36:3:-13.08,-0.90,-0.00:9.03
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chr1 2573324 . G C 506.46 DPFilter;Indel;SnpCluster AC=2;AF=1.00;AN=2;DP=147;Dels=0.01;HRun=1;HaplotypeScore=339.64;MQ=22.28;MQ0=11;QD=3.45;SB=-10.00 GT:AD:DP:GL:GQ 1/1:15,116:14:-57.88,-7.75,-3.65:41.01
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chr1 2573329 rs12734173 G A 146.94 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=218;Dels=0.00;HRun=1;HaplotypeScore=513.41;MQ=21.01;MQ0=20;QD=0.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:132,84:24:-25.21,-7.23,-67.73:99
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chr1 2573338 . C G 83.26 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=290;Dels=0.00;HRun=0;HaplotypeScore=710.09;MQ=20.03;MQ0=40;QD=0.29;SB=-0.97 GT:AD:DP:GL:GQ 0/1:254,26:38:-23.06,-11.45,-135.55:99
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chr1 2573342 . C A 213.70 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=322;Dels=0.00;HRun=1;HaplotypeScore=673.88;MQ=20.07;MQ0=46;QD=0.66;SB=1.99 GT:AD:DP:GL:GQ 0/1:277,45:41:-37.01,-12.35,-108.15:99
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chr1 2573345 . A C 1425.86 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=338;Dels=0.02;HRun=3;HaplotypeScore=632.90;MQ=20.26;MQ0=48;QD=4.22;SB=-172.79 GT:AD:DP:GL:GQ 0/1:132,186:90:-176.25,-30.38,-146.77:99
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chr1 2573350 . T C 293.04 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=399;Dels=0.00;HRun=0;HaplotypeScore=691.94;MQ=19.84;MQ0=54;QD=0.73;SB=44.71 GT:AD:DP:GL:GQ 0/1:277,71:78:-104.74,-72.15,-238.43:99
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chr1 2573354 . C A 62.42 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=432;Dels=0.00;HRun=1;HaplotypeScore=848.73;MQ=19.94;MQ0=56;QD=0.14;SB=50.16 GT:AD:DP:GL:GQ 0/1:379,40:51:-24.89,-15.36,-155.69:95.25
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chr1 2573358 . T C 129.61 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=457;Dels=0.00;HRun=1;HaplotypeScore=683.78;MQ=19.93;MQ0=58;QD=0.28;SB=-34.65 GT:AD:DP:GL:GQ 0/1:367,56:52:-42.68,-26.43,-169.09:99
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chr1 2573364 rs55738582 C G 575.47 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=473;Dels=0.00;HRun=1;HaplotypeScore=961.37;MQ=19.71;MQ0=62;QD=1.22;SB=-67.52 GT:AD:DP:GL:GQ 0/1:411,23:43:-73.79,-12.96,-105.12:99
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chr1 2573370 rs55790383 G A 775.08 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=470;Dels=0.00;HRun=1;HaplotypeScore=917.62;MQ=19.72;MQ0=61;QD=1.65;SB=-367.90 GT:AD:DP:GL:GQ 0/1:265,173:48:-98.76,-17.97,-89.48:99
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chr1 2573371 rs55657722 G C 3489.08 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=470;Dels=0.00;HRun=0;HaplotypeScore=944.58;MQ=19.72;MQ0=61;QD=7.42;SB=-1002.13 GT:AD:DP:GL:GQ 1/1:47,398:84:-347.91,-28.85,-3.68:99
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chr1 2573372 . A G 46.25 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=482;Dels=0.00;HRun=2;HaplotypeScore=999.26;MQ=19.79;MQ0=62;QD=0.10;SB=26.11 GT:AD:DP:GL:GQ 0/1:425,48:54:-24.18,-16.27,-184.96:79.08
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chr1 2573374 . C A 193.31 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=490;Dels=0.00;HRun=1;HaplotypeScore=979.59;MQ=19.99;MQ0=60;QD=0.39;SB=-75.64 GT:AD:DP:GL:GQ 0/1:438,45:65:-48.93,-26.32,-189.47:99
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chr1 2573382 . C A 261.06 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=502;Dels=0.01;HRun=1;HaplotypeScore=946.29;MQ=19.95;MQ0=64;QD=0.52;SB=17.04 GT:AD:DP:GL:GQ 0/1:391,72:71:-67.99,-38.60,-197.52:99
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chr1 2573383 . C G 55.13 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=502;Dels=0.00;HRun=0;HaplotypeScore=899.21;MQ=20.04;MQ0=63;QD=0.11;SB=37.79 GT:AD:DP:GL:GQ 0/1:438,33:65:-35.38,-26.59,-240.37:87.97
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chr1 2573385 . C A 145.75 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=503;Dels=0.00;HRun=0;HaplotypeScore=828.45;MQ=20.02;MQ0=64;QD=0.29;SB=-23.06 GT:AD:DP:GL:GQ 0/1:432,48:49:-35.99,-18.13,-141.74:99
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chr1 2573390 . T C 166.49 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=483;Dels=0.01;HRun=0;HaplotypeScore=660.44;MQ=20.15;MQ0=61;QD=0.34;SB=-43.82 GT:AD:DP:GL:GQ 0/1:342,96:43:-35.67,-15.74,-120.66:99
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chr1 2573404 rs56352113 A C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=412;Dels=0.00;HRun=1;HaplotypeScore=785.14;MQ=20.24;MQ0=50;OQ=1746.05;QD=4.24;SB=-272.76 GT:AD:DP:GL:GQ 1/1:48,316:72:-242.08,-66.55,-63.89:26.61
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chr1 2573410 rs12759490 A G 148.65 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DB;DP=383;Dels=0.00;HRun=0;HaplotypeScore=682.21;MQ=20.35;MQ0=44;QD=0.39;SB=-43.26 GT:AD:DP:GL:GQ 0/1:276,96:57:-35.34,-17.19,-178.84:99
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chr1 2573423 . C A 163.64 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=284;Dels=0.00;HRun=1;HaplotypeScore=927.03;MQ=21.34;MQ0=33;QD=0.58;SB=26.07 GT:AD:DP:GL:GQ 0/1:224,38:48:-34.11,-14.46,-128.40:99
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chr1 2573426 . C A 487.43 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=275;Dels=0.00;HRun=0;HaplotypeScore=598.86;MQ=21.74;MQ0=31;QD=1.77;SB=-144.61 GT:AD:DP:GL:GQ 0/1:229,39:67:-72.21,-20.18,-167.89:99
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chr1 2573431 . T A 55.01 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=244;Dels=0.00;HRun=0;HaplotypeScore=414.88;MQ=22.20;MQ0=23;QD=0.23;SB=-37.64 GT:AD:DP:GL:GQ 0/1:198,17:62:-42.64,-33.85,-190.83:87.85
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chr1 2573439 rs12738268 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=199;Dels=0.00;HRun=0;HaplotypeScore=197.41;MQ=23.56;MQ0=17;OQ=1379.28;QD=6.93;SB=-473.52 GT:AD:DP:GL:GQ 0/1:75,107:51:-156.58,-15.37,-36.65:99
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chr1 2573442 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=194;Dels=0.00;HRun=0;HaplotypeScore=181.20;MQ=23.67;MQ0=14;OQ=103.36;QD=0.53;SB=32.13 GT:AD:DP:GL:GQ 0/1:179,11:55:-39.39,-25.77,-162.27:99
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chr1 2573451 . A G 329.45 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=156;Dels=0.00;HRun=0;HaplotypeScore=168.85;MQ=25.71;MQ0=9;QD=2.11;SB=-36.23 GT:AD:DP:GL:GQ 0/1:80,76:54:-52.50,-16.27,-154.97:99
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chr1 2573454 rs55760918 C G 556.39 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=140;Dels=0.00;HRun=0;HaplotypeScore=206.74;MQ=26.90;MQ0=8;QD=3.97;SB=-52.80 GT:AD:DP:GL:GQ 0/1:46,88:51:-74.30,-15.38,-138.45:99
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chr1 2573455 rs56258540 A C 134.39 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=145;Dels=0.00;HRun=1;HaplotypeScore=218.70;MQ=26.73;MQ0=9;QD=0.93;SB=-34.89 GT:AD:DP:GL:GQ 0/1:91,52:51:-34.62,-17.90,-142.52:99
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chr1 2573485 rs55714819 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=241;Dels=0.00;HRun=1;HaplotypeScore=172.11;MQ=27.92;MQ0=9;OQ=766.38;QD=3.18;SB=-61.60 GT:AD:DP:GL:GQ 0/1:152,84:106:-115.24,-35.32,-271.38:99
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chr1 2573510 rs61765777 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=332;Dels=0.00;HRun=1;HaplotypeScore=336.11;MQ=27.14;MQ0=14;OQ=2271.13;QD=6.84;SB=-383.23 GT:AD:DP:GL:GQ 0/1:103,229:130:-269.56,-39.16,-232.28:99
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chr1 2573523 . C T 271.88 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=476;Dels=0.00;HRun=0;HaplotypeScore=388.59;MQ=26.03;MQ0=25;QD=0.57;SB=-54.44 GT:AD:DP:GL:GQ 0/1:421,51:171:-82.00,-51.53,-495.80:99
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chr1 2573524 . G A 673.59 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=489;Dels=0.00;HRun=0;HaplotypeScore=381.72;MQ=26.07;MQ0=26;QD=1.38;SB=-235.66 GT:AD:DP:GL:GQ 0/1:348,136:174:-123.14,-52.50,-452.42:99
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chr1 2573532 . A G 266.78 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=584;Dels=0.00;HRun=0;HaplotypeScore=454.81;MQ=26.29;MQ0=38;QD=0.46;SB=-50.09 GT:AD:DP:GL:GQ 0/1:462,118:225:-100.76,-70.80,-803.69:99
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chr1 2573533 . C T 518.62 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=590;Dels=0.00;HRun=0;HaplotypeScore=454.86;MQ=26.25;MQ0=38;QD=0.88;SB=-177.22 GT:AD:DP:GL:GQ 0/1:555,34:221:-123.94,-68.80,-639.87:99
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chr1 2573545 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=760;Dels=0.00;HRun=0;HaplotypeScore=554.01;MQ=25.28;MQ0=58;OQ=2752.41;QD=3.62;SB=-334.08 GT:AD:DP:GL:GQ 0/1:504,247:275:-368.19,-89.67,-758.94:99
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chr1 2573551 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=816;Dels=0.00;HRun=0;HaplotypeScore=706.82;MQ=24.77;MQ0=61;OQ=92.57;QD=0.11;SB=99.33 GT:AD:DP:GL:GQ 0/1:767,48:306:-104.74,-92.20,-1021.89:99
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chr1 2573560 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=935;Dels=0.00;HRun=0;HaplotypeScore=771.90;MQ=24.19;MQ0=82;OQ=1354.07;QD=1.45;SB=-436.68 GT:AD:DP:GL:GQ 0/1:723,199:339:-248.95,-110.26,-942.99:99
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chr1 2573563 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=967;Dels=0.00;HRun=0;HaplotypeScore=867.36;MQ=23.97;MQ0=86;OQ=1389.93;QD=1.44;SB=161.22 GT:AD:DP:GL:GQ 0/1:819,137:345:-262.46,-120.18,-962.42:99
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chr1 2573572 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1012;Dels=0.00;HRun=0;HaplotypeScore=731.51;MQ=23.62;MQ0=98;OQ=634.63;QD=0.63;SB=-79.47 GT:AD:DP:GL:GQ 0/1:773,210:334:-172.80,-106.05,-1139.69:99
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chr1 2573600 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=878;Dels=0.00;HRun=0;HaplotypeScore=653.71;MQ=23.12;MQ0=120;OQ=1122.68;QD=1.28;SB=-567.08 GT:AD:DP:GL:GQ 0/1:678,154:296:-246.10,-130.55,-807.07:99
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chr1 2573603 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=862;Dels=0.00;HRun=0;HaplotypeScore=618.67;MQ=23.10;MQ0=123;OQ=316.50;QD=0.37;SB=-169.71 GT:AD:DP:GL:GQ 0/1:783,67:305:-136.37,-101.44,-918.41:99
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chr1 2573643 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=406;Dels=0.00;HRun=0;HaplotypeScore=240.70;MQ=22.59;MQ0=105;OQ=101.01;QD=0.25;SB=40.47 GT:AD:DP:GL:GQ 0/1:341,64:133:-53.47,-40.09,-445.02:99
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chr1 2573645 . T G 27.32 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=393;Dels=0.00;HRun=0;HaplotypeScore=214.15;MQ=22.61;MQ0=102;QD=0.07;SB=22.12 GT:AD:DP:GL:GQ 0/1:333,60:125:-43.68,-37.67,-396.83:60.15
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chr1 2573659 rs28581291 G C 4615.63 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=333;Dels=0.00;HRun=1;HaplotypeScore=205.79;MQ=24.13;MQ0=78;QD=13.86;SB=-1212.00 GT:AD:DP:GL:GQ 0/1:35,294:132:-460.56,-39.52,-82.06:99
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chr1 2573662 . C T 559.05 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=354;Dels=0.00;HRun=0;HaplotypeScore=280.21;MQ=24.11;MQ0=79;QD=1.58;SB=-274.91 GT:AD:DP:GL:GQ 0/1:309,45:145:-102.89,-43.70,-398.94:99
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chr1 2573665 . C G 1510.34 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=408;Dels=0.00;HRun=0;HaplotypeScore=325.78;MQ=24.58;MQ0=76;QD=3.70;SB=-297.94 GT:AD:DP:GL:GQ 0/1:264,141:179:-211.73,-57.41,-536.45:99
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chr1 2573688 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=651;Dels=0.00;HRun=2;HaplotypeScore=395.85;MQ=24.99;MQ0=65;OQ=362.26;QD=0.56;SB=-155.57 GT:AD:DP:GL:GQ 0/1:581,65:307:-140.30,-100.79,-1081.14:99
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chr1 2573689 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=665;Dels=0.00;HRun=0;HaplotypeScore=525.06;MQ=24.91;MQ0=65;OQ=1827.67;QD=2.75;SB=-517.28 GT:AD:DP:GL:GQ 0/1:550,112:319:-282.15,-96.10,-903.12:99
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chr1 2573699 rs28514305 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=700;Dels=0.00;HRun=1;HaplotypeScore=627.89;MQ=25.13;MQ0=51;OQ=504.00;QD=0.72;SB=-50.28 GT:AD:DP:GL:GQ 0/1:553,135:325:-164.84,-111.15,-1100.31:99
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chr1 2573722 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=939;Dels=0.00;HRun=0;HaplotypeScore=511.14;MQ=24.55;MQ0=41;OQ=652.05;QD=0.69;SB=-156.78 GT:AD:DP:GL:GQ 0/1:833,100:448:-203.46,-134.97,-1376.56:99
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chr1 2573743 . C A 1376.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=920;Dels=0.01;HRun=1;HaplotypeScore=1049.31;MQ=24.03;MQ0=45;QD=1.50;SB=-654.94 GT:AD:DP:GL:GQ 0/1:771,125:393:-273.72,-132.79,-1119.66:99
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chr1 2573744 . C A 2246.36 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=920;Dels=0.00;HRun=0;HaplotypeScore=1100.48;MQ=24.05;MQ0=45;QD=2.44;SB=-774.39 GT:AD:DP:GL:GQ 0/1:696,198:389:-363.03,-135.11,-1033.83:99
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chr1 2573747 . C T 2541.21 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=900;Dels=0.00;HRun=0;HaplotypeScore=1014.50;MQ=23.93;MQ0=43;QD=2.82;SB=-593.64 GT:AD:DP:GL:GQ 0/1:671,157:361:-422.27,-164.86,-953.11:99
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chr1 2573753 . A T 936.20 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=863;Dels=0.00;HRun=0;HaplotypeScore=1289.29;MQ=23.50;MQ0=46;QD=1.08;SB=-444.50 GT:AD:DP:GL:GQ 0/1:735,98:311:-195.18,-98.28,-961.18:99
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chr1 2573759 . C T 306.11 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=786;Dels=0.00;HRun=0;HaplotypeScore=944.88;MQ=23.40;MQ0=46;QD=0.39;SB=80.59 GT:AD:DP:GL:GQ 0/1:568,186:262:-146.29,-112.39,-779.46:99
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chr1 2573762 . C T 1224.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=751;Dels=0.00;HRun=0;HaplotypeScore=1008.25;MQ=23.38;MQ0=43;QD=1.63;SB=32.31 GT:AD:DP:GL:GQ 0/1:549,181:260:-207.81,-82.08,-705.47:99
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chr1 2573768 . G A 69.35 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=690;Dels=0.00;HRun=0;HaplotypeScore=1128.47;MQ=23.25;MQ0=39;QD=0.10;SB=181.10 GT:AD:DP:GL:GQ 0/1:645,45:222:-77.09,-66.88,-732.33:99
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chr1 2573775 rs61765778 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=598;Dels=0.00;HRun=0;HaplotypeScore=829.09;MQ=23.11;MQ0=35;OQ=51.56;QD=0.09;SB=-51.39 GT:AD:DP:GL:GQ 0/1:411,178:176:-78.89,-70.45,-552.62:84.40
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chr1 2573784 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=482;Dels=0.00;HRun=0;HaplotypeScore=533.05;MQ=23.86;MQ0=35;OQ=97.06;QD=0.20;SB=-41.06 GT:AD:DP:GL:GQ 0/1:428,39:135:-57.53,-44.54,-428.93:99
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chr1 2573791 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=376;Dels=0.00;HRun=0;HaplotypeScore=279.62;MQ=25.08;MQ0=23;OQ=809.10;QD=2.15;SB=-122.99 GT:AD:DP:GL:GQ 0/1:249,119:103:-122.37,-38.18,-240.78:99
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chr1 2573803 rs61765779 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=238;Dels=0.00;HRun=0;HaplotypeScore=273.29;MQ=27.85;MQ0=11;OQ=738.52;QD=3.10;SB=-305.23 GT:AD:DP:GL:GQ 0/1:82,152:68:-97.64,-20.50,-141.62:99
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chr1 2573809 rs61765805 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=171;Dels=0.00;HRun=1;HaplotypeScore=207.51;MQ=30.86;MQ0=7;OQ=486.71;QD=2.85;SB=-123.47 GT:AD:DP:GL:GQ 0/1:47,107:55:-75.59,-23.64,-159.88:99
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chr1 2573825 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.04;HRun=2;HaplotypeScore=133.51;MQ=37.12;MQ0=1;OQ=152.18;QD=1.48;SB=68.24 GT:AD:DP:GL:GQ 0/1:42,51:50:-47.81,-29.31,-160.18:99
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chr1 2573831 rs55855140 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=98;Dels=0.00;HRun=0;HaplotypeScore=126.91;MQ=39.65;MQ0=1;OQ=158.89;QD=1.62;SB=62.19 GT:AD:DP:GL:GQ 0/1:53,43:46:-39.96,-20.79,-124.08:99
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chr1 2573842 . A C 115.63 SnpCluster AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=0;HaplotypeScore=142.04;MQ=40.93;MQ0=1;QD=1.17;SB=-71.86 GT:AD:DP:GL:GQ 0/1:45,45:51:-30.22,-15.37,-141.99:99
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chr1 2573846 rs61765806 C G 427.99 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=128;Dels=0.00;HRun=0;HaplotypeScore=158.02;MQ=39.65;MQ0=2;QD=3.34;SB=50.19 GT:AD:DP:GL:GQ 0/1:94,33:65:-65.70,-19.61,-201.59:99
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chr1 2573851 . G A 820.83 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=140;Dels=0.00;HRun=1;HaplotypeScore=122.19;MQ=40.52;MQ0=2;QD=5.86;SB=-152.15 GT:AD:DP:GL:GQ 0/1:66,72:74:-107.66,-22.30,-166.53:99
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chr1 2573859 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=0;HaplotypeScore=126.84;MQ=40.41;MQ0=2;OQ=121.72;QD=0.77;SB=152.53 GT:AD:DP:GL:GQ 0/1:122,36:93:-43.49,-28.03,-346.24:99
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chr1 2573901 rs35515286 G C 550.86 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=206;Dels=0.00;HRun=0;HaplotypeScore=105.96;MQ=43.03;MQ0=1;QD=2.67;SB=237.50 GT:AD:DP:GL:GQ 0/1:135,63:142:-119.31,-60.94,-520.06:99
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chr1 2573904 . G C 824.37 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=204;Dels=0.00;HRun=3;HaplotypeScore=109.03;MQ=42.87;MQ0=2;QD=4.04;SB=193.35 GT:AD:DP:GL:GQ 0/1:129,71:137:-131.62,-45.90,-468.47:99
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chr1 2573907 . C T 232.33 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=234;Dels=0.00;HRun=0;HaplotypeScore=169.38;MQ=41.15;MQ0=2;QD=0.99;SB=246.29 GT:AD:DP:GL:GQ 0/1:198,35:151:-72.01,-45.49,-466.42:99
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chr1 2573937 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=313;Dels=0.00;HRun=2;HaplotypeScore=156.05;MQ=41.48;MQ0=6;OQ=610.21;QD=1.95;SB=184.28 GT:AD:DP:GL:GQ 0/1:179,131:178:-121.09,-56.78,-561.52:99
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chr1 2573955 rs4648664 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=309;Dels=0.01;HRun=0;HaplotypeScore=189.00;MQ=39.75;MQ0=9;OQ=5144.30;QD=16.65;SB=-1373.56 GT:AD:DP:GL:GQ 0/1:99,207:204:-513.43,-64.42,-219.84:99
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chr1 2573957 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=309;Dels=0.00;HRun=0;HaplotypeScore=210.03;MQ=39.51;MQ0=9;OQ=1411.76;QD=4.57;SB=186.52 GT:AD:DP:GL:GQ 0/1:164,144:192:-204.89,-60.43,-482.07:99
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chr1 2573977 rs36074084 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=329;Dels=0.14;HRun=3;HaplotypeScore=420.13;MQ=34.94;MQ0=9;OQ=1855.95;QD=5.64;SB=145.19 GT:AD:DP:GL:GQ 0/1:152,125:193:-244.66,-55.78,-561.08:99
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chr1 2573987 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=436;Dels=0.02;HRun=3;HaplotypeScore=523.62;MQ=29.87;MQ0=18;OQ=97.02;QD=0.22;SB=235.20 GT:AD:DP:GL:GQ 0/1:315,109:216:-76.87,-63.88,-657.84:99
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chr1 2574006 rs56001931 C A 193.50 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=578;Dels=0.00;HRun=0;HaplotypeScore=796.32;MQ=26.82;MQ0=27;QD=0.33;SB=-95.26 GT:AD:DP:GL:GQ 0/1:506,46:197:-84.56,-61.92,-620.37:99
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chr1 2574010 . G A 47.43 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=576;Dels=0.00;HRun=1;HaplotypeScore=936.31;MQ=26.86;MQ0=27;QD=0.08;SB=305.98 GT:AD:DP:GL:GQ 0/1:514,37:196:-70.15,-62.12,-641.00:80.27
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chr1 2574012 . G A 1112.09 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=567;Dels=0.00;HRun=1;HaplotypeScore=881.66;MQ=26.70;MQ0=27;QD=1.96;SB=173.94 GT:AD:DP:GL:GQ 0/1:337,218:205:-176.25,-61.76,-573.77:99
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chr1 2574013 rs35375421 G C 2739.83 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=556;Dels=0.00;HRun=0;HaplotypeScore=907.42;MQ=26.74;MQ0=27;QD=4.93;SB=-98.82 GT:AD:DP:GL:GQ 0/1:185,358:186:-340.69,-63.42,-477.87:99
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chr1 2574046 rs61765808 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=633;Dels=0.00;HRun=1;HaplotypeScore=769.62;MQ=25.77;MQ0=33;OQ=2369.47;QD=3.74;SB=-14.31 GT:AD:DP:GL:GQ 0/1:214,394:219:-332.81,-92.58,-459.77:99
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chr1 2574062 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=571;Dels=0.02;HRun=0;HaplotypeScore=1395.05;MQ=27.31;MQ0=25;OQ=270.74;QD=0.47;SB=9.21 GT:AD:DP:GL:GQ 0/1:393,159:156:-79.45,-49.09,-466.84:99
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chr1 2574081 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=574;Dels=0.00;HRun=0;HaplotypeScore=636.02;MQ=28.62;MQ0=23;OQ=102.79;QD=0.18;SB=258.30 GT:AD:DP:GL:GQ 0/1:339,178:156:-99.87,-86.31,-482.50:99
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chr1 2574099 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=481;Dels=0.01;HRun=2;HaplotypeScore=469.12;MQ=32.08;MQ0=15;OQ=332.15;QD=0.69;SB=-15.43 GT:AD:DP:GL:GQ 0/1:184,278:155:-88.85,-52.35,-456.19:99
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chr1 2574112 rs4648665 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=407;Dels=0.00;HRun=1;HaplotypeScore=376.40;MQ=32.86;MQ0=13;OQ=5520.38;QD=13.56;SB=-1708.96 GT:AD:DP:GL:GQ 1/1:7,385:151:-551.04,-45.49,-0.05:99
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chr1 2574233 rs6678571 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=482;Dels=0.00;HRun=0;HaplotypeScore=317.44;MQ=37.14;MQ0=103;OQ=51.18;QD=0.11;SB=33.13 GT:AD:DP:GL:GQ 0/1:400,76:222:-75.35,-66.94,-654.61:84.02
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chr1 2574280 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=411;Dels=0.00;HRun=0;HaplotypeScore=206.24;MQ=40.63;MQ0=25;OQ=702.83;QD=1.71;SB=165.25 GT:AD:DP:GL:GQ 0/1:262,145:248:-148.35,-74.78,-882.77:99
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chr1 2574370 rs56005609 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=224;Dels=0.00;HRun=0;HaplotypeScore=51.47;MQ=47.47;MQ0=12;OQ=160.10;QD=0.71;SB=-105.06 GT:AD:DP:GL:GQ 0/1:203,21:172:-71.19,-51.89,-483.26:99
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chr1 2574383 rs4648666 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=215;Dels=0.00;HRun=0;HaplotypeScore=154.22;MQ=48.52;MQ0=8;OQ=4531.65;QD=21.08;SB=-1293.59 GT:AD:DP:GL:GQ 0/1:45,169:169:-452.16,-50.92,-131.50:99
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chr1 2574398 rs4648667 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=297;Dels=0.00;HRun=0;HaplotypeScore=177.69;MQ=43.72;MQ0=17;OQ=1775.91;QD=5.98;SB=-869.96 GT:AD:DP:GL:GQ 0/1:211,86:190:-238.16,-57.29,-446.26:99
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chr1 2574435 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=784;Dels=0.00;HRun=0;HaplotypeScore=476.42;MQ=30.94;MQ0=61;OQ=552.66;QD=0.70;SB=-126.39 GT:AD:DP:GL:GQ 0/1:497,287:235:-129.39,-70.84,-631.70:99
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chr1 2574468 . A C 45.91 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=925;Dels=0.00;HRun=3;HaplotypeScore=499.34;MQ=30.78;MQ0=79;QD=0.05;SB=344.95 GT:AD:DP:GL:GQ 0/1:799,98:301:-105.40,-97.53,-960.73:78.74
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chr1 2574499 . C A 22.95 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=665;Dels=0.00;HRun=2;HaplotypeScore=681.86;MQ=36.15;MQ0=63;QD=0.03;SB=89.36 GT:AD:DP:GL:GQ 0/1:533,92:270:-145.98,-140.40,-853.73:55.76
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chr1 2574516 rs61765812 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=416;Dels=0.00;HRun=0;HaplotypeScore=217.32;MQ=43.57;MQ0=35;OQ=129.59;QD=0.31;SB=68.68 GT:AD:DP:GL:GQ 0/1:278,133:243:-89.48,-73.24,-851.13:99
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chr1 2574566 rs28558799 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=282;Dels=0.00;HRun=0;HaplotypeScore=119.44;MQ=43.46;MQ0=13;OQ=5625.16;QD=19.95;SB=-2459.11 GT:AD:DP:GL:GQ 0/1:49,230:200:-561.52,-60.25,-174.15:99
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chr1 2574594 rs56062029 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=452;Dels=0.00;HRun=2;HaplotypeScore=294.75;MQ=33.13;MQ0=30;OQ=1117.30;QD=2.47;SB=-453.09 GT:AD:DP:GL:GQ 0/1:369,56:211:-181.97,-66.96,-565.43:99
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chr1 2574621 rs57267388 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=571;Dels=0.00;HRun=0;HaplotypeScore=771.91;MQ=31.23;MQ0=33;OQ=342.14;QD=0.60;SB=-185.77 GT:AD:DP:GL:GQ 0/1:283,102:222:-153.52,-116.02,-729.22:99
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chr1 2574649 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=993;Dels=0.00;HRun=0;HaplotypeScore=693.61;MQ=28.27;MQ0=75;OQ=1079.32;QD=1.09;SB=-556.01 GT:AD:DP:GL:GQ 0/1:844,137:401:-235.64,-124.42,-1471.20:99
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chr1 2574659 . A C 29.66 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=980;Dels=0.00;HRun=3;HaplotypeScore=948.25;MQ=27.73;MQ0=79;QD=0.03;SB=242.38 GT:AD:DP:GL:GQ 0/1:842,123:385:-128.64,-122.39,-1217.71:62.50
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chr1 2574737 rs61765814 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=400;Dels=0.00;HRun=0;HaplotypeScore=203.09;MQ=41.26;MQ0=24;OQ=736.68;QD=1.84;SB=-0.60 GT:AD:DP:GL:GQ 0/1:202,185:205:-145.42,-68.47,-717.91:99
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chr1 2574757 rs61765815 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=370;Dels=0.00;HRun=0;HaplotypeScore=249.27;MQ=42.55;MQ0=25;OQ=384.28;QD=1.04;SB=73.46 GT:AD:DP:GL:GQ 0/1:205,136:201:-108.67,-66.96,-637.57:99
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chr1 2574806 rs61765816 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=433;Dels=0.00;HRun=0;HaplotypeScore=271.20;MQ=41.78;MQ0=23;OQ=447.69;QD=1.03;SB=-108.45 GT:AD:DP:GL:GQ 0/1:271,156:236:-119.20,-71.14,-762.60:99
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chr1 2574851 rs6691639 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=333;Dels=0.00;HRun=0;HaplotypeScore=216.92;MQ=45.13;MQ0=5;OQ=7151.39;QD=21.48;SB=-2958.67 GT:AD:DP:GL:GQ 0/1:25,306:212:-714.14,-63.86,-81.27:99
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chr1 2574904 rs6604990 T C 6413.62 DPFilter;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=427;Dels=0.06;HRun=3;HaplotypeScore=563.84;MQ=34.54;MQ0=9;QD=15.02;SB=-2045.14 GT:AD:DP:GL:GQ 1/1:119,272:189:-640.36,-56.34,-15.02:99
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chr1 2574911 . A C 149.58 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=456;Dels=0.00;HRun=3;HaplotypeScore=557.08;MQ=32.46;MQ0=11;QD=0.33;SB=-79.57 GT:AD:DP:GL:GQ 0/1:298,141:171:-69.76,-51.52,-530.42:99
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chr1 2574914 . A G 786.99 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=464;Dels=0.02;HRun=1;HaplotypeScore=590.68;MQ=31.99;MQ0=11;QD=1.70;SB=-166.87 GT:AD:DP:GL:GQ 0/1:189,264:184:-140.25,-58.27,-581.91:99
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chr1 2574924 rs61765818 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=562;Dels=0.00;HRun=1;HaplotypeScore=584.85;MQ=29.44;MQ0=16;OQ=664.13;QD=1.18;SB=-72.04 GT:AD:DP:GL:GQ 0/1:412,132:178:-126.09,-56.39,-566.98:99
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chr1 2574942 rs60506177 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=681;Dels=0.00;HRun=2;HaplotypeScore=1240.22;MQ=29.22;MQ0=28;OQ=4364.77;QD=6.41;SB=-1487.53 GT:AD:DP:GL:GQ 0/1:160,495:256:-435.48,-89.03,-503.32:99
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chr1 2574956 rs59191334 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=906;Dels=0.00;HRun=0;HaplotypeScore=851.71;MQ=29.72;MQ0=44;OQ=1149.69;QD=1.27;SB=-284.23 GT:AD:DP:GL:GQ 0/1:632,252:274:-200.91,-82.66,-713.01:99
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chr1 2574986 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=944;Dels=0.00;HRun=1;HaplotypeScore=1818.61;MQ=31.01;MQ0=59;OQ=1122.41;QD=1.19;SB=-398.32 GT:AD:DP:GL:GQ 0/1:745,146:351:-246.18,-130.65,-980.48:99
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chr1 2575019 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=719;Dels=0.00;HRun=0;HaplotypeScore=472.84;MQ=36.86;MQ0=62;OQ=2013.75;QD=2.80;SB=-548.67 GT:AD:DP:GL:GQ 0/1:509,205:351:-310.40,-105.75,-919.85:99
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chr1 2575034 rs61763547 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=646;Dels=0.00;HRun=1;HaplotypeScore=246.19;MQ=38.01;MQ0=57;OQ=1218.08;QD=1.89;SB=297.56 GT:AD:DP:GL:GQ 0/1:304,285:351:-300.74,-175.64,-1150.43:99
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chr1 2575068 . C G 824.18 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=841;Dels=0.00;HRun=0;HaplotypeScore=834.43;MQ=32.24;MQ0=93;QD=0.98;SB=69.34 GT:AD:DP:GL:GQ 0/1:592,151:395:-352.89,-267.19,-1451.52:99
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chr1 2575069 rs11510858 C A 2054.73 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=851;Dels=0.00;HRun=0;HaplotypeScore=833.69;MQ=32.03;MQ0=94;QD=2.41;SB=-732.04 GT:AD:DP:GL:GQ 0/1:701,130:386:-337.44,-128.68,-1037.66:99
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chr1 2575076 . C G 56.74 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=869;Dels=0.00;HRun=2;HaplotypeScore=716.58;MQ=31.37;MQ0=95;QD=0.07;SB=276.82 GT:AD:DP:GL:GQ 0/1:773,41:392:-146.00,-137.04,-1458.73:89.57
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chr1 2575191 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=619;Dels=0.01;HRun=3;HaplotypeScore=666.18;MQ=32.68;MQ0=22;OQ=1037.47;QD=1.68;SB=-98.59 GT:AD:DP:GL:GQ 0/1:385,224:265:-186.87,-79.84,-734.84:99
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chr1 2575196 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=669;Dels=0.00;HRun=0;HaplotypeScore=585.81;MQ=31.95;MQ0=25;OQ=410.40;QD=0.61;SB=138.71 GT:AD:DP:GL:GQ 0/1:518,139:278:-128.14,-83.81,-902.17:99
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chr1 2575224 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=936;Dels=0.00;HRun=0;HaplotypeScore=711.05;MQ=30.70;MQ0=52;OQ=206.48;QD=0.22;SB=16.18 GT:AD:DP:GL:GQ 0/1:817,101:399:-165.30,-141.37,-1545.34:99
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chr1 2575246 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=981;Dels=0.00;HRun=1;HaplotypeScore=733.47;MQ=31.11;MQ0=67;OQ=1892.73;QD=1.93;SB=-760.65 GT:AD:DP:GL:GQ 0/1:771,204:430:-322.12,-129.56,-1274.76:99
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chr1 2575261 rs6692051 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=945;Dels=0.00;HRun=3;HaplotypeScore=358.84;MQ=32.03;MQ0=68;OQ=2338.43;QD=2.47;SB=-661.83 GT:AD:DP:GL:GQ 0/1:802,142:427:-365.78,-128.65,-1131.84:99
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chr1 2575299 . G T 161.49 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=614;Dels=0.00;HRun=1;HaplotypeScore=591.39;MQ=37.63;MQ0=50;QD=0.26;SB=20.79 GT:AD:DP:GL:GQ 0/1:494,69:362:-227.05,-207.62,-1136.93:99
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chr1 2575300 rs61765821 T C 1192.57 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=603;Dels=0.00;HRun=0;HaplotypeScore=567.88;MQ=38.04;MQ0=47;QD=1.98;SB=-535.85 GT:AD:DP:GL:GQ 0/1:348,222:348:-246.80,-124.26,-1045.28:99
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chr1 2575308 . C A 283.33 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=591;Dels=0.00;HRun=1;HaplotypeScore=502.16;MQ=39.21;MQ0=53;QD=0.48;SB=90.50 GT:AD:DP:GL:GQ 0/1:465,102:356:-142.06,-110.45,-1099.38:99
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chr1 2575350 rs28411086 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=541;Dels=0.00;HRun=2;HaplotypeScore=281.76;MQ=38.20;MQ0=48;OQ=2021.31;QD=3.74;SB=-545.18 GT:AD:DP:GL:GQ 0/1:247,291:277:-288.88,-83.46,-673.01:99
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chr1 2575391 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=992;Dels=0.00;HRun=2;HaplotypeScore=510.05;MQ=30.36;MQ0=68;OQ=227.39;QD=0.23;SB=145.08 GT:AD:DP:GL:GQ 0/1:854,132:434:-160.44,-134.42,-1359.22:99
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chr1 2575398 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1075;Dels=0.00;HRun=0;HaplotypeScore=310.34;MQ=30.19;MQ0=65;OQ=528.27;QD=0.49;SB=20.12 GT:AD:DP:GL:GQ 0/1:895,162:479:-203.83,-147.72,-1593.06:99
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chr1 2575422 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1315;Dels=0.00;HRun=1;HaplotypeScore=628.02;MQ=29.05;MQ0=70;OQ=417.47;QD=0.32;SB=307.23 GT:AD:DP:GL:GQ 0/1:1146,168:592:-223.40,-178.37,-1814.12:99
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chr1 2575443 rs6678990 C G 1968.81 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=1397;Dels=0.00;HRun=0;HaplotypeScore=834.10;MQ=29.41;MQ0=63;QD=1.41;SB=-880.90 GT:AD:DP:GL:GQ 0/1:1263,104:657:-428.32,-228.16,-2407.74:99
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chr1 2575448 . C T 306.07 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=1347;Dels=0.00;HRun=0;HaplotypeScore=969.72;MQ=29.55;MQ0=58;QD=0.23;SB=98.85 GT:AD:DP:GL:GQ 0/1:1166,127:596:-237.42,-203.53,-1765.67:99
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chr1 2575453 . G A 633.22 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=1324;Dels=0.01;HRun=0;HaplotypeScore=1094.28;MQ=29.55;MQ0=52;QD=0.48;SB=22.83 GT:AD:DP:GL:GQ 0/1:1098,210:631:-255.45,-188.85,-1774.06:99
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chr1 2575459 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1275;Dels=0.00;HRun=1;HaplotypeScore=976.35;MQ=29.72;MQ0=48;OQ=260.30;QD=0.20;SB=456.22 GT:AD:DP:GL:GQ 0/1:1186,88:626:-217.90,-188.59,-2068.65:99
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chr1 2575467 . A T 1827.05 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=1257;Dels=0.00;HRun=0;HaplotypeScore=1002.71;MQ=30.06;MQ0=39;QD=1.45;SB=-471.84 GT:AD:DP:GL:GQ 0/1:1025,208:608:-372.29,-186.30,-1881.69:99
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chr1 2575472 . C A 9687.38 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=1255;Dels=0.00;HRun=1;HaplotypeScore=858.65;MQ=30.07;MQ0=41;QD=7.72;SB=-1503.87 GT:AD:DP:GL:GQ 0/1:729,316:639:-967.74,-542.07,-1662.70:99
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chr1 2575476 rs28479903 C T 328.26 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=1232;Dels=0.00;HRun=0;HaplotypeScore=989.29;MQ=30.12;MQ0=43;QD=0.27;SB=122.56 GT:AD:DP:GL:GQ 0/1:1040,174:572:-219.19,-183.08,-1716.97:99
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chr1 2575484 rs61765822 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=1214;Dels=0.00;HRun=0;HaplotypeScore=468.08;MQ=30.51;MQ0=43;OQ=1888.53;QD=1.56;SB=-874.96 GT:AD:DP:GL:GQ 0/1:984,212:602:-396.91,-204.77,-1679.64:99
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chr1 2575509 rs7367485 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=1003;Dels=0.00;HRun=3;HaplotypeScore=708.39;MQ=31.59;MQ0=44;OQ=1317.31;QD=1.31;SB=-683.17 GT:AD:DP:GL:GQ 0/1:599,311:447:-397.20,-262.18,-1298.11:99
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chr1 2575527 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=899;Dels=0.00;HRun=1;HaplotypeScore=616.46;MQ=32.40;MQ0=36;OQ=2129.63;QD=2.37;SB=-658.87 GT:AD:DP:GL:GQ 0/1:666,188:432:-362.76,-146.52,-1154.94:99
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chr1 2575536 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=816;Dels=0.00;HRun=1;HaplotypeScore=629.02;MQ=33.06;MQ0=36;OQ=245.82;QD=0.30;SB=187.48 GT:AD:DP:GL:GQ 0/1:660,150:389:-147.61,-119.74,-1232.57:99
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chr1 2575553 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=672;Dels=0.00;HRun=0;HaplotypeScore=869.01;MQ=35.62;MQ0=23;OQ=1048.35;QD=1.56;SB=44.73 GT:AD:DP:GL:GQ 0/1:542,123:340:-220.20,-112.08,-1057.17:99
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chr1 2575577 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=529;Dels=0.00;HRun=0;HaplotypeScore=616.14;MQ=41.10;MQ0=11;OQ=295.55;QD=0.56;SB=93.12 GT:AD:DP:GL:GQ 0/1:363,155:340:-135.27,-102.43,-1079.29:99
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chr1 2575583 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=497;Dels=0.00;HRun=0;HaplotypeScore=739.15;MQ=41.67;MQ0=9;OQ=177.97;QD=0.36;SB=340.79 GT:AD:DP:GL:GQ 0/1:426,63:314:-122.58,-101.50,-1218.09:99
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chr1 2575632 rs6686754 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=363;Dels=0.00;HRun=1;HaplotypeScore=439.13;MQ=46.08;MQ0=4;OQ=7215.73;QD=19.88;SB=-2967.87 GT:AD:DP:GL:GQ 0/1:59,294:248:-720.57,-74.71,-189.55:99
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chr1 2575661 rs28498367 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=482;Dels=0.00;HRun=0;HaplotypeScore=598.03;MQ=41.57;MQ0=4;OQ=4453.10;QD=9.24;SB=-977.05 GT:AD:DP:GL:GQ 0/1:194,269:275:-444.31,-82.91,-730.02:99
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chr1 2575692 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=647;Dels=0.00;HRun=1;HaplotypeScore=594.08;MQ=36.97;MQ0=17;OQ=2155.18;QD=3.33;SB=272.10 GT:AD:DP:GL:GQ 0/1:259,365:295:-329.81,-111.01,-802.38:99
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chr1 2575711 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=667;Dels=0.00;HRun=3;HaplotypeScore=1191.59;MQ=36.49;MQ0=18;OQ=1467.43;QD=2.20;SB=-170.23 GT:AD:DP:GL:GQ 0/1:245,407:245:-231.00,-80.98,-619.30:99
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chr1 2575718 . C T 91.63 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=668;Dels=0.07;HRun=0;HaplotypeScore=726.36;MQ=36.74;MQ0=18;QD=0.14;SB=390.06 GT:AD:DP:GL:GQ 0/1:453,157:278:-93.88,-81.43,-798.07:99
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chr1 2575725 . C T 321.62 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=662;Dels=0.00;HRun=1;HaplotypeScore=724.85;MQ=36.17;MQ0=17;QD=0.49;SB=411.17 GT:AD:DP:GL:GQ 0/1:600,56:323:-132.74,-97.29,-1057.81:99
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chr1 2575728 . A T 148.72 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=660;Dels=0.00;HRun=0;HaplotypeScore=737.53;MQ=36.50;MQ0=17;QD=0.23;SB=417.37 GT:AD:DP:GL:GQ 0/1:600,48:321:-114.85,-96.69,-1096.48:99
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chr1 2575731 . G A 128.25 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=638;Dels=0.00;HRun=1;HaplotypeScore=523.34;MQ=37.45;MQ0=16;QD=0.20;SB=259.66 GT:AD:DP:GL:GQ 0/1:525,83:335:-143.82,-127.71,-1107.68:99
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chr1 2575750 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=473;Dels=0.00;HRun=1;HaplotypeScore=339.24;MQ=40.86;MQ0=6;OQ=314.90;QD=0.67;SB=-156.95 GT:AD:DP:GL:GQ 0/1:417,42:281:-123.25,-88.47,-781.88:99
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chr1 2575766 rs6694964 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=418;Dels=0.00;HRun=0;HaplotypeScore=190.54;MQ=43.00;MQ0=6;OQ=9217.59;QD=22.05;SB=-3555.11 GT:AD:DP:GL:GQ 0/1:33,383:267:-920.76,-80.43,-83.85:34.20
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chr1 2575784 rs28583924 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=426;Dels=0.00;HRun=0;HaplotypeScore=272.61;MQ=42.95;MQ0=8;OQ=181.28;QD=0.43;SB=6.29 GT:AD:DP:GL:GQ 0/1:359,64:257:-98.92,-77.51,-960.45:99
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chr1 2575825 rs6689281 T C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=557;Dels=0.01;HRun=2;HaplotypeScore=469.61;MQ=35.81;MQ0=25;OQ=9475.08;QD=17.01;SB=-3650.18 GT:AD:DP:GL:GQ 1/1:3,541:282:-946.51,-86.27,-2.51:99
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chr1 2575851 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=634;Dels=0.00;HRun=0;HaplotypeScore=686.59;MQ=33.18;MQ0=30;OQ=77.00;QD=0.12;SB=-18.66 GT:AD:DP:GL:GQ 0/1:437,151:251:-86.73,-75.75,-723.32:99
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chr1 2575861 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=670;Dels=0.00;HRun=0;HaplotypeScore=1084.95;MQ=32.16;MQ0=34;OQ=174.30;QD=0.26;SB=144.01 GT:AD:DP:GL:GQ 0/1:448,201:255:-97.68,-76.97,-707.97:99
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chr1 2575918 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=659;Dels=0.00;HRun=0;HaplotypeScore=602.10;MQ=33.55;MQ0=33;OQ=1205.47;QD=1.83;SB=-331.68 GT:AD:DP:GL:GQ 0/1:520,139:294:-212.43,-88.60,-836.61:99
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chr1 2575963 rs61765824 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=414;Dels=0.00;HRun=0;HaplotypeScore=225.65;MQ=45.71;MQ0=16;OQ=175.37;QD=0.42;SB=-3.54 GT:AD:DP:GL:GQ 0/1:256,154:262:-99.81,-78.99,-882.64:99
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chr1 2576027 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=375;Dels=0.00;HRun=0;HaplotypeScore=441.20;MQ=41.08;MQ0=22;OQ=359.44;QD=0.96;SB=-25.38 GT:AD:DP:GL:GQ 0/1:347,27:212:-103.15,-63.92,-790.76:99
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chr1 2576035 rs55917765 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=384;Dels=0.02;HRun=4;HaplotypeScore=406.51;MQ=41.42;MQ0=19;OQ=289.17;QD=0.75;SB=-132.89 GT:AD:DP:GL:GQ 0/1:212,141:214:-106.50,-74.30,-717.21:99
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chr1 2576075 rs57994724 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=300;Dels=0.03;HRun=4;HaplotypeScore=363.80;MQ=42.84;MQ0=2;OQ=76.42;QD=0.25;SB=-28.60 GT:AD:DP:GL:GQ 0/1:192,90:162:-61.96,-51.03,-580.93:99
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chr1 2576111 rs58221160 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=281;Dels=0.00;HRun=1;HaplotypeScore=182.21;MQ=43.93;MQ0=7;OQ=597.72;QD=2.13;SB=-221.46 GT:AD:DP:GL:GQ 0/1:232,45:207:-125.42,-62.37,-596.71:99
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chr1 2576240 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1159;Dels=0.00;HRun=0;HaplotypeScore=623.69;MQ=25.02;MQ0=69;OQ=409.78;QD=0.35;SB=-223.95 GT:AD:DP:GL:GQ 0/1:968,178:369:-162.51,-118.25,-1426.92:99
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chr1 2576263 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1066;Dels=0.00;HRun=1;HaplotypeScore=622.37;MQ=26.52;MQ0=59;OQ=159.54;QD=0.15;SB=19.45 GT:AD:DP:GL:GQ 0/1:984,81:387:-135.82,-116.58,-1209.01:99
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chr1 2576333 . C G 40.07 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=224;Dels=0.00;HRun=1;HaplotypeScore=154.83;MQ=40.65;MQ0=29;QD=0.18;SB=-8.93 GT:AD:DP:GL:GQ 0/1:181,32:158:-64.21,-56.92,-644.64:72.91
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chr1 2576335 . C T 1221.15 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=216;Dels=0.00;HRun=0;HaplotypeScore=167.65;MQ=40.55;MQ0=30;QD=5.65;SB=-581.17 GT:AD:DP:GL:GQ 0/1:122,94:144:-168.83,-43.43,-331.79:99
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chr1 2576336 rs28676518 G A 1105.16 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=214;Dels=0.00;HRun=0;HaplotypeScore=205.71;MQ=40.45;MQ0=30;QD=5.16;SB=-168.80 GT:AD:DP:GL:GQ 0/1:170,44:143:-156.87,-43.08,-364.02:99
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chr1 2576346 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=74.98;MQ=40.01;MQ0=31;OQ=210.24;QD=1.17;SB=-126.34 GT:AD:DP:GL:GQ 0/1:138,41:111:-57.78,-33.47,-394.51:99
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chr1 2576366 rs61765835 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=158;Dels=0.00;HRun=0;HaplotypeScore=35.61;MQ=33.02;MQ0=57;OQ=96.35;QD=0.61;SB=-36.52 GT:AD:DP:GL:GQ 0/1:92,66:79:-36.73,-23.81,-255.03:99
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chr1 2576428 rs61765837 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=303;Dels=0.00;HRun=2;HaplotypeScore=260.74;MQ=16.89;MQ0=145;OQ=101.18;QD=0.33;SB=-66.11 GT:AD:DP:GL:GQ 0/1:155,144:52:-29.09,-15.69,-174.52:99
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chr1 2576448 rs61765838 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=595;Dels=0.00;HRun=0;HaplotypeScore=426.54;MQ=17.45;MQ0=199;OQ=372.66;QD=0.63;SB=-42.53 GT:AD:DP:GL:GQ 0/1:377,206:114:-74.98,-34.43,-280.80:99
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chr1 2576460 rs61765839 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=687;Dels=0.00;HRun=1;HaplotypeScore=471.75;MQ=17.40;MQ0=212;OQ=453.85;QD=0.66;SB=-3.98 GT:AD:DP:GL:GQ 0/1:511,164:138:-90.25,-41.59,-375.50:99
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chr1 2576472 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=774;Dels=0.03;HRun=1;HaplotypeScore=800.59;MQ=17.54;MQ0=228;OQ=234.98;QD=0.30;SB=-38.37 GT:AD:DP:GL:GQ 0/1:618,98:166:-76.78,-50.00,-493.07:99
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chr1 2576534 rs57105227 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=374;Dels=0.00;HRun=1;HaplotypeScore=347.91;MQ=18.87;MQ0=112;OQ=329.07;QD=0.88;SB=-154.80 GT:AD:DP:GL:GQ 0/1:156,198:111:-73.27,-37.08,-391.39:99
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chr1 2576577 rs4648668 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=122;Dels=0.00;HRun=1;HaplotypeScore=59.62;MQ=22.81;MQ0=26;OQ=851.22;QD=6.98;SB=10.08 GT:AD:DP:GL:GQ 0/1:55,66:69:-109.20,-20.79,-201.97:99
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chr1 2576600 rs4648566 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=135;Dels=0.00;HRun=1;HaplotypeScore=109.15;MQ=20.95;MQ0=39;OQ=455.68;QD=3.38;SB=83.24 GT:AD:DP:GL:GQ 0/1:105,30:52:-64.51,-15.66,-117.10:99
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chr1 2576616 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=0;HaplotypeScore=178.18;MQ=20.10;MQ0=38;OQ=374.43;QD=2.62;SB=-39.54 GT:AD:DP:GL:GQ 0/1:116,27:44:-54.00,-13.27,-93.80:99
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chr1 2576848 rs61765840 G T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=141;Dels=0.00;HRun=1;HaplotypeScore=22.44;MQ=39.05;MQ0=35;OQ=52.46;QD=0.37;SB=-15.32 GT:AD:DP:GL:GQ 0/1:129,12:77:-31.72,-23.19,-231.93:85.30
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chr1 2577010 rs4648671 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=239;Dels=0.00;HRun=0;HaplotypeScore=65.16;MQ=37.14;MQ0=12;OQ=5199.52;QD=21.76;SB=-2266.90 GT:AD:DP:GL:GQ 1/1:7,232:163:-518.95,-49.17,-3.73:99
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chr1 2577062 rs28507281 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=295;Dels=0.00;HRun=0;HaplotypeScore=78.67;MQ=40.58;MQ0=11;OQ=1143.65;QD=3.88;SB=-492.64 GT:AD:DP:GL:GQ 0/1:238,57:237:-189.11,-71.46,-605.04:99
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chr1 2577084 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=307;Dels=0.00;HRun=0;HaplotypeScore=72.39;MQ=39.59;MQ0=17;OQ=519.07;QD=1.69;SB=-15.56 GT:AD:DP:GL:GQ 0/1:259,48:248:-129.89,-74.70,-751.71:99
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chr1 2577123 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=291;Dels=0.00;HRun=1;HaplotypeScore=84.53;MQ=39.37;MQ0=26;OQ=265.40;QD=0.91;SB=-39.23 GT:AD:DP:GL:GQ 0/1:250,41:219:-95.80,-65.98,-773.71:99
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chr1 2577397 rs58719822 G C 0.55 PASS AC=2;AF=1.00;AN=2;DB;DP=190;Dels=0.00;HRun=0;HaplotypeScore=14.16;MQ=39.42;MQ0=19;OQ=6097.98;QD=32.09;SB=-764.81 GT:AD:DP:GL:GQ 1/1:1,189:137:-608.80,-41.28,-0.05:99
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chr1 2577433 rs60264562 G C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=207;Dels=0.05;HRun=4;HaplotypeScore=105.46;MQ=35.87;MQ0=25;OQ=5113.11;QD=24.70;SB=-614.98 GT:AD:DP:GL:GQ 1/1:9,184:123:-510.31,-38.53,-16.18:99
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chr1 2577515 . A C 17.95 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=331;Dels=0.00;HRun=3;HaplotypeScore=311.11;MQ=35.94;MQ0=23;QD=0.05;SB=173.50 GT:AD:DP:GL:GQ 0/1:258,71:167:-55.40,-50.33,-521.31:50.72
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chr1 2577549 rs4648567 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=289;Dels=0.00;HRun=0;HaplotypeScore=107.18;MQ=38.40;MQ0=7;OQ=5448.91;QD=18.85;SB=-2125.98 GT:AD:DP:GL:GQ 1/1:24,231:174:-543.89,-82.79,-51.97:99
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chr1 2577655 . G C 44.44 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=135;Dels=0.00;HRun=2;HaplotypeScore=58.73;MQ=26.75;MQ0=23;QD=0.33;SB=26.12 GT:AD:DP:GL:GQ 0/1:116,10:43:-24.31,-16.59,-159.35:77.27
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chr1 2577671 rs58842912 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=0;HaplotypeScore=128.81;MQ=16.71;MQ0=28;OQ=137.08;QD=1.46;SB=-35.94 GT:AD:DP:GL:GQ 0/1:63,25:12:-20.61,-3.62,-16.30:99
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chr1 2577677 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=3;HaplotypeScore=117.98;MQ=17.54;MQ0=28;OQ=281.66;QD=3.03;SB=-45.56 GT:AD:DP:GL:GQ 0/1:33,58:12:-35.06,-3.61,-7.69:40.79
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chr1 2577682 . T C 14.20 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=57.79;MQ=17.58;MQ0=34;QD=0.14;SB=-10.00 GT:AD:DP:GL:GQ 0/1:68,26:4:-5.89,-1.21,-7.84:46.86
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chr1 2577700 . T C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=113;Dels=0.00;HRun=0;HaplotypeScore=167.08;MQ=18.58;MQ0=41;OQ=266.89;QD=2.36;SB=-10.00 GT:AD:DP:GL:GQ 1/1:35,36:10:-34.52,-6.65,-4.25:23.97
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chr1 2577709 . C T 15.40 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=131;Dels=0.00;HRun=0;HaplotypeScore=233.03;MQ=18.07;MQ0=48;QD=0.12;SB=-10.00 GT:AD:DP:GL:GQ 0/1:96,13:7:-9.83,-5.02,-17.83:48.10
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chr1 2577721 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=182;Dels=0.00;HRun=0;HaplotypeScore=74.87;MQ=18.10;MQ0=63;OQ=399.60;QD=2.20;SB=-10.00 GT:AD:DP:GL:GQ 0/1:147,35:41:-55.60,-12.35,-87.25:99
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chr1 2577722 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=0;HaplotypeScore=54.78;MQ=18.15;MQ0=62;OQ=179.28;QD=0.99;SB=-10.00 GT:AD:DP:GL:GQ 0/1:160,20:38:-32.69,-11.48,-98.33:99
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chr1 2577735 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=191;Dels=0.00;HRun=1;HaplotypeScore=37.61;MQ=17.86;MQ0=65;OQ=262.32;QD=1.37;SB=-10.00 GT:AD:DP:GL:GQ 0/1:173,18:55:-46.08,-16.57,-148.55:99
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chr1 2577740 rs61763463 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=186;Dels=0.00;HRun=1;HaplotypeScore=34.83;MQ=17.84;MQ0=63;OQ=1671.60;QD=8.99;SB=-10.00 GT:AD:DP:GL:GQ 0/1:52,133:54:-186.71,-16.27,-40.75:99
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chr1 2577765 . C A 125.78 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=144;Dels=0.00;HRun=0;HaplotypeScore=41.35;MQ=16.77;MQ0=52;QD=0.87;SB=-10.00 GT:AD:DP:GL:GQ 0/1:91,53:26:-23.70,-7.84,-54.51:99
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chr1 2577769 . C T 71.72 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=0;HaplotypeScore=43.82;MQ=16.10;MQ0=52;QD=0.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:87,47:21:-16.80,-6.34,-49.74:99
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chr1 2577770 . G C 89.65 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=133;Dels=0.00;HRun=1;HaplotypeScore=42.82;MQ=16.09;MQ0=52;QD=0.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:85,48:21:-18.58,-6.33,-66.40:99
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chr1 2577784 rs61761450 G C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=108;Dels=0.00;HRun=0;HaplotypeScore=93.26;MQ=15.12;MQ0=44;OQ=499.20;QD=4.62;SB=-10.00 GT:AD:DP:GL:GQ 1/1:36,72:12:-53.51,-3.62,-0.00:36.12
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chr1 2577796 rs28368363 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=154.23;MQ=14.20;MQ0=39;OQ=53.95;QD=0.56;SB=-10.00 GT:AD:DP:GL:GQ 0/1:68,23:5:-10.19,-1.51,-6.10:45.96
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chr1 2577799 rs61765844 A C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=4;HaplotypeScore=106.56;MQ=13.50;MQ0=38;OQ=136.44;QD=1.53;SB=-10.00 GT:AD:DP:GL:GQ 1/1:37,52:5:-17.20,-1.51,-0.00:15.04
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chr1 2577815 rs61761446 G A 0.11 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=16.91;MQ=12.99;MQ0=33;OQ=113.87;QD=2.19;SB=-10.00 GT:AD:DP:GL:GQ 1/1:30,21:4:-14.92,-1.21,-0.00:12.04
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chr1 2577825 . G A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=32.84;MQ=14.16;MQ0=28;OQ=149.17;QD=3.17;SB=-10.00 GT:AD:DP:GL:GQ 1/1:28,19:5:-18.48,-1.51,-0.00:15.04
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chr1 2577833 . C T 42.25 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=22.86;MQ=13.04;MQ0=28;QD=0.98;SB=-10.00 GT:AD:DP:GL:GQ 1/1:33,10:2:-7.63,-0.60,-0.00:6.02
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chr1 2577851 . G T 0.04 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=11.27;MQ=14.57;MQ0=20;OQ=148.54;QD=4.24;SB=-10.00 GT:AD:DP:GL:GQ 1/1:17,14:6:-18.43,-1.81,-0.01:18.02
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chr1 2577883 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=114.78;MQ=19.71;MQ0=31;OQ=87.78;QD=0.84;SB=-10.00 GT:AD:DP:GL:GQ 0/1:82,22:16:-16.89,-4.83,-35.06:99
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chr1 2577892 rs61761448 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=118;Dels=0.00;HRun=0;HaplotypeScore=139.63;MQ=19.08;MQ0=41;OQ=358.39;QD=3.04;SB=-10.00 GT:AD:DP:GL:GQ 0/1:46,69:13:-43.04,-3.92,-5.80:18.77
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chr1 2577904 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=1;HaplotypeScore=169.18;MQ=18.99;MQ0=45;OQ=432.72;QD=3.38;SB=-10.00 GT:AD:DP:GL:GQ 0/1:56,72:16:-51.38,-4.83,-6.85:20.23
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chr1 2577913 . A G 43.14 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=228.63;MQ=18.89;MQ0=43;QD=0.37;SB=-10.00 GT:AD:DP:GL:GQ 0/1:102,14:7:-9.71,-2.11,-14.52:75.98
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chr1 2577923 . G A 12.44 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=122;Dels=0.00;HRun=0;HaplotypeScore=139.34;MQ=19.75;MQ0=38;QD=0.10;SB=-10.00 GT:AD:DP:GL:GQ 0/1:84,37:10:-7.51,-3.01,-26.55:45.02
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chr1 2577924 . T C 61.88 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=137.09;MQ=19.68;MQ0=38;QD=0.52;SB=-10.00 GT:AD:DP:GL:GQ 0/1:94,23:11:-12.79,-3.32,-26.27:94.71
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chr1 2577931 rs61763465 G C 371.46 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=106.32;MQ=19.54;MQ0=35;QD=3.50;SB=-10.00 GT:AD:DP:GL:GQ 1/1:30,75:9:-40.73,-2.71,-0.00:27.09
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chr1 2577945 rs61765845 G C 1059.87 HARD_TO_VALIDATE;Indel AC=2;AF=1.00;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=141.04;MQ=19.73;MQ0=38;QD=10.00;SB=-10.00 GT:AD:DP:GL:GQ 1/1:31,70:26:-113.65,-11.26,-4.08:71.85
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chr1 2577953 . A G 356.53 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=136.50;MQ=18.50;MQ0=43;QD=3.64;SB=-10.00 GT:AD:DP:GL:GQ 0/1:78,20:16:-43.76,-4.82,-8.02:32
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chr1 2577977 . G A 20.69 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=1;HaplotypeScore=16.21;MQ=15.79;MQ0=48;QD=0.27;SB=-10.00 GT:AD:DP:GL:GQ 0/1:72,5:20:-11.37,-6.02,-58.36:53.49
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chr1 2579397 rs61761374 C G 193.05 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=3.77;MQ=22.35;MQ0=6;OQ=1341.59;QD=14.91;SB=-551.47 GT:AD:DP:GL:GQ 0/1:44,46:77:-160.66,-23.22,-161.20:99
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chr1 2580726 . T G 35.92 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=5.11;MQ=5.25;MQ0=59;QD=0.59;SB=-10.00 GT:AD:DP:GL:GQ 1/1:58,2:2:-7.00,-0.60,-0.00:6.02
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chr1 2580768 . T C 36.28 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.48;MQ=5.74;MQ0=49;QD=0.71;SB=-10.00 GT:AD:DP:GL:GQ 1/1:46,5:2:-7.04,-0.60,-0.00:6.02
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chr1 2580784 rs11488598 T A 45.88 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=6.33;MQ0=40;QD=1.09;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,41:2:-8.00,-0.60,-0.00:6.02
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chr1 2581065 rs61761440 A C 33.92 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=9.03;MQ=10.33;MQ0=29;QD=0.71;SB=-10.00 GT:AD:DP:GL:GQ 1/1:28,20:2:-6.80,-0.60,-0.00:6.02
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chr1 2581076 . T A 42.69 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=2.33;MQ=11.35;MQ0=18;QD=1.33;SB=-10.00 GT:AD:DP:GL:GQ 1/1:16,15:2:-7.68,-0.60,-0.00:6.02
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chr1 2581088 . A C 35.92 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=11;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=15.32;MQ0=5;QD=3.27;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,8:2:-7.00,-0.60,-0.00:6.02
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chr1 2581203 . C G 46.77 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=12.99;MQ=10.81;MQ0=53;QD=0.69;SB=5.05 GT:AD:DP:GL:GQ 0/1:57,11:14:-12.18,-4.22,-47.55:79.61
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chr1 2581221 rs4648702 C A 0.09 PASS AC=1;AF=0.50;AN=2;DB;DP=98;Dels=0.00;HRun=1;HaplotypeScore=12.38;MQ=17.15;MQ0=42;OQ=109.22;QD=1.11;SB=-5.56 GT:AD:DP:GL:GQ 0/1:80,16:46:-28.07,-13.86,-128.22:99
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chr1 2581257 rs4648701 T A 0.08 PASS AC=2;AF=1.00;AN=2;DB;DP=134;Dels=0.00;HRun=0;HaplotypeScore=5.16;MQ=20.38;MQ0=25;OQ=3859.45;QD=28.80;SB=-1801.06 GT:AD:DP:GL:GQ 1/1:0,134:101:-384.94,-30.42,-0.03:99
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chr1 2587428 . A C 37.49 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=14.36;MQ0=8;QD=1.10;SB=-45.01 GT:AD:DP:GL:GQ 1/1:0,34:2:-7.16,-0.60,-0.00:6.02
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chr1 2593169 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=425;Dels=0.00;HRun=1;HaplotypeScore=105.62;MQ=17.46;MQ0=82;OQ=848.96;QD=2.00;SB=-332.82 GT:AD:DP:GL:GQ 0/1:365,60:163:-137.29,-49.11,-428.79:99
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chr1 2596443 . C T 41.24 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=11;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=12.40;MQ0=7;QD=3.75;SB=-10.00 GT:AD:DP:GL:GQ 1/1:7,4:2:-7.53,-0.60,-0.00:6.02
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chr1 2596445 . T G 36.05 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=12;Dels=0.00;HRun=1;HaplotypeScore=2.31;MQ=11.87;MQ0=8;QD=3.00;SB=-10.00 GT:AD:DP:GL:GQ 1/1:5,7:2:-7.01,-0.60,-0.00:6.02
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chr1 2596476 . G A 46.02 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=60;Dels=0.00;HRun=1;HaplotypeScore=26.89;MQ=5.53;MQ0=56;QD=0.77;SB=-10.00 GT:AD:DP:GL:GQ 1/1:58,2:2:-8.01,-0.60,-0.00:6.02
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chr1 2596850 . G C 35.05 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=11.43;MQ0=28;QD=0.82;SB=-10.00 GT:AD:DP:GL:GQ 0/1:29,14:5:-8.30,-1.51,-13.08:67.88
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chr1 2596943 . C A 49.59 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=50.99;MQ=11.35;MQ0=54;QD=0.70;SB=-6.99 GT:AD:DP:GL:GQ 0/1:65,5:13:-12.16,-3.92,-30.66:82.43
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chr1 2597318 . T C 31.81 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=14.62;MQ=5.54;MQ0=70;QD=0.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:73,2:2:-6.59,-0.60,-0.00:6.01
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chr1 2598250 . T A 27.90 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=1;HaplotypeScore=2.24;MQ=16.56;MQ0=5;QD=1.27;SB=-0.98 GT:AD:DP:GL:GQ 0/1:19,3:5:-7.58,-1.51,-10.62:60.73
|
|
chr1 2598257 . G T 12.16 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=10.71;MQ=15.61;MQ0=8;QD=0.55;SB=-0.98 GT:AD:DP:GL:GQ 0/1:19,3:5:-5.98,-1.51,-10.70:44.72
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chr1 2598656 . G A 10.26 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=1;HaplotypeScore=114.17;MQ=5.78;MQ0=152;QD=0.06;SB=-10.00 GT:AD:DP:GL:GQ 0/1:161,14:1:-4.27,-0.30,-0.00:1.76
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chr1 2598795 . G A 10.26 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=47.85;MQ=7.17;MQ0=69;QD=0.12;SB=-10.00 GT:AD:DP:GL:GQ 0/1:84,2:1:-4.27,-0.30,-0.00:1.76
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chr1 2598944 . A C 17.83 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=1;HaplotypeScore=67.67;MQ=10.48;MQ0=39;QD=0.27;SB=-25.99 GT:AD:DP:GL:GQ 0/1:48,17:3:-5.96,-0.91,-2.50:15.92
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chr1 2598946 . A G 34.06 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=82.40;MQ=11.36;MQ0=42;QD=0.46;SB=-10.00 GT:AD:DP:GL:GQ 0/1:70,4:3:-7.59,-0.90,-4.17:32.64
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chr1 2598950 . C A 54.26 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=105.52;MQ=12.29;MQ0=47;QD=0.53;SB=-3.99 GT:AD:DP:GL:GQ 0/1:94,7:7:-10.82,-2.11,-14.32:87.10
|
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chr1 2599001 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=133;Dels=0.00;HRun=0;HaplotypeScore=31.75;MQ=12.68;MQ0=54;OQ=83.85;QD=0.63;SB=-3.99 GT:AD:DP:GL:GQ 0/1:91,33:10:-18.26,-6.59,-21.60:99
|
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chr1 2599015 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=2;HaplotypeScore=24.68;MQ=11.50;MQ0=72;OQ=64.97;QD=0.46;SB=-43.54 GT:AD:DP:GL:GQ 0/1:128,12:9:-12.49,-2.71,-23.15:97.80
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chr1 2599040 rs61761456 A T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=133;Dels=0.00;HRun=0;HaplotypeScore=87.15;MQ=9.23;MQ0=88;OQ=72.77;QD=0.55;SB=-10.00 GT:AD:DP:GL:GQ 1/1:81,14:5:-17.43,-7.71,-6.64:10.71
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chr1 2599044 rs61761457 T A 33.25 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=131;Dels=0.00;HRun=1;HaplotypeScore=64.29;MQ=9.30;MQ0=86;QD=0.25;SB=-10.00 GT:AD:DP:GL:GQ 0/1:104,11:6:-11.67,-5.06,-13.57:66.08
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chr1 2599198 . C T 23.45 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=16.24;MQ=14.99;MQ0=19;QD=0.50;SB=-3.99 GT:AD:DP:GL:GQ 0/1:29,18:5:-7.14,-1.51,-10.24:56.27
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chr1 2599218 . G A 105.55 HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=106.10;MQ=16.73;MQ0=11;QD=2.29;SB=-69.07 GT:AD:DP:GL:GQ 0/1:28,17:6:-15.65,-1.81,-6.14:43.30
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chr1 2599225 . C G 35.32 HARD_TO_VALIDATE;Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=82.64;MQ=16.87;MQ0=11;QD=0.78;SB=-10.88 GT:AD:DP:GL:GQ 0/1:36,6:7:-14.02,-7.20,-19.31:68.16
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chr1 2599228 . G A 323.86 HARD_TO_VALIDATE;Indel;SnpCluster AC=2;AF=1.00;AN=2;DP=46;Dels=0.04;HRun=0;HaplotypeScore=68.32;MQ=16.68;MQ0=12;QD=7.04;SB=-89.34 GT:AD:DP:GL:GQ 1/1:16,28:10:-35.98,-3.02,-0.01:30.08
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chr1 2599239 . T A 19.57 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=43.45;MQ=14.62;MQ0=19;QD=0.36;SB=-4.42 GT:AD:DP:GL:GQ 0/1:49,2:7:-12.49,-7.25,-17.00:52.36
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chr1 2599247 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=40.77;MQ=14.18;MQ0=20;OQ=70.13;QD=1.35;SB=-7.01 GT:AD:DP:GL:GQ 0/1:29,21:6:-12.11,-1.81,-8.56:67.52
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chr1 2599654 . G C 12.35 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=1;HaplotypeScore=26.39;MQ=2.65;MQ0=119;QD=0.10;SB=-10.00 GT:AD:DP:GL:GQ 0/1:119,1:1:-4.49,-0.30,-0.00:1.76
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chr1 2601422 . A G 25.82 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=114;Dels=0.00;HRun=0;HaplotypeScore=10.71;MQ=4.09;MQ0=110;QD=0.23;SB=-10.00 GT:AD:DP:GL:GQ 1/1:99,14:2:-5.99,-0.60,-0.00:6.01
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chr1 2601437 . T C 35.28 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=133;Dels=0.00;HRun=0;HaplotypeScore=12.99;MQ=3.79;MQ0=129;QD=0.27;SB=-10.00 GT:AD:DP:GL:GQ 1/1:103,30:2:-6.94,-0.60,-0.00:6.02
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chr1 2601504 . G A 41.24 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=168;Dels=0.00;HRun=0;HaplotypeScore=19.74;MQ=3.30;MQ0=165;QD=0.25;SB=-10.00 GT:AD:DP:GL:GQ 1/1:158,9:2:-7.53,-0.60,-0.00:6.02
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chr1 2601515 . A C 43.05 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=155;Dels=0.00;HRun=2;HaplotypeScore=7.29;MQ=3.29;MQ0=153;QD=0.28;SB=-10.00 GT:AD:DP:GL:GQ 1/1:91,64:2:-7.71,-0.60,-0.00:6.02
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chr1 2601516 . G A 0.02 FDRtranche1.00to2.00 AC=2;AF=1.00;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=6.38;MQ=3.29;MQ0=153;OQ=51.25;QD=0.33;SB=-10.00 GT:AD:DP:GL:GQ 1/1:89,66:2:-8.53,-0.60,-0.00:6.02
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chr1 2601859 . G A 39.02 DPFilter;HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=164;Dels=0.00;HRun=0;HaplotypeScore=20.82;MQ=4.64;MQ0=146;QD=0.24;SB=-10.00 GT:AD:DP:GL:GQ 1/1:150,13:2:-7.31,-0.60,-0.00:6.02
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chr1 2603248 rs11486046 A C 0.95 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=4;HaplotypeScore=1.14;MQ=19.37;MQ0=3;OQ=283.27;QD=11.33;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,23:9:-31.91,-2.71,-0.00:27.08
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chr1 2603587 . A G 31.28 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=93;Dels=0.00;HRun=1;HaplotypeScore=24.46;MQ=5.10;MQ0=81;QD=0.34;SB=-10.00 GT:AD:DP:GL:GQ 1/1:74,19:2:-6.54,-0.60,-0.00:6.01
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chr1 2603630 . C T 0.04 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=4.88;MQ=7.26;MQ0=55;OQ=82.12;QD=1.35;SB=-10.00 GT:AD:DP:GL:GQ 1/1:51,10:3:-11.70,-0.90,-0.00:9.03
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chr1 2603684 . A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=23.79;MQ=8.35;MQ0=58;OQ=160.35;QD=2.36;SB=-10.00 GT:AD:DP:GL:GQ 1/1:55,13:6:-19.61,-1.81,-0.00:18.04
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chr1 2603850 . C G 10.08 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=225;Dels=0.00;HRun=0;HaplotypeScore=68.31;MQ=3.10;MQ0=215;QD=0.04;SB=-10.00 GT:AD:DP:GL:GQ 0/1:213,10:1:-4.25,-0.30,-0.00:1.76
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chr1 2604182 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=169;Dels=0.00;HRun=1;HaplotypeScore=49.21;MQ=7.86;MQ0=143;OQ=70.78;QD=0.42;SB=-10.00 GT:AD:DP:GL:GQ 0/1:162,7:11:-13.68,-3.31,-27.79:99
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chr1 2604202 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=174;Dels=0.00;HRun=0;HaplotypeScore=66.53;MQ=7.81;MQ0=146;OQ=55.73;QD=0.32;SB=-10.00 GT:AD:DP:GL:GQ 0/1:164,10:11:-12.17,-3.31,-27.45:88.56
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chr1 2604211 . C A 34.20 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=202;Dels=0.00;HRun=0;HaplotypeScore=110.16;MQ=8.09;MQ0=168;QD=0.17;SB=-10.00 GT:AD:DP:GL:GQ 0/1:190,11:14:-10.92,-4.22,-40.03:67.04
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chr1 2604257 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=0;HaplotypeScore=82.11;MQ=12.16;MQ0=114;OQ=80.38;QD=0.46;SB=32.96 GT:AD:DP:GL:GQ 0/1:146,20:31:-22.91,-11.59,-89.29:99
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chr1 2604263 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=1;HaplotypeScore=133.02;MQ=12.71;MQ0=105;OQ=191.66;QD=1.14;SB=50.18 GT:AD:DP:GL:GQ 0/1:122,46:33:-32.40,-9.95,-88.01:99
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chr1 2604269 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=146;Dels=0.00;HRun=0;HaplotypeScore=77.37;MQ=13.05;MQ0=90;OQ=192.77;QD=1.32;SB=17.43 GT:AD:DP:GL:GQ 0/1:70,69:33:-34.89,-12.33,-71.96:99
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chr1 2604305 . T A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=7.47;MQ=17.34;MQ0=29;OQ=55.74;QD=0.69;SB=74.25 GT:AD:DP:GL:GQ 0/1:58,22:37:-20.01,-11.15,-121.92:88.58
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chr1 2604310 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=4.63;MQ=18.11;MQ0=23;OQ=69.18;QD=0.93;SB=74.24 GT:AD:DP:GL:GQ 0/1:55,19:37:-21.34,-11.14,-111.00:99
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chr1 2604358 . C T 71.23 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=0;HaplotypeScore=145.78;MQ=14.15;MQ0=44;QD=0.82;SB=11.06 GT:AD:DP:GL:GQ 0/1:71,13:12:-14.02,-3.62,-30.75:99
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chr1 2604359 . C A 74.64 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=131.89;MQ=14.13;MQ0=41;QD=0.91;SB=5.02 GT:AD:DP:GL:GQ 0/1:26,56:10:-13.76,-3.01,-18.66:99
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chr1 2604363 . G C 180.85 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=2;HaplotypeScore=137.79;MQ=13.57;MQ0=46;QD=2.10;SB=2.04 GT:AD:DP:GL:GQ 0/1:29,40:11:-24.68,-3.31,-21.48:99
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chr1 2604377 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=82.82;MQ=13.39;MQ0=50;OQ=54.76;QD=0.61;SB=-10.00 GT:AD:DP:GL:GQ 0/1:65,25:4:-9.97,-1.21,-3.57:23.65
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chr1 2604397 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=1;HaplotypeScore=150.87;MQ=13.17;MQ0=49;OQ=71.12;QD=0.83;SB=-10.00 GT:AD:DP:GL:GQ 0/1:47,38:4:-11.60,-1.21,-3.90:26.92
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chr1 2604403 . T C 38.45 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=82;Dels=0.00;HRun=2;HaplotypeScore=145.51;MQ=12.80;MQ0=46;QD=0.47;SB=-10.00 GT:AD:DP:GL:GQ 1/1:13,58:3:-10.84,-4.28,-3.54:7.45
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chr1 2604424 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=48.30;MQ=13.20;MQ0=33;OQ=76.83;QD=1.35;SB=-6.99 GT:AD:DP:GL:GQ 0/1:21,30:6:-12.78,-1.81,-6.73:49.16
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chr1 2604431 . C T 25.24 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=33.49;MQ=13.71;MQ0=25;QD=0.55;SB=-7.01 GT:AD:DP:GL:GQ 0/1:40,3:5:-7.32,-1.51,-9.43:58.07
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chr1 2604444 . G C 43.47 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=1;HaplotypeScore=38.64;MQ=15.55;MQ0=13;QD=1.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:8,16:4:-12.26,-4.63,-7.13:24.99
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chr1 2604449 . G C 30.45 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=21;Dels=0.10;HRun=4;HaplotypeScore=30.98;MQ=14.63;MQ0=12;QD=1.45;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,6:4:-11.16,-4.83,-7.63:28
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chr1 2604508 . G C 0.07 PASS AC=2;AF=1.00;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=11.01;MQ=14.95;MQ0=13;OQ=265.66;QD=7.81;SB=-10.00 GT:AD:DP:GL:GQ 1/1:9,25:7:-30.15,-2.11,-0.00:21.07
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chr1 2604516 . G T 0.07 PASS AC=2;AF=1.00;AN=2;DP=41;Dels=0.00;HRun=1;HaplotypeScore=5.00;MQ=14.42;MQ0=18;OQ=191.90;QD=4.68;SB=-10.00 GT:AD:DP:GL:GQ 1/1:15,26:7:-22.77,-2.11,-0.00:21.05
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chr1 2604535 rs61763522 A G 0.35 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=9.63;MQ=11.76;MQ0=38;OQ=251.64;QD=3.87;SB=-10.00 GT:AD:DP:GL:GQ 1/1:12,53:8:-28.75,-2.41,-0.00:24.07
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chr1 2604555 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=1;HaplotypeScore=35.24;MQ=12.18;MQ0=57;OQ=115.73;QD=1.24;SB=14.08 GT:AD:DP:GL:GQ 0/1:66,27:12:-18.47,-3.62,-35.84:99
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chr1 2604572 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=137;Dels=0.00;HRun=3;HaplotypeScore=50.74;MQ=13.39;MQ0=78;OQ=55.27;QD=0.40;SB=20.07 GT:AD:DP:GL:GQ 0/1:127,10:20:-14.84,-6.03,-56.38:88.11
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chr1 2604579 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=138;Dels=0.00;HRun=1;HaplotypeScore=62.98;MQ=13.28;MQ0=75;OQ=144.76;QD=1.05;SB=20.08 GT:AD:DP:GL:GQ 0/1:125,13:18:-23.19,-5.43,-45.19:99
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chr1 2604585 rs61763523 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=140;Dels=0.00;HRun=1;HaplotypeScore=70.32;MQ=13.11;MQ0=76;OQ=158.49;QD=1.13;SB=-6.99 GT:AD:DP:GL:GQ 0/1:102,37:9:-21.84,-2.71,-10.97:82.64
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chr1 2604597 . A G 110.83 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=0;HaplotypeScore=107.90;MQ=13.27;MQ0=78;QD=0.74;SB=8.05 GT:AD:DP:GL:GQ 0/1:135,14:14:-18.58,-4.22,-35.74:99
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chr1 2604601 . A C 218.40 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=111.25;MQ=13.41;MQ0=75;QD=1.51;SB=4.22 GT:AD:DP:GL:GQ 0/1:108,36:15:-33.23,-8.10,-26.51:99
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chr1 2604603 . T C 273.40 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=2;HaplotypeScore=107.87;MQ=13.23;MQ0=76;QD=1.89;SB=-75.88 GT:AD:DP:GL:GQ 0/1:65,76:14:-34.84,-4.22,-16.55:99
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chr1 2604631 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=169;Dels=0.00;HRun=1;HaplotypeScore=78.83;MQ=15.93;MQ0=66;OQ=130.30;QD=0.77;SB=-43.00 GT:AD:DP:GL:GQ 0/1:129,40:31:-25.65,-9.34,-87.13:99
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chr1 2604640 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=154;Dels=0.00;HRun=0;HaplotypeScore=101.27;MQ=16.99;MQ0=53;OQ=84.42;QD=0.55;SB=-10.00 GT:AD:DP:GL:GQ 0/1:93,61:34:-21.98,-10.25,-116.76:99
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chr1 2604659 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=138;Dels=0.00;HRun=1;HaplotypeScore=114.19;MQ=17.85;MQ0=39;OQ=180.46;QD=1.31;SB=-10.00 GT:AD:DP:GL:GQ 0/1:106,32:34:-31.57,-10.24,-88.52:99
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chr1 2604673 rs7415296 T C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=120;Dels=0.00;HRun=1;HaplotypeScore=73.29;MQ=18.57;MQ0=29;OQ=1125.63;QD=9.38;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,107:33:-116.16,-9.94,-0.01:99
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chr1 2604706 rs6673862 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=0;HaplotypeScore=39.35;MQ=23.53;MQ0=16;OQ=454.13;QD=4.83;SB=-3.99 GT:AD:DP:GL:GQ 0/1:51,43:41:-61.05,-12.35,-88.54:99
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chr1 2604709 rs6604993 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=41.02;MQ=25.10;MQ0=15;OQ=512.66;QD=5.40;SB=-34.93 GT:AD:DP:GL:GQ 0/1:48,47:45:-68.11,-13.56,-92.92:99
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chr1 2604721 rs61763524 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=115.04;MQ=25.76;MQ0=12;OQ=386.36;QD=4.15;SB=-44.44 GT:AD:DP:GL:GQ 0/1:49,44:40:-53.97,-12.05,-114.41:99
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chr1 2604728 rs61763525 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=150.75;MQ=27.24;MQ0=8;OQ=52.75;QD=0.62;SB=-10.00 GT:AD:DP:GL:GQ 0/1:49,22:37:-19.70,-11.14,-117.15:85.59
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chr1 2604813 rs6687492 A C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.04;HRun=2;HaplotypeScore=47.11;MQ=23.79;MQ0=20;OQ=1537.32;QD=16.53;SB=-154.02 GT:AD:DP:GL:GQ 1/1:2,87:44:-157.33,-12.95,-0.02:99
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chr1 2604848 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=9.77;MQ=17.69;MQ0=30;OQ=71.77;QD=1.30;SB=-10.00 GT:AD:DP:GL:GQ 0/1:37,18:14:-14.68,-4.22,-36.61:99
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chr1 2604864 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=28.67;MQ=16.02;MQ0=35;OQ=77.33;QD=1.17;SB=-10.00 GT:AD:DP:GL:GQ 0/1:62,4:12:-14.63,-3.61,-28.91:99
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chr1 2604867 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=23.02;MQ=16.18;MQ0=37;OQ=170.35;QD=2.43;SB=-10.00 GT:AD:DP:GL:GQ 0/1:59,11:15:-24.84,-4.52,-31.52:99
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chr1 2604879 . A G 48.78 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=25.49;MQ=18.59;MQ0=41;QD=0.57;SB=-6.99 GT:AD:DP:GL:GQ 0/1:79,7:20:-14.19,-6.03,-66.66:81.62
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chr1 2604892 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=1;HaplotypeScore=62.88;MQ=20.71;MQ0=36;OQ=145.34;QD=1.60;SB=-40.00 GT:AD:DP:GL:GQ 0/1:67,21:27:-25.95,-8.13,-71.88:99
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chr1 2604894 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.01;HRun=1;HaplotypeScore=55.68;MQ=20.44;MQ0=36;OQ=138.96;QD=1.49;SB=-41.95 GT:AD:DP:GL:GQ 0/1:67,21:26:-25.01,-7.83,-77.06:99
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chr1 2604912 rs61763528 T G 20.95 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=112;Dels=0.00;HRun=0;HaplotypeScore=50.36;MQ=22.66;MQ0=25;QD=0.19;SB=-10.00 GT:AD:DP:GL:GQ 0/1:76,35:29:-14.11,-8.74,-95.07:53.75
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chr1 2604916 rs61763529 T G 194.85 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=113;Dels=0.00;HRun=0;HaplotypeScore=46.31;MQ=24.02;MQ0=23;QD=1.72;SB=-10.00 GT:AD:DP:GL:GQ 0/1:75,37:38:-34.21,-11.44,-107.06:99
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chr1 2604917 rs61763530 C G 1480.34 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=112;Dels=0.00;HRun=0;HaplotypeScore=47.31;MQ=24.13;MQ0=22;QD=13.22;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,96:38:-168.50,-25.75,-16.88:88.75
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chr1 2604946 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=236;Dels=0.00;HRun=1;HaplotypeScore=63.84;MQ=27.71;MQ0=21;OQ=79.42;QD=0.34;SB=27.56 GT:AD:DP:GL:GQ 0/1:204,31:106:-43.16,-31.93,-335.49:99
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chr1 2604947 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=236;Dels=0.00;HRun=1;HaplotypeScore=57.70;MQ=27.78;MQ0=20;OQ=56.57;QD=0.24;SB=26.25 GT:AD:DP:GL:GQ 0/1:201,34:107:-41.17,-32.23,-378.22:89.40
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chr1 2604959 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=241;Dels=0.00;HRun=1;HaplotypeScore=113.45;MQ=29.01;MQ0=17;OQ=854.86;QD=3.55;SB=-18.43 GT:AD:DP:GL:GQ 0/1:165,75:109:-121.61,-32.84,-284.29:99
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chr1 2604960 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=240;Dels=0.00;HRun=1;HaplotypeScore=123.76;MQ=29.06;MQ0=17;OQ=593.64;QD=2.47;SB=71.18 GT:AD:DP:GL:GQ 0/1:190,50:108:-95.18,-32.53,-286.72:99
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chr1 2604983 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=224;Dels=0.00;HRun=1;HaplotypeScore=495.52;MQ=29.66;MQ0=13;OQ=71.64;QD=0.32;SB=60.44 GT:AD:DP:GL:GQ 0/1:161,61:71:-31.89,-21.44,-242.50:99
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chr1 2604984 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=225;Dels=0.00;HRun=1;HaplotypeScore=666.90;MQ=29.67;MQ0=14;OQ=53.59;QD=0.24;SB=51.85 GT:AD:DP:GL:GQ 0/1:162,59:73:-33.13,-24.49,-250.82:86.43
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chr1 2604994 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=301;Dels=0.00;HRun=1;HaplotypeScore=445.50;MQ=27.33;MQ0=32;OQ=911.93;QD=3.03;SB=-289.52 GT:AD:DP:GL:GQ 0/1:244,47:103:-139.58,-45.10,-310.97:99
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chr1 2605000 . A G 39.90 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=313;Dels=0.00;HRun=0;HaplotypeScore=296.02;MQ=26.42;MQ0=37;QD=0.13;SB=95.30 GT:AD:DP:GL:GQ 0/1:236,73:110:-42.96,-35.69,-387.52:72.73
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chr1 2605008 . C A 80.14 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=308;Dels=0.00;HRun=1;HaplotypeScore=230.13;MQ=26.37;MQ0=45;QD=0.26;SB=104.26 GT:AD:DP:GL:GQ 0/1:278,18:127:-64.22,-52.92,-396.67:99
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chr1 2605010 . C A 77.92 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=309;Dels=0.00;HRun=1;HaplotypeScore=334.39;MQ=26.26;MQ0=46;QD=0.25;SB=101.18 GT:AD:DP:GL:GQ 0/1:276,18:125:-51.79,-40.71,-371.85:99
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chr1 2605026 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=292;Dels=0.00;HRun=0;HaplotypeScore=503.51;MQ=24.87;MQ0=63;OQ=127.24;QD=0.44;SB=-33.91 GT:AD:DP:GL:GQ 0/1:107,181:82:-40.71,-24.70,-242.51:99
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chr1 2605040 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=333;Dels=0.00;HRun=0;HaplotypeScore=585.35;MQ=23.26;MQ0=69;OQ=164.03;QD=0.49;SB=60.04 GT:AD:DP:GL:GQ 0/1:234,98:87:-48.89,-29.20,-293.13:99
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chr1 2605055 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=394;Dels=0.00;HRun=0;HaplotypeScore=493.35;MQ=22.62;MQ0=80;OQ=367.10;QD=0.93;SB=90.44 GT:AD:DP:GL:GQ 0/1:300,89:126:-77.94,-37.95,-375.51:99
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chr1 2605064 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=394;Dels=0.00;HRun=1;HaplotypeScore=562.83;MQ=22.35;MQ0=77;OQ=111.09;QD=0.28;SB=241.07 GT:AD:DP:GL:GQ 0/1:342,17:127:-65.55,-51.15,-483.41:99
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chr1 2605074 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=367;Dels=0.02;HRun=1;HaplotypeScore=550.64;MQ=22.20;MQ0=72;OQ=1826.16;QD=4.98;SB=11.30 GT:AD:DP:GL:GQ 0/1:140,136:125:-251.01,-65.11,-307.30:99
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chr1 2605078 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=360;Dels=0.00;HRun=1;HaplotypeScore=645.39;MQ=22.69;MQ0=67;OQ=145.82;QD=0.41;SB=80.26 GT:AD:DP:GL:GQ 0/1:281,25:108:-50.40,-32.54,-347.91:99
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chr1 2605087 rs9442451 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=302;Dels=0.00;HRun=1;HaplotypeScore=515.01;MQ=23.21;MQ0=61;OQ=1550.28;QD=5.13;SB=0.26 GT:AD:DP:GL:GQ 0/1:127,172:83:-183.36,-25.04,-152.30:99
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chr1 2605095 rs7411254 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=295;Dels=0.00;HRun=0;HaplotypeScore=864.08;MQ=22.89;MQ0=61;OQ=861.12;QD=2.92;SB=-439.01 GT:AD:DP:GL:GQ 0/1:231,62:100:-119.53,-30.13,-233.73:99
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chr1 2605099 rs61763531 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=268;Dels=0.03;HRun=1;HaplotypeScore=671.07;MQ=23.34;MQ0=56;OQ=331.54;QD=1.24;SB=62.18 GT:AD:DP:GL:GQ 0/1:101,158:88:-62.36,-25.93,-228.22:99
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chr1 2605116 rs61763532 G T 727.77 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=280;Dels=0.00;HRun=0;HaplotypeScore=340.71;MQ=26.06;MQ0=38;QD=2.60;SB=80.25 GT:AD:DP:GL:GQ 0/1:98,160:86:-122.32,-46.26,-192.83:99
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chr1 2605118 . G A 130.78 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=290;Dels=0.00;HRun=2;HaplotypeScore=353.34;MQ=26.07;MQ0=39;QD=0.45;SB=68.17 GT:AD:DP:GL:GQ 0/1:266,20:82:-41.07,-24.71,-249.92:99
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chr1 2605120 . A G 143.56 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=286;Dels=0.00;HRun=0;HaplotypeScore=391.53;MQ=26.07;MQ0=38;QD=0.50;SB=44.57 GT:AD:DP:GL:GQ 0/1:230,56:92:-45.37,-27.73,-305.63:99
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chr1 2605121 . C A 843.63 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=283;Dels=0.00;HRun=2;HaplotypeScore=384.52;MQ=26.08;MQ0=38;QD=2.98;SB=80.20 GT:AD:DP:GL:GQ 0/1:195,69:112:-123.96,-36.31,-258.00:99
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chr1 2605143 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=261;Dels=0.00;HRun=0;HaplotypeScore=165.80;MQ=26.36;MQ0=57;OQ=2061.60;QD=7.90;SB=82.92 GT:AD:DP:GL:GQ 0/1:135,121:131:-251.29,-41.84,-249.16:99
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chr1 2605152 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=276;Dels=0.00;HRun=0;HaplotypeScore=166.41;MQ=25.95;MQ0=68;OQ=1747.63;QD=6.33;SB=68.24 GT:AD:DP:GL:GQ 0/1:180,94:128:-216.61,-38.56,-254.69:99
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chr1 2605164 rs56278231 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=278;Dels=0.00;HRun=0;HaplotypeScore=99.67;MQ=26.36;MQ0=65;OQ=2109.83;QD=7.59;SB=62.23 GT:AD:DP:GL:GQ 0/1:140,134:129:-253.13,-38.87,-210.06:99
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chr1 2605176 rs61763533 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=283;Dels=0.00;HRun=4;HaplotypeScore=192.72;MQ=26.37;MQ0=64;OQ=2285.97;QD=8.08;SB=50.20 GT:AD:DP:GL:GQ 0/1:155,126:135:-272.62,-40.74,-266.81:99
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chr1 2605179 rs7415101 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=293;Dels=0.00;HRun=0;HaplotypeScore=210.05;MQ=26.19;MQ0=65;OQ=1158.68;QD=3.95;SB=-384.91 GT:AD:DP:GL:GQ 0/1:236,57:97:-148.38,-29.23,-220.79:99
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chr1 2605208 . C A 465.30 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=269;Dels=0.00;HRun=1;HaplotypeScore=227.21;MQ=26.15;MQ0=63;QD=1.73;SB=32.07 GT:AD:DP:GL:GQ 0/1:153,116:69:-70.60,-20.78,-175.32:99
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chr1 2605210 . C A 482.33 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=266;Dels=0.00;HRun=1;HaplotypeScore=189.40;MQ=26.42;MQ0=62;QD=1.81;SB=32.08 GT:AD:DP:GL:GQ 0/1:149,115:67:-71.70,-20.18,-161.20:99
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chr1 2605214 rs61082664 T C 967.30 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=276;Dels=0.00;HRun=2;HaplotypeScore=127.28;MQ=27.64;MQ0=60;QD=3.50;SB=23.10 GT:AD:DP:GL:GQ 0/1:97,178:76:-122.91,-22.90,-161.42:99
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chr1 2605243 . G T 751.64 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=305;Dels=0.00;HRun=1;HaplotypeScore=253.27;MQ=31.30;MQ0=36;QD=2.46;SB=71.20 GT:AD:DP:GL:GQ 0/1:173,132:102:-109.18,-30.73,-247.59:99
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chr1 2605244 rs28455054 T C 853.34 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=304;Dels=0.00;HRun=0;HaplotypeScore=224.13;MQ=31.61;MQ0=34;QD=2.81;SB=-69.58 GT:AD:DP:GL:GQ 0/1:99,183:104:-137.17,-48.55,-265.91:99
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chr1 2605247 . C T 78.33 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=307;Dels=0.00;HRun=0;HaplotypeScore=241.73;MQ=32.15;MQ0=30;QD=0.26;SB=92.28 GT:AD:DP:GL:GQ 0/1:261,44:108:-43.66,-32.54,-342.18:99
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chr1 2605252 . C A 302.63 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=316;Dels=0.00;HRun=1;HaplotypeScore=325.23;MQ=32.85;MQ0=33;QD=0.96;SB=113.24 GT:AD:DP:GL:GQ 0/1:197,119:109:-66.39,-32.84,-311.74:99
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chr1 2605255 rs55876897 A C 449.77 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=317;Dels=0.00;HRun=3;HaplotypeScore=260.93;MQ=33.01;MQ0=35;QD=1.42;SB=-150.70 GT:AD:DP:GL:GQ 0/1:239,77:117:-83.21,-34.95,-326.08:99
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chr1 2605259 rs56999649 T G 716.83 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=300;Dels=0.00;HRun=1;HaplotypeScore=227.19;MQ=34.47;MQ0=29;QD=2.39;SB=-184.23 GT:AD:DP:GL:GQ 0/1:116,182:121:-111.42,-36.45,-316.52:99
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chr1 2605264 rs4648676 C T 210.17 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=316;Dels=0.00;HRun=0;HaplotypeScore=557.56;MQ=35.06;MQ0=25;QD=0.67;SB=-21.82 GT:AD:DP:GL:GQ 0/1:289,24:136:-67.74,-43.44,-416.85:99
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chr1 2605334 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=408;Dels=0.00;HRun=4;HaplotypeScore=186.79;MQ=36.75;MQ0=7;OQ=1485.59;QD=3.64;SB=-538.59 GT:AD:DP:GL:GQ 0/1:275,118:294:-243.85,-92.01,-1014.23:99
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chr1 2605341 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=415;Dels=0.00;HRun=0;HaplotypeScore=229.92;MQ=36.33;MQ0=7;OQ=215.75;QD=0.52;SB=102.02 GT:AD:DP:GL:GQ 0/1:365,48:297:-114.34,-89.49,-957.91:99
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chr1 2605353 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=430;Dels=0.00;HRun=0;HaplotypeScore=200.04;MQ=35.29;MQ0=7;OQ=112.93;QD=0.26;SB=60.60 GT:AD:DP:GL:GQ 0/1:389,39:313:-108.94,-94.36,-1191.77:99
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chr1 2605354 rs4648678 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=435;Dels=0.00;HRun=0;HaplotypeScore=203.33;MQ=35.33;MQ0=8;OQ=1038.03;QD=2.39;SB=-273.03 GT:AD:DP:GL:GQ 0/1:373,60:307:-199.57,-92.49,-955.77:99
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chr1 2605374 rs61763535 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=451;Dels=0.00;HRun=4;HaplotypeScore=174.52;MQ=33.98;MQ0=15;OQ=1772.73;QD=3.93;SB=-155.11 GT:AD:DP:GL:GQ 0/1:257,185:286:-266.74,-86.18,-803.52:99
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chr1 2605416 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=641;Dels=0.00;HRun=0;HaplotypeScore=116.73;MQ=29.52;MQ0=38;OQ=101.05;QD=0.16;SB=-26.09 GT:AD:DP:GL:GQ 0/1:592,49:383:-128.76,-115.37,-1229.08:99
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chr1 2605473 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=505;Dels=0.00;HRun=1;HaplotypeScore=72.40;MQ=31.01;MQ0=19;OQ=529.76;QD=1.05;SB=-238.32 GT:AD:DP:GL:GQ 0/1:450,54:383:-171.63,-115.37,-1165.16:99
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chr1 2605495 rs56293461 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=486;Dels=0.00;HRun=0;HaplotypeScore=95.08;MQ=32.56;MQ0=15;OQ=821.52;QD=1.69;SB=-409.31 GT:AD:DP:GL:GQ 0/1:403,80:369:-196.58,-111.15,-1127.43:99
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chr1 2605529 rs28651038 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=428;Dels=0.00;HRun=0;HaplotypeScore=82.79;MQ=34.53;MQ0=16;OQ=2602.34;QD=6.08;SB=-653.43 GT:AD:DP:GL:GQ 0/1:288,123:298:-353.40,-89.88,-659.17:99
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chr1 2605657 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=389;Dels=0.01;HRun=3;HaplotypeScore=175.38;MQ=30.03;MQ0=70;OQ=99.64;QD=0.26;SB=74.25 GT:AD:DP:GL:GQ 0/1:326,61:215:-77.75,-64.51,-660.65:99
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chr1 2605686 . A C 325.50 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=398;Dels=0.00;HRun=0;HaplotypeScore=501.75;MQ=28.89;MQ0=57;QD=0.82;SB=95.28 GT:AD:DP:GL:GQ 0/1:281,115:207:-98.21,-62.38,-634.44:99
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chr1 2605688 . T C 330.54 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=397;Dels=0.00;HRun=2;HaplotypeScore=497.47;MQ=28.92;MQ0=57;QD=0.83;SB=65.64 GT:AD:DP:GL:GQ 0/1:226,152:200:-122.31,-85.97,-661.75:99
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chr1 2605695 rs55827558 C T 892.89 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=401;Dels=0.00;HRun=0;HaplotypeScore=534.98;MQ=29.24;MQ0=57;QD=2.23;SB=9.18 GT:AD:DP:GL:GQ 0/1:315,49:193:-153.53,-60.96,-575.72:99
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chr1 2605725 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=284;Dels=0.00;HRun=0;HaplotypeScore=360.95;MQ=32.85;MQ0=34;OQ=61.42;QD=0.22;SB=89.31 GT:AD:DP:GL:GQ 0/1:168,111:137:-50.75,-41.32,-529.65:94.25
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chr1 2605754 . C T 591.89 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=279;Dels=0.00;HRun=0;HaplotypeScore=467.58;MQ=37.63;MQ0=15;QD=2.12;SB=140.37 GT:AD:DP:GL:GQ 0/1:235,40:127:-100.77,-38.29,-327.93:99
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chr1 2605755 . G A 525.10 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=271;Dels=0.00;HRun=0;HaplotypeScore=436.48;MQ=37.79;MQ0=15;QD=1.94;SB=80.56 GT:AD:DP:GL:GQ 0/1:156,112:135:-96.50,-40.71,-357.83:99
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chr1 2605761 rs61763538 C G 1339.29 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=259;Dels=0.00;HRun=1;HaplotypeScore=254.24;MQ=38.34;MQ0=17;QD=5.17;SB=4.72 GT:AD:DP:GL:GQ 0/1:84,169:121:-173.69,-36.48,-327.29:99
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chr1 2605783 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=297;Dels=0.00;HRun=0;HaplotypeScore=293.73;MQ=35.79;MQ0=20;OQ=562.93;QD=1.90;SB=121.81 GT:AD:DP:GL:GQ 0/1:195,74:123:-135.97,-76.40,-335.89:99
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chr1 2605795 . G A 252.45 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=324;Dels=0.00;HRun=0;HaplotypeScore=499.11;MQ=34.45;MQ0=20;QD=0.78;SB=203.66 GT:AD:DP:GL:GQ 0/1:201,116:126:-66.49,-37.96,-390.94:99
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chr1 2605804 . C T 66.11 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=356;Dels=0.00;HRun=0;HaplotypeScore=268.83;MQ=34.41;MQ0=22;QD=0.19;SB=-31.15 GT:AD:DP:GL:GQ 0/1:312,39:152:-58.55,-48.66,-460.06:98.95
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chr1 2605805 . G A 2340.79 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=356;Dels=0.00;HRun=0;HaplotypeScore=224.04;MQ=34.36;MQ0=23;QD=6.58;SB=164.74 GT:AD:DP:GL:GQ 0/1:199,157:186:-293.46,-56.10,-343.74:99
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chr1 2605831 . C T 1118.55 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=295;Dels=0.00;HRun=0;HaplotypeScore=238.92;MQ=35.23;MQ0=23;QD=3.79;SB=174.98 GT:AD:DP:GL:GQ 0/1:220,69:156:-162.17,-47.03,-376.03:99
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chr1 2605834 . C T 954.45 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=279;Dels=0.00;HRun=0;HaplotypeScore=236.05;MQ=35.80;MQ0=20;QD=3.42;SB=200.51 GT:AD:DP:GL:GQ 0/1:218,59:162:-147.54,-48.81,-432.29:99
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chr1 2605836 . T G 306.78 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=263;Dels=0.00;HRun=0;HaplotypeScore=206.04;MQ=36.89;MQ0=20;QD=1.17;SB=188.58 GT:AD:DP:GL:GQ 0/1:205,52:142:-88.13,-54.17,-440.06:99
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chr1 2605841 . A G 545.99 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=232;Dels=0.00;HRun=1;HaplotypeScore=155.67;MQ=38.58;MQ0=20;QD=2.35;SB=182.62 GT:AD:DP:GL:GQ 0/1:160,70:131:-97.35,-39.47,-411.37:99
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chr1 2605874 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=232;Dels=0.00;HRun=0;HaplotypeScore=124.99;MQ=42.37;MQ0=11;OQ=512.21;QD=2.21;SB=-14.46 GT:AD:DP:GL:GQ 0/1:155,74:147:-102.43,-47.93,-470.53:99
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chr1 2605886 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=201;Dels=0.00;HRun=0;HaplotypeScore=108.30;MQ=44.38;MQ0=8;OQ=363.46;QD=1.81;SB=149.68 GT:AD:DP:GL:GQ 0/1:128,71:139:-81.51,-41.88,-451.45:99
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chr1 2605893 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=197;Dels=0.00;HRun=0;HaplotypeScore=120.52;MQ=42.83;MQ0=17;OQ=327.45;QD=1.66;SB=185.60 GT:AD:DP:GL:GQ 0/1:128,68:129:-77.12,-41.09,-417.50:99
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chr1 2605899 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=204;Dels=0.00;HRun=1;HaplotypeScore=109.97;MQ=40.67;MQ0=24;OQ=225.12;QD=1.10;SB=176.57 GT:AD:DP:GL:GQ 0/1:183,21:132:-65.55,-39.76,-408.38:99
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chr1 2605937 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=199;Dels=0.00;HRun=2;HaplotypeScore=54.75;MQ=35.12;MQ0=33;OQ=125.52;QD=0.63;SB=203.69 GT:AD:DP:GL:GQ 0/1:151,48:110:-48.99,-33.15,-378.43:99
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chr1 2605949 rs55869659 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=295;Dels=0.00;HRun=1;HaplotypeScore=266.34;MQ=30.03;MQ0=43;OQ=1589.71;QD=5.39;SB=-453.79 GT:AD:DP:GL:GQ 0/1:231,64:135:-202.93,-40.67,-294.60:99
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chr1 2605976 rs6683769 G C 6974.39 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=343;Dels=0.02;HRun=3;HaplotypeScore=423.51;MQ=29.44;MQ0=37;QD=20.33;SB=-2874.56 GT:AD:DP:GL:GQ 1/1:19,284:159:-696.44,-51.43,-8.07:99
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chr1 2605977 rs6661848 C T 1027.05 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=358;Dels=0.00;HRun=0;HaplotypeScore=456.32;MQ=29.31;MQ0=37;QD=2.87;SB=-210.09 GT:AD:DP:GL:GQ 0/1:307,50:125:-143.65,-37.67,-316.41:99
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chr1 2605979 . C A 1028.24 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=357;Dels=0.00;HRun=1;HaplotypeScore=354.37;MQ=29.31;MQ0=37;QD=2.88;SB=152.21 GT:AD:DP:GL:GQ 0/1:297,56:154:-152.50,-46.39,-400.06:99
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chr1 2605985 . A G 302.88 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=344;Dels=0.00;HRun=1;HaplotypeScore=327.75;MQ=29.96;MQ0=33;QD=0.88;SB=170.59 GT:AD:DP:GL:GQ 0/1:269,70:128:-72.14,-38.56,-425.79:99
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chr1 2606004 . C T 951.09 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=290;Dels=0.00;HRun=0;HaplotypeScore=672.95;MQ=32.63;MQ0=23;QD=3.28;SB=87.89 GT:AD:DP:GL:GQ 0/1:220,66:128:-136.98,-38.59,-302.88:99
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chr1 2606005 rs6683777 G A 1342.36 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=287;Dels=0.00;HRun=0;HaplotypeScore=631.13;MQ=33.21;MQ0=21;QD=4.68;SB=-76.00 GT:AD:DP:GL:GQ 0/1:85,177:126:-230.50,-92.98,-257.82:99
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chr1 2606006 rs57008511 G T 1549.99 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=289;Dels=0.00;HRun=0;HaplotypeScore=644.99;MQ=33.16;MQ0=21;QD=5.36;SB=-385.70 GT:AD:DP:GL:GQ 0/1:228,60:127:-196.55,-38.27,-243.78:99
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chr1 2606009 . A T 459 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=281;Dels=0.00;HRun=0;HaplotypeScore=430.52;MQ=33.69;MQ0=19;QD=1.63;SB=105.62 GT:AD:DP:GL:GQ 0/1:113,66:123:-152.84,-103.65,-371.87:99
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chr1 2606031 . C G 597.38 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=222;Dels=0.00;HRun=1;HaplotypeScore=164.77;MQ=37.58;MQ0=8;QD=2.69;SB=139.07 GT:AD:DP:GL:GQ 0/1:114,51:127:-143.77,-80.75,-412.83:99
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chr1 2606038 . C A 277.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=217;Dels=0.00;HRun=0;HaplotypeScore=107.00;MQ=38.94;MQ0=8;QD=1.28;SB=120.78 GT:AD:DP:GL:GQ 0/1:160,54:121:-67.44,-36.45,-363.09:99
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chr1 2606041 . G T 124.23 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=206;Dels=0.00;HRun=0;HaplotypeScore=125.82;MQ=39.98;MQ0=7;QD=0.60;SB=144.54 GT:AD:DP:GL:GQ 0/1:161,44:113:-49.75,-34.04,-340.70:99
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chr1 2606206 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=315;Dels=0.00;HRun=1;HaplotypeScore=256.44;MQ=28.06;MQ0=39;OQ=155.48;QD=0.49;SB=-29.90 GT:AD:DP:GL:GQ 0/1:209,63:107:-66.50,-47.67,-397.67:99
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chr1 2606217 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=250;Dels=0.00;HRun=3;HaplotypeScore=224.65;MQ=29.86;MQ0=28;OQ=458.20;QD=1.83;SB=-95.78 GT:AD:DP:GL:GQ 0/1:87,160:81:-76.54,-27.44,-208.99:99
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chr1 2606220 rs36162961 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=249;Dels=0.00;HRun=0;HaplotypeScore=180.31;MQ=29.93;MQ0=27;OQ=201.47;QD=0.81;SB=-7.21 GT:AD:DP:GL:GQ 0/1:213,32:103:-54.47,-31.04,-311.81:99
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chr1 2606247 rs6662065 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=156;Dels=0.00;HRun=0;HaplotypeScore=58.65;MQ=36.60;MQ0=15;OQ=2337.23;QD=14.98;SB=-1097.47 GT:AD:DP:GL:GQ 0/1:41,86:97:-280.18,-43.17,-102.47:99
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chr1 2606279 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=122;Dels=0.00;HRun=1;HaplotypeScore=25.92;MQ=42.76;MQ0=2;OQ=312.76;QD=2.56;SB=-74.63 GT:AD:DP:GL:GQ 0/1:94,28:104:-65.90,-31.34,-343.27:99
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chr1 2606294 rs28562476 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=129;Dels=0.00;HRun=0;HaplotypeScore=45.48;MQ=41.64;MQ0=3;OQ=158.71;QD=1.23;SB=-91.27 GT:AD:DP:GL:GQ 0/1:99,30:98:-48.69,-29.54,-326.61:99
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chr1 2606300 rs6662172 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=148;Dels=0.00;HRun=1;HaplotypeScore=45.57;MQ=40.35;MQ0=4;OQ=2445.81;QD=16.53;SB=-1064.82 GT:AD:DP:GL:GQ 0/1:63,84:112:-281.60,-33.73,-119.13:99
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chr1 2606379 rs28410393 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=122;Dels=0.00;HRun=0;HaplotypeScore=27.63;MQ=39.78;MQ0=6;OQ=368.46;QD=3.02;SB=6.71 GT:AD:DP:GL:GQ 0/1:95,26:92:-67.86,-27.73,-327.77:99
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chr1 2606380 rs28520729 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=119;Dels=0.00;HRun=0;HaplotypeScore=27.50;MQ=39.82;MQ0=6;OQ=559.99;QD=4.71;SB=-194.85 GT:AD:DP:GL:GQ 0/1:94,25:96:-88.22,-28.94,-322.33:99
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chr1 2606465 rs28436923 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=147;Dels=0.00;HRun=0;HaplotypeScore=131.13;MQ=40.98;MQ0=13;OQ=2035.71;QD=13.85;SB=-905.49 GT:AD:DP:GL:GQ 0/1:80,64:81:-231.26,-24.41,-73.56:99
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chr1 2606518 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=186;Dels=0.00;HRun=0;HaplotypeScore=218.01;MQ=25.24;MQ0=20;OQ=216.97;QD=1.17;SB=68.19 GT:AD:DP:GL:GQ 0/1:119,56:69:-45.78,-20.79,-195.94:99
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chr1 2606520 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=182;Dels=0.01;HRun=1;HaplotypeScore=197.55;MQ=24.90;MQ0=18;OQ=425.87;QD=2.34;SB=7.72 GT:AD:DP:GL:GQ 0/1:98,71:68:-66.40,-20.53,-203.96:99
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chr1 2606555 rs55641610 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=142;Dels=0.00;HRun=0;HaplotypeScore=86.83;MQ=22.44;MQ0=15;OQ=611.31;QD=4.31;SB=-217.67 GT:AD:DP:GL:GQ 0/1:66,72:64:-83.70,-19.29,-186.04:99
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chr1 2606567 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=132;Dels=0.00;HRun=1;HaplotypeScore=115.34;MQ=22.30;MQ0=19;OQ=114.64;QD=0.87;SB=-3.31 GT:AD:DP:GL:GQ 0/1:113,14:59:-32.52,-17.77,-180.72:99
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chr1 2606594 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=41.70;MQ=23.56;MQ0=16;OQ=75.03;QD=0.63;SB=28.48 GT:AD:DP:GL:GQ 0/1:83,36:66:-30.68,-19.89,-255.45:99
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chr1 2606643 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=0;HaplotypeScore=21.80;MQ=30.64;MQ0=12;OQ=1721.23;QD=15.37;SB=-793.00 GT:AD:DP:GL:GQ 0/1:46,66:82:-200.11,-24.70,-94.60:99
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chr1 2606798 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=16.08;MQ=18.33;MQ0=33;OQ=155.22;QD=2.13;SB=-92.26 GT:AD:DP:GL:GQ 0/1:36,34:23:-29.36,-10.56,-75.52:99
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chr1 2607095 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=174;Dels=0.00;HRun=0;HaplotypeScore=115.98;MQ=20.76;MQ0=93;OQ=63.80;QD=0.37;SB=-35.41 GT:AD:DP:GL:GQ 0/1:164,10:54:-25.95,-16.29,-195.04:96.63
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chr1 2607127 rs28555663 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=120;Dels=0.00;HRun=0;HaplotypeScore=71.01;MQ=31.05;MQ0=18;OQ=1628.35;QD=13.57;SB=-397.76 GT:AD:DP:GL:GQ 0/1:27,60:78:-215.41,-49.30,-93.76:99
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chr1 2607162 rs61763542 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=215;Dels=0.00;HRun=1;HaplotypeScore=85.56;MQ=29.70;MQ0=30;OQ=368.13;QD=1.71;SB=-56.56 GT:AD:DP:GL:GQ 0/1:178,35:124:-77.45,-37.35,-360.47:99
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chr1 2607163 . G A 13.12 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=217;Dels=0.00;HRun=2;HaplotypeScore=87.56;MQ=29.61;MQ0=31;QD=0.06;SB=-11.83 GT:AD:DP:GL:GQ 0/1:187,28:129:-43.44,-38.86,-425.52:45.74
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chr1 2607204 . G C 43.54 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=196;Dels=0.00;HRun=0;HaplotypeScore=43.04;MQ=31.64;MQ0=30;QD=0.22;SB=-29.18 GT:AD:DP:GL:GQ 0/1:170,26:109:-40.50,-32.86,-424.67:76.37
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chr1 2607231 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=1;HaplotypeScore=72.77;MQ=31.17;MQ0=24;OQ=125.47;QD=0.87;SB=-42.71 GT:AD:DP:GL:GQ 0/1:125,19:75:-38.43,-22.60,-228.94:99
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chr1 2607242 rs61763545 G T 46.85 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=118;Dels=0.00;HRun=0;HaplotypeScore=36.90;MQ=31.04;MQ0=29;QD=0.40;SB=43.89 GT:AD:DP:GL:GQ 0/1:84,30:54:-24.25,-16.28,-154.98:79.69
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chr1 2607298 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=148;Dels=0.00;HRun=0;HaplotypeScore=68.12;MQ=14.41;MQ0=82;OQ=66.90;QD=0.45;SB=20.86 GT:AD:DP:GL:GQ 0/1:129,10:21:-19.87,-9.89,-58.18:99
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chr1 2607355 rs61765818 C T 12.91 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=118;Dels=0.00;HRun=0;HaplotypeScore=56.37;MQ=16.61;MQ0=62;QD=0.11;SB=29.06 GT:AD:DP:GL:GQ 0/1:90,27:23:-11.49,-6.94,-61.93:45.51
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chr1 2607366 . A G 13.05 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=108;Dels=0.00;HRun=2;HaplotypeScore=34.50;MQ=17.10;MQ0=55;QD=0.12;SB=29.12 GT:AD:DP:GL:GQ 0/1:102,6:22:-11.19,-6.63,-75.23:45.67
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chr1 2607368 rs61763546 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=35.70;MQ=17.26;MQ0=53;OQ=303.93;QD=2.87;SB=-146.92 GT:AD:DP:GL:GQ 0/1:46,59:26:-41.51,-7.84,-47.60:99
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chr1 2607409 . G A 15.60 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=56.89;MQ=28.46;MQ0=6;QD=0.24;SB=38.64 GT:AD:DP:GL:GQ 0/1:41,24:37:-15.99,-11.15,-106.07:48.31
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chr1 2607422 rs56133135 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=3;HaplotypeScore=19.37;MQ=32.69;MQ0=0;OQ=693.38;QD=12.61;SB=2.03 GT:AD:DP:GL:GQ 0/1:26,28:39:-84.38,-11.76,-83.37:99
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chr1 2607465 rs61763547 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=40.98;MQ=25.86;MQ0=35;OQ=388.51;QD=4.63;SB=-36.91 GT:AD:DP:GL:GQ 0/1:60,23:42:-54.79,-12.65,-94.92:99
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chr1 2607520 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=176;Dels=0.00;HRun=1;HaplotypeScore=43.55;MQ=22.90;MQ0=79;OQ=121.23;QD=0.69;SB=8.68 GT:AD:DP:GL:GQ 0/1:158,14:67:-35.59,-20.18,-205.83:99
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chr1 2607562 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=147;Dels=0.00;HRun=0;HaplotypeScore=58.31;MQ=31.97;MQ0=28;OQ=222.37;QD=1.51;SB=-108.77 GT:AD:DP:GL:GQ 0/1:118,16:74:-51.32,-25.80,-191.60:99
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chr1 2607568 rs61763549 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=135;Dels=0.00;HRun=0;HaplotypeScore=80.59;MQ=33.84;MQ0=16;OQ=1066.74;QD=7.90;SB=-480.14 GT:AD:DP:GL:GQ 0/1:64,70:72:-131.67,-21.72,-176.26:99
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chr1 2607579 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=1;HaplotypeScore=59.49;MQ=32.83;MQ0=15;OQ=376.87;QD=2.37;SB=-134.64 GT:AD:DP:GL:GQ 0/1:129,30:89:-67.78,-26.81,-244.98:99
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chr1 2607622 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=166;Dels=0.00;HRun=1;HaplotypeScore=74.61;MQ=28.79;MQ0=41;OQ=121.71;QD=0.73;SB=1.49 GT:AD:DP:GL:GQ 0/1:144,22:68:-35.94,-20.49,-206.61:99
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chr1 2607635 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=177;Dels=0.00;HRun=1;HaplotypeScore=30.67;MQ=24.43;MQ0=69;OQ=168.44;QD=0.95;SB=-26.38 GT:AD:DP:GL:GQ 0/1:144,24:48:-34.61,-14.49,-156.01:99
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chr1 2607650 . G A 36.08 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=194;Dels=0.00;HRun=1;HaplotypeScore=75.42;MQ=22.15;MQ0=92;QD=0.19;SB=17.06 GT:AD:DP:GL:GQ 0/1:183,11:48:-21.35,-14.46,-155.19:68.92
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chr1 2607670 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=229;Dels=0.00;HRun=0;HaplotypeScore=160.50;MQ=16.74;MQ0=141;OQ=99.29;QD=0.43;SB=62.11 GT:AD:DP:GL:GQ 0/1:219,9:33:-23.18,-9.97,-80.62:99
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chr1 2607674 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=226;Dels=0.00;HRun=0;HaplotypeScore=115.26;MQ=15.31;MQ0=147;OQ=144.37;QD=0.64;SB=59.23 GT:AD:DP:GL:GQ 0/1:144,82:32:-27.37,-9.65,-111.07:99
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chr1 2607705 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=307;Dels=0.00;HRun=0;HaplotypeScore=135.41;MQ=9.50;MQ0=238;OQ=88.23;QD=0.29;SB=44.16 GT:AD:DP:GL:GQ 0/1:293,13:26:-19.94,-7.83,-70.73:99
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chr1 2607732 . A G 46.69 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=264;Dels=0.00;HRun=0;HaplotypeScore=160.28;MQ=9.40;MQ0=205;QD=0.18;SB=38.16 GT:AD:DP:GL:GQ 0/1:246,15:21:-14.28,-6.33,-70.03:79.52
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chr1 2607768 . C G 49.76 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=0;HaplotypeScore=95.94;MQ=10.01;MQ0=124;QD=0.30;SB=-3.98 GT:AD:DP:GL:GQ 0/1:136,25:16:-13.08,-4.82,-52.20:82.60
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chr1 2607891 rs7416366 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=122;Dels=0.00;HRun=0;HaplotypeScore=58.84;MQ=34.41;MQ0=14;OQ=1644.48;QD=13.48;SB=-506.65 GT:AD:DP:GL:GQ 0/1:59,63:73:-189.73,-22.00,-69.36:99
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chr1 2607919 . C G 24.55 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=221;Dels=0.00;HRun=0;HaplotypeScore=83.78;MQ=30.54;MQ0=25;QD=0.11;SB=109.84 GT:AD:DP:GL:GQ 0/1:205,16:120:-41.91,-36.17,-462.22:57.38
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chr1 2607925 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=225;Dels=0.00;HRun=1;HaplotypeScore=102.41;MQ=29.59;MQ0=28;OQ=208.07;QD=0.92;SB=12.89 GT:AD:DP:GL:GQ 0/1:171,51:116:-59.04,-34.95,-344.67:99
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chr1 2607990 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=215;Dels=0.00;HRun=0;HaplotypeScore=62.53;MQ=19.75;MQ0=60;OQ=143.02;QD=0.67;SB=-11.93 GT:AD:DP:GL:GQ 0/1:169,45:70:-38.68,-21.10,-211.21:99
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chr1 2608016 rs61763552 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=154;Dels=0.00;HRun=1;HaplotypeScore=33.08;MQ=18.38;MQ0=35;OQ=157.73;QD=1.02;SB=-56.91 GT:AD:DP:GL:GQ 0/1:74,80:55:-35.63,-16.57,-153.82:99
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chr1 2608035 rs60386739 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=141;Dels=0.00;HRun=1;HaplotypeScore=68.10;MQ=20.23;MQ0=19;OQ=139.83;QD=0.99;SB=-34.61 GT:AD:DP:GL:GQ 0/1:123,11:68:-37.75,-20.49,-226.75:99
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chr1 2608187 . T A 19.78 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=144;Dels=0.00;HRun=0;HaplotypeScore=100.91;MQ=20.82;MQ0=35;QD=0.14;SB=68.21 GT:AD:DP:GL:GQ 0/1:73,68:45:-18.82,-13.56,-139.70:52.57
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chr1 2608269 rs28464857 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=186;Dels=0.00;HRun=0;HaplotypeScore=134.04;MQ=20.25;MQ0=84;OQ=169.32;QD=0.91;SB=-92.57 GT:AD:DP:GL:GQ 0/1:170,15:57:-37.38,-17.17,-176.94:99
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chr1 2608484 rs28436796 C G 0.48 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=9.24;MQ=47.84;MQ0=1;OQ=487.04;QD=5.47;SB=-196.59 GT:AD:DP:GL:GQ 0/1:66,21:74:-74.31,-22.32,-232.63:99
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chr1 2608664 rs4074927 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=182;Dels=0.01;HRun=1;HaplotypeScore=99.89;MQ=34.06;MQ0=19;OQ=2375.90;QD=13.05;SB=-939.83 GT:AD:DP:GL:GQ 0/1:91,85:111:-274.32,-33.45,-107.97:99
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chr1 2608867 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=118;Dels=0.01;HRun=2;HaplotypeScore=20.49;MQ=45.47;MQ0=7;OQ=974.46;QD=8.26;SB=-210.08 GT:AD:DP:GL:GQ 0/1:62,55:87:-126.99,-26.26,-221.81:99
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chr1 2609068 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=221;Dels=0.00;HRun=3;HaplotypeScore=118.35;MQ=34.13;MQ0=24;OQ=526.94;QD=2.38;SB=137.47 GT:AD:DP:GL:GQ 0/1:93,112:118:-95.11,-39.14,-362.67:99
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chr1 2609088 rs6604995 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=244;Dels=0.00;HRun=1;HaplotypeScore=80.61;MQ=35.58;MQ0=31;OQ=2415.96;QD=9.90;SB=-1183.52 GT:AD:DP:GL:GQ 0/1:168,75:136:-285.85,-40.97,-232.15:99
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chr1 2609117 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=242;Dels=0.00;HRun=0;HaplotypeScore=86.85;MQ=40.05;MQ0=22;OQ=564.86;QD=2.33;SB=136.90 GT:AD:DP:GL:GQ 0/1:188,54:147:-104.06,-44.29,-429.75:99
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chr1 2609119 . T A 10.35 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=240;Dels=0.00;HRun=1;HaplotypeScore=66.02;MQ=40.40;MQ0=19;QD=0.04;SB=-13.71 GT:AD:DP:GL:GQ 0/1:216,24:153:-50.36,-46.09,-521.00:42.77
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chr1 2609136 rs6680012 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=252;Dels=0.00;HRun=0;HaplotypeScore=138.11;MQ=41.19;MQ0=14;OQ=1288.83;QD=5.11;SB=-20.42 GT:AD:DP:GL:GQ 0/1:111,140:159:-180.06,-47.89,-385.06:99
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chr1 2609225 rs61765683 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=279;Dels=0.00;HRun=0;HaplotypeScore=196.30;MQ=28.44;MQ0=55;OQ=715.74;QD=2.57;SB=-196.88 GT:AD:DP:GL:GQ 0/1:215,53:119:-124.19,-49.34,-290.35:99
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chr1 2609273 rs4648680 A T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=189;Dels=0.00;HRun=0;HaplotypeScore=41.61;MQ=19.84;MQ0=34;OQ=2444.19;QD=12.93;SB=-891.61 GT:AD:DP:GL:GQ 1/1:0,186:71:-248.05,-21.40,-0.04:99
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chr1 2609305 rs6672446 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=196;Dels=0.00;HRun=1;HaplotypeScore=44.27;MQ=21.28;MQ0=40;OQ=1443.42;QD=7.36;SB=-313.15 GT:AD:DP:GL:GQ 0/1:121,75:90:-174.74,-27.11,-141.16:99
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chr1 2609332 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=191;Dels=0.00;HRun=1;HaplotypeScore=25.23;MQ=24.42;MQ0=31;OQ=1010.88;QD=5.29;SB=-411.33 GT:AD:DP:GL:GQ 0/1:130,60:101:-134.82,-30.45,-224.41:99
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chr1 2609354 rs61765685 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=264;Dels=0.00;HRun=0;HaplotypeScore=43.36;MQ=26.38;MQ0=47;OQ=877.95;QD=3.33;SB=-290.40 GT:AD:DP:GL:GQ 0/1:123,140:122:-127.86,-36.78,-326.56:99
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chr1 2609381 . C A 220.25 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=378;Dels=0.00;HRun=0;HaplotypeScore=205.42;MQ=26.54;MQ0=63;QD=0.58;SB=-92.16 GT:AD:DP:GL:GQ 0/1:327,50:132:-65.07,-39.76,-400.14:99
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chr1 2609387 . C A 185.57 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=439;Dels=0.00;HRun=0;HaplotypeScore=250.48;MQ=26.77;MQ0=67;QD=0.42;SB=5.95 GT:AD:DP:GL:GQ 0/1:387,52:145:-65.52,-43.68,-445.14:99
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chr1 2609389 . C T 92.18 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=450;Dels=0.00;HRun=0;HaplotypeScore=251.37;MQ=26.71;MQ0=67;QD=0.20;SB=175.01 GT:AD:DP:GL:GQ 0/1:391,58:155:-59.19,-46.69,-504.94:99
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chr1 2609452 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=378;Dels=0.00;HRun=2;HaplotypeScore=241.26;MQ=31.94;MQ0=54;OQ=971.37;QD=2.57;SB=-357.67 GT:AD:DP:GL:GQ 0/1:305,73:146:-144.40,-43.98,-395.70:99
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chr1 2609455 rs58318704 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=356;Dels=0.00;HRun=0;HaplotypeScore=220.51;MQ=31.91;MQ0=49;OQ=2158.97;QD=6.06;SB=-1017.43 GT:AD:DP:GL:GQ 0/1:79,219:141:-270.22,-51.04,-310.17:99
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chr1 2609547 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=187;Dels=0.00;HRun=1;HaplotypeScore=66.94;MQ=35.31;MQ0=17;OQ=674.03;QD=3.60;SB=-244.40 GT:AD:DP:GL:GQ 0/1:135,50:133:-110.75,-40.07,-356.06:99
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chr1 2609555 rs28575476 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=171;Dels=0.00;HRun=0;HaplotypeScore=68.51;MQ=35.35;MQ0=12;OQ=1288.35;QD=7.53;SB=-481.51 GT:AD:DP:GL:GQ 0/1:88,78:120:-168.27,-36.15,-252.36:99
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chr1 2609591 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=172;Dels=0.00;HRun=0;HaplotypeScore=34.97;MQ=33.84;MQ0=11;OQ=2484.13;QD=14.44;SB=-938.03 GT:AD:DP:GL:GQ 0/1:84,88:135:-292.43,-40.73,-257.29:99
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chr1 2609644 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=353;Dels=0.00;HRun=1;HaplotypeScore=213.12;MQ=29.19;MQ0=26;OQ=1530.86;QD=4.34;SB=-311.00 GT:AD:DP:GL:GQ 0/1:205,118:177:-209.80,-53.43,-491.62:99
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chr1 2609668 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=375;Dels=0.01;HRun=0;HaplotypeScore=299.53;MQ=28.31;MQ0=38;OQ=119.51;QD=0.32;SB=-39.52 GT:AD:DP:GL:GQ 0/1:330,33:168:-65.89,-50.66,-484.68:99
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chr1 2609669 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=370;Dels=0.01;HRun=3;HaplotypeScore=295.29;MQ=28.20;MQ0=38;OQ=509.10;QD=1.38;SB=-148.65 GT:AD:DP:GL:GQ 0/1:202,146:144:-97.68,-43.48,-474.43:99
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chr1 2609682 . T C 10.13 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=358;Dels=0.00;HRun=1;HaplotypeScore=318.76;MQ=28.20;MQ0=43;QD=0.03;SB=29.61 GT:AD:DP:GL:GQ 0/1:328,21:141:-56.49,-52.23,-495.36:42.52
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chr1 2609688 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=357;Dels=0.00;HRun=0;HaplotypeScore=304.49;MQ=28.68;MQ0=43;OQ=540.31;QD=1.51;SB=-146.86 GT:AD:DP:GL:GQ 0/1:288,44:135:-97.99,-40.67,-405.76:99
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chr1 2609713 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=325;Dels=0.00;HRun=2;HaplotypeScore=235.46;MQ=29.07;MQ0=50;OQ=183.31;QD=0.56;SB=-70.06 GT:AD:DP:GL:GQ 0/1:293,30:98:-51.18,-29.56,-309.43:99
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chr1 2609764 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=67.69;MQ=41.15;MQ0=28;OQ=547.70;QD=3.06;SB=-220.32 GT:AD:DP:GL:GQ 0/1:154,22:97:-87.34,-29.29,-296.73:99
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chr1 2609770 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=0;HaplotypeScore=51.04;MQ=41.72;MQ0=28;OQ=50.39;QD=0.29;SB=107.80 GT:AD:DP:GL:GQ 0/1:92,83:96:-37.25,-28.93,-332.67:83.23
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chr1 2609843 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=18.24;MQ=41.49;MQ0=22;OQ=514.69;QD=3.78;SB=-103.96 GT:AD:DP:GL:GQ 0/1:89,47:97:-83.99,-29.23,-261.15:99
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chr1 2609879 rs60995822 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=124;Dels=0.00;HRun=0;HaplotypeScore=53.77;MQ=31.75;MQ0=20;OQ=1688.97;QD=13.62;SB=-590.07 GT:AD:DP:GL:GQ 0/1:21,102:69:-192.97,-20.79,-48.84:99
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chr1 2609938 rs61765691 T C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=210;Dels=0.00;HRun=0;HaplotypeScore=78.06;MQ=23.32;MQ0=40;OQ=3717.12;QD=17.70;SB=-1751.06 GT:AD:DP:GL:GQ 1/1:3,206:105:-370.71,-31.64,-0.05:99
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chr1 2610024 rs60041779 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=125;Dels=0.00;HRun=0;HaplotypeScore=93.88;MQ=40.95;MQ0=10;OQ=112.09;QD=0.90;SB=83.51 GT:AD:DP:GL:GQ 0/1:77,47:69:-35.30,-20.81,-248.60:99
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chr1 2610174 rs61765693 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=331;Dels=0.00;HRun=1;HaplotypeScore=45.52;MQ=28.55;MQ0=47;OQ=762.69;QD=2.30;SB=-121.02 GT:AD:DP:GL:GQ 0/1:162,168:127:-117.91,-38.35,-381.81:99
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chr1 2610186 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=354;Dels=0.00;HRun=0;HaplotypeScore=102.42;MQ=26.42;MQ0=47;OQ=1467.29;QD=4.14;SB=-129.66 GT:AD:DP:GL:GQ 0/1:303,49:127:-191.55,-41.54,-284.06:99
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chr1 2610220 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=358;Dels=0.00;HRun=0;HaplotypeScore=158.15;MQ=26.10;MQ0=33;OQ=52.73;QD=0.15;SB=-33.83 GT:AD:DP:GL:GQ 0/1:323,33:128:-47.12,-38.57,-405.99:85.57
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|
chr1 2610228 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=347;Dels=0.00;HRun=0;HaplotypeScore=258.31;MQ=25.86;MQ0=32;OQ=417.23;QD=1.20;SB=-217.33 GT:AD:DP:GL:GQ 0/1:235,103:129:-86.15,-41.14,-407.87:99
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chr1 2610288 rs61765694 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=240;Dels=0.00;HRun=0;HaplotypeScore=161.76;MQ=34.28;MQ0=24;OQ=460.60;QD=1.92;SB=-235.27 GT:AD:DP:GL:GQ 0/1:119,106:122:-91.58,-42.24,-307.51:99
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chr1 2610304 rs57887432 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=214;Dels=0.00;HRun=1;HaplotypeScore=126.12;MQ=34.24;MQ0=19;OQ=2078.47;QD=9.71;SB=-912.59 GT:AD:DP:GL:GQ 0/1:141,72:106:-243.09,-31.96,-204.85:99
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chr1 2610325 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=0;HaplotypeScore=58.60;MQ=38.14;MQ0=8;OQ=610.61;QD=3.94;SB=-307.83 GT:AD:DP:GL:GQ 0/1:117,38:94:-92.67,-28.33,-261.00:99
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chr1 2610342 rs58318302 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=111;Dels=0.00;HRun=0;HaplotypeScore=64.33;MQ=41.99;MQ0=6;OQ=1628.60;QD=14.67;SB=-308.68 GT:AD:DP:GL:GQ 0/1:43,66:83:-191.15,-25.00,-121.94:99
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chr1 2610414 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=331;Dels=0.00;HRun=0;HaplotypeScore=235.51;MQ=30.47;MQ0=22;OQ=935.47;QD=2.83;SB=-429.72 GT:AD:DP:GL:GQ 0/1:275,53:139:-142.25,-45.42,-348.13:99
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chr1 2610415 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=337;Dels=0.00;HRun=1;HaplotypeScore=237.48;MQ=30.55;MQ0=22;OQ=1122.12;QD=3.33;SB=-419.64 GT:AD:DP:GL:GQ 0/1:156,170:150:-188.30,-72.80,-443.59:99
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chr1 2610441 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=398;Dels=0.00;HRun=0;HaplotypeScore=305.07;MQ=30.41;MQ0=29;OQ=523.24;QD=1.31;SB=-254.15 GT:AD:DP:GL:GQ 0/1:145,184:159:-118.96,-63.35,-451.63:99
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chr1 2610473 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=351;Dels=0.00;HRun=1;HaplotypeScore=331.68;MQ=29.41;MQ0=37;OQ=1376.69;QD=3.92;SB=-162.02 GT:AD:DP:GL:GQ 0/1:286,64:127:-179.22,-38.27,-253.78:99
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chr1 2610474 rs28418735 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=350;Dels=0.03;HRun=3;HaplotypeScore=309.89;MQ=29.49;MQ0=38;OQ=65.43;QD=0.19;SB=221.76 GT:AD:DP:GL:GQ 0/1:271,68:132:-49.66,-39.83,-486.19:98.27
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chr1 2610506 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=199;Dels=0.00;HRun=0;HaplotypeScore=143.13;MQ=32.96;MQ0=24;OQ=241.48;QD=1.21;SB=-28.90 GT:AD:DP:GL:GQ 0/1:85,107:74:-49.73,-22.29,-227.60:99
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chr1 2610517 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=3;HaplotypeScore=142.26;MQ=34.55;MQ0=20;OQ=220.80;QD=1.35;SB=75.68 GT:AD:DP:GL:GQ 0/1:65,82:63:-52.24,-26.88,-202.10:99
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chr1 2610573 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=0;HaplotypeScore=104.72;MQ=37.56;MQ0=8;OQ=553.10;QD=3.29;SB=-39.90 GT:AD:DP:GL:GQ 0/1:88,80:80:-82.71,-24.12,-188.70:99
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chr1 2610594 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=122;Dels=0.02;HRun=0;HaplotypeScore=84.91;MQ=43.41;MQ0=3;OQ=1001.55;QD=8.21;SB=-522.00 GT:AD:DP:GL:GQ 0/1:52,66:81:-127.86,-24.42,-216.74:99
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chr1 2610598 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=2;HaplotypeScore=59.26;MQ=42.74;MQ0=3;OQ=1239.36;QD=9.61;SB=-593.34 GT:AD:DP:GL:GQ 0/1:51,77:86:-153.17,-25.95,-194.38:99
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chr1 2610632 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=184;Dels=0.00;HRun=0;HaplotypeScore=151.91;MQ=39.51;MQ0=6;OQ=369.19;QD=2.01;SB=-62.83 GT:AD:DP:GL:GQ 0/1:154,30:112:-73.95,-33.75,-316.70:99
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chr1 2610635 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=0;HaplotypeScore=139.15;MQ=38.51;MQ0=6;OQ=274.48;QD=1.35;SB=-41.80 GT:AD:DP:GL:GQ 0/1:164,37:123:-67.82,-37.08,-455.22:99
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chr1 2610665 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=215;Dels=0.00;HRun=1;HaplotypeScore=315.73;MQ=36.51;MQ0=11;OQ=1591.77;QD=7.40;SB=-670.77 GT:AD:DP:GL:GQ 0/1:149,65:109:-195.35,-32.89,-252.45:99
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chr1 2610712 rs55957791 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=278;Dels=0.00;HRun=0;HaplotypeScore=331.10;MQ=30.73;MQ0=38;OQ=351.17;QD=1.26;SB=50.69 GT:AD:DP:GL:GQ 0/1:157,116:120:-81.22,-42.82,-389.65:99
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chr1 2610714 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=276;Dels=0.03;HRun=1;HaplotypeScore=276.80;MQ=30.44;MQ0=40;OQ=799.29;QD=2.90;SB=-215.74 GT:AD:DP:GL:GQ 0/1:208,58:112:-116.35,-33.14,-272.42:99
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chr1 2610938 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=0;HaplotypeScore=61.08;MQ=40.33;MQ0=9;OQ=2312.34;QD=13.21;SB=-496.11 GT:AD:DP:GL:GQ 0/1:80,95:114:-268.87,-34.35,-152.15:99
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chr1 2610982 rs61765696 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=168;Dels=0.00;HRun=1;HaplotypeScore=77.40;MQ=36.09;MQ0=4;OQ=730.22;QD=4.35;SB=-250.72 GT:AD:DP:GL:GQ 0/1:133,34:93:-104.33,-28.02,-240.35:99
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chr1 2610988 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=177;Dels=0.00;HRun=2;HaplotypeScore=104.66;MQ=37.43;MQ0=4;OQ=180.91;QD=1.02;SB=-14.66 GT:AD:DP:GL:GQ 0/1:124,53:103:-52.42,-31.04,-397.79:99
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chr1 2611005 rs28657620 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=175;Dels=0.00;HRun=0;HaplotypeScore=240.92;MQ=35.09;MQ0=11;OQ=589.04;QD=3.37;SB=-319.71 GT:AD:DP:GL:GQ 0/1:148,26:83:-87.21,-25.02,-177.35:99
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chr1 2611008 rs61765697 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=177;Dels=0.00;HRun=0;HaplotypeScore=268.58;MQ=34.75;MQ0=11;OQ=814.23;QD=4.60;SB=-203.16 GT:AD:DP:GL:GQ 0/1:94,75:81:-109.12,-24.42,-183.44:99
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chr1 2611037 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=212;Dels=0.00;HRun=3;HaplotypeScore=47.75;MQ=33.75;MQ0=25;OQ=310.37;QD=1.46;SB=128.35 GT:AD:DP:GL:GQ 0/1:180,32:105:-65.95,-31.63,-301.79:99
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chr1 2611075 . C A 675.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=198;Dels=0.00;HRun=0;HaplotypeScore=289.45;MQ=35.67;MQ0=15;QD=3.41;SB=-245.12 GT:AD:DP:GL:GQ 0/1:138,49:92:-105.75,-34.95,-225.78:99
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chr1 2611076 . C A 59.41 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=199;Dels=0.00;HRun=0;HaplotypeScore=288.77;MQ=35.79;MQ0=15;QD=0.30;SB=-43.36 GT:AD:DP:GL:GQ 0/1:179,20:91:-36.64,-27.42,-281.03:92.25
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chr1 2611077 . T C 1287 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=199;Dels=0.00;HRun=3;HaplotypeScore=272.49;MQ=35.97;MQ0=16;QD=6.47;SB=-518.91 GT:AD:DP:GL:GQ 0/1:56,142:93:-160.01,-28.02,-190.32:99
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chr1 2611149 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=243;Dels=0.00;HRun=0;HaplotypeScore=128.93;MQ=29.89;MQ0=30;OQ=118.35;QD=0.49;SB=-20.53 GT:AD:DP:GL:GQ 0/1:190,53:92:-42.83,-27.72,-276.95:99
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chr1 2611155 rs61765698 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=245;Dels=0.00;HRun=0;HaplotypeScore=130.50;MQ=30.96;MQ0=25;OQ=203.44;QD=0.83;SB=-29.37 GT:AD:DP:GL:GQ 0/1:191,50:97:-52.56,-28.94,-359.64:99
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chr1 2611193 rs61029569 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=154;Dels=0.01;HRun=0;HaplotypeScore=78.67;MQ=38.69;MQ0=8;OQ=1417.86;QD=9.21;SB=-633.08 GT:AD:DP:GL:GQ 0/1:43,100:84:-170.37,-25.30,-121.64:99
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chr1 2611212 rs28774982 C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=125;Dels=0.00;HRun=0;HaplotypeScore=29.20;MQ=42.14;MQ0=3;OQ=3660.18;QD=29.28;SB=-1724.01 GT:AD:DP:GL:GQ 1/1:0,124:85:-365.02,-25.61,-0.03:99
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chr1 2611218 rs28581654 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=132;Dels=0.00;HRun=1;HaplotypeScore=33.13;MQ=42.84;MQ0=2;OQ=1779.64;QD=13.48;SB=-735.33 GT:AD:DP:GL:GQ 0/1:39,85:92:-211.73,-30.48,-139.53:99
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chr1 2611236 rs61765699 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=181;Dels=0.00;HRun=1;HaplotypeScore=137.95;MQ=39.80;MQ0=14;OQ=1598.49;QD=8.83;SB=-821.38 GT:AD:DP:GL:GQ 0/1:99,78:96:-192.06,-28.93,-137.58:99
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chr1 2611310 . G C 25 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=214;Dels=0.00;HRun=2;HaplotypeScore=68.15;MQ=29.71;MQ0=28;QD=0.12;SB=77.64 GT:AD:DP:GL:GQ 0/1:182,25:80:-33.47,-27.69,-302.15:57.82
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chr1 2611331 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=170;Dels=0.00;HRun=0;HaplotypeScore=171.01;MQ=28.57;MQ0=19;OQ=169.19;QD=1.00;SB=32.13 GT:AD:DP:GL:GQ 0/1:101,40:47:-34.37,-14.17,-141.57:99
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chr1 2611336 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=160;Dels=0.00;HRun=0;HaplotypeScore=142.89;MQ=27.04;MQ0=20;OQ=617.89;QD=3.86;SB=-201.64 GT:AD:DP:GL:GQ 0/1:32,126:45:-78.63,-13.56,-88.17:99
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chr1 2611359 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=160;Dels=0.00;HRun=2;HaplotypeScore=100.78;MQ=27.44;MQ0=19;OQ=605.72;QD=3.79;SB=-223.68 GT:AD:DP:GL:GQ 0/1:36,124:39:-75.62,-11.76,-86.35:99
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chr1 2611360 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=172;Dels=0.01;HRun=0;HaplotypeScore=100.05;MQ=27.08;MQ0=24;OQ=169.30;QD=0.98;SB=23.10 GT:AD:DP:GL:GQ 0/1:135,36:41:-32.56,-12.35,-112.95:99
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chr1 2611385 . A G 25.43 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=202;Dels=0.00;HRun=0;HaplotypeScore=141.90;MQ=28.13;MQ0=36;QD=0.13;SB=77.25 GT:AD:DP:GL:GQ 0/1:184,18:55:-22.41,-16.58,-186.56:58.25
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chr1 2611395 . C A 10.87 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=190;Dels=0.00;HRun=1;HaplotypeScore=214.46;MQ=28.47;MQ0=34;QD=0.06;SB=44.16 GT:AD:DP:GL:GQ 0/1:160,27:48:-18.79,-14.46,-145.75:43.33
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chr1 2611409 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=176;Dels=0.00;HRun=0;HaplotypeScore=170.63;MQ=30.96;MQ0=28;OQ=246.71;QD=1.40;SB=-63.23 GT:AD:DP:GL:GQ 0/1:66,90:51:-46.30,-18.34,-146.08:99
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chr1 2611417 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=201.92;MQ=31.46;MQ0=25;OQ=276.60;QD=1.55;SB=-61.04 GT:AD:DP:GL:GQ 0/1:50,88:59:-67.59,-36.64,-159.73:99
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chr1 2611440 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=180;Dels=0.00;HRun=0;HaplotypeScore=297.52;MQ=31.70;MQ0=24;OQ=229.57;QD=1.28;SB=65.18 GT:AD:DP:GL:GQ 0/1:152,22:68:-46.74,-20.49,-196.70:99
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chr1 2611441 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=175;Dels=0.00;HRun=4;HaplotypeScore=281.36;MQ=31.83;MQ0=24;OQ=677.61;QD=3.87;SB=-187.78 GT:AD:DP:GL:GQ 0/1:57,116:70:-92.13,-21.09,-155.28:99
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chr1 2611460 . G C 143.72 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=209;Dels=0.02;HRun=1;HaplotypeScore=206.53;MQ=28.72;MQ0=29;QD=0.69;SB=95.33 GT:AD:DP:GL:GQ 0/1:169,33:67:-37.89,-20.23,-223.47:99
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chr1 2611462 . G C 346.96 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=206;Dels=0.00;HRun=0;HaplotypeScore=159.36;MQ=28.99;MQ0=26;QD=1.68;SB=95.35 GT:AD:DP:GL:GQ 0/1:176,30:73:-60.00,-22.02,-249.89:99
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chr1 2611473 . C A 226.87 DPFilter;HARD_TO_VALIDATE;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=197;Dels=0.00;HRun=0;HaplotypeScore=716.79;MQ=27.80;MQ0=23;QD=1.15;SB=98.33 GT:AD:DP:GL:GQ 0/1:167,28:68:-46.46,-20.49,-193.68:99
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chr1 2611481 . A C 47.15 DPFilter;HARD_TO_VALIDATE;Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=213;Dels=0.00;HRun=3;HaplotypeScore=376.14;MQ=26.76;MQ0=25;QD=0.22;SB=4.29 GT:AD:DP:GL:GQ 0/1:158,51:68:-32.16,-24.16,-211.95:79.99
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chr1 2611482 rs28657015 C T 493.48 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=216;Dels=0.03;HRun=0;HaplotypeScore=277.76;MQ=26.81;MQ0=24;QD=2.28;SB=-58.33 GT:AD:DP:GL:GQ 0/1:180,23:71:-73.42,-20.79,-178.37:99
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chr1 2611484 . G A 123.65 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=217;Dels=0.00;HRun=1;HaplotypeScore=257.24;MQ=26.43;MQ0=26;QD=0.57;SB=52.66 GT:AD:DP:GL:GQ 0/1:181,35:66:-35.53,-19.88,-208.25:99
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chr1 2611506 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=243;Dels=0.00;HRun=1;HaplotypeScore=227.39;MQ=23.92;MQ0=38;OQ=83.72;QD=0.34;SB=1.08 GT:AD:DP:GL:GQ 0/1:205,36:67:-31.84,-20.19,-209.30:99
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|
chr1 2611529 . G C 1369.67 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=185;Dels=0.00;HRun=0;HaplotypeScore=198.19;MQ=24.21;MQ0=25;QD=7.40;SB=-595.38 GT:AD:DP:GL:GQ 0/1:36,136:57:-168.20,-27.95,-90.83:99
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chr1 2611531 . T A 49.73 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=186;Dels=0.00;HRun=1;HaplotypeScore=167.31;MQ=24.09;MQ0=26;QD=0.27;SB=30.12 GT:AD:DP:GL:GQ 0/1:175,9:48:-26.14,-17.88,-160.86:82.57
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chr1 2611537 . A C 10.75 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=187;Dels=0.00;HRun=1;HaplotypeScore=150.76;MQ=24.75;MQ0=25;QD=0.06;SB=49.53 GT:AD:DP:GL:GQ 0/1:160,17:47:-21.51,-17.19,-149.44:43.20
|
|
chr1 2611551 . C A 34.16 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=166;Dels=0.02;HRun=1;HaplotypeScore=423.66;MQ=25.51;MQ0=20;QD=0.21;SB=47.16 GT:AD:DP:GL:GQ 0/1:139,17:37:-21.33,-14.63,-112.07:67
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|
chr1 2611559 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=150;Dels=0.01;HRun=3;HaplotypeScore=531.42;MQ=25.48;MQ0=17;OQ=388.67;QD=2.59;SB=-7.62 GT:AD:DP:GL:GQ 0/1:47,82:45:-90.78,-48.63,-105.70:99
|
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chr1 2611586 . G A 21.13 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=158;Dels=0.00;HRun=1;HaplotypeScore=127.50;MQ=28.93;MQ0=18;QD=0.13;SB=47.15 GT:AD:DP:GL:GQ 0/1:123,29:42:-18.05,-12.65,-132.34:53.94
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chr1 2611593 . C A 39.57 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=138;Dels=0.00;HRun=0;HaplotypeScore=189.22;MQ=30.35;MQ0=16;QD=0.29;SB=47.17 GT:AD:DP:GL:GQ 0/1:123,13:39:-18.99,-11.75,-120.10:72.41
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chr1 2611600 . T C 291.60 SnpCluster AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=2;HaplotypeScore=197.17;MQ=32.27;MQ0=10;QD=2.58;SB=-146.84 GT:AD:DP:GL:GQ 0/1:38,66:38:-47.43,-14.99,-100.79:99
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chr1 2611602 . C G 76.87 SnpCluster AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=0;HaplotypeScore=173.17;MQ=32.76;MQ0=9;QD=0.68;SB=-63.17 GT:AD:DP:GL:GQ 0/1:81,31:39:-22.73,-11.76,-142.68:99
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chr1 2611613 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=122.16;MQ=34.85;MQ0=5;OQ=326.72;QD=4.08;SB=-171.57 GT:AD:DP:GL:GQ 0/1:20,59:33:-49.07,-13.11,-79.40:99
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|
chr1 2611623 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=1;HaplotypeScore=114.07;MQ=31.99;MQ0=3;OQ=59.10;QD=0.57;SB=53.18 GT:AD:DP:GL:GQ 0/1:44,51:42:-30.56,-21.37,-135.55:91.94
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|
chr1 2611678 . C A 64.73 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=1;HaplotypeScore=80.70;MQ=27.19;MQ0=13;QD=0.45;SB=-53.00 GT:AD:DP:GL:GQ 0/1:121,21:50:-24.83,-15.07,-143.50:97.56
|
|
chr1 2611679 . C T 18.94 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=138;Dels=0.00;HRun=0;HaplotypeScore=77.77;MQ=26.46;MQ0=13;QD=0.14;SB=-28.00 GT:AD:DP:GL:GQ 0/1:130,7:48:-19.64,-14.46,-152.87:51.72
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|
chr1 2611680 . C A 348.12 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=135;Dels=0.00;HRun=0;HaplotypeScore=72.18;MQ=26.57;MQ0=13;QD=2.58;SB=-130.78 GT:AD:DP:GL:GQ 0/1:71,64:46:-51.95,-13.86,-109.26:99
|
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chr1 2611697 rs28420770 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.01;HRun=1;HaplotypeScore=63.25;MQ=30.55;MQ0=12;OQ=549.37;QD=5.97;SB=-271.47 GT:AD:DP:GL:GQ 0/1:70,21:28:-66.35,-8.13,-30.04:99
|
|
chr1 2611699 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=39.05;MQ=32.12;MQ0=10;OQ=169.31;QD=2.23;SB=14.08 GT:AD:DP:GL:GQ 0/1:20,50:24:-27.45,-7.24,-73.47:99
|
|
chr1 2611710 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=70.70;MQ=31.94;MQ0=10;OQ=120.36;QD=1.56;SB=14.06 GT:AD:DP:GL:GQ 0/1:29,48:25:-22.85,-7.53,-69.69:99
|
|
chr1 2611716 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=60.36;MQ=32.04;MQ0=11;OQ=222.09;QD=2.71;SB=-31.85 GT:AD:DP:GL:GQ 0/1:24,55:26:-33.33,-7.83,-79.05:99
|
|
chr1 2611761 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=2;HaplotypeScore=77.17;MQ=34.64;MQ0=9;OQ=73.97;QD=1.01;SB=-32.72 GT:AD:DP:GL:GQ 0/1:30,33:31:-23.41,-12.73,-88.75:99
|
|
chr1 2611777 . A C 23.19 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=20.98;MQ=38.72;MQ0=5;QD=0.42;SB=23.10 GT:AD:DP:GL:GQ 0/1:24,30:28:-14.03,-8.43,-89.75:56.01
|
|
chr1 2611805 . A G 44.82 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=1;HaplotypeScore=14.04;MQ=39.70;MQ0=6;QD=0.79;SB=-36.77 GT:AD:DP:GL:GQ 0/1:29,28:32:-17.41,-9.64,-104.85:77.66
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|
chr1 2611822 . C T 55.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=121;Dels=0.00;HRun=0;HaplotypeScore=122.77;MQ=30.12;MQ0=10;QD=0.46;SB=-42.84 GT:AD:DP:GL:GQ 0/1:92,29:48:-23.31,-14.48,-136.72:88.30
|
|
chr1 2611823 . G A 42.96 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=122.08;MQ=30.26;MQ0=10;QD=0.35;SB=5.54 GT:AD:DP:GL:GQ 0/1:91,15:51:-29.64,-22.06,-149.48:75.79
|
|
chr1 2611827 . C G 117.16 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=1;HaplotypeScore=109.01;MQ=29.94;MQ0=10;QD=0.92;SB=-46.17 GT:AD:DP:GL:GQ 0/1:97,15:52:-50.99,-35.99,-189.94:99
|
|
chr1 2611857 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=244;Dels=0.00;HRun=1;HaplotypeScore=130.70;MQ=25.34;MQ0=25;OQ=261.41;QD=1.07;SB=-55.24 GT:AD:DP:GL:GQ 0/1:221,22:85:-55.03,-25.61,-242.15:99
|
|
chr1 2611880 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=252;Dels=0.00;HRun=0;HaplotypeScore=242.50;MQ=25.49;MQ0=23;OQ=371.36;QD=1.47;SB=-110.03 GT:AD:DP:GL:GQ 0/1:223,22:91:-74.78,-34.36,-326.09:99
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chr1 2611909 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=0;HaplotypeScore=117.77;MQ=27.67;MQ0=16;OQ=1593.34;QD=8.80;SB=-695.72 GT:AD:DP:GL:GQ 0/1:25,155:74:-184.91,-22.29,-95.32:99
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chr1 2611913 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=162;Dels=0.01;HRun=0;HaplotypeScore=121.10;MQ=28.43;MQ0=16;OQ=688.73;QD=4.25;SB=-310.55 GT:AD:DP:GL:GQ 0/1:24,47:69:-160.80,-88.65,-165.59:99
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chr1 2611940 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=139;Dels=0.00;HRun=1;HaplotypeScore=46.12;MQ=30.62;MQ0=15;OQ=640.18;QD=4.61;SB=-181.43 GT:AD:DP:GL:GQ 0/1:50,89:56:-84.19,-16.88,-155.00:99
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chr1 2611948 . A C 23.15 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=138;Dels=0.00;HRun=1;HaplotypeScore=36.39;MQ=28.65;MQ0=12;QD=0.17;SB=47.17 GT:AD:DP:GL:GQ 0/1:116,20:55:-22.17,-16.57,-171.47:55.97
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chr1 2612014 rs28499205 G C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=56.64;MQ=32.76;MQ0=15;OQ=1145.21;QD=14.50;SB=-563.07 GT:AD:DP:GL:GQ 1/1:1,78:27:-118.11,-8.13,-0.01:81.27
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chr1 2612058 rs61765702 C T 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=180;Dels=0.00;HRun=0;HaplotypeScore=18.96;MQ=27.13;MQ0=31;OQ=323.91;QD=1.80;SB=-155.18 GT:AD:DP:GL:GQ 0/1:143,37:66:-55.56,-19.88,-179.35:99
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chr1 2612062 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=184;Dels=0.00;HRun=0;HaplotypeScore=39.83;MQ=27.44;MQ0=33;OQ=304.96;QD=1.66;SB=-159.14 GT:AD:DP:GL:GQ 0/1:147,37:67:-53.98,-20.20,-229.14:99
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chr1 2612081 rs61765703 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=136;Dels=0.01;HRun=2;HaplotypeScore=85.10;MQ=27.93;MQ0=25;OQ=1205.35;QD=8.86;SB=-216.92 GT:AD:DP:GL:GQ 0/1:19,114:53:-139.78,-15.97,-53.09:99
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chr1 2612085 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=1;HaplotypeScore=63.07;MQ=28.64;MQ0=22;OQ=1108.83;QD=8.66;SB=-225.89 GT:AD:DP:GL:GQ 0/1:16,110:51:-129.53,-15.36,-50.00:99
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chr1 2612107 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=161;Dels=0.00;HRun=1;HaplotypeScore=61.85;MQ=27.81;MQ0=21;OQ=276.90;QD=1.72;SB=-68.50 GT:AD:DP:GL:GQ 0/1:116,39:58:-48.45,-17.48,-165.18:99
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chr1 2612151 rs61765704 A C 24.50 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=129;Dels=0.02;HRun=0;HaplotypeScore=220.24;MQ=28.08;MQ0=15;QD=0.19;SB=6.59 GT:AD:DP:GL:GQ 0/1:44,80:28:-14.16,-8.43,-88.22:57.33
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chr1 2612161 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=149;Dels=0.05;HRun=2;HaplotypeScore=289.32;MQ=26.74;MQ0=14;OQ=154.71;QD=1.04;SB=-60.88 GT:AD:DP:GL:GQ 0/1:35,100:29:-27.20,-8.44,-77.78:99
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chr1 2612175 rs61765705 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=189;Dels=0.00;HRun=1;HaplotypeScore=208.27;MQ=26.09;MQ0=18;OQ=54.71;QD=0.29;SB=-8.07 GT:AD:DP:GL:GQ 0/1:131,51:39:-26.91,-18.15,-132.87:87.54
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chr1 2612187 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=1;HaplotypeScore=211.77;MQ=24.98;MQ0=26;OQ=72.89;QD=0.35;SB=45.47 GT:AD:DP:GL:GQ 0/1:143,55:44:-28.75,-18.18,-125.97:99
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chr1 2612211 . C A 45.89 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=208;Dels=0.00;HRun=1;HaplotypeScore=262.96;MQ=25.29;MQ0=30;QD=0.22;SB=-5.55 GT:AD:DP:GL:GQ 0/1:190,13:50:-25.52,-17.65,-153.60:78.73
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chr1 2612261 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=1;HaplotypeScore=73.22;MQ=36.24;MQ0=2;OQ=156.42;QD=1.55;SB=-48.52 GT:AD:DP:GL:GQ 0/1:66,32:53:-34.90,-15.97,-147.29:99
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chr1 2612283 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.01;HRun=4;HaplotypeScore=43.06;MQ=38.47;MQ0=2;OQ=327.02;QD=4.74;SB=-23.62 GT:AD:DP:GL:GQ 0/1:32,34:36:-46.54,-10.55,-82.71:99
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chr1 2612309 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=19.73;MQ=36.93;MQ0=0;OQ=479.11;QD=9.39;SB=-112.96 GT:AD:DP:GL:GQ 0/1:16,33:31:-63.92,-12.72,-54.61:99
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chr1 2612321 rs58055515 A C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.06;HRun=2;HaplotypeScore=36.08;MQ=38.02;MQ0=0;OQ=654.82;QD=13.64;SB=-115.75 GT:AD:DP:GL:GQ 1/1:1,35:27:-89.55,-24.40,-20.49:39.17
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chr1 2612344 . C G 24.81 LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=2;HaplotypeScore=34.46;MQ=40.80;MQ0=2;QD=0.48;SB=-19.81 GT:AD:DP:GL:GQ 0/1:23,28:23:-12.71,-6.94,-79.49:57.63
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chr1 2612349 rs56814247 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=26.66;MQ=40.32;MQ0=2;OQ=741.43;QD=14.54;SB=-345.45 GT:AD:DP:GL:GQ 1/1:6,45:24:-77.75,-7.24,-0.02:72.17
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chr1 2612359 . A C 18.09 LowQual AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=26.16;MQ=43.64;MQ0=3;QD=0.33;SB=-28.97 GT:AD:DP:GL:GQ 0/1:34,20:31:-14.42,-9.34,-99.97:50.86
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chr1 2612360 . A C 30.50 LowQual AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=3;HaplotypeScore=20.17;MQ=44.05;MQ0=2;QD=0.58;SB=-0.42 GT:AD:DP:GL:GQ 0/1:26,25:28:-14.77,-8.43,-87.24:63.33
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chr1 2612401 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=2;HaplotypeScore=42.26;MQ=44.22;MQ0=1;OQ=144.16;QD=2.72;SB=-18.17 GT:AD:DP:GL:GQ 0/1:29,20:34:-31.58,-13.88,-103.42:99
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chr1 2612402 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=41.27;MQ=43.87;MQ0=1;OQ=96.43;QD=1.85;SB=-29.80 GT:AD:DP:GL:GQ 0/1:26,21:30:-21.97,-9.04,-85.20:99
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chr1 2612447 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=39.94;MQ=46.94;MQ0=0;OQ=81.12;QD=1.66;SB=23.03 GT:AD:DP:GL:GQ 0/1:31,17:32:-23.40,-12.01,-88.55:99
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chr1 2612451 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=20.86;MQ=47.66;MQ0=0;OQ=53.68;QD=1.14;SB=26.08 GT:AD:DP:GL:GQ 0/1:30,14:32:-18.30,-9.65,-100.77:86.52
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chr1 2612461 . A C 44.60 LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=34.01;MQ=47.11;MQ0=0;QD=0.86;SB=-23.85 GT:AD:DP:GL:GQ 0/1:42,10:33:-17.68,-9.94,-101.23:77.43
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chr1 2612468 . C G 44.05 LowQual AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=46.41;MQ=45.54;MQ0=0;QD=0.76;SB=-1.30 GT:AD:DP:GL:GQ 0/1:51,7:35:-18.24,-10.55,-129.78:76.89
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chr1 2612500 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=0;HaplotypeScore=111.55;MQ=36.58;MQ0=2;OQ=75.18;QD=0.91;SB=-6.47 GT:AD:DP:GL:GQ 0/1:42,40:29:-19.55,-8.75,-75.63:99
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chr1 2612520 . C T 19.28 LowQual AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=133.17;MQ=33.82;MQ0=3;QD=0.19;SB=-16.60 GT:AD:DP:GL:GQ 0/1:87,13:36:-16.06,-10.85,-103.87:52.07
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chr1 2612521 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=3;HaplotypeScore=133.17;MQ=33.95;MQ0=3;OQ=122.65;QD=1.20;SB=-13.90 GT:AD:DP:GL:GQ 0/1:59,34:32:-39.02,-23.47,-101.66:99
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chr1 2612546 rs56822453 C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=1;HaplotypeScore=145.71;MQ=34.54;MQ0=2;OQ=1448.77;QD=15.58;SB=-452.10 GT:AD:DP:GL:GQ 1/1:7,78:40:-172.07,-31.81,-23.61:81.95
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chr1 2612548 . A G 23.46 LowQual AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=0;HaplotypeScore=130.25;MQ=34.63;MQ0=2;QD=0.24;SB=-12.60 GT:AD:DP:GL:GQ 0/1:76,19:32:-15.27,-9.65,-107.66:56.27
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chr1 2612572 rs61765712 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=119.88;MQ=29.64;MQ0=12;OQ=136.28;QD=1.57;SB=-70.93 GT:AD:DP:GL:GQ 0/1:30,56:22:-23.54,-6.63,-51.28:99
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chr1 2612576 . C G 19.60 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=1;HaplotypeScore=117.65;MQ=28.19;MQ0=14;QD=0.19;SB=-14.55 GT:AD:DP:GL:GQ 0/1:68,14:25:-20.23,-14.99,-84.25:52.39
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chr1 2612600 . A C 31.76 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=221;Dels=0.00;HRun=4;HaplotypeScore=156.76;MQ=23.41;MQ0=28;QD=0.14;SB=30.15 GT:AD:DP:GL:GQ 0/1:163,45:61:-27.98,-21.52,-181.64:64.60
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chr1 2612627 . A C 39.29 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=243;Dels=0.00;HRun=0;HaplotypeScore=198.32;MQ=23.30;MQ0=41;QD=0.16;SB=-11.41 GT:AD:DP:GL:GQ 0/1:198,41:66:-27.09,-19.88,-204.81:72.12
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chr1 2612682 . A C 10.13 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=3;HaplotypeScore=52.92;MQ=47.05;MQ0=0;QD=0.24;SB=14.06 GT:AD:DP:GL:GQ 0/1:27,14:23:-11.18,-6.93,-67.83:42.53
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chr1 2612696 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=17.87;MQ=44.37;MQ0=2;OQ=127.11;QD=2.08;SB=-25.83 GT:AD:DP:GL:GQ 0/1:32,29:31:-25.34,-9.35,-104.60:99
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chr1 2612737 rs61765713 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=31.73;MQ=37.37;MQ0=1;OQ=431.17;QD=5.01;SB=-153.88 GT:AD:DP:GL:GQ 0/1:41,45:46:-60.27,-13.87,-108.65:99
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chr1 2612767 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=55.42;MQ=39.20;MQ0=1;OQ=525.18;QD=6.48;SB=-145.82 GT:AD:DP:GL:GQ 0/1:30,49:46:-69.66,-13.86,-97.51:99
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chr1 2612773 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=50.07;MQ=38.87;MQ0=1;OQ=424.50;QD=5.31;SB=-154.37 GT:AD:DP:GL:GQ 0/1:53,27:45:-59.30,-13.57,-131.50:99
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chr1 2612799 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=27.45;MQ=41.43;MQ0=1;OQ=164.57;QD=2.70;SB=-62.57 GT:AD:DP:GL:GQ 0/1:27,34:35:-30.28,-10.54,-94.10:99
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chr1 2612844 rs55724072 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=94.30;MQ=38.07;MQ0=8;OQ=665.81;QD=9.12;SB=-251.98 GT:AD:DP:GL:GQ 0/1:45,26:28:-81.79,-11.92,-21.81:98.87
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chr1 2612950 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=215;Dels=0.00;HRun=0;HaplotypeScore=255.70;MQ=27.55;MQ0=15;OQ=78.72;QD=0.37;SB=19.51 GT:AD:DP:GL:GQ 0/1:145,61:50:-33.24,-22.08,-169.61:99
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chr1 2612958 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=205;Dels=0.05;HRun=2;HaplotypeScore=345.72;MQ=28.14;MQ0=11;OQ=268.77;QD=1.31;SB=-87.58 GT:AD:DP:GL:GQ 0/1:82,113:44:-43.44,-13.28,-132.37:99
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chr1 2612962 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=206;Dels=0.01;HRun=1;HaplotypeScore=293.73;MQ=28.22;MQ0=11;OQ=53.07;QD=0.26;SB=-7.29 GT:AD:DP:GL:GQ 0/1:160,36:46:-29.48,-20.89,-140.25:85.91
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chr1 2612982 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=165;Dels=0.00;HRun=0;HaplotypeScore=272.98;MQ=28.95;MQ0=11;OQ=81.29;QD=0.49;SB=23.09 GT:AD:DP:GL:GQ 0/1:43,117:27:-19.56,-8.14,-70.61:99
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chr1 2612988 rs28729890 C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=157;Dels=0.00;HRun=1;HaplotypeScore=282.08;MQ=29.13;MQ0=10;OQ=1088.24;QD=6.93;SB=-426.67 GT:AD:DP:GL:GQ 1/1:3,146:27:-116.69,-11.76,-4.28:74.86
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chr1 2613013 . G A 31.52 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=131;Dels=0.00;HRun=1;HaplotypeScore=164.33;MQ=32.03;MQ0=7;QD=0.24;SB=26.10 GT:AD:DP:GL:GQ 0/1:117,14:35:-16.98,-10.54,-112.15:64.35
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chr1 2613017 . T C 180.98 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=137.52;MQ=33.34;MQ0=7;QD=1.65;SB=26.11 GT:AD:DP:GL:GQ 0/1:27,81:34:-31.63,-10.24,-97.73:99
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chr1 2613018 rs28484972 G C 140.73 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=110;Dels=0.00;HRun=0;HaplotypeScore=137.35;MQ=33.34;MQ0=7;QD=1.28;SB=31.01 GT:AD:DP:GL:GQ 0/1:28,44:35:-37.27,-19.91,-118.50:99
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chr1 2613040 rs55713073 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=61.60;MQ=39.34;MQ0=3;OQ=876.14;QD=14.13;SB=-413.05 GT:AD:DP:GL:GQ 0/1:33,24:31:-100.24,-9.35,-30.73:99
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chr1 2613043 . T C 38.29 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=3;HaplotypeScore=55.65;MQ=43.83;MQ0=2;QD=0.78;SB=29.13 GT:AD:DP:GL:GQ 0/1:25,20:28:-15.55,-8.44,-93.33:71.12
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chr1 2613090 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=62.85;MQ=32.34;MQ0=20;OQ=113.77;QD=0.92;SB=20.02 GT:AD:DP:GL:GQ 0/1:89,34:35:-25.22,-10.56,-90.70:99
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chr1 2613132 . T C 17.83 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=135.62;MQ=34.15;MQ0=7;QD=0.19;SB=20.93 GT:AD:DP:GL:GQ 0/1:49,17:34:-18.39,-13.34,-109.40:50.59
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chr1 2613155 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=54.50;MQ=36.94;MQ0=5;OQ=56.13;QD=0.85;SB=-8.31 GT:AD:DP:GL:GQ 0/1:26,40:25:-16.44,-7.54,-66.14:88.97
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chr1 2613166 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=54;Dels=0.04;HRun=0;HaplotypeScore=39.25;MQ=40.07;MQ0=1;OQ=108.06;QD=2.00;SB=-13.35 GT:AD:DP:GL:GQ 0/1:25,27:25:-21.62,-7.53,-86.20:99
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chr1 2613178 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=39.82;MQ=40.42;MQ0=1;OQ=87.18;QD=1.53;SB=-9.45 GT:AD:DP:GL:GQ 0/1:38,18:28:-20.44,-8.44,-74.35:99
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chr1 2613186 rs28398452 A T 0.15 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=19.52;MQ=46.06;MQ0=0;OQ=818.22;QD=19.96;SB=-414.28 GT:AD:DP:GL:GQ 1/1:0,40:23:-85.41,-6.93,-0.01:69.21
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chr1 2613234 . C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=40.12;MQ=46.29;MQ0=1;OQ=1357.25;QD=31.56;SB=-584.52 GT:AD:DP:GL:GQ 1/1:1,41:32:-139.32,-9.64,-0.01:96.32
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chr1 2613318 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=0;HaplotypeScore=61.23;MQ=29.57;MQ0=14;OQ=124.73;QD=1.48;SB=-14.36 GT:AD:DP:GL:GQ 0/1:67,16:36:-26.61,-10.86,-123.23:99
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chr1 2613323 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=0;HaplotypeScore=72.34;MQ=25.61;MQ0=20;OQ=95.66;QD=0.62;SB=33.80 GT:AD:DP:GL:GQ 0/1:133,12:61:-34.86,-22.01,-226.45:99
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chr1 2613370 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=400;Dels=0.00;HRun=0;HaplotypeScore=293.23;MQ=21.10;MQ0=61;OQ=714.05;QD=1.79;SB=-288.95 GT:AD:DP:GL:GQ 0/1:327,73:124:-112.05,-37.36,-344.59:99
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chr1 2613374 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=416;Dels=0.00;HRun=0;HaplotypeScore=328.46;MQ=20.95;MQ0=62;OQ=571.93;QD=1.37;SB=-114.36 GT:AD:DP:GL:GQ 0/1:288,118:123:-97.54,-37.07,-375.44:99
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chr1 2613385 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=437;Dels=0.00;HRun=0;HaplotypeScore=225.97;MQ=20.17;MQ0=68;OQ=628.49;QD=1.44;SB=-284.83 GT:AD:DP:GL:GQ 0/1:363,65:125:-113.05,-46.91,-348.87:99
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chr1 2613405 rs61765715 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=430;Dels=0.00;HRun=0;HaplotypeScore=214.90;MQ=20.78;MQ0=65;OQ=1559.54;QD=3.63;SB=-415.95 GT:AD:DP:GL:GQ 0/1:296,132:120:-195.39,-36.15,-225.88:99
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chr1 2613406 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=428;Dels=0.00;HRun=0;HaplotypeScore=190.35;MQ=20.81;MQ0=64;OQ=96.31;QD=0.23;SB=35.50 GT:AD:DP:GL:GQ 0/1:369,32:113:-77.37,-64.46,-359.74:99
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chr1 2613418 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=358;Dels=0.00;HRun=0;HaplotypeScore=49.55;MQ=21.34;MQ0=50;OQ=281.60;QD=0.79;SB=32.81 GT:AD:DP:GL:GQ 0/1:313,45:98:-60.98,-29.53,-359.08:99
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chr1 2613432 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=200;Dels=0.00;HRun=2;HaplotypeScore=59.86;MQ=23.20;MQ0=28;OQ=127.98;QD=0.64;SB=-77.60 GT:AD:DP:GL:GQ 0/1:175,24:60:-37.72,-21.64,-201.76:99
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chr1 2613443 rs61765716 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=4;HaplotypeScore=21.82;MQ=28.33;MQ0=15;OQ=129.32;QD=1.54;SB=2.14 GT:AD:DP:GL:GQ 0/1:37,47:28:-24.65,-8.44,-74.06:99
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chr1 2613523 rs61765738 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=4;HaplotypeScore=30.76;MQ=30.14;MQ0=9;OQ=85.37;QD=1.61;SB=5.05 GT:AD:DP:GL:GQ 0/1:23,13:17:-22.76,-10.94,-45.61:99
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chr1 2613566 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=71;Dels=0.04;HRun=3;HaplotypeScore=57.78;MQ=26.34;MQ0=13;OQ=54.80;QD=0.77;SB=8.05 GT:AD:DP:GL:GQ 0/1:32,29:23:-15.40,-6.63,-70.44:87.64
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chr1 2613630 . G A 0.07 PASS AC=2;AF=1.00;AN=2;DP=19;Dels=0.00;HRun=1;HaplotypeScore=13.24;MQ=22.14;MQ0=5;OQ=193.82;QD=10.20;SB=-82.32 GT:AD:DP:GL:GQ 1/1:2,17:6:-22.96,-1.81,-0.00:18.06
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chr1 2613635 . G A 0.05 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=13.88;MQ=20.75;MQ0=5;OQ=116.09;QD=7.26;SB=-82.32 GT:AD:DP:GL:GQ 1/1:1,15:4:-15.15,-1.21,-0.00:12.04
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chr1 2613646 . G C 10.99 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.07;HRun=2;HaplotypeScore=14.02;MQ=19.81;MQ0=4;QD=0.79;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,8:1:-4.35,-0.30,-0.00:1.76
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chr1 2613690 . T C 13.23 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=116.33;MQ=18.38;MQ0=8;QD=0.19;SB=-10.00 GT:AD:DP:GL:GQ 0/1:49,18:4:-5.79,-1.21,-8.34:45.86
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chr1 2613693 . G C 35.94 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=149.70;MQ=18.45;MQ0=8;QD=0.45;SB=-10.00 GT:AD:DP:GL:GQ 0/1:76,3:6:-8.69,-1.81,-15.69:68.78
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chr1 2613698 . T G 15.64 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=2;HaplotypeScore=190.59;MQ=18.98;MQ0=9;QD=0.16;SB=-10.00 GT:AD:DP:GL:GQ 0/1:64,7:8:-12.71,-7.87,-20.94:48.35
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chr1 2613700 . G A 196.12 SnpCluster AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=236.20;MQ=18.98;MQ0=9;QD=2.06;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,83:8:-25.29,-2.41,-3.47:10.61
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chr1 2613710 . G A 290.78 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=258.37;MQ=18.71;MQ0=19;QD=1.88;SB=-45.65 GT:AD:DP:GL:GQ 0/1:71,77:15:-43.35,-10.99,-17.24:62.53
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chr1 2613712 . A G 19.12 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=162;Dels=0.00;HRun=1;HaplotypeScore=303.47;MQ=18.88;MQ0=19;QD=0.12;SB=-3.98 GT:AD:DP:GL:GQ 0/1:153,6:17:-10.32,-5.13,-49.10:51.90
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chr1 2613717 . C G 26.91 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=186;Dels=0.00;HRun=0;HaplotypeScore=408.47;MQ=18.72;MQ0=23;QD=0.14;SB=-6.99 GT:AD:DP:GL:GQ 0/1:167,10:18:-16.44,-10.47,-59.87:59.74
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chr1 2613725 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=210;Dels=0.00;HRun=0;HaplotypeScore=344.41;MQ=18.80;MQ0=26;OQ=51.69;QD=0.25;SB=-6.99 GT:AD:DP:GL:GQ 0/1:188,19:21:-17.15,-8.70,-57.87:84.53
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|
chr1 2613732 . A C 62.04 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=212;Dels=0.00;HRun=0;HaplotypeScore=339.87;MQ=19.08;MQ0=26;QD=0.29;SB=-6.99 GT:AD:DP:GL:GQ 0/1:184,21:14:-13.71,-4.22,-32.30:94.88
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|
chr1 2613741 . C T 167.14 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=1;HaplotypeScore=432.19;MQ=19.10;MQ0=22;QD=0.81;SB=-10.00 GT:AD:DP:GL:GQ 0/1:175,24:13:-27.15,-7.15,-25.74:99
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chr1 2613742 . T A 554.18 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=203;Dels=0.00;HRun=0;HaplotypeScore=437.29;MQ=19.15;MQ0=21;QD=2.73;SB=-10.00 GT:AD:DP:GL:GQ 1/1:10,159:27:-96.09,-42.87,-37.09:57.79
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|
chr1 2613744 . C T 234.43 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=208;Dels=0.00;HRun=0;HaplotypeScore=584.09;MQ=19.37;MQ0=21;QD=1.13;SB=-10.00 GT:AD:DP:GL:GQ 0/1:171,26:22:-36.59,-9.87,-49.51:99
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chr1 2613745 . C G 76.87 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=0;HaplotypeScore=579.63;MQ=19.38;MQ0=20;QD=0.37;SB=-10.00 GT:AD:DP:GL:GQ 0/1:148,19:15:-15.49,-4.52,-49.92:99
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chr1 2613750 . G A 306.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=1;HaplotypeScore=658.57;MQ=19.32;MQ0=20;QD=1.48;SB=-7.01 GT:AD:DP:GL:GQ 0/1:99,104:19:-39.62,-5.73,-26.69:99
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chr1 2613754 . C A 11.17 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=223;Dels=0.00;HRun=1;HaplotypeScore=578.78;MQ=19.04;MQ0=24;QD=0.05;SB=-7.00 GT:AD:DP:GL:GQ 0/1:199,19:23:-11.29,-6.93,-65.57:43.66
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chr1 2613765 . C A 112.66 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=230;Dels=0.00;HRun=0;HaplotypeScore=358.32;MQ=18.80;MQ0=30;QD=0.49;SB=-6.99 GT:AD:DP:GL:GQ 0/1:192,30:26:-22.38,-7.83,-66.37:99
|
|
chr1 2613766 . C G 145.08 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=229;Dels=0.00;HRun=0;HaplotypeScore=340.83;MQ=18.60;MQ0=30;QD=0.63;SB=-3.99 GT:AD:DP:GL:GQ 0/1:197,20:34:-28.04,-10.25,-119.31:99
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chr1 2613770 . T C 33.51 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=219;Dels=0.00;HRun=0;HaplotypeScore=286.65;MQ=18.56;MQ0=29;QD=0.15;SB=-3.99 GT:AD:DP:GL:GQ 0/1:176,33:38:-18.09,-11.45,-126.83:66.35
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chr1 2613772 . A G 57.20 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=216;Dels=0.00;HRun=1;HaplotypeScore=261.18;MQ=18.59;MQ0=29;QD=0.26;SB=-0.97 GT:AD:DP:GL:GQ 0/1:199,13:41:-24.12,-15.12,-140.12:90.03
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|
chr1 2613796 . G C 177.04 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=135;Dels=0.04;HRun=2;HaplotypeScore=330.87;MQ=18.33;MQ0=22;QD=1.31;SB=-45.45 GT:AD:DP:GL:GQ 0/1:71,48:21:-34.21,-13.22,-61.82:99
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chr1 2613800 . G A 69.22 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=111;Dels=0.04;HRun=0;HaplotypeScore=218.43;MQ=17.88;MQ0=19;QD=0.62;SB=-7.00 GT:AD:DP:GL:GQ 0/1:92,15:13:-14.13,-3.92,-31.45:99
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chr1 2613801 . C G 13.55 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=1;HaplotypeScore=246.51;MQ=18.17;MQ0=17;QD=0.12;SB=-7.00 GT:AD:DP:GL:GQ 0/1:104,4:15:-12.67,-8.05,-55.30:46.19
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chr1 2613803 . C A 151.29 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=1;HaplotypeScore=241.51;MQ=18.66;MQ0=17;QD=1.36;SB=-3.98 GT:AD:DP:GL:GQ 0/1:89,19:17:-27.02,-8.61,-39.19:99
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|
chr1 2613805 . C T 87.71 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=0;HaplotypeScore=208.83;MQ=18.81;MQ0=15;QD=0.80;SB=-0.98 GT:AD:DP:GL:GQ 0/1:93,15:13:-15.97,-3.92,-32.68:99
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|
chr1 2613807 . C T 57.07 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=107;Dels=0.00;HRun=0;HaplotypeScore=165.36;MQ=18.87;MQ0=15;QD=0.53;SB=-3.99 GT:AD:DP:GL:GQ 0/1:93,9:11:-12.30,-3.31,-28.01:89.90
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chr1 2613812 . G A 29.24 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=106.13;MQ=18.30;MQ0=14;QD=0.32;SB=-3.99 GT:AD:DP:GL:GQ 0/1:75,16:5:-7.71,-1.51,-10.06:62.07
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|
chr1 2613813 . T C 74.94 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=91.21;MQ=18.35;MQ0=14;QD=0.88;SB=-6.99 GT:AD:DP:GL:GQ 0/1:16,66:5:-12.29,-1.51,-3.76:22.52
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chr1 2613826 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=1;HaplotypeScore=36.04;MQ=20.56;MQ0=13;OQ=192.78;QD=2.30;SB=-28.63 GT:AD:DP:GL:GQ 0/1:21,57:13:-29.99,-7.43,-22.77:99
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chr1 2613831 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=1;HaplotypeScore=23.92;MQ=20.73;MQ0=14;OQ=180.38;QD=2.20;SB=-29.94 GT:AD:DP:GL:GQ 0/1:21,61:13:-25.24,-3.92,-19.14:99
|
|
chr1 2613859 . G T 41.43 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=24.92;MQ=20.48;MQ0=13;QD=0.62;SB=-43.38 GT:AD:DP:GL:GQ 0/1:19,47:11:-10.74,-3.32,-20.71:74.26
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chr1 2613869 rs28391329 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=60.53;MQ=21.20;MQ0=15;OQ=293.59;QD=2.94;SB=-0.98 GT:AD:DP:GL:GQ 0/1:82,18:19:-38.38,-5.73,-37.90:99
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|
chr1 2613889 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=1;HaplotypeScore=72.75;MQ=25.64;MQ0=15;OQ=180.19;QD=1.96;SB=-114.68 GT:AD:DP:GL:GQ 0/1:18,61:28:-47.05,-25.75,-76.38:99
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chr1 2613903 rs11486068 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=48.68;MQ=24.40;MQ0=19;OQ=50.76;QD=0.51;SB=-13.14 GT:AD:DP:GL:GQ 0/1:40,15:30:-30.07,-21.71,-94.96:83.60
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|
chr1 2613959 rs61765741 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=152;Dels=0.00;HRun=0;HaplotypeScore=30.66;MQ=19.75;MQ0=50;OQ=129.32;QD=0.85;SB=-3.99 GT:AD:DP:GL:GQ 0/1:135,11:45:-36.43,-20.22,-129.55:99
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chr1 2613977 rs61765742 T A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=20.51;MQ=18.10;MQ0=36;OQ=631.54;QD=6.19;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,87:32:-76.08,-9.64,-40.58:99
|
|
chr1 2614061 . C G 47.32 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=9.70;MQ=18.60;MQ0=18;QD=1.05;SB=-42.45 GT:AD:DP:GL:GQ 0/1:29,16:12:-11.64,-3.62,-36.27:80.16
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|
chr1 2614087 rs61765744 A C 20.16 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=3;HaplotypeScore=20.71;MQ=12.14;MQ0=19;QD=0.63;SB=-6.99 GT:AD:DP:GL:GQ 0/1:25,7:6:-7.10,-1.81,-13.92:52.96
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|
chr1 2614090 . A G 19.51 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=1;HaplotypeScore=20.91;MQ=12.88;MQ0=18;QD=0.59;SB=-6.99 GT:AD:DP:GL:GQ 0/1:21,12:7:-7.34,-2.11,-20.39:52.30
|
|
chr1 2614091 . G C 37.94 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=1;HaplotypeScore=21.91;MQ=12.37;MQ0=20;QD=1.05;SB=-6.99 GT:AD:DP:GL:GQ 0/1:28,8:7:-9.19,-2.11,-21.58:70.77
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|
chr1 2614114 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=32.88;MQ=18.47;MQ0=36;OQ=121.42;QD=1.52;SB=-36.64 GT:AD:DP:GL:GQ 0/1:36,44:20:-21.46,-6.03,-44.98:99
|
|
chr1 2614128 . T C 13.34 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=4;HaplotypeScore=47.41;MQ=18.72;MQ0=40;QD=0.11;SB=-2.29 GT:AD:DP:GL:GQ 0/1:78,34:26:-19.39,-14.79,-91.44:45.97
|
|
chr1 2614209 . G A 41.24 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=1;HaplotypeScore=24.29;MQ=22.02;MQ0=31;QD=0.45;SB=-24.59 GT:AD:DP:GL:GQ 0/1:55,36:29:-16.14,-8.74,-87.91:74.08
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chr1 2614364 rs28730517 A C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=4;HaplotypeScore=28.46;MQ=18.26;MQ0=16;OQ=311.67;QD=6.23;SB=-151.28 GT:AD:DP:GL:GQ 1/1:14,32:12:-37.44,-3.62,-2.80:8.16
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|
chr1 2614590 rs28497985 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=112;Dels=0.00;HRun=0;HaplotypeScore=34.12;MQ=28.69;MQ0=18;OQ=755.20;QD=6.74;SB=-383.20 GT:AD:DP:GL:GQ 0/1:87,25:65:-98.40,-19.59,-181.93:99
|
|
chr1 2614771 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=1;HaplotypeScore=33.03;MQ=8.84;MQ0=54;OQ=63.99;QD=0.94;SB=-10.00 GT:AD:DP:GL:GQ 0/1:54,14:6:-11.49,-1.81,-12.10:96.82
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chr1 2614794 . A C 36.23 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=12.63;MQ=15.22;MQ0=54;QD=0.39;SB=8.03 GT:AD:DP:GL:GQ 0/1:56,38:25:-14.44,-7.53,-71.85:69.07
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chr1 2614835 rs61765748 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=146;Dels=0.00;HRun=0;HaplotypeScore=67.43;MQ=23.43;MQ0=43;OQ=134.71;QD=0.92;SB=83.23 GT:AD:DP:GL:GQ 0/1:105,39:61:-35.15,-18.40,-166.15:99
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chr1 2615014 . A G 45.47 PASS AC=2;AF=1.00;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=21.27;MQ0=3;OQ=106.85;QD=8.90;SB=-34.66 GT:AD:DP:GL:GQ 1/1:0,12:5:-14.25,-1.51,-0.01:15.01
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chr1 2615159 . C A 49.14 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=220;Dels=0.00;HRun=2;HaplotypeScore=142.59;MQ=8.79;MQ0=169;QD=0.22;SB=-7.86 GT:AD:DP:GL:GQ 0/1:185,31:17:-13.32,-5.12,-43.12:81.98
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chr1 2615230 . C G 11.72 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=1;HaplotypeScore=6.15;MQ=11.52;MQ0=52;QD=0.14;SB=-26.39 GT:AD:DP:GL:GQ 0/1:72,12:14:-8.65,-4.23,-47.78:44.25
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chr1 2615372 . G A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=85;Dels=0.00;HRun=1;HaplotypeScore=29.65;MQ=17.03;MQ0=60;OQ=691.36;QD=8.13;SB=-292.88 GT:AD:DP:GL:GQ 1/1:59,24:18:-72.73,-5.42,-0.01:54.18
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chr1 2615442 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=52.99;MQ=12.22;MQ0=96;OQ=368.66;QD=2.38;SB=-99.96 GT:AD:DP:GL:GQ 0/1:30,125:25:-47.68,-7.53,-41.84:99
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chr1 2615466 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=61.50;MQ=14.17;MQ0=69;OQ=112.35;QD=0.77;SB=-18.60 GT:AD:DP:GL:GQ 0/1:116,29:31:-23.86,-9.34,-81.69:99
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chr1 2615470 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=139;Dels=0.00;HRun=0;HaplotypeScore=63.31;MQ=14.07;MQ0=68;OQ=351.94;QD=2.53;SB=-90.74 GT:AD:DP:GL:GQ 0/1:65,72:34:-48.72,-10.24,-70.14:99
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chr1 2615502 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=0;HaplotypeScore=32.33;MQ=16.10;MQ0=38;OQ=288.56;QD=3.65;SB=2.03 GT:AD:DP:GL:GQ 0/1:49,30:24:-39.38,-7.24,-59.32:99
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chr1 2615515 . T G 27.54 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=32.70;MQ=13.65;MQ0=43;QD=0.37;SB=-0.98 GT:AD:DP:GL:GQ 0/1:31,13:15:-18.30,-12.26,-45.52:60.37
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chr1 2615553 . G A 21.44 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=1;HaplotypeScore=33.08;MQ=9.60;MQ0=74;QD=0.23;SB=-3.99 GT:AD:DP:GL:GQ 0/1:70,24:9:-8.14,-2.71,-26.22:54.25
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chr1 2615563 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=52.83;MQ=8.09;MQ0=76;OQ=64.78;QD=0.70;SB=-10.00 GT:AD:DP:GL:GQ 0/1:82,10:5:-11.27,-1.51,-6.24:47.31
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chr1 2615689 . T C 30.94 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=1;HaplotypeScore=62.56;MQ=10.13;MQ0=88;QD=0.28;SB=-3.98 GT:AD:DP:GL:GQ 0/1:18,89:9:-9.09,-2.71,-22.98:63.77
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chr1 2615717 rs61765669 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=109;Dels=0.00;HRun=0;HaplotypeScore=37.80;MQ=10.99;MQ0=80;OQ=103.09;QD=0.95;SB=-3.99 GT:AD:DP:GL:GQ 0/1:26,83:10:-16.61,-3.01,-17.76:99
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chr1 2615757 . C A 39.74 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=1;HaplotypeScore=30.17;MQ=13.18;MQ0=60;QD=0.43;SB=0.17 GT:AD:DP:GL:GQ 0/1:71,20:17:-15.95,-8.69,-48.17:72.57
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chr1 2615837 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=39.99;MQ=26.86;MQ0=21;OQ=73.19;QD=1.33;SB=-36.22 GT:AD:DP:GL:GQ 0/1:29,26:20:-16.63,-6.03,-56.46:99
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chr1 2615892 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=3;HaplotypeScore=44.02;MQ=30.58;MQ0=2;OQ=63.96;QD=1.12;SB=26.10 GT:AD:DP:GL:GQ 0/1:25,32:26:-17.51,-7.83,-73.92:96.79
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chr1 2615945 rs28619423 T C 0.80 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=1;HaplotypeScore=8.32;MQ=22.59;MQ0=1;OQ=99.94;QD=5.26;SB=-76.91 GT:AD:DP:GL:GQ 1/1:3,15:4:-13.53,-1.21,-0.00:12.03
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chr1 2615949 rs28373809 G A 10.26 LowQual AC=1;AF=0.50;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=9.32;MQ=19.47;MQ0=1;QD=0.68;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,14:1:-4.27,-0.30,-0.00:1.76
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chr1 2615990 . C G 0.11 PASS AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=8.97;MQ=20.31;MQ0=1;OQ=58.76;QD=6.53;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:2:-9.28,-0.60,-0.00:6.02
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chr1 2615997 . G A 36.46 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=1;HaplotypeScore=29.63;MQ=20.63;MQ0=6;QD=1.35;SB=-7.00 GT:AD:DP:GL:GQ 0/1:18,9:5:-8.44,-1.51,-10.16:69.30
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chr1 2616009 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=2;HaplotypeScore=37.74;MQ=29.64;MQ0=6;OQ=112.90;QD=3.53;SB=-3.99 GT:AD:DP:GL:GQ 0/1:15,17:12:-18.19,-3.62,-24.59:99
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chr1 2616012 . A C 43.77 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=2;HaplotypeScore=39.70;MQ=31.56;MQ0=5;QD=1.41;SB=-0.98 GT:AD:DP:GL:GQ 0/1:13,18:11:-10.97,-3.31,-27.78:76.61
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chr1 2616021 . C A 30.19 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=71.42;MQ=30.54;MQ0=5;QD=0.70;SB=-0.98 GT:AD:DP:GL:GQ 0/1:37,6:16:-11.12,-4.82,-46.67:63.02
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chr1 2616048 . A C 104.33 Indel AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=256.69;MQ=33.48;MQ0=5;QD=1.53;SB=-0.98 GT:AD:DP:GL:GQ 0/1:26,38:27:-21.85,-8.13,-76.79:99
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chr1 2616053 . A C 36.21 Indel;LowQual AC=1;AF=0.50;AN=2;DP=80;Dels=0.06;HRun=3;HaplotypeScore=159.99;MQ=31.20;MQ0=8;QD=0.45;SB=-3.99 GT:AD:DP:GL:GQ 0/1:43,32:27:-15.04,-8.13,-81.51:69.04
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chr1 2616066 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=0;HaplotypeScore=127.16;MQ=28.37;MQ0=17;OQ=116.17;QD=0.90;SB=11.03 GT:AD:DP:GL:GQ 0/1:64,41:40:-43.16,-28.26,-112.08:99
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chr1 2616091 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=152;Dels=0.02;HRun=3;HaplotypeScore=245.31;MQ=26.01;MQ0=24;OQ=74.30;QD=0.49;SB=8.05 GT:AD:DP:GL:GQ 0/1:77,30:40:-32.83,-22.11,-117.91:99
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|
chr1 2616098 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=0;HaplotypeScore=238.65;MQ=25.86;MQ0=23;OQ=203.33;QD=1.36;SB=8.03 GT:AD:DP:GL:GQ 0/1:83,65:39:-35.37,-11.76,-97.26:99
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chr1 2616121 rs28707614 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=109;Dels=0.00;HRun=1;HaplotypeScore=348.16;MQ=25.38;MQ0=21;OQ=754.79;QD=6.92;SB=-132.69 GT:AD:DP:GL:GQ 0/1:14,95:27:-86.90,-8.14,-12.11:39.77
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chr1 2616201 rs28495110 G T 0.10 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=18.82;MQ=45.96;MQ0=6;OQ=1088.68;QD=25.92;SB=-422.58 GT:AD:DP:GL:GQ 1/1:8,34:31:-112.47,-9.34,-0.01:93.25
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chr1 2616235 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=22.81;MQ=34.27;MQ0=9;OQ=189.73;QD=2.67;SB=-88.83 GT:AD:DP:GL:GQ 0/1:28,43:31:-31.59,-9.34,-82.55:99
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chr1 2616250 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=198;Dels=0.00;HRun=1;HaplotypeScore=98.35;MQ=24.83;MQ0=26;OQ=53.95;QD=0.27;SB=-52.26 GT:AD:DP:GL:GQ 0/1:175,16:77:-39.01,-30.33,-235.94:86.79
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|
chr1 2616284 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=316;Dels=0.00;HRun=0;HaplotypeScore=207.75;MQ=22.41;MQ0=34;OQ=472.89;QD=1.50;SB=-261.05 GT:AD:DP:GL:GQ 0/1:280,35:108:-83.11,-32.54,-299.84:99
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|
chr1 2616291 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=308;Dels=0.00;HRun=0;HaplotypeScore=168.73;MQ=22.17;MQ0=35;OQ=503.17;QD=1.63;SB=-147.25 GT:AD:DP:GL:GQ 0/1:228,77:110:-86.74,-33.14,-306.67:99
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chr1 2616303 rs61765755 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=285;Dels=0.00;HRun=0;HaplotypeScore=48.79;MQ=22.14;MQ0=36;OQ=3893.80;QD=13.66;SB=-1294.80 GT:AD:DP:GL:GQ 0/1:13,240:102:-388.38,-54.71,-62.45:77.36
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|
chr1 2616333 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=234;Dels=0.00;HRun=0;HaplotypeScore=268.36;MQ=23.38;MQ0=29;OQ=127.30;QD=0.54;SB=-30.73 GT:AD:DP:GL:GQ 0/1:215,16:95:-44.63,-28.62,-299.60:99
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chr1 2616354 rs7544898 A C 1854.66 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=113;Dels=0.00;HRun=1;HaplotypeScore=61.29;MQ=28.89;MQ0=15;QD=16.41;SB=-484.04 GT:AD:DP:GL:GQ 1/1:2,105:53:-193.02,-19.43,-3.97:99
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chr1 2616358 . A G 865.25 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=1;HaplotypeScore=46.74;MQ=30.83;MQ0=11;QD=8.83;SB=-6.56 GT:AD:DP:GL:GQ 0/1:29,69:51:-105.17,-15.36,-93.21:99
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chr1 2616363 . G C 842.15 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=1;HaplotypeScore=46.38;MQ=31.26;MQ0=12;QD=8.68;SB=-14.79 GT:AD:DP:GL:GQ 0/1:55,42:53:-103.48,-15.98,-115.82:99
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chr1 2616398 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=48.31;MQ=34.63;MQ0=12;OQ=554.46;QD=5.84;SB=10.29 GT:AD:DP:GL:GQ 0/1:66,29:54:-75.00,-16.28,-154.28:99
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chr1 2616612 . G C 20.97 LowQual AC=1;AF=0.50;AN=2;DP=70;Dels=0.01;HRun=0;HaplotypeScore=165.26;MQ=30.37;MQ0=2;QD=0.30;SB=-32.74 GT:AD:DP:GL:GQ 0/1:19,45:24:-19.94,-14.57,-91.68:53.77
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|
chr1 2616615 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=3;HaplotypeScore=70.16;MQ=28.36;MQ0=2;OQ=89.21;QD=1.29;SB=-14.35 GT:AD:DP:GL:GQ 0/1:26,38:19:-17.94,-5.74,-58.45:99
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chr1 2616647 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=137;Dels=0.00;HRun=0;HaplotypeScore=217.54;MQ=24.00;MQ0=30;OQ=94.92;QD=0.69;SB=35.11 GT:AD:DP:GL:GQ 0/1:84,43:37:-23.93,-11.16,-103.88:99
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chr1 2616654 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=1;HaplotypeScore=223.04;MQ=23.83;MQ0=42;OQ=359.87;QD=1.99;SB=35.13 GT:AD:DP:GL:GQ 0/1:140,35:44:-52.54,-13.27,-92.39:99
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chr1 2616670 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=198;Dels=0.00;HRun=0;HaplotypeScore=299.99;MQ=23.86;MQ0=44;OQ=60.86;QD=0.31;SB=35.11 GT:AD:DP:GL:GQ 0/1:127,67:50:-24.46,-15.09,-137.52:93.69
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|
chr1 2616692 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=167;Dels=0.00;HRun=0;HaplotypeScore=231.37;MQ=26.06;MQ0=26;OQ=91.62;QD=0.55;SB=35.13 GT:AD:DP:GL:GQ 0/1:91,73:56:-32.64,-20.19,-183.88:99
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chr1 2616713 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=1;HaplotypeScore=98.28;MQ=31.06;MQ0=12;OQ=565.06;QD=6.81;SB=-40.25 GT:AD:DP:GL:GQ 0/1:27,50:40:-78.76,-18.97,-82.14:99
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chr1 2616803 . G C 11.63 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=76;Dels=0.01;HRun=0;HaplotypeScore=115.33;MQ=32.59;MQ0=10;QD=0.15;SB=23.09 GT:AD:DP:GL:GQ 0/1:27,42:23:-11.36,-6.95,-79.45:44.16
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chr1 2616826 . T C 18.72 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=39.74;MQ=39.24;MQ0=2;QD=0.38;SB=20.09 GT:AD:DP:GL:GQ 0/1:24,24:22:-11.78,-6.63,-68.52:51.50
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chr1 2616954 rs28486014 C A 1246.57 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=172;Dels=0.00;HRun=0;HaplotypeScore=118.85;MQ=19.01;MQ0=19;QD=7.25;SB=-604.12 GT:AD:DP:GL:GQ 1/1:2,165:36:-131.25,-13.77,-3.01:99
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chr1 2616962 . A G 25.32 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=218;Dels=0.00;HRun=0;HaplotypeScore=150.59;MQ=18.32;MQ0=25;QD=0.12;SB=17.48 GT:AD:DP:GL:GQ 0/1:179,39:39:-17.57,-11.75,-132.90:58.14
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chr1 2616963 . C G 90.14 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=222;Dels=0.00;HRun=0;HaplotypeScore=167.60;MQ=18.42;MQ0=25;QD=0.41;SB=8.17 GT:AD:DP:GL:GQ 0/1:182,34:40:-27.79,-15.49,-139.11:99
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|
chr1 2616976 . C A 13.99 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=267;Dels=0.00;HRun=0;HaplotypeScore=283.46;MQ=18.62;MQ0=35;QD=0.05;SB=55.93 GT:AD:DP:GL:GQ 0/1:236,26:51:-20.03,-15.36,-160.20:46.65
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chr1 2616982 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=280;Dels=0.00;HRun=0;HaplotypeScore=251.51;MQ=19.64;MQ0=37;OQ=486.76;QD=1.74;SB=8.99 GT:AD:DP:GL:GQ 0/1:187,73:54:-71.97,-20.01,-131.66:99
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chr1 2617013 . A C 16.86 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=231;Dels=0.00;HRun=5;HaplotypeScore=227.22;MQ=22.36;MQ0=34;QD=0.07;SB=14.07 GT:AD:DP:GL:GQ 0/1:208,22:59:-25.00,-20.04,-187.42:49.60
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|
chr1 2617015 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=222;Dels=0.00;HRun=0;HaplotypeScore=200.07;MQ=22.66;MQ0=33;OQ=161.89;QD=0.73;SB=20.10 GT:AD:DP:GL:GQ 0/1:186,27:59:-43.12,-23.65,-203.21:99
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chr1 2617028 rs61765757 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=178;Dels=0.00;HRun=0;HaplotypeScore=111.43;MQ=24.75;MQ0=28;OQ=1236.03;QD=6.94;SB=-23.31 GT:AD:DP:GL:GQ 0/1:36,141:55:-143.45,-16.57,-61.22:99
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chr1 2617033 rs61765759 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=173;Dels=0.00;HRun=0;HaplotypeScore=123.68;MQ=24.76;MQ0=29;OQ=945.67;QD=5.47;SB=-60.88 GT:AD:DP:GL:GQ 0/1:19,129:49:-112.61,-14.76,-62.28:99
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chr1 2617058 rs28585375 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=236;Dels=0.00;HRun=0;HaplotypeScore=112.06;MQ=22.97;MQ0=54;OQ=357.80;QD=1.52;SB=-120.52 GT:AD:DP:GL:GQ 0/1:214,20:72:-60.76,-21.69,-192.59:99
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chr1 2617101 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=207;Dels=0.00;HRun=1;HaplotypeScore=89.01;MQ=23.73;MQ0=48;OQ=1884.44;QD=9.10;SB=-387.68 GT:AD:DP:GL:GQ 0/1:34,172:76:-214.63,-22.90,-42.31:99
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chr1 2617123 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=0;HaplotypeScore=48.50;MQ=26.08;MQ0=56;OQ=129.18;QD=0.64;SB=-72.20 GT:AD:DP:GL:GQ 0/1:185,17:80:-40.33,-24.13,-284.57:99
|
|
chr1 2617151 . G C 42.86 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=191;Dels=0.00;HRun=2;HaplotypeScore=97.11;MQ=23.22;MQ0=69;QD=0.22;SB=-10.77 GT:AD:DP:GL:GQ 0/1:167,21:55:-24.18,-16.61,-193.30:75.70
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chr1 2617160 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=181;Dels=0.00;HRun=1;HaplotypeScore=68.35;MQ=20.95;MQ0=76;OQ=103.39;QD=0.57;SB=17.08 GT:AD:DP:GL:GQ 0/1:148,32:50:-28.69,-15.07,-157.59:99
|
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chr1 2617178 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.01;HRun=4;HaplotypeScore=67.98;MQ=19.71;MQ0=69;OQ=224.46;QD=1.59;SB=-23.83 GT:AD:DP:GL:GQ 0/1:56,82:32:-35.39,-9.66,-90.46:99
|
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chr1 2617216 . T C 14.18 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=2;HaplotypeScore=54.33;MQ=16.92;MQ0=58;QD=0.13;SB=5.04 GT:AD:DP:GL:GQ 0/1:54,55:21:-11.01,-6.33,-70.16:46.85
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chr1 2617218 . C G 13.85 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=108;Dels=0.00;HRun=0;HaplotypeScore=69.57;MQ=15.97;MQ0=58;QD=0.13;SB=5.05 GT:AD:DP:GL:GQ 0/1:87,20:21:-10.98,-6.33,-76.68:46.51
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chr1 2617261 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=41.53;MQ=20.71;MQ0=16;OQ=109.26;QD=1.79;SB=-48.91 GT:AD:DP:GL:GQ 0/1:26,35:19:-19.93,-5.73,-46.91:99
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chr1 2617273 rs61466658 T C 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=31.65;MQ=19.33;MQ0=33;OQ=744.68;QD=8.97;SB=-307.99 GT:AD:DP:GL:GQ 1/1:6,73:24:-80.83,-7.23,-2.78:44.58
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chr1 2617320 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=383;Dels=0.00;HRun=2;HaplotypeScore=179.89;MQ=20.12;MQ0=69;OQ=511.87;QD=1.34;SB=-192.93 GT:AD:DP:GL:GQ 0/1:271,102:88:-80.98,-26.51,-240.14:99
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chr1 2617333 . A C 189.16 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=412;Dels=0.00;HRun=1;HaplotypeScore=324.51;MQ=20.25;MQ0=68;QD=0.46;SB=-46.42 GT:AD:DP:GL:GQ 0/1:362,48:102:-52.93,-30.73,-310.85:99
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chr1 2617334 . C T 347.52 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=413;Dels=0.00;HRun=0;HaplotypeScore=315.80;MQ=20.22;MQ0=68;QD=0.84;SB=-93.66 GT:AD:DP:GL:GQ 0/1:367,35:98:-67.59,-29.55,-258.47:99
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chr1 2617338 . C G 222.34 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=432;Dels=0.00;HRun=0;HaplotypeScore=396.78;MQ=20.69;MQ0=66;QD=0.51;SB=19.38 GT:AD:DP:GL:GQ 0/1:381,42:103:-66.44,-40.92,-386.05:99
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chr1 2617341 . G T 154.66 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=435;Dels=0.00;HRun=1;HaplotypeScore=393.28;MQ=20.73;MQ0=66;QD=0.36;SB=-27.31 GT:AD:DP:GL:GQ 0/1:377,44:114:-56.17,-37.42,-341.25:99
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chr1 2617354 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=456;Dels=0.00;HRun=0;HaplotypeScore=284.18;MQ=21.50;MQ0=65;OQ=410.45;QD=0.90;SB=-157.97 GT:AD:DP:GL:GQ 0/1:367,88:128:-86.24,-41.91,-394.71:99
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chr1 2617375 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=397;Dels=0.00;HRun=0;HaplotypeScore=286.33;MQ=23.04;MQ0=37;OQ=238.47;QD=0.60;SB=-127.61 GT:AD:DP:GL:GQ 0/1:316,80:131:-66.59,-39.46,-400.07:99
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chr1 2617377 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=393;Dels=0.00;HRun=0;HaplotypeScore=264.38;MQ=23.09;MQ0=38;OQ=52.53;QD=0.13;SB=34.31 GT:AD:DP:GL:GQ 0/1:349,42:132:-48.29,-39.76,-421.34:85.37
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chr1 2617406 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=231;Dels=0.00;HRun=0;HaplotypeScore=150.38;MQ=24.81;MQ0=30;OQ=1026.09;QD=4.44;SB=-81.56 GT:AD:DP:GL:GQ 0/1:71,150:85:-131.52,-25.63,-230.33:99
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chr1 2617434 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=144;Dels=0.00;HRun=0;HaplotypeScore=111.67;MQ=24.27;MQ0=28;OQ=290.81;QD=2.02;SB=-29.80 GT:AD:DP:GL:GQ 0/1:61,70:56:-59.33,-26.96,-156.98:99
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chr1 2617463 rs56282610 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=58.94;MQ=24.92;MQ0=20;OQ=411.11;QD=4.42;SB=-153.67 GT:AD:DP:GL:GQ 0/1:29,63:36:-55.25,-10.85,-76.21:99
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chr1 2617490 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=85.26;MQ=28.92;MQ0=14;OQ=93.54;QD=0.96;SB=32.09 GT:AD:DP:GL:GQ 0/1:84,12:39:-24.38,-11.75,-112.74:99
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chr1 2617496 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=107.91;MQ=30.31;MQ0=12;OQ=102.53;QD=1.11;SB=32.10 GT:AD:DP:GL:GQ 0/1:79,12:38:-24.98,-11.44,-111.78:99
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chr1 2617505 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=81.67;MQ=32.33;MQ0=11;OQ=247.78;QD=2.69;SB=-60.73 GT:AD:DP:GL:GQ 0/1:40,39:40:-40.11,-12.05,-107.49:99
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chr1 2617521 rs56279030 G C 42.50 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=107;Dels=0.00;HRun=0;HaplotypeScore=51.30;MQ=31.83;MQ0=12;QD=0.40;SB=0.26 GT:AD:DP:GL:GQ 0/1:94,13:44:-20.79,-13.26,-170.49:75.34
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chr1 2617526 rs28536771 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=105;Dels=0.00;HRun=0;HaplotypeScore=63.55;MQ=32.40;MQ0=9;OQ=160.23;QD=1.53;SB=-3.57 GT:AD:DP:GL:GQ 0/1:45,55:37:-30.46,-11.15,-113.20:99
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chr1 2617584 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=146;Dels=0.00;HRun=0;HaplotypeScore=87.31;MQ=28.18;MQ0=10;OQ=524.04;QD=3.59;SB=-151.92 GT:AD:DP:GL:GQ 0/1:49,97:62:-74.37,-18.69,-162.12:99
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chr1 2617611 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=154;Dels=0.01;HRun=0;HaplotypeScore=176.05;MQ=27.08;MQ0=16;OQ=81.66;QD=0.53;SB=-0.83 GT:AD:DP:GL:GQ 0/1:126,24:59:-29.22,-17.77,-179.32:99
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chr1 2617617 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=150;Dels=0.00;HRun=0;HaplotypeScore=177.05;MQ=27.20;MQ0=14;OQ=126.07;QD=0.84;SB=8.21 GT:AD:DP:GL:GQ 0/1:125,25:58:-33.36,-17.47,-170.99:99
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chr1 2617626 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=140;Dels=0.00;HRun=0;HaplotypeScore=162.52;MQ=28.40;MQ0=11;OQ=508.32;QD=3.63;SB=-161.48 GT:AD:DP:GL:GQ 0/1:40,77:57:-73.89,-19.78,-125.32:99
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chr1 2617630 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=1;HaplotypeScore=122.08;MQ=28.20;MQ0=11;OQ=734.14;QD=5.13;SB=-361.31 GT:AD:DP:GL:GQ 0/1:73,47:61:-98.65,-21.95,-111.48:99
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chr1 2617659 rs55801140 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=159;Dels=0.00;HRun=0;HaplotypeScore=125.08;MQ=27.55;MQ0=12;OQ=175.93;QD=1.11;SB=23.11 GT:AD:DP:GL:GQ 0/1:141,12:44:-34.15,-13.27,-148.76:99
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chr1 2617668 rs28535687 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=135;Dels=0.00;HRun=0;HaplotypeScore=255.63;MQ=27.99;MQ0=8;OQ=172.40;QD=1.28;SB=-72.12 GT:AD:DP:GL:GQ 0/1:31,69:32:-40.65,-20.12,-107.26:99
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chr1 2617672 . G T 32.81 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=132;Dels=0.00;HRun=0;HaplotypeScore=245.46;MQ=28.29;MQ0=7;QD=0.25;SB=11.06 GT:AD:DP:GL:GQ 0/1:84,46:25:-14.10,-7.54,-64.41:65.64
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chr1 2617713 . C T 25.50 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=172;Dels=0.00;HRun=0;HaplotypeScore=235.92;MQ=23.71;MQ0=16;QD=0.15;SB=11.61 GT:AD:DP:GL:GQ 0/1:80,75:31:-15.18,-9.35,-88.30:58.32
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chr1 2617737 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=1;HaplotypeScore=196.10;MQ=25.34;MQ0=20;OQ=242.18;QD=1.19;SB=-124.57 GT:AD:DP:GL:GQ 0/1:154,44:50:-42.56,-15.06,-131.92:99
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chr1 2617767 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=0;HaplotypeScore=115.66;MQ=29.10;MQ0=18;OQ=374.38;QD=2.92;SB=-46.69 GT:AD:DP:GL:GQ 0/1:37,72:41:-53.07,-12.35,-97.04:99
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chr1 2617781 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=0;HaplotypeScore=110.28;MQ=28.42;MQ0=22;OQ=65.20;QD=0.50;SB=26.12 GT:AD:DP:GL:GQ 0/1:110,18:43:-22.77,-12.97,-156.99:98.03
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chr1 2617809 rs28698520 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=120;Dels=0.01;HRun=1;HaplotypeScore=154.47;MQ=26.46;MQ0=29;OQ=544.53;QD=4.54;SB=20.07 GT:AD:DP:GL:GQ 0/1:74,45:37:-68.88,-11.15,-59.02:99
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chr1 2617834 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=1;HaplotypeScore=142.69;MQ=25.75;MQ0=33;OQ=247.39;QD=1.66;SB=-8.79 GT:AD:DP:GL:GQ 0/1:101,20:44:-48.54,-20.52,-132.57:99
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chr1 2617846 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=163;Dels=0.00;HRun=0;HaplotypeScore=110.83;MQ=27.45;MQ0=31;OQ=574.67;QD=3.53;SB=-169.29 GT:AD:DP:GL:GQ 0/1:34,98:52:-84.16,-23.41,-106.75:99
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chr1 2617859 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=258;Dels=0.00;HRun=0;HaplotypeScore=189.65;MQ=26.24;MQ0=36;OQ=661.11;QD=2.56;SB=-188.93 GT:AD:DP:GL:GQ 0/1:183,74:74:-91.72,-22.32,-216.13:99
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chr1 2617878 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=308;Dels=0.00;HRun=0;HaplotypeScore=214.86;MQ=26.40;MQ0=36;OQ=1364.14;QD=4.43;SB=-695.16 GT:AD:DP:GL:GQ 0/1:245,61:100:-169.82,-30.12,-204.71:99
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chr1 2617913 rs61766463 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=276;Dels=0.00;HRun=0;HaplotypeScore=33.34;MQ=34.26;MQ0=23;OQ=345.85;QD=1.25;SB=54.43 GT:AD:DP:GL:GQ 0/1:130,145:134:-78.24,-40.37,-397.42:99
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chr1 2617929 rs61766464 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=313;Dels=0.00;HRun=0;HaplotypeScore=209.86;MQ=34.59;MQ0=24;OQ=2475.95;QD=7.91;SB=-469.20 GT:AD:DP:GL:GQ 0/1:207,106:147:-295.16,-44.28,-232.82:99
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chr1 2617945 rs61766465 G A 678.02 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=327;Dels=0.00;HRun=0;HaplotypeScore=293.41;MQ=35.76;MQ0=33;QD=2.07;SB=57.72 GT:AD:DP:GL:GQ 0/1:285,42:156:-118.09,-47.00,-457.61:99
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chr1 2617948 . A T 1515.78 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=339;Dels=0.00;HRun=0;HaplotypeScore=339.78;MQ=35.84;MQ0=34;QD=4.47;SB=-315.59 GT:AD:DP:GL:GQ 0/1:267,71:155:-201.56,-46.69,-377.16:99
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chr1 2617953 rs61766466 C A 621.95 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=348;Dels=0.00;HRun=0;HaplotypeScore=257.70;MQ=36.09;MQ0=43;QD=1.79;SB=55.33 GT:AD:DP:GL:GQ 0/1:287,49:168:-116.08,-50.61,-483.68:99
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chr1 2618063 rs28379532 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=143;Dels=0.02;HRun=0;HaplotypeScore=36.25;MQ=31.70;MQ0=29;OQ=1863.52;QD=13.03;SB=-253.52 GT:AD:DP:GL:GQ 0/1:27,111:85:-215.25,-25.61,-83.05:99
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chr1 2618135 rs28499404 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=183;Dels=0.00;HRun=0;HaplotypeScore=48.32;MQ=27.35;MQ0=42;OQ=347.83;QD=1.90;SB=-174.55 GT:AD:DP:GL:GQ 0/1:162,21:105:-69.72,-31.65,-366.58:99
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chr1 2618152 rs61766467 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=192;Dels=0.00;HRun=1;HaplotypeScore=85.82;MQ=26.36;MQ0=44;OQ=458.63;QD=2.39;SB=-15.83 GT:AD:DP:GL:GQ 0/1:151,41:104:-80.48,-31.33,-290.41:99
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chr1 2618186 rs28655771 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=193;Dels=0.00;HRun=1;HaplotypeScore=114.84;MQ=21.49;MQ0=56;OQ=2645.92;QD=13.71;SB=-1050.69 GT:AD:DP:GL:GQ 1/1:5,188:77:-268.22,-23.20,-0.04:99
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chr1 2618191 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=0;HaplotypeScore=161.00;MQ=22.90;MQ0=57;OQ=50.10;QD=0.25;SB=39.02 GT:AD:DP:GL:GQ 0/1:173,30:86:-34.21,-25.91,-268.48:82.93
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chr1 2618226 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=268;Dels=0.00;HRun=0;HaplotypeScore=192.42;MQ=33.49;MQ0=36;OQ=337.18;QD=1.26;SB=-53.39 GT:AD:DP:GL:GQ 0/1:227,40:152:-82.80,-45.80,-457.42:99
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chr1 2618254 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=296;Dels=0.00;HRun=0;HaplotypeScore=166.54;MQ=37.41;MQ0=24;OQ=808.97;QD=2.73;SB=-397.12 GT:AD:DP:GL:GQ 0/1:225,67:181:-140.83,-56.65,-515.36:99
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chr1 2618301 . C A 998.94 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=292;Dels=0.00;HRun=0;HaplotypeScore=277.61;MQ=43.53;MQ0=9;QD=3.42;SB=-458.03 GT:AD:DP:GL:GQ 0/1:215,74:195:-161.93,-58.75,-524.06:99
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chr1 2618303 . C A 591.91 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=295;Dels=0.00;HRun=0;HaplotypeScore=301.39;MQ=43.31;MQ0=10;QD=2.01;SB=-293.38 GT:AD:DP:GL:GQ 0/1:236,56:205:-124.23,-61.75,-600.14:99
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chr1 2618307 . G A 971.72 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=283;Dels=0.00;HRun=0;HaplotypeScore=193.14;MQ=43.47;MQ0=11;QD=3.43;SB=-273.43 GT:AD:DP:GL:GQ 0/1:228,48:199:-160.42,-59.96,-556.19:99
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chr1 2618320 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=309;Dels=0.00;HRun=0;HaplotypeScore=150.76;MQ=41.04;MQ0=29;OQ=452.34;QD=1.46;SB=-151.56 GT:AD:DP:GL:GQ 0/1:223,31:184:-121.13,-72.62,-509.07:99
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chr1 2618366 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=558;Dels=0.00;HRun=0;HaplotypeScore=219.65;MQ=26.44;MQ0=134;OQ=289.23;QD=0.52;SB=167.70 GT:AD:DP:GL:GQ 0/1:454,69:221:-105.97,-73.77,-728.70:99
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chr1 2618375 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=585;Dels=0.00;HRun=0;HaplotypeScore=337.36;MQ=25.16;MQ0=141;OQ=507.21;QD=0.87;SB=196.74 GT:AD:DP:GL:GQ 0/1:487,75:227:-128.47,-74.47,-700.80:99
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chr1 2618378 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=594;Dels=0.00;HRun=0;HaplotypeScore=307.01;MQ=24.92;MQ0=142;OQ=386.51;QD=0.65;SB=-74.59 GT:AD:DP:GL:GQ 0/1:524,66:225:-115.59,-73.65,-670.89:99
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chr1 2618414 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=573;Dels=0.00;HRun=1;HaplotypeScore=206.56;MQ=24.36;MQ0=140;OQ=719.44;QD=1.26;SB=-72.20 GT:AD:DP:GL:GQ 0/1:439,119:210:-138.50,-63.27,-592.09:99
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chr1 2618418 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=531;Dels=0.00;HRun=0;HaplotypeScore=181.25;MQ=24.54;MQ0=131;OQ=939.27;QD=1.77;SB=-76.38 GT:AD:DP:GL:GQ 0/1:427,103:204:-158.68,-61.47,-574.55:99
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chr1 2618432 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=412;Dels=0.00;HRun=0;HaplotypeScore=70.50;MQ=25.62;MQ0=105;OQ=877.24;QD=2.13;SB=-428.33 GT:AD:DP:GL:GQ 0/1:368,44:152:-136.86,-45.86,-364.87:99
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chr1 2618444 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=352;Dels=0.00;HRun=1;HaplotypeScore=46.24;MQ=26.18;MQ0=89;OQ=1301.34;QD=3.70;SB=170.58 GT:AD:DP:GL:GQ 0/1:167,181:143:-176.57,-43.15,-394.32:99
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chr1 2618459 rs61766471 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=309;Dels=0.00;HRun=0;HaplotypeScore=122.77;MQ=27.15;MQ0=60;OQ=430.68;QD=1.39;SB=-167.89 GT:AD:DP:GL:GQ 0/1:283,25:135:-87.04,-40.69,-380.50:99
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chr1 2618482 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=224;Dels=0.00;HRun=0;HaplotypeScore=91.95;MQ=32.62;MQ0=31;OQ=752.10;QD=3.36;SB=-248.53 GT:AD:DP:GL:GQ 0/1:115,107:101:-108.92,-30.43,-254.35:99
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chr1 2618501 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=234;Dels=0.01;HRun=4;HaplotypeScore=341.35;MQ=30.82;MQ0=33;OQ=155.62;QD=0.67;SB=92.01 GT:AD:DP:GL:GQ 0/1:155,66:98:-53.97,-35.12,-329.58:99
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chr1 2618530 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=231;Dels=0.00;HRun=0;HaplotypeScore=168.93;MQ=32.32;MQ0=29;OQ=236.35;QD=1.02;SB=-122.19 GT:AD:DP:GL:GQ 0/1:211,19:107:-59.16,-32.24,-318.05:99
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chr1 2618557 rs28411025 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=156;Dels=0.00;HRun=0;HaplotypeScore=133.44;MQ=39.19;MQ0=9;OQ=2883.82;QD=18.49;SB=-1383.19 GT:AD:DP:GL:GQ 0/1:27,128:92:-319.41,-27.74,-64.72:99
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chr1 2618577 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=228;Dels=0.01;HRun=1;HaplotypeScore=243.04;MQ=34.35;MQ0=14;OQ=206.46;QD=0.91;SB=-125.59 GT:AD:DP:GL:GQ 0/1:119,105:92:-51.66,-27.73,-260.87:99
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chr1 2618590 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=341;Dels=0.00;HRun=0;HaplotypeScore=269.37;MQ=32.40;MQ0=23;OQ=694.60;QD=2.04;SB=-10.03 GT:AD:DP:GL:GQ 0/1:206,129:134:-115.74,-43.00,-326.10:99
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chr1 2618603 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=385;Dels=0.00;HRun=0;HaplotypeScore=742.67;MQ=32.24;MQ0=20;OQ=374.09;QD=0.97;SB=-84.54 GT:AD:DP:GL:GQ 0/1:213,140:157:-94.37,-53.68,-577.68:99
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chr1 2618613 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=414;Dels=0.00;HRun=1;HaplotypeScore=803.50;MQ=31.66;MQ0=23;OQ=626.38;QD=1.51;SB=181.82 GT:AD:DP:GL:GQ 0/1:349,58:175:-118.68,-52.76,-621.84:99
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chr1 2618617 . A C 34.85 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=417;Dels=0.00;HRun=1;HaplotypeScore=645.23;MQ=31.22;MQ0=23;QD=0.08;SB=-15.32 GT:AD:DP:GL:GQ 0/1:232,176:163:-62.01,-55.24,-512.02:67.68
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chr1 2618648 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=485;Dels=0.00;HRun=0;HaplotypeScore=582.18;MQ=29.51;MQ0=32;OQ=1313.91;QD=2.71;SB=163.03 GT:AD:DP:GL:GQ 0/1:367,113:208:-197.35,-62.68,-695.38:99
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chr1 2618651 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=487;Dels=0.00;HRun=0;HaplotypeScore=686.95;MQ=29.46;MQ0=33;OQ=108.10;QD=0.22;SB=256.13 GT:AD:DP:GL:GQ 0/1:431,46:211:-84.08,-69.98,-671.09:99
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chr1 2618685 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=500;Dels=0.00;HRun=1;HaplotypeScore=291.67;MQ=27.86;MQ0=33;OQ=4318.30;QD=8.64;SB=-761.47 GT:AD:DP:GL:GQ 0/1:182,284:216:-430.83,-67.58,-458.35:99
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chr1 2618707 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=462;Dels=0.01;HRun=4;HaplotypeScore=721.39;MQ=29.06;MQ0=34;OQ=2615.02;QD=5.66;SB=-699.35 GT:AD:DP:GL:GQ 0/1:165,282:202:-327.27,-62.48,-383.70:99
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chr1 2618711 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=464;Dels=0.00;HRun=0;HaplotypeScore=458.70;MQ=28.79;MQ0=35;OQ=1658.43;QD=3.57;SB=-180.55 GT:AD:DP:GL:GQ 0/1:156,178:185:-246.74,-77.62,-433.93:99
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chr1 2618743 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=565;Dels=0.00;HRun=1;HaplotypeScore=594.08;MQ=28.52;MQ0=39;OQ=195.57;QD=0.35;SB=27.58 GT:AD:DP:GL:GQ 0/1:503,58:268:-103.62,-80.78,-771.76:99
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chr1 2618776 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=541;Dels=0.00;HRun=0;HaplotypeScore=502.52;MQ=30.93;MQ0=35;OQ=5244.83;QD=9.69;SB=-856.66 GT:AD:DP:GL:GQ 0/1:182,353:279:-523.48,-84.06,-514.94:99
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chr1 2618784 . C T 23.85 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=542;Dels=0.00;HRun=0;HaplotypeScore=612.02;MQ=31.33;MQ0=33;QD=0.04;SB=67.53 GT:AD:DP:GL:GQ 0/1:386,152:218:-71.34,-65.68,-703.92:56.67
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chr1 2618799 rs61766473 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=520;Dels=0.00;HRun=1;HaplotypeScore=456.03;MQ=31.14;MQ0=35;OQ=4809.01;QD=9.25;SB=-828.34 GT:AD:DP:GL:GQ 0/1:169,328:274:-479.90,-94.56,-523.76:99
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chr1 2618813 rs28570043 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=586;Dels=0.00;HRun=0;HaplotypeScore=299.20;MQ=30.92;MQ0=47;OQ=1856.68;QD=3.17;SB=-717.31 GT:AD:DP:GL:GQ 0/1:501,75:250:-270.75,-81.80,-777.18:99
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chr1 2618823 rs61766474 A T 4860.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=562;Dels=0.00;HRun=0;HaplotypeScore=709.32;MQ=30.48;MQ0=44;QD=8.65;SB=-560.15 GT:AD:DP:GL:GQ 0/1:287,273:277:-485.00,-83.44,-550.46:99
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chr1 2618832 . C G 1479.75 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=512;Dels=0.00;HRun=2;HaplotypeScore=411.64;MQ=30.81;MQ0=42;QD=2.89;SB=-17.36 GT:AD:DP:GL:GQ 0/1:367,94:241:-231.26,-80.00,-778.36:99
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chr1 2618833 . G C 375.40 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=513;Dels=0.00;HRun=1;HaplotypeScore=505.52;MQ=30.67;MQ0=42;QD=0.73;SB=152.53 GT:AD:DP:GL:GQ 0/1:466,47:236:-112.05,-71.23,-847.97:99
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chr1 2618853 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=470;Dels=0.00;HRun=0;HaplotypeScore=742.82;MQ=31.02;MQ0=40;OQ=917.98;QD=1.95;SB=-4.91 GT:AD:DP:GL:GQ 0/1:336,89:211:-236.75,-141.67,-586.15:99
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chr1 2618854 rs61766475 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=465;Dels=0.00;HRun=1;HaplotypeScore=675.66;MQ=31.14;MQ0=39;OQ=3030.86;QD=6.52;SB=-170.15 GT:AD:DP:GL:GQ 0/1:129,210:216:-470.96,-164.59,-497.24:99
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chr1 2618865 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=505;Dels=0.00;HRun=0;HaplotypeScore=338.61;MQ=30.47;MQ0=44;OQ=342.56;QD=0.68;SB=-14.42 GT:AD:DP:GL:GQ 0/1:439,53:231:-117.83,-80.29,-726.19:99
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chr1 2618904 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=499;Dels=0.00;HRun=4;HaplotypeScore=608.12;MQ=29.15;MQ0=44;OQ=1769.15;QD=3.55;SB=89.28 GT:AD:DP:GL:GQ 0/1:280,197:227:-252.16,-71.97,-553.68:99
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chr1 2618905 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=514;Dels=0.00;HRun=0;HaplotypeScore=596.36;MQ=29.03;MQ0=46;OQ=337.81;QD=0.66;SB=-30.28 GT:AD:DP:GL:GQ 0/1:424,43:227:-138.22,-101.16,-705.27:99
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chr1 2618928 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=624;Dels=0.00;HRun=2;HaplotypeScore=323.04;MQ=29.42;MQ0=49;OQ=696.10;QD=1.12;SB=42.74 GT:AD:DP:GL:GQ 0/1:499,120:322:-169.90,-97.01,-976.27:99
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chr1 2618942 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=632;Dels=0.00;HRun=0;HaplotypeScore=427.92;MQ=29.57;MQ0=51;OQ=1430.20;QD=2.26;SB=-6.35 GT:AD:DP:GL:GQ 0/1:441,177:340:-255.05,-108.75,-1027.84:99
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chr1 2618944 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=660;Dels=0.01;HRun=1;HaplotypeScore=381.00;MQ=29.09;MQ0=58;OQ=94.18;QD=0.14;SB=-52.32 GT:AD:DP:GL:GQ 0/1:544,51:336:-209.60,-196.90,-1072.15:99
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chr1 2619010 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=979;Dels=0.00;HRun=0;HaplotypeScore=447.29;MQ=26.60;MQ0=70;OQ=796.25;QD=0.81;SB=-92.06 GT:AD:DP:GL:GQ 0/1:864,98:425:-220.34,-137.43,-1275.90:99
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chr1 2619053 rs28733941 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=909;Dels=0.00;HRun=0;HaplotypeScore=595.79;MQ=27.09;MQ0=60;OQ=13631.67;QD=15.00;SB=-2975.80 GT:AD:DP:GL:GQ 0/1:104,553:419:-1362.17,-600.80,-836.54:99
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chr1 2619065 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1083;Dels=0.00;HRun=0;HaplotypeScore=883.09;MQ=27.27;MQ0=55;OQ=741.35;QD=0.68;SB=-174.53 GT:AD:DP:GL:GQ 0/1:939,125:552:-281.40,-203.98,-1716.07:99
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chr1 2619068 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1124;Dels=0.00;HRun=1;HaplotypeScore=958.29;MQ=27.28;MQ0=55;OQ=693.79;QD=0.62;SB=-203.14 GT:AD:DP:GL:GQ 0/1:985,132:593:-257.34,-184.67,-1827.88:99
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chr1 2619088 rs28368434 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=1328;Dels=0.00;HRun=2;HaplotypeScore=334.46;MQ=28.00;MQ0=46;OQ=7035.59;QD=5.30;SB=-1628.81 GT:AD:DP:GL:GQ 0/1:1024,295:793:-702.56,-254.86,-2119.90:99
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chr1 2619105 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=1330;Dels=0.00;HRun=0;HaplotypeScore=932.09;MQ=28.23;MQ0=29;OQ=2367.59;QD=1.78;SB=-1159.72 GT:AD:DP:GL:GQ 0/1:991,151:799:-779.65,-539.60,-2921.50:99
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chr1 2619148 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=990;Dels=0.00;HRun=0;HaplotypeScore=340.48;MQ=27.70;MQ0=55;OQ=2332.09;QD=2.36;SB=-739.43 GT:AD:DP:GL:GQ 0/1:796,178:558:-439.22,-202.73,-1989.78:99
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chr1 2619186 . A C 371.93 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=419;Dels=0.00;HRun=2;HaplotypeScore=464.28;MQ=28.43;MQ0=32;QD=0.89;SB=-209.63 GT:AD:DP:GL:GQ 0/1:320,97:190:-97.71,-57.24,-585.62:99
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chr1 2619187 . A C 430.91 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=400;Dels=0.00;HRun=1;HaplotypeScore=324.16;MQ=28.26;MQ0=30;QD=1.08;SB=-112.57 GT:AD:DP:GL:GQ 0/1:310,88:169:-97.29,-50.91,-502.75:99
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chr1 2619196 rs61766477 C T 639.34 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=339;Dels=0.00;HRun=0;HaplotypeScore=406.21;MQ=29.84;MQ0=24;QD=1.89;SB=-240.09 GT:AD:DP:GL:GQ 0/1:283,37:141:-134.06,-66.84,-411.36:99
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chr1 2619205 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=257;Dels=0.00;HRun=0;HaplotypeScore=259.69;MQ=32.70;MQ0=16;OQ=1928.35;QD=7.50;SB=-426.10 GT:AD:DP:GL:GQ 0/1:80,173:106:-228.05,-31.94,-159.03:99
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chr1 2619218 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=235;Dels=0.00;HRun=1;HaplotypeScore=278.38;MQ=35.10;MQ0=10;OQ=372.83;QD=1.59;SB=-167.14 GT:AD:DP:GL:GQ 0/1:174,58:82:-65.27,-24.71,-216.22:99
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chr1 2619230 . G A 206.96 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=238;Dels=0.00;HRun=1;HaplotypeScore=422.57;MQ=34.96;MQ0=8;QD=0.87;SB=86.30 GT:AD:DP:GL:GQ 0/1:192,38:100:-59.43,-35.45,-312.61:99
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chr1 2619232 . T C 831.94 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=232;Dels=0.00;HRun=0;HaplotypeScore=355.75;MQ=35.18;MQ0=8;QD=3.59;SB=-351.57 GT:AD:DP:GL:GQ 0/1:163,64:87:-112.72,-26.24,-194.80:99
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chr1 2619238 . G T 230.19 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=214;Dels=0.00;HRun=0;HaplotypeScore=374.27;MQ=36.67;MQ0=6;QD=1.08;SB=104.29 GT:AD:DP:GL:GQ 0/1:105,106:92:-54.02,-27.71,-267.56:99
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chr1 2619244 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=201;Dels=0.00;HRun=0;HaplotypeScore=269.42;MQ=37.21;MQ0=7;OQ=1921.19;QD=9.56;SB=-479.90 GT:AD:DP:GL:GQ 0/1:57,142:93:-223.42,-28.02,-104.14:99
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chr1 2619306 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=2;HaplotypeScore=23.50;MQ=42.95;MQ0=2;OQ=983.37;QD=8.48;SB=-151.45 GT:AD:DP:GL:GQ 0/1:49,66:80:-128.94,-27.32,-178.83:99
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chr1 2619313 . T G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=14.58;MQ=45.37;MQ0=2;OQ=717.70;QD=7.40;SB=-61.81 GT:AD:DP:GL:GQ 0/1:47,50:71:-96.45,-21.40,-150.45:99
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chr1 2619324 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=29.83;MQ=44.91;MQ0=2;OQ=606.68;QD=6.74;SB=-59.89 GT:AD:DP:GL:GQ 0/1:45,45:58:-81.45,-17.50,-117.39:99
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chr1 2619346 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=198;Dels=0.01;HRun=2;HaplotypeScore=304.95;MQ=34.96;MQ0=2;OQ=1893.09;QD=9.56;SB=62.22 GT:AD:DP:GL:GQ 0/1:48,144:92:-224.02,-31.43,-163.64:99
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chr1 2619351 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=249;Dels=0.00;HRun=1;HaplotypeScore=417.56;MQ=32.10;MQ0=4;OQ=1347.04;QD=5.41;SB=71.23 GT:AD:DP:GL:GQ 0/1:80,143:111:-171.44,-33.46,-209.78:99
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chr1 2619360 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=388;Dels=0.00;HRun=1;HaplotypeScore=438.87;MQ=28.93;MQ0=6;OQ=112.12;QD=0.29;SB=98.35 GT:AD:DP:GL:GQ 0/1:301,77:156:-68.00,-53.51,-526.40:99
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chr1 2619395 rs61766478 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=748;Dels=0.00;HRun=0;HaplotypeScore=964.64;MQ=26.94;MQ0=26;OQ=5287.26;QD=7.07;SB=128.59 GT:AD:DP:GL:GQ 0/1:216,518:288:-527.73,-89.49,-471.13:99
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chr1 2619416 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=775;Dels=0.00;HRun=0;HaplotypeScore=727.49;MQ=27.55;MQ0=26;OQ=6889.43;QD=8.89;SB=178.09 GT:AD:DP:GL:GQ 0/1:249,511:342:-687.94,-103.01,-497.11:99
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chr1 2619432 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=738;Dels=0.01;HRun=0;HaplotypeScore=785.98;MQ=28.56;MQ0=15;OQ=287.49;QD=0.39;SB=162.31 GT:AD:DP:GL:GQ 0/1:586,116:299:-161.89,-129.86,-1001.87:99
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chr1 2619446 rs61766479 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=555;Dels=0.00;HRun=1;HaplotypeScore=580.47;MQ=30.08;MQ0=12;OQ=4833.38;QD=8.71;SB=183.30 GT:AD:DP:GL:GQ 0/1:214,317:283:-482.34,-118.04,-540.99:99
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chr1 2619465 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=306;Dels=0.02;HRun=1;HaplotypeScore=404.44;MQ=32.23;MQ0=6;OQ=129.50;QD=0.42;SB=102.00 GT:AD:DP:GL:GQ 0/1:203,74:120:-64.50,-48.27,-416.86:99
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chr1 2619467 rs61766480 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=303;Dels=0.02;HRun=1;HaplotypeScore=363.13;MQ=31.91;MQ0=6;OQ=4502.12;QD=14.86;SB=-1253.39 GT:AD:DP:GL:GQ 0/1:40,252:153:-449.21,-45.80,-111.82:99
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chr1 2619477 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=279;Dels=0.00;HRun=0;HaplotypeScore=335.87;MQ=32.02;MQ0=7;OQ=542.66;QD=1.95;SB=122.33 GT:AD:DP:GL:GQ 0/1:161,107:129:-96.42,-38.87,-351.57:99
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chr1 2619489 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=268;Dels=0.00;HRun=1;HaplotypeScore=215.67;MQ=32.52;MQ0=8;OQ=1128.11;QD=4.21;SB=95.32 GT:AD:DP:GL:GQ 0/1:114,145:131:-166.02,-49.92,-331.55:99
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chr1 2619505 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=271;Dels=0.00;HRun=0;HaplotypeScore=305.81;MQ=31.15;MQ0=10;OQ=135.21;QD=0.50;SB=68.22 GT:AD:DP:GL:GQ 0/1:237,31:129:-55.67,-38.86,-389.56:99
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chr1 2619511 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=262;Dels=0.00;HRun=0;HaplotypeScore=356.76;MQ=30.03;MQ0=11;OQ=250.01;QD=0.95;SB=47.18 GT:AD:DP:GL:GQ 0/1:212,49:118:-63.84,-35.55,-351.09:99
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chr1 2619524 rs34081960 A G 343.80 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=216;Dels=0.00;HRun=1;HaplotypeScore=217.57;MQ=30.42;MQ0=7;QD=1.59;SB=47.18 GT:AD:DP:GL:GQ 0/1:179,33:102:-68.39,-30.73,-325.69:99
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chr1 2619526 . C A 23.86 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=205;Dels=0.00;HRun=1;HaplotypeScore=236.96;MQ=30.18;MQ0=8;QD=0.12;SB=44.17 GT:AD:DP:GL:GQ 0/1:190,11:95:-34.28,-28.61,-300.58:56.68
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chr1 2619527 . A C 538.74 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=197;Dels=0.00;HRun=1;HaplotypeScore=224.55;MQ=30.05;MQ0=8;QD=2.73;SB=-87.11 GT:AD:DP:GL:GQ 0/1:122,73:87:-83.37,-26.21,-226.60:99
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chr1 2619530 . T G 866.27 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=215.21;MQ=31.06;MQ0=6;QD=4.84;SB=12.12 GT:AD:DP:GL:GQ 0/1:87,85:86:-126.63,-36.72,-179.70:99
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chr1 2619534 . A G 264.68 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=172;Dels=0.00;HRun=1;HaplotypeScore=280.66;MQ=30.98;MQ0=7;QD=1.54;SB=41.16 GT:AD:DP:GL:GQ 0/1:139,33:74:-52.04,-22.29,-233.98:99
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chr1 2619544 . C T 108.85 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=155;Dels=0.06;HRun=0;HaplotypeScore=267.97;MQ=31.40;MQ0=5;QD=0.70;SB=38.12 GT:AD:DP:GL:GQ 0/1:124,16:57:-34.75,-20.58,-177.62:99
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chr1 2619546 . C G 37.35 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=150;Dels=0.00;HRun=0;HaplotypeScore=251.96;MQ=31.91;MQ0=5;QD=0.25;SB=38.15 GT:AD:DP:GL:GQ 0/1:138,7:61:-25.40,-18.38,-245.36:70.19
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chr1 2619553 . A G 821.41 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=113.41;MQ=33.54;MQ0=5;QD=6.96;SB=23.10 GT:AD:DP:GL:GQ 0/1:33,83:56:-102.29,-16.87,-105.73:99
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chr1 2619570 rs12757527 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=61.91;MQ=39.68;MQ0=1;OQ=223.25;QD=2.51;SB=41.15 GT:AD:DP:GL:GQ 0/1:39,49:45:-39.17,-13.56,-132.69:99
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chr1 2619576 rs11516512 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=85.98;MQ=40.41;MQ0=1;OQ=1215.90;QD=15.59;SB=-537.94 GT:AD:DP:GL:GQ 0/1:9,69:47:-139.03,-14.16,-23.39:92.31
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chr1 2619644 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=167.24;MQ=38.77;MQ0=11;OQ=65.21;QD=0.53;SB=59.09 GT:AD:DP:GL:GQ 0/1:83,36:47:-23.99,-14.18,-125.75:98.05
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chr1 2619667 rs12757684 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=110;Dels=0.02;HRun=3;HaplotypeScore=150.20;MQ=38.48;MQ0=2;OQ=87.98;QD=0.80;SB=-4.94 GT:AD:DP:GL:GQ 0/1:62,46:39:-23.84,-11.75,-110.18:99
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chr1 2619672 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=2;HaplotypeScore=165.55;MQ=38.18;MQ0=2;OQ=67.69;QD=0.61;SB=56.21 GT:AD:DP:GL:GQ 0/1:58,23:45:-37.64,-27.58,-156.78:99
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chr1 2619717 rs35537872 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=158.55;MQ=37.91;MQ0=1;OQ=82.21;QD=0.81;SB=12.47 GT:AD:DP:GL:GQ 0/1:41,55:41:-23.87,-12.36,-127.50:99
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chr1 2619725 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=160.68;MQ=38.53;MQ0=0;OQ=110.57;QD=1.00;SB=59.22 GT:AD:DP:GL:GQ 0/1:96,15:49:-29.10,-14.76,-154.28:99
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chr1 2619755 rs35198281 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=135.67;MQ=40.63;MQ0=1;OQ=77.36;QD=0.78;SB=-26.15 GT:AD:DP:GL:GQ 0/1:44,49:41:-23.37,-12.36,-121.95:99
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chr1 2619802 . G A 11.69 LowQual AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=1;HaplotypeScore=127.16;MQ=33.63;MQ0=4;QD=0.12;SB=-22.48 GT:AD:DP:GL:GQ 0/1:79,20:38:-15.87,-11.45,-120.55:44.22
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chr1 2619811 rs11516513 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=1;HaplotypeScore=94.34;MQ=31.96;MQ0=5;OQ=1057.97;QD=11.02;SB=-282.04 GT:AD:DP:GL:GQ 0/1:29,63:37:-120.23,-11.15,-15.87:47.21
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chr1 2619844 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=163.21;MQ=35.54;MQ0=9;OQ=150.26;QD=1.60;SB=-85.59 GT:AD:DP:GL:GQ 0/1:35,58:32:-27.96,-9.65,-83.83:99
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chr1 2619873 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=139;Dels=0.00;HRun=1;HaplotypeScore=84.94;MQ=33.03;MQ0=22;OQ=528.32;QD=3.80;SB=-259.93 GT:AD:DP:GL:GQ 0/1:45,94:55:-72.69,-16.57,-137.30:99
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chr1 2619885 rs4648686 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=143;Dels=0.00;HRun=0;HaplotypeScore=76.46;MQ=34.20;MQ0=29;OQ=72.77;QD=0.51;SB=-32.15 GT:AD:DP:GL:GQ 0/1:107,35:58:-28.03,-17.47,-178.69:99
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chr1 2619907 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=129;Dels=0.02;HRun=0;HaplotypeScore=75.23;MQ=35.05;MQ0=37;OQ=78.76;QD=0.61;SB=20.08 GT:AD:DP:GL:GQ 0/1:80,29:48:-28.88,-17.72,-148.42:99
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chr1 2619934 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=0;HaplotypeScore=66.32;MQ=35.85;MQ0=29;OQ=172.74;QD=1.52;SB=-28.24 GT:AD:DP:GL:GQ 0/1:48,66:48:-35.03,-14.47,-147.33:99
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chr1 2619955 rs6604996 C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=109;Dels=0.00;HRun=0;HaplotypeScore=63.40;MQ=33.93;MQ0=36;OQ=1440.37;QD=13.21;SB=-479.54 GT:AD:DP:GL:GQ 1/1:0,108:38:-147.67,-11.48,-0.04:99
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chr1 2620070 rs12740972 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=47.55;MQ=45.30;MQ0=8;OQ=554.48;QD=5.72;SB=-255.88 GT:AD:DP:GL:GQ 0/1:70,21:53:-74.72,-15.98,-142.31:99
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chr1 2620085 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=0;HaplotypeScore=54.16;MQ=39.71;MQ0=11;OQ=120.34;QD=1.02;SB=-33.16 GT:AD:DP:GL:GQ 0/1:69,45:56:-32.19,-16.87,-164.99:99
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chr1 2620124 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=144;Dels=0.00;HRun=0;HaplotypeScore=63.81;MQ=34.92;MQ0=3;OQ=525.60;QD=3.65;SB=47.19 GT:AD:DP:GL:GQ 0/1:42,93:57:-80.08,-24.23,-172.63:99
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chr1 2620133 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=151;Dels=0.00;HRun=1;HaplotypeScore=107.36;MQ=34.37;MQ0=3;OQ=432.59;QD=2.86;SB=-11.69 GT:AD:DP:GL:GQ 0/1:52,96:55:-63.12,-16.58,-172.84:99
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chr1 2620148 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=170;Dels=0.00;HRun=3;HaplotypeScore=138.11;MQ=33.81;MQ0=6;OQ=406.05;QD=2.39;SB=-68.70 GT:AD:DP:GL:GQ 0/1:52,113:57:-61.06,-17.17,-159.71:99
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chr1 2620167 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=206;Dels=0.00;HRun=1;HaplotypeScore=129.33;MQ=31.98;MQ0=15;OQ=238.76;QD=1.16;SB=-5.73 GT:AD:DP:GL:GQ 0/1:136,68:69:-47.94,-20.78,-212.90:99
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chr1 2620268 rs12741311 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=74.94;MQ=48.87;MQ0=0;OQ=615.93;QD=7.90;SB=-166.53 GT:AD:DP:GL:GQ 0/1:39,39:52:-80.54,-15.66,-101.64:99
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chr1 2620338 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=0;HaplotypeScore=10.27;MQ=42.72;MQ0=7;OQ=159.57;QD=1.60;SB=-79.74 GT:AD:DP:GL:GQ 0/1:47,53:53:-35.21,-15.97,-154.39:99
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chr1 2620373 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=0;HaplotypeScore=37.37;MQ=38.59;MQ0=9;OQ=479.31;QD=3.40;SB=-63.47 GT:AD:DP:GL:GQ 0/1:49,92:64:-70.51,-19.30,-148.48:99
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chr1 2620382 . G A 119.16 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=95.95;MQ=37.22;MQ0=9;QD=0.82;SB=68.14 GT:AD:DP:GL:GQ 0/1:86,59:65:-34.81,-19.61,-177.00:99
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chr1 2620388 . A C 105.30 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=1;HaplotypeScore=83.57;MQ=35.41;MQ0=9;QD=0.69;SB=-45.48 GT:AD:DP:GL:GQ 0/1:132,21:67:-34.00,-20.19,-204.42:99
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chr1 2620390 rs28376921 A C 238.82 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=152;Dels=0.00;HRun=3;HaplotypeScore=84.30;MQ=34.68;MQ0=9;QD=1.57;SB=-137.48 GT:AD:DP:GL:GQ 0/1:57,64:66:-69.75,-42.59,-188.12:99
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chr1 2620438 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=0;HaplotypeScore=39.76;MQ=41.64;MQ0=7;OQ=388.27;QD=3.70;SB=-212.33 GT:AD:DP:GL:GQ 0/1:46,59:60:-60.19,-18.08,-149.44:99
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chr1 2620448 . T C 36.03 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=55.60;MQ=44.75;MQ0=3;QD=0.36;SB=59.63 GT:AD:DP:GL:GQ 0/1:72,27:62:-25.58,-18.69,-209.22:68.86
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chr1 2620451 rs28507126 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=42.59;MQ=44.33;MQ0=4;OQ=207.39;QD=2.07;SB=-2.70 GT:AD:DP:GL:GQ 0/1:56,44:55:-40.61,-16.58,-162.04:99
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chr1 2620498 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=0;HaplotypeScore=117.30;MQ=35.77;MQ0=21;OQ=96.72;QD=0.68;SB=-10.89 GT:AD:DP:GL:GQ 0/1:119,24:63:-31.93,-18.98,-196.03:99
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chr1 2620509 . C A 44.02 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=155;Dels=0.00;HRun=1;HaplotypeScore=149.75;MQ=36.71;MQ0=19;QD=0.28;SB=8.48 GT:AD:DP:GL:GQ 0/1:122,32:70:-28.77,-21.09,-215.81:76.85
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chr1 2620530 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.01;HRun=0;HaplotypeScore=86.24;MQ=39.02;MQ0=10;OQ=202.63;QD=1.69;SB=-58.78 GT:AD:DP:GL:GQ 0/1:60,45:53:-46.29,-22.74,-131.05:99
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chr1 2620553 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=4;HaplotypeScore=12.66;MQ=42.96;MQ0=4;OQ=154.29;QD=1.66;SB=6.59 GT:AD:DP:GL:GQ 0/1:47,46:55:-35.28,-16.57,-164.62:99
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chr1 2620589 rs4648687 C A 0.07 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=19.10;MQ=49.13;MQ0=2;OQ=495.80;QD=9.01;SB=-265.29 GT:AD:DP:GL:GQ 0/1:36,19:38:-64.31,-11.45,-69.99:99
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chr1 2620786 rs12742092 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=51.45;MQ=48.85;MQ0=1;OQ=289.75;QD=5.57;SB=-99.04 GT:AD:DP:GL:GQ 0/1:36,16:30:-41.30,-9.04,-64.97:99
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chr1 2620835 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=99.62;MQ=36.59;MQ0=7;OQ=441.17;QD=4.64;SB=-224.20 GT:AD:DP:GL:GQ 0/1:74,18:36:-60.73,-13.33,-87.56:99
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chr1 2620875 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=0;HaplotypeScore=107.69;MQ=35.97;MQ0=15;OQ=95.46;QD=0.71;SB=-26.90 GT:AD:DP:GL:GQ 0/1:113,19:59:-30.61,-17.78,-174.51:99
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chr1 2620960 . T A 14.94 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=17.98;MQ=48.66;MQ0=1;QD=0.38;SB=38.15 GT:AD:DP:GL:GQ 0/1:35,4:38:-16.21,-11.45,-119.38:47.63
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chr1 2621024 . C A 47.37 LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=15.73;MQ=45.56;MQ0=1;QD=1.18;SB=-9.87 GT:AD:DP:GL:GQ 0/1:33,7:35:-18.56,-10.54,-104.34:80.21
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chr1 2621154 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=51.59;MQ=53.22;MQ0=2;OQ=488.50;QD=9.77;SB=-206.66 GT:AD:DP:GL:GQ 0/1:29,19:38:-63.61,-11.47,-88.44:99
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chr1 2621346 rs12746691 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=78.63;MQ=48.13;MQ0=0;OQ=876.62;QD=14.61;SB=-440.96 GT:AD:DP:GL:GQ 0/1:34,26:44:-104.20,-13.26,-62.31:99
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chr1 2621414 rs12746841 C G 50.04 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=5.31;MQ=55.95;MQ0=0;OQ=526.83;QD=11.97;SB=-219.19 GT:AD:DP:GL:GQ 0/1:24,20:36:-66.82,-10.85,-82.62:99
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chr1 2621575 rs61766505 T A 0.76 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=9.78;MQ=51.58;MQ0=2;OQ=514.79;QD=12.26;SB=-105.13 GT:AD:DP:GL:GQ 0/1:24,18:33:-64.70,-9.94,-57.89:99
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chr1 2621592 rs11516514 C A 2.97 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=7.05;MQ=51.18;MQ0=2;OQ=412.67;QD=8.78;SB=-93.77 GT:AD:DP:GL:GQ 0/1:31,16:35:-55.10,-10.55,-68.38:99
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chr1 2621664 rs12743419 G A 126.86 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=54.07;MQ0=3;OQ=805.45;QD=17.14;SB=-279.82 GT:AD:DP:GL:GQ 0/1:16,31:40:-95.89,-12.06,-46.66:99
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chr1 2621957 rs12751643 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.02;HRun=1;HaplotypeScore=33.34;MQ=53.32;MQ0=0;OQ=1019.18;QD=17.27;SB=-299.66 GT:AD:DP:GL:GQ 0/1:24,34:54:-121.47,-16.27,-70.01:99
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chr1 2622417 . C G 34.36 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.97;MQ=22.88;MQ0=7;QD=1.01;SB=-10.00 GT:AD:DP:GL:GQ 0/1:28,6:20:-12.75,-6.03,-74.77:67.20
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chr1 2622422 rs11488613 G T 0.62 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=6.76;MQ=21.77;MQ0=7;OQ=525.32;QD=15.45;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,31:16:-56.12,-4.82,-0.00:48.14
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chr1 2622433 rs12752340 C A 26.89 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=3.94;MQ=20.67;MQ0=10;QD=0.75;SB=-10.00 GT:AD:DP:GL:GQ 0/1:30,6:16:-10.79,-4.82,-42.41:59.72
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chr1 2674088 . C G 42.96 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=0;HaplotypeScore=11.98;MQ=19.55;MQ0=6;QD=3.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:8,3:5:-9.09,-1.51,-12.64:75.79
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chr1 2674094 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=17.86;MQ=18.47;MQ0=6;OQ=64.31;QD=4.95;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,3:4:-10.92,-1.20,-3.26:20.53
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chr1 2674111 . T A 27.07 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=1;HaplotypeScore=2.00;MQ=32.32;MQ0=6;QD=1.80;SB=-6.99 GT:AD:DP:GL:GQ 0/1:12,3:7:-8.10,-2.11,-18.86:59.90
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chr1 2674112 . A G 16.12 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=32.32;MQ0=6;QD=1.07;SB=-6.99 GT:AD:DP:GL:GQ 0/1:12,3:7:-6.99,-2.11,-20.42:48.85
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chr1 2674407 . A G 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=13.44;MQ=45.39;MQ0=5;OQ=445.12;QD=11.41;SB=-215.68 GT:AD:DP:GL:GQ 0/1:16,22:32:-57.44,-9.65,-56.21:99
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chr1 2674852 rs61766513 G A 450.01 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=13.17;MQ0=18;OQ=519.69;QD=10.39;SB=-286.88 GT:AD:DP:GL:GQ 1/1:0,50:14:-55.56,-4.22,-0.00:42.14
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chr1 2676124 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=1;HaplotypeScore=15.64;MQ=24.04;MQ0=14;OQ=178.81;QD=2.03;SB=-90.56 GT:AD:DP:GL:GQ 0/1:59,29:40:-33.21,-12.05,-114.97:99
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chr1 2676150 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=19.23;MQ=23.09;MQ0=22;OQ=221.70;QD=2.33;SB=-83.88 GT:AD:DP:GL:GQ 0/1:54,41:38:-36.91,-11.46,-90.41:99
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chr1 2676190 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=39.71;MQ=18.24;MQ0=31;OQ=65.56;QD=0.85;SB=-25.50 GT:AD:DP:GL:GQ 0/1:64,13:22:-16.48,-6.63,-57.54:98.40
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chr1 2676191 . G A 29.02 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=39.71;MQ=17.81;MQ0=31;QD=0.39;SB=26.10 GT:AD:DP:GL:GQ 0/1:60,14:18:-11.61,-5.43,-50.51:61.85
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chr1 2676208 . G A 16.39 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=4.26;MQ=15.36;MQ0=32;QD=0.30;SB=-24.49 GT:AD:DP:GL:GQ 0/1:43,10:12:-8.53,-3.62,-33.94:49.13
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chr1 2676293 rs11486072 G T 42.12 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=21.44;MQ0=18;QD=0.68;SB=83.26 GT:AD:DP:GL:GQ 0/1:53,9:41:-19.85,-12.35,-121.85:74.96
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chr1 2676409 . C G 16.08 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=0;HaplotypeScore=24.91;MQ=14.80;MQ0=58;QD=0.16;SB=-10.00 GT:AD:DP:GL:GQ 0/1:83,17:12:-8.50,-3.62,-44.92:48.81
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chr1 2677515 . G T 19.05 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=14.46;MQ=8.37;MQ0=110;QD=0.16;SB=-10.00 GT:AD:DP:GL:GQ 0/1:117,3:8:-7.59,-2.41,-19.90:51.83
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chr1 2677525 . C T 16.29 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=1;HaplotypeScore=20.34;MQ=9.26;MQ0=102;QD=0.14;SB=-10.00 GT:AD:DP:GL:GQ 0/1:110,4:10:-7.91,-3.01,-27.95:49.02
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chr1 2677552 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=0;HaplotypeScore=12.35;MQ=15.52;MQ0=82;OQ=53.71;QD=0.48;SB=0.32 GT:AD:DP:GL:GQ 0/1:89,18:28:-23.83,-15.18,-91.71:86.54
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chr1 2677675 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=15.33;MQ=33.22;MQ0=25;OQ=57.19;QD=0.55;SB=35.14 GT:AD:DP:GL:GQ 0/1:87,15:66:-28.89,-19.89,-231.82:90.03
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chr1 2677743 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=0;HaplotypeScore=4.26;MQ=19.03;MQ0=67;OQ=90.19;QD=0.78;SB=-10.00 GT:AD:DP:GL:GQ 0/1:98,17:39:-24.05,-11.75,-110.96:99
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chr1 2677829 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=0;HaplotypeScore=23.79;MQ=23.13;MQ0=70;OQ=279.18;QD=2.18;SB=-0.99 GT:AD:DP:GL:GQ 0/1:107,21:47:-45.38,-14.18,-109.88:99
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chr1 2677890 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=0;HaplotypeScore=41.46;MQ=39.72;MQ0=24;OQ=334.00;QD=2.24;SB=-111.40 GT:AD:DP:GL:GQ 0/1:125,24:98:-66.21,-29.53,-281.36:99
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chr1 2677918 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=135;Dels=0.00;HRun=0;HaplotypeScore=22.75;MQ=42.78;MQ0=7;OQ=406.29;QD=3.01;SB=-222.57 GT:AD:DP:GL:GQ 0/1:111,24:99:-73.74,-29.83,-281.76:99
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chr1 2678023 rs4601526 G T 43.97 LowQual AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=8.77;MQ=39.66;MQ0=3;QD=0.46;SB=-45.56 GT:AD:DP:GL:GQ 0/1:69,27:71:-29.07,-21.39,-211.74:76.81
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chr1 2678153 rs4287119 C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=112;Dels=0.00;HRun=0;HaplotypeScore=21.76;MQ=40.92;MQ0=5;OQ=2547.58;QD=22.75;SB=-1076.65 GT:AD:DP:GL:GQ 0/1:21,91:87:-284.26,-26.22,-47.57:99
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chr1 2679458 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=42.73;MQ=34.12;MQ0=11;OQ=188.41;QD=2.36;SB=-47.79 GT:AD:DP:GL:GQ 0/1:51,29:31:-31.49,-9.36,-91.42:99
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chr1 2679642 . C G 45.83 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=7.58;MQ=33.48;MQ0=11;QD=0.45;SB=71.27 GT:AD:DP:GL:GQ 0/1:93,9:79:-31.68,-23.81,-299.21:78.67
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chr1 2679803 rs56221638 T A 49.73 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=28.41;MQ=20.22;MQ0=17;QD=0.80;SB=-24.63 GT:AD:DP:GL:GQ 0/1:36,25:21:-14.59,-6.33,-59.48:82.57
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chr1 2679816 rs4648571 G A 0.30 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=13.76;MQ=19.63;MQ0=17;OQ=484.56;QD=8.35;SB=18.94 GT:AD:DP:GL:GQ 1/1:9,49:16:-54.94,-4.82,-2.91:19.19
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chr1 2680538 rs58288263 C A 0.59 PASS AC=1;AF=0.50;AN=2;DB;DP=103;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=19.45;MQ0=42;OQ=235.18;QD=2.28;SB=-135.60 GT:AD:DP:GL:GQ 0/1:70,33:45:-40.37,-13.56,-115.16:99
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chr1 2681143 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=0;HaplotypeScore=43.31;MQ=7.59;MQ0=129;OQ=216.62;QD=1.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:128,12:8:-27.36,-2.41,-6.90:44.81
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chr1 2681205 . C T 16.27 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=0;HaplotypeScore=11.46;MQ=9.18;MQ0=122;QD=0.12;SB=-10.00 GT:AD:DP:GL:GQ 0/1:130,4:11:-8.21,-3.31,-32.22:49.01
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chr1 2681386 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=85;Dels=0.02;HRun=1;HaplotypeScore=17.33;MQ=40.82;MQ0=2;OQ=547.52;QD=6.44;SB=26.11 GT:AD:DP:GL:GQ 0/1:58,25:71:-78.82,-20.79,-186.55:99
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chr1 2681420 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=107;Dels=0.00;HRun=0;HaplotypeScore=13.55;MQ=31.27;MQ0=32;OQ=249.95;QD=2.34;SB=17.08 GT:AD:DP:GL:GQ 0/1:90,15:70:-49.36,-21.09,-234.22:99
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chr1 2681440 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=2;HaplotypeScore=12.17;MQ=28.00;MQ0=51;OQ=57.67;QD=0.49;SB=-0.98 GT:AD:DP:GL:GQ 0/1:103,11:57:-26.23,-17.18,-176.09:90.51
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chr1 2681463 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=0;HaplotypeScore=17.45;MQ=24.10;MQ0=61;OQ=86.42;QD=0.77;SB=-10.00 GT:AD:DP:GL:GQ 0/1:104,8:47:-26.08,-14.16,-135.23:99
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chr1 2681473 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=1;HaplotypeScore=11.36;MQ=22.15;MQ0=63;OQ=86.11;QD=0.79;SB=-10.00 GT:AD:DP:GL:GQ 0/1:101,7:42:-24.54,-12.65,-127.26:99
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chr1 2681679 rs61766519 A T 2.14 PASS AC=1;AF=0.50;AN=2;DB;DP=109;Dels=0.00;HRun=0;HaplotypeScore=3.86;MQ=46.07;MQ0=2;OQ=403.94;QD=3.71;SB=-208.28 GT:AD:DP:GL:GQ 0/1:86,23:102:-74.40,-30.73,-305.98:99
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chr1 2681697 . C G 10.09 PASS AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=45.11;MQ0=2;OQ=843.38;QD=7.21;SB=-230.77 GT:AD:DP:GL:GQ 0/1:84,33:113:-121.68,-34.06,-367.48:99
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chr1 2681715 rs4430271 G A 32.27 PASS AC=2;AF=1.00;AN=2;DB;DP=112;Dels=0.00;HRun=1;HaplotypeScore=3.54;MQ=44.60;MQ0=4;OQ=4104.48;QD=36.65;SB=-1313.32 GT:AD:DP:GL:GQ 1/1:1,111:104:-409.45,-31.34,-0.04:99
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chr1 2681869 . T C 23.42 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=42.88;MQ0=2;QD=0.35;SB=71.26 GT:AD:DP:GL:GQ 0/1:51,15:54:-21.90,-16.27,-186.51:56.24
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chr1 2681986 rs11586212 G A 7.71 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.27;MQ=47.82;MQ0=3;OQ=510.08;QD=6.80;SB=56.19 GT:AD:DP:GL:GQ 0/1:53,22:70:-75.38,-21.09,-180.91:99
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chr1 2682337 . G A 7.34 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=27.22;MQ0=23;OQ=345.10;QD=8.03;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,23:16:-42.61,-4.82,-16.65:99
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chr1 2682347 . G T 0.70 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=19.93;MQ0=26;OQ=183.77;QD=4.59;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,20:10:-24.67,-3.01,-11.27:82.62
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chr1 2682645 . C A 19.07 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=2.93;MQ=11.47;MQ0=37;QD=0.33;SB=-0.98 GT:AD:DP:GL:GQ 0/1:31,27:8:-7.60,-2.41,-19.17:51.85
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chr1 2683816 rs10909957 C T 271.77 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.42;MQ=46.26;MQ0=0;OQ=686.46;QD=13.46;SB=-268.23 GT:AD:DP:GL:GQ 0/1:24,27:45:-85.49,-13.56,-81.02:99
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chr1 2684356 rs6424062 G A 144.95 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=3.39;MQ=59.15;MQ0=0;OQ=655.97;QD=13.39;SB=-112.11 GT:AD:DP:GL:GQ 0/1:26,23:46:-82.76,-13.88,-73.01:99
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chr1 2687573 rs4648459 G T 323.17 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=60.00;MQ0=0;OQ=991.84;QD=18.37;SB=-411.82 GT:AD:DP:GL:GQ 0/1:20,34:49:-117.23,-14.76,-57.58:99
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chr1 2689509 rs4648499 A C 571.48 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=812.32;QD=13.32;SB=-346.80 GT:AD:DP:GL:GQ 0/1:31,30:60:-102.59,-18.07,-113.17:99
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chr1 2689977 rs4648502 C G 37.31 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=4.68;MQ=58.83;MQ0=0;OQ=362.80;QD=11.34;SB=-98.64 GT:AD:DP:GL:GQ 0/1:15,17:26:-47.41,-7.85,-58.24:99
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chr1 2691287 rs10909982 A C 5.74 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=3;HaplotypeScore=1.88;MQ=58.74;MQ0=0;OQ=1314.76;QD=31.30;SB=-536.04 GT:AD:DP:GL:GQ 1/1:0,42:39:-135.08,-11.75,-0.02:99
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chr1 2691405 . T C 26.51 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.83;MQ=54.55;MQ0=0;QD=0.72;SB=1.18 GT:AD:DP:GL:GQ 0/1:31,6:36:-16.78,-10.85,-121.87:59.34
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chr1 2691676 rs1456462 C G 51.18 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=3.07;MQ=56.36;MQ0=0;OQ=806.36;QD=17.53;SB=-304.60 GT:AD:DP:GL:GQ 0/1:21,25:41:-96.28,-12.36,-77.64:99
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chr1 2694331 rs12748553 C T 3.51 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=8.78;MQ=58.48;MQ0=0;OQ=835.97;QD=17.06;SB=-250.13 GT:AD:DP:GL:GQ 0/1:21,26:46:-100.74,-13.86,-71.99:99
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chr1 2694778 rs55972083 G T 162.91 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.66;MQ0=0;OQ=915.47;QD=16.64;SB=-316.68 GT:AD:DP:GL:GQ 0/1:25,30:54:-111.10,-16.27,-82.95:99
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chr1 2697298 rs7526311 A T 117.22 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.01;MQ0=0;OQ=185.29;QD=9.75;SB=-41.37 GT:AD:DP:GL:GQ 0/1:12,7:18:-27.23,-5.42,-39.59:99
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chr1 2697760 . G T 0.81 PASS AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=2;HaplotypeScore=0.96;MQ=60.00;MQ0=0;OQ=344.69;QD=12.77;SB=-29.36 GT:AD:DP:GL:GQ 0/1:13,14:25:-45.29,-7.54,-35.79:99
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chr1 2697817 rs57572926 T A 7.58 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.48;MQ0=0;OQ=773.03;QD=21.47;SB=-134.51 GT:AD:DP:GL:GQ 0/1:11,25:35:-91.13,-10.54,-41.10:99
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chr1 2699252 rs12044475 G A 223.02 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=59.73;MQ0=0;OQ=1184.05;QD=17.41;SB=-586.14 GT:AD:DP:GL:GQ 0/1:32,36:66:-141.59,-19.90,-99.06:99
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chr1 2699436 rs12024170 C T 193.04 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=59.75;MQ0=0;OQ=1445.81;QD=19.54;SB=-655.75 GT:AD:DP:GL:GQ 0/1:31,43:72:-169.56,-21.69,-100.95:99
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chr1 2699862 rs6687680 G A 230.47 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.28;MQ0=0;OQ=1732.28;QD=19.25;SB=-761.79 GT:AD:DP:GL:GQ 0/1:40,50:89:-203.33,-26.82,-125.78:99
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chr1 2700237 . G A 246.23 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=1343.35;QD=18.92;SB=-523.75 GT:AD:DP:GL:GQ 0/1:31,40:71:-159.02,-21.40,-102.65:99
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chr1 2702030 rs12731995 A G 434.35 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=677.81;QD=11.11;SB=-347.04 GT:AD:DP:GL:GQ 0/1:33,28:60:-89.15,-18.08,-132.37:99
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chr1 2703187 rs2377041 C T 502.97 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=621.61;QD=15.54;SB=-277.29 GT:AD:DP:GL:GQ 0/1:21,19:39:-77.20,-11.76,-63.03:99
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chr1 2704632 . T C 38.02 LowQual AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=4;HaplotypeScore=7.59;MQ=52.48;MQ0=0;QD=2.38;SB=-19.89 GT:AD:DP:GL:GQ 0/1:10,6:12:-10.71,-3.62,-29.51:70.86
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chr1 2704685 . G A 22.35 LowQual AC=1;AF=0.50;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=7.62;MQ=56.04;MQ0=0;QD=1.86;SB=-34.51 GT:AD:DP:GL:GQ 0/1:9,2:7:-7.63,-2.11,-16.67:55.16
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chr1 2704950 . A G 2.25 PASS AC=2;AF=1.00;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=48.87;MQ0=0;OQ=588.34;QD=32.69;SB=-143.72 GT:AD:DP:GL:GQ 1/1:0,18:17:-62.42,-5.12,-0.01:51.15
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chr1 2705371 . T C 47.74 LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=1;HaplotypeScore=3.65;MQ=60.80;MQ0=0;QD=2.51;SB=-6.99 GT:AD:DP:GL:GQ 0/1:12,6:14:-12.28,-4.22,-38.37:80.58
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chr1 2705380 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=2;HaplotypeScore=2.68;MQ=59.93;MQ0=0;OQ=62.82;QD=3.31;SB=-3.98 GT:AD:DP:GL:GQ 0/1:14,5:17:-14.69,-5.13,-40.99:95.66
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chr1 2706146 . A G 47.67 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=5;HaplotypeScore=3.46;MQ=57.94;MQ0=0;QD=1.40;SB=47.18 GT:AD:DP:GL:GQ 0/1:26,7:27:-16.19,-8.14,-86.26:80.50
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chr1 2706767 rs751358 G C 35.53 PASS AC=1;AF=0.50;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=240.08;QD=16.01;SB=-112.68 GT:AD:DP:GL:GQ 0/1:7,8:15:-31.82,-4.53,-27.47:99
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chr1 2708350 rs897627 T C 68.67 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=59.23;MQ0=0;OQ=241.23;QD=8.04;SB=-88.78 GT:AD:DP:GL:GQ 0/1:18,12:26:-35.25,-7.84,-56.33:99
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chr1 2709162 rs897626 T C 124.16 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=2.89;MQ=58.50;MQ0=0;OQ=297.67;QD=9.60;SB=-169.49 GT:AD:DP:GL:GQ 0/1:13,16:23:-39.99,-6.94,-39.26:99
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chr1 2709764 rs12725202 C A 209.03 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.87;MQ=59.58;MQ0=0;OQ=806.35;QD=14.66;SB=-275.34 GT:AD:DP:GL:GQ 0/1:27,28:48:-98.38,-14.47,-61.56:99
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chr1 2711436 rs897623 A G 190.36 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=58.98;MQ0=0;OQ=627.29;QD=15.30;SB=-199.45 GT:AD:DP:GL:GQ 0/1:15,26:39:-77.77,-11.76,-60.17:99
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chr1 2712708 rs6692145 C T 11.73 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=7.75;MQ=59.11;MQ0=0;OQ=873.72;QD=16.80;SB=-440.44 GT:AD:DP:GL:GQ 0/1:21,31:48:-105.13,-14.48,-65.51:99
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chr1 2713074 rs4648450 C A 220.10 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=59.19;MQ0=0;OQ=931.32;QD=16.34;SB=-352.41 GT:AD:DP:GL:GQ 0/1:24,33:49:-111.18,-14.76,-58.95:99
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chr1 2713205 rs4648360 C T 362.23 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.64;MQ0=0;OQ=808.14;QD=12.63;SB=-348.52 GT:AD:DP:GL:GQ 0/1:38,26:64:-103.39,-19.29,-126.27:99
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chr1 2713822 rs11588256 T C 179.59 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.44;MQ0=0;OQ=1164.73;QD=28.41;SB=-522.80 GT:AD:DP:GL:GQ 1/1:0,40:39:-122.64,-14.15,-2.58:99
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chr1 2715335 rs7537581 C A 258.05 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=59.30;MQ0=0;OQ=476.92;QD=14.45;SB=-256.43 GT:AD:DP:GL:GQ 0/1:16,17:32:-60.62,-9.64,-51.47:99
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chr1 2715367 rs56038961 C T 199.13 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.45;MQ0=0;OQ=479.64;QD=15.99;SB=-264.20 GT:AD:DP:GL:GQ 0/1:12,18:27:-59.39,-8.14,-35.88:99
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chr1 2716724 rs17387572 C G 92.23 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=1;HaplotypeScore=2.10;MQ=58.95;MQ0=0;OQ=183.11;QD=8.32;SB=-57.73 GT:AD:DP:GL:GQ 0/1:14,8:19:-27.33,-5.74,-48.15:99
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chr1 2717498 rs10909879 G A 568.71 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.17;MQ0=0;OQ=638.90;QD=14.20;SB=-321.91 GT:AD:DP:GL:GQ 0/1:24,21:43:-80.13,-12.96,-77.89:99
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chr1 2717664 rs10909880 C T 111.56 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=3.85;MQ=58.20;MQ0=0;OQ=901.98;QD=16.40;SB=-412.72 GT:AD:DP:GL:GQ 0/1:27,27:53:-109.45,-15.96,-95.84:99
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chr1 2718581 rs2290583 C T 466.48 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.90;MQ0=0;OQ=858.25;QD=15.60;SB=-364.54 GT:AD:DP:GL:GQ 0/1:27,28:51:-104.48,-15.37,-82.61:99
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chr1 2720957 rs56242447 T C 191.02 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.87;MQ=60.00;MQ0=0;OQ=720.09;QD=11.43;SB=-266.23 GT:AD:DP:GL:GQ 0/1:29,34:60:-93.39,-18.10,-112.64:99
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chr1 2725957 rs4648454 C A 155.77 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=59.23;MQ0=0;OQ=2137.84;QD=35.63;SB=-968.57 GT:AD:DP:GL:GQ 1/1:0,60:60:-217.39,-18.07,-0.02:99
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chr1 2727346 rs4515734 C T 401.62 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=1193.72;QD=37.30;SB=-333.34 GT:AD:DP:GL:GQ 1/1:0,32:32:-122.97,-9.64,-0.01:96.30
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chr1 2728125 rs11584658 C T 220.84 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.70;MQ=58.92;MQ0=0;OQ=363.72;QD=9.33;SB=-203.89 GT:AD:DP:GL:GQ 0/1:25,14:38:-51.11,-11.46,-81.85:99
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chr1 2728509 . C G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=2;HaplotypeScore=7.07;MQ=57.48;MQ0=0;OQ=153.44;QD=5.48;SB=38.15 GT:AD:DP:GL:GQ 0/1:17,11:22:-25.28,-6.65,-60.78:99
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chr1 2728983 rs12025517 T C 254.56 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.46;MQ0=0;OQ=692.09;QD=16.10;SB=-320.61 GT:AD:DP:GL:GQ 0/1:17,25:42:-87.78,-15.29,-69.40:99
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chr1 2731560 rs897622 T C 5.62 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=2;HaplotypeScore=1.40;MQ=59.38;MQ0=0;OQ=1158.40;QD=31.31;SB=-281.53 GT:AD:DP:GL:GQ 1/1:0,37:35:-119.44,-10.55,-0.02:99
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chr1 2734276 rs56400103 G A 253.28 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=949.71;QD=17.92;SB=-409.46 GT:AD:DP:GL:GQ 0/1:24,29:51:-113.64,-15.38,-67.18:99
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chr1 2734570 rs12747919 T C 241.01 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=59.34;MQ0=0;OQ=778.48;QD=12.36;SB=-342.05 GT:AD:DP:GL:GQ 0/1:32,31:63:-100.12,-18.99,-128.39:99
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chr1 2734737 rs12125787 G A 71.93 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=3.70;MQ=57.83;MQ0=0;OQ=2028.15;QD=37.56;SB=-957.98 GT:AD:DP:GL:GQ 1/1:0,54:53:-206.42,-15.97,-0.02:99
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chr1 2735743 rs4609377 C T 266.10 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=3.54;MQ=58.76;MQ0=0;OQ=803.58;QD=14.35;SB=-286.83 GT:AD:DP:GL:GQ 0/1:31,25:54:-99.92,-16.28,-93.51:99
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chr1 2735926 rs1001620 G C 451.59 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=58.61;MQ0=0;OQ=977.15;QD=12.69;SB=-354.56 GT:AD:DP:GL:GQ 0/1:46,31:77:-124.21,-23.21,-202.34:99
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chr1 2739474 rs10797389 G A 308.93 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=60.00;MQ0=0;OQ=750.99;QD=15.65;SB=-309.79 GT:AD:DP:GL:GQ 0/1:23,25:47:-92.55,-14.16,-81.12:99
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chr1 2739576 rs4648481 G T 368.63 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.39;MQ=60.00;MQ0=0;OQ=793.99;QD=14.70;SB=-305.02 GT:AD:DP:GL:GQ 0/1:26,28:52:-98.35,-15.67,-82.42:99
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chr1 2739781 rs4648482 T C 14.80 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=4.29;MQ=58.44;MQ0=0;OQ=365.14;QD=8.69;SB=-69.92 GT:AD:DP:GL:GQ 0/1:24,18:40:-51.86,-12.06,-91.45:99
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chr1 2740297 rs1563471 C T 85.39 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=5.94;MQ=59.22;MQ0=0;OQ=682.02;QD=11.56;SB=-286.79 GT:AD:DP:GL:GQ 0/1:33,26:55:-88.08,-16.60,-99.20:99
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chr1 2740756 rs12132067 G A 288.53 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.87;MQ=59.52;MQ0=0;OQ=623.21;QD=12.98;SB=-250.12 GT:AD:DP:GL:GQ 0/1:27,21:48:-80.07,-14.46,-95.69:99
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chr1 2742125 rs7511879 A G 408.25 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=59.68;MQ0=0;OQ=942.16;QD=16.24;SB=-438.99 GT:AD:DP:GL:GQ 0/1:24,34:55:-114.07,-16.57,-91.14:99
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chr1 2742553 rs10797390 C T 146.24 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.59;MQ0=0;OQ=1057.36;QD=18.88;SB=-301.83 GT:AD:DP:GL:GQ 0/1:24,32:56:-125.89,-16.87,-83.67:99
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chr1 2743097 rs12031493 A G 99.82 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=5.23;MQ=59.34;MQ0=0;OQ=647.93;QD=9.26;SB=-314.90 GT:AD:DP:GL:GQ 0/1:40,29:67:-88.27,-20.19,-156.45:99
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chr1 2743232 rs11803074 T C 136.13 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=59.52;MQ0=0;OQ=450.58;QD=9.39;SB=-159.47 GT:AD:DP:GL:GQ 0/1:26,22:43:-61.31,-12.96,-94.61:99
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chr1 2743923 rs2377040 G A 85.94 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.57;MQ0=0;OQ=1679.85;QD=39.07;SB=-699.34 GT:AD:DP:GL:GQ 1/1:0,43:43:-171.58,-12.96,-0.02:99
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chr1 2744048 rs6691019 A G 253.73 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=599.61;QD=12.24;SB=-315.28 GT:AD:DP:GL:GQ 0/1:24,25:46:-77.11,-13.87,-86.95:99
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chr1 2744266 rs729045 A G 494.21 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=550.14;QD=10.19;SB=-251.93 GT:AD:DP:GL:GQ 0/1:30,24:53:-74.27,-15.97,-120.98:99
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chr1 2744372 rs6680471 C T 188.10 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=58.81;MQ0=0;OQ=743.73;QD=13.52;SB=-388.16 GT:AD:DP:GL:GQ 0/1:30,25:50:-92.73,-15.07,-87.39:99
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chr1 2744840 rs7541827 T G 3.84 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=3.30;MQ=53.60;MQ0=0;OQ=317.87;QD=7.95;SB=-163.88 GT:AD:DP:GL:GQ 0/1:27,13:38:-46.52,-11.45,-85.79:99
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chr1 2745157 rs10909938 C G 278.22 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.10;MQ0=0;OQ=946.24;QD=11.98;SB=-426.32 GT:AD:DP:GL:GQ 0/1:47,32:78:-121.44,-23.53,-202.08:99
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chr1 2745633 rs10909941 A G 382.13 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=59.59;MQ0=0;OQ=1890.77;QD=33.76;SB=-793.15 GT:AD:DP:GL:GQ 1/1:0,56:54:-192.68,-16.26,-0.02:99
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chr1 2746148 rs4648382 C T 75.36 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=4.95;MQ=58.25;MQ0=0;OQ=1103.18;QD=17.24;SB=-437.97 GT:AD:DP:GL:GQ 0/1:30,34:62:-132.29,-18.69,-91.91:99
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chr1 2746257 rs4648383 C T 112.72 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=59.45;MQ0=0;OQ=1198.75;QD=17.63;SB=-573.37 GT:AD:DP:GL:GQ 0/1:33,35:67:-143.34,-20.18,-115.97:99
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chr1 2746481 rs4648384 C A 147.70 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=2.23;MQ=58.55;MQ0=0;OQ=974.97;QD=15.98;SB=-482.87 GT:AD:DP:GL:GQ 0/1:29,32:59:-118.55,-17.77,-93.40:99
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chr1 2746667 rs7516014 G T 183 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.66;MQ=60.00;MQ0=0;OQ=529.64;QD=10.81;SB=-238.43 GT:AD:DP:GL:GQ 0/1:28,20:47:-70.41,-14.16,-95.06:99
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chr1 2746749 rs7548023 T G 93.22 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=3.08;MQ=57.92;MQ0=0;OQ=762.24;QD=14.12;SB=-346.84 GT:AD:DP:GL:GQ 0/1:27,27:54:-95.77,-16.26,-99.72:99
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chr1 2747056 rs4648495 T C 0.66 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=4;HaplotypeScore=4.04;MQ=53.57;MQ0=0;OQ=334.06;QD=9.83;SB=-158.61 GT:AD:DP:GL:GQ 0/1:15,19:25:-44.23,-7.54,-43.47:99
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chr1 2747271 rs4648496 A T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=20.04;MQ=49.89;MQ0=0;OQ=70.38;QD=0.95;SB=-47.55 GT:AD:DP:GL:GQ 0/1:64,10:68:-30.81,-20.49,-219.78:99
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chr1 2747291 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=65;Dels=0.03;HRun=0;HaplotypeScore=32.13;MQ=46.89;MQ0=0;OQ=444.72;QD=6.84;SB=-168.12 GT:AD:DP:GL:GQ 0/1:44,19:62:-65.84,-18.08,-149.47:99
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chr1 2747315 . A T 0.07 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=12.70;MQ=47.25;MQ0=0;OQ=757.92;QD=13.53;SB=-390.15 GT:AD:DP:GL:GQ 0/1:29,27:49:-93.84,-14.77,-85.21:99
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chr1 2747334 rs36040910 C G 1014.60 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.02;HRun=0;HaplotypeScore=10.13;MQ=46.42;MQ0=0;QD=19.14;SB=-531.73 GT:AD:DP:GL:GQ 0/1:24,28:52:-120.42,-15.67,-100.79:99
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chr1 2747338 . G C 826.30 SnpCluster AC=1;AF=0.50;AN=2;DP=48;Dels=0.02;HRun=0;HaplotypeScore=9.97;MQ=47.26;MQ0=0;QD=17.21;SB=-358.43 GT:AD:DP:GL:GQ 0/1:23,24:47:-99.78,-13.86,-101.33:99
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chr1 2747339 . A T 752.39 SnpCluster AC=1;AF=0.50;AN=2;DP=48;Dels=0.02;HRun=0;HaplotypeScore=3.00;MQ=47.26;MQ0=0;QD=15.67;SB=-313.68 GT:AD:DP:GL:GQ 0/1:23,24:47:-92.38,-13.86,-82.64:99
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chr1 2747369 . A T 3.22 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=5.95;MQ=49.16;MQ0=0;OQ=703.99;QD=14.37;SB=-261.27 GT:AD:DP:GL:GQ 0/1:25,24:47:-87.84,-14.16,-92.00:99
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chr1 2747375 rs61766530 T A 10.44 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=7.95;MQ=48.99;MQ0=0;OQ=615.25;QD=13.37;SB=-274.62 GT:AD:DP:GL:GQ 0/1:24,22:43:-77.76,-12.95,-81.15:99
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chr1 2747387 rs34464542 A T 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.05;HRun=0;HaplotypeScore=17.99;MQ=50.33;MQ0=0;OQ=475.32;QD=10.80;SB=-181.51 GT:AD:DP:GL:GQ 0/1:25,17:43:-63.16,-12.35,-94.24:99
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chr1 2747397 rs12739189 C T 56.98 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=5.47;MQ=51.77;MQ0=0;OQ=606.36;QD=14.44;SB=-321.86 GT:AD:DP:GL:GQ 0/1:23,19:42:-76.58,-12.66,-74.78:99
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chr1 2747562 rs35401657 A G 338.79 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=54.94;MQ0=0;OQ=916.49;QD=12.73;SB=-443.41 GT:AD:DP:GL:GQ 0/1:37,34:70:-119.52,-24.59,-154.08:99
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chr1 2747592 rs34262355 G A 349.69 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=54.28;MQ0=0;OQ=1032.22;QD=12.74;SB=-451.44 GT:AD:DP:GL:GQ 0/1:45,35:78:-130.02,-23.51,-145.95:99
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chr1 2747610 rs34202711 A G 414.76 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.97;MQ0=0;OQ=1011.04;QD=11.89;SB=-504.68 GT:AD:DP:GL:GQ 0/1:42,43:82:-129.10,-24.71,-172.46:99
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chr1 2747660 rs1456461 C T 603.75 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.82;MQ0=0;OQ=891.16;QD=15.63;SB=-457.95 GT:AD:DP:GL:GQ 0/1:30,27:57:-109.57,-17.17,-111.30:99
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chr1 2748044 rs12740180 C A 413.82 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=606.44;QD=10.83;SB=-262.28 GT:AD:DP:GL:GQ 0/1:33,23:54:-80.19,-16.26,-114.41:99
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chr1 2748753 rs2889541 G A 337.75 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.41;MQ0=0;OQ=1139.69;QD=16.05;SB=-477.50 GT:AD:DP:GL:GQ 0/1:37,34:70:-138.35,-21.10,-115.20:99
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chr1 2749666 rs12037615 A T 1.80 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=5;HaplotypeScore=1.16;MQ=59.20;MQ0=0;OQ=1128.99;QD=14.86;SB=-549.41 GT:AD:DP:GL:GQ 0/1:40,36:76:-139.07,-22.89,-148.90:99
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chr1 2749715 rs12047690 C T 131.06 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.63;MQ0=0;OQ=816.13;QD=12.95;SB=-150.20 GT:AD:DP:GL:GQ 0/1:36,27:60:-102.99,-18.09,-107.52:99
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chr1 2751235 rs12049543 C A 405.31 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.56;MQ0=0;OQ=1060.86;QD=12.63;SB=-512.22 GT:AD:DP:GL:GQ 0/1:47,37:84:-134.67,-25.30,-168.73:99
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chr1 2751390 rs1840738 T C 158.28 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=56.95;MQ0=0;OQ=466.03;QD=9.14;SB=-238.28 GT:AD:DP:GL:GQ 0/1:29,21:47:-64.06,-14.17,-105.57:99
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chr1 2751392 rs1840737 T C 150.88 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=56.89;MQ0=0;OQ=432.09;QD=8.64;SB=-211.35 GT:AD:DP:GL:GQ 0/1:30,20:46:-60.36,-13.87,-105.49:99
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chr1 2751468 rs1840736 C T 225.14 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=58.99;MQ0=0;OQ=538.81;QD=11.71;SB=-284.82 GT:AD:DP:GL:GQ 0/1:28,18:46:-71.04,-13.87,-86.92:99
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chr1 2751723 rs1456460 G T 356.16 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=1.90;MQ=57.19;MQ0=0;OQ=1157.64;QD=13.31;SB=-342.38 GT:AD:DP:GL:GQ 0/1:48,39:87:-145.25,-26.21,-162.75:99
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chr1 2753129 rs6424080 T C 316.66 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.51;MQ0=0;OQ=966.99;QD=12.24;SB=-274.18 GT:AD:DP:GL:GQ 0/1:43,36:77:-123.19,-23.21,-165.41:99
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chr1 2753241 rs6424081 G C 7.87 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=4;HaplotypeScore=2.76;MQ=58.85;MQ0=0;OQ=855.86;QD=17.47;SB=-443.74 GT:AD:DP:GL:GQ 0/1:25,24:49:-103.64,-14.77,-108.86:99
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chr1 2753928 rs10909950 G C 275.97 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.98;MQ0=0;OQ=738.28;QD=13.67;SB=-369.83 GT:AD:DP:GL:GQ 0/1:27,27:50:-92.19,-15.07,-120.46:99
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chr1 2754032 rs7553697 T C 122.97 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=50.90;MQ0=0;OQ=845.37;QD=27.27;SB=-371.38 GT:AD:DP:GL:GQ 1/1:0,31:28:-88.15,-8.45,-0.03:84.18
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chr1 2754183 rs6424082 A G 8.12 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=5.05;MQ=58.51;MQ0=0;OQ=416.20;QD=9.46;SB=-192.43 GT:AD:DP:GL:GQ 0/1:23,21:40:-56.97,-12.06,-83.18:99
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chr1 2754298 rs6424083 C G 173.34 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=55.35;MQ0=0;OQ=1296.80;QD=37.05;SB=-603.86 GT:AD:DP:GL:GQ 1/1:0,35:33:-133.29,-9.95,-0.02:99
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chr1 2754773 . G A 0.64 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=1;HaplotypeScore=3.22;MQ=60.00;MQ0=0;OQ=1109.61;QD=18.81;SB=-280.74 GT:AD:DP:GL:GQ 0/1:25,34:58:-131.72,-17.47,-86.47:99
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chr1 2754949 rs34133714 C T 67.94 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=57.50;MQ0=0;OQ=577.42;QD=16.98;SB=-168.27 GT:AD:DP:GL:GQ 0/1:16,18:34:-71.28,-10.25,-51.84:99
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chr1 2755031 rs34352177 T C 19.62 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=7.41;MQ=59.06;MQ0=0;OQ=899.29;QD=13.03;SB=-455.95 GT:AD:DP:GL:GQ 0/1:36,31:67:-116.13,-22.92,-145.73:99
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chr1 2755403 rs11806141 T G 18.81 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=6.77;MQ=51.89;MQ0=9;QD=0.27;SB=74.23 GT:AD:DP:GL:GQ 0/1:49,20:51:-20.52,-15.36,-159.70:51.59
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chr1 2755508 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=79;Dels=0.06;HRun=2;HaplotypeScore=38.09;MQ=49.34;MQ0=4;OQ=65.07;QD=0.82;SB=71.26 GT:AD:DP:GL:GQ 0/1:58,15:62:-27.57,-17.78,-196.95:97.90
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chr1 2755529 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=65.45;MQ=46.51;MQ0=7;OQ=513.73;QD=7.04;SB=-185.79 GT:AD:DP:GL:GQ 0/1:43,30:51:-70.02,-15.37,-107.03:99
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chr1 2755532 . A G 42.46 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=67.89;MQ=46.23;MQ0=7;QD=0.57;SB=41.14 GT:AD:DP:GL:GQ 0/1:61,13:50:-22.60,-15.07,-170.16:75.29
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chr1 2755579 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=21.20;MQ=45.33;MQ0=9;OQ=157.48;QD=2.02;SB=-23.25 GT:AD:DP:GL:GQ 0/1:60,12:47:-33.22,-14.19,-119.56:99
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chr1 2755596 rs11806928 A G 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=12.62;MQ=45.10;MQ0=9;OQ=205.66;QD=2.78;SB=-15.21 GT:AD:DP:GL:GQ 0/1:58,16:54:-40.13,-16.28,-162.81:99
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chr1 2755612 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=11.17;MQ=46.38;MQ0=5;OQ=126.58;QD=1.73;SB=14.62 GT:AD:DP:GL:GQ 0/1:63,10:57:-33.13,-17.19,-158.30:99
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chr1 2755632 rs10909952 C T 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=10.73;MQ=46.85;MQ0=3;OQ=64.17;QD=0.87;SB=26.06 GT:AD:DP:GL:GQ 0/1:61,13:47:-23.87,-14.17,-131.74:97
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chr1 2755643 . C T 0.06 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=7.11;MQ=46.66;MQ0=2;OQ=370.42;QD=5.22;SB=-83.91 GT:AD:DP:GL:GQ 0/1:46,20:49:-55.11,-14.78,-108.17:99
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chr1 2755657 rs61763677 G T 0.15 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=8.88;MQ=44.97;MQ0=5;OQ=282.63;QD=3.29;SB=-9.61 GT:AD:DP:GL:GQ 0/1:69,17:72:-53.24,-21.69,-193.61:99
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chr1 2755674 rs61763678 C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=23.01;MQ=44.47;MQ0=7;OQ=292.56;QD=2.76;SB=-24.23 GT:AD:DP:GL:GQ 0/1:76,27:79:-56.37,-23.83,-203.58:99
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chr1 2755706 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=0;HaplotypeScore=46.46;MQ=43.46;MQ0=6;OQ=100.65;QD=1.01;SB=48.33 GT:AD:DP:GL:GQ 0/1:73,19:68:-33.86,-20.51,-216.35:99
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chr1 2755733 rs10909953 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=119;Dels=0.00;HRun=0;HaplotypeScore=134.56;MQ=44.60;MQ0=11;OQ=218.03;QD=1.83;SB=-68.77 GT:AD:DP:GL:GQ 0/1:91,18:82:-72.98,-47.89,-237.50:99
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chr1 2755738 rs10909954 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=118;Dels=0.00;HRun=0;HaplotypeScore=94.54;MQ=44.07;MQ0=12;OQ=119.63;QD=1.01;SB=15.66 GT:AD:DP:GL:GQ 0/1:86,29:80:-42.04,-26.79,-256.64:99
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chr1 2755753 . G A 11.77 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=126;Dels=0.00;HRun=1;HaplotypeScore=33.32;MQ=44.33;MQ0=10;QD=0.09;SB=66.29 GT:AD:DP:GL:GQ 0/1:116,10:95:-33.05,-28.62,-308.21:44.31
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chr1 2755755 rs57067996 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=130;Dels=0.00;HRun=1;HaplotypeScore=39.46;MQ=44.65;MQ0=10;OQ=1208.64;QD=9.30;SB=-349.24 GT:AD:DP:GL:GQ 0/1:72,52:91:-151.57,-27.42,-186.87:99
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chr1 2755787 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=209;Dels=0.00;HRun=0;HaplotypeScore=9.86;MQ=44.22;MQ0=18;OQ=212.29;QD=1.02;SB=84.79 GT:AD:DP:GL:GQ 0/1:175,28:147:-68.83,-44.32,-479.03:99
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chr1 2755816 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=216;Dels=0.00;HRun=1;HaplotypeScore=62.94;MQ=43.89;MQ0=23;OQ=172.99;QD=0.80;SB=63.05 GT:AD:DP:GL:GQ 0/1:192,24:159:-68.50,-47.92,-487.91:99
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chr1 2755844 rs4991850 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=164;Dels=0.00;HRun=0;HaplotypeScore=53.96;MQ=43.72;MQ0=16;OQ=1135.99;QD=6.93;SB=-394.17 GT:AD:DP:GL:GQ 0/1:112,52:121:-153.35,-36.47,-275.01:99
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chr1 2755847 rs57868894 T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=161;Dels=0.00;HRun=1;HaplotypeScore=64.38;MQ=43.84;MQ0=16;OQ=859.67;QD=5.34;SB=-128.73 GT:AD:DP:GL:GQ 0/1:103,58:122:-126.01,-36.76,-296.17:99
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chr1 2755864 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=139;Dels=0.00;HRun=0;HaplotypeScore=32.56;MQ=44.46;MQ0=14;OQ=96.62;QD=0.70;SB=30.17 GT:AD:DP:GL:GQ 0/1:117,20:102:-43.73,-30.78,-282.87:99
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chr1 2755889 rs4991849 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=114;Dels=0.04;HRun=2;HaplotypeScore=40.28;MQ=47.08;MQ0=9;OQ=2321.13;QD=20.36;SB=-1120.12 GT:AD:DP:GL:GQ 0/1:18,92:93:-262.51,-27.11,-65.29:99
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chr1 2755910 rs12728224 T G 16.56 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=1;HaplotypeScore=2.13;MQ=49.38;MQ0=5;QD=0.17;SB=88.35 GT:AD:DP:GL:GQ 0/1:84,11:79:-28.73,-23.80,-253.95:49.30
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chr1 2755924 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=18.40;MQ=49.90;MQ0=6;OQ=1394.92;QD=15.16;SB=-476.13 GT:AD:DP:GL:GQ 0/1:39,53:66:-162.68,-19.90,-75.57:99
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chr1 2755992 . G A 33.66 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=19.55;MQ=45.20;MQ0=8;QD=0.40;SB=27.48 GT:AD:DP:GL:GQ 0/1:73,12:61:-25.05,-18.40,-176.14:66.50
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chr1 2756013 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=17.90;MQ=45.32;MQ0=5;OQ=157.50;QD=2.67;SB=-33.78 GT:AD:DP:GL:GQ 0/1:38,21:37:-30.19,-11.15,-106.30:99
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chr1 2756025 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=4.66;MQ=45.60;MQ0=4;OQ=63.13;QD=1.15;SB=26.12 GT:AD:DP:GL:GQ 0/1:45,10:38:-21.07,-11.48,-129.01:95.97
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chr1 2756051 rs4992290 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=36.34;MQ=44.26;MQ0=6;OQ=205.91;QD=3.38;SB=35.13 GT:AD:DP:GL:GQ 0/1:37,24:36:-34.74,-10.86,-87.18:99
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chr1 2756088 rs6676347 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=50.22;MQ=41.73;MQ0=14;OQ=1315.11;QD=15.29;SB=-568.14 GT:AD:DP:GL:GQ 0/1:37,49:48:-149.26,-14.46,-35.10:99
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chr1 2756101 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=1;HaplotypeScore=21.36;MQ=40.87;MQ0=15;OQ=73.71;QD=0.88;SB=47.17 GT:AD:DP:GL:GQ 0/1:64,20:51:-26.02,-15.36,-158.57:99
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chr1 2756151 rs4648513 T C 97.75 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=4.14;MQ=50.77;MQ0=9;OQ=1380.54;QD=20.92;SB=-651.39 GT:AD:DP:GL:GQ 1/1:9,57:48:-150.01,-14.48,-8.38:61.01
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chr1 2756174 rs59048447 G A 70.95 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=5.41;MQ=56.28;MQ0=2;OQ=675.24;QD=12.74;SB=-328.31 GT:AD:DP:GL:GQ 0/1:26,27:46:-84.67,-13.86,-86.53:99
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chr1 2756831 rs4648515 C T 238.63 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.65;MQ=59.11;MQ0=0;OQ=2661.31;QD=39.14;SB=-1337.11 GT:AD:DP:GL:GQ 1/1:1,67:68:-272.30,-20.49,-2.59:99
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chr1 2757061 rs4648518 A G 438.92 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1894.09;QD=32.66;SB=-719.10 GT:AD:DP:GL:GQ 1/1:0,58:55:-193.02,-16.57,-0.02:99
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chr1 2757563 rs4648519 C T 617.31 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.79;MQ0=0;OQ=2063.43;QD=38.21;SB=-1058.93 GT:AD:DP:GL:GQ 1/1:0,54:53:-209.94,-15.97,-0.02:99
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chr1 2758482 . C T 0.54 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=50.17;MQ0=3;OQ=191.27;QD=4.25;SB=-120.51 GT:AD:DP:GL:GQ 0/1:31,14:38:-33.86,-11.45,-100.08:99
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chr1 2758751 . T G 48.69 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=34.31;MQ0=7;QD=1.62;SB=-11.91 GT:AD:DP:GL:GQ 0/1:21,9:22:-14.78,-6.63,-62.96:81.53
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chr1 2758819 . A G 182.25 PASS AC=2;AF=1.00;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=42.84;MQ0=2;OQ=868.67;QD=27.15;SB=-395.30 GT:AD:DP:GL:GQ 1/1:1,31:28:-90.48,-8.45,-0.03:84.20
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chr1 2758861 . T C 30.75 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=1;HaplotypeScore=1.14;MQ=44.85;MQ0=1;QD=0.90;SB=29.12 GT:AD:DP:GL:GQ 0/1:26,7:26:-14.19,-7.84,-86.43:63.58
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chr1 2758882 . G A 6.14 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=4.04;MQ=35.37;MQ0=5;OQ=748.79;QD=17.41;SB=-255.79 GT:AD:DP:GL:GQ 0/1:14,29:29:-86.90,-8.74,-21.14:99
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chr1 2758933 . T C 5.05 PASS AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=4.40;MQ=30.24;MQ0=6;OQ=270.13;QD=7.50;SB=-156.34 GT:AD:DP:GL:GQ 0/1:9,26:16:-35.12,-4.83,-17.51:99
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chr1 2758959 . T G 27.66 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=27.02;MQ0=8;QD=0.92;SB=-23.52 GT:AD:DP:GL:GQ 0/1:24,6:11:-9.36,-3.32,-25.67:60.48
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chr1 2759011 . T G 0.06 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=3.83;MQ=18.26;MQ0=23;OQ=314.04;QD=4.42;SB=-69.87 GT:AD:DP:GL:GQ 0/1:37,34:26:-42.52,-7.83,-50.68:99
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chr1 2759038 . G T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=15.13;MQ=25.49;MQ0=29;OQ=89.07;QD=0.97;SB=-9.29 GT:AD:DP:GL:GQ 0/1:85,7:35:-22.74,-10.55,-90.79:99
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chr1 2759090 . G T 15.10 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=11.61;MQ=28.51;MQ0=10;QD=0.35;SB=-6.99 GT:AD:DP:GL:GQ 0/1:32,11:16:-9.61,-4.83,-35.57:47.80
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chr1 2759130 rs61763686 T C 37.28 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=18.78;MQ0=1;QD=12.43;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-7.14,-0.60,-0.00:6.02
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chr1 2759142 . G A 1.53 PASS AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=-0.12;MQ=18.78;MQ0=2;OQ=80.16;QD=13.36;SB=-10.00 GT:AD:DP:GL:GQ 0/1:3,3:4:-12.50,-1.21,-3.10:18.91
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chr1 2759167 . G T 2.82 PASS AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=26.71;MQ0=4;OQ=151.71;QD=6.90;SB=-6.99 GT:AD:DP:GL:GQ 0/1:16,6:14:-22.67,-4.22,-28.76:99
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chr1 2759193 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=15.10;MQ=26.07;MQ0=10;OQ=142.00;QD=2.90;SB=-61.29 GT:AD:DP:GL:GQ 0/1:38,11:32:-27.13,-9.65,-83.88:99
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chr1 2759219 . G T 0.58 PASS AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.57;MQ=27.42;MQ0=13;OQ=233.66;QD=3.03;SB=-10.31 GT:AD:DP:GL:GQ 0/1:59,18:48:-41.11,-14.46,-126.09:99
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chr1 2759237 rs10909961 G A 0.07 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=9.56;MQ=30.14;MQ0=15;OQ=68.31;QD=0.77;SB=29.11 GT:AD:DP:GL:GQ 0/1:82,7:55:-26.69,-16.57,-172.16:99
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chr1 2759271 . G T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=3.94;MQ=31.60;MQ0=17;OQ=103.26;QD=1.09;SB=14.07 GT:AD:DP:GL:GQ 0/1:79,16:53:-29.57,-15.96,-157.88:99
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chr1 2759402 rs10752737 G A 706.16 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.81;MQ0=0;OQ=3330.93;QD=38.29;SB=-1475.63 GT:AD:DP:GL:GQ 1/1:0,87:84:-332.09,-25.31,-0.03:99
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chr1 2759793 rs6665646 C T 285.69 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.67;MQ0=0;OQ=1210.11;QD=17.54;SB=-511.14 GT:AD:DP:GL:GQ 0/1:33,36:69:-145.09,-20.79,-106.44:99
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chr1 2760042 rs6679343 A T 0.12 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=6;HaplotypeScore=1.76;MQ=59.01;MQ0=0;OQ=2240.29;QD=33.94;SB=-793.89 GT:AD:DP:GL:GQ 1/1:0,66:63:-227.64,-18.99,-0.03:99
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chr1 2761186 . C G 0.63 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=4;HaplotypeScore=1.71;MQ=59.37;MQ0=0;OQ=541.38;QD=12.30;SB=-216.32 GT:AD:DP:GL:GQ 0/1:26,18:41:-69.78,-12.36,-101.99:99
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chr1 2761364 rs12743952 G A 204.61 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.30;MQ=59.65;MQ0=0;OQ=611.70;QD=11.33;SB=-279.20 GT:AD:DP:GL:GQ 0/1:32,22:50:-79.52,-15.07,-100.94:99
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chr1 2761375 rs12743965 G A 240.15 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=59.65;MQ0=0;OQ=726.42;QD=13.45;SB=-307.80 GT:AD:DP:GL:GQ 0/1:31,23:53:-91.89,-15.96,-108.39:99
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chr1 2761483 rs34161193 G A 219.36 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=58.78;MQ0=0;OQ=505.10;QD=13.29;SB=-258.15 GT:AD:DP:GL:GQ 0/1:20,17:37:-64.94,-11.15,-70.90:99
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chr1 2761516 rs35134901 G C 42.78 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=3;HaplotypeScore=0.79;MQ=58.89;MQ0=0;OQ=485.26;QD=11.55;SB=-253.13 GT:AD:DP:GL:GQ 0/1:25,17:38:-63.28,-11.47,-90.46:99
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chr1 2761538 rs35767265 C A 434.92 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=663.44;QD=13.54;SB=-277.32 GT:AD:DP:GL:GQ 0/1:26,23:47:-83.79,-14.16,-83.28:99
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chr1 2761907 rs35313744 A C 3.99 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=4;HaplotypeScore=1.29;MQ=59.00;MQ0=0;OQ=545.25;QD=12.98;SB=-173.29 GT:AD:DP:GL:GQ 0/1:20,22:40:-69.86,-12.05,-71.88:99
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chr1 2762054 rs6694484 G A 356.15 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.79;MQ0=0;OQ=715.90;QD=13.26;SB=-315.29 GT:AD:DP:GL:GQ 0/1:29,25:51:-90.24,-15.37,-99.20:99
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chr1 2762207 rs6675221 C A 216.75 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=59.45;MQ0=0;OQ=527.73;QD=12.57;SB=-249.28 GT:AD:DP:GL:GQ 0/1:21,20:39:-67.80,-11.75,-71.40:99
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chr1 2762658 rs12727394 T C 169.21 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=60.00;MQ0=0;OQ=383.94;QD=11.63;SB=-133.29 GT:AD:DP:GL:GQ 0/1:17,15:29:-50.42,-8.74,-57.72:99
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chr1 2763115 rs12729596 C T 224.28 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=59.16;MQ0=0;OQ=609.66;QD=12.19;SB=-271.12 GT:AD:DP:GL:GQ 0/1:30,20:50:-79.31,-15.06,-107.78:99
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chr1 2763349 rs6660680 C G 206.84 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=2.16;MQ=59.65;MQ0=0;OQ=809.85;QD=15.28;SB=-407.93 GT:AD:DP:GL:GQ 0/1:28,25:49:-99.04,-14.78,-104.68:99
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chr1 2763426 rs6660759 C T 169.45 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.89;MQ0=0;OQ=778.20;QD=18.53;SB=-350.90 GT:AD:DP:GL:GQ 0/1:15,27:38:-92.57,-11.46,-40.16:99
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chr1 2763555 rs6674204 A G 358.56 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=1244.75;QD=33.64;SB=-466.51 GT:AD:DP:GL:GQ 1/1:0,37:36:-128.07,-10.85,-0.01:99
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chr1 2763913 rs7529000 A G 539.75 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=590.27;QD=13.73;SB=-268.99 GT:AD:DP:GL:GQ 0/1:19,24:38:-73.77,-11.46,-59.16:99
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chr1 2765576 . A G 299.17 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.30;MQ0=1;OQ=708.87;QD=14.18;SB=-362.49 GT:AD:DP:GL:GQ 0/1:25,25:46:-88.03,-13.85,-86.85:99
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chr1 2765703 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=40;Dels=0.03;HRun=1;HaplotypeScore=65.65;MQ=34.06;MQ0=6;OQ=224.51;QD=5.61;SB=-69.85 GT:AD:DP:GL:GQ 0/1:16,18:20:-31.76,-6.02,-57.23:99
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chr1 2765716 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=2;HaplotypeScore=45.86;MQ=31.67;MQ0=6;OQ=473.81;QD=11.56;SB=-227.60 GT:AD:DP:GL:GQ 0/1:7,34:22:-57.29,-6.63,-24.20:99
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chr1 2765718 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=49.51;MQ=31.73;MQ0=6;OQ=139.31;QD=3.48;SB=14.07 GT:AD:DP:GL:GQ 0/1:34,6:18:-22.64,-5.42,-43.65:99
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chr1 2765729 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=2;HaplotypeScore=101.24;MQ=39.70;MQ0=5;OQ=348.53;QD=8.30;SB=-73.03 GT:AD:DP:GL:GQ 0/1:25,16:29:-48.99,-10.85,-57.39:99
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chr1 2765740 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=21.54;MQ=47.97;MQ0=0;OQ=288.34;QD=9.94;SB=-104.59 GT:AD:DP:GL:GQ 0/1:16,13:26:-39.95,-7.84,-58.99:99
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chr1 2765813 . A G 11.29 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=1;HaplotypeScore=3.58;MQ=51.84;MQ0=0;OQ=780.70;QD=15.61;SB=-390.27 GT:AD:DP:GL:GQ 0/1:21,28:48:-95.81,-14.46,-83.37:99
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chr1 2765894 . A C 0.06 PASS AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=11.31;MQ=45.14;MQ0=0;OQ=337.42;QD=9.37;SB=-140.89 GT:AD:DP:GL:GQ 0/1:21,15:33:-46.96,-9.94,-71.34:99
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chr1 2765910 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=53;Dels=0.02;HRun=1;HaplotypeScore=33.31;MQ=38.51;MQ0=0;OQ=588.92;QD=11.11;SB=23.11 GT:AD:DP:GL:GQ 0/1:28,24:46:-75.73,-13.55,-102.75:99
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chr1 2765957 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=2;HaplotypeScore=176.91;MQ=27.98;MQ0=17;OQ=352.77;QD=3.12;SB=2.45 GT:AD:DP:GL:GQ 0/1:85,28:53:-54.54,-15.98,-142.28:99
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chr1 2765968 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=1;HaplotypeScore=118.45;MQ=28.99;MQ0=17;OQ=151.04;QD=1.26;SB=-15.93 GT:AD:DP:GL:GQ 0/1:95,25:59:-36.17,-17.78,-173.10:99
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chr1 2765995 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=52.19;MQ=34.85;MQ0=7;OQ=128.24;QD=1.78;SB=-51.69 GT:AD:DP:GL:GQ 0/1:61,11:54:-32.38,-16.27,-203.82:99
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chr1 2765996 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=51.72;MQ=35.05;MQ0=7;OQ=180.10;QD=2.54;SB=-41.96 GT:AD:DP:GL:GQ 0/1:59,12:54:-37.57,-16.27,-158.22:99
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chr1 2766902 rs34376289 C T 393.03 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.48;MQ0=0;OQ=811.67;QD=17.64;SB=-367.51 GT:AD:DP:GL:GQ 0/1:20,26:45:-98.01,-13.56,-71.88:99
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chr1 2768626 rs10909992 C T 335.77 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.57;MQ0=0;OQ=811.02;QD=12.48;SB=-416.42 GT:AD:DP:GL:GQ 0/1:35,29:62:-103.08,-18.70,-112.11:99
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chr1 2768752 rs12409918 A C 74.45 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.55;MQ=59.57;MQ0=0;OQ=965.61;QD=17.88;SB=-402.66 GT:AD:DP:GL:GQ 0/1:20,34:50:-114.91,-15.06,-60.43:99
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chr1 2768903 rs12409348 T C 172.05 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=1.28;MQ=60.00;MQ0=0;OQ=398.89;QD=10.50;SB=-78.75 GT:AD:DP:GL:GQ 0/1:20,17:35:-53.71,-10.54,-80.33:99
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chr1 2769019 rs10909995 C G 17.82 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=58.48;MQ0=0;OQ=1462.05;QD=36.55;SB=-653.43 GT:AD:DP:GL:GQ 1/1:0,40:35:-149.81,-10.55,-0.02:99
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chr1 2769620 rs28600853 C T 67.23 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=57.53;MQ0=0;OQ=1091.29;QD=28.72;SB=-540.63 GT:AD:DP:GL:GQ 0/1:4,33:36:-123.26,-10.85,-13.62:27.66
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chr1 2769674 rs4648542 G A 90.82 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=3.80;MQ=51.80;MQ0=1;OQ=271.91;QD=9.71;SB=-148.61 GT:AD:DP:GL:GQ 0/1:13,15:21:-36.80,-6.33,-39.42:99
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chr1 2769679 rs28367217 C G 36.02 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=51.80;MQ0=1;OQ=209.26;QD=8.37;SB=2.04 GT:AD:DP:GL:GQ 0/1:15,10:18:-29.64,-5.43,-44.14:99
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chr1 2769692 rs28478242 A G 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=4;HaplotypeScore=0.82;MQ=53.88;MQ0=1;OQ=89.42;QD=4.26;SB=5.05 GT:AD:DP:GL:GQ 0/1:15,6:17:-17.35,-5.12,-46.13:99
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chr1 2769752 rs7542593 T C 75.28 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=56.77;MQ0=0;OQ=136.56;QD=6.21;SB=-67.76 GT:AD:DP:GL:GQ 0/1:10,12:17:-22.07,-5.13,-38.52:99
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chr1 2769805 rs4648543 T G 0.02 FDRtranche1.00to2.00 AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=4;HaplotypeScore=2.68;MQ=55.12;MQ0=0;OQ=754.89;QD=29.03;SB=-110.69 GT:AD:DP:GL:GQ 1/1:0,26:23:-79.08,-6.93,-0.01:69.18
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chr1 2770855 rs729178 T G 35.70 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=57.97;MQ0=0;OQ=332.17;QD=14.44;SB=-62.09 GT:AD:DP:GL:GQ 0/1:7,16:18:-41.92,-5.42,-18.71:99
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chr1 2770856 rs729177 T C 47.89 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=57.97;MQ0=0;OQ=319.36;QD=13.89;SB=-53.86 GT:AD:DP:GL:GQ 0/1:7,16:20:-41.25,-6.03,-26.63:99
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chr1 2772453 rs12119163 G A 585.03 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1388.32;QD=37.52;SB=-625.84 GT:AD:DP:GL:GQ 1/1:0,37:36:-142.43,-10.85,-0.01:99
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chr1 2772603 rs7551868 T C 19.40 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=3.77;MQ=58.92;MQ0=0;OQ=1140.34;QD=29.24;SB=-578.97 GT:AD:DP:GL:GQ 1/1:0,39:37:-117.66,-11.16,-0.04:99
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chr1 2772900 rs4648402 T C 156.21 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.00;MQ0=0;OQ=994.66;QD=28.42;SB=-468.49 GT:AD:DP:GL:GQ 1/1:0,35:33:-103.09,-9.96,-0.03:99
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chr1 2773675 rs12752112 G C 9.49 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=58.95;MQ0=0;OQ=859.11;QD=39.05;SB=-325.45 GT:AD:DP:GL:GQ 1/1:0,22:21:-89.50,-6.33,-0.01:63.21
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chr1 2776554 rs1563470 T C 23.92 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=4.69;MQ=60.00;MQ0=0;OQ=1838.24;QD=33.42;SB=-908.03 GT:AD:DP:GL:GQ 1/1:0,55:52:-187.42,-15.66,-0.02:99
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chr1 2777013 rs897616 C G 7.16 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=3;HaplotypeScore=1.07;MQ=58.26;MQ0=0;OQ=1193.61;QD=34.10;SB=-446.20 GT:AD:DP:GL:GQ 1/1:0,35:30:-122.96,-9.05,-0.02:90.29
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chr1 2777567 rs897620 C G 317.44 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1920.95;QD=42.69;SB=-716.92 GT:AD:DP:GL:GQ 1/1:0,45:44:-195.69,-13.26,-0.01:99
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chr1 2778573 rs56273341 A G 89.85 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.42;MQ0=0;OQ=1164.73;QD=29.12;SB=-590.57 GT:AD:DP:GL:GQ 1/1:0,40:37:-120.09,-11.16,-0.03:99
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chr1 2779035 rs12569164 T C 119.85 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=49.75;MQ0=0;OQ=1623.80;QD=28.49;SB=-755.66 GT:AD:DP:GL:GQ 1/1:0,57:53:-166.02,-15.99,-0.06:99
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chr1 2779347 . T C 140.90 Indel AC=1;AF=0.50;AN=2;DP=70;Dels=0.03;HRun=0;HaplotypeScore=53.64;MQ=31.59;MQ0=1;QD=2.01;SB=-93.61 GT:AD:DP:GL:GQ 0/1:59,9:55:-33.34,-15.96,-177.98:99
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chr1 2779357 rs55740077 T C 137.39 Indel;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=61.84;MQ=29.83;MQ0=1;QD=1.99;SB=-25.89 GT:AD:DP:GL:GQ 0/1:28,41:15:-21.54,-4.52,-37.07:99
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chr1 2779361 rs55927204 T C 380.25 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=52.10;MQ=29.71;MQ0=1;QD=5.51;SB=-184.74 GT:AD:DP:GL:GQ 0/1:7,62:16:-46.13,-4.82,-12.60:77.76
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chr1 2779365 . T C 528.78 SnpCluster AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=50.77;MQ=30.92;MQ0=1;QD=7.24;SB=-289.59 GT:AD:DP:GL:GQ 0/1:6,67:20:-62.19,-6.02,-12.60:65.71
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chr1 2779369 . T C 809.75 SnpCluster AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=40.71;MQ=31.11;MQ0=1;QD=10.52;SB=-337.36 GT:AD:DP:GL:GQ 0/1:9,68:31:-93.60,-9.34,-19.91:99
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chr1 2779373 rs56012041 T C 260.44 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=37.08;MQ=32.24;MQ0=1;QD=3.38;SB=-116.63 GT:AD:DP:GL:GQ 0/1:28,49:21:-35.65,-6.33,-44.87:99
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chr1 2779421 rs5023660 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.02;HRun=3;HaplotypeScore=23.36;MQ=40.90;MQ0=1;OQ=1397.64;QD=21.18;SB=-647.72 GT:AD:DP:GL:GQ 0/1:24,41:55:-159.31,-16.27,-52.10:99
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chr1 2779423 rs56155638 T C 0.07 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.02;HRun=0;HaplotypeScore=20.03;MQ=40.90;MQ0=1;OQ=1243.01;QD=18.83;SB=-541.02 GT:AD:DP:GL:GQ 0/1:23,42:56:-144.15,-16.57,-59.53:99
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chr1 2779766 rs2124661 C G 42.55 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=49.71;MQ0=0;OQ=2767.03;QD=41.92;SB=-1222.51 GT:AD:DP:GL:GQ 1/1:0,66:63:-280.30,-18.98,-0.02:99
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chr1 2779832 rs2168531 C T 260.48 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.21;MQ=50.55;MQ0=0;OQ=2553.68;QD=38.69;SB=-1139.52 GT:AD:DP:GL:GQ 1/1:0,66:66:-258.98,-19.89,-0.03:99
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chr1 2780005 . G C 32.52 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=15.63;MQ=58.92;MQ0=0;QD=0.76;SB=44.18 GT:AD:DP:GL:GQ 0/1:33,10:29:-15.29,-8.76,-103.60:65.36
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chr1 2781003 rs10910023 C T 121.93 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.11;MQ0=0;OQ=1930.80;QD=37.13;SB=-708.95 GT:AD:DP:GL:GQ 1/1:0,52:49:-196.68,-14.76,-0.01:99
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chr1 2781813 rs12131393 C T 195.76 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=701.85;QD=13.76;SB=-265.19 GT:AD:DP:GL:GQ 0/1:28,23:44:-86.73,-13.26,-75.43:99
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chr1 2781975 rs12131450 C T 0.88 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=915.40;QD=20.80;SB=-418.48 GT:AD:DP:GL:GQ 0/1:17,27:44:-108.08,-13.26,-61.20:99
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chr1 2784004 rs10909791 C T 0.07 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=18.57;MQ=55.20;MQ0=0;OQ=554.87;QD=8.95;SB=-141.63 GT:AD:DP:GL:GQ 0/1:38,21:51:-74.16,-15.38,-99.65:99
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chr1 2784009 rs6673503 T C 0.75 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=15.72;MQ=55.44;MQ0=0;OQ=828.36;QD=14.04;SB=-284.66 GT:AD:DP:GL:GQ 0/1:19,40:49:-100.91,-14.79,-59.84:99
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chr1 2784113 rs6658584 G A 324.36 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.61;MQ0=0;OQ=573.55;QD=11.95;SB=-252.51 GT:AD:DP:GL:GQ 0/1:29,19:42:-73.29,-12.65,-86.05:99
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chr1 2784397 rs6668620 C T 83.28 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=58.97;MQ0=0;OQ=989.63;QD=21.99;SB=-434.99 GT:AD:DP:GL:GQ 0/1:12,32:41:-114.60,-12.35,-43.77:99
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chr1 2784411 rs10909793 G T 285.59 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=987.49;QD=22.44;SB=-485.97 GT:AD:DP:GL:GQ 0/1:11,33:43:-114.99,-12.95,-39.80:99
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chr1 2785397 rs6679954 T C 177.95 PASS AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=1;HaplotypeScore=1.43;MQ=57.39;MQ0=0;OQ=162.89;QD=9.05;SB=-99.99 GT:AD:DP:GL:GQ 0/1:9,8:15:-24.09,-4.52,-32.21:99
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chr1 2785861 rs10797340 G C 110.31 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=0.97;MQ=60.00;MQ0=0;OQ=2067.39;QD=39.01;SB=-1035.13 GT:AD:DP:GL:GQ 1/1:0,53:49:-210.35,-14.77,-0.02:99
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chr1 2786415 rs10752722 A G 154.88 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=59.07;MQ0=0;OQ=1517.85;QD=30.36;SB=-724.72 GT:AD:DP:GL:GQ 1/1:0,50:49:-155.42,-14.78,-0.05:99
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chr1 2786479 rs4648406 T C 92.49 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.34;MQ0=0;OQ=883.04;QD=25.23;SB=-376.38 GT:AD:DP:GL:GQ 1/1:0,35:29:-91.92,-8.75,-0.03:87.18
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chr1 2787126 rs6424057 T G 92.26 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=59.46;MQ0=0;OQ=1311.97;QD=30.51;SB=-464.84 GT:AD:DP:GL:GQ 1/1:0,43:41:-134.82,-12.36,-0.04:99
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chr1 2787716 rs10797342 C T 575.89 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=717.10;QD=14.63;SB=-344.49 GT:AD:DP:GL:GQ 0/1:27,22:49:-89.77,-14.77,-84.62:99
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chr1 2788065 rs2124662 G C 9.64 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=5.21;MQ=57.80;MQ0=0;OQ=437.50;QD=13.67;SB=-215.17 GT:AD:DP:GL:GQ 0/1:15,17:26:-54.88,-7.85,-48.57:99
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chr1 2788136 rs1563472 G A 261.94 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.38;MQ0=0;OQ=469.47;QD=12.69;SB=-131.12 GT:AD:DP:GL:GQ 0/1:19,18:28:-58.68,-8.45,-41.51:99
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chr1 2788195 rs1563473 T G 178.79 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.69;MQ=57.45;MQ0=0;OQ=577.74;QD=12.56;SB=-216.84 GT:AD:DP:GL:GQ 0/1:19,27:43:-74.02,-12.96,-66.19:99
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chr1 2788317 rs1563474 G A 94.33 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=3.84;MQ=58.45;MQ0=0;OQ=661.75;QD=14.71;SB=-298.81 GT:AD:DP:GL:GQ 0/1:21,24:41:-81.83,-12.37,-60.24:99
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chr1 2788572 rs4373707 T C 44.63 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=5.22;MQ=58.97;MQ0=0;OQ=526.05;QD=11.69;SB=-185.63 GT:AD:DP:GL:GQ 0/1:22,23:42:-68.55,-12.66,-84.21:99
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chr1 2788907 rs2377038 A G 118.41 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=3.81;MQ=59.09;MQ0=0;OQ=482.56;QD=10.49;SB=-194.43 GT:AD:DP:GL:GQ 0/1:24,21:41:-63.90,-12.36,-79.61:99
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chr1 2789039 rs729965 G C 149.04 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=2442.19;QD=42.11;SB=-956.71 GT:AD:DP:GL:GQ 1/1:0,58:57:-247.82,-17.18,-0.02:99
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chr1 2789321 rs897629 T C 12.44 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=3.68;MQ=58.87;MQ0=0;OQ=1220.90;QD=29.78;SB=-560.89 GT:AD:DP:GL:GQ 1/1:0,40:39:-125.71,-11.76,-0.03:99
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chr1 2789340 rs11580768 C T 285.25 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.21;MQ=58.92;MQ0=0;OQ=699.84;QD=16.28;SB=-316.84 GT:AD:DP:GL:GQ 0/1:20,23:40:-85.33,-12.06,-59.14:99
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chr1 2789623 rs729419 G T 32.76 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=4.03;MQ=56.89;MQ0=0;OQ=1157.82;QD=30.47;SB=-604.54 GT:AD:DP:GL:GQ 1/1:0,38:33:-119.38,-9.94,-0.01:99
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chr1 2789978 rs4233022 T C 8.90 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=1.47;MQ=58.32;MQ0=0;OQ=1306.00;QD=33.49;SB=-393.50 GT:AD:DP:GL:GQ 1/1:0,38:38:-137.49,-14.36,-3.31:99
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chr1 2790214 rs61763695 G T 159.83 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.82;MQ=59.41;MQ0=0;OQ=678.47;QD=17.40;SB=-357.12 GT:AD:DP:GL:GQ 0/1:15,24:37:-82.28,-11.15,-45.69:99
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chr1 2790614 rs2061229 A G 424.36 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.99;MQ0=0;OQ=1321.60;QD=28.73;SB=-492.17 GT:AD:DP:GL:GQ 1/1:0,46:43:-135.79,-12.97,-0.04:99
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chr1 2791688 rs4648429 A G 0.41 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.02;HRun=3;HaplotypeScore=3.60;MQ=59.05;MQ0=0;OQ=1300.58;QD=29.56;SB=-615.14 GT:AD:DP:GL:GQ 1/1:0,43:39:-133.67,-11.76,-0.03:99
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chr1 2791895 rs10737188 A G 0.06 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=3;HaplotypeScore=11.58;MQ=57.39;MQ0=0;OQ=1158.45;QD=32.18;SB=-423.17 GT:AD:DP:GL:GQ 1/1:0,36:33:-119.44,-9.94,-0.01:99
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chr1 2791912 rs12127835 C T 0.23 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=15.40;MQ=57.73;MQ0=0;OQ=440.23;QD=14.20;SB=-189.24 GT:AD:DP:GL:GQ 0/1:15,16:28:-55.74,-8.44,-48.73:99
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chr1 2791917 rs12124890 G A 0.74 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=10.20;MQ=56.96;MQ0=0;OQ=462.23;QD=14.91;SB=-204.21 GT:AD:DP:GL:GQ 0/1:14,16:28:-57.95,-8.44,-40.79:99
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chr1 2792072 rs10752725 T C 491.80 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.34;MQ0=0;OQ=1748.59;QD=30.68;SB=-570.96 GT:AD:DP:GL:GQ 1/1:0,57:55:-178.49,-16.59,-0.05:99
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chr1 2792208 rs7552943 A G 158.94 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=59.00;MQ0=0;OQ=672.02;QD=16.00;SB=-219.52 GT:AD:DP:GL:GQ 0/1:13,29:36:-81.33,-10.85,-44.36:99
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chr1 2792422 . G A 42.68 PASS AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=59.28;MQ0=0;OQ=1176.82;QD=18.39;SB=-377.70 GT:AD:DP:GL:GQ 0/1:28,36:64:-140.25,-19.29,-99.03:99
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chr1 2793407 rs3001793 G A 9.14 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=1.66;MQ=57.81;MQ0=0;OQ=925.83;QD=30.86;SB=-281.35 GT:AD:DP:GL:GQ 1/1:0,30:25:-96.18,-7.54,-0.02:75.22
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chr1 2793666 rs2377039 C T 77.79 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=60.00;MQ0=0;OQ=452.51;QD=18.10;SB=-252.58 GT:AD:DP:GL:GQ 0/1:10,15:20:-54.56,-6.03,-20.77:99
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chr1 2794138 rs3001794 C G 65.67 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=352.40;QD=13.05;SB=-39.43 GT:AD:DP:GL:GQ 0/1:15,12:26:-46.37,-7.84,-60.81:99
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chr1 2800878 rs2842928 T C 235.55 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=901.11;QD=33.37;SB=-249.77 GT:AD:DP:GL:GQ 1/1:0,27:26:-93.71,-7.83,-0.01:78.23
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chr1 2802104 rs10909834 G C 0.87 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=3;HaplotypeScore=3.91;MQ=59.36;MQ0=0;OQ=721.69;QD=20.05;SB=-360.48 GT:AD:DP:GL:GQ 0/1:15,21:32:-85.11,-9.65,-46.55:99
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chr1 2803334 rs10909835 C A 282.86 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.29;MQ0=0;OQ=1113.78;QD=16.14;SB=-524.88 GT:AD:DP:GL:GQ 0/1:32,37:69:-135.44,-20.78,-115.35:99
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chr1 2809215 . C A 24.19 LowQual AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=33.87;MQ0=3;QD=0.67;SB=-3.99 GT:AD:DP:GL:GQ 0/1:32,3:16:-10.52,-4.82,-48.73:57.01
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chr1 2812608 rs12091184 T C 225.17 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=59.35;MQ0=0;OQ=707.81;QD=11.06;SB=-307.08 GT:AD:DP:GL:GQ 0/1:33,31:62:-92.76,-18.69,-131.04:99
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chr1 2813319 rs12035436 G T 336.68 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.54;MQ0=0;OQ=779.74;QD=15.59;SB=-317.29 GT:AD:DP:GL:GQ 0/1:23,27:47:-95.42,-14.16,-69.60:99
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chr1 2815014 rs880724 C T 302.73 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.57;MQ0=0;OQ=894.47;QD=16.56;SB=-357.16 GT:AD:DP:GL:GQ 0/1:25,29:52:-108.41,-15.68,-73.43:99
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chr1 2816229 rs34114281 G A 56.60 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.11;MQ=59.49;MQ0=0;OQ=818.99;QD=18.20;SB=-240.71 GT:AD:DP:GL:GQ 0/1:20,25:44:-98.44,-13.25,-71.30:99
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chr1 2816447 rs12738063 G A 183.56 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=60.00;MQ0=0;OQ=436.36;QD=11.79;SB=-199.90 GT:AD:DP:GL:GQ 0/1:21,16:33:-56.87,-9.95,-58.54:99
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chr1 2819411 rs1869970 A G 323.79 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=58.68;MQ0=0;OQ=562.16;QD=12.22;SB=-263.95 GT:AD:DP:GL:GQ 0/1:23,23:46:-73.37,-13.87,-93.65:99
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chr1 2819722 rs10797359 G A 80.30 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=58.97;MQ0=0;OQ=661.62;QD=14.70;SB=-329.32 GT:AD:DP:GL:GQ 0/1:24,21:45:-83.00,-13.56,-85.88:99
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chr1 2819782 rs10797360 T C 62.98 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.97;MQ=58.11;MQ0=0;OQ=276.31;QD=7.47;SB=-143.57 GT:AD:DP:GL:GQ 0/1:22,15:35:-41.46,-10.55,-86.74:99
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chr1 2821229 rs2606408 T C 106.74 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=3.39;MQ=59.56;MQ0=0;OQ=598.54;QD=11.51;SB=-201.20 GT:AD:DP:GL:GQ 0/1:29,23:50:-78.20,-15.07,-111.31:99
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chr1 2821448 rs1563475 G T 119.77 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=60.00;MQ0=0;OQ=513.38;QD=12.83;SB=-112.67 GT:AD:DP:GL:GQ 0/1:19,21:38:-66.07,-11.45,-67.04:99
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chr1 2821650 rs11590100 A G 136.28 PASS AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=59.60;MQ0=0;OQ=943.28;QD=10.14;SB=-480.61 GT:AD:DP:GL:GQ 0/1:51,42:88:-124.13,-26.52,-198.52:99
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chr1 2822111 rs3001796 T C 212.38 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.85;MQ=55.14;MQ0=0;OQ=802.13;QD=11.80;SB=-349.06 GT:AD:DP:GL:GQ 0/1:33,34:64:-102.79,-19.29,-127.57:99
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chr1 2822273 rs3001797 G A 0.27 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=14.80;MQ=58.82;MQ0=1;OQ=1009.61;QD=19.42;SB=-317.35 GT:AD:DP:GL:GQ 0/1:22,30:49:-119.01,-14.77,-60.02:99
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chr1 2822628 rs6696129 C T 18.64 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=6.89;MQ=57.91;MQ0=1;OQ=832.22;QD=14.35;SB=-326.29 GT:AD:DP:GL:GQ 0/1:32,26:55:-103.07,-16.57,-105.26:99
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chr1 2823020 rs1869971 C T 374.03 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=57.94;MQ0=0;OQ=535.79;QD=14.48;SB=-291.84 GT:AD:DP:GL:GQ 0/1:19,18:35:-67.42,-10.56,-54.80:99
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chr1 2823154 rs7339944 G A 129.22 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=59.45;MQ0=0;OQ=957.99;QD=19.16;SB=-392.16 GT:AD:DP:GL:GQ 0/1:19,31:48:-113.55,-14.46,-66.11:99
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chr1 2823192 rs7340016 A G 29.60 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=3.35;MQ=59.34;MQ0=0;OQ=422.29;QD=10.05;SB=-179.53 GT:AD:DP:GL:GQ 0/1:21,21:36:-56.37,-10.85,-73.83:99
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chr1 2823287 rs2124663 C T 42.06 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=59.59;MQ0=0;OQ=634.70;QD=14.10;SB=-71.85 GT:AD:DP:GL:GQ 0/1:24,21:45:-80.32,-13.56,-82.96:99
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chr1 2823310 rs1563466 T C 23.75 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=2.63;MQ=58.92;MQ0=0;OQ=514.85;QD=13.20;SB=-114.69 GT:AD:DP:GL:GQ 0/1:19,20:38:-66.22,-11.45,-76.59:99
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chr1 2823513 rs11587665 C T 40.96 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=6.13;MQ=59.14;MQ0=0;OQ=737.31;QD=13.65;SB=-373.35 GT:AD:DP:GL:GQ 0/1:29,25:51:-92.39,-15.38,-90.11:99
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chr1 2823603 rs1563468 T C 458.79 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.00;MQ0=0;OQ=947.27;QD=14.14;SB=-372.60 GT:AD:DP:GL:GQ 0/1:28,39:64:-117.31,-19.30,-107.37:99
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chr1 2823870 rs11809099 C T 295.64 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.56;MQ0=0;OQ=690.45;QD=13.28;SB=-256.23 GT:AD:DP:GL:GQ 0/1:28,23:49:-87.09,-14.76,-98.54:99
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chr1 2823885 rs2842926 G A 181.65 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=59.53;MQ0=0;OQ=786.09;QD=16.04;SB=-320.86 GT:AD:DP:GL:GQ 0/1:23,26:46:-95.76,-13.86,-71.19:99
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chr1 2825347 rs897633 A C 527.30 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=683.77;QD=14.86;SB=-280.84 GT:AD:DP:GL:GQ 0/1:21,25:45:-85.22,-13.56,-75.45:99
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chr1 2825552 rs897634 T C 95.40 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1172.99;QD=30.08;SB=-560.88 GT:AD:DP:GL:GQ 1/1:0,39:37:-120.91,-11.16,-0.03:99
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chr1 2825769 rs2606409 A G 32.95 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=5.74;MQ=57.77;MQ0=0;OQ=329.46;QD=7.84;SB=-164.95 GT:AD:DP:GL:GQ 0/1:25,16:40:-48.29,-12.06,-98.69:99
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chr1 2825959 rs2606410 C T 311.17 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.19;MQ=59.57;MQ0=0;OQ=951.03;QD=17.61;SB=-434.47 GT:AD:DP:GL:GQ 0/1:25,29:51:-113.75,-15.36,-82.67:99
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chr1 2827304 rs55855166 G A 337.28 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.37;MQ0=0;OQ=391.24;QD=9.10;SB=-201.88 GT:AD:DP:GL:GQ 0/1:27,16:41:-54.76,-12.35,-93.92:99
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chr1 2828084 rs35844499 A C 0.13 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=8.95;MQ=33.58;MQ0=13;OQ=215.00;QD=4.89;SB=-66.98 GT:AD:DP:GL:GQ 0/1:23,20:16:-29.61,-4.82,-23.59:99
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chr1 2831038 . C T 212.41 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=614.63;QD=14.29;SB=-239.55 GT:AD:DP:GL:GQ 0/1:23,20:43:-77.70,-12.96,-79.28:99
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chr1 2833249 . C T 39.44 LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=2.90;MQ=56.74;MQ0=0;QD=1.36;SB=-41.03 GT:AD:DP:GL:GQ 0/1:24,4:19:-12.96,-5.74,-47.17:72.28
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chr1 2833472 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=11.49;MQ=58.05;MQ0=0;OQ=54.69;QD=1.52;SB=-45.69 GT:AD:DP:GL:GQ 0/1:28,8:19:-14.49,-5.74,-59.79:87.52
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chr1 2837348 rs2606411 T C 351.83 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=583.14;QD=14.58;SB=-128.66 GT:AD:DP:GL:GQ 0/1:14,26:36:-72.45,-10.85,-55.84:99
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chr1 2838116 rs35880479 G A 202.84 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.65;MQ=58.64;MQ0=0;OQ=848.27;QD=13.05;SB=-379.33 GT:AD:DP:GL:GQ 0/1:37,28:62:-106.79,-18.68,-116.44:99
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chr1 2844321 rs12120163 C T 361.45 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.44;MQ0=0;OQ=1226.99;QD=16.58;SB=-528.52 GT:AD:DP:GL:GQ 0/1:36,38:72:-147.69,-21.70,-111.75:99
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chr1 2849584 rs2842909 C T 85.45 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=5.45;MQ=57.20;MQ0=0;OQ=445.80;QD=10.87;SB=-188.84 GT:AD:DP:GL:GQ 0/1:22,19:36:-58.71,-10.85,-74.85:99
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chr1 2850791 rs2925499 C T 367.47 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=59.73;MQ0=0;OQ=1163.55;QD=17.11;SB=-509.17 GT:AD:DP:GL:GQ 0/1:33,35:67:-139.83,-20.19,-105.50:99
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chr1 2856184 . C T 37.47 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=14.17;MQ0=11;QD=1.63;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,10:4:-8.24,-1.21,-6.09:48.87
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chr1 2856380 rs3010827 T C 18.54 LowQual AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=1;HaplotypeScore=1.43;MQ=21.91;MQ0=3;QD=0.66;SB=-6.99 GT:AD:DP:GL:GQ 0/1:20,8:5:-6.64,-1.51,-11.98:51.31
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chr1 2865080 rs2788089 G A 618.40 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2745.57;QD=39.79;SB=-1234.70 GT:AD:DP:GL:GQ 1/1:0,69:69:-278.16,-20.78,-0.02:99
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chr1 2866385 rs10909845 T C 68.38 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=1.49;MQ=58.86;MQ0=0;OQ=1786.40;QD=31.34;SB=-680.16 GT:AD:DP:GL:GQ 1/1:0,57:53:-182.25,-15.97,-0.03:99
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chr1 2866462 rs6663830 A G 10.39 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.42;MQ=57.19;MQ0=0;OQ=455.20;QD=23.96;SB=-149.73 GT:AD:DP:GL:GQ 1/1:1,18:16:-49.13,-4.83,-0.02:48.09
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chr1 2866480 rs12132266 C G 0.75 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=2;HaplotypeScore=2.31;MQ=54.22;MQ0=2;OQ=483.83;QD=32.26;SB=-138.40 GT:AD:DP:GL:GQ 1/1:2,13:12:-51.97,-3.62,-0.01:36.12
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chr1 2866511 rs12129394 G A 181.92 PASS AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.76;MQ0=0;OQ=82.01;QD=27.34;SB=-47.56 GT:AD:DP:GL:GQ 1/1:0,3:3:-11.69,-0.90,-0.00:9.03
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chr1 2866552 rs11582761 G A 15.30 PASS AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=47.10;MQ0=0;OQ=87.13;QD=17.43;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,4:3:-12.20,-0.90,-0.00:9.03
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chr1 2868226 rs11583804 G A 591.81 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.37;MQ0=0;OQ=1019.85;QD=15.45;SB=-422.44 GT:AD:DP:GL:GQ 0/1:35,31:65:-124.85,-19.58,-125.50:99
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chr1 2872997 rs10909848 G T 338.03 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=59.67;MQ0=0;OQ=904.50;QD=15.87;SB=-468.05 GT:AD:DP:GL:GQ 0/1:25,32:54:-110.00,-16.27,-78.02:99
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chr1 2873890 . G C 11.21 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=4;HaplotypeScore=5.27;MQ=55.45;MQ0=0;QD=0.59;SB=14.08 GT:AD:DP:GL:GQ 0/1:10,9:11:-7.69,-3.32,-38.19:43.71
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chr1 2874116 rs2993507 T C 16.38 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=3;HaplotypeScore=1.05;MQ=58.76;MQ0=0;OQ=1405.38;QD=31.23;SB=-680.25 GT:AD:DP:GL:GQ 1/1:0,45:40:-144.14,-12.05,-0.01:99
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chr1 2876216 rs2842925 A G 411.29 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=1144.93;QD=30.13;SB=-502.20 GT:AD:DP:GL:GQ 1/1:0,38:36:-118.11,-10.86,-0.03:99
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chr1 2876326 rs12752801 C T 372.85 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.51;MQ0=0;OQ=555.75;QD=11.82;SB=-279.71 GT:AD:DP:GL:GQ 0/1:29,18:46:-72.72,-13.86,-94.69:99
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chr1 2876664 rs1104934 C T 153.01 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.11;MQ0=0;OQ=873.37;QD=18.58;SB=-376.40 GT:AD:DP:GL:GQ 0/1:19,28:45:-104.19,-13.57,-58.40:99
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chr1 2876848 rs4072769 G A 397.29 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.29;MQ0=0;OQ=569.53;QD=13.56;SB=-264.25 GT:AD:DP:GL:GQ 0/1:22,20:41:-72.60,-12.36,-71.89:99
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chr1 2877278 rs12731895 T A 88.65 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.47;MQ0=0;OQ=1142.36;QD=32.64;SB=-433.66 GT:AD:DP:GL:GQ 1/1:0,35:33:-117.84,-9.95,-0.02:99
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chr1 2877329 rs12727338 A G 1.05 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=6.87;MQ=57.26;MQ0=0;OQ=1138.52;QD=25.30;SB=-341.40 GT:AD:DP:GL:GQ 1/1:0,45:36:-117.47,-10.86,-0.03:99
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chr1 2877535 rs4648443 G C 93.54 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=59.43;MQ0=0;OQ=1023.89;QD=31.03;SB=-246.78 GT:AD:DP:GL:GQ 1/1:0,33:28:-106.01,-8.47,-0.04:84.26
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chr1 2878321 rs10797371 T C 561.61 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=1137.37;QD=29.16;SB=-576.99 GT:AD:DP:GL:GQ 1/1:0,39:37:-117.36,-11.16,-0.04:99
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chr1 2878374 rs10797372 A G 151.87 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=58.80;MQ0=0;OQ=958.51;QD=27.39;SB=-485.14 GT:AD:DP:GL:GQ 1/1:0,35:31:-99.47,-9.35,-0.03:93.21
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chr1 2878478 rs57027760 G T 756.85 Indel AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=16.93;MQ=60.84;MQ0=0;QD=20.46;SB=-136.60 GT:AD:DP:GL:GQ 0/1:7,30:29:-87.69,-8.74,-9.78:10.36
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chr1 2879008 rs56619891 G A 46.74 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=58.68;MQ0=0;OQ=1774.48;QD=38.58;SB=-601.31 GT:AD:DP:GL:GQ 1/1:0,46:45:-181.04,-13.56,-0.01:99
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chr1 2879409 rs2495273 T A 230.62 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.82;MQ=58.81;MQ0=0;OQ=1962.54;QD=35.68;SB=-1002.53 GT:AD:DP:GL:GQ 1/1:0,55:54:-199.86,-16.27,-0.02:99
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chr1 2879437 rs12044030 C T 157.06 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=1.24;MQ=58.72;MQ0=0;OQ=1987.31;QD=38.97;SB=-989.84 GT:AD:DP:GL:GQ 1/1:0,51:51:-202.33,-15.37,-0.02:99
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chr1 2880205 rs4648445 G A 0.49 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=7.53;MQ=59.36;MQ0=0;OQ=1380.04;QD=38.33;SB=-528.20 GT:AD:DP:GL:GQ 1/1:1,35:35:-141.60,-10.54,-0.01:99
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chr1 2880574 rs4648446 C T 93.96 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.43;MQ=58.80;MQ0=0;OQ=2154.57;QD=37.15;SB=-942.74 GT:AD:DP:GL:GQ 1/1:0,58:56:-219.07,-16.88,-0.03:99
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chr1 2880814 rs35060945 G T 115.68 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=59.36;MQ0=0;OQ=1511.10;QD=32.85;SB=-647.26 GT:AD:DP:GL:GQ 1/1:0,46:43:-154.71,-12.95,-0.02:99
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chr1 2880975 rs9661752 C T 171.39 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.26;MQ=57.35;MQ0=0;OQ=1967.63;QD=36.44;SB=-881.18 GT:AD:DP:GL:GQ 1/1:0,54:51:-200.37,-15.37,-0.02:99
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chr1 2880988 rs35377179 C A 115.57 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=57.03;MQ0=0;OQ=1298.02;QD=29.50;SB=-650.95 GT:AD:DP:GL:GQ 1/1:1,43:37:-133.40,-11.15,-0.01:99
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chr1 2881030 . C A 0.40 PASS AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=1;HaplotypeScore=3.41;MQ=54.52;MQ0=1;OQ=214.49;QD=8.25;SB=26.09 GT:AD:DP:GL:GQ 0/1:17,8:22:-34.34,-9.60,-47.09:99
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chr1 2881446 rs12046122 C A 164.77 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=56.73;MQ0=0;OQ=1555.86;QD=34.57;SB=-803.87 GT:AD:DP:GL:GQ 1/1:0,45:44:-159.18,-13.25,-0.01:99
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chr1 2881573 rs12046158 C T 78.52 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=60.00;MQ0=0;OQ=1075.02;QD=38.39;SB=-495.01 GT:AD:DP:GL:GQ 1/1:0,28:28:-111.09,-8.43,-0.01:84.27
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chr1 2882784 rs12096719 A G 679.62 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.77;MQ0=0;OQ=1529.67;QD=33.99;SB=-756.19 GT:AD:DP:GL:GQ 1/1:0,45:44:-156.57,-13.25,-0.01:99
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chr1 2883117 rs34709641 C A 0.13 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=10.20;MQ=27.00;MQ0=0;OQ=541.23;QD=24.60;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,21:16:-57.72,-4.82,-0.01:48.13
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chr1 2883336 . T C 0.07 PASS AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=2.02;MQ=28.41;MQ0=1;OQ=55.83;QD=2.15;SB=35.13 GT:AD:DP:GL:GQ 0/1:19,7:19:-14.60,-5.73,-55.04:88.67
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chr1 2883474 . C T 16.42 PASS AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=1;HaplotypeScore=1.15;MQ=19.09;MQ0=3;OQ=91.28;QD=9.13;SB=-10.00 GT:AD:DP:GL:GQ 1/1:6,3:4:-15.26,-3.77,-2.60:11.70
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chr1 2883529 . A G 32.82 LowQual AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=16.58;MQ0=2;QD=4.69;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:2:-6.69,-0.60,-0.00:6.01
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chr1 2883801 . G C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=4.62;MQ=34.13;MQ0=1;OQ=549.05;QD=22.88;SB=-205.68 GT:AD:DP:GL:GQ 0/1:3,21:17:-63.31,-5.13,-9.19:40.68
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chr1 2883821 . C G 1.10 PASS AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=5.35;MQ=22.36;MQ0=5;OQ=186.32;QD=8.47;SB=-39.88 GT:AD:DP:GL:GQ 0/1:7,15:10:-24.93,-3.02,-15.34:99
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chr1 2883940 . C G 0.08 PASS AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=7.32;MQ=24.85;MQ0=3;OQ=119.37;QD=7.02;SB=-3.99 GT:AD:DP:GL:GQ 0/1:4,13:7:-17.34,-2.12,-7.20:50.86
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chr1 2883991 . G A 9.80 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=39.91;MQ0=4;OQ=393.88;QD=7.16;SB=-196.17 GT:AD:DP:GL:GQ 0/1:36,19:38:-54.13,-11.46,-77.08:99
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chr1 2884111 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=2;HaplotypeScore=5.45;MQ=48.57;MQ0=0;OQ=67.53;QD=1.73;SB=-58.84 GT:AD:DP:GL:GQ 0/1:29,10:26:-17.87,-7.84,-79.49:99
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chr1 2884204 . C G 13.82 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=48;Dels=0.02;HRun=0;HaplotypeScore=10.52;MQ=37.87;MQ0=5;QD=0.29;SB=17.09 GT:AD:DP:GL:GQ 0/1:44,3:31:-13.69,-9.05,-110.48:46.47
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chr1 2884224 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=7.14;MQ=33.65;MQ0=6;OQ=99.62;QD=2.69;SB=-73.89 GT:AD:DP:GL:GQ 0/1:22,14:21:-19.58,-6.34,-62.85:99
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chr1 2884275 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=8.64;MQ=43.29;MQ0=0;OQ=54.38;QD=1.36;SB=23.10 GT:AD:DP:GL:GQ 0/1:34,6:34:-18.98,-10.26,-119.97:87.22
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chr1 2884325 . G C 41.80 PASS AC=2;AF=1.00;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=49.14;MQ0=0;OQ=1253.36;QD=33.87;SB=-646.42 GT:AD:DP:GL:GQ 1/1:0,37:34:-128.97,-10.28,-0.05:99
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chr1 2885060 rs63721360 G T 452.04 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=1106.85;QD=29.13;SB=-549.16 GT:AD:DP:GL:GQ 1/1:0,38:32:-114.28,-9.64,-0.01:96.27
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chr1 2885413 rs34183832 C T 53.59 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=60.00;MQ0=0;OQ=1297.32;QD=37.07;SB=-499.18 GT:AD:DP:GL:GQ 1/1:0,35:34:-133.33,-10.25,-0.01:99
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chr1 2885666 rs12746525 C T 345.32 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.87;MQ0=0;OQ=771.21;QD=35.05;SB=-307.40 GT:AD:DP:GL:GQ 1/1:0,22:21:-80.72,-6.33,-0.01:63.20
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chr1 2885725 rs12731464 G A 43.96 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.35;MQ=59.36;MQ0=0;OQ=1296.44;QD=36.01;SB=-473.63 GT:AD:DP:GL:GQ 1/1:0,36:34:-133.24,-10.25,-0.01:99
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chr1 2885912 rs12746985 C T 116.03 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.54;MQ0=0;OQ=1570.34;QD=38.30;SB=-739.01 GT:AD:DP:GL:GQ 1/1:0,40:40:-160.63,-12.05,-0.01:99
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chr1 2886057 rs12747179 C G 228.04 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1558.47;QD=39.96;SB=-692.89 GT:AD:DP:GL:GQ 1/1:0,39:37:-159.45,-11.15,-0.01:99
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chr1 2886368 rs7519674 G T 104.99 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.51;MQ=58.92;MQ0=0;OQ=1251.61;QD=32.09;SB=-486.26 GT:AD:DP:GL:GQ 1/1:0,39:37:-128.76,-11.15,-0.02:99
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chr1 2886595 rs7533362 A G 145.09 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=0.95;MQ=59.61;MQ0=0;OQ=2108.67;QD=35.74;SB=-1026.73 GT:AD:DP:GL:GQ 1/1:0,59:59:-214.47,-17.77,-0.02:99
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chr1 2886944 rs10909849 A G 437.20 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.80;MQ0=0;OQ=1258.82;QD=27.97;SB=-649.76 GT:AD:DP:GL:GQ 1/1:0,45:41:-129.52,-12.37,-0.05:99
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chr1 2886953 rs2788088 G A 571.84 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.80;MQ0=0;OQ=615.00;QD=13.67;SB=-320.48 GT:AD:DP:GL:GQ 0/1:23,22:41:-77.15,-12.37,-67.43:99
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chr1 2887315 rs3001801 T C 293.49 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.55;MQ0=0;OQ=285.37;QD=12.41;SB=-113.63 GT:AD:DP:GL:GQ 0/1:11,12:22:-38.45,-6.63,-44.08:99
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chr1 2887325 rs2495272 A G 0.48 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=3;HaplotypeScore=1.25;MQ=56.85;MQ0=0;OQ=451.51;QD=25.08;SB=-251.59 GT:AD:DP:GL:GQ 1/1:0,18:15:-48.75,-4.52,-0.01:45.11
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chr1 2887439 . A G 0.37 PASS AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=2;HaplotypeScore=3.88;MQ=55.21;MQ0=0;OQ=257.68;QD=9.20;SB=-92.00 GT:AD:DP:GL:GQ 0/1:17,11:26:-36.89,-7.84,-61.45:99
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chr1 2887454 . A G 0.28 PASS AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=2;HaplotypeScore=5.31;MQ=55.54;MQ0=0;OQ=380.48;QD=12.68;SB=-84.99 GT:AD:DP:GL:GQ 0/1:15,15:27:-49.47,-8.14,-52.46:99
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chr1 2887461 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=9.99;MQ=56.64;MQ0=0;OQ=82.14;QD=2.65;SB=-24.50 GT:AD:DP:GL:GQ 0/1:26,5:30:-20.54,-9.04,-87.21:99
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chr1 2887469 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=2;HaplotypeScore=10.99;MQ=56.64;MQ0=0;OQ=56.39;QD=1.82;SB=-10.59 GT:AD:DP:GL:GQ 0/1:26,5:30:-17.96,-9.04,-99.17:89.23
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chr1 2887476 rs61763639 G A 1.06 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=10.80;MQ=56.85;MQ0=0;OQ=400.87;QD=12.15;SB=-209.95 GT:AD:DP:GL:GQ 0/1:19,13:29:-55.44,-12.07,-58.42:99
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chr1 2887567 rs61763640 G C 352.27 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.34;MQ0=0;OQ=547.00;QD=15.63;SB=-239.40 GT:AD:DP:GL:GQ 0/1:19,16:35:-68.53,-10.55,-82.14:99
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chr1 2887764 rs35529252 C G 80.76 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=1.06;MQ=57.39;MQ0=0;OQ=226.67;QD=8.40;SB=2.03 GT:AD:DP:GL:GQ 0/1:18,9:23:-32.89,-6.94,-62.31:99
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chr1 2887828 rs56335850 C G 110.15 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=4.16;MQ=58.45;MQ0=0;OQ=748.06;QD=17.40;SB=-393.99 GT:AD:DP:GL:GQ 0/1:21,22:42:-90.75,-12.66,-91.15:99
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chr1 2888083 rs56195961 C T 7.84 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=2.95;MQ=60.00;MQ0=0;OQ=1112.19;QD=20.22;SB=-391.16 GT:AD:DP:GL:GQ 0/1:22,33:55:-131.08,-16.58,-71.48:99
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chr1 2888354 rs17391563 T C 531.46 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=612.67;QD=11.56;SB=-261.21 GT:AD:DP:GL:GQ 0/1:27,26:52:-80.22,-15.67,-108.53:99
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chr1 2888416 rs6681331 C T 397.61 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=59.62;MQ0=0;OQ=831.46;QD=13.63;SB=-416.81 GT:AD:DP:GL:GQ 0/1:34,27:59:-104.22,-17.79,-102.21:99
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chr1 2888820 rs6681741 C T 399.97 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=60.00;MQ0=0;OQ=909.46;QD=13.78;SB=-406.91 GT:AD:DP:GL:GQ 0/1:37,29:64:-113.53,-19.30,-110.49:99
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chr1 2889209 rs12043738 C T 43 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=2.99;MQ=59.70;MQ0=0;OQ=782.92;QD=12.63;SB=-392.82 GT:AD:DP:GL:GQ 0/1:36,26:56:-98.47,-16.89,-96.75:99
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chr1 2889348 rs12046140 T C 210.74 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.64;MQ=58.78;MQ0=0;OQ=758.51;QD=11.67;SB=-309.09 GT:AD:DP:GL:GQ 0/1:33,31:62:-97.83,-18.69,-124.67:99
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chr1 2891988 rs1572657 C T 224.13 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=58.69;MQ0=0;OQ=1966.14;QD=39.32;SB=-982.30 GT:AD:DP:GL:GQ 1/1:0,50:49:-200.21,-14.76,-0.01:99
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chr1 2893019 rs16823303 A G 473.80 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=1016.72;QD=15.17;SB=-513.96 GT:AD:DP:GL:GQ 0/1:31,36:67:-125.14,-20.19,-125.83:99
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chr1 2893437 rs4350139 T C 494.03 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=627.58;QD=13.35;SB=-219.43 GT:AD:DP:GL:GQ 0/1:23,24:46:-79.90,-13.86,-93.15:99
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chr1 2893916 rs10797373 G A 257.26 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.18;MQ=59.61;MQ0=0;OQ=845.53;QD=14.33;SB=-302.29 GT:AD:DP:GL:GQ 0/1:31,28:56:-104.72,-16.88,-95.11:99
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chr1 2895465 rs10909852 T C 196.72 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=3.24;MQ=59.46;MQ0=0;OQ=1273.07;QD=16.32;SB=-516.27 GT:AD:DP:GL:GQ 0/1:36,42:76:-153.48,-22.89,-141.76:99
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chr1 2897295 rs7546695 C A 472.44 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.44;MQ0=0;OQ=1069.83;QD=15.97;SB=-543.65 GT:AD:DP:GL:GQ 0/1:30,37:66:-130.15,-19.88,-106.29:99
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chr1 2897527 rs12411019 T C 97.34 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.42;MQ0=0;OQ=164.92;QD=5.15;SB=-60.30 GT:AD:DP:GL:GQ 0/1:21,11:29:-28.52,-8.74,-78.99:99
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chr1 2897840 rs58882615 A T 78.36 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=58.81;MQ0=0;OQ=696.78;QD=12.67;SB=-96.85 GT:AD:DP:GL:GQ 0/1:28,27:52:-88.62,-15.66,-107.99:99
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chr1 2897930 rs10909854 A G 302.68 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=2.54;MQ=59.44;MQ0=0;OQ=922.43;QD=11.25;SB=-327.10 GT:AD:DP:GL:GQ 0/1:45,37:81:-119.94,-24.41,-179.92:99
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chr1 2898248 rs10909855 C T 438.64 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.39;MQ0=0;OQ=1131.76;QD=16.40;SB=-432.83 GT:AD:DP:GL:GQ 0/1:34,35:68:-136.95,-20.49,-112.64:99
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chr1 2898666 . G A 72.98 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.34;MQ=60.00;MQ0=0;OQ=1136.24;QD=18.33;SB=-578.42 GT:AD:DP:GL:GQ 0/1:27,35:58:-134.38,-17.48,-83.03:99
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chr1 2898708 rs56000855 G T 262.99 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=393.56;QD=10.09;SB=-213.51 GT:AD:DP:GL:GQ 0/1:23,16:38:-54.09,-11.45,-79.61:99
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chr1 2899110 rs16823315 A G 251.56 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.58;MQ=58.82;MQ0=0;OQ=851.48;QD=14.43;SB=-403.32 GT:AD:DP:GL:GQ 0/1:28,31:58:-105.90,-17.47,-115.59:99
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chr1 2899231 rs17391750 G A 437.47 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.91;MQ0=0;OQ=1161.97;QD=13.51;SB=-467.04 GT:AD:DP:GL:GQ 0/1:50,36:85:-145.10,-25.62,-160.28:99
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chr1 2899576 rs4335321 A G 105.18 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=3.09;MQ=58.00;MQ0=0;OQ=946.55;QD=13.52;SB=-144.87 GT:AD:DP:GL:GQ 0/1:37,33:68:-118.42,-20.48,-143.93:99
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chr1 2899597 . A T 1.69 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=3.60;MQ=57.30;MQ0=0;OQ=711.73;QD=11.67;SB=-108.79 GT:AD:DP:GL:GQ 0/1:34,27:58:-91.93,-17.47,-124.49:99
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chr1 2899698 . C A 3.06 PASS AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=964.27;QD=14.39;SB=-495.28 GT:AD:DP:GL:GQ 0/1:34,33:65:-119.29,-19.58,-112.82:99
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chr1 2899893 . T C 127.63 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.77;MQ=59.43;MQ0=0;OQ=700.47;QD=10.61;SB=-280.59 GT:AD:DP:GL:GQ 0/1:36,30:65:-92.92,-19.59,-144.88:99
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chr1 2900185 rs57720952 A G 235.22 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=59.13;MQ0=0;OQ=624.52;QD=11.78;SB=-194.60 GT:AD:DP:GL:GQ 0/1:27,26:53:-81.72,-15.98,-107.90:99
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chr1 2900204 rs58538272 A G 481.46 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.17;MQ0=0;OQ=755.97;QD=13.50;SB=-350.98 GT:AD:DP:GL:GQ 0/1:26,30:55:-95.46,-16.58,-99.09:99
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chr1 2900256 rs60017523 T C 269.60 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=59.37;MQ0=0;OQ=740.61;QD=11.22;SB=-378.62 GT:AD:DP:GL:GQ 0/1:33,33:62:-96.04,-18.69,-126.33:99
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chr1 2901217 rs58445466 T C 331.41 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=47.93;MQ0=0;OQ=860.37;QD=15.36;SB=-212.50 GT:AD:DP:GL:GQ 0/1:26,30:54:-105.58,-16.26,-101.98:99
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chr1 2901454 rs56337009 G A 18.57 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=49.33;MQ0=1;OQ=975.13;QD=34.83;SB=-240.32 GT:AD:DP:GL:GQ 1/1:2,26:25:-101.11,-7.53,-0.01:75.24
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chr1 2902060 rs12022594 C T 230.71 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=3.13;MQ=53.29;MQ0=0;OQ=1320.21;QD=14.67;SB=-682.37 GT:AD:DP:GL:GQ 0/1:48,42:84:-160.62,-25.31,-148.07:99
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chr1 2902087 rs12059864 C T 220.44 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=4.77;MQ=55.08;MQ0=0;OQ=1120.96;QD=14.95;SB=-477.46 GT:AD:DP:GL:GQ 0/1:41,34:69:-136.16,-20.78,-131.24:99
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chr1 2902707 rs10909856 T C 237.57 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=59.08;MQ0=0;OQ=1121.38;QD=13.04;SB=-473.58 GT:AD:DP:GL:GQ 0/1:47,39:85:-141.02,-25.60,-190.53:99
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chr1 2902862 rs12401989 C A 536.26 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=929.32;QD=11.47;SB=-426.42 GT:AD:DP:GL:GQ 0/1:49,32:81:-120.61,-24.40,-176.66:99
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chr1 2903095 rs60435231 A G 179.93 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=2.39;MQ=59.67;MQ0=0;OQ=920.63;QD=13.15;SB=-378.56 GT:AD:DP:GL:GQ 0/1:39,31:70:-116.43,-21.08,-161.00:99
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chr1 2903159 rs59407673 T C 419.08 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=752.64;QD=11.07;SB=-260.51 GT:AD:DP:GL:GQ 0/1:41,27:66:-98.43,-19.88,-155.58:99
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chr1 2903756 . C T 100.01 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=59.38;MQ0=0;OQ=1160.57;QD=15.47;SB=-488.46 GT:AD:DP:GL:GQ 0/1:41,34:75:-141.93,-22.59,-152.72:99
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chr1 2903757 . C T 97.23 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=59.38;MQ0=0;OQ=1040.83;QD=14.07;SB=-405.37 GT:AD:DP:GL:GQ 0/1:41,33:72:-129.05,-21.68,-151.62:99
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chr1 2903785 . C T 13.14 PASS AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=3;HaplotypeScore=0.97;MQ=59.68;MQ0=0;OQ=1201.38;QD=16.69;SB=-623.18 GT:AD:DP:GL:GQ 0/1:36,36:71:-144.81,-21.39,-125.25:99
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chr1 2904148 rs34909435 G C 261.36 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.06;MQ0=0;OQ=923.50;QD=16.20;SB=-375.83 GT:AD:DP:GL:GQ 0/1:30,27:56:-112.51,-16.88,-128.89:99
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chr1 2904478 rs34453862 G T 153.72 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.73;MQ=59.34;MQ0=0;OQ=843.87;QD=14.80;SB=-424.19 GT:AD:DP:GL:GQ 0/1:29,28:55:-104.24,-16.57,-85.73:99
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chr1 2904922 . G A 6.65 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=986.03;QD=18.26;SB=-298.76 GT:AD:DP:GL:GQ 0/1:24,30:53:-117.86,-15.97,-81.07:99
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chr1 2904988 . G T 192.75 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.69;MQ0=0;OQ=850.19;QD=14.17;SB=-430.19 GT:AD:DP:GL:GQ 0/1:30,30:56:-105.17,-16.87,-90.14:99
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chr1 2905123 rs12049173 C A 190.89 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.62;MQ0=0;OQ=810.47;QD=14.22;SB=-367.40 GT:AD:DP:GL:GQ 0/1:30,27:57:-101.50,-17.17,-107.52:99
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chr1 2905133 rs12046411 G A 347.03 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.57;MQ0=0;OQ=1037.17;QD=16.73;SB=-437.83 GT:AD:DP:GL:GQ 0/1:30,32:59:-124.78,-17.78,-92.83:99
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chr1 2905422 rs12049274 C T 603.53 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=930.71;QD=16.05;SB=-490.47 GT:AD:DP:GL:GQ 0/1:30,28:58:-113.82,-17.47,-110.72:99
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chr1 2905744 . G A 180.07 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=873.90;QD=13.87;SB=-441.80 GT:AD:DP:GL:GQ 0/1:36,27:62:-109.35,-18.68,-126.71:99
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chr1 2905997 rs12239064 T G 232.27 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=59.60;MQ0=0;OQ=846.38;QD=14.85;SB=-338.82 GT:AD:DP:GL:GQ 0/1:27,30:56:-104.79,-16.87,-99.38:99
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chr1 2906020 rs12240128 G A 259.44 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=59.61;MQ0=0;OQ=950.01;QD=16.10;SB=-410.72 GT:AD:DP:GL:GQ 0/1:30,29:59:-116.06,-17.77,-109.83:99
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chr1 2906205 . C T 60.99 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=59.51;MQ0=0;OQ=509.22;QD=13.40;SB=-258.23 GT:AD:DP:GL:GQ 0/1:18,20:34:-64.46,-10.25,-58.74:99
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chr1 2906216 rs59653178 T C 119.56 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=2.26;MQ=59.54;MQ0=0;OQ=444.86;QD=10.85;SB=-210.25 GT:AD:DP:GL:GQ 0/1:22,19:37:-58.92,-11.15,-79.90:99
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chr1 2906318 . G C 294.79 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=687.54;QD=14.03;SB=-349.42 GT:AD:DP:GL:GQ 0/1:28,21:48:-86.50,-14.46,-122.06:99
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chr1 2906331 . T C 64.13 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=60.00;MQ0=0;OQ=486.38;QD=9.01;SB=-239.89 GT:AD:DP:GL:GQ 0/1:34,20:53:-67.89,-15.97,-133.79:99
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chr1 2906530 rs16823325 A G 170.42 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.48;MQ0=0;OQ=627.60;QD=14.26;SB=-219.26 GT:AD:DP:GL:GQ 0/1:22,22:44:-79.30,-13.26,-90.47:99
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chr1 2906541 rs57711454 A G 139.66 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.54;MQ0=0;OQ=394.78;QD=7.90;SB=-84.54 GT:AD:DP:GL:GQ 0/1:29,20:47:-56.93,-14.17,-116.48:99
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chr1 2906996 rs10909857 T C 66.55 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=3.62;MQ=57.79;MQ0=0;OQ=652.62;QD=12.31;SB=-287.16 GT:AD:DP:GL:GQ 0/1:27,26:51:-83.92,-15.38,-97.87:99
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chr1 2907051 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=17;HaplotypeScore=24.33;MQ=55.91;MQ0=0;OQ=72.31;QD=0.98;SB=54.68 GT:AD:DP:GL:GQ 0/1:56,17:51:-25.89,-15.37,-146.19:99
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chr1 2907237 rs12025260 T C 432.13 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.22;MQ0=0;OQ=586.66;QD=11.73;SB=-318.24 GT:AD:DP:GL:GQ 0/1:25,25:46:-75.82,-13.87,-89.45:99
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chr1 2907320 rs10797374 C G 183.78 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=56.79;MQ0=0;OQ=866.79;QD=16.35;SB=-401.99 GT:AD:DP:GL:GQ 0/1:26,27:47:-104.13,-14.17,-96.80:99
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chr1 2907323 rs10797375 C T 107.89 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=56.36;MQ0=0;OQ=897.14;QD=16.31;SB=-320.30 GT:AD:DP:GL:GQ 0/1:27,28:53:-108.97,-15.97,-91.39:99
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chr1 2907332 rs10797376 A G 569.46 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.97;MQ0=0;OQ=769.31;QD=13.26;SB=-314.20 GT:AD:DP:GL:GQ 0/1:28,30:54:-96.49,-16.28,-97.60:99
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chr1 2907425 rs17389607 C T 13.36 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=8.86;MQ=57.83;MQ0=0;OQ=822.69;QD=15.82;SB=-373.37 GT:AD:DP:GL:GQ 0/1:24,28:48:-100.02,-14.47,-70.94:99
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chr1 2907558 rs10909859 C T 467.69 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=759.55;QD=17.26;SB=-317.87 GT:AD:DP:GL:GQ 0/1:21,23:40:-91.30,-12.06,-54.32:99
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chr1 2907881 rs56008028 A G 101.20 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.69;MQ=60.00;MQ0=0;OQ=314.58;QD=9.83;SB=-73.78 GT:AD:DP:GL:GQ 0/1:16,16:27:-42.88,-8.14,-52.46:99
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chr1 2908045 rs12562237 C T 38.60 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=3.04;MQ=57.73;MQ0=0;OQ=402.69;QD=12.99;SB=-180.26 GT:AD:DP:GL:GQ 0/1:14,17:26:-51.39,-7.84,-42.83:99
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chr1 2908055 rs3924055 G A 76.12 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=57.57;MQ0=0;OQ=483.15;QD=16.66;SB=-242.76 GT:AD:DP:GL:GQ 0/1:13,16:26:-59.44,-7.84,-34.72:99
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chr1 2908089 rs16823330 C T 124.82 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.14;MQ0=0;OQ=508.46;QD=18.83;SB=-215.91 GT:AD:DP:GL:GQ 0/1:11,16:27:-62.27,-8.14,-34.10:99
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chr1 2908371 . G A 74.23 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.57;MQ0=0;OQ=788.94;QD=18.35;SB=-397.93 GT:AD:DP:GL:GQ 0/1:18,24:36:-93.03,-10.85,-43.26:99
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chr1 2908432 . T C 8.81 PASS AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=56.92;MQ0=0;OQ=358.32;QD=15.58;SB=-114.66 GT:AD:DP:GL:GQ 0/1:9,14:19:-44.84,-5.73,-23.69:99
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chr1 2908471 . G A 46.40 LowQual AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=4.79;MQ=51.77;MQ0=0;QD=1.93;SB=-32.97 GT:AD:DP:GL:GQ 0/1:20,4:22:-14.55,-6.63,-62.87:79.23
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chr1 2908486 . G A 26.78 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=9.20;MQ=53.95;MQ0=0;QD=1.12;SB=-23.58 GT:AD:DP:GL:GQ 0/1:21,3:20:-11.99,-6.02,-60.39:59.60
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chr1 2908487 . G A 23.81 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=9.20;MQ=53.95;MQ0=0;QD=0.99;SB=-23.59 GT:AD:DP:GL:GQ 0/1:21,3:20:-11.69,-6.03,-57.69:56.63
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chr1 2908489 rs7413322 A G 127.27 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=7.20;MQ=53.67;MQ0=0;QD=5.53;SB=-41.81 GT:AD:DP:GL:GQ 0/1:15,7:21:-22.34,-6.33,-53.28:99
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chr1 2908502 . G A 0.58 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=3.89;MQ=54.56;MQ0=0;OQ=132.59;QD=4.28;SB=-84.55 GT:AD:DP:GL:GQ 0/1:22,9:26:-24.37,-7.83,-71.82:99
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chr1 2908503 . G A 2.61 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=3.89;MQ=54.56;MQ0=0;OQ=189.68;QD=6.12;SB=-101.89 GT:AD:DP:GL:GQ 0/1:22,9:28:-30.69,-8.44,-70.32:99
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chr1 2908532 . T C 3.50 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=3.76;MQ=54.67;MQ0=0;OQ=250.55;QD=6.77;SB=-66.91 GT:AD:DP:GL:GQ 0/1:24,13:35:-38.89,-10.55,-92.28:99
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chr1 2908533 . G A 0.93 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=4.66;MQ=54.15;MQ0=0;OQ=217.08;QD=5.71;SB=-54.22 GT:AD:DP:GL:GQ 0/1:25,13:33:-34.93,-9.94,-84.25:99
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chr1 2908644 . G A 90.84 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=1;HaplotypeScore=1.24;MQ=55.47;MQ0=0;OQ=799.27;QD=15.67;SB=-377.10 GT:AD:DP:GL:GQ 0/1:25,26:51:-98.58,-15.37,-88.82:99
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chr1 2908650 . T C 65.40 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=55.56;MQ0=0;OQ=744.55;QD=14.32;SB=-322.26 GT:AD:DP:GL:GQ 0/1:26,26:52:-93.41,-15.67,-101.68:99
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chr1 2908671 . T C 96.67 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=55.57;MQ0=0;OQ=663.38;QD=13.01;SB=-328.92 GT:AD:DP:GL:GQ 0/1:26,25:50:-84.69,-15.07,-101.18:99
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chr1 2908691 rs7524813 A G 287.06 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=53.53;MQ0=0;OQ=655.21;QD=13.10;SB=-352.07 GT:AD:DP:GL:GQ 0/1:22,28:47:-82.98,-14.17,-84.04:99
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chr1 2908767 . C T 11.79 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=50.29;MQ0=0;OQ=630.57;QD=18.02;SB=-203.89 GT:AD:DP:GL:GQ 0/1:14,21:32:-75.99,-9.65,-40.87:99
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chr1 2908798 rs7520336 C T 363.17 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=53.82;MQ0=0;OQ=459.08;QD=13.12;SB=-219.69 GT:AD:DP:GL:GQ 0/1:20,15:31:-58.54,-9.34,-53.07:99
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chr1 2909329 rs6424067 A G 0.51 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=4;HaplotypeScore=3.24;MQ=54.59;MQ0=0;OQ=434.74;QD=9.88;SB=-243.29 GT:AD:DP:GL:GQ 0/1:26,18:41:-59.12,-12.36,-92.44:99
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chr1 2909490 rs12025062 C T 390.05 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.85;MQ0=0;OQ=616.92;QD=11.64;SB=-324.31 GT:AD:DP:GL:GQ 0/1:32,21:52:-80.64,-15.67,-112.78:99
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chr1 2909802 rs12022429 G A 318.87 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=60.00;MQ0=0;OQ=605.69;QD=12.36;SB=-271.15 GT:AD:DP:GL:GQ 0/1:27,22:47:-78.02,-14.16,-93.88:99
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chr1 2909879 rs12025167 C T 200.91 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=4.12;MQ=58.32;MQ0=0;OQ=594.51;QD=15.24;SB=-283.81 GT:AD:DP:GL:GQ 0/1:20,19:35:-73.29,-10.56,-48.45:99
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chr1 2909902 rs12022456 G A 164.15 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=4.51;MQ=58.51;MQ0=0;OQ=722.60;QD=16.42;SB=-335.48 GT:AD:DP:GL:GQ 0/1:20,24:41:-87.91,-12.37,-56.64:99
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chr1 2910018 rs16823332 C T 243.36 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=942.08;QD=19.23;SB=-418.46 GT:AD:DP:GL:GQ 0/1:20,28:45:-111.06,-13.56,-54.54:99
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chr1 2910291 rs12066017 A G 366.01 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=575.67;QD=14.76;SB=-270.53 GT:AD:DP:GL:GQ 0/1:19,20:38:-72.30,-11.45,-69.20:99
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chr1 2911142 . G A 41.67 PASS AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=1;HaplotypeScore=2.51;MQ=59.36;MQ0=0;OQ=1099.50;QD=16.92;SB=-501.68 GT:AD:DP:GL:GQ 0/1:32,33:61:-131.61,-18.38,-102.89:99
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chr1 2911277 . C G 44.53 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.86;MQ=58.95;MQ0=0;OQ=436.44;QD=10.91;SB=-233.06 GT:AD:DP:GL:GQ 0/1:26,14:40:-58.99,-12.06,-109.38:99
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chr1 2911306 . G C 234.71 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.10;MQ0=0;OQ=519.44;QD=14.04;SB=-251.08 GT:AD:DP:GL:GQ 0/1:21,16:36:-66.08,-10.85,-90.14:99
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chr1 2911720 rs16823335 G A 261.73 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=2.20;MQ=59.20;MQ0=0;OQ=681.92;QD=11.76;SB=-297.82 GT:AD:DP:GL:GQ 0/1:33,24:53:-87.45,-15.98,-100.90:99
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chr1 2912187 rs12028094 C T 355.65 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.31;MQ0=0;OQ=839.47;QD=15.55;SB=-427.81 GT:AD:DP:GL:GQ 0/1:28,26:51:-102.60,-15.37,-81.01:99
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chr1 2912604 rs10797377 G A 324.39 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.07;MQ=59.31;MQ0=0;OQ=1121.19;QD=18.38;SB=-566.38 GT:AD:DP:GL:GQ 0/1:27,34:59:-133.18,-17.78,-89.26:99
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chr1 2913061 . G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=14.44;MQ=58.67;MQ0=0;OQ=1557.84;QD=18.11;SB=-803.34 GT:AD:DP:GL:GQ 0/1:39,47:82:-183.77,-24.70,-131.16:99
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chr1 2913244 rs12063869 T A 356.59 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.21;MQ0=0;OQ=1259.24;QD=16.35;SB=-327.01 GT:AD:DP:GL:GQ 0/1:37,40:76:-152.10,-22.89,-141.13:99
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chr1 2913685 . T A 78.15 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=72;Dels=0.01;HRun=7;HaplotypeScore=10.99;MQ=58.04;MQ0=0;QD=1.09;SB=89.27 GT:AD:DP:GL:GQ 0/1:54,17:56:-27.67,-16.57,-168.58:99
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chr1 2914586 rs2889476 T C 86.82 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=59.50;MQ0=0;OQ=1018.41;QD=13.58;SB=-348.57 GT:AD:DP:GL:GQ 0/1:38,37:73:-127.11,-21.99,-156.39:99
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chr1 2915216 . C A 133.06 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=840.99;QD=15.57;SB=-328.03 GT:AD:DP:GL:GQ 0/1:26,28:54:-103.65,-16.27,-91.36:99
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chr1 2915282 rs946175 A G 382.87 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.34;MQ0=0;OQ=951.27;QD=13.59;SB=-404.30 GT:AD:DP:GL:GQ 0/1:37,33:69:-119.20,-20.78,-144.79:99
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chr1 2915357 rs946176 C T 193.41 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=2.81;MQ=60.00;MQ0=0;OQ=877.87;QD=15.14;SB=-352.31 GT:AD:DP:GL:GQ 0/1:30,28:58:-108.55,-17.48,-106.40:99
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chr1 2915382 rs946177 A G 311.86 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=60.00;MQ0=0;OQ=696.00;QD=12.21;SB=-254.19 GT:AD:DP:GL:GQ 0/1:29,28:55:-89.46,-16.58,-112.38:99
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chr1 2916239 rs2027262 T C 443.46 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=530.92;QD=9.65;SB=-168.92 GT:AD:DP:GL:GQ 0/1:28,27:51:-71.75,-15.38,-111.87:99
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chr1 2916397 rs2027263 A G 6.58 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=3;HaplotypeScore=4.33;MQ=58.92;MQ0=0;OQ=1007.60;QD=17.99;SB=-520.31 GT:AD:DP:GL:GQ 0/1:22,34:54:-120.31,-16.27,-82.47:99
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chr1 2916415 rs2027264 G A 412.83 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.63;MQ0=0;OQ=890.12;QD=17.45;SB=-464.45 GT:AD:DP:GL:GQ 0/1:23,27:49:-107.06,-14.77,-75.59:99
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chr1 2916645 . C T 34.34 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=56.98;MQ0=0;OQ=878.75;QD=16.90;SB=-242.23 GT:AD:DP:GL:GQ 0/1:24,28:50:-106.23,-15.07,-83.70:99
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chr1 2916833 rs11802804 T G 172.47 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=4.04;MQ=53.08;MQ0=1;OQ=929.71;QD=12.91;SB=-466.74 GT:AD:DP:GL:GQ 0/1:38,34:69:-117.04,-20.78,-128.73:99
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chr1 2916871 . T G 0.62 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=5.93;MQ=46.04;MQ0=1;OQ=612.93;QD=10.57;SB=-101.87 GT:AD:DP:GL:GQ 0/1:33,25:54:-80.84,-16.27,-108.92:99
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chr1 2916874 . G A 4.25 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=3.93;MQ=45.85;MQ0=1;OQ=812.26;QD=13.32;SB=-234.49 GT:AD:DP:GL:GQ 0/1:33,28:56:-101.38,-16.87,-110.18:99
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chr1 2917035 rs12028439 A G 6.74 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=4.28;MQ=54.23;MQ0=0;OQ=1040.90;QD=18.93;SB=-369.97 GT:AD:DP:GL:GQ 0/1:20,35:53:-123.34,-15.97,-76.66:99
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chr1 2917114 rs12024879 G A 187.61 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.10;MQ=55.08;MQ0=0;OQ=934.32;QD=17.30;SB=-362.51 GT:AD:DP:GL:GQ 0/1:25,29:52:-112.38,-15.67,-83.45:99
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chr1 2917331 rs12027818 C T 143.12 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.51;MQ=58.15;MQ0=1;OQ=1252.97;QD=20.21;SB=-536.07 GT:AD:DP:GL:GQ 0/1:25,37:61:-146.97,-18.38,-79.78:99
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chr1 2917538 rs12027883 C T 346.92 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=58.55;MQ0=0;OQ=1081.24;QD=14.42;SB=-345.82 GT:AD:DP:GL:GQ 0/1:42,33:74:-133.70,-22.29,-151.25:99
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chr1 2918836 rs6681651 C T 64.93 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=60.00;MQ0=0;OQ=454.13;QD=15.66;SB=-29.51 GT:AD:DP:GL:GQ 0/1:13,16:27:-56.83,-8.14,-47.37:99
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chr1 2921187 rs6691208 C A 92.06 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.63;MQ0=0;OQ=715.52;QD=11.36;SB=-355.27 GT:AD:DP:GL:GQ 0/1:37,26:61:-93.21,-18.38,-116.36:99
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chr1 2921274 rs4357486 G C 320.40 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=59.45;MQ0=0;OQ=673.44;QD=16.03;SB=-361.79 GT:AD:DP:GL:GQ 0/1:20,22:41:-83.00,-12.37,-84.03:99
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chr1 2921300 rs4486390 C T 182.10 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=3.96;MQ=59.45;MQ0=0;OQ=737.41;QD=17.56;SB=-360.43 GT:AD:DP:GL:GQ 0/1:18,24:38:-88.48,-11.46,-48.81:99
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chr1 2922007 rs59869348 T C 59.62 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=2.22;MQ=59.22;MQ0=0;OQ=864.59;QD=16.01;SB=-414.28 GT:AD:DP:GL:GQ 0/1:23,31:52:-105.41,-15.67,-90.49:99
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chr1 2922076 rs59041920 C T 58.92 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=4.59;MQ=59.36;MQ0=0;OQ=1222.53;QD=18.81;SB=-446.93 GT:AD:DP:GL:GQ 0/1:26,38:58:-143.01,-17.47,-78.18:99
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chr1 2922420 . C T 142.55 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.39;MQ=58.20;MQ0=0;OQ=828.62;QD=13.81;SB=-355.45 GT:AD:DP:GL:GQ 0/1:34,26:58:-103.62,-17.47,-119.28:99
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chr1 2922927 . A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=1;HaplotypeScore=3.70;MQ=45.44;MQ0=1;OQ=81.65;QD=2.92;SB=-41.94 GT:AD:DP:GL:GQ 0/1:20,8:20:-17.47,-6.02,-59.35:99
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chr1 2923073 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=21;Dels=0.05;HRun=1;HaplotypeScore=30.97;MQ=45.34;MQ0=0;OQ=111.92;QD=5.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,8:13:-18.39,-3.92,-26.21:99
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chr1 2923110 . A C 47.42 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=28.91;MQ=36.30;MQ0=0;QD=3.65;SB=5.05 GT:AD:DP:GL:GQ 0/1:6,4:10:-13.77,-5.74,-26.81:80.25
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chr1 2923762 rs6680573 C G 6.28 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=2;HaplotypeScore=3.37;MQ=60.00;MQ0=0;OQ=313.93;QD=10.46;SB=-109.66 GT:AD:DP:GL:GQ 0/1:20,10:28:-43.13,-8.46,-67.50:99
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chr1 2924595 rs56200661 C T 138.23 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=58.81;MQ0=0;OQ=702.85;QD=18.02;SB=-315.84 GT:AD:DP:GL:GQ 0/1:17,22:37:-84.72,-11.16,-50.65:99
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chr1 2924706 . G A 66.14 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.09;MQ0=0;OQ=681.79;QD=16.63;SB=-295.78 GT:AD:DP:GL:GQ 0/1:19,22:39:-83.22,-11.75,-60.51:99
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chr1 2926246 rs12564456 C G 10.43 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=3;HaplotypeScore=2.61;MQ=58.69;MQ0=0;OQ=646.12;QD=12.92;SB=-206.63 GT:AD:DP:GL:GQ 0/1:26,24:45:-81.49,-13.60,-94.41:99
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chr1 2926340 rs10752732 T C 133.80 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=1.12;MQ=58.78;MQ0=0;OQ=1282.63;QD=33.75;SB=-620.25 GT:AD:DP:GL:GQ 1/1:0,38:38:-131.87,-11.45,-0.02:99
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chr1 2926606 rs55949537 A T 46.15 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=3.14;MQ=59.67;MQ0=0;OQ=1017.41;QD=14.13;SB=-469.52 GT:AD:DP:GL:GQ 0/1:36,35:69:-125.81,-20.79,-130.04:99
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chr1 2926614 rs55784203 G T 254.87 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.49;MQ=59.65;MQ0=0;OQ=972.92;QD=14.31;SB=-412.15 GT:AD:DP:GL:GQ 0/1:33,35:66:-120.46,-19.89,-108.03:99
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chr1 2926663 rs56091202 A G 268.72 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.61;MQ=59.60;MQ0=0;OQ=738.64;QD=12.74;SB=-307.21 GT:AD:DP:GL:GQ 0/1:29,29:57:-94.32,-17.18,-112.23:99
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chr1 2926891 . A G 0.34 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=3;HaplotypeScore=3.44;MQ=59.42;MQ0=0;OQ=538.71;QD=11.22;SB=-143.63 GT:AD:DP:GL:GQ 0/1:27,21:47:-71.31,-14.16,-109.92:99
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chr1 2927088 rs61266721 G A 167.43 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=3.88;MQ=59.23;MQ0=0;OQ=1016.77;QD=16.95;SB=-453.45 GT:AD:DP:GL:GQ 0/1:30,30:57:-122.14,-17.18,-86.53:99
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chr1 2927410 rs12033927 A G 358.86 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=1.45;MQ=59.13;MQ0=0;OQ=706.05;QD=14.71;SB=-368.25 GT:AD:DP:GL:GQ 0/1:23,25:48:-88.35,-14.46,-94.54:99
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chr1 2927411 rs12034794 T G 337.44 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.45;MQ=59.15;MQ0=0;OQ=614.57;QD=12.54;SB=-294.80 GT:AD:DP:GL:GQ 0/1:24,25:47:-78.90,-14.16,-89.23:99
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chr1 2928125 rs4576609 C T 277.54 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=4.12;MQ=57.60;MQ0=0;OQ=875.52;QD=14.35;SB=-423.82 GT:AD:DP:GL:GQ 0/1:31,30:59:-108.62,-17.78,-98.44:99
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chr1 2928429 rs35806103 C T 10.78 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=2.15;MQ=59.80;MQ0=0;OQ=886.08;QD=19.69;SB=-315.84 GT:AD:DP:GL:GQ 0/1:17,27:42:-104.54,-12.65,-59.38:99
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chr1 2928557 rs3795262 T G 88 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.78;MQ0=0;OQ=296.95;QD=7.81;SB=-58.83 GT:AD:DP:GL:GQ 0/1:21,17:33:-42.92,-9.94,-74.02:99
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chr1 2928784 . T G 4.50 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=2;HaplotypeScore=2.61;MQ=58.98;MQ0=0;OQ=615.11;QD=15.00;SB=-301.85 GT:AD:DP:GL:GQ 0/1:17,24:38:-76.24,-11.45,-59.09:99
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chr1 2929872 rs55873718 A G 218.87 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.73;MQ0=0;OQ=845.74;QD=10.07;SB=-404.66 GT:AD:DP:GL:GQ 0/1:48,36:83:-112.88,-25.02,-189.40:99
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chr1 2930858 rs56176404 A G 226.80 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.44;MQ0=0;OQ=1022.49;QD=13.82;SB=-491.10 GT:AD:DP:GL:GQ 0/1:38,36:73:-127.52,-21.99,-154.69:99
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chr1 2932289 rs55885250 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.04;HRun=0;HaplotypeScore=32.21;MQ=45.88;MQ0=1;OQ=148.06;QD=1.90;SB=104.37 GT:AD:DP:GL:GQ 0/1:58,16:68:-38.29,-20.20,-216.63:99
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chr1 2932299 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=92;Dels=0.02;HRun=0;HaplotypeScore=97.52;MQ=43.85;MQ0=0;OQ=59.90;QD=0.65;SB=104.31 GT:AD:DP:GL:GQ 0/1:78,12:69:-29.77,-20.49,-208.32:92.74
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chr1 2932325 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=91;Dels=0.02;HRun=1;HaplotypeScore=195.32;MQ=42.40;MQ0=0;OQ=612.63;QD=6.73;SB=-162.19 GT:AD:DP:GL:GQ 0/1:51,38:73:-86.24,-21.70,-183.14:99
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chr1 2932341 . A G 250.48 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=1;HaplotypeScore=40.55;MQ=40.81;MQ0=0;QD=2.04;SB=89.32 GT:AD:DP:GL:GQ 0/1:96,27:107:-60.57,-32.24,-364.33:99
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chr1 2932343 . G A 487.06 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=123;Dels=0.01;HRun=0;HaplotypeScore=44.00;MQ=40.81;MQ0=0;QD=3.96;SB=58.75 GT:AD:DP:GL:GQ 0/1:99,23:108:-84.22,-32.23,-314.56:99
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chr1 2932349 . G A 708.07 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=122;Dels=0.00;HRun=1;HaplotypeScore=35.72;MQ=40.62;MQ0=0;QD=5.80;SB=89.29 GT:AD:DP:GL:GQ 0/1:95,27:119:-109.94,-35.84,-335.64:99
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chr1 2932354 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=126;Dels=0.00;HRun=0;HaplotypeScore=77.99;MQ=40.25;MQ0=0;OQ=691.65;QD=5.49;SB=86.28 GT:AD:DP:GL:GQ 0/1:97,29:123:-109.51,-37.06,-349.27:99
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chr1 2932376 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=2;HaplotypeScore=11.36;MQ=39.42;MQ0=0;OQ=679.31;QD=5.27;SB=92.31 GT:AD:DP:GL:GQ 0/1:96,32:117:-106.47,-35.26,-303.35:99
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chr1 2932379 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=125;Dels=0.01;HRun=1;HaplotypeScore=36.27;MQ=39.15;MQ0=0;OQ=716.76;QD=5.73;SB=92.27 GT:AD:DP:GL:GQ 0/1:94,28:121:-111.11,-36.16,-333.12:99
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chr1 2932387 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=0;HaplotypeScore=36.67;MQ=38.20;MQ0=0;OQ=140.95;QD=1.25;SB=77.24 GT:AD:DP:GL:GQ 0/1:93,19:101:-47.83,-30.45,-304.67:99
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chr1 2932417 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=80.35;MQ=36.74;MQ0=0;OQ=291.45;QD=2.83;SB=86.26 GT:AD:DP:GL:GQ 0/1:76,27:77:-55.63,-23.21,-217.09:99
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chr1 2932437 . G A 14.74 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=80.96;MQ=35.05;MQ0=0;QD=0.16;SB=80.26 GT:AD:DP:GL:GQ 0/1:79,12:67:-24.93,-20.19,-214.14:47.43
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chr1 2932441 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=78.31;MQ=34.28;MQ0=0;OQ=251.61;QD=2.83;SB=77.24 GT:AD:DP:GL:GQ 0/1:70,19:66:-48.33,-19.89,-185.59:99
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chr1 2932450 rs55992205 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=52.98;MQ=32.53;MQ0=0;OQ=616.18;QD=7.16;SB=92.26 GT:AD:DP:GL:GQ 0/1:64,22:76:-87.80,-22.90,-186.06:99
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chr1 2932474 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=98;Dels=0.05;HRun=0;HaplotypeScore=121.87;MQ=31.47;MQ0=0;OQ=770.86;QD=7.87;SB=104.31 GT:AD:DP:GL:GQ 0/1:66,27:80:-104.48,-24.11,-189.46:99
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chr1 2932495 . A G 458.76 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=1;HaplotypeScore=104.10;MQ=35.05;MQ0=0;QD=4.59;SB=98.32 GT:AD:DP:GL:GQ 0/1:77,23:78:-72.67,-23.51,-220.09:99
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chr1 2932498 . G A 771.99 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=0;HaplotypeScore=85.95;MQ=35.28;MQ0=0;QD=8.04;SB=59.63 GT:AD:DP:GL:GQ 0/1:70,26:76:-103.38,-22.90,-174.72:99
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chr1 2932501 . G A 15.55 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=78.10;MQ=36.15;MQ0=0;QD=0.16;SB=-7.88 GT:AD:DP:GL:GQ 0/1:82,13:64:-24.12,-19.29,-198.59:48.26
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chr1 2932516 . A G 437.11 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=100;Dels=0.02;HRun=2;HaplotypeScore=90.55;MQ=38.01;MQ0=0;QD=4.37;SB=68.24 GT:AD:DP:GL:GQ 0/1:78,20:76:-69.30,-22.30,-207.20:99
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chr1 2932519 . A G 420.64 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=1;HaplotypeScore=127.72;MQ=37.64;MQ0=1;QD=3.72;SB=86.29 GT:AD:DP:GL:GQ 0/1:90,23:88:-71.87,-26.52,-261.50:99
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chr1 2932522 . A G 354.05 SnpCluster AC=1;AF=0.50;AN=2;DP=116;Dels=0.02;HRun=1;HaplotypeScore=155.74;MQ=37.22;MQ0=2;QD=3.05;SB=-178.30 GT:AD:DP:GL:GQ 0/1:89,24:100:-68.22,-29.53,-308.19:99
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chr1 2932531 . G A 40.28 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=127;Dels=0.02;HRun=0;HaplotypeScore=95.96;MQ=37.07;MQ0=3;QD=0.32;SB=-35.75 GT:AD:DP:GL:GQ 0/1:114,11:85:-32.32,-25.01,-255.84:73.11
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chr1 2932543 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=125;Dels=0.00;HRun=0;HaplotypeScore=90.42;MQ=36.51;MQ0=3;OQ=448.17;QD=3.59;SB=-29.75 GT:AD:DP:GL:GQ 0/1:94,23:99:-91.60,-43.50,-272.82:99
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chr1 2932549 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=1;HaplotypeScore=106.24;MQ=36.58;MQ0=3;OQ=776.41;QD=6.81;SB=20.21 GT:AD:DP:GL:GQ 0/1:80,34:91:-108.36,-27.43,-223.52:99
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chr1 2932558 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=0;HaplotypeScore=87.01;MQ=36.91;MQ0=2;OQ=55.94;QD=0.53;SB=50.16 GT:AD:DP:GL:GQ 0/1:89,16:77:-32.08,-23.20,-238.58:88.78
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chr1 2932594 . A G 95.90 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=101;Dels=0.01;HRun=2;HaplotypeScore=79.79;MQ=37.41;MQ0=0;QD=0.95;SB=41.16 GT:AD:DP:GL:GQ 0/1:85,15:78:-36.37,-23.50,-267.93:99
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chr1 2932595 . G T 858.77 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=99;Dels=0.01;HRun=0;HaplotypeScore=92.92;MQ=37.56;MQ0=0;QD=8.67;SB=50.17 GT:AD:DP:GL:GQ 0/1:57,41:82:-113.86,-24.70,-181.24:99
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chr1 2932597 . A G 613.75 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=100;Dels=0.01;HRun=2;HaplotypeScore=83.48;MQ=37.85;MQ0=0;QD=6.14;SB=53.19 GT:AD:DP:GL:GQ 0/1:69,29:84:-89.97,-25.31,-224.02:99
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chr1 2932647 . A G 424.25 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=1;HaplotypeScore=36.34;MQ=40.26;MQ0=1;QD=3.82;SB=65.23 GT:AD:DP:GL:GQ 0/1:87,24:95:-74.33,-28.62,-285.65:99
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chr1 2932650 . G A 15.47 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=0;HaplotypeScore=35.26;MQ=39.92;MQ0=1;QD=0.13;SB=83.21 GT:AD:DP:GL:GQ 0/1:106,9:104:-36.16,-31.34,-318.46:48.18
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chr1 2932656 . G A 597.61 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=0;HaplotypeScore=41.23;MQ=39.70;MQ0=1;QD=5.24;SB=83.24 GT:AD:DP:GL:GQ 0/1:85,29:104:-94.39,-31.34,-268.84:99
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chr1 2932671 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=1;HaplotypeScore=55.64;MQ=38.11;MQ0=1;OQ=790.23;QD=6.17;SB=74.25 GT:AD:DP:GL:GQ 0/1:94,34:113:-116.34,-34.04,-292.03:99
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chr1 2932680 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=0;HaplotypeScore=32.69;MQ=37.68;MQ0=1;OQ=1237.37;QD=9.67;SB=74.20 GT:AD:DP:GL:GQ 0/1:85,43:122:-163.79,-36.76,-270.86:99
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chr1 2932682 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=0;HaplotypeScore=26.80;MQ=37.61;MQ0=1;OQ=704.94;QD=5.42;SB=71.27 GT:AD:DP:GL:GQ 0/1:103,27:122:-110.54,-36.77,-411.49:99
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chr1 2932721 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=36.50;MQ=39.93;MQ0=0;OQ=181.45;QD=1.51;SB=92.30 GT:AD:DP:GL:GQ 0/1:93,27:104:-52.76,-31.33,-321.47:99
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chr1 2932727 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=27.86;MQ=40.16;MQ0=0;OQ=588.52;QD=5.35;SB=83.30 GT:AD:DP:GL:GQ 0/1:83,27:109:-94.97,-32.83,-329.92:99
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chr1 2932738 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=1;HaplotypeScore=39.11;MQ=39.53;MQ0=0;OQ=873.00;QD=7.94;SB=74.25 GT:AD:DP:GL:GQ 0/1:74,36:108:-123.12,-32.54,-289.99:99
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chr1 2932769 . G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=7.13;MQ=40.78;MQ0=0;OQ=619.13;QD=6.59;SB=56.17 GT:AD:DP:GL:GQ 0/1:71,23:91:-92.61,-27.42,-231.77:99
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chr1 2933043 rs7412983 A C 563.74 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=861.61;QD=12.67;SB=-438.69 GT:AD:DP:GL:GQ 0/1:37,31:65:-109.02,-19.58,-126.93:99
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chr1 2933258 rs58265521 C A 261.91 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.98;MQ=59.67;MQ0=0;OQ=928.26;QD=16.29;SB=-439.21 GT:AD:DP:GL:GQ 0/1:24,33:53:-112.08,-15.97,-65.68:99
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chr1 2933528 rs60287244 A G 23.05 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=7.04;MQ=58.03;MQ0=0;OQ=739.69;QD=12.98;SB=-372.23 GT:AD:DP:GL:GQ 0/1:30,27:55:-93.82,-16.57,-116.71:99
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chr1 2933898 rs12034766 A G 35.30 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=3;HaplotypeScore=1.69;MQ=58.27;MQ0=0;OQ=600.73;QD=11.12;SB=-275.56 GT:AD:DP:GL:GQ 0/1:26,28:51:-78.73,-15.38,-104.98:99
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chr1 2933946 rs12033401 C T 155.60 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=3.82;MQ=57.46;MQ0=0;OQ=525.20;QD=14.19;SB=-282.22 GT:AD:DP:GL:GQ 0/1:16,21:31:-65.15,-9.35,-44.32:99
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chr1 2934531 rs57893585 T A 124.36 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.24;MQ0=0;OQ=372.99;QD=15.54;SB=-168.83 GT:AD:DP:GL:GQ 0/1:10,14:21:-46.91,-6.33,-28.06:99
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chr1 2935764 rs12035292 C T 0.26 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=10.18;MQ=43.51;MQ0=2;OQ=248.84;QD=4.70;SB=-149.59 GT:AD:DP:GL:GQ 0/1:30,23:31:-37.51,-9.34,-74.68:99
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chr1 2935800 rs6693975 G A 0.65 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=6.49;MQ=45.50;MQ0=1;OQ=189.85;QD=4.75;SB=-111.56 GT:AD:DP:GL:GQ 0/1:24,16:23:-29.21,-6.94,-45.54:99
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chr1 2935836 rs6693982 G A 38.33 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=2.48;MQ=49.72;MQ0=2;OQ=286.18;QD=6.36;SB=-139.13 GT:AD:DP:GL:GQ 0/1:25,20:29:-40.65,-8.75,-58.79:99
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chr1 2936586 rs12038530 T A 386.33 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=538.23;QD=11.21;SB=-193.51 GT:AD:DP:GL:GQ 0/1:29,19:46:-70.96,-13.86,-104.56:99
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chr1 2937616 rs12037307 C A 453.51 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=785.06;QD=15.10;SB=-326.01 GT:AD:DP:GL:GQ 0/1:25,27:52:-97.46,-15.67,-88.48:99
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chr1 2937769 rs12039548 T C 374.78 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.69;MQ=59.62;MQ0=0;OQ=1018.45;QD=16.97;SB=-485.32 GT:AD:DP:GL:GQ 0/1:25,35:58:-122.60,-17.48,-90.45:99
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chr1 2937880 rs12034573 G A 539.50 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.97;MQ0=0;OQ=601.18;QD=13.36;SB=-263.26 GT:AD:DP:GL:GQ 0/1:25,20:44:-76.67,-13.27,-77.09:99
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chr1 2938038 rs10909864 T C 31.93 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=3.17;MQ=58.15;MQ0=0;OQ=603.85;QD=12.58;SB=-301.61 GT:AD:DP:GL:GQ 0/1:20,28:44:-76.94,-13.27,-79.42:99
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chr1 2938888 rs1890338 C T 331.53 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.34;MQ=59.50;MQ0=0;OQ=622.92;QD=13.54;SB=-315.86 GT:AD:DP:GL:GQ 0/1:22,23:40:-77.64,-12.06,-61.98:99
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chr1 2939215 rs12039132 C T 18.71 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.11;MQ=58.67;MQ0=0;OQ=590.59;QD=16.87;SB=-94.60 GT:AD:DP:GL:GQ 0/1:16,19:32:-71.99,-9.65,-41.59:99
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chr1 2939467 rs7514166 G C 161.11 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=58.11;MQ0=0;OQ=380.76;QD=10.29;SB=-57.73 GT:AD:DP:GL:GQ 0/1:23,14:34:-51.61,-10.25,-87.39:99
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chr1 2939859 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=9;HaplotypeScore=3.75;MQ=51.46;MQ0=0;OQ=333.21;QD=11.49;SB=-54.83 GT:AD:DP:GL:GQ 0/1:17,12:25:-44.15,-7.55,-58.82:99
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chr1 2939927 rs34408665 T C 431.23 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.91;MQ0=0;OQ=752.79;QD=11.76;SB=-348.05 GT:AD:DP:GL:GQ 0/1:32,32:61:-96.95,-18.39,-123.70:99
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chr1 2939954 rs58052947 T C 258.56 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.29;MQ=58.84;MQ0=0;OQ=891.02;QD=13.92;SB=-428.88 GT:AD:DP:GL:GQ 0/1:28,36:63:-111.38,-19.00,-108.25:99
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chr1 2940097 rs56398543 G A 185.44 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=57.77;MQ0=0;OQ=622.10;QD=14.81;SB=-266.78 GT:AD:DP:GL:GQ 0/1:21,21:40:-77.55,-12.06,-68.06:99
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chr1 2940194 rs6661908 G A 424.22 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.03;MQ0=0;OQ=1140.17;QD=20.00;SB=-442.95 GT:AD:DP:GL:GQ 0/1:24,33:57:-134.47,-17.17,-86.30:99
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chr1 2940230 rs41334845 G T 113.62 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.36;MQ0=0;OQ=1373.67;QD=21.13;SB=-590.07 GT:AD:DP:GL:GQ 0/1:21,44:63:-159.63,-18.98,-64.63:99
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chr1 2940454 rs6679678 T C 216.89 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=60.00;MQ0=0;OQ=522.35;QD=9.16;SB=-250.32 GT:AD:DP:GL:GQ 0/1:31,26:48:-69.99,-14.47,-101.54:99
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chr1 2940732 rs12042403 T C 312.83 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=888.06;QD=12.51;SB=-433.91 GT:AD:DP:GL:GQ 0/1:39,32:70:-113.18,-21.09,-157.81:99
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chr1 2940746 rs12041583 A G 452.19 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=809.95;QD=12.27;SB=-418.24 GT:AD:DP:GL:GQ 0/1:35,31:63:-103.26,-18.98,-134.35:99
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chr1 2940894 rs12041634 A T 208.26 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=886.35;QD=14.77;SB=-371.51 GT:AD:DP:GL:GQ 0/1:30,30:60:-110.00,-18.08,-114.34:99
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chr1 2940901 rs12040299 C T 487.76 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=953.57;QD=15.63;SB=-409.79 GT:AD:DP:GL:GQ 0/1:31,30:60:-116.73,-18.09,-97.56:99
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chr1 2941104 rs10489589 T C 232.05 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=59.67;MQ0=0;OQ=498.13;QD=8.90;SB=-202.46 GT:AD:DP:GL:GQ 0/1:33,23:54:-69.37,-16.27,-132.36:99
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chr1 2941207 . G A 104.13 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=59.25;MQ0=0;OQ=904.38;QD=16.15;SB=-378.12 GT:AD:DP:GL:GQ 0/1:27,29:55:-110.29,-16.57,-94.24:99
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chr1 2941209 . T C 102.69 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=59.25;MQ0=0;OQ=663.66;QD=11.85;SB=-280.62 GT:AD:DP:GL:GQ 0/1:26,30:53:-85.63,-15.98,-103.85:99
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chr1 2941371 rs12408197 C T 428.36 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=717.16;QD=12.36;SB=-246.23 GT:AD:DP:GL:GQ 0/1:33,25:52:-90.68,-15.68,-91.34:99
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chr1 2941666 . T C 142.44 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.70;MQ0=0;OQ=433.61;QD=8.50;SB=-223.24 GT:AD:DP:GL:GQ 0/1:30,21:49:-61.42,-14.77,-117.95:99
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chr1 2941694 rs10489588 G A 184.48 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.01;MQ=58.17;MQ0=0;OQ=458.21;QD=8.98;SB=-152.21 GT:AD:DP:GL:GQ 0/1:34,17:47:-63.28,-14.17,-98.47:99
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chr1 2941849 . C T 36.18 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=3.75;MQ=59.44;MQ0=0;OQ=1385.60;QD=18.72;SB=-578.48 GT:AD:DP:GL:GQ 0/1:29,44:70:-162.94,-21.10,-91.88:99
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chr1 2942163 rs2017600 A C 566.08 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=2376.48;QD=32.55;SB=-930.21 GT:AD:DP:GL:GQ 1/1:0,72:69:-241.26,-20.78,-0.03:99
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chr1 2942474 rs1005471 T C 5.22 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=4;HaplotypeScore=1.12;MQ=60.00;MQ0=0;OQ=441.09;QD=10.02;SB=-191.58 GT:AD:DP:GL:GQ 0/1:27,17:44:-60.65,-13.26,-106.56:99
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chr1 2942683 rs9660819 C T 0.66 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=5.17;MQ=58.20;MQ0=0;OQ=155.13;QD=5.97;SB=-65.81 GT:AD:DP:GL:GQ 0/1:19,7:24:-26.03,-7.23,-63.04:99
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chr1 2942700 rs9661525 T G 36.57 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=59.11;MQ0=0;OQ=126.09;QD=4.85;SB=-19.97 GT:AD:DP:GL:GQ 0/1:19,7:25:-23.42,-7.53,-64.66:99
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chr1 2943003 . G A 0.16 PASS AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=2;HaplotypeScore=0.67;MQ=59.14;MQ0=0;OQ=556.71;QD=20.62;SB=-180.72 GT:AD:DP:GL:GQ 0/1:10,17:27:-67.10,-8.14,-31.23:99
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chr1 2943693 rs16823392 C G 180.70 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.22;MQ=57.09;MQ0=0;OQ=626.82;QD=16.07;SB=-312.19 GT:AD:DP:GL:GQ 0/1:21,18:38:-77.42,-11.46,-83.70:99
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chr1 2943891 . A G 12.02 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=1;HaplotypeScore=2.00;MQ=54.82;MQ0=0;OQ=422.22;QD=8.28;SB=-205.52 GT:AD:DP:GL:GQ 0/1:33,18:49:-60.27,-14.76,-127.83:99
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chr1 2943911 . C T 10.41 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=2.91;MQ=52.84;MQ0=0;QD=0.25;SB=11.05 GT:AD:DP:GL:GQ 0/1:24,17:24:-11.53,-7.24,-65.03:42.84
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chr1 2943915 . A G 396.79 SnpCluster AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=3;HaplotypeScore=1.74;MQ=53.20;MQ0=0;QD=9.23;SB=-114.71 GT:AD:DP:GL:GQ 0/1:25,18:39:-54.71,-11.75,-89.79:99
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chr1 2943921 . G A 412.53 SnpCluster AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=53.30;MQ0=0;QD=10.31;SB=-110.52 GT:AD:DP:GL:GQ 0/1:23,17:37:-55.69,-11.15,-76.61:99
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chr1 2943983 . T C 18.12 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.49;MQ=57.65;MQ0=0;OQ=359.40;QD=9.46;SB=-125.65 GT:AD:DP:GL:GQ 0/1:21,17:36:-50.07,-10.85,-82.05:99
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chr1 2944025 . C T 103.45 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=58.94;MQ0=0;OQ=634.89;QD=13.23;SB=-327.90 GT:AD:DP:GL:GQ 0/1:27,21:45:-80.34,-13.56,-81.81:99
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chr1 2944063 . C T 0.51 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=4;HaplotypeScore=2.62;MQ=59.46;MQ0=0;OQ=776.27;QD=15.22;SB=-389.17 GT:AD:DP:GL:GQ 0/1:26,25:47:-95.07,-14.16,-76.30:99
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chr1 2944068 . G A 119.57 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.51;MQ=59.46;MQ0=0;OQ=782.48;QD=15.34;SB=-373.90 GT:AD:DP:GL:GQ 0/1:25,26:49:-96.29,-14.76,-89.91:99
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chr1 2944090 . T C 3.70 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=2;HaplotypeScore=2.56;MQ=59.48;MQ0=0;OQ=656.17;QD=12.38;SB=-215.36 GT:AD:DP:GL:GQ 0/1:27,26:49:-83.67,-14.77,-97.10:99
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chr1 2944157 . T C 29.83 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=59.30;MQ0=0;OQ=936.38;QD=15.61;SB=-205.50 GT:AD:DP:GL:GQ 0/1:27,33:58:-114.40,-17.47,-101.34:99
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chr1 2944208 rs4996810 A C 0.07 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=3.45;MQ=56.26;MQ0=1;OQ=219.14;QD=3.48;SB=-132.81 GT:AD:DP:GL:GQ 0/1:47,15:56:-42.07,-16.87,-150.42:99
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chr1 2944226 . G A 136.97 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.40;MQ0=1;OQ=501.67;QD=8.36;SB=-261.69 GT:AD:DP:GL:GQ 0/1:41,19:55:-70.03,-16.58,-122.86:99
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chr1 2944238 . T C 5.54 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=54.51;MQ0=0;OQ=327.91;QD=6.43;SB=-156.50 GT:AD:DP:GL:GQ 0/1:37,14:48:-50.53,-14.46,-136.22:99
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chr1 2944239 . T C 1.08 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=4.23;MQ=54.83;MQ0=0;OQ=279.86;QD=5.18;SB=-104.43 GT:AD:DP:GL:GQ 0/1:40,14:49:-46.04,-14.77,-139.11:99
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chr1 2945018 rs12036378 G A 163.77 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=59.58;MQ0=0;OQ=895.36;QD=16.28;SB=-275.78 GT:AD:DP:GL:GQ 0/1:27,28:53:-108.80,-15.98,-79.65:99
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chr1 2945105 rs55863899 C G 134.28 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.52;MQ0=0;OQ=868.77;QD=18.10;SB=-284.96 GT:AD:DP:GL:GQ 0/1:21,27:46:-104.04,-13.88,-85.12:99
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chr1 2945790 . A G 4.08 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=57.28;MQ0=0;OQ=318.97;QD=15.19;SB=-83.80 GT:AD:DP:GL:GQ 0/1:8,13:20:-41.21,-6.03,-32.48:99
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chr1 2946023 rs10909865 A G 147.02 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.15;MQ=60.00;MQ0=0;OQ=547.73;QD=10.74;SB=-195.64 GT:AD:DP:GL:GQ 0/1:24,27:47:-72.23,-14.17,-93.16:99
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chr1 2946442 . A G 66.31 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.61;MQ0=0;OQ=798.37;QD=10.79;SB=-385.01 GT:AD:DP:GL:GQ 0/1:39,35:70:-104.22,-21.10,-152.02:99
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chr1 2946526 rs2993510 T C 256.19 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=59.44;MQ0=0;OQ=807.53;QD=9.73;SB=-328.89 GT:AD:DP:GL:GQ 0/1:47,36:81:-108.45,-24.41,-191.18:99
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chr1 2946859 rs12567620 T G 251.94 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.22;MQ0=0;OQ=588.28;QD=9.97;SB=-221.33 GT:AD:DP:GL:GQ 0/1:35,23:57:-79.28,-17.17,-127.60:99
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chr1 2947460 rs12409277 T C 554.91 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1261.63;QD=14.67;SB=-598.55 GT:AD:DP:GL:GQ 0/1:39,47:86:-155.36,-25.92,-158.90:99
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chr1 2948421 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=83;Dels=0.02;HRun=17;HaplotypeScore=13.52;MQ=50.26;MQ0=0;OQ=57.24;QD=0.69;SB=67.75 GT:AD:DP:GL:GQ 0/1:69,12:60:-26.49,-17.48,-170.55:90.07
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chr1 2948568 rs12044162 A G 115.23 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=57.63;MQ0=0;OQ=498.67;QD=9.23;SB=-105.58 GT:AD:DP:GL:GQ 0/1:33,21:52:-68.82,-15.67,-126.86:99
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chr1 2949062 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=21.05;MQ=49.42;MQ0=0;OQ=103.70;QD=2.53;SB=-31.97 GT:AD:DP:GL:GQ 0/1:35,6:34:-23.91,-10.25,-88.62:99
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chr1 2949076 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=103.01;MQ=49.60;MQ0=0;OQ=345.15;QD=7.50;SB=-146.53 GT:AD:DP:GL:GQ 0/1:33,13:40:-49.87,-12.07,-111.45:99
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chr1 2949080 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=47.15;MQ=49.74;MQ0=0;OQ=115.37;QD=2.35;SB=-79.50 GT:AD:DP:GL:GQ 0/1:37,11:45:-31.37,-16.54,-140.93:99
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chr1 2949088 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=39.37;MQ=50.39;MQ0=0;OQ=395.27;QD=7.60;SB=-176.85 GT:AD:DP:GL:GQ 0/1:38,14:46:-56.68,-13.87,-100.52:99
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chr1 2949107 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=4.13;MQ=51.92;MQ0=0;OQ=58.43;QD=0.96;SB=-33.78 GT:AD:DP:GL:GQ 0/1:53,8:55:-25.70,-16.57,-188.08:91.26
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chr1 2949470 rs6692292 T C 310.38 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=58.36;MQ0=0;OQ=1146.89;QD=15.93;SB=-322.30 GT:AD:DP:GL:GQ 0/1:33,39:71:-139.36,-21.39,-132.11:99
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chr1 2949881 rs56213325 G A 8.56 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=3;HaplotypeScore=3.87;MQ=58.97;MQ0=0;OQ=1032.99;QD=16.40;SB=-387.12 GT:AD:DP:GL:GQ 0/1:30,33:61:-124.96,-18.37,-109.42:99
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chr1 2950052 rs12045368 A G 278.87 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=53.32;MQ0=0;OQ=936.38;QD=14.41;SB=-275.26 GT:AD:DP:GL:GQ 0/1:28,37:62:-115.61,-18.69,-106.66:99
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chr1 2950232 rs10909866 C T 182.72 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=57.68;MQ0=0;OQ=969.99;QD=15.90;SB=-309.81 GT:AD:DP:GL:GQ 0/1:32,29:61:-118.67,-18.38,-109.12:99
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chr1 2950468 rs12046233 A G 39.17 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=2.71;MQ=59.23;MQ0=0;OQ=754.54;QD=12.58;SB=-279.44 GT:AD:DP:GL:GQ 0/1:30,30:55:-95.31,-16.57,-110.00:99
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chr1 2950650 rs12044848 C T 194.31 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.40;MQ=59.52;MQ0=0;OQ=784.81;QD=16.35;SB=-285.29 GT:AD:DP:GL:GQ 0/1:24,24:47:-95.92,-14.16,-84.23:99
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chr1 2950883 . C A 3.38 PASS AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=1;HaplotypeScore=2.94;MQ=60.00;MQ0=0;OQ=1395.15;QD=16.81;SB=-283.26 GT:AD:DP:GL:GQ 0/1:36,46:82:-170.17,-27.37,-127.09:99
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chr1 2951230 rs56088946 T C 7.58 PASS AC=1;AF=0.50;AN=2;DB;DP=119;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=59.61;MQ0=0;OQ=1944.95;QD=16.34;SB=-964.49 GT:AD:DP:GL:GQ 0/1:53,66:118:-233.32,-35.54,-213.54:99
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chr1 2951262 rs10909867 G T 333.68 PASS AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=59.76;MQ0=0;OQ=1581.91;QD=16.48;SB=-612.08 GT:AD:DP:GL:GQ 0/1:44,52:95:-190.09,-28.61,-155.75:99
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chr1 2952067 rs10909868 A C 183.71 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=60.00;MQ0=0;OQ=929.11;QD=14.75;SB=-149.21 GT:AD:DP:GL:GQ 0/1:29,34:62:-114.87,-18.67,-108.28:99
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chr1 2952085 rs12048975 T C 158.31 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=956.32;QD=14.94;SB=-180.58 GT:AD:DP:GL:GQ 0/1:30,34:62:-117.59,-18.68,-121.18:99
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chr1 2952452 rs2981859 G A 525.66 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=2597.04;QD=39.95;SB=-874.18 GT:AD:DP:GL:GQ 1/1:0,65:65:-263.30,-19.58,-0.02:99
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chr1 2953353 rs7339938 G C 184.28 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1644.05;QD=21.35;SB=-832.89 GT:AD:DP:GL:GQ 0/1:34,43:75:-190.30,-22.61,-128.08:99
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chr1 2954257 rs12044831 A C 328.96 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.75;MQ0=0;OQ=969.03;QD=12.75;SB=-480.26 GT:AD:DP:GL:GQ 0/1:35,41:74:-122.48,-22.29,-132.71:99
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chr1 2956899 rs2993479 A T 39.42 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=7.90;MQ=58.88;MQ0=0;OQ=639.75;QD=11.85;SB=-334.02 GT:AD:DP:GL:GQ 0/1:32,22:53:-83.22,-15.96,-119.83:99
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chr1 2958839 . C T 167.01 PASS AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.03;MQ0=0;OQ=1118.18;QD=16.69;SB=-463.99 GT:AD:DP:GL:GQ 0/1:31,36:62:-133.80,-18.70,-86.01:99
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chr1 2958843 . G C 98.75 PASS AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.25;MQ=58.98;MQ0=0;OQ=1122.63;QD=17.54;SB=-409.32 GT:AD:DP:GL:GQ 0/1:29,34:58:-133.03,-17.49,-113.54:99
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chr1 2960143 rs56298939 A T 308.60 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.67;MQ0=0;OQ=788.46;QD=14.08;SB=-295.64 GT:AD:DP:GL:GQ 0/1:29,27:56:-99.00,-16.87,-109.64:99
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chr1 2960324 rs717795 T C 9.89 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=3;HaplotypeScore=2.74;MQ=59.13;MQ0=0;OQ=443.35;QD=8.37;SB=-240.88 GT:AD:DP:GL:GQ 0/1:32,21:49:-62.39,-14.77,-120.82:99
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chr1 2961312 rs56069604 T C 18.15 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=3;HaplotypeScore=0.73;MQ=58.64;MQ0=0;OQ=450.45;QD=14.53;SB=-212.67 GT:AD:DP:GL:GQ 0/1:13,18:29:-57.07,-8.74,-51.18:99
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chr1 2961381 rs2981857 T C 166.54 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.57;MQ=60.00;MQ0=0;OQ=428.10;QD=15.29;SB=-207.68 GT:AD:DP:GL:GQ 0/1:10,18:28:-54.54,-8.45,-38.77:99
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chr1 2962384 rs2981856 T C 282.12 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.73;MQ0=0;OQ=862.73;QD=12.32;SB=-362.96 GT:AD:DP:GL:GQ 0/1:34,36:67:-109.75,-20.19,-134.76:99
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chr1 2963182 rs2993480 C T 393.42 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=959.18;QD=15.72;SB=-400.92 GT:AD:DP:GL:GQ 0/1:31,30:60:-117.29,-18.09,-96.43:99
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chr1 2963293 rs2993481 A T 141.58 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=2.01;MQ=59.62;MQ0=0;OQ=743.23;QD=12.39;SB=-349.56 GT:AD:DP:GL:GQ 0/1:34,26:58:-95.08,-17.48,-119.69:99
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chr1 2963436 rs1109251 G A 197.81 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=1.34;MQ=60.00;MQ0=0;OQ=932.59;QD=15.04;SB=-469.42 GT:AD:DP:GL:GQ 0/1:34,28:62:-115.22,-18.68,-120.45:99
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chr1 2963924 . A G 132.32 PASS AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.54;MQ0=0;OQ=1229.61;QD=13.51;SB=-579.93 GT:AD:DP:GL:GQ 0/1:47,44:90:-153.35,-27.11,-189.83:99
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chr1 2964602 rs1125017 A C 413.02 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=60.00;MQ0=0;OQ=773.70;QD=11.90;SB=-364.77 GT:AD:DP:GL:GQ 0/1:35,30:63:-99.63,-18.98,-121.64:99
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chr1 2964712 rs2376821 T C 458.38 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.91;MQ0=0;OQ=2329.60;QD=30.25;SB=-1071.67 GT:AD:DP:GL:GQ 1/1:0,77:75:-236.63,-22.63,-0.08:99
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chr1 2964979 rs55775305 C G 191.90 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=59.60;MQ0=0;OQ=1095.41;QD=18.89;SB=-526.68 GT:AD:DP:GL:GQ 0/1:27,31:56:-129.70,-16.87,-112.36:99
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chr1 2966676 rs1138513 T C 342.07 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.51;MQ=60.00;MQ0=0;OQ=1004.23;QD=15.45;SB=-395.31 GT:AD:DP:GL:GQ 0/1:29,36:64:-122.99,-19.29,-112.84:99
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chr1 2967377 rs2981855 A G 110.32 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=58.78;MQ0=0;OQ=2017.68;QD=35.40;SB=-766.96 GT:AD:DP:GL:GQ 1/1:0,57:57:-205.37,-17.17,-0.02:99
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chr1 2967903 rs2075969 G C 175.65 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=3.39;MQ=59.42;MQ0=0;OQ=486.84;QD=12.17;SB=-253.09 GT:AD:DP:GL:GQ 0/1:21,19:36:-62.83,-10.86,-80.92:99
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chr1 2969034 rs41315262 C T 141.67 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=432.24;QD=14.90;SB=-163.20 GT:AD:DP:GL:GQ 0/1:14,15:28:-54.95,-8.44,-49.21:99
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chr1 2970137 rs2072732 T C 36.95 LowQual AC=1;AF=0.50;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.39;MQ0=0;QD=4.11;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,4:7:-9.09,-2.11,-16.67:69.79
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chr1 2970438 . C T 1.69 PASS AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=3.02;MQ=60.00;MQ0=0;OQ=106.79;QD=5.62;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,5:16:-18.78,-4.82,-35.96:99
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chr1 2973178 rs2788091 T C 354.06 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=59.56;MQ0=0;OQ=657.96;QD=12.65;SB=-286.58 GT:AD:DP:GL:GQ 0/1:29,23:52:-84.74,-15.66,-115.27:99
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chr1 2973823 rs2297828 G A 18.50 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=95.21;QD=3.97;SB=-16.50 GT:AD:DP:GL:GQ 0/1:18,6:22:-19.43,-6.63,-57.66:99
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chr1 2975672 . C G 0.31 PASS AC=2;AF=1.00;AN=2;DP=9;Dels=0.00;HRun=1;HaplotypeScore=6.00;MQ=60.00;MQ0=0;OQ=69.47;QD=7.72;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,6:3:-10.44,-0.91,-0.01:9.02
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chr1 2977743 rs909510 G C 79.39 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=3.50;MQ=58.73;MQ0=0;OQ=593.38;QD=17.98;SB=-309.99 GT:AD:DP:GL:GQ 0/1:15,18:31:-71.97,-9.35,-58.08:99
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chr1 2979403 rs1572656 T G 132.71 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=58.39;MQ0=0;OQ=227.87;QD=7.86;SB=-74.87 GT:AD:DP:GL:GQ 0/1:16,12:27:-34.21,-8.14,-59.65:99
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chr1 2982894 rs2981889 T C 0.49 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=4;HaplotypeScore=3.40;MQ=59.07;MQ0=0;OQ=530.79;QD=10.62;SB=-197.61 GT:AD:DP:GL:GQ 0/1:25,25:44:-69.63,-13.27,-84.86:99
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chr1 2983498 rs2993486 G A 189.84 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=59.11;MQ0=0;OQ=2009.66;QD=38.65;SB=-804.34 GT:AD:DP:GL:GQ 1/1:0,52:51:-204.56,-15.36,-0.01:99
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chr1 2983667 rs2981888 C G 249.66 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=60.00;MQ0=0;OQ=760.63;QD=16.54;SB=-378.87 GT:AD:DP:GL:GQ 0/1:20,26:44:-92.63,-13.28,-85.11:99
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chr1 2984196 rs4648359 G C 304.72 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.03;MQ=59.62;MQ0=0;OQ=739.36;QD=15.09;SB=-327.39 GT:AD:DP:GL:GQ 0/1:26,23:45:-90.79,-13.57,-98.24:99
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chr1 2984400 rs2788092 C G 25.02 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=59.57;MQ0=0;OQ=997.66;QD=18.48;SB=-280.54 GT:AD:DP:GL:GQ 0/1:23,31:51:-118.43,-15.38,-97.87:99
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chr1 2985122 rs2742689 T G 341.54 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=58.79;MQ0=0;OQ=737.00;QD=13.65;SB=-353.07 GT:AD:DP:GL:GQ 0/1:26,28:52:-92.65,-15.66,-91.92:99
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chr1 2985309 rs7515436 G A 254.33 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=59.36;MQ0=0;OQ=1107.59;QD=17.04;SB=-525.74 GT:AD:DP:GL:GQ 0/1:30,35:61:-132.42,-18.38,-99.41:99
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chr1 2985493 rs2788093 C T 164.52 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=52.54;MQ0=0;OQ=672.12;QD=14.61;SB=-188.18 GT:AD:DP:GL:GQ 0/1:25,21:45:-84.06,-13.57,-76.74:99
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chr1 2985947 . G A 42.58 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=2.35;MQ=59.42;MQ0=0;QD=1.06;SB=86.29 GT:AD:DP:GL:GQ 0/1:35,5:38:-18.99,-11.45,-122.25:75.41
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chr1 2986056 rs7525173 C G 198.19 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=57.11;MQ0=0;OQ=1235.82;QD=21.68;SB=-610.55 GT:AD:DP:GL:GQ 0/1:22,35:54:-143.14,-16.27,-91.10:99
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chr1 2986416 rs1569420 C G 131.69 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.22;MQ0=0;OQ=1047.24;QD=19.39;SB=-356.09 GT:AD:DP:GL:GQ 0/1:24,30:53:-123.98,-15.97,-102.98:99
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chr1 2986462 rs1569419 T C 443.07 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1686.91;QD=29.59;SB=-810.28 GT:AD:DP:GL:GQ 1/1:0,57:54:-172.33,-16.29,-0.05:99
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chr1 2988794 rs2742686 T C 110.98 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=3.81;MQ=59.55;MQ0=0;OQ=633.23;QD=12.42;SB=-265.98 GT:AD:DP:GL:GQ 0/1:26,25:48:-81.08,-14.47,-95.70:99
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chr1 2988858 rs10909873 C G 203.72 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.25;MQ=59.51;MQ0=0;OQ=629.03;QD=13.38;SB=-304.03 GT:AD:DP:GL:GQ 0/1:24,23:43:-79.16,-12.98,-98.92:99
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chr1 2988928 rs2981886 T G 27.89 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=1.77;MQ=60.00;MQ0=0;OQ=713.08;QD=17.39;SB=-342.06 GT:AD:DP:GL:GQ 0/1:16,25:41:-86.94,-12.35,-58.67:99
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chr1 2989062 rs2742685 T C 91.91 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=3.60;MQ=59.38;MQ0=0;OQ=332.13;QD=8.98;SB=-168.61 GT:AD:DP:GL:GQ 0/1:21,16:36:-47.35,-10.86,-77.27:99
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chr1 2989275 rs760570 T C 183.83 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.10;MQ=60.00;MQ0=0;OQ=452.99;QD=11.62;SB=-195.61 GT:AD:DP:GL:GQ 0/1:18,21:37:-59.74,-11.16,-71.21:99
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chr1 2989352 rs11580403 C T 17.69 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=6.35;MQ=58.51;MQ0=0;OQ=786.31;QD=16.73;SB=-390.18 GT:AD:DP:GL:GQ 0/1:22,25:44:-95.18,-13.26,-64.65:99
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chr1 2989378 rs11581212 A G 26.01 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=4.12;MQ=58.01;MQ0=0;OQ=610.70;QD=12.99;SB=-220.27 GT:AD:DP:GL:GQ 0/1:23,24:41:-76.70,-12.35,-80.42:99
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chr1 2989575 rs6674036 G T 86.25 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=60.00;MQ0=0;OQ=295.75;QD=8.45;SB=-112.67 GT:AD:DP:GL:GQ 0/1:22,13:32:-42.50,-9.64,-70.40:99
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chr1 2989750 rs6683976 C G 152.72 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=58.25;MQ0=0;OQ=588.86;QD=14.72;SB=-197.30 GT:AD:DP:GL:GQ 0/1:21,19:38:-73.63,-11.46,-80.42:99
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chr1 2989984 rs760569 A G 0.34 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=3;HaplotypeScore=3.04;MQ=55.35;MQ0=1;OQ=203.26;QD=6.78;SB=-13.61 GT:AD:DP:GL:GQ 0/1:16,14:25:-31.15,-7.54,-61.01:99
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chr1 2990301 rs760568 A G 305.79 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=56.76;MQ0=0;OQ=713.37;QD=13.99;SB=-336.34 GT:AD:DP:GL:GQ 0/1:22,29:50:-89.69,-15.07,-88.33:99
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chr1 2990325 rs760567 A G 357.24 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=57.34;MQ0=0;OQ=769.95;QD=14.53;SB=-388.67 GT:AD:DP:GL:GQ 0/1:25,28:52:-95.94,-15.67,-100.59:99
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chr1 2990784 rs6695131 T C 278.73 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.71;MQ=59.69;MQ0=0;OQ=1038.17;QD=17.02;SB=-324.30 GT:AD:DP:GL:GQ 0/1:25,36:59:-124.87,-17.77,-99.97:99
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chr1 2991113 rs760566 T C 528.98 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.67;MQ0=0;OQ=1563.77;QD=31.91;SB=-755.58 GT:AD:DP:GL:GQ 1/1:0,49:46:-159.99,-13.86,-0.02:99
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chr1 2991563 rs6690540 C T 182.97 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.74;MQ=58.34;MQ0=0;OQ=662.57;QD=14.72;SB=-343.52 GT:AD:DP:GL:GQ 0/1:23,22:42:-82.21,-12.67,-65.85:99
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chr1 2991617 rs2742682 T C 232.59 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.38;MQ0=0;OQ=410.76;QD=11.10;SB=-215.29 GT:AD:DP:GL:GQ 0/1:16,19:33:-54.32,-9.96,-57.14:99
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chr1 2991708 rs2742681 T G 14.52 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=58.98;MQ0=0;OQ=365.17;QD=8.91;SB=-102.16 GT:AD:DP:GL:GQ 0/1:24,17:38:-51.25,-11.45,-78.22:99
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chr1 2992174 rs2742680 C G 300.14 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=1.13;MQ=58.66;MQ0=0;OQ=934.85;QD=17.98;SB=-447.39 GT:AD:DP:GL:GQ 0/1:22,30:49:-111.56,-14.79,-83.87:99
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chr1 2992195 rs2742679 C T 269.04 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=58.13;MQ0=0;OQ=860.87;QD=17.22;SB=-384.13 GT:AD:DP:GL:GQ 0/1:23,27:48:-103.84,-14.47,-74.36:99
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chr1 2992210 rs2742678 G A 296.42 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=57.39;MQ0=0;OQ=701.27;QD=15.58;SB=-336.35 GT:AD:DP:GL:GQ 0/1:23,22:43:-86.37,-12.96,-74.58:99
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chr1 2993392 rs11801109 G A 5.62 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=59.59;MQ0=0;OQ=759.83;QD=16.52;SB=-91.91 GT:AD:DP:GL:GQ 0/1:23,23:45:-92.82,-13.56,-77.23:99
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chr1 2993874 rs2981883 T C 12.34 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=4.37;MQ=58.95;MQ0=0;OQ=1316.25;QD=29.91;SB=-475.45 GT:AD:DP:GL:GQ 1/1:0,44:39:-135.23,-11.75,-0.02:99
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chr1 2994092 rs2981882 A G 168.83 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=59.63;MQ0=0;OQ=1897.54;QD=30.61;SB=-828.34 GT:AD:DP:GL:GQ 1/1:0,62:61:-193.40,-18.40,-0.06:99
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chr1 2994217 rs2981881 T C 270.84 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=58.88;MQ0=0;OQ=1946.57;QD=31.40;SB=-838.62 GT:AD:DP:GL:GQ 1/1:1,61:56:-198.26,-16.87,-0.02:99
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chr1 2994648 rs2981880 T C 6.41 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.30;MQ=56.36;MQ0=0;OQ=1597.03;QD=34.72;SB=-433.18 GT:AD:DP:GL:GQ 1/1:0,45:44:-163.30,-13.25,-0.01:99
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chr1 2994734 rs2981879 T C 43.37 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.75;MQ0=0;OQ=1057.22;QD=35.24;SB=-208.08 GT:AD:DP:GL:GQ 1/1:0,30:30:-109.32,-9.04,-0.01:90.26
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chr1 2994945 rs34014659 G A 271.04 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.59;MQ0=1;OQ=187.11;QD=9.85;SB=-73.30 GT:AD:DP:GL:GQ 0/1:11,8:17:-27.12,-5.12,-33.00:99
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chr1 2995445 rs2981878 A G 132.19 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=56.06;MQ0=1;OQ=382.82;QD=11.96;SB=-131.28 GT:AD:DP:GL:GQ 0/1:16,16:31:-50.91,-9.34,-62.42:99
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chr1 2995487 rs6676479 G A 196.19 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=57.97;MQ0=1;OQ=534.41;QD=14.06;SB=-244.76 GT:AD:DP:GL:GQ 0/1:21,17:34:-66.98,-10.25,-53.48:99
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chr1 2995498 rs34884268 C T 260.47 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=626.01;QD=14.90;SB=-317.32 GT:AD:DP:GL:GQ 0/1:22,20:41:-78.24,-12.36,-68.94:99
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chr1 2995610 rs34782467 G A 183.72 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.56;MQ0=0;OQ=857.05;QD=16.48;SB=-325.85 GT:AD:DP:GL:GQ 0/1:26,26:50:-104.07,-15.08,-74.92:99
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chr1 2995991 rs926246 T C 314.46 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=57.39;MQ0=0;OQ=671.24;QD=12.43;SB=-260.51 GT:AD:DP:GL:GQ 0/1:30,24:53:-86.37,-15.96,-115.93:99
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chr1 2996058 rs926245 C A 105.01 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=53.36;MQ0=0;OQ=705.06;QD=12.82;SB=-99.80 GT:AD:DP:GL:GQ 0/1:29,26:52:-89.45,-15.66,-93.51:99
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chr1 2996143 rs926244 A G 215.10 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.07;MQ=58.61;MQ0=0;OQ=1978.79;QD=31.92;SB=-947.90 GT:AD:DP:GL:GQ 1/1:0,60:58:-201.49,-17.47,-0.03:99
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chr1 2996175 rs926243 T G 426.34 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.31;MQ0=0;OQ=690.75;QD=11.32;SB=-265.78 GT:AD:DP:GL:GQ 0/1:31,30:58:-89.83,-17.48,-108.47:99
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chr1 2996487 rs55932943 C T 3.20 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=10.54;MQ=58.03;MQ0=1;OQ=1021.25;QD=14.80;SB=-443.45 GT:AD:DP:GL:GQ 0/1:37,31:63:-124.40,-18.99,-104.76:99
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chr1 2996899 rs2817165 A G 93.99 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=58.80;MQ0=0;OQ=288.71;QD=8.25;SB=-166.95 GT:AD:DP:GL:GQ 0/1:21,13:29:-40.90,-8.74,-67.04:99
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chr1 2997535 rs34300623 G A 185.66 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=59.69;MQ0=0;OQ=968.84;QD=15.88;SB=-326.31 GT:AD:DP:GL:GQ 0/1:32,29:60:-118.25,-18.08,-106.92:99
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chr1 2997956 rs6693385 C T 247.24 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=59.55;MQ0=0;OQ=876.50;QD=17.19;SB=-364.90 GT:AD:DP:GL:GQ 0/1:22,29:45:-104.50,-13.57,-57.88:99
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chr1 2998547 rs2376820 C G 2318.28 Indel AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=17.39;MQ=51.50;MQ0=0;QD=40.67;SB=-1149.31 GT:AD:DP:GL:GQ 1/1:0,55:56:-238.28,-19.61,-2.86:99
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chr1 3000177 rs760565 A T 219.18 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=60.00;MQ0=0;OQ=708.84;QD=15.75;SB=-333.07 GT:AD:DP:GL:GQ 0/1:21,24:41:-86.52,-12.35,-66.91:99
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chr1 3001189 rs2981873 T C 24.60 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=57.66;MQ0=0;OQ=381.92;QD=12.73;SB=-154.31 GT:AD:DP:GL:GQ 0/1:16,14:30:-50.52,-9.04,-62.50:99
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chr1 3002186 rs12135325 T C 1.38 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=4.32;MQ=58.67;MQ0=0;OQ=210.96;QD=6.03;SB=-111.21 GT:AD:DP:GL:GQ 0/1:22,13:32:-34.02,-9.64,-84.87:99
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chr1 3002840 rs6666748 A G 255.15 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.28;MQ=60.00;MQ0=0;OQ=801.41;QD=14.84;SB=-400.31 GT:AD:DP:GL:GQ 0/1:21,33:50:-98.50,-15.08,-74.39:99
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chr1 3003005 rs2788097 A C 59.19 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=3.07;MQ=59.05;MQ0=0;OQ=463.07;QD=10.52;SB=-200.91 GT:AD:DP:GL:GQ 0/1:25,19:39:-61.34,-11.75,-74.66:99
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chr1 3005383 rs2981870 G A 337.06 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=59.45;MQ0=0;OQ=532.89;QD=12.69;SB=-258.26 GT:AD:DP:GL:GQ 0/1:23,19:40:-68.63,-12.06,-71.78:99
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chr1 3005452 rs55674255 C T 63.22 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=3.20;MQ=60.00;MQ0=0;OQ=640.76;QD=14.56;SB=-293.19 GT:AD:DP:GL:GQ 0/1:24,20:44:-80.62,-13.26,-82.30:99
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chr1 3005702 rs55784774 G A 50.92 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=2.79;MQ=59.56;MQ0=0;OQ=701.05;QD=13.23;SB=-358.53 GT:AD:DP:GL:GQ 0/1:30,23:49:-88.16,-14.77,-89.46:99
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chr1 3005947 . C T 228.82 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.77;MQ0=0;OQ=514.40;QD=13.54;SB=-233.73 GT:AD:DP:GL:GQ 0/1:21,17:37:-65.88,-11.16,-63.18:99
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chr1 3005977 . G A 25.43 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=2.54;MQ=57.94;MQ0=0;OQ=561.32;QD=13.69;SB=-151.18 GT:AD:DP:GL:GQ 0/1:21,20:37:-70.56,-11.15,-69.03:99
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chr1 3006143 rs2981869 C T 155.48 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=58.84;MQ0=0;OQ=588.68;QD=14.72;SB=-230.75 GT:AD:DP:GL:GQ 0/1:19,21:38:-73.61,-11.45,-64.86:99
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chr1 3007018 . G A 13.33 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=4.77;MQ=59.05;MQ0=0;OQ=465.01;QD=10.57;SB=-225.50 GT:AD:DP:GL:GQ 0/1:25,18:41:-64.52,-14.73,-86.50:99
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chr1 3008086 rs2993492 G A 197.87 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.53;MQ0=0;OQ=913.42;QD=18.64;SB=-406.43 GT:AD:DP:GL:GQ 0/1:20,29:46:-108.49,-13.86,-62.00:99
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chr1 3009487 rs12131890 G A 77.41 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.17;MQ0=0;OQ=935.16;QD=20.78;SB=-364.90 GT:AD:DP:GL:GQ 0/1:15,30:42:-109.46,-12.66,-48.94:99
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chr1 3010048 rs56029998 T C 182.76 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.92;MQ=59.24;MQ0=0;OQ=609.91;QD=11.09;SB=-261.57 GT:AD:DP:GL:GQ 0/1:31,24:54:-80.54,-16.27,-125.83:99
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chr1 3010106 rs2993493 C A 285.53 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=1.63;MQ=59.63;MQ0=0;OQ=789.70;QD=15.48;SB=-315.68 GT:AD:DP:GL:GQ 0/1:25,26:51:-97.62,-15.36,-86.35:99
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chr1 3010923 rs2993494 G A 362.80 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.94;MQ0=0;OQ=449.17;QD=13.21;SB=-177.14 GT:AD:DP:GL:GQ 0/1:18,16:33:-58.15,-9.95,-61.38:99
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chr1 3011156 rs55898371 A C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=5;HaplotypeScore=4.00;MQ=58.74;MQ0=0;OQ=420.03;QD=11.35;SB=-193.92 GT:AD:DP:GL:GQ 0/1:18,19:33:-55.23,-9.95,-57.05:99
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chr1 3011412 rs12133978 G A 162.16 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=59.34;MQ0=0;OQ=429.68;QD=12.28;SB=-187.26 GT:AD:DP:GL:GQ 0/1:20,15:33:-56.20,-9.95,-61.55:99
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chr1 3011547 rs11808136 C T 5.88 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.91;MQ=59.52;MQ0=0;OQ=731.81;QD=18.76;SB=-195.18 GT:AD:DP:GL:GQ 0/1:16,23:36:-87.31,-10.85,-49.60:99
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chr1 3012571 rs2993495 A G 13.64 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=58.78;MQ0=0;OQ=549.01;QD=28.90;SB=-194.71 GT:AD:DP:GL:GQ 1/1:0,19:18:-58.50,-5.43,-0.01:54.13
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chr1 3012575 rs2993496 T C 83.64 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=58.78;MQ0=0;OQ=196.75;QD=10.36;SB=-98.00 GT:AD:DP:GL:GQ 0/1:9,10:18:-28.39,-5.43,-32.68:99
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chr1 3012992 rs2993497 G A 7 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=1.90;MQ=59.59;MQ0=0;OQ=932.60;QD=20.72;SB=-424.82 GT:AD:DP:GL:GQ 0/1:16,29:42:-109.20,-12.66,-48.01:99
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chr1 3013111 rs56363358 C A 42.53 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=58.28;MQ0=0;OQ=749.52;QD=19.72;SB=-289.38 GT:AD:DP:GL:GQ 0/1:12,26:36:-89.08,-10.85,-37.10:99
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chr1 3013255 rs2993498 T C 497.69 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.78;MQ0=0;OQ=1211.16;QD=31.87;SB=-545.88 GT:AD:DP:GL:GQ 1/1:0,38:36:-124.72,-10.85,-0.02:99
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chr1 3013565 rs6667850 A C 171.48 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.41;MQ0=0;OQ=400.63;QD=10.27;SB=-101.88 GT:AD:DP:GL:GQ 0/1:20,19:37:-54.50,-11.15,-69.04:99
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chr1 3013819 rs1890337 A G 45.08 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.68;MQ=58.49;MQ0=0;OQ=1788.78;QD=31.38;SB=-712.22 GT:AD:DP:GL:GQ 1/1:0,56:52:-182.49,-15.67,-0.02:99
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chr1 3014125 rs1890336 A C 168.89 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.71;MQ0=0;OQ=1775.96;QD=32.89;SB=-886.08 GT:AD:DP:GL:GQ 1/1:0,54:51:-181.20,-15.36,-0.02:99
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chr1 3014227 rs2993499 T C 143.46 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=2;HaplotypeScore=0.04;MQ=59.50;MQ0=0;OQ=1217.03;QD=32.89;SB=-587.31 GT:AD:DP:GL:GQ 1/1:0,37:36:-125.31,-10.85,-0.02:99
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chr1 3014565 rs2993500 C T 15.68 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=4.44;MQ=59.65;MQ0=0;OQ=1234.24;QD=18.99;SB=-544.80 GT:AD:DP:GL:GQ 0/1:29,36:64:-145.99,-19.28,-92.77:99
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chr1 3015706 rs12137954 T A 122.03 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=57.40;MQ0=0;OQ=345.66;QD=6.91;SB=-177.77 GT:AD:DP:GL:GQ 0/1:35,15:48:-52.31,-14.46,-129.85:99
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chr1 3015846 rs2993501 A C 217.20 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=57.44;MQ0=0;OQ=1649.50;QD=29.99;SB=-596.80 GT:AD:DP:GL:GQ 1/1:0,55:53:-168.59,-15.98,-0.05:99
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chr1 3015960 rs12135664 C T 346.44 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.35;MQ=60.00;MQ0=0;OQ=1146.10;QD=16.85;SB=-550.79 GT:AD:DP:GL:GQ 0/1:34,34:67:-138.08,-20.19,-108.20:99
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chr1 3016120 rs2981868 T A 119.84 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=4.10;MQ=59.44;MQ0=0;OQ=1114.65;QD=15.06;SB=-570.99 GT:AD:DP:GL:GQ 0/1:37,36:67:-134.93,-20.18,-118.55:99
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chr1 3016369 rs59909070 G A 353.97 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.69;MQ0=0;OQ=434.09;QD=10.10;SB=-171.10 GT:AD:DP:GL:GQ 0/1:27,16:42:-59.35,-12.65,-95.52:99
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chr1 3016502 . T C 0.18 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=2;HaplotypeScore=5.91;MQ=44.72;MQ0=3;OQ=351.94;QD=7.65;SB=-166.48 GT:AD:DP:GL:GQ 0/1:25,21:36:-49.33,-10.85,-81.52:99
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chr1 3016606 . A C 15.74 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=3.75;MQ=48.95;MQ0=1;OQ=373.22;QD=9.82;SB=-133.20 GT:AD:DP:GL:GQ 0/1:18,17:27:-48.74,-8.13,-43.17:99
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chr1 3016839 rs56010213 A T 12.71 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=38.33;MQ0=7;QD=0.33;SB=20.09 GT:AD:DP:GL:GQ 0/1:34,5:23:-11.46,-6.93,-70.69:45.31
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chr1 3017201 rs2993502 C T 589.72 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.38;MQ0=0;OQ=2029.57;QD=38.29;SB=-936.75 GT:AD:DP:GL:GQ 1/1:0,53:51:-206.56,-15.36,-0.01:99
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chr1 3017765 . T C 156.29 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.89;MQ0=0;OQ=257.37;QD=12.26;SB=-133.69 GT:AD:DP:GL:GQ 0/1:7,14:18:-34.45,-5.43,-28.78:99
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chr1 3017780 . C T 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=1;HaplotypeScore=2.01;MQ=59.03;MQ0=0;OQ=567.81;QD=23.66;SB=-154.18 GT:AD:DP:GL:GQ 0/1:6,18:22:-66.70,-6.63,-18.59:99
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chr1 3018779 rs11808946 C T 272.66 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=781.20;QD=16.62;SB=-355.56 GT:AD:DP:GL:GQ 0/1:22,25:44:-94.67,-13.26,-66.92:99
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chr1 3018847 rs2993503 A G 82.10 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=59.16;MQ0=0;OQ=1494.14;QD=27.17;SB=-767.73 GT:AD:DP:GL:GQ 1/1:0,55:49:-153.05,-14.78,-0.05:99
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chr1 3018941 rs2072733 C T 12.61 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=2;HaplotypeScore=2.15;MQ=59.46;MQ0=0;OQ=605.93;QD=14.09;SB=-165.23 GT:AD:DP:GL:GQ 0/1:22,21:41:-76.24,-12.36,-69.17:99
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chr1 3019072 rs10909875 C T 272.35 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.03;MQ0=0;OQ=534.00;QD=11.12;SB=-208.44 GT:AD:DP:GL:GQ 0/1:28,20:45:-70.25,-13.56,-92.78:99
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chr1 3019517 rs12136745 G A 248.92 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.41;MQ=59.62;MQ0=0;OQ=984.07;QD=16.40;SB=-470.51 GT:AD:DP:GL:GQ 0/1:28,32:55:-118.26,-16.57,-87.88:99
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chr1 3019842 rs58968988 G A 56.19 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=4.37;MQ=58.92;MQ0=0;OQ=590.92;QD=13.74;SB=-159.22 GT:AD:DP:GL:GQ 0/1:22,21:39:-74.13,-11.75,-67.01:99
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chr1 3020484 rs2981867 G C 387.41 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.97;MQ0=0;OQ=547.74;QD=12.17;SB=-190.58 GT:AD:DP:GL:GQ 0/1:29,16:44:-71.32,-13.26,-119.60:99
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chr1 3020597 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=37.34;MQ=39.25;MQ0=1;OQ=144.44;QD=4.25;SB=-87.67 GT:AD:DP:GL:GQ 0/1:24,10:27:-25.87,-8.14,-74.17:99
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chr1 3020599 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=45.49;MQ=39.25;MQ0=1;OQ=360.48;QD=10.60;SB=-127.10 GT:AD:DP:GL:GQ 0/1:21,13:31:-48.68,-9.35,-60.35:99
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chr1 3020611 . A G 19.24 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=21.97;MQ=37.81;MQ0=1;QD=0.62;SB=-30.78 GT:AD:DP:GL:GQ 0/1:24,7:24:-12.43,-7.23,-80.13:52.02
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chr1 3020613 rs6691894 A G 41.97 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=22.61;MQ=37.81;MQ0=1;QD=1.35;SB=-10.86 GT:AD:DP:GL:GQ 0/1:24,7:20:-13.51,-6.02,-64.69:74.80
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chr1 3020615 rs6691895 A G 400.54 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=24.36;MQ=38.97;MQ0=1;QD=12.92;SB=-173.99 GT:AD:DP:GL:GQ 0/1:14,17:24:-50.58,-7.24,-30.30:99
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chr1 3020629 . A G 22.23 LowQual AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=19.42;MQ=38.02;MQ0=1;QD=0.85;SB=-32.78 GT:AD:DP:GL:GQ 0/1:21,5:22:-12.14,-6.63,-70.51:55.04
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chr1 3020688 rs6691996 A G 381.91 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.90;MQ0=0;OQ=370.45;QD=11.58;SB=-184.01 GT:AD:DP:GL:GQ 0/1:14,18:30:-49.38,-9.05,-56.94:99
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chr1 3020691 rs6695017 T C 343.03 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.28;MQ0=0;OQ=495.78;QD=14.58;SB=-192.66 GT:AD:DP:GL:GQ 0/1:16,18:34:-63.11,-10.25,-58.83:99
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chr1 3020744 rs6687292 C T 95.65 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=3.34;MQ=56.56;MQ0=0;OQ=522.71;QD=9.33;SB=-137.11 GT:AD:DP:GL:GQ 0/1:34,22:53:-71.53,-15.97,-120.29:99
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chr1 3020924 rs2981866 G A 33.28 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=57.17;MQ0=0;OQ=1933.34;QD=38.67;SB=-489.14 GT:AD:DP:GL:GQ 1/1:0,50:49:-196.94,-14.76,-0.02:99
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chr1 3020982 rs10909876 A G 347.22 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=54.47;MQ0=0;OQ=796.80;QD=13.06;SB=-340.94 GT:AD:DP:GL:GQ 0/1:29,32:61:-101.36,-18.40,-112.11:99
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chr1 3020998 rs10909877 T A 2173.88 Indel AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=54.79;MQ0=0;QD=36.23;SB=-1033.22 GT:AD:DP:GL:GQ 1/1:0,60:59:-220.99,-17.77,-0.02:99
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chr1 3021182 . G A 53.76 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=59.25;MQ0=0;OQ=405.03;QD=13.07;SB=-180.66 GT:AD:DP:GL:GQ 0/1:18,13:30:-52.83,-9.04,-54.54:99
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chr1 3022425 rs2981865 G C 1.40 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=57.81;MQ0=0;OQ=743.56;QD=24.79;SB=-346.46 GT:AD:DP:GL:GQ 0/1:9,21:29:-86.39,-8.75,-34.33:99
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chr1 3024466 rs10909878 A G 299.96 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=58.18;MQ0=0;OQ=619.53;QD=13.18;SB=-324.31 GT:AD:DP:GL:GQ 0/1:20,27:45:-78.81,-13.57,-80.16:99
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chr1 3024530 rs12141827 T C 99.60 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=53.26;MQ0=0;OQ=329.91;QD=8.25;SB=-169.50 GT:AD:DP:GL:GQ 0/1:24,16:37:-47.43,-11.15,-87.85:99
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chr1 3025087 rs6690373 A G 254.01 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.67;MQ0=0;OQ=819.31;QD=14.63;SB=-343.19 GT:AD:DP:GL:GQ 0/1:23,33:54:-101.49,-16.28,-89.82:99
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chr1 3025597 rs2981864 A G 2.03 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=1.66;MQ=59.23;MQ0=0;OQ=762.15;QD=25.41;SB=-232.49 GT:AD:DP:GL:GQ 1/1:0,28:25:-82.46,-10.02,-2.66:73.60
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chr1 3025622 rs12409836 A G 68.57 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=58.74;MQ0=0;OQ=225.89;QD=6.11;SB=-44.83 GT:AD:DP:GL:GQ 0/1:23,14:30:-34.92,-9.04,-72.62:99
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chr1 3025639 rs2472822 C G 79.91 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.42;MQ0=0;OQ=1446.74;QD=36.17;SB=-602.98 GT:AD:DP:GL:GQ 1/1:0,40:36:-148.28,-10.86,-0.02:99
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chr1 3027473 rs876740 C T 271.81 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=60.00;MQ0=0;OQ=2215.19;QD=38.19;SB=-1128.00 GT:AD:DP:GL:GQ 1/1:0,58:56:-225.12,-16.87,-0.02:99
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chr1 3028483 rs2742672 A G 23.82 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.51;MQ0=0;OQ=1087.23;QD=28.61;SB=-502.17 GT:AD:DP:GL:GQ 1/1:0,38:36:-112.35,-10.86,-0.04:99
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chr1 3029008 rs2817171 C A 191.92 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.83;MQ=59.65;MQ0=0;OQ=733.04;QD=13.57;SB=-391.11 GT:AD:DP:GL:GQ 0/1:29,25:54:-92.85,-16.26,-102.92:99
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chr1 3030045 rs2981863 G C 66.05 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=59.63;MQ0=0;OQ=889.03;QD=17.78;SB=-256.52 GT:AD:DP:GL:GQ 0/1:23,27:46:-106.06,-13.87,-86.32:99
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chr1 3030624 rs2012731 G A 16.06 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=4.70;MQ=59.61;MQ0=0;OQ=1536.02;QD=32.00;SB=-433.32 GT:AD:DP:GL:GQ 1/1:0,48:41:-157.21,-12.36,-0.02:99
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chr1 3031379 rs2817172 T C 144.04 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=1381.66;QD=30.70;SB=-636.88 GT:AD:DP:GL:GQ 1/1:0,45:44:-141.79,-13.27,-0.04:99
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chr1 3032241 rs2472820 G A 108.60 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=58.74;MQ0=0;OQ=572.26;QD=15.47;SB=-176.66 GT:AD:DP:GL:GQ 0/1:19,18:36:-71.36,-10.85,-60.89:99
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chr1 3032694 . C T 55.78 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=60.00;MQ0=0;OQ=546.49;QD=14.77;SB=-205.90 GT:AD:DP:GL:GQ 0/1:19,18:36:-68.78,-10.85,-58.80:99
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chr1 3033426 rs12410830 A G 6.05 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=3;HaplotypeScore=3.60;MQ=59.16;MQ0=0;OQ=614.56;QD=12.29;SB=-235.29 GT:AD:DP:GL:GQ 0/1:27,23:49:-79.50,-14.76,-107.00:99
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chr1 3034041 rs2817174 T C 277.92 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.38;MQ0=0;OQ=1499.60;QD=26.78;SB=-664.93 GT:AD:DP:GL:GQ 1/1:0,56:48:-153.59,-14.48,-0.05:99
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chr1 3034512 rs35529420 C T 72.11 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=4.41;MQ=59.18;MQ0=0;OQ=899.04;QD=15.77;SB=-264.19 GT:AD:DP:GL:GQ 0/1:27,29:53:-109.16,-15.97,-86.82:99
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chr1 3034731 rs35951269 T C 58.31 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=2.40;MQ=58.97;MQ0=0;OQ=780.41;QD=12.39;SB=-339.30 GT:AD:DP:GL:GQ 0/1:36,27:63:-100.30,-18.98,-146.89:99
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chr1 3035225 rs2742670 A G 75.82 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.62;MQ=60.00;MQ0=0;OQ=1811.56;QD=33.55;SB=-920.03 GT:AD:DP:GL:GQ 1/1:0,54:51:-184.76,-15.36,-0.02:99
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chr1 3035475 rs2817175 T C 135.77 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=57.17;MQ0=0;OQ=1487.18;QD=29.74;SB=-663.57 GT:AD:DP:GL:GQ 1/1:0,50:49:-152.36,-14.79,-0.06:99
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chr1 3035871 rs2817176 A G 10.06 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=4.69;MQ=58.80;MQ0=0;OQ=1642.91;QD=28.33;SB=-799.47 GT:AD:DP:GL:GQ 1/1:0,58:54:-167.94,-16.30,-0.07:99
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chr1 3036323 rs2817177 T C 492.31 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=1385.60;QD=34.64;SB=-536.41 GT:AD:DP:GL:GQ 1/1:0,40:39:-142.16,-11.75,-0.01:99
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chr1 3036571 rs35625823 T G 1.28 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.02;HRun=1;HaplotypeScore=8.04;MQ=58.17;MQ0=0;OQ=682.10;QD=13.37;SB=-105.91 GT:AD:DP:GL:GQ 0/1:25,25:50:-86.26,-14.76,-86.59:99
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chr1 3036686 rs35201154 G T 212.09 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.64;MQ0=0;OQ=542.18;QD=11.30;SB=-157.49 GT:AD:DP:GL:GQ 0/1:27,21:48:-71.97,-14.46,-93.11:99
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chr1 3037032 rs2788086 A G 87.83 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=59.14;MQ0=0;OQ=1440.07;QD=26.67;SB=-745.96 GT:AD:DP:GL:GQ 1/1:1,53:49:-151.81,-14.78,-4.21:99
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chr1 3037112 rs2817178 T C 138.65 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.50;MQ=59.01;MQ0=0;OQ=1783.83;QD=33.66;SB=-780.99 GT:AD:DP:GL:GQ 1/1:0,53:51:-182.00,-15.37,-0.03:99
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chr1 3037307 rs10797378 T C 263.69 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=57.77;MQ0=0;OQ=673.03;QD=12.02;SB=-270.24 GT:AD:DP:GL:GQ 0/1:24,31:50:-85.66,-15.07,-91.32:99
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chr1 3037312 rs2788087 A G 5.84 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=3;HaplotypeScore=4.61;MQ=57.43;MQ0=0;OQ=719.26;QD=12.40;SB=-323.12 GT:AD:DP:GL:GQ 0/1:28,30:54:-91.49,-16.28,-101.63:99
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chr1 3037323 rs10909881 G A 169.28 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=4.31;MQ=57.69;MQ0=0;OQ=859.60;QD=14.57;SB=-445.45 GT:AD:DP:GL:GQ 0/1:30,29:55:-105.83,-16.59,-85.38:99
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chr1 3038158 rs2817180 T C 101.32 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.60;MQ0=0;OQ=1662.63;QD=29.17;SB=-686.71 GT:AD:DP:GL:GQ 1/1:0,57:52:-169.90,-15.69,-0.05:99
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chr1 3038602 rs35360783 A G 220.53 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.65;MQ0=0;OQ=463.18;QD=8.74;SB=-235.89 GT:AD:DP:GL:GQ 0/1:32,21:53:-65.58,-15.98,-127.69:99
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chr1 3039222 rs12024620 C T 40.79 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=4.42;MQ=59.20;MQ0=0;OQ=839.66;QD=14.48;SB=-156.21 GT:AD:DP:GL:GQ 0/1:32,26:56:-104.13,-16.88,-98.69:99
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chr1 3039241 rs12021948 G C 56.36 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.56;MQ0=0;OQ=946.79;QD=17.86;SB=-223.20 GT:AD:DP:GL:GQ 0/1:25,28:53:-113.94,-15.98,-109.97:99
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chr1 3039433 rs12740389 C T 216.94 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.36;MQ0=0;OQ=1244.61;QD=19.15;SB=-628.67 GT:AD:DP:GL:GQ 0/1:28,37:63:-146.73,-18.98,-86.83:99
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chr1 3039715 rs35999894 C T 445.61 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1131.40;QD=18.86;SB=-581.12 GT:AD:DP:GL:GQ 0/1:26,34:58:-133.91,-17.48,-78.73:99
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chr1 3039945 rs34733164 A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=4;HaplotypeScore=2.38;MQ=59.17;MQ0=0;OQ=103.23;QD=3.69;SB=-48.95 GT:AD:DP:GL:GQ 0/1:18,10:23:-20.53,-6.93,-62.39:99
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chr1 3040081 rs12022170 G A 254.38 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.17;MQ0=0;OQ=717.02;QD=15.93;SB=-327.88 GT:AD:DP:GL:GQ 0/1:23,22:43:-87.95,-12.96,-65.92:99
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chr1 3040191 rs12028027 T C 223.73 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.03;MQ0=0;OQ=428.68;QD=8.93;SB=-212.28 GT:AD:DP:GL:GQ 0/1:28,20:45:-59.72,-13.57,-97.74:99
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chr1 3040222 rs12027117 A G 229.27 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=59.46;MQ0=0;OQ=557.56;QD=12.97;SB=-281.47 GT:AD:DP:GL:GQ 0/1:21,22:42:-71.69,-12.65,-82.66:99
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chr1 3040357 rs10909883 A G 344.92 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.62;MQ0=0;OQ=754.58;QD=12.37;SB=-348.58 GT:AD:DP:GL:GQ 0/1:28,33:59:-96.53,-17.79,-109.54:99
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chr1 3040454 rs12120879 C G 45.73 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=2.33;MQ=58.92;MQ0=0;OQ=1009.80;QD=18.03;SB=-357.43 GT:AD:DP:GL:GQ 0/1:27,29:53:-120.25,-15.98,-106.43:99
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chr1 3040798 rs35848773 T C 267.80 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=59.65;MQ0=0;OQ=685.07;QD=12.69;SB=-277.27 GT:AD:DP:GL:GQ 0/1:21,33:48:-86.26,-14.47,-82.32:99
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chr1 3040900 rs12731315 G C 3.75 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=3;HaplotypeScore=3.13;MQ=60.00;MQ0=0;OQ=656.27;QD=17.74;SB=-310.23 GT:AD:DP:GL:GQ 0/1:18,19:37:-80.07,-11.16,-76.94:99
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chr1 3041210 rs12724921 T A 454.48 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=611.82;QD=12.00;SB=-313.55 GT:AD:DP:GL:GQ 0/1:28,23:48:-78.92,-14.46,-101.94:99
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chr1 3041481 rs909509 A G 48.89 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=4.12;MQ=59.51;MQ0=0;OQ=373.32;QD=7.94;SB=-138.54 GT:AD:DP:GL:GQ 0/1:28,18:38:-52.08,-11.46,-81.04:99
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chr1 3041609 rs12725529 T C 111.43 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.46;MQ=58.62;MQ0=0;OQ=287.04;QD=7.76;SB=-113.62 GT:AD:DP:GL:GQ 0/1:21,16:34:-42.24,-10.25,-81.99:99
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chr1 3042125 rs7535865 A C 10.52 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=7.89;MQ=58.97;MQ0=0;OQ=623.66;QD=13.86;SB=-308.90 GT:AD:DP:GL:GQ 0/1:18,27:40:-77.70,-12.05,-63.90:99
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chr1 3042361 rs4648363 C T 227.69 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.42;MQ0=0;OQ=413.64;QD=10.34;SB=-159.64 GT:AD:DP:GL:GQ 0/1:26,14:37:-55.80,-11.16,-73.37:99
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chr1 3043023 rs35794895 G A 293.61 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=58.64;MQ0=0;OQ=693.50;QD=14.45;SB=-320.87 GT:AD:DP:GL:GQ 0/1:21,26:42:-85.30,-12.67,-60.57:99
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chr1 3043817 rs12741594 A T 497.03 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.30;MQ0=0;OQ=877.02;QD=14.62;SB=-406.56 GT:AD:DP:GL:GQ 0/1:31,29:60:-109.06,-18.07,-115.07:99
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chr1 3043966 rs2235176 T C 337.32 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=60.00;MQ0=0;OQ=677.48;QD=12.55;SB=-208.33 GT:AD:DP:GL:GQ 0/1:27,27:53:-87.00,-15.97,-104.05:99
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chr1 3044349 rs35877876 C T 270.74 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.61;MQ0=0;OQ=969.79;QD=16.44;SB=-358.48 GT:AD:DP:GL:GQ 0/1:30,29:59:-118.04,-17.77,-107.71:99
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chr1 3045481 rs10797379 T C 126.05 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=58.62;MQ0=0;OQ=1290.17;QD=29.32;SB=-604.23 GT:AD:DP:GL:GQ 1/1:0,44:42:-132.64,-12.67,-0.04:99
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chr1 3045736 rs10797380 A G 12.13 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=4.39;MQ=59.03;MQ0=0;OQ=1384.53;QD=28.84;SB=-697.60 GT:AD:DP:GL:GQ 1/1:0,48:44:-142.08,-13.27,-0.04:99
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chr1 3046509 rs7354964 C G 181.06 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.06;MQ0=0;OQ=756.10;QD=18.90;SB=-387.98 GT:AD:DP:GL:GQ 0/1:19,21:40:-90.95,-12.05,-80.97:99
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chr1 3047001 rs2817181 A G 378.95 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.74;MQ0=0;OQ=2402.64;QD=34.32;SB=-979.90 GT:AD:DP:GL:GQ 1/1:0,70:68:-243.87,-20.48,-0.03:99
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chr1 3047521 rs7538096 T C 291.96 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=1.57;MQ=59.64;MQ0=0;OQ=861.01;QD=13.45;SB=-250.18 GT:AD:DP:GL:GQ 0/1:31,33:64:-108.67,-19.29,-124.47:99
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chr1 3048093 rs2742666 T C 36.97 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=6.22;MQ=57.02;MQ0=0;OQ=594.94;QD=12.93;SB=-209.63 GT:AD:DP:GL:GQ 0/1:23,23:42:-75.43,-12.65,-85.93:99
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chr1 3048098 rs2742665 A C 100.54 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=57.17;MQ0=0;OQ=617.42;QD=15.44;SB=-256.42 GT:AD:DP:GL:GQ 0/1:17,23:38:-76.47,-11.45,-58.49:99
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chr1 3048109 rs2817183 A G 380.39 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.05;MQ0=0;OQ=578.38;QD=14.46;SB=-222.56 GT:AD:DP:GL:GQ 0/1:19,21:39:-72.87,-11.75,-75.47:99
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chr1 3048230 rs2817184 G A 543.37 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=743.48;QD=15.82;SB=-334.86 GT:AD:DP:GL:GQ 0/1:23,24:46:-91.50,-13.86,-76.30:99
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chr1 3050041 rs6684093 C T 40.49 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=5.68;MQ=58.71;MQ0=0;OQ=937.27;QD=17.36;SB=-475.05 GT:AD:DP:GL:GQ 0/1:24,30:51:-112.38,-15.37,-76.51:99
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chr1 3051143 rs1875449 C A 6.39 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=5.78;MQ=59.44;MQ0=0;OQ=367.51;QD=8.96;SB=-206.89 GT:AD:DP:GL:GQ 0/1:23,18:37:-51.19,-11.15,-77.66:99
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chr1 3052735 rs2817187 G T 176.34 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.61;MQ0=0;OQ=2057.17;QD=34.87;SB=-1041.53 GT:AD:DP:GL:GQ 1/1:0,59:58:-209.32,-17.47,-0.02:99
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chr1 3066300 . C T 85.23 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=59.28;MQ0=0;OQ=957.84;QD=16.51;SB=-344.34 GT:AD:DP:GL:GQ 0/1:29,29:58:-116.54,-17.47,-102.34:99
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chr1 3068821 . G A 12.77 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=4.86;MQ=59.41;MQ0=0;OQ=492.51;QD=12.63;SB=-226.54 GT:AD:DP:GL:GQ 0/1:19,20:34:-62.79,-10.25,-59.33:99
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chr1 3069601 rs34175350 G C 4.56 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=15.60;MQ0=24;OQ=307.57;QD=4.16;SB=-10.00 GT:AD:DP:GL:GQ 0/1:61,13:26:-41.87,-7.83,-71.98:99
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chr1 3071991 . T C 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=7.33;MQ=54.00;MQ0=2;OQ=261.16;QD=5.02;SB=-67.51 GT:AD:DP:GL:GQ 0/1:33,19:40:-41.45,-12.05,-111.58:99
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chr1 3072015 . C T 17.95 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=6.27;MQ=51.72;MQ0=4;QD=0.46;SB=-17.49 GT:AD:DP:GL:GQ 0/1:29,10:20:-11.10,-6.03,-56.69:50.72
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chr1 3077233 rs10909887 A T 53.28 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=3.52;MQ=59.65;MQ0=0;OQ=1671.94;QD=31.55;SB=-810.23 GT:AD:DP:GL:GQ 1/1:0,53:48:-170.81,-14.47,-0.03:99
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chr1 3078302 rs2817127 C G 3.71 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=0.67;MQ=58.92;MQ0=0;OQ=1590.78;QD=40.79;SB=-669.44 GT:AD:DP:GL:GQ 1/1:0,39:38:-162.68,-11.46,-0.02:99
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chr1 3078602 rs2651936 C T 556.62 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1763.78;QD=38.34;SB=-617.01 GT:AD:DP:GL:GQ 1/1:0,46:45:-179.97,-13.55,-0.01:99
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chr1 3078803 rs2817128 T C 41.66 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=3;HaplotypeScore=0.92;MQ=58.79;MQ0=0;OQ=1700.76;QD=31.50;SB=-627.85 GT:AD:DP:GL:GQ 1/1:0,54:53:-173.71,-15.98,-0.05:99
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chr1 3078920 rs2817129 G C 420.84 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2270.90;QD=42.85;SB=-927.24 GT:AD:DP:GL:GQ 1/1:0,53:53:-230.70,-15.98,-0.02:99
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chr1 3079836 rs3795268 G A 518.97 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2012.53;QD=38.70;SB=-765.66 GT:AD:DP:GL:GQ 1/1:0,52:51:-204.85,-15.36,-0.01:99
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chr1 3082486 rs61759169 A T 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=17.96;MQ=49.98;MQ0=1;OQ=467.66;QD=5.85;SB=-63.76 GT:AD:DP:GL:GQ 0/1:57,23:74:-72.34,-22.29,-212.74:99
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chr1 3082576 rs59307218 T C 89.31 Indel AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=1;HaplotypeScore=16.28;MQ=58.32;MQ0=0;QD=0.84;SB=-6.84 GT:AD:DP:GL:GQ 0/1:94,12:100:-42.34,-30.13,-353.31:99
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chr1 3082715 rs61759170 T C 0.15 PASS AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=1;HaplotypeScore=13.70;MQ=54.13;MQ0=0;OQ=433.59;QD=4.61;SB=-120.39 GT:AD:DP:GL:GQ 0/1:66,28:84:-71.95,-25.31,-255.13:99
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chr1 3082724 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=20.17;MQ=53.56;MQ0=0;OQ=265.77;QD=3.09;SB=-1.90 GT:AD:DP:GL:GQ 0/1:64,21:77:-55.36,-25.50,-226.03:99
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chr1 3082730 rs61759171 A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=25.02;MQ=53.60;MQ0=0;OQ=115.19;QD=1.46;SB=35.65 GT:AD:DP:GL:GQ 0/1:62,16:69:-35.59,-20.79,-209.49:99
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chr1 3083610 rs2817131 T C 1.92 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=7.31;MQ=58.76;MQ0=0;OQ=2679.05;QD=35.25;SB=-1269.49 GT:AD:DP:GL:GQ 1/1:0,76:75:-271.51,-22.59,-0.03:99
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chr1 3086215 rs868718 G A 224.01 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=59.60;MQ0=0;OQ=2257.57;QD=38.92;SB=-929.74 GT:AD:DP:GL:GQ 1/1:0,58:57:-229.36,-17.17,-0.02:99
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chr1 3086338 rs2817132 T C 256.47 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.55;MQ0=0;OQ=1749.39;QD=34.30;SB=-792.14 GT:AD:DP:GL:GQ 1/1:0,51:49:-178.54,-14.76,-0.01:99
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chr1 3086971 . G A 6.54 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=1;HaplotypeScore=3.12;MQ=59.63;MQ0=0;OQ=869.92;QD=17.06;SB=-366.15 GT:AD:DP:GL:GQ 0/1:23,28:49:-105.05,-14.78,-70.17:99
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chr1 3087284 rs28576654 G A 0.62 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=8.45;MQ=55.21;MQ0=0;OQ=1827.21;QD=37.29;SB=-761.03 GT:AD:DP:GL:GQ 1/1:1,48:47:-186.32,-14.16,-0.02:99
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chr1 3087324 rs36042320 A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=36.16;MQ=53.71;MQ0=0;OQ=1199.13;QD=20.32;SB=-596.19 GT:AD:DP:GL:GQ 1/1:10,49:47:-136.03,-14.18,-12.56:16.27
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chr1 3087368 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=62.15;MQ=52.02;MQ0=2;OQ=84.05;QD=0.99;SB=68.22 GT:AD:DP:GL:GQ 0/1:64,20:65:-31.27,-19.58,-199.12:99
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chr1 3087405 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=0;HaplotypeScore=113.18;MQ=45.62;MQ0=12;OQ=152.20;QD=1.23;SB=83.17 GT:AD:DP:GL:GQ 0/1:93,25:100:-54.91,-36.41,-286.94:99
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chr1 3087421 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=108;Dels=0.01;HRun=1;HaplotypeScore=157.91;MQ=45.44;MQ0=13;OQ=317.87;QD=2.94;SB=62.22 GT:AD:DP:GL:GQ 0/1:65,42:72:-56.46,-21.39,-222.98:99
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chr1 3087430 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=100;Dels=0.09;HRun=0;HaplotypeScore=131.45;MQ=45.35;MQ0=13;OQ=71.40;QD=0.71;SB=68.23 GT:AD:DP:GL:GQ 0/1:57,34:61:-28.82,-18.40,-174.57:99
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chr1 3087432 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=0;HaplotypeScore=125.43;MQ=44.68;MQ0=16;OQ=349.00;QD=3.39;SB=68.23 GT:AD:DP:GL:GQ 0/1:85,18:67:-58.39,-20.20,-173.08:99
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chr1 3087446 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=34.86;MQ=42.41;MQ0=15;OQ=253.15;QD=2.81;SB=53.16 GT:AD:DP:GL:GQ 0/1:47,43:54:-44.89,-16.29,-135.66:99
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chr1 3087456 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=33.91;MQ=40.94;MQ0=15;OQ=574.41;QD=6.38;SB=41.15 GT:AD:DP:GL:GQ 0/1:47,43:59:-78.52,-17.79,-127.78:99
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chr1 3087469 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=37.75;MQ=38.93;MQ0=14;OQ=420.06;QD=4.94;SB=41.09 GT:AD:DP:GL:GQ 0/1:56,29:63:-64.29,-19.00,-146.93:99
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chr1 3087482 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=75.90;MQ=37.38;MQ0=13;OQ=93.48;QD=1.23;SB=56.14 GT:AD:DP:GL:GQ 0/1:55,21:54:-28.92,-16.29,-150.91:99
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chr1 3087484 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=59.86;MQ=36.69;MQ0=13;OQ=224.49;QD=2.95;SB=47.15 GT:AD:DP:GL:GQ 0/1:64,12:51:-41.12,-15.38,-130.32:99
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chr1 3087496 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.18;HRun=0;HaplotypeScore=92.35;MQ=35.16;MQ0=7;OQ=80.55;QD=1.41;SB=-35.75 GT:AD:DP:GL:GQ 0/1:30,16:29:-20.09,-8.75,-100.50:99
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chr1 3087498 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=70.78;MQ=33.76;MQ0=7;OQ=147.15;QD=2.58;SB=-95.04 GT:AD:DP:GL:GQ 0/1:41,16:33:-27.95,-9.95,-82.07:99
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chr1 3087509 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.05;HRun=0;HaplotypeScore=74.81;MQ=32.58;MQ0=5;OQ=64.70;QD=1.06;SB=56.11 GT:AD:DP:GL:GQ 0/1:52,6:35:-20.32,-10.56,-93.36:97.54
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chr1 3087512 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=54.96;MQ=31.97;MQ0=5;OQ=503.11;QD=8.11;SB=-236.10 GT:AD:DP:GL:GQ 0/1:31,31:45:-67.16,-13.57,-94.41:99
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chr1 3087536 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=33.03;MQ=32.40;MQ0=3;OQ=59.37;QD=0.74;SB=89.25 GT:AD:DP:GL:GQ 0/1:72,7:63:-28.22,-18.99,-181.57:92.21
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chr1 3087538 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=37.44;MQ=32.40;MQ0=3;OQ=247.27;QD=3.09;SB=80.25 GT:AD:DP:GL:GQ 0/1:65,15:63:-46.99,-18.98,-180.33:99
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chr1 3087608 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=168;Dels=0.01;HRun=0;HaplotypeScore=54.40;MQ=37.28;MQ0=13;OQ=1887.72;QD=11.24;SB=-729.24 GT:AD:DP:GL:GQ 0/1:104,63:145:-235.47,-43.42,-271.37:99
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chr1 3087617 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=185;Dels=0.00;HRun=0;HaplotypeScore=53.68;MQ=37.94;MQ0=15;OQ=1635.04;QD=8.84;SB=-493.28 GT:AD:DP:GL:GQ 0/1:114,71:160:-215.01,-48.22,-344.93:99
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chr1 3087664 . A G 18.84 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=189;Dels=0.01;HRun=0;HaplotypeScore=131.51;MQ=40.84;MQ0=15;QD=0.10;SB=241.96 GT:AD:DP:GL:GQ 0/1:170,18:163:-53.97,-48.81,-580.79:51.62
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chr1 3087667 . C T 165.92 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=188;Dels=0.01;HRun=0;HaplotypeScore=132.64;MQ=41.11;MQ0=15;QD=0.88;SB=179.60 GT:AD:DP:GL:GQ 0/1:167,20:158:-67.18,-47.30,-486.26:99
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chr1 3087668 . A G 310.08 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=187;Dels=0.01;HRun=1;HaplotypeScore=124.54;MQ=41.17;MQ0=15;QD=1.66;SB=124.04 GT:AD:DP:GL:GQ 0/1:158,28:160:-82.20,-47.90,-540.31:99
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chr1 3087734 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=1;HaplotypeScore=13.23;MQ=44.53;MQ0=2;OQ=55.34;QD=0.49;SB=-14.90 GT:AD:DP:GL:GQ 0/1:101,11:104:-40.16,-31.34,-369.37:88.18
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chr1 3087747 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=0;HaplotypeScore=23.95;MQ=43.49;MQ0=2;OQ=1649.29;QD=15.71;SB=-709.98 GT:AD:DP:GL:GQ 0/1:48,57:100:-198.34,-30.13,-180.84:99
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chr1 3087772 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=133;Dels=0.00;HRun=0;HaplotypeScore=99.40;MQ=37.75;MQ0=7;OQ=762.57;QD=5.73;SB=-239.63 GT:AD:DP:GL:GQ 0/1:102,30:117:-114.83,-35.29,-281.68:99
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chr1 3087833 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=152;Dels=0.00;HRun=1;HaplotypeScore=261.50;MQ=29.30;MQ0=7;OQ=1486.23;QD=9.78;SB=-676.51 GT:AD:DP:GL:GQ 0/1:100,52:130:-191.07,-39.17,-253.74:99
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chr1 3087850 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=146;Dels=0.00;HRun=0;HaplotypeScore=106.63;MQ=29.08;MQ0=7;OQ=1055.92;QD=7.23;SB=-459.23 GT:AD:DP:GL:GQ 0/1:100,46:125:-146.56,-37.68,-289.33:99
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chr1 3087853 . C A 11.81 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=148;Dels=0.00;HRun=0;HaplotypeScore=84.96;MQ=29.13;MQ0=6;QD=0.08;SB=22.69 GT:AD:DP:GL:GQ 0/1:134,14:133:-44.49,-40.06,-434.86:44.36
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chr1 3087861 . A C 168.29 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=135;Dels=0.00;HRun=0;HaplotypeScore=23.28;MQ=29.00;MQ0=4;QD=1.25;SB=-17.42 GT:AD:DP:GL:GQ 0/1:115,20:120:-56.26,-36.15,-379.05:99
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chr1 3087900 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=22.94;MQ=28.28;MQ0=1;OQ=423.78;QD=5.81;SB=-214.40 GT:AD:DP:GL:GQ 0/1:51,22:68:-66.15,-20.49,-189.92:99
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chr1 3087911 . C T 880.08 SnpCluster AC=1;AF=0.50;AN=2;DP=69;Dels=0.03;HRun=0;HaplotypeScore=32.89;MQ=28.46;MQ0=0;QD=12.75;SB=-315.83 GT:AD:DP:GL:GQ 0/1:40,27:49:-105.45,-14.16,-69.50:99
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chr1 3087912 . A G 1267.81 SnpCluster AC=1;AF=0.50;AN=2;DP=68;Dels=0.03;HRun=1;HaplotypeScore=32.88;MQ=28.45;MQ0=0;QD=18.64;SB=-474.20 GT:AD:DP:GL:GQ 0/1:22,44:48:-143.92,-13.86,-20.32:64.59
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chr1 3087920 . G A 574.31 SnpCluster AC=1;AF=0.50;AN=2;DP=74;Dels=0.04;HRun=0;HaplotypeScore=182.60;MQ=28.60;MQ0=0;QD=7.76;SB=-289.69 GT:AD:DP:GL:GQ 0/1:50,21:71:-81.21,-20.50,-157.25:99
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chr1 3087952 . G A 1075.62 Indel AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=0;HaplotypeScore=58.78;MQ=31.99;MQ0=0;QD=13.62;SB=-555.39 GT:AD:DP:GL:GQ 0/1:45,34:75:-133.45,-22.61,-136.49:99
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chr1 3087978 . A G 38.22 DPFilter;Indel;LowQual AC=1;AF=0.50;AN=2;DP=109;Dels=0.02;HRun=1;HaplotypeScore=54.40;MQ=36.04;MQ0=0;QD=0.35;SB=94.63 GT:AD:DP:GL:GQ 0/1:93,14:103:-37.54,-30.43,-360.90:71.06
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chr1 3088004 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=0;HaplotypeScore=30.72;MQ=40.10;MQ0=2;OQ=423.13;QD=3.00;SB=9.29 GT:AD:DP:GL:GQ 0/1:121,20:123:-82.68,-37.08,-335.63:99
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chr1 3088013 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=142;Dels=0.03;HRun=0;HaplotypeScore=47.98;MQ=41.19;MQ0=4;OQ=426.97;QD=3.01;SB=-54.18 GT:AD:DP:GL:GQ 0/1:112,26:133:-84.85,-38.87,-412.97:99
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chr1 3088015 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=42.51;MQ=41.21;MQ0=4;OQ=465.21;QD=3.21;SB=-60.11 GT:AD:DP:GL:GQ 0/1:116,29:131:-89.28,-39.48,-409.01:99
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chr1 3088100 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=132;Dels=0.00;HRun=0;HaplotypeScore=4.53;MQ=40.45;MQ0=11;OQ=130.52;QD=0.99;SB=-31.41 GT:AD:DP:GL:GQ 0/1:119,13:106:-48.30,-31.97,-302.63:99
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chr1 3088101 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=0;HaplotypeScore=4.53;MQ=40.49;MQ0=10;OQ=71.07;QD=0.55;SB=-5.78 GT:AD:DP:GL:GQ 0/1:117,11:111:-47.37,-36.98,-326.83:99
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chr1 3088217 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=80;Dels=0.01;HRun=0;HaplotypeScore=17.08;MQ=42.86;MQ0=1;OQ=126.54;QD=1.58;SB=-85.23 GT:AD:DP:GL:GQ 0/1:66,13:74:-37.94,-22.00,-241.16:99
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chr1 3088220 rs34886760 A G 0.65 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.01;HRun=1;HaplotypeScore=12.97;MQ=43.96;MQ0=1;OQ=1584.16;QD=20.84;SB=-521.89 GT:AD:DP:GL:GQ 0/1:11,64:65:-181.29,-19.59,-39.63:99
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chr1 3088304 rs61759175 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=118;Dels=0.08;HRun=0;HaplotypeScore=55.59;MQ=46.00;MQ0=11;OQ=251.71;QD=2.13;SB=81.71 GT:AD:DP:GL:GQ 0/1:90,18:102:-58.89,-30.43,-301.97:99
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chr1 3088575 rs2817134 T C 3.03 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=5.64;MQ=59.45;MQ0=0;OQ=1472.39;QD=35.06;SB=-604.20 GT:AD:DP:GL:GQ 1/1:0,42:42:-150.84,-12.65,-0.02:99
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chr1 3088745 rs2651931 C T 32.64 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=1.49;MQ=59.44;MQ0=0;OQ=1502.67;QD=36.65;SB=-632.85 GT:AD:DP:GL:GQ 1/1:0,40:38:-153.86,-11.45,-0.01:99
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chr1 3088761 rs2817135 T C 98.95 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.39;MQ0=0;OQ=1114.54;QD=29.33;SB=-484.51 GT:AD:DP:GL:GQ 1/1:0,38:36:-115.07,-10.86,-0.04:99
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chr1 3089054 rs950200 A G 135.40 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.38;MQ0=0;OQ=1494.35;QD=33.21;SB=-586.20 GT:AD:DP:GL:GQ 1/1:0,45:43:-153.04,-12.95,-0.02:99
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chr1 3091593 rs9660914 G A 174.18 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.63;MQ0=0;OQ=2157.13;QD=34.24;SB=-1073.97 GT:AD:DP:GL:GQ 1/1:0,63:58:-219.33,-17.49,-0.04:99
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chr1 3093686 rs4233024 C T 199.19 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.75;MQ0=0;OQ=1964.65;QD=37.78;SB=-829.97 GT:AD:DP:GL:GQ 1/1:0,52:51:-200.08,-15.37,-0.03:99
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chr1 3094490 rs10752733 A G 125.27 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=1561.08;QD=30.61;SB=-635.88 GT:AD:DP:GL:GQ 1/1:0,51:49:-159.74,-14.78,-0.04:99
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chr1 3094942 rs2817136 G A 89.99 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=1690.06;QD=36.74;SB=-568.32 GT:AD:DP:GL:GQ 1/1:0,46:44:-172.61,-13.26,-0.02:99
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chr1 3095136 rs2817138 T G 4.52 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=6.65;MQ=58.92;MQ0=0;OQ=1072.43;QD=24.94;SB=-511.45 GT:AD:DP:GL:GQ 1/1:0,43:37:-110.87,-11.16,-0.04:99
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chr1 3095423 rs2651919 G T 722.39 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=2110.88;QD=35.78;SB=-952.39 GT:AD:DP:GL:GQ 1/1:0,59:58:-214.69,-17.47,-0.02:99
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chr1 3095697 rs2651918 T C 14.21 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=3.68;MQ=59.20;MQ0=0;OQ=1955.56;QD=33.72;SB=-956.98 GT:AD:DP:GL:GQ 1/1:0,58:55:-199.16,-16.57,-0.02:99
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chr1 3095769 rs2817139 A G 514.86 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.29;MQ0=0;OQ=1684.86;QD=27.18;SB=-755.66 GT:AD:DP:GL:GQ 1/1:0,62:53:-172.12,-15.99,-0.05:99
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chr1 3095922 rs7530075 G A 526.13 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1784.81;QD=39.66;SB=-851.64 GT:AD:DP:GL:GQ 1/1:0,45:45:-182.08,-13.55,-0.01:99
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chr1 3096128 rs2651917 C G 97.32 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=58.80;MQ0=0;OQ=1717.27;QD=36.54;SB=-542.46 GT:AD:DP:GL:GQ 1/1:0,47:42:-175.34,-12.67,-0.03:99
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chr1 3096165 rs7545798 A G 335.50 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.06;MQ0=0;OQ=1218.45;QD=30.46;SB=-546.04 GT:AD:DP:GL:GQ 1/1:0,40:39:-125.47,-11.76,-0.04:99
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chr1 3096243 rs7545871 A G 179.87 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=1274.76;QD=30.35;SB=-481.26 GT:AD:DP:GL:GQ 1/1:0,42:39:-131.09,-11.76,-0.02:99
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chr1 3096257 rs2651916 C T 670.34 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=1810.18;QD=36.20;SB=-763.02 GT:AD:DP:GL:GQ 1/1:0,50:47:-184.62,-14.16,-0.02:99
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chr1 3096476 rs2817140 A G 6.35 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=1038.30;QD=28.84;SB=-515.16 GT:AD:DP:GL:GQ 1/1:0,36:34:-107.45,-10.26,-0.04:99
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chr1 3096661 rs61759179 G A 1.83 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=5.55;MQ=53.62;MQ0=2;OQ=1172.74;QD=30.07;SB=-520.65 GT:AD:DP:GL:GQ 1/1:8,31:31:-120.87,-9.34,-0.01:93.29
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chr1 3096814 rs2817141 T C 22.79 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=1.30;MQ=59.19;MQ0=0;OQ=1269.17;QD=27.59;SB=-620.79 GT:AD:DP:GL:GQ 1/1:0,46:42:-130.56,-12.68,-0.06:99
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chr1 3097140 rs1875451 C T 277.41 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.63;MQ0=0;OQ=1807.86;QD=35.45;SB=-805.30 GT:AD:DP:GL:GQ 1/1:0,51:46:-184.39,-13.86,-0.02:99
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chr1 3098276 rs2651914 T G 143.53 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=2148.66;QD=35.22;SB=-1029.38 GT:AD:DP:GL:GQ 1/1:0,61:61:-218.47,-18.37,-0.02:99
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chr1 3098356 rs10737190 G A 615.19 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=3298.92;QD=39.75;SB=-1410.68 GT:AD:DP:GL:GQ 1/1:0,83:81:-328.89,-24.40,-0.02:99
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chr1 3098377 rs6685614 G A 280.84 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=59.78;MQ0=0;OQ=3233.06;QD=38.95;SB=-1261.68 GT:AD:DP:GL:GQ 1/1:0,83:82:-327.11,-24.71,-0.03:99
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chr1 3099011 rs7539775 G A 230.88 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=59.47;MQ0=0;OQ=1818.76;QD=34.98;SB=-678.01 GT:AD:DP:GL:GQ 1/1:1,51:49:-188.18,-14.77,-2.72:99
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chr1 3100277 rs2651913 C G 465.83 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1755.38;QD=41.79;SB=-899.81 GT:AD:DP:GL:GQ 1/1:0,42:41:-179.13,-12.35,-0.01:99
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chr1 3100595 rs2651912 T C 68.37 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=4.22;MQ=58.95;MQ0=0;OQ=646.58;QD=10.43;SB=-279.12 GT:AD:DP:GL:GQ 0/1:33,29:56:-84.82,-16.88,-119.30:99
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chr1 3104232 . G A 37.52 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=60.00;MQ0=0;OQ=572.60;QD=16.36;SB=-260.57 GT:AD:DP:GL:GQ 0/1:16,19:33:-70.49,-9.94,-51.89:99
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chr1 3105581 rs950449 C G 114.98 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=1.91;MQ=60.00;MQ0=0;OQ=352.20;QD=14.09;SB=-136.76 GT:AD:DP:GL:GQ 0/1:14,11:24:-45.74,-7.23,-56.39:99
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chr1 3106518 rs2651923 T C 555.63 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.18;MQ0=0;OQ=1262.70;QD=28.70;SB=-607.93 GT:AD:DP:GL:GQ 1/1:0,44:40:-129.89,-12.07,-0.04:99
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chr1 3110061 rs2817142 T C 84.27 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.68;MQ=58.76;MQ0=0;OQ=950.22;QD=27.95;SB=-463.20 GT:AD:DP:GL:GQ 1/1:1,33:31:-98.64,-9.35,-0.03:93.20
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chr1 3113619 rs2817143 T C 475.54 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=1485.25;QD=30.31;SB=-541.01 GT:AD:DP:GL:GQ 1/1:0,49:46:-152.15,-13.87,-0.04:99
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chr1 3119305 . C T 6.85 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=2;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=482.22;QD=12.06;SB=-197.28 GT:AD:DP:GL:GQ 0/1:23,17:38:-62.96,-11.45,-76.10:99
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chr1 3119433 rs60892783 T A 341.04 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.85;MQ0=0;OQ=778.15;QD=15.26;SB=-381.44 GT:AD:DP:GL:GQ 0/1:26,25:51:-96.46,-15.36,-96.60:99
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chr1 3124191 rs12124147 C T 18.37 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=4;HaplotypeScore=1.41;MQ=60.00;MQ0=0;OQ=2106.36;QD=38.30;SB=-923.21 GT:AD:DP:GL:GQ 1/1:0,55:54:-214.24,-16.27,-0.02:99
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chr1 3125697 . G A 48.02 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=3.90;MQ=59.58;MQ0=0;OQ=894.40;QD=16.26;SB=-426.44 GT:AD:DP:GL:GQ 0/1:28,27:53:-108.70,-15.98,-81.48:99
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chr1 3133804 rs10737191 T C 216.08 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.05;MQ0=0;OQ=1310.90;QD=29.79;SB=-629.85 GT:AD:DP:GL:GQ 1/1:0,44:43:-134.73,-12.98,-0.05:99
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chr1 3137939 rs2651921 T C 31.09 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=1.62;MQ=57.88;MQ0=0;OQ=1318.12;QD=31.38;SB=-539.87 GT:AD:DP:GL:GQ 1/1:0,42:38:-135.41,-11.45,-0.01:99
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chr1 3139859 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=4;HaplotypeScore=1.59;MQ=58.84;MQ0=0;OQ=177.35;QD=4.43;SB=56.21 GT:AD:DP:GL:GQ 0/1:24,16:34:-31.27,-10.25,-94.47:99
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chr1 3140395 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=1;HaplotypeScore=11.19;MQ=58.95;MQ0=0;OQ=93.28;QD=2.12;SB=71.27 GT:AD:DP:GL:GQ 0/1:31,13:33:-22.56,-9.95,-125.01:99
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chr1 3146326 rs2455112 A G 135.43 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=2.76;MQ=60.00;MQ0=0;OQ=1096.93;QD=16.88;SB=-503.18 GT:AD:DP:GL:GQ 0/1:28,37:65:-132.56,-19.58,-110.95:99
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chr1 3151094 . T G 27.85 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=10.51;MQ=58.72;MQ0=0;QD=0.55;SB=62.22 GT:AD:DP:GL:GQ 0/1:29,22:34:-16.31,-10.24,-101.82:60.68
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chr1 3154977 . C T 20.55 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=59.05;MQ0=0;OQ=960.26;QD=19.60;SB=-359.36 GT:AD:DP:GL:GQ 0/1:20,29:48:-113.77,-14.46,-73.03:99
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chr1 3155966 rs1105111 C A 740.08 Indel AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=6;HaplotypeScore=0.00;MQ=60.39;MQ0=0;QD=13.46;SB=-187.60 GT:AD:DP:GL:GQ 0/1:28,27:54:-93.56,-16.26,-102.62:99
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chr1 3156860 . C A 1.29 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=2;HaplotypeScore=2.70;MQ=59.41;MQ0=0;OQ=714.68;QD=18.33;SB=-335.33 GT:AD:DP:GL:GQ 0/1:15,24:39:-86.50,-11.75,-50.10:99
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chr1 3157063 rs60443258 C G 197.93 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.43;MQ0=0;OQ=467.30;QD=14.16;SB=-190.23 GT:AD:DP:GL:GQ 0/1:18,15:33:-59.97,-9.95,-75.73:99
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chr1 3158034 rs11589327 C T 221.90 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=55.82;MQ0=0;OQ=602.02;QD=14.68;SB=-226.92 GT:AD:DP:GL:GQ 0/1:22,19:39:-75.24,-11.75,-65.81:99
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chr1 3158063 rs61759183 G A 105.26 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.23;MQ=54.25;MQ0=0;OQ=859.64;QD=18.29;SB=-349.39 GT:AD:DP:GL:GQ 0/1:17,30:44:-102.53,-13.28,-49.01:99
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chr1 3158107 rs55987640 G A 184.91 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=55.61;MQ0=0;OQ=836.43;QD=16.73;SB=-292.80 GT:AD:DP:GL:GQ 0/1:21,29:42:-99.58,-12.65,-57.74:99
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chr1 3158110 rs10909910 G C 37.93 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.63;MQ=55.78;MQ0=0;OQ=2043.92;QD=39.31;SB=-983.24 GT:AD:DP:GL:GQ 1/1:0,52:49:-208.00,-14.77,-0.02:99
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chr1 3158140 rs10797386 A G 147.32 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=58.66;MQ0=0;OQ=1752.75;QD=33.71;SB=-820.65 GT:AD:DP:GL:GQ 1/1:0,52:49:-178.87,-14.76,-0.02:99
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chr1 3158322 rs12143201 C T 107.15 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=58.81;MQ0=0;OQ=1087.80;QD=19.78;SB=-426.85 GT:AD:DP:GL:GQ 0/1:23,32:54:-128.34,-16.28,-69.54:99
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chr1 3158948 rs7539489 G A 212.35 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.64;MQ=59.50;MQ0=0;OQ=701.66;QD=15.25;SB=-203.89 GT:AD:DP:GL:GQ 0/1:22,24:42:-86.11,-12.66,-64.73:99
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chr1 3160428 rs56015432 C G 319.35 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=42.71;MQ0=18;OQ=1056.37;QD=11.61;SB=-361.10 GT:AD:DP:GL:GQ 0/1:52,38:68:-131.78,-22.86,-160.18:99
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chr1 3160647 rs2376494 T C 490.07 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.54;MQ0=5;OQ=1049.98;QD=13.46;SB=-449.81 GT:AD:DP:GL:GQ 0/1:34,44:69:-129.08,-20.80,-121.01:99
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chr1 3160969 rs61691507 T C 83.17 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=3;HaplotypeScore=0.96;MQ=48.88;MQ0=0;OQ=936.08;QD=14.18;SB=-414.90 GT:AD:DP:GL:GQ 0/1:32,34:63:-115.87,-18.98,-126.60:99
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chr1 3161244 rs28883366 T C 328.67 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=20.07;MQ0=44;OQ=827.10;QD=11.18;SB=-204.07 GT:AD:DP:GL:GQ 1/1:25,49:28:-86.33,-8.45,-0.03:84.18
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chr1 3161789 rs4648464 G A 197.91 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.39;MQ=53.22;MQ0=0;OQ=1078.68;QD=20.35;SB=-414.45 GT:AD:DP:GL:GQ 0/1:21,32:51:-126.53,-15.37,-60.62:99
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chr1 3161922 rs4648465 G A 93.86 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=50.73;MQ0=0;OQ=1117.60;QD=22.35;SB=-454.98 GT:AD:DP:GL:GQ 0/1:18,32:50:-130.11,-15.06,-59.43:99
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chr1 3162133 rs2455100 T C 1.91 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=5.09;MQ=58.24;MQ0=0;OQ=1353.88;QD=28.21;SB=-366.45 GT:AD:DP:GL:GQ 1/1:0,48:45:-139.02,-13.58,-0.05:99
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chr1 3162911 rs6699624 G C 272.84 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.50;MQ0=0;OQ=1093.08;QD=16.07;SB=-449.43 GT:AD:DP:GL:GQ 0/1:32,35:63:-131.59,-19.00,-134.16:99
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chr1 3163088 rs1971330 C T 114.07 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=49.78;MQ0=0;OQ=900.72;QD=19.58;SB=-445.49 GT:AD:DP:GL:GQ 0/1:19,27:44:-106.61,-13.25,-68.73:99
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chr1 3163142 rs1971331 A G 155.18 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=39.25;MQ0=0;OQ=1400.23;QD=30.44;SB=-715.29 GT:AD:DP:GL:GQ 1/1:0,46:45:-143.65,-13.57,-0.04:99
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chr1 3165231 rs10909912 T G 383.69 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.06;MQ0=0;OQ=430.36;QD=10.76;SB=-234.78 GT:AD:DP:GL:GQ 0/1:20,20:39:-58.07,-11.75,-73.52:99
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chr1 3165588 rs2455101 A G 194.31 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.36;MQ0=0;OQ=514.34;QD=12.86;SB=-185.55 GT:AD:DP:GL:GQ 0/1:18,22:37:-65.87,-11.15,-65.63:99
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chr1 3165783 . C T 13.80 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=427.64;QD=9.30;SB=-160.18 GT:AD:DP:GL:GQ 0/1:30,16:42:-58.70,-12.66,-94.89:99
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chr1 3166230 . C G 139.63 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=825.87;QD=15.88;SB=-367.51 GT:AD:DP:GL:GQ 0/1:23,29:49:-100.65,-14.78,-100.14:99
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chr1 3167106 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=181.43;MQ=36.47;MQ0=0;OQ=530.53;QD=4.31;SB=-209.32 GT:AD:DP:GL:GQ 0/1:66,39:92:-95.27,-38.93,-253.94:99
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chr1 3167116 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=174;Dels=0.01;HRun=1;HaplotypeScore=260.94;MQ=34.61;MQ0=0;OQ=942.41;QD=5.42;SB=-369.43 GT:AD:DP:GL:GQ 0/1:66,57:123:-208.12,-110.59,-323.19:99
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chr1 3167119 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=191;Dels=0.00;HRun=1;HaplotypeScore=217.51;MQ=34.08;MQ0=0;OQ=198.48;QD=1.04;SB=93.36 GT:AD:DP:GL:GQ 0/1:148,42:118:-61.70,-38.57,-398.62:99
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chr1 3167131 . G A 38.92 DPFilter;Indel;LowQual AC=1;AF=0.50;AN=2;DP=216;Dels=0.00;HRun=0;HaplotypeScore=418.78;MQ=33.67;MQ0=0;QD=0.18;SB=-15.26 GT:AD:DP:GL:GQ 0/1:171,44:118:-42.73,-35.55,-373.47:71.75
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chr1 3167160 . G A 609.50 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=190;Dels=0.00;HRun=0;HaplotypeScore=319.28;MQ=32.32;MQ0=1;QD=3.21;SB=-149.32 GT:AD:DP:GL:GQ 0/1:134,56:72:-85.93,-21.70,-173.92:99
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chr1 3167161 . T C 245.51 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=188;Dels=0.00;HRun=0;HaplotypeScore=318.96;MQ=32.30;MQ0=1;QD=1.31;SB=53.20 GT:AD:DP:GL:GQ 0/1:174,14:59:-45.63,-17.79,-171.10:99
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chr1 3167162 . G A 200.87 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=187;Dels=0.00;HRun=0;HaplotypeScore=336.60;MQ=32.32;MQ0=1;QD=1.07;SB=56.18 GT:AD:DP:GL:GQ 0/1:174,10:62:-51.08,-27.71,-180.52:99
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chr1 3167163 . G A 107.11 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=184;Dels=0.00;HRun=0;HaplotypeScore=325.93;MQ=32.20;MQ0=1;QD=0.58;SB=-62.93 GT:AD:DP:GL:GQ 0/1:163,18:64:-33.28,-19.29,-195.22:99
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chr1 3167166 . A G 243.37 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=314.12;MQ=31.98;MQ0=1;QD=1.36;SB=56.35 GT:AD:DP:GL:GQ 0/1:138,41:62:-46.30,-18.68,-187.52:99
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chr1 3167169 . A G 120.84 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=185;Dels=0.00;HRun=1;HaplotypeScore=387.92;MQ=32.13;MQ0=1;QD=0.65;SB=76.41 GT:AD:DP:GL:GQ 0/1:141,44:79:-39.18,-23.81,-262.75:99
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chr1 3167180 rs57179041 G A 114.65 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=141;Dels=0.00;HRun=1;HaplotypeScore=408.58;MQ=31.71;MQ0=1;QD=0.81;SB=86.30 GT:AD:DP:GL:GQ 0/1:118,23:43:-27.70,-12.95,-132.25:99
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chr1 3167181 . A G 38.85 DPFilter;Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=1;HaplotypeScore=419.93;MQ=31.63;MQ0=1;QD=0.28;SB=86.30 GT:AD:DP:GL:GQ 0/1:108,33:42:-19.82,-12.66,-143.77:71.68
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chr1 3167187 . T C 11.48 DPFilter;Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=120;Dels=0.41;HRun=0;HaplotypeScore=330.20;MQ=31.90;MQ0=1;QD=0.10;SB=5.04 GT:AD:DP:GL:GQ 0/1:52,5:44:-17.05,-12.65,-148.02:44
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chr1 3167189 . G A 33.08 DPFilter;Indel;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=123;Dels=0.12;HRun=1;HaplotypeScore=208.65;MQ=32.18;MQ0=1;QD=0.27;SB=8.05 GT:AD:DP:GL:GQ 0/1:103,5:46:-20.45,-13.86,-154.58:65.91
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chr1 3167200 rs57648616 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=119;Dels=0.00;HRun=0;HaplotypeScore=125.27;MQ=33.30;MQ0=1;OQ=406.22;QD=3.41;SB=39.53 GT:AD:DP:GL:GQ 0/1:44,74:56:-63.73,-19.82,-152.72:99
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chr1 3167205 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=1;HaplotypeScore=95.81;MQ=33.44;MQ0=1;OQ=560.09;QD=4.87;SB=72.41 GT:AD:DP:GL:GQ 0/1:70,45:71:-80.68,-21.39,-190.32:99
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chr1 3167222 rs57879698 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=1;HaplotypeScore=105.67;MQ=36.94;MQ0=1;OQ=371.38;QD=4.08;SB=65.41 GT:AD:DP:GL:GQ 0/1:54,36:67:-60.61,-20.18,-198.91:99
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chr1 3167226 . A G 25.97 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=1;HaplotypeScore=94.17;MQ=37.02;MQ0=1;QD=0.29;SB=104.36 GT:AD:DP:GL:GQ 0/1:77,13:68:-26.37,-20.49,-239.07:58.80
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chr1 3167247 . A G 94.62 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=9.30;MQ=43.30;MQ0=0;QD=1.30;SB=66.40 GT:AD:DP:GL:GQ 0/1:60,13:64:-32.03,-19.29,-213.53:99
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chr1 3167248 rs61151413 C T 166.25 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=15.29;MQ=43.46;MQ0=0;QD=2.31;SB=80.73 GT:AD:DP:GL:GQ 0/1:59,13:65:-39.51,-19.60,-174.44:99
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chr1 3167253 . A G 43.60 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=1;HaplotypeScore=18.65;MQ=43.75;MQ0=0;QD=0.56;SB=110.39 GT:AD:DP:GL:GQ 0/1:68,10:69:-28.43,-20.79,-243.20:76.44
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chr1 3167258 . G A 29.42 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=1;HaplotypeScore=29.46;MQ=43.75;MQ0=0;QD=0.38;SB=107.33 GT:AD:DP:GL:GQ 0/1:71,7:70:-27.32,-21.09,-225.20:62.25
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chr1 3167340 rs3002685 A G 235.56 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=44.86;MQ0=0;OQ=812.94;QD=11.29;SB=-432.88 GT:AD:DP:GL:GQ 0/1:35,37:64:-103.87,-19.29,-131.86:99
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chr1 3167551 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=15;HaplotypeScore=12.64;MQ=52.48;MQ0=0;OQ=368.96;QD=5.95;SB=77.28 GT:AD:DP:GL:GQ 0/1:44,18:52:-55.84,-15.67,-137.44:99
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chr1 3168576 . C T 188.74 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.69;MQ0=0;OQ=823.49;QD=13.72;SB=-404.84 GT:AD:DP:GL:GQ 0/1:34,26:58:-103.11,-17.48,-109.21:99
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chr1 3169081 . C T 79.34 PASS AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=59.66;MQ0=0;OQ=1096.77;QD=16.37;SB=-547.56 GT:AD:DP:GL:GQ 0/1:32,35:63:-131.94,-18.98,-108.41:99
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chr1 3169567 rs1501611 G A 10.13 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=8.26;MQ=58.29;MQ0=0;OQ=520.16;QD=12.69;SB=-281.22 GT:AD:DP:GL:GQ 0/1:21,20:36:-66.15,-10.85,-62.40:99
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chr1 3169746 rs2455106 G C 285.96 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=1036.68;QD=23.56;SB=-535.79 GT:AD:DP:GL:GQ 0/1:15,29:43:-119.91,-12.96,-65.17:99
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chr1 3170018 rs2455107 T G 277.10 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=3.18;MQ=59.50;MQ0=0;OQ=669.75;QD=14.56;SB=-280.87 GT:AD:DP:GL:GQ 0/1:21,25:42:-82.91,-12.65,-66.12:99
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chr1 3170493 rs2455102 A G 356.81 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.62;MQ0=0;OQ=653.73;QD=10.21;SB=-205.32 GT:AD:DP:GL:GQ 0/1:37,27:63:-87.64,-18.99,-144.47:99
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chr1 3170958 . C T 1.10 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=5.86;MQ=59.55;MQ0=0;OQ=1035.67;QD=20.31;SB=-528.11 GT:AD:DP:GL:GQ 0/1:20,31:50:-121.92,-15.07,-64.72:99
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chr1 3171559 rs2500250 T C 389.53 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=60.00;MQ0=0;OQ=559.12;QD=10.55;SB=-252.33 GT:AD:DP:GL:GQ 0/1:30,23:52:-74.86,-15.66,-123.43:99
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chr1 3171782 rs10909913 A G 116.69 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=2.90;MQ=59.63;MQ0=0;OQ=1003.48;QD=15.93;SB=-509.29 GT:AD:DP:GL:GQ 0/1:27,35:61:-122.01,-18.38,-106.15:99
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chr1 3172391 rs2455096 A C 43.29 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=287.98;QD=8.47;SB=-120.97 GT:AD:DP:GL:GQ 0/1:18,16:31:-41.43,-9.34,-63.22:99
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chr1 3172429 rs56042628 C T 96.48 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=60.00;MQ0=0;OQ=280.31;QD=9.34;SB=-80.59 GT:AD:DP:GL:GQ 0/1:19,11:28:-39.76,-8.44,-58.47:99
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chr1 3173020 rs2455094 G A 166.70 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=59.53;MQ0=0;OQ=444.07;QD=11.10;SB=-203.69 GT:AD:DP:GL:GQ 0/1:22,17:34:-57.94,-10.25,-64.34:99
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chr1 3173727 rs2455093 A G 256.03 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=832.24;QD=16.98;SB=-357.94 GT:AD:DP:GL:GQ 0/1:20,29:47:-100.67,-14.16,-75.12:99
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chr1 3174715 rs2455119 G T 285.04 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.49;MQ0=0;OQ=576.42;QD=12.81;SB=-209.45 GT:AD:DP:GL:GQ 0/1:23,22:42:-73.58,-12.65,-77.54:99
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chr1 3176001 . C T 83.35 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.70;MQ0=0;OQ=696.01;QD=13.92;SB=-293.84 GT:AD:DP:GL:GQ 0/1:26,23:46:-86.76,-13.88,-73.45:99
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chr1 3176267 . T G 76.55 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.02;MQ=60.00;MQ0=0;OQ=841.56;QD=14.76;SB=-394.65 GT:AD:DP:GL:GQ 0/1:27,30:56:-104.31,-16.87,-93.27:99
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chr1 3177045 rs3002687 T G 225.19 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=1.21;MQ=59.59;MQ0=0;OQ=571.62;QD=12.43;SB=-258.88 GT:AD:DP:GL:GQ 0/1:24,22:45:-74.00,-13.56,-84.05:99
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chr1 3177468 . C T 3.04 PASS AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=59.42;MQ0=0;OQ=538.59;QD=16.83;SB=-100.92 GT:AD:DP:GL:GQ 0/1:14,18:31:-66.48,-9.34,-49.83:99
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chr1 3177939 rs2500308 A G 95.88 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=1.13;MQ=59.39;MQ0=0;OQ=763.00;QD=10.04;SB=-332.88 GT:AD:DP:GL:GQ 0/1:45,31:71:-100.98,-21.39,-171.46:99
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chr1 3178661 . G A 33.39 PASS AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=60.00;MQ0=0;OQ=796.34;QD=18.96;SB=-401.21 GT:AD:DP:GL:GQ 0/1:18,24:42:-95.58,-12.66,-58.00:99
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chr1 3178998 rs2455127 A G 173.30 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=1.59;MQ=58.67;MQ0=0;OQ=507.17;QD=14.49;SB=-257.35 GT:AD:DP:GL:GQ 0/1:11,24:30:-63.05,-9.05,-41.23:99
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chr1 3179379 . A G 65.56 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=58.32;MQ0=0;OQ=481.41;QD=12.34;SB=-241.93 GT:AD:DP:GL:GQ 0/1:18,21:37:-62.58,-11.16,-65.22:99
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chr1 3179574 rs2455128 A G 108.65 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=0.83;MQ=59.62;MQ0=0;OQ=838.70;QD=13.98;SB=-378.24 GT:AD:DP:GL:GQ 0/1:31,29:59:-104.93,-17.77,-121.27:99
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chr1 3179592 rs2500307 T A 726.45 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2101.50;QD=36.23;SB=-987.86 GT:AD:DP:GL:GQ 1/1:0,58:58:-213.75,-17.47,-0.02:99
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chr1 3182386 rs2500304 T C 246 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=59.51;MQ0=0;OQ=550.86;QD=11.72;SB=-174.37 GT:AD:DP:GL:GQ 0/1:23,24:45:-71.94,-13.57,-90.75:99
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chr1 3182819 rs2455131 A G 160.52 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=4.10;MQ=53.72;MQ0=0;OQ=380.67;QD=9.28;SB=-185.58 GT:AD:DP:GL:GQ 0/1:26,15:41:-53.71,-12.35,-99.70:99
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chr1 3183091 . T G 31.12 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=4.54;MQ=48.96;MQ0=0;QD=0.80;SB=16.16 GT:AD:DP:GL:GQ 0/1:34,5:37:-17.54,-11.14,-116.34:63.95
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chr1 3183092 . C A 30.14 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=9.54;MQ=48.87;MQ0=0;QD=0.74;SB=14.77 GT:AD:DP:GL:GQ 0/1:36,5:37:-17.45,-11.16,-100.79:62.97
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chr1 3183861 rs55923982 G C 139.29 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.45;MQ=57.45;MQ0=0;OQ=542.30;QD=11.79;SB=-148.38 GT:AD:DP:GL:GQ 0/1:27,19:44:-70.78,-13.27,-111.52:99
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chr1 3184193 rs2455115 A G 314.03 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=53.52;MQ0=0;OQ=598.87;QD=12.22;SB=-281.59 GT:AD:DP:GL:GQ 0/1:25,24:48:-77.64,-14.47,-94.87:99
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chr1 3185401 . G T 101.68 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=59.51;MQ0=0;OQ=440.43;QD=11.59;SB=-233.97 GT:AD:DP:GL:GQ 0/1:19,19:33:-57.27,-9.94,-56.75:99
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chr1 3187015 . G A 77.56 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.20;MQ=59.67;MQ0=0;OQ=971.62;QD=17.05;SB=-421.44 GT:AD:DP:GL:GQ 0/1:28,29:55:-117.01,-16.57,-95.93:99
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chr1 3188693 rs905137 A G 186.40 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=59.61;MQ0=0;OQ=484.36;QD=10.09;SB=-266.22 GT:AD:DP:GL:GQ 0/1:25,23:44:-64.98,-13.26,-96.26:99
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chr1 3189244 rs905136 A G 4.18 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=4;HaplotypeScore=2.03;MQ=60.00;MQ0=0;OQ=654.87;QD=15.97;SB=-328.31 GT:AD:DP:GL:GQ 0/1:18,23:38:-80.22,-11.45,-60.36:99
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chr1 3189344 rs905135 A C 1.64 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=6.41;MQ=59.54;MQ0=0;OQ=215.02;QD=4.30;SB=-100.13 GT:AD:DP:GL:GQ 0/1:35,15:44:-38.04,-13.26,-114.24:99
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chr1 3189859 rs2500302 T C 241.97 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=58.92;MQ0=0;OQ=339.74;QD=8.71;SB=-144.67 GT:AD:DP:GL:GQ 0/1:23,16:37:-48.41,-11.15,-86.58:99
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chr1 3190143 rs56004439 G A 2.42 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=8.41;MQ=57.37;MQ0=0;OQ=401.65;QD=8.37;SB=-155.21 GT:AD:DP:GL:GQ 0/1:33,15:46:-57.32,-13.87,-99.82:99
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chr1 3190754 . G A 32.75 PASS AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=1225.08;QD=18.85;SB=-426.92 GT:AD:DP:GL:GQ 0/1:29,36:64:-145.07,-19.28,-99.09:99
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chr1 3190930 rs6685398 C A 88.85 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=4.12;MQ=60.00;MQ0=0;OQ=531.21;QD=13.28;SB=-273.35 GT:AD:DP:GL:GQ 0/1:21,19:39:-68.15,-11.75,-68.57:99
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chr1 3190993 rs6690217 A C 128.36 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.55;MQ0=0;OQ=1454.60;QD=28.52;SB=-648.68 GT:AD:DP:GL:GQ 1/1:0,51:48:-149.09,-14.47,-0.05:99
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chr1 3192051 . C T 11.01 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.25;MQ0=0;OQ=927.90;QD=18.56;SB=-215.90 GT:AD:DP:GL:GQ 0/1:20,30:48:-110.53,-14.46,-70.14:99
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chr1 3192870 rs10797387 A C 142.29 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=1.89;MQ=59.80;MQ0=0;OQ=775.82;QD=12.93;SB=-322.85 GT:AD:DP:GL:GQ 0/1:30,30:54:-97.13,-16.27,-96.18:99
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chr1 3193262 . A G 27.47 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=60.00;MQ0=0;OQ=435.09;QD=14.04;SB=-158.61 GT:AD:DP:GL:GQ 0/1:13,18:29:-55.53,-8.74,-48.24:99
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chr1 3193691 rs12024838 G C 0.85 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=9.20;MQ=52.13;MQ0=0;OQ=313.95;QD=12.08;SB=-105.65 GT:AD:DP:GL:GQ 0/1:16,10:19:-40.41,-5.73,-35.18:99
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chr1 3193692 rs61759191 C T 0.47 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=9.20;MQ=52.13;MQ0=0;OQ=179.56;QD=6.91;SB=-26.50 GT:AD:DP:GL:GQ 0/1:18,8:19:-26.97,-5.73,-38.66:99
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chr1 3193738 rs10909916 C G 2.42 PASS AC=1;AF=0.50;AN=2;DB;DP=14;Dels=0.00;HRun=1;HaplotypeScore=6.33;MQ=40.46;MQ0=4;OQ=154.87;QD=11.06;SB=-44.90 GT:AD:DP:GL:GQ 0/1:9,5:7:-20.88,-2.11,-8.99:68.77
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chr1 3194086 rs6687930 T C 3.78 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=48.01;MQ0=1;OQ=344.21;QD=18.12;SB=-6.99 GT:AD:DP:GL:GQ 0/1:2,17:14:-41.92,-4.22,-8.13:39.10
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chr1 3194355 rs2134119 C G 59.27 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=4.23;MQ=54.23;MQ0=0;OQ=781.76;QD=15.95;SB=-353.76 GT:AD:DP:GL:GQ 0/1:22,27:44:-94.74,-13.28,-81.77:99
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chr1 3194394 rs2455117 T A 339.54 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=56.31;MQ0=0;OQ=679.10;QD=15.43;SB=-276.72 GT:AD:DP:GL:GQ 0/1:22,22:42:-83.84,-12.65,-73.08:99
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chr1 3197040 rs2250291 C T 260.09 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=1.57;MQ=59.34;MQ0=0;OQ=469.67;QD=13.42;SB=-216.70 GT:AD:DP:GL:GQ 0/1:18,17:34:-60.50,-10.25,-62.96:99
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chr1 3197640 rs55866132 G A 241.93 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=1.46;MQ=60.00;MQ0=0;OQ=793.46;QD=13.45;SB=-307.77 GT:AD:DP:GL:GQ 0/1:34,25:59:-100.40,-17.77,-123.91:99
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chr1 3197902 rs2500297 C T 238.37 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=60.00;MQ0=0;OQ=756.06;QD=14.00;SB=-170.24 GT:AD:DP:GL:GQ 0/1:30,24:49:-93.65,-14.77,-87.43:99
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chr1 3198235 rs10909918 A G 238.34 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=60.00;MQ0=0;OQ=490.49;QD=8.92;SB=-208.46 GT:AD:DP:GL:GQ 0/1:32,23:51:-67.70,-15.37,-121.94:99
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chr1 3198466 . G A 262.64 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=604.73;QD=12.34;SB=-281.22 GT:AD:DP:GL:GQ 0/1:28,21:46:-77.62,-13.87,-86.11:99
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chr1 3199356 rs2500295 T C 571.16 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.75;MQ0=0;OQ=1482.44;QD=28.51;SB=-763.58 GT:AD:DP:GL:GQ 1/1:0,52:48:-151.88,-14.48,-0.05:99
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chr1 3199491 rs4648376 G A 14.27 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=4.90;MQ=58.90;MQ0=0;OQ=2231.72;QD=37.83;SB=-1015.37 GT:AD:DP:GL:GQ 1/1:0,59:58:-226.79,-17.49,-0.03:99
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chr1 3199627 rs2500294 C T 622.47 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.99;MQ0=0;OQ=2326.22;QD=38.77;SB=-1091.37 GT:AD:DP:GL:GQ 1/1:0,60:58:-236.22,-17.47,-0.02:99
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chr1 3199783 rs1553291 A G 564.79 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=1581.83;QD=29.29;SB=-575.98 GT:AD:DP:GL:GQ 1/1:0,54:51:-161.82,-15.38,-0.05:99
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chr1 3200187 . C T 35.88 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.26;MQ=59.60;MQ0=0;OQ=491.30;QD=10.45;SB=-217.71 GT:AD:DP:GL:GQ 0/1:29,18:43:-65.37,-12.96,-91.60:99
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chr1 3200810 rs4648468 A G 447.48 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.09;MQ0=0;OQ=1398.57;QD=30.40;SB=-596.06 GT:AD:DP:GL:GQ 1/1:0,46:43:-143.47,-12.96,-0.03:99
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chr1 3201105 rs10047257 C T 220.48 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=596.34;QD=15.29;SB=-318.86 GT:AD:DP:GL:GQ 0/1:20,19:38:-74.37,-11.45,-63.70:99
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chr1 3201318 rs4648377 A C 538.98 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=1615.09;QD=33.65;SB=-661.05 GT:AD:DP:GL:GQ 1/1:0,48:47:-165.11,-14.16,-0.02:99
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chr1 3201410 rs4648469 A G 202.17 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=1230.36;QD=30.76;SB=-513.23 GT:AD:DP:GL:GQ 1/1:0,39:38:-126.64,-11.45,-0.02:99
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chr1 3201613 rs4648470 C T 79.16 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=60.00;MQ0=0;OQ=1081.89;QD=24.59;SB=-515.59 GT:AD:DP:GL:GQ 0/1:12,32:43:-124.44,-12.96,-36.35:99
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chr1 3202053 rs2500292 A G 471 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=1432.25;QD=32.55;SB=-511.16 GT:AD:DP:GL:GQ 1/1:0,44:41:-146.83,-12.35,-0.02:99
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chr1 3202174 rs2500291 C T 728.69 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=2429.46;QD=38.56;SB=-1207.61 GT:AD:DP:GL:GQ 1/1:1,62:61:-246.55,-18.37,-0.01:99
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chr1 3202451 rs2500290 G C 18.43 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=0.98;MQ=58.98;MQ0=0;OQ=1616.44;QD=39.43;SB=-797.54 GT:AD:DP:GL:GQ 1/1:0,41:39:-165.25,-11.76,-0.02:99
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chr1 3202782 rs1875452 C G 157.50 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.36;MQ=59.54;MQ0=0;OQ=2035.33;QD=40.71;SB=-884.21 GT:AD:DP:GL:GQ 1/1:0,50:48:-207.14,-14.47,-0.02:99
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chr1 3202806 rs2500289 A G 260.23 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=59.19;MQ0=0;OQ=1923.10;QD=33.74;SB=-724.29 GT:AD:DP:GL:GQ 1/1:0,57:54:-195.91,-16.27,-0.02:99
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chr1 3203962 rs2500288 T C 186.16 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.58;MQ0=0;OQ=1801.36;QD=32.75;SB=-828.32 GT:AD:DP:GL:GQ 1/1:0,55:51:-183.74,-15.36,-0.02:99
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chr1 3204030 rs7553849 T C 226.01 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=56.20;MQ0=0;OQ=1684.70;QD=29.05;SB=-851.52 GT:AD:DP:GL:GQ 1/1:0,58:53:-172.10,-15.99,-0.05:99
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chr1 3204380 rs10442593 A G 67.15 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=958.98;QD=29.97;SB=-369.57 GT:AD:DP:GL:GQ 1/1:0,32:28:-99.49,-8.43,-0.01:84.24
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chr1 3204592 rs2455144 A G 617.75 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=2332.51;QD=29.90;SB=-1027.75 GT:AD:DP:GL:GQ 1/1:0,78:74:-236.91,-22.33,-0.08:99
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chr1 3204835 . G A 53.06 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.06;MQ=60.00;MQ0=0;OQ=892.55;QD=15.13;SB=-296.23 GT:AD:DP:GL:GQ 0/1:30,29:55:-109.11,-16.57,-93.52:99
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chr1 3204852 rs2500287 G T 86 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=60.00;MQ0=0;OQ=2470.97;QD=33.85;SB=-613.02 GT:AD:DP:GL:GQ 1/1:1,71:71:-250.71,-21.39,-0.03:99
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chr1 3205054 . A G 35.05 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.07;MQ=60.00;MQ0=0;OQ=563.88;QD=10.44;SB=-299.62 GT:AD:DP:GL:GQ 0/1:29,25:52:-75.34,-15.67,-118.24:99
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chr1 3205180 rs2455143 A T 124.60 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=2.69;MQ=58.71;MQ0=0;OQ=2383.23;QD=36.67;SB=-1091.65 GT:AD:DP:GL:GQ 1/1:0,65:64:-241.93,-19.28,-0.02:99
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chr1 3205492 rs2455142 T G 512.17 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=49.74;MQ0=0;OQ=2083.81;QD=29.77;SB=-759.91 GT:AD:DP:GL:GQ 1/1:0,70:70:-212.03,-21.10,-0.07:99
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chr1 3205734 rs2455141 A C 27.67 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=40.69;MQ0=0;OQ=504.37;QD=19.40;SB=-155.27 GT:AD:DP:GL:GQ 1/1:2,24:21:-57.94,-6.33,-3.92:24.11
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chr1 3205761 rs2455140 T G 0.29 PASS AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=1;HaplotypeScore=2.39;MQ=22.97;MQ0=1;OQ=235.32;QD=18.10;SB=-39.00 GT:AD:DP:GL:GQ 0/1:2,10:9:-29.50,-2.71,-3.64:9.30
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chr1 3205805 rs12728296 T C 26.83 LowQual AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=13.68;MQ0=0;QD=1.79;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:2:-6.09,-0.60,-0.00:6.01
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chr1 3205846 . G A 232.99 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.36;MQ0=0;OQ=538.85;QD=13.47;SB=-237.77 GT:AD:DP:GL:GQ 0/1:19,21:21:-63.50,-6.33,-16.25:99
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chr1 3206300 rs12036713 A G 35.28 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=14.04;MQ0=4;QD=5.04;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:2:-6.94,-0.60,-0.00:6.02
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chr1 3206493 . T G 46.28 PASS AC=2;AF=1.00;AN=2;DP=11;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=17.34;MQ0=4;OQ=70.14;QD=6.38;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,10:3:-10.50,-0.90,-0.00:9.03
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chr1 3206505 . T C 3.40 PASS AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=18.66;MQ0=4;OQ=95.85;QD=6.85;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,9:5:-14.37,-1.51,-4.06:25.51
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chr1 3206506 . A G 5.49 PASS AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=18.66;MQ0=4;OQ=74.94;QD=5.35;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,9:5:-12.29,-1.51,-3.97:24.63
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chr1 3206538 . G A 1.11 PASS AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=18.43;MQ0=3;OQ=73.15;QD=5.23;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,7:4:-11.80,-1.21,-3.10:18.92
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chr1 3206554 rs56276321 T G 10.51 LowQual AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=19.60;MQ0=3;QD=0.53;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,5:8:-6.70,-2.41,-21.47:42.94
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chr1 3206566 . T C 28.09 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=22.53;MQ0=2;OQ=145.15;QD=6.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,9:12:-21.41,-3.62,-22.84:99
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chr1 3206567 . A G 6.01 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.53;MQ0=2;OQ=85.83;QD=4.09;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,9:11:-15.19,-3.32,-21.71:99
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chr1 3206577 . C T 7.20 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=22.19;MQ0=2;OQ=218.94;QD=10.43;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,11:11:-28.49,-3.31,-13.17:98.62
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chr1 3206588 . A C 10.65 LowQual AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=1;HaplotypeScore=2.88;MQ=22.98;MQ0=0;QD=0.59;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,6:7:-6.42,-2.11,-14.50:43.09
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chr1 3206599 . G A 2.11 PASS AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=22.00;MQ0=0;OQ=65.71;QD=4.11;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,9:7:-11.98,-2.12,-8.40:62.78
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chr1 3206700 . A G 0.69 PASS AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=24.64;MQ0=1;OQ=276.82;QD=18.45;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,14:12:-34.36,-3.62,-3.48:2.36
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chr1 3206761 . A G 22.65 LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=26.60;MQ0=1;QD=0.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:32,10:32:-15.20,-9.65,-103.92:55.47
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chr1 3206926 rs61759194 A G 113.52 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=2.49;MQ=46.00;MQ0=0;OQ=649.36;QD=10.82;SB=-346.23 GT:AD:DP:GL:GQ 0/1:29,31:46:-82.08,-13.86,-88.11:99
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chr1 3207011 rs2455137 C T 379.46 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=48.62;MQ0=0;OQ=1983.22;QD=35.41;SB=-860.00 GT:AD:DP:GL:GQ 1/1:0,56:50:-201.92,-15.06,-0.01:99
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chr1 3207294 rs2500284 G A 102.13 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=1.30;MQ=58.88;MQ0=0;OQ=2616.26;QD=39.05;SB=-1335.76 GT:AD:DP:GL:GQ 1/1:1,66:66:-265.23,-19.89,-0.02:99
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chr1 3208189 rs2455136 A T 142.28 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=2.14;MQ=59.12;MQ0=0;OQ=2529.01;QD=36.65;SB=-1261.52 GT:AD:DP:GL:GQ 1/1:0,69:68:-256.50,-20.48,-0.02:99
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chr1 3208783 rs2500283 G C 612.26 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2831.75;QD=42.91;SB=-1184.48 GT:AD:DP:GL:GQ 1/1:0,66:66:-286.78,-19.89,-0.02:99
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chr1 3209357 rs2500282 A G 594.44 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1981.22;QD=32.48;SB=-526.13 GT:AD:DP:GL:GQ 1/1:0,61:61:-201.75,-18.39,-0.04:99
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chr1 3209761 rs2455135 A G 63.74 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1623.95;QD=30.64;SB=-619.36 GT:AD:DP:GL:GQ 1/1:0,53:46:-165.99,-13.85,-0.01:99
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chr1 3210242 rs2500281 G A 563.38 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.01;MQ0=0;OQ=1613.10;QD=35.07;SB=-716.96 GT:AD:DP:GL:GQ 1/1:0,46:42:-164.91,-12.65,-0.01:99
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chr1 3210275 rs2455134 A G 102.15 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=34.21;MQ0=0;OQ=983.95;QD=25.89;SB=-399.50 GT:AD:DP:GL:GQ 1/1:0,38:28:-101.99,-8.43,-0.01:84.26
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chr1 3210353 rs2455133 C G 65.09 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.54;MQ=35.62;MQ0=2;OQ=1518.72;QD=29.78;SB=-723.73 GT:AD:DP:GL:GQ 1/1:4,47:41:-164.26,-12.36,-8.80:35.57
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chr1 3210943 rs2455132 T C 34.33 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=58.65;MQ0=0;OQ=1292.96;QD=28.73;SB=-546.03 GT:AD:DP:GL:GQ 1/1:1,44:43:-137.07,-12.97,-4.19:87.75
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chr1 3211298 rs56357655 G T 236.14 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.31;MQ0=0;OQ=570.69;QD=13.59;SB=-286.33 GT:AD:DP:GL:GQ 0/1:20,22:39:-72.10,-11.75,-66.92:99
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chr1 3211481 rs4648378 A T 264.07 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1968.99;QD=35.80;SB=-994.60 GT:AD:DP:GL:GQ 1/1:0,55:54:-200.50,-16.27,-0.02:99
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chr1 3212566 rs3923081 A G 604.08 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1445.27;QD=30.75;SB=-602.58 GT:AD:DP:GL:GQ 1/1:0,47:46:-148.15,-13.87,-0.04:99
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chr1 3213090 rs4648471 A G 181.27 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=3.77;MQ=58.96;MQ0=0;OQ=1176.67;QD=14.53;SB=-570.90 GT:AD:DP:GL:GQ 0/1:40,41:78:-144.45,-23.50,-149.52:99
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chr1 3213140 rs4233025 C T 288.86 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.52;MQ0=0;OQ=3371.29;QD=38.75;SB=-1393.36 GT:AD:DP:GL:GQ 1/1:0,86:84:-336.13,-25.31,-0.03:99
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chr1 3213393 rs4648472 G A 290.65 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=58.95;MQ0=0;OQ=2168.73;QD=34.98;SB=-915.32 GT:AD:DP:GL:GQ 1/1:0,61:56:-220.48,-16.87,-0.02:99
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chr1 3213624 rs4648473 A G 299.83 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=60.00;MQ0=0;OQ=2351.35;QD=35.09;SB=-1180.73 GT:AD:DP:GL:GQ 1/1:0,67:67:-238.75,-20.18,-0.03:99
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chr1 3213815 rs4145901 A G 578.32 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.24;MQ0=0;OQ=1913.13;QD=34.78;SB=-765.19 GT:AD:DP:GL:GQ 1/1:0,55:55:-194.92,-16.57,-0.02:99
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chr1 3214070 rs4145900 C T 633.07 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.20;MQ0=0;OQ=2312.37;QD=39.87;SB=-883.19 GT:AD:DP:GL:GQ 1/1:0,58:58:-234.84,-17.47,-0.01:99
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chr1 3214663 rs2483258 A G 141.81 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.74;MQ=58.20;MQ0=0;OQ=1545.60;QD=32.89;SB=-781.14 GT:AD:DP:GL:GQ 1/1:0,47:45:-158.16,-13.56,-0.02:99
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chr1 3215654 rs2500279 A G 10.26 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=3;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=1630.84;QD=29.65;SB=-792.65 GT:AD:DP:GL:GQ 1/1:0,55:51:-166.71,-15.38,-0.04:99
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chr1 3215800 rs2500278 C T 196.13 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.49;MQ=60.00;MQ0=0;OQ=2097.43;QD=35.55;SB=-1034.29 GT:AD:DP:GL:GQ 1/1:1,57:55:-213.35,-16.58,-0.03:99
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chr1 3216399 rs59127130 T A 71.30 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=3.18;MQ=59.01;MQ0=0;OQ=500.47;QD=10.65;SB=-267.66 GT:AD:DP:GL:GQ 0/1:27,19:45:-66.90,-13.56,-91.26:99
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chr1 3218505 . G T 13.88 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.49;MQ=59.42;MQ0=0;OQ=562.03;QD=14.05;SB=-143.82 GT:AD:DP:GL:GQ 0/1:17,23:34:-69.73,-10.24,-51.47:99
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chr1 3223491 rs2500277 T C 605.12 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1039.56;QD=14.85;SB=-437.57 GT:AD:DP:GL:GQ 0/1:34,36:70:-128.33,-21.09,-137.20:99
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chr1 3227069 rs2500274 G A 733.97 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2547.84;QD=38.03;SB=-1230.64 GT:AD:DP:GL:GQ 1/1:0,67:65:-258.39,-19.58,-0.02:99
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chr1 3231689 rs2500271 A G 65.84 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=6.09;MQ=58.05;MQ0=0;OQ=618.77;QD=12.89;SB=-326.13 GT:AD:DP:GL:GQ 0/1:22,25:43:-80.91,-15.74,-76.88:99
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chr1 3232314 rs2500270 C T 276.80 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=58.93;MQ0=0;OQ=890.12;QD=13.69;SB=-466.96 GT:AD:DP:GL:GQ 0/1:37,28:63:-111.27,-18.97,-132.21:99
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chr1 3232391 rs7521865 T C 80.12 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=59.46;MQ0=0;OQ=581.07;QD=12.11;SB=-302.66 GT:AD:DP:GL:GQ 0/1:25,23:45:-74.95,-13.56,-94.63:99
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chr1 3232424 rs11576578 C T 337.83 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=583.63;QD=16.21;SB=-245.53 GT:AD:DP:GL:GQ 0/1:18,18:35:-72.19,-10.55,-57.05:99
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chr1 3232513 rs2500268 C T 2.29 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=60.10;MQ0=0;OQ=81.92;QD=2.64;SB=-51.23 GT:AD:DP:GL:GQ 0/1:26,5:28:-19.91,-8.44,-80.68:99
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chr1 3232545 rs7550743 G C 135.04 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=204.00;QD=6.18;SB=-89.25 GT:AD:DP:GL:GQ 0/1:25,8:26:-31.53,-7.85,-72.48:99
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chr1 3233210 rs2483268 C T 55.97 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.45;MQ0=0;OQ=685.34;QD=20.16;SB=-292.33 GT:AD:DP:GL:GQ 0/1:13,21:31:-81.16,-9.34,-34.58:99
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chr1 3233282 rs2483269 C T 150.37 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=59.51;MQ0=0;OQ=931.05;QD=19.81;SB=-450.84 GT:AD:DP:GL:GQ 0/1:20,27:46:-110.24,-13.86,-67.60:99
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chr1 3234117 rs2483270 T C 92.91 PASS AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=1;HaplotypeScore=1.03;MQ=54.48;MQ0=0;OQ=186.80;QD=8.90;SB=-89.99 GT:AD:DP:GL:GQ 0/1:13,8:21:-28.30,-6.33,-49.94:99
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chr1 3235659 rs56368529 T G 3.22 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=4.81;MQ=58.01;MQ0=0;OQ=299.04;QD=9.06;SB=-59.90 GT:AD:DP:GL:GQ 0/1:16,17:27:-41.32,-8.14,-54.29:99
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chr1 3236031 rs55929121 A G 111.89 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=2.57;MQ=59.44;MQ0=0;OQ=382.21;QD=9.32;SB=-138.40 GT:AD:DP:GL:GQ 0/1:24,17:41:-53.86,-12.36,-96.85:99
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chr1 3237249 rs2483272 T C 227.71 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=58.89;MQ0=0;OQ=695.19;QD=16.55;SB=-364.39 GT:AD:DP:GL:GQ 0/1:17,25:40:-84.86,-12.05,-61.97:99
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chr1 3237696 rs11577229 A C 60.92 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=1.98;MQ=59.46;MQ0=0;OQ=605.90;QD=14.09;SB=-151.87 GT:AD:DP:GL:GQ 0/1:20,23:42:-76.53,-12.66,-70.16:99
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chr1 3237725 rs2483273 C T 273.62 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=60.00;MQ0=0;OQ=458.56;QD=11.46;SB=-253.26 GT:AD:DP:GL:GQ 0/1:23,17:37:-60.29,-11.15,-74.02:99
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chr1 3237958 rs2483274 A G 334.60 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=489.91;QD=10.42;SB=-162.48 GT:AD:DP:GL:GQ 0/1:24,23:45:-65.84,-13.57,-92.79:99
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chr1 3238582 rs56033677 T C 21.15 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=59.43;MQ0=0;OQ=296.91;QD=9.00;SB=-160.33 GT:AD:DP:GL:GQ 0/1:18,15:30:-42.02,-9.04,-67.71:99
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chr1 3238892 rs55807399 G T 41.07 PASS AC=1;AF=0.50;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=58.83;MQ0=0;OQ=103.10;QD=6.44;SB=-69.87 GT:AD:DP:GL:GQ 0/1:10,6:13:-17.51,-3.92,-27.55:99
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chr1 3239158 . C T 1.04 PASS AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.48;MQ0=0;OQ=666.04;QD=18.50;SB=-35.64 GT:AD:DP:GL:GQ 0/1:16,20:35:-80.44,-10.55,-47.82:99
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chr1 3239323 . G A 79.22 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=885.68;QD=16.10;SB=-289.76 GT:AD:DP:GL:GQ 0/1:28,27:52:-107.52,-15.67,-84.40:99
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chr1 3240283 rs1889121 A G 183.83 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=3.94;MQ=58.44;MQ0=0;OQ=423.56;QD=10.86;SB=-163.96 GT:AD:DP:GL:GQ 0/1:18,20:36:-60.24,-14.60,-67.49:99
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chr1 3241019 rs1110307 T C 317.91 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=59.03;MQ0=0;OQ=790.39;QD=11.80;SB=-362.96 GT:AD:DP:GL:GQ 0/1:34,33:66:-102.22,-19.90,-132.82:99
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chr1 3241835 rs4648477 G A 340.85 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.63;MQ0=0;OQ=880.63;QD=17.27;SB=-457.99 GT:AD:DP:GL:GQ 0/1:24,27:48:-105.81,-14.46,-75.34:99
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chr1 3241867 rs4648478 C T 165.67 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.81;MQ=58.72;MQ0=0;OQ=927.39;QD=18.18;SB=-291.79 GT:AD:DP:GL:GQ 0/1:22,29:49:-110.80,-14.77,-66.95:99
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chr1 3241964 rs2483278 C T 199.87 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=4.49;MQ=58.47;MQ0=0;OQ=815.99;QD=11.33;SB=-270.80 GT:AD:DP:GL:GQ 0/1:44,28:65:-104.47,-19.59,-130.43:99
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chr1 3242641 rs10797388 C T 87.31 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=59.66;MQ0=0;OQ=1468.23;QD=21.91;SB=-716.28 GT:AD:DP:GL:GQ 0/1:24,43:63:-169.09,-18.98,-69.99:99
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chr1 3243022 rs4648479 C G 270.01 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.32;MQ0=0;OQ=1259.62;QD=18.52;SB=-604.54 GT:AD:DP:GL:GQ 0/1:33,35:68:-149.74,-20.49,-145.47:99
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chr1 3243475 rs2500264 A G 371.99 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=57.70;MQ0=0;OQ=965.24;QD=13.04;SB=-435.59 GT:AD:DP:GL:GQ 0/1:35,39:72:-121.52,-21.71,-132.46:99
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chr1 3243538 rs2500263 C T 449.25 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=59.43;MQ0=0;OQ=1163.15;QD=14.36;SB=-551.30 GT:AD:DP:GL:GQ 0/1:44,37:79:-143.40,-23.80,-157.59:99
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chr1 3243563 rs10909933 A T 21.76 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=5.38;MQ=58.82;MQ0=0;OQ=1256.33;QD=15.90;SB=-624.35 GT:AD:DP:GL:GQ 0/1:39,40:77:-152.11,-23.19,-142.90:99
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chr1 3243699 rs7516137 C G 384.73 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=58.95;MQ0=1;OQ=1414.58;QD=19.38;SB=-612.10 GT:AD:DP:GL:GQ 0/1:31,42:71:-166.15,-21.41,-133.01:99
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chr1 3243749 rs7516150 C T 110.03 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=4.27;MQ=59.28;MQ0=0;OQ=1059.88;QD=16.56;SB=-511.08 GT:AD:DP:GL:GQ 0/1:31,33:63:-128.25,-18.98,-110.55:99
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chr1 3243801 rs7552331 G A 50.88 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=3.37;MQ=59.68;MQ0=0;OQ=1395.05;QD=19.38;SB=-586.45 GT:AD:DP:GL:GQ 0/1:31,41:71:-164.18,-21.39,-100.20:99
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chr1 3244201 rs1572038 G A 223.38 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.63;MQ=60.00;MQ0=0;OQ=849.89;QD=14.40;SB=-320.28 GT:AD:DP:GL:GQ 0/1:33,26:58:-105.75,-17.48,-105.23:99
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chr1 3244229 rs1572037 T C 103.02 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=1.14;MQ=59.74;MQ0=0;OQ=759.65;QD=10.70;SB=-211.19 GT:AD:DP:GL:GQ 0/1:40,31:70:-100.34,-21.09,-160.53:99
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chr1 3245634 . G A 2.67 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=2;HaplotypeScore=5.38;MQ=59.21;MQ0=0;OQ=768.53;QD=14.50;SB=-362.88 GT:AD:DP:GL:GQ 0/1:27,25:49:-94.91,-14.77,-78.82:99
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chr1 3245968 rs1999527 C A 270.72 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.55;MQ0=0;OQ=832.76;QD=16.33;SB=-309.70 GT:AD:DP:GL:GQ 0/1:20,31:46:-100.42,-13.86,-57.62:99
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chr1 3246110 rs1999526 G A 145.25 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.11;MQ=60.00;MQ0=0;OQ=722.36;QD=13.89;SB=-206.02 GT:AD:DP:GL:GQ 0/1:25,26:46:-91.77,-16.25,-79.35:99
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chr1 3247225 rs944819 T G 210.34 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=1.59;MQ=59.73;MQ0=0;OQ=1004.82;QD=11.68;SB=-427.67 GT:AD:DP:GL:GQ 0/1:50,36:86:-129.67,-25.90,-183.72:99
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chr1 3247599 rs2483281 C T 240.23 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=58.98;MQ0=0;OQ=504.82;QD=12.31;SB=-180.16 GT:AD:DP:GL:GQ 0/1:24,17:38:-65.21,-11.45,-77.36:99
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chr1 3251376 rs4648379 C T 354.38 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=1.15;MQ=59.76;MQ0=0;OQ=1302.21;QD=16.91;SB=-654.31 GT:AD:DP:GL:GQ 0/1:37,40:76:-156.40,-22.89,-133.27:99
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chr1 3251542 rs4415513 C T 583.60 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=1033.27;QD=16.67;SB=-449.45 GT:AD:DP:GL:GQ 0/1:31,31:61:-125.00,-18.39,-98.88:99
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chr1 3252129 rs12564920 A G 258.43 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.38;MQ0=0;OQ=448.15;QD=9.96;SB=-222.39 GT:AD:DP:GL:GQ 0/1:23,22:39:-59.86,-11.76,-74.90:99
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chr1 3253722 . G A 5.82 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=951.14;QD=18.65;SB=-376.90 GT:AD:DP:GL:GQ 0/1:22,29:50:-113.46,-15.06,-78.22:99
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chr1 3254050 rs2483289 A C 189.02 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=800.56;QD=13.80;SB=-367.58 GT:AD:DP:GL:GQ 0/1:28,30:55:-99.91,-16.57,-92.54:99
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chr1 3254157 rs2500257 A G 11.73 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=2;HaplotypeScore=3.42;MQ=59.13;MQ0=0;OQ=570.29;QD=13.26;SB=-176.97 GT:AD:DP:GL:GQ 0/1:21,22:40:-72.37,-12.05,-79.78:99
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chr1 3257948 . G C 98.91 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=35.14;MQ0=0;QD=7.07;SB=14.07 GT:AD:DP:GL:GQ 0/1:10,4:12:-16.79,-3.62,-31.08:99
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chr1 3257994 rs60920916 T C 0.33 PASS AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=2;HaplotypeScore=2.63;MQ=42.15;MQ0=0;OQ=77.87;QD=4.58;SB=20.08 GT:AD:DP:GL:GQ 0/1:13,4:15:-15.59,-4.52,-39.62:99
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chr1 3258005 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=3;HaplotypeScore=6.10;MQ=42.12;MQ0=0;OQ=65.85;QD=3.29;SB=23.09 GT:AD:DP:GL:GQ 0/1:16,4:17:-15.00,-5.13,-47.65:98.69
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chr1 3258920 . C T 2.85 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=553.46;QD=12.87;SB=-213.92 GT:AD:DP:GL:GQ 0/1:24,19:40:-70.69,-12.06,-71.24:99
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chr1 3262401 rs7550526 G A 60.02 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.60;MQ=58.89;MQ0=0;OQ=1567.02;QD=37.31;SB=-629.85 GT:AD:DP:GL:GQ 1/1:0,42:40:-160.30,-12.05,-0.01:99
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chr1 3262685 rs946759 C A 62.68 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=-0.12;MQ=57.75;MQ0=0;OQ=630.41;QD=19.70;SB=-314.39 GT:AD:DP:GL:GQ 1/1:3,29:21:-69.14,-6.33,-2.51:38.17
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chr1 3262923 rs946758 G A 287.49 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.91;MQ=59.58;MQ0=0;OQ=2113.36;QD=38.42;SB=-1046.71 GT:AD:DP:GL:GQ 1/1:0,55:53:-214.93,-15.96,-0.01:99
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chr1 3263976 rs55805251 C T 94.04 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=58.59;MQ0=0;OQ=518.72;QD=15.72;SB=-142.59 GT:AD:DP:GL:GQ 0/1:15,18:30:-64.20,-9.04,-43.17:99
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chr1 3264566 rs2483265 T C 43.57 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=868.82;QD=26.33;SB=-460.17 GT:AD:DP:GL:GQ 1/1:0,33:29:-90.50,-8.75,-0.03:87.17
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chr1 3265009 rs12748963 C T 26.51 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=5.21;MQ=58.97;MQ0=0;OQ=826.30;QD=18.36;SB=-347.35 GT:AD:DP:GL:GQ 0/1:19,25:43:-98.87,-12.96,-59.86:99
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chr1 3266234 rs12073172 G A 592.78 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.50;MQ0=0;OQ=1102.37;QD=35.56;SB=-562.26 GT:AD:DP:GL:GQ 1/1:0,31:30:-113.84,-9.05,-0.02:90.27
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chr1 3266600 rs2500280 G C 2.70 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=8.93;MQ=59.31;MQ0=0;OQ=2375.28;QD=38.94;SB=-992.26 GT:AD:DP:GL:GQ 1/1:0,60:56:-241.13,-16.87,-0.02:99
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chr1 3266936 . G A 52.38 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.54;MQ=59.62;MQ0=0;OQ=518.77;QD=10.59;SB=-162.22 GT:AD:DP:GL:GQ 0/1:32,17:48:-69.63,-14.47,-101.23:99
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chr1 3267606 rs884308 C T 94.95 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1579.42;QD=39.49;SB=-771.63 GT:AD:DP:GL:GQ 1/1:0,40:40:-161.54,-12.05,-0.01:99
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chr1 3268390 rs11583116 G A 130.53 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=3.94;MQ=58.33;MQ0=0;OQ=690.56;QD=13.81;SB=-242.25 GT:AD:DP:GL:GQ 0/1:26,24:43:-85.30,-12.96,-65.77:99
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chr1 3269184 rs7524171 A G 11.38 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=5.01;MQ=59.60;MQ0=0;OQ=1781.26;QD=30.71;SB=-880.26 GT:AD:DP:GL:GQ 1/1:0,58:53:-181.75,-15.98,-0.04:99
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chr1 3269881 rs2500262 T C 201.27 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=59.11;MQ0=0;OQ=1534.16;QD=29.50;SB=-546.01 GT:AD:DP:GL:GQ 1/1:0,52:49:-157.05,-14.78,-0.05:99
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chr1 3271322 . C T 58.72 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=59.40;MQ0=0;OQ=375.26;QD=12.11;SB=-208.89 GT:AD:DP:GL:GQ 0/1:17,14:28:-49.26,-8.45,-45.56:99
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chr1 3273388 rs4648485 G A 602.36 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2075.89;QD=37.74;SB=-912.72 GT:AD:DP:GL:GQ 1/1:0,55:53:-211.19,-15.97,-0.02:99
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chr1 3275010 rs4648486 C T 123.41 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=1.32;MQ=58.75;MQ0=0;OQ=2039.90;QD=39.23;SB=-914.69 GT:AD:DP:GL:GQ 1/1:0,52:51:-207.59,-15.36,-0.01:99
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chr1 3275164 rs4648487 T C 21.75 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=5.20;MQ=59.14;MQ0=0;OQ=1843.56;QD=34.14;SB=-799.67 GT:AD:DP:GL:GQ 1/1:0,54:53:-187.96,-15.97,-0.02:99
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chr1 3275488 rs6424073 G A 234.48 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2488.63;QD=39.50;SB=-1214.11 GT:AD:DP:GL:GQ 1/1:0,63:63:-252.47,-18.98,-0.02:99
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chr1 3277411 rs12138292 A G 1.83 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=4.96;MQ=56.17;MQ0=0;OQ=1416.27;QD=24.85;SB=-414.15 GT:AD:DP:GL:GQ 1/1:0,57:48:-145.28,-14.50,-0.07:99
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chr1 3279384 rs12135987 G A 273.93 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.39;MQ0=0;OQ=2572.74;QD=37.83;SB=-927.33 GT:AD:DP:GL:GQ 1/1:0,68:65:-260.88,-19.58,-0.02:99
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chr1 3279467 rs6688949 T C 3.82 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=2.45;MQ=57.66;MQ0=0;OQ=1297.10;QD=25.94;SB=-450.26 GT:AD:DP:GL:GQ 1/1:0,50:40:-133.33,-12.06,-0.03:99
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chr1 3279589 rs1333190 C T 668.27 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=1807.78;QD=36.89;SB=-784.69 GT:AD:DP:GL:GQ 1/1:0,49:46:-184.37,-13.86,-0.01:99
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chr1 3279831 rs1333189 C T 229.74 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=57.13;MQ0=0;OQ=1483.34;QD=36.18;SB=-765.52 GT:AD:DP:GL:GQ 1/1:0,40:38:-151.93,-11.45,-0.01:99
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chr1 3280999 rs2249860 A C 81.57 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=57.93;MQ0=0;OQ=1454.60;QD=33.83;SB=-752.07 GT:AD:DP:GL:GQ 1/1:0,43:42:-149.06,-12.65,-0.01:99
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chr1 3281067 rs2368593 G T 64.28 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.86;MQ=58.09;MQ0=0;OQ=2257.03;QD=31.79;SB=-1064.90 GT:AD:DP:GL:GQ 1/1:0,70:66:-229.32,-19.89,-0.04:99
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chr1 3281249 . G A 160.30 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.53;MQ0=0;OQ=717.46;QD=13.54;SB=-318.84 GT:AD:DP:GL:GQ 0/1:27,26:46:-88.90,-13.87,-75.19:99
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chr1 3282736 rs4648488 C T 347.36 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=59.52;MQ0=0;OQ=841.46;QD=17.53;SB=-434.81 GT:AD:DP:GL:GQ 0/1:21,27:46:-101.29,-13.86,-70.83:99
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chr1 3283525 rs4648489 A G 474.54 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=1662.64;QD=30.23;SB=-834.46 GT:AD:DP:GL:GQ 1/1:0,55:53:-169.90,-15.99,-0.06:99
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chr1 3284832 rs1538693 G A 695.45 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1980.96;QD=38.10;SB=-939.35 GT:AD:DP:GL:GQ 1/1:0,52:51:-201.70,-15.37,-0.02:99
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chr1 3285724 . G A 0.22 PASS AC=1;AF=0.50;AN=2;DP=8;Dels=0.00;HRun=1;HaplotypeScore=6.56;MQ=21.51;MQ0=1;OQ=72.03;QD=9.00;SB=-40.54 GT:AD:DP:GL:GQ 0/1:2,5:4:-11.69,-1.21,-3.37:21.64
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chr1 3285990 . G A 25.35 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=1;HaplotypeScore=5.35;MQ=15.41;MQ0=12;QD=0.85;SB=-32.52 GT:AD:DP:GL:GQ 0/1:21,9:5:-7.32,-1.51,-9.51:58.18
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chr1 3286144 . A G 36.06 LowQual AC=1;AF=0.50;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=14.48;MQ0=3;QD=4.51;SB=-6.99 GT:AD:DP:GL:GQ 0/1:4,3:3:-7.79,-0.90,-4.06:31.52
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chr1 3286152 . A C 0.09 PASS AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=27.22;MQ0=3;OQ=114.38;QD=16.34;SB=-46.01 GT:AD:DP:GL:GQ 1/1:0,7:4:-14.97,-1.20,-0.00:12.04
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chr1 3286284 . G A 36.93 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=3.77;MQ=31.49;MQ0=4;QD=1.27;SB=-29.53 GT:AD:DP:GL:GQ 0/1:22,7:15:-11.50,-4.52,-41.17:69.76
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chr1 3286312 . G A 19.94 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=1;HaplotypeScore=9.31;MQ=28.36;MQ0=5;QD=0.59;SB=-24.50 GT:AD:DP:GL:GQ 0/1:27,6:17:-10.40,-5.13,-47.64:52.73
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chr1 3286320 . C A 227.39 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=8.75;MQ=31.04;MQ0=4;QD=5.98;SB=-25.91 GT:AD:DP:GL:GQ 0/1:27,11:20:-32.05,-6.03,-35.21:99
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chr1 3286354 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=1;HaplotypeScore=6.21;MQ=33.14;MQ0=5;OQ=87.60;QD=2.92;SB=-62.36 GT:AD:DP:GL:GQ 0/1:22,7:14:-19.10,-7.05,-34.67:99
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chr1 3286558 rs61043152 G A 1.11 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=8.99;MQ=54.01;MQ0=1;OQ=487.76;QD=11.09;SB=-75.56 GT:AD:DP:GL:GQ 0/1:23,21:40:-64.12,-12.06,-79.70:99
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chr1 3286811 . T C 44.59 PASS AC=2;AF=1.00;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.88;MQ=60.00;MQ0=0;OQ=1964.33;QD=34.46;SB=-944.38 GT:AD:DP:GL:GQ 1/1:0,57:56:-200.04,-16.87,-0.02:99
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chr1 3287141 rs11584942 G A 391.20 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.82;MQ0=0;OQ=780.63;QD=15.31;SB=-324.32 GT:AD:DP:GL:GQ 0/1:25,26:47:-95.51,-14.16,-75.83:99
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chr1 3287246 rs11584967 G A 573.67 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=877.40;QD=15.67;SB=-384.91 GT:AD:DP:GL:GQ 0/1:28,28:54:-107.29,-16.27,-98.41:99
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chr1 3287659 rs4648490 A C 117.52 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.24;MQ=58.26;MQ0=0;OQ=1692.37;QD=33.18;SB=-840.06 GT:AD:DP:GL:GQ 1/1:0,51:50:-172.85,-15.06,-0.02:99
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chr1 3290667 rs868688 C T 279.51 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=58.44;MQ0=0;OQ=2018.08;QD=35.40;SB=-933.25 GT:AD:DP:GL:GQ 1/1:0,57:52:-205.41,-15.67,-0.02:99
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chr1 3290990 rs868689 T G 679.66 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.27;MQ0=0;OQ=1815.91;QD=31.86;SB=-898.65 GT:AD:DP:GL:GQ 1/1:0,57:52:-185.19,-15.66,-0.02:99
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chr1 3292591 rs11810266 C G 73.61 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.75;MQ=59.54;MQ0=0;OQ=822.36;QD=20.06;SB=-350.43 GT:AD:DP:GL:GQ 0/1:18,23:40:-97.58,-12.06,-74.61:99
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chr1 3293306 rs2245703 T C 622.87 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2385.34;QD=35.60;SB=-962.70 GT:AD:DP:GL:GQ 1/1:0,67:67:-242.14,-20.18,-0.02:99
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chr1 3293627 rs6676024 C T 186.96 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.97;MQ0=0;OQ=1016.67;QD=17.23;SB=-303.79 GT:AD:DP:GL:GQ 0/1:29,30:58:-122.43,-17.48,-92.51:99
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chr1 3293798 rs2065525 C G 62.72 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=58.34;MQ0=0;OQ=2298.73;QD=40.33;SB=-651.91 GT:AD:DP:GL:GQ 1/1:0,56:54:-233.47,-16.27,-0.01:99
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chr1 3294876 rs17399998 C T 445.68 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=1142.20;QD=15.23;SB=-563.39 GT:AD:DP:GL:GQ 0/1:40,35:73:-139.51,-22.00,-126.39:99
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chr1 3295312 rs6687463 A G 1.44 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=5.24;MQ=59.03;MQ0=0;OQ=1175.21;QD=27.33;SB=-477.09 GT:AD:DP:GL:GQ 1/1:0,42:38:-121.14,-11.46,-0.04:99
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chr1 3295326 . C A 16.33 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=58.87;MQ0=0;OQ=469.13;QD=12.68;SB=-130.80 GT:AD:DP:GL:GQ 0/1:19,18:34:-60.44,-10.25,-57.03:99
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chr1 3295820 . C T 40.94 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=844.76;QD=17.60;SB=-369.85 GT:AD:DP:GL:GQ 0/1:21,27:46:-101.62,-13.86,-70.72:99
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chr1 3296384 rs6686140 C A 6.91 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=6.50;MQ=59.17;MQ0=0;OQ=324.87;QD=11.60;SB=-121.49 GT:AD:DP:GL:GQ 0/1:8,20:20:-41.81,-6.04,-18.74:99
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chr1 3296715 rs2151350 T G 0.13 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=4;HaplotypeScore=2.18;MQ=58.99;MQ0=0;OQ=1168.63;QD=25.41;SB=-611.86 GT:AD:DP:GL:GQ 1/1:0,46:39:-120.49,-11.76,-0.04:99
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chr1 3297308 rs2493281 A G 8.42 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.21;MQ=58.18;MQ0=1;OQ=1041.73;QD=26.04;SB=-499.54 GT:AD:DP:GL:GQ 1/1:1,39:33:-107.79,-9.95,-0.03:99
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chr1 3297606 rs2493278 T C 732.40 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.88;MQ0=0;OQ=2573.66;QD=35.26;SB=-1043.85 GT:AD:DP:GL:GQ 1/1:0,73:73:-260.97,-21.99,-0.02:99
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chr1 3298358 rs2493268 T C 154.09 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.44;MQ=58.22;MQ0=0;OQ=1688.23;QD=33.76;SB=-851.05 GT:AD:DP:GL:GQ 1/1:0,50:48:-172.42,-14.46,-0.02:99
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chr1 3298817 rs12139767 G C 583.17 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=898.96;QD=13.62;SB=-383.19 GT:AD:DP:GL:GQ 0/1:39,27:65:-112.80,-19.62,-153.47:99
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chr1 3299326 rs35864014 G A 497.53 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=1037.02;QD=15.25;SB=-535.48 GT:AD:DP:GL:GQ 0/1:36,32:68:-127.47,-20.48,-131.88:99
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chr1 3301121 rs6702992 C T 313.10 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.53;MQ0=0;OQ=194.21;QD=10.22;SB=-113.94 GT:AD:DP:GL:GQ 0/1:12,7:19:-28.43,-5.72,-42.63:99
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chr1 3301284 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=11;HaplotypeScore=19.15;MQ=56.72;MQ0=0;OQ=88.35;QD=1.38;SB=59.21 GT:AD:DP:GL:GQ 0/1:53,11:56:-28.99,-16.87,-158.63:99
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chr1 3301891 rs883678 C G 91.33 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.56;MQ0=0;OQ=812.38;QD=19.34;SB=-299.58 GT:AD:DP:GL:GQ 0/1:20,22:42:-97.18,-12.66,-83.21:99
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chr1 3302116 rs17822575 T G 316.41 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.54;MQ0=0;OQ=510.49;QD=12.45;SB=-250.83 GT:AD:DP:GL:GQ 0/1:20,21:40:-66.39,-12.05,-67.05:99
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chr1 3302296 rs10909937 C T 502.18 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1321.67;QD=36.71;SB=-625.01 GT:AD:DP:GL:GQ 1/1:0,36:34:-135.76,-10.24,-0.01:99
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chr1 3302524 rs56378103 C T 103.94 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=58.71;MQ0=0;OQ=1572.33;QD=29.12;SB=-689.92 GT:AD:DP:GL:GQ 1/1:0,52:42:-160.84,-12.66,-0.02:99
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chr1 3302527 . C T 6.09 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=5.35;MQ=58.33;MQ0=0;OQ=1011.78;QD=18.07;SB=-471.49 GT:AD:DP:GL:GQ 0/1:25,31:52:-120.14,-15.67,-71.42:99
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chr1 3302823 rs12726710 C T 452.04 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=952.26;QD=17.31;SB=-305.83 GT:AD:DP:GL:GQ 0/1:25,30:55:-115.09,-16.58,-80.89:99
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chr1 3303142 rs7535965 G A 141.77 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=58.64;MQ0=0;OQ=1848.10;QD=38.50;SB=-836.62 GT:AD:DP:GL:GQ 1/1:0,48:47:-188.41,-14.16,-0.02:99
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chr1 3304456 rs17822581 A G 359.73 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.90;MQ=58.93;MQ0=0;OQ=1113.18;QD=17.13;SB=-574.04 GT:AD:DP:GL:GQ 0/1:27,38:62:-133.28,-18.68,-95.39:99
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chr1 3304922 rs57432749 C T 181.83 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=2.15;MQ=59.75;MQ0=0;OQ=993.31;QD=13.07;SB=-496.07 GT:AD:DP:GL:GQ 0/1:41,34:74:-127.49,-24.88,-150.46:99
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chr1 3305219 rs12144338 C T 131.32 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=59.67;MQ0=0;OQ=987.68;QD=17.33;SB=-284.79 GT:AD:DP:GL:GQ 0/1:26,31:53:-118.03,-15.98,-72.20:99
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chr1 3305551 . G A 103.37 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.10;MQ=59.39;MQ0=0;OQ=1099.92;QD=15.94;SB=-511.04 GT:AD:DP:GL:GQ 0/1:36,33:68:-133.77,-20.49,-112.10:99
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chr1 3305678 rs7542793 G A 440.42 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.35;MQ0=0;OQ=1064.35;QD=16.63;SB=-455.47 GT:AD:DP:GL:GQ 0/1:30,34:62:-128.41,-18.69,-93.40:99
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chr1 3305692 rs12737284 G A 493.84 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.31;MQ0=0;OQ=901.95;QD=14.79;SB=-398.19 GT:AD:DP:GL:GQ 0/1:31,30:59:-111.27,-17.79,-96.32:99
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chr1 3305845 rs12117228 T C 284.95 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=60.00;MQ0=0;OQ=892.28;QD=11.74;SB=-260.21 GT:AD:DP:GL:GQ 0/1:38,38:73:-114.51,-22.00,-150.21:99
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chr1 3305873 rs7551733 C G 174.37 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=2.43;MQ=60.00;MQ0=0;OQ=1089.18;QD=17.02;SB=-530.69 GT:AD:DP:GL:GQ 0/1:32,32:62:-130.89,-18.69,-134.52:99
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chr1 3306535 rs10909939 T C 528.42 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=956.73;QD=17.08;SB=-375.64 GT:AD:DP:GL:GQ 0/1:23,33:55:-115.53,-16.57,-90.24:99
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chr1 3306616 rs10909940 G A 39.73 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=60.00;MQ0=0;OQ=1181.64;QD=23.63;SB=-497.15 GT:AD:DP:GL:GQ 0/1:15,35:49:-136.22,-14.77,-45.61:99
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chr1 3306995 rs12743248 G A 92.64 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=59.54;MQ0=0;OQ=921.67;QD=15.36;SB=-465.48 GT:AD:DP:GL:GQ 0/1:29,31:55:-112.03,-16.58,-86.62:99
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chr1 3307093 rs12747145 G A 172.06 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=59.50;MQ0=0;OQ=526.33;QD=14.23;SB=-229.52 GT:AD:DP:GL:GQ 0/1:18,17:34:-69.44,-13.52,-51.06:99
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chr1 3307640 rs6424074 A G 354.64 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.52;MQ0=0;OQ=483.77;QD=10.08;SB=-196.29 GT:AD:DP:GL:GQ 0/1:28,20:48:-66.12,-14.46,-114.20:99
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chr1 3307747 rs6424075 G T 374.77 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.24;MQ0=0;OQ=884.55;QD=14.04;SB=-359.35 GT:AD:DP:GL:GQ 0/1:31,32:59:-109.52,-17.78,-88.61:99
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chr1 3308193 rs7551796 G A 363.24 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=59.69;MQ0=0;OQ=1293.28;QD=17.24;SB=-465.48 GT:AD:DP:GL:GQ 0/1:35,40:71:-154.00,-21.39,-119.84:99
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chr1 3308294 rs11576794 C T 278.53 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=4.09;MQ=57.73;MQ0=0;OQ=809.01;QD=14.19;SB=-410.42 GT:AD:DP:GL:GQ 0/1:31,26:56:-101.07,-16.88,-98.51:99
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chr1 3308295 rs11577526 A G 45.03 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=4.09;MQ=57.69;MQ0=0;OQ=1861.63;QD=33.24;SB=-741.99 GT:AD:DP:GL:GQ 1/1:0,56:55:-189.77,-16.57,-0.03:99
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chr1 3308392 rs11578011 T C 195.41 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=59.80;MQ0=0;OQ=1812.46;QD=30.21;SB=-790.65 GT:AD:DP:GL:GQ 1/1:0,59:59:-188.08,-20.60,-3.25:99
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chr1 3308574 rs5024246 G A 333.57 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.97;MQ0=0;OQ=876.20;QD=19.47;SB=-325.85 GT:AD:DP:GL:GQ 0/1:19,26:45:-104.46,-13.56,-63.60:99
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chr1 3308629 rs10909942 C G 63.18 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.03;HRun=0;HaplotypeScore=2.61;MQ=58.12;MQ0=0;OQ=1384.57;QD=36.44;SB=-590.68 GT:AD:DP:GL:GQ 1/1:0,37:37:-142.07,-10.86,-0.03:99
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chr1 3308702 rs56148282 G A 636.18 Indel AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.59;MQ0=0;QD=19.28;SB=-248.56 GT:AD:DP:GL:GQ 0/1:12,21:30:-75.94,-9.04,-37.32:99
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chr1 3308921 rs1889124 A G 16.57 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=1.23;MQ=58.83;MQ0=0;OQ=1016.70;QD=28.24;SB=-485.51 GT:AD:DP:GL:GQ 1/1:0,36:33:-105.29,-9.95,-0.03:99
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chr1 3309492 rs4353034 G A 0.09 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=16.76;MQ=57.87;MQ0=0;OQ=200.25;QD=6.07;SB=-37.01 GT:AD:DP:GL:GQ 0/1:23,8:31:-40.02,-16.71,-79.20:99
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chr1 3309534 rs12562397 C T 380.45 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.05;MQ0=0;OQ=1380.14;QD=38.34;SB=-494.65 GT:AD:DP:GL:GQ 1/1:0,36:35:-141.61,-10.54,-0.01:99
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chr1 3309541 rs12562399 C G 28.59 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.39;MQ0=0;OQ=1543.76;QD=40.63;SB=-639.90 GT:AD:DP:GL:GQ 1/1:0,38:37:-157.97,-11.15,-0.01:99
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chr1 3309637 rs4471209 G A 344.14 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.51;MQ0=0;OQ=382.91;QD=10.08;SB=-184.19 GT:AD:DP:GL:GQ 0/1:25,13:37:-52.73,-11.16,-73.72:99
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chr1 3309732 rs6664364 C T 134.87 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.91;MQ0=0;OQ=1699.09;QD=36.15;SB=-803.59 GT:AD:DP:GL:GQ 1/1:0,47:44:-173.51,-13.26,-0.01:99
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chr1 3309737 rs6664369 C T 130.20 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.53;MQ0=0;OQ=1859.42;QD=37.95;SB=-907.23 GT:AD:DP:GL:GQ 1/1:0,49:48:-189.54,-14.46,-0.02:99
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chr1 3309924 rs6669407 A G 328.05 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=995.86;QD=29.29;SB=-353.80 GT:AD:DP:GL:GQ 1/1:0,34:32:-103.20,-9.65,-0.03:96.22
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chr1 3310023 rs2493286 G C 420.47 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1672.06;QD=40.78;SB=-718.73 GT:AD:DP:GL:GQ 1/1:0,41:40:-170.80,-12.05,-0.01:99
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chr1 3310336 rs6657675 G A 148.97 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=58.38;MQ0=0;OQ=936.76;QD=20.36;SB=-332.89 GT:AD:DP:GL:GQ 0/1:17,29:43:-109.92,-12.96,-52.69:99
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chr1 3310582 rs55820208 C T 260.28 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=862.76;QD=19.61;SB=-355.48 GT:AD:DP:GL:GQ 0/1:19,25:43:-102.51,-12.95,-64.90:99
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chr1 3311027 rs41315264 C A 149.68 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=1.73;MQ=59.45;MQ0=0;OQ=411.02;QD=12.09;SB=-182.52 GT:AD:DP:GL:GQ 0/1:19,15:31:-53.72,-9.34,-57.20:99
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chr1 3311596 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=4;HaplotypeScore=11.58;MQ=54.22;MQ0=0;OQ=65.40;QD=1.42;SB=47.17 GT:AD:DP:GL:GQ 0/1:36,10:29:-18.61,-8.78,-88.90:98.24
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chr1 3312969 rs2483222 T C 325.01 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.04;MQ0=0;OQ=585.55;QD=11.71;SB=-306.07 GT:AD:DP:GL:GQ 0/1:25,25:48:-76.31,-14.47,-93.64:99
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chr1 3313057 rs2483223 T G 88.19 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.28;MQ0=0;OQ=1723.37;QD=26.93;SB=-826.52 GT:AD:DP:GL:GQ 1/1:0,64:57:-175.98,-17.18,-0.06:99
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chr1 3313337 rs2493304 A G 110.36 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=1.72;MQ=57.61;MQ0=0;OQ=687.56;QD=10.91;SB=-122.49 GT:AD:DP:GL:GQ 0/1:35,28:61:-90.42,-18.38,-140.37:99
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chr1 3313476 rs2483224 C T 77.82 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=3.15;MQ=58.48;MQ0=0;OQ=742.74;QD=16.15;SB=-389.41 GT:AD:DP:GL:GQ 0/1:21,25:42:-90.21,-12.66,-65.08:99
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chr1 3314069 rs2493303 G C 188.15 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=4.50;MQ=59.20;MQ0=0;OQ=943.60;QD=16.27;SB=-364.47 GT:AD:DP:GL:GQ 0/1:29,29:57:-114.83,-17.19,-120.69:99
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chr1 3314293 rs2493302 A T 133.12 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=59.50;MQ0=0;OQ=1593.32;QD=34.64;SB=-633.61 GT:AD:DP:GL:GQ 1/1:0,46:43:-162.93,-12.95,-0.01:99
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chr1 3314897 rs2483225 T C 612.21 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.62;MQ0=0;OQ=1899.06;QD=30.14;SB=-687.73 GT:AD:DP:GL:GQ 1/1:0,63:60:-193.54,-18.10,-0.05:99
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chr1 3315120 rs12063572 A G 188.23 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.59;MQ0=0;OQ=550.32;QD=9.83;SB=-278.26 GT:AD:DP:GL:GQ 0/1:32,24:53:-74.29,-15.98,-116.93:99
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chr1 3315180 rs12063579 A G 62.82 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=5.22;MQ=57.82;MQ0=1;OQ=599.80;QD=10.91;SB=-262.60 GT:AD:DP:GL:GQ 0/1:27,28:47:-77.44,-14.18,-83.26:99
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chr1 3315190 rs2493301 G C 0.26 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=15.61;MQ=57.11;MQ0=1;OQ=860.03;QD=14.83;SB=-355.44 GT:AD:DP:GL:GQ 0/1:31,27:50:-104.37,-15.08,-104.68:99
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chr1 3315194 rs12063613 A G 1.95 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=10.46;MQ=56.06;MQ0=1;OQ=577.86;QD=9.47;SB=-271.10 GT:AD:DP:GL:GQ 0/1:30,31:51:-76.46,-15.39,-99.42:99
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chr1 3315219 . C T 17.67 DPFilter;Indel;LowQual AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=15.64;MQ=52.76;MQ0=1;QD=0.26;SB=34.67 GT:AD:DP:GL:GQ 0/1:62,6:62:-23.74,-18.70,-180.77:50.43
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chr1 3315354 rs12065021 T C 254.87 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=59.68;MQ0=0;OQ=519.08;QD=13.66;SB=-277.27 GT:AD:DP:GL:GQ 0/1:17,21:38:-66.65,-11.46,-65.47:99
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chr1 3315386 rs2493300 A G 19.22 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.63;MQ=60.00;MQ0=0;OQ=1158.12;QD=28.95;SB=-549.05 GT:AD:DP:GL:GQ 1/1:0,40:37:-119.43,-11.16,-0.04:99
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chr1 3315441 rs2493299 A G 105.98 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.81;MQ=60.00;MQ0=0;OQ=1355.37;QD=28.24;SB=-603.93 GT:AD:DP:GL:GQ 1/1:0,48:44:-139.17,-13.27,-0.04:99
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chr1 3315528 rs55929648 C T 143.11 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=56.18;MQ0=0;OQ=1041.13;QD=18.59;SB=-362.91 GT:AD:DP:GL:GQ 0/1:25,31:52:-123.07,-15.67,-66.96:99
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chr1 3315772 rs2493298 C A 135.74 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=2.28;MQ=60.00;MQ0=0;OQ=850.76;QD=17.72;SB=-447.55 GT:AD:DP:GL:GQ 0/1:19,29:48:-102.82,-14.46,-64.75:99
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chr1 3315954 rs36070715 C G 3.94 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=2.72;MQ=51.04;MQ0=0;OQ=1102.41;QD=21.62;SB=-424.97 GT:AD:DP:GL:GQ 0/1:21,30:46:-127.39,-13.87,-69.58:99
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chr1 3316002 rs60965010 G A 53.41 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=3;HaplotypeScore=0.89;MQ=53.52;MQ0=0;OQ=683.65;QD=15.19;SB=-341.33 GT:AD:DP:GL:GQ 0/1:23,22:41:-84.00,-12.35,-71.37:99
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chr1 3316048 rs59831144 A G 16.76 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=6.55;MQ=58.48;MQ0=0;OQ=584.41;QD=12.70;SB=-233.93 GT:AD:DP:GL:GQ 0/1:24,22:41:-74.08,-12.36,-76.23:99
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chr1 3316091 rs2493297 G A 148.61 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.53;MQ0=0;OQ=1649.32;QD=33.66;SB=-643.25 GT:AD:DP:GL:GQ 1/1:0,49:44:-168.54,-13.26,-0.02:99
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chr1 3316251 . G A 182.76 SnpCluster AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=43.92;MQ0=0;QD=3.10;SB=-111.51 GT:AD:DP:GL:GQ 0/1:47,12:54:-37.83,-16.27,-156.64:99
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chr1 3316256 . T C 219.54 SnpCluster AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.26;MQ=43.18;MQ0=0;QD=3.66;SB=-32.48 GT:AD:DP:GL:GQ 0/1:44,16:55:-41.82,-16.58,-163.02:99
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chr1 3316258 rs7364679 G T 370 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.26;MQ=43.51;MQ0=0;QD=6.07;SB=-108.68 GT:AD:DP:GL:GQ 0/1:43,18:56:-57.15,-16.87,-140.13:99
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chr1 3316271 . G T 44.21 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=3.38;MQ=42.99;MQ0=0;OQ=836.87;QD=13.72;SB=-249.23 GT:AD:DP:GL:GQ 0/1:29,32:52:-102.65,-15.68,-71.94:99
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chr1 3316274 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=55.35;MQ=42.03;MQ0=0;OQ=122.20;QD=2.07;SB=-76.97 GT:AD:DP:GL:GQ 0/1:47,12:53:-31.48,-15.98,-148.32:99
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chr1 3316287 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=56;Dels=0.04;HRun=0;HaplotypeScore=28.34;MQ=46.39;MQ0=0;OQ=249.44;QD=4.45;SB=13.22 GT:AD:DP:GL:GQ 0/1:42,12:52:-43.29,-15.07,-133.82:99
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chr1 3316288 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=24.35;MQ=46.92;MQ0=0;OQ=241.94;QD=4.17;SB=40.21 GT:AD:DP:GL:GQ 0/1:44,14:54:-43.75,-16.27,-150.33:99
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chr1 3316304 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=2;HaplotypeScore=31.71;MQ=50.98;MQ0=0;OQ=105.86;QD=1.79;SB=47.12 GT:AD:DP:GL:GQ 0/1:51,8:50:-28.93,-15.06,-145.13:99
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chr1 3316355 . A G 40.11 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=6.42;MQ=53.40;MQ0=0;QD=0.79;SB=24.53 GT:AD:DP:GL:GQ 0/1:42,9:48:-21.76,-14.47,-159.00:72.94
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chr1 3316370 . G A 1.13 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=7.87;MQ=52.81;MQ0=0;OQ=530.25;QD=10.40;SB=-291.29 GT:AD:DP:GL:GQ 0/1:31,20:45:-69.88,-13.57,-88.85:99
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chr1 3316500 rs4648494 A G 396.15 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.41;MQ0=0;OQ=1411.68;QD=27.15;SB=-591.87 GT:AD:DP:GL:GQ 1/1:0,52:46:-144.80,-13.88,-0.05:99
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chr1 3316656 rs6670123 C G 292.55 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=1.36;MQ=56.33;MQ0=0;OQ=1404.84;QD=19.79;SB=-673.50 GT:AD:DP:GL:GQ 0/1:33,38:68:-164.26,-20.49,-128.05:99
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chr1 3316892 rs2493296 C T 338.29 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.07;MQ0=0;OQ=702.09;QD=14.04;SB=-332.51 GT:AD:DP:GL:GQ 0/1:27,23:46:-87.37,-13.87,-76.76:99
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chr1 3317409 rs1106270 A G 118.06 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.41;MQ0=0;OQ=1192.84;QD=30.59;SB=-537.44 GT:AD:DP:GL:GQ 1/1:0,39:35:-122.88,-10.54,-0.02:99
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chr1 3317462 rs1106271 T G 1.72 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=4;HaplotypeScore=1.32;MQ=56.98;MQ0=0;OQ=1224.22;QD=31.39;SB=-406.92 GT:AD:DP:GL:GQ 1/1:0,39:38:-126.04,-11.45,-0.03:99
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chr1 3317665 rs57382922 C T 121.84 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=3.88;MQ=57.50;MQ0=0;OQ=526.20;QD=15.48;SB=-279.22 GT:AD:DP:GL:GQ 0/1:15,19:32:-65.55,-9.65,-47.15:99
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chr1 3318218 rs870124 T C 46.45 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=2.76;MQ=58.35;MQ0=0;OQ=987.47;QD=31.85;SB=-495.44 GT:AD:DP:GL:GQ 1/1:0,30:29:-102.35,-8.74,-0.01:87.24
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chr1 3318519 rs2493292 C T 35.55 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=5.38;MQ=58.81;MQ0=0;OQ=410.88;QD=10.54;SB=-213.48 GT:AD:DP:GL:GQ 0/1:22,17:36:-55.22,-10.85,-74.55:99
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chr1 3319244 rs2493291 C T 128.26 PASS AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=57.07;MQ0=0;OQ=113.91;QD=8.76;SB=-36.64 GT:AD:DP:GL:GQ 0/1:8,5:13:-18.59,-3.92,-28.88:99
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chr1 3319441 . G A 108.40 PASS AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.89;MQ0=0;OQ=283.86;QD=13.52;SB=-108.97 GT:AD:DP:GL:GQ 0/1:11,10:21:-38.00,-6.33,-35.64:99
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chr1 3320120 . C T 102.17 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=60.00;MQ0=0;OQ=709.62;QD=14.78;SB=-362.53 GT:AD:DP:GL:GQ 0/1:24,23:45:-87.81,-13.57,-69.77:99
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chr1 3320537 rs2493290 G A 97.62 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=2.41;MQ=59.54;MQ0=0;OQ=872.79;QD=17.46;SB=-392.92 GT:AD:DP:GL:GQ 0/1:24,26:48:-105.02,-14.46,-80.60:99
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chr1 3320607 rs11578951 G A 205.49 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=56.45;MQ0=0;OQ=183.21;QD=9.16;SB=-114.08 GT:AD:DP:GL:GQ 0/1:13,7:17:-26.73,-5.12,-34.52:99
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chr1 3320622 rs2493289 A G 29.59 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=56.62;MQ0=0;OQ=591.39;QD=28.16;SB=-179.75 GT:AD:DP:GL:GQ 1/1:0,20:19:-62.74,-5.73,-0.02:57.13
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chr1 3320744 rs2493288 G A 319.17 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.00;MQ0=0;OQ=558.26;QD=13.29;SB=-286.76 GT:AD:DP:GL:GQ 0/1:23,19:41:-71.47,-12.36,-76.00:99
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chr1 3321412 rs60973157 G C 340.30 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=59.61;MQ0=0;OQ=1008.01;QD=17.08;SB=-510.27 GT:AD:DP:GL:GQ 0/1:31,28:58:-121.57,-17.48,-125.42:99
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chr1 3321593 rs2483228 T C 57.78 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=2.22;MQ=59.17;MQ0=0;OQ=862.49;QD=30.80;SB=-342.44 GT:AD:DP:GL:GQ 1/1:0,28:27:-89.85,-8.14,-0.02:81.21
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chr1 3321759 rs1999528 A G 88.85 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=1263.70;QD=30.82;SB=-424.24 GT:AD:DP:GL:GQ 1/1:0,41:41:-129.99,-12.37,-0.04:99
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chr1 3322543 rs2483229 T C 158.61 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.98;MQ0=0;OQ=401.83;QD=7.31;SB=-190.61 GT:AD:DP:GL:GQ 0/1:33,22:50:-58.54,-15.08,-123.40:99
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chr1 3322811 rs1889123 T C 57.71 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.68;MQ=60.00;MQ0=0;OQ=1553.51;QD=34.52;SB=-743.30 GT:AD:DP:GL:GQ 1/1:0,45:44:-158.95,-13.25,-0.01:99
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chr1 3323101 rs55713431 A G 0.68 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=4;HaplotypeScore=1.93;MQ=59.65;MQ0=0;OQ=422.62;QD=7.97;SB=-123.50 GT:AD:DP:GL:GQ 0/1:32,21:47:-59.71,-14.17,-112.42:99
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chr1 3323323 rs2068354 A G 160.11 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.65;MQ0=0;OQ=738.34;QD=11.36;SB=-391.91 GT:AD:DP:GL:GQ 0/1:34,31:64:-96.41,-19.29,-135.43:99
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chr1 3324752 rs2483230 A G 139.58 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.41;MQ=59.42;MQ0=0;OQ=1229.51;QD=30.74;SB=-406.34 GT:AD:DP:GL:GQ 1/1:0,40:38:-126.56,-11.45,-0.03:99
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chr1 3326060 rs1984069 C T 66.93 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=2062.28;QD=37.50;SB=-721.47 GT:AD:DP:GL:GQ 1/1:0,55:53:-209.83,-15.97,-0.02:99
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chr1 3327403 rs1572040 A G 479.17 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1561.86;QD=33.95;SB=-803.63 GT:AD:DP:GL:GQ 1/1:0,46:45:-159.79,-13.56,-0.02:99
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chr1 3327481 . A G 13.29 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=1;HaplotypeScore=3.51;MQ=58.78;MQ0=0;OQ=805.84;QD=11.68;SB=-333.16 GT:AD:DP:GL:GQ 0/1:35,34:66:-103.76,-19.89,-136.42:99
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chr1 3327496 rs11579873 G A 76.54 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=5.52;MQ=59.07;MQ0=0;OQ=1231.78;QD=17.60;SB=-403.19 GT:AD:DP:GL:GQ 0/1:34,36:67:-146.65,-20.19,-102.53:99
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chr1 3328305 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=2;HaplotypeScore=9.54;MQ=57.05;MQ0=0;OQ=81.44;QD=1.66;SB=56.21 GT:AD:DP:GL:GQ 0/1:35,13:31:-20.79,-9.36,-100.83:99
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chr1 3328931 rs2483231 A G 0.45 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=2.58;MQ=57.64;MQ0=0;OQ=961.69;QD=26.71;SB=-96.83 GT:AD:DP:GL:GQ 1/1:0,35:29:-99.77,-8.74,-0.01:87.24
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chr1 3329199 rs10492937 C A 94.15 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=591.17;QD=15.16;SB=-220.88 GT:AD:DP:GL:GQ 0/1:18,21:38:-73.85,-11.45,-60.07:99
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chr1 3329740 . G T 6.44 PASS AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=1;HaplotypeScore=3.49;MQ=59.36;MQ0=0;OQ=539.79;QD=14.99;SB=-294.29 GT:AD:DP:GL:GQ 0/1:15,21:33:-67.21,-9.94,-47.46:99
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chr1 3329976 rs2483232 A G 146.59 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.83;MQ=59.54;MQ0=0;OQ=1387.79;QD=27.76;SB=-682.70 GT:AD:DP:GL:GQ 1/1:0,49:45:-142.42,-13.58,-0.05:99
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chr1 3330129 rs4648385 C T 62.27 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=1.11;MQ=59.51;MQ0=0;OQ=1421.02;QD=37.40;SB=-712.36 GT:AD:DP:GL:GQ 1/1:0,38:36:-145.70,-10.84,-0.01:99
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chr1 3330207 rs2483233 A G 536.88 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1265.03;QD=33.29;SB=-631.30 GT:AD:DP:GL:GQ 1/1:0,38:37:-130.10,-11.15,-0.02:99
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chr1 3330527 rs2483234 A G 229.57 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1088.75;QD=27.92;SB=-544.02 GT:AD:DP:GL:GQ 1/1:0,38:35:-112.49,-10.56,-0.04:99
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chr1 3330619 rs2483235 A G 461.47 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.29;MQ0=0;OQ=1699.01;QD=28.80;SB=-626.83 GT:AD:DP:GL:GQ 1/1:0,59:55:-173.55,-16.59,-0.06:99
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chr1 3330715 rs4648500 A C 461.04 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.69;MQ0=0;OQ=953.20;QD=15.63;SB=-476.30 GT:AD:DP:GL:GQ 0/1:28,33:61:-116.98,-18.37,-104.31:99
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chr1 3331400 rs2483236 C T 56.26 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=2.18;MQ=55.81;MQ0=0;OQ=1168.69;QD=36.52;SB=-534.21 GT:AD:DP:GL:GQ 1/1:0,31:30:-120.46,-9.04,-0.01:90.29
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chr1 3331651 rs1970118 A G 69.34 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=50.87;MQ0=0;OQ=938.62;QD=27.61;SB=-452.46 GT:AD:DP:GL:GQ 1/1:0,34:32:-97.49,-9.66,-0.04:96.17
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chr1 3331969 rs41303861 G T 165.88 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.33;MQ=56.82;MQ0=0;OQ=610.74;QD=12.99;SB=-193.66 GT:AD:DP:GL:GQ 0/1:23,24:44:-77.62,-13.26,-67.40:99
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chr1 3332390 rs2244013 G A 343.87 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.76;MQ=59.53;MQ0=0;OQ=624.83;QD=12.75;SB=-319.81 GT:AD:DP:GL:GQ 0/1:27,22:47:-79.93,-14.16,-96.24:99
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chr1 3332664 rs870171 G T 453.17 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=726.05;QD=12.10;SB=-151.13 GT:AD:DP:GL:GQ 0/1:34,26:59:-93.67,-17.78,-105.77:99
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chr1 3333105 rs7549050 A G 414.31 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=796.44;QD=10.62;SB=-292.01 GT:AD:DP:GL:GQ 0/1:42,33:74:-105.23,-22.30,-168.30:99
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chr1 3333795 rs55833861 T C 103.98 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=2.59;MQ=58.97;MQ0=0;OQ=717.11;QD=11.38;SB=-232.86 GT:AD:DP:GL:GQ 0/1:36,27:59:-92.78,-17.78,-129.42:99
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chr1 3333920 rs56196310 G T 246.95 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=59.56;MQ0=0;OQ=564.40;QD=10.65;SB=-293.98 GT:AD:DP:GL:GQ 0/1:32,21:49:-74.48,-14.76,-99.79:99
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chr1 3334336 rs61759212 A G 99.75 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.03;MQ=59.13;MQ0=0;OQ=418.37;QD=9.73;SB=-116.62 GT:AD:DP:GL:GQ 0/1:23,20:40:-57.18,-12.06,-85.13:99
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chr1 3334647 rs2483240 A G 15.04 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=55.38;MQ0=1;OQ=79.23;QD=3.96;SB=-53.29 GT:AD:DP:GL:GQ 0/1:13,7:16:-16.03,-4.82,-44.27:99
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chr1 3335005 rs2483242 A T 508.54 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.64;MQ0=0;OQ=469.82;QD=13.82;SB=-232.91 GT:AD:DP:GL:GQ 0/1:18,16:34:-60.51,-10.24,-69.68:99
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chr1 3335714 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=2;HaplotypeScore=9.36;MQ=57.49;MQ0=0;OQ=205.84;QD=4.57;SB=56.19 GT:AD:DP:GL:GQ 0/1:25,20:36:-34.71,-10.85,-86.86:99
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chr1 3336208 rs2493277 C G 559.81 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=642.22;QD=14.94;SB=-326.21 GT:AD:DP:GL:GQ 0/1:23,20:42:-80.17,-12.66,-97.68:99
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chr1 3336263 rs11583353 C T 94.14 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.90;MQ0=0;OQ=708.85;QD=18.65;SB=-324.84 GT:AD:DP:GL:GQ 0/1:17,21:37:-85.32,-11.15,-51.45:99
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chr1 3339994 rs10752734 T C 155.05 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=27.27;MQ0=2;OQ=107.39;QD=6.32;SB=-10.00 GT:AD:DP:GL:GQ 1/1:8,9:4:-14.27,-1.20,-0.00:12.04
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chr1 3342087 rs1537406 T C 266.84 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.18;MQ=59.23;MQ0=0;OQ=2135.99;QD=33.90;SB=-825.32 GT:AD:DP:GL:GQ 1/1:0,63:60:-217.21,-18.07,-0.02:99
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chr1 3342088 rs12735779 G C 80.32 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.18;MQ=59.25;MQ0=0;OQ=2678.31;QD=41.20;SB=-987.13 GT:AD:DP:GL:GQ 1/1:0,65:62:-271.44,-18.68,-0.02:99
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chr1 3342207 rs1537405 T C 92.45 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=60.00;MQ0=0;OQ=1223.31;QD=28.45;SB=-485.50 GT:AD:DP:GL:GQ 1/1:0,43:40:-125.96,-12.07,-0.04:99
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chr1 3342363 rs1537404 G C 0.18 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=4;HaplotypeScore=2.53;MQ=57.71;MQ0=0;OQ=1605.19;QD=37.33;SB=-574.94 GT:AD:DP:GL:GQ 1/1:0,43:39:-164.12,-11.76,-0.02:99
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chr1 3342401 rs1065247 T C 218.93 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=58.89;MQ0=0;OQ=523.80;QD=12.47;SB=-250.33 GT:AD:DP:GL:GQ 0/1:20,21:38:-67.12,-11.46,-67.07:99
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chr1 3342439 rs1537402 T C 329.15 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.61;MQ0=0;OQ=1390.94;QD=29.59;SB=-663.80 GT:AD:DP:GL:GQ 1/1:0,47:44:-142.72,-13.27,-0.04:99
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chr1 3342644 rs2493267 A G 426.47 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1871.16;QD=31.71;SB=-785.23 GT:AD:DP:GL:GQ 1/1:0,59:54:-190.73,-16.27,-0.03:99
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chr1 3342725 rs35015571 C T 160.86 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=59.43;MQ0=0;OQ=266.00;QD=8.06;SB=-157.61 GT:AD:DP:GL:GQ 0/1:23,10:28:-38.32,-8.44,-61.48:99
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chr1 3342732 rs2236518 A C 16.29 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=2;HaplotypeScore=2.32;MQ=59.45;MQ0=0;OQ=611.30;QD=17.98;SB=-246.93 GT:AD:DP:GL:GQ 0/1:10,24:30:-73.45,-9.04,-31.78:99
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chr1 3343497 rs35837267 G A 179.26 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=1.81;MQ=58.20;MQ0=0;OQ=412.37;QD=12.13;SB=-230.72 GT:AD:DP:GL:GQ 0/1:20,14:34:-54.77,-10.25,-72.54:99
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chr1 3343750 rs2493265 A G 92.52 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.09;MQ0=0;OQ=1343.75;QD=27.42;SB=-616.98 GT:AD:DP:GL:GQ 1/1:0,49:43:-138.00,-12.97,-0.04:99
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chr1 3343809 rs2493264 A G 123.80 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=3.40;MQ=58.91;MQ0=0;OQ=1865.11;QD=29.14;SB=-622.24 GT:AD:DP:GL:GQ 1/1:0,64:61:-190.17,-18.41,-0.07:99
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chr1 3344455 rs2483249 T C 577.76 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2266.24;QD=31.92;SB=-1078.24 GT:AD:DP:GL:GQ 1/1:0,71:70:-230.26,-21.11,-0.05:99
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chr1 3344475 rs2493263 T C 726.67 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2858.56;QD=35.29;SB=-1249.13 GT:AD:DP:GL:GQ 1/1:0,81:80:-289.47,-24.10,-0.03:99
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chr1 3345122 rs55729137 G A 38.39 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=59.48;MQ0=0;OQ=807.80;QD=18.36;SB=-199.91 GT:AD:DP:GL:GQ 0/1:20,24:42:-96.73,-12.66,-57.09:99
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chr1 3346265 rs2483250 A C 12.02 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=3;HaplotypeScore=0.89;MQ=59.52;MQ0=0;OQ=1256.35;QD=32.21;SB=-315.07 GT:AD:DP:GL:GQ 1/1:0,39:37:-129.23,-11.15,-0.01:99
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chr1 3346495 rs2483251 T C 2.80 PASS AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.00;HRun=2;HaplotypeScore=1.13;MQ=60.00;MQ0=0;OQ=525.69;QD=27.67;SB=-225.75 GT:AD:DP:GL:GQ 1/1:0,19:16:-56.16,-4.82,-0.01:48.13
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chr1 3346655 rs2493262 C G 18.99 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=2;HaplotypeScore=2.19;MQ=59.17;MQ0=0;OQ=878.66;QD=31.38;SB=-427.67 GT:AD:DP:GL:GQ 1/1:0,27:23:-91.47,-6.94,-0.02:69.23
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chr1 3346875 rs12745100 C T 10.66 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=496.33;QD=18.38;SB=-39.63 GT:AD:DP:GL:GQ 0/1:12,15:27:-61.05,-8.13,-42.91:99
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chr1 3347097 rs55892133 A G 803.11 Indel AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=3.17;MQ=58.79;MQ0=0;QD=12.55;SB=-200.20 GT:AD:DP:GL:GQ 0/1:34,30:60:-101.69,-18.09,-118.87:99
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chr1 3347896 rs10797392 T G 467.03 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.49;MQ0=1;OQ=720.09;QD=12.20;SB=-372.76 GT:AD:DP:GL:GQ 0/1:27,32:54:-91.57,-16.27,-88.57:99
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chr1 3348782 rs2483252 G C 20.05 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=1.07;MQ=58.41;MQ0=0;OQ=1754.48;QD=39.87;SB=-676.45 GT:AD:DP:GL:GQ 1/1:0,43:42:-179.05,-12.66,-0.02:99
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chr1 3348792 rs35536718 C G 187.57 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=58.60;MQ0=0;OQ=722.68;QD=14.45;SB=-275.28 GT:AD:DP:GL:GQ 0/1:28,22:46:-89.42,-13.87,-106.46:99
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chr1 3349040 rs2493261 C G 241.62 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=2328.68;QD=40.85;SB=-454.11 GT:AD:DP:GL:GQ 1/1:0,57:55:-236.48,-16.59,-0.03:99
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chr1 3349142 rs56009352 G T 195.97 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=58.75;MQ0=0;OQ=381.64;QD=9.09;SB=-161.15 GT:AD:DP:GL:GQ 0/1:24,18:38:-52.90,-11.45,-81.46:99
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chr1 3349843 rs11588737 T C 126.31 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.70;MQ0=0;OQ=680.83;QD=8.96;SB=-348.93 GT:AD:DP:GL:GQ 0/1:44,32:72:-93.07,-21.70,-169.44:99
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chr1 3349896 rs9424295 C A 298.32 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=58.90;MQ0=0;OQ=883.58;QD=12.27;SB=-371.71 GT:AD:DP:GL:GQ 0/1:40,32:69:-112.42,-20.78,-136.87:99
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chr1 3350654 . A G 19.67 PASS AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=4.82;MQ=58.94;MQ0=0;OQ=752.06;QD=11.22;SB=-353.94 GT:AD:DP:GL:GQ 0/1:36,30:64:-97.78,-19.29,-134.25:99
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chr1 3350874 rs2493260 A T 152.74 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1881.55;QD=33.01;SB=-813.90 GT:AD:DP:GL:GQ 1/1:0,54:52:-191.76,-15.67,-0.02:99
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chr1 3351164 rs2483254 G A 165.18 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.02;MQ=57.99;MQ0=0;OQ=1923.46;QD=34.35;SB=-708.45 GT:AD:DP:GL:GQ 1/1:0,56:52:-195.97,-15.68,-0.04:99
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chr1 3351668 rs61759222 T C 292.32 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.16;MQ0=0;OQ=649.71;QD=12.99;SB=-320.27 GT:AD:DP:GL:GQ 0/1:27,23:50:-83.32,-15.07,-104.64:99
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chr1 3351675 rs61759223 T C 215.70 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.56;MQ0=0;OQ=453.74;QD=8.73;SB=-214.35 GT:AD:DP:GL:GQ 0/1:31,21:51:-64.03,-15.38,-121.39:99
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chr1 3351951 rs61759224 A G 132.94 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=58.69;MQ0=0;OQ=462.74;QD=9.25;SB=-204.32 GT:AD:DP:GL:GQ 0/1:29,21:49:-64.32,-14.77,-119.90:99
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chr1 3352116 rs867814 C T 338.36 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.66;MQ0=0;OQ=1015.19;QD=15.15;SB=-259.14 GT:AD:DP:GL:GQ 0/1:34,33:66:-124.69,-19.89,-112.54:99
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chr1 3352233 rs55781247 C T 0.43 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=12.27;MQ=55.55;MQ0=1;OQ=438.31;QD=8.59;SB=-227.00 GT:AD:DP:GL:GQ 0/1:27,22:35:-60.74,-13.63,-60.12:99
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chr1 3352662 . G C 94.32 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.30;MQ0=0;OQ=750.60;QD=12.94;SB=-224.33 GT:AD:DP:GL:GQ 0/1:34,23:56:-95.22,-16.87,-149.91:99
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chr1 3353096 rs11808277 C G 337.37 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.63;MQ0=0;OQ=1053.89;QD=17.00;SB=-489.21 GT:AD:DP:GL:GQ 0/1:30,32:59:-126.45,-17.78,-131.54:99
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chr1 3353132 . G A 167.12 PASS AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.73;MQ0=0;OQ=1096.75;QD=16.13;SB=-431.84 GT:AD:DP:GL:GQ 0/1:34,34:67:-133.15,-20.19,-109.37:99
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chr1 3353327 rs10158332 A T 108.69 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=58.82;MQ0=0;OQ=1002.21;QD=14.12;SB=-515.47 GT:AD:DP:GL:GQ 0/1:38,33:71:-124.89,-21.39,-148.24:99
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chr1 3353449 rs10157570 G A 490.96 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=905.02;QD=15.88;SB=-430.82 GT:AD:DP:GL:GQ 0/1:30,27:56:-110.66,-16.88,-93.98:99
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chr1 3353662 rs2483255 A T 46.49 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=4.02;MQ=59.30;MQ0=0;OQ=2470.87;QD=37.44;SB=-912.35 GT:AD:DP:GL:GQ 1/1:0,66:64:-250.68,-19.27,-0.01:99
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chr1 3353786 rs2493258 A G 307.10 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.56;MQ0=0;OQ=1182.18;QD=13.91;SB=-595.40 GT:AD:DP:GL:GQ 0/1:39,46:85:-147.12,-25.62,-159.37:99
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chr1 3354380 rs61759225 T C 235.67 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=921.81;QD=12.29;SB=-424.06 GT:AD:DP:GL:GQ 0/1:42,33:74:-117.76,-22.29,-166.03:99
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chr1 3354597 rs2263010 T C 533.81 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2222.94;QD=35.85;SB=-1114.11 GT:AD:DP:GL:GQ 1/1:0,62:62:-225.90,-18.68,-0.02:99
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chr1 3354829 rs61759226 A T 251.14 PASS AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.16;MQ0=0;OQ=1748.33;QD=17.48;SB=-874.02 GT:AD:DP:GL:GQ 0/1:46,54:99:-207.93,-29.81,-176.30:99
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chr1 3355107 rs4648386 A G 12.08 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=3.00;MQ=59.31;MQ0=0;OQ=1773.45;QD=34.77;SB=-505.48 GT:AD:DP:GL:GQ 1/1:0,51:51:-180.95,-15.36,-0.02:99
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chr1 3355113 rs61759227 G A 0.86 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=6.85;MQ=58.80;MQ0=0;OQ=911.32;QD=18.60;SB=-216.88 GT:AD:DP:GL:GQ 0/1:22,27:48:-108.87,-14.46,-75.78:99
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chr1 3355993 rs55913848 G T 115.65 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=58.15;MQ0=0;OQ=1046.84;QD=16.62;SB=-492.93 GT:AD:DP:GL:GQ 0/1:29,34:61:-126.34,-18.38,-91.26:99
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chr1 3356353 rs2096102 C A 344.49 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.20;MQ=61.19;MQ0=0;OQ=1204.86;QD=17.21;SB=-565.00 GT:AD:DP:GL:GQ 0/1:30,40:67:-143.95,-20.18,-94.79:99
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chr1 3356461 . G A 34.92 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=63.59;MQ=46.78;MQ0=1;QD=0.83;SB=-40.97 GT:AD:DP:GL:GQ 0/1:36,6:34:-17.03,-10.25,-100.31:67.76
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chr1 3356464 . T G 27.11 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=13.28;MQ=49.36;MQ0=1;QD=0.85;SB=-38.91 GT:AD:DP:GL:GQ 0/1:28,4:29:-14.73,-8.74,-84.74:59.94
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chr1 3356466 . G T 324.76 SnpCluster AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=10.60;MQ=48.57;MQ0=1;QD=10.83;SB=-127.64 GT:AD:DP:GL:GQ 0/1:15,15:26:-43.60,-7.84,-42.90:99
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chr1 3357640 rs2487679 A G 123.35 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.76;MQ=59.32;MQ0=0;OQ=2260.98;QD=33.25;SB=-697.21 GT:AD:DP:GL:GQ 1/1:0,68:67:-229.71,-20.18,-0.03:99
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chr1 3357895 rs6697669 T C 43.42 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.03;HRun=0;HaplotypeScore=3.79;MQ=57.15;MQ0=0;OQ=335.02;QD=10.15;SB=-38.93 GT:AD:DP:GL:GQ 0/1:18,13:30:-45.82,-9.04,-67.57:99
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chr1 3357991 rs4648501 G A 122.29 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.97;MQ0=0;OQ=545.72;QD=10.70;SB=-291.79 GT:AD:DP:GL:GQ 0/1:33,18:50:-72.92,-15.06,-113.74:99
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chr1 3358003 rs2487670 G A 120.25 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.77;MQ0=0;OQ=1144.78;QD=22.01;SB=-472.53 GT:AD:DP:GL:GQ 0/1:18,34:50:-132.83,-15.07,-51.40:99
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chr1 3358201 rs55902179 A G 118.16 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=1.99;MQ=60.00;MQ0=0;OQ=620.71;QD=14.78;SB=-241.29 GT:AD:DP:GL:GQ 0/1:20,22:41:-77.71,-12.35,-78.03:99
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chr1 3359613 rs2487668 G A 227.96 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=59.61;MQ0=0;OQ=985.10;QD=16.70;SB=-425.79 GT:AD:DP:GL:GQ 0/1:26,32:57:-118.97,-17.18,-94.23:99
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chr1 3359684 rs34681041 A G 13.72 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=2;HaplotypeScore=1.71;MQ=60.00;MQ0=0;OQ=330.72;QD=8.70;SB=-110.60 GT:AD:DP:GL:GQ 0/1:21,17:34:-46.60,-10.25,-79.14:99
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chr1 3361330 . G C 0.29 PASS AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=68.48;QD=6.85;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,4:9:-12.85,-2.72,-22.16:99
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chr1 3361841 rs55858614 G C 94.38 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.70;MQ0=0;OQ=503.58;QD=17.36;SB=-238.39 GT:AD:DP:GL:GQ 0/1:14,15:29:-62.38,-8.74,-58.19:99
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chr1 3362331 rs10909946 A C 12.50 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=3;HaplotypeScore=2.71;MQ=58.18;MQ0=0;OQ=655.84;QD=12.15;SB=-228.89 GT:AD:DP:GL:GQ 0/1:26,28:47:-83.03,-14.16,-81.70:99
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chr1 3362529 rs61759232 T C 1.77 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=3;HaplotypeScore=3.67;MQ=58.99;MQ0=0;OQ=549.81;QD=11.95;SB=-107.61 GT:AD:DP:GL:GQ 0/1:22,24:42:-70.93,-12.66,-83.77:99
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chr1 3362717 . A G 41.71 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=1;HaplotypeScore=2.52;MQ=59.65;MQ0=0;OQ=773.42;QD=14.59;SB=-374.28 GT:AD:DP:GL:GQ 0/1:23,30:49:-95.39,-14.76,-86.55:99
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chr1 3363471 rs56365322 C G 249.90 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.24;MQ0=0;OQ=638.66;QD=11.61;SB=-240.06 GT:AD:DP:GL:GQ 0/1:30,25:50:-82.23,-15.08,-125.58:99
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chr1 3363827 rs2493256 A G 265.69 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.09;MQ=58.48;MQ0=0;OQ=531.11;QD=12.35;SB=-221.59 GT:AD:DP:GL:GQ 0/1:23,19:42:-71.22,-14.82,-89.22:99
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chr1 3364220 rs12745860 C T 264.50 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=58.78;MQ0=0;OQ=718.26;QD=12.60;SB=-212.70 GT:AD:DP:GL:GQ 0/1:33,24:53:-91.09,-15.98,-94.23:99
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chr1 3364244 rs12758368 T A 250.46 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=1.60;MQ=59.27;MQ0=0;OQ=910.80;QD=14.46;SB=-359.58 GT:AD:DP:GL:GQ 0/1:33,30:62:-113.04,-18.68,-119.17:99
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chr1 3364803 rs56242281 A G 70.18 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=3.36;MQ=59.30;MQ0=0;OQ=300.82;QD=9.12;SB=-84.67 GT:AD:DP:GL:GQ 0/1:18,14:30:-42.41,-9.04,-64.59:99
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chr1 3365228 rs61759235 A G 136.44 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.88;MQ=58.63;MQ0=0;OQ=478.85;QD=9.39;SB=-239.48 GT:AD:DP:GL:GQ 0/1:30,21:48:-65.63,-14.46,-116.95:99
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chr1 3365583 rs61759236 C G 131.55 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=835.90;QD=18.58;SB=-383.86 GT:AD:DP:GL:GQ 0/1:22,23:43:-99.85,-12.97,-77.78:99
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chr1 3366053 rs61759237 C T 131.92 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=735.43;QD=17.10;SB=-313.83 GT:AD:DP:GL:GQ 0/1:21,22:42:-89.48,-12.65,-70.75:99
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chr1 3366393 rs12059504 T C 302.48 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=60.00;MQ0=0;OQ=609.78;QD=12.70;SB=-240.29 GT:AD:DP:GL:GQ 0/1:24,24:48:-78.73,-14.47,-96.53:99
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chr1 3366983 rs59183260 C T 199.73 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.76;MQ=59.56;MQ0=0;OQ=586.61;QD=13.97;SB=-272.28 GT:AD:DP:GL:GQ 0/1:22,20:39:-73.71,-11.76,-62.95:99
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chr1 3367203 rs2487681 T C 222.79 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=60.00;MQ0=0;OQ=351.40;QD=8.79;SB=-154.93 GT:AD:DP:GL:GQ 0/1:22,18:38:-49.88,-11.46,-85.17:99
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chr1 3372040 rs10909947 G T 39.70 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.75;MQ0=0;OQ=1667.04;QD=35.47;SB=-355.84 GT:AD:DP:GL:GQ 1/1:0,47:46:-170.30,-13.86,-0.01:99
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chr1 3372773 . T G 28.89 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=2;HaplotypeScore=4.07;MQ=59.49;MQ0=0;QD=0.64;SB=56.17 GT:AD:DP:GL:GQ 0/1:32,13:34:-16.42,-10.24,-99.13:61.72
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chr1 3372898 rs947351 G A 372.12 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.19;MQ0=0;OQ=649.44;QD=12.49;SB=-216.21 GT:AD:DP:GL:GQ 0/1:28,24:49:-83.00,-14.77,-93.12:99
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chr1 3373453 rs3893316 G T 349.34 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=441.10;QD=14.70;SB=-201.58 GT:AD:DP:GL:GQ 0/1:13,17:29:-56.13,-8.74,-43.76:99
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chr1 3373525 rs7550948 G A 64.51 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.53;MQ0=0;OQ=1066.26;QD=21.76;SB=-418.80 GT:AD:DP:GL:GQ 0/1:18,31:47:-124.08,-14.17,-50.84:99
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chr1 3373758 rs6424078 A G 63.51 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=2.28;MQ=58.45;MQ0=0;OQ=303.09;QD=10.10;SB=-109.62 GT:AD:DP:GL:GQ 0/1:15,15:29:-42.34,-8.75,-57.35:99
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chr1 3373912 rs45512802 C T 115.92 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.77;MQ=58.81;MQ0=0;OQ=487.90;QD=12.51;SB=-154.65 GT:AD:DP:GL:GQ 0/1:21,18:37:-63.22,-11.15,-77.33:99
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chr1 3374091 rs6667361 A G 15.86 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=3;HaplotypeScore=1.91;MQ=58.45;MQ0=0;OQ=441.93;QD=9.82;SB=-196.52 GT:AD:DP:GL:GQ 0/1:26,19:43:-60.43,-12.96,-100.55:99
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chr1 3374466 rs7522513 A G 114.35 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.36;MQ0=0;OQ=449.01;QD=11.23;SB=-195.64 GT:AD:DP:GL:GQ 0/1:20,20:37:-59.34,-11.16,-69.75:99
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chr1 3374989 rs2493250 G A 285.91 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.52;MQ0=0;OQ=823.07;QD=17.15;SB=-412.42 GT:AD:DP:GL:GQ 0/1:23,25:48:-100.06,-14.47,-73.79:99
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chr1 3374999 rs2487673 G T 438.47 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=759.07;QD=16.87;SB=-384.82 GT:AD:DP:GL:GQ 0/1:19,26:45:-92.75,-13.56,-63.83:99
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chr1 3375110 rs1417897 C A 224.44 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=57.71;MQ0=0;OQ=613.48;QD=15.73;SB=-271.51 GT:AD:DP:GL:GQ 0/1:18,21:37:-75.78,-11.15,-51.34:99
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chr1 3375116 rs1891143 A G 122.77 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=57.71;MQ0=0;OQ=346.85;QD=8.89;SB=-128.27 GT:AD:DP:GL:GQ 0/1:22,17:35:-48.52,-10.55,-81.11:99
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chr1 3375190 rs2493249 T C 0.27 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=3;HaplotypeScore=2.59;MQ=59.45;MQ0=0;OQ=889.42;QD=26.16;SB=-381.39 GT:AD:DP:GL:GQ 1/1:0,34:28:-92.55,-8.44,-0.02:84.20
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chr1 3377520 . G A 54.48 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.18;MQ=60.00;MQ0=0;OQ=404.10;QD=10.92;SB=-123.57 GT:AD:DP:GL:GQ 0/1:21,16:32:-53.34,-9.65,-57.04:99
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chr1 3379133 rs2298082 T C 273.90 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.53;MQ=58.32;MQ0=0;OQ=528.06;QD=13.20;SB=-222.68 GT:AD:DP:GL:GQ 0/1:19,21:37:-67.24,-11.15,-73.98:99
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chr1 3379181 rs2487687 C T 16.32 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=60.00;MQ0=0;OQ=545.94;QD=21.00;SB=-232.27 GT:AD:DP:GL:GQ 0/1:9,17:25:-65.41,-7.53,-31.41:99
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chr1 3379587 rs2185639 C T 119.32 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=2.54;MQ=58.13;MQ0=0;OQ=232.01;QD=9.28;SB=-26.61 GT:AD:DP:GL:GQ 0/1:14,10:22:-33.12,-6.63,-45.28:99
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chr1 3380098 rs2493323 T A 210.96 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.76;MQ0=0;OQ=1873.41;QD=38.23;SB=-364.88 GT:AD:DP:GL:GQ 1/1:0,49:49:-190.94,-14.76,-0.01:99
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chr1 3380882 rs2493322 G A 155.52 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.57;MQ0=0;OQ=666.25;QD=12.34;SB=-269.17 GT:AD:DP:GL:GQ 0/1:33,21:52:-85.58,-15.67,-103.39:99
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chr1 3381466 . A G 34.09 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.23;MQ=18.93;MQ0=48;QD=0.47;SB=2.04 GT:AD:DP:GL:GQ 0/1:58,15:13:-10.61,-3.92,-40.00:66.92
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chr1 3381536 rs2493320 G A 66.96 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=9.35;MQ0=30;OQ=163.18;QD=3.98;SB=-10.00 GT:AD:DP:GL:GQ 1/1:12,29:5:-19.88,-1.51,-0.00:15.05
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chr1 3381776 rs56863381 G A 0.39 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=12.80;MQ0=34;OQ=57.75;QD=1.03;SB=5.02 GT:AD:DP:GL:GQ 0/1:40,16:11:-12.38,-3.32,-24.49:90.59
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chr1 3382016 . A G 35.80 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=12.28;MQ0=39;QD=0.55;SB=-10.00 GT:AD:DP:GL:GQ 0/1:54,11:16:-11.69,-4.82,-49.41:68.63
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chr1 3382186 rs2493318 A G 275.57 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.11;MQ=47.26;MQ0=1;OQ=747.71;QD=13.35;SB=-372.26 GT:AD:DP:GL:GQ 0/1:27,29:52:-93.72,-15.67,-105.01:99
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chr1 3382897 rs12124163 G T 198.71 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.56;MQ0=0;OQ=598.86;QD=14.26;SB=-222.53 GT:AD:DP:GL:GQ 0/1:21,21:41:-75.52,-12.35,-66.44:99
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chr1 3383727 rs10797394 G A 171.07 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=49.26;MQ0=0;QD=13.16;SB=8.03 GT:AD:DP:GL:GQ 0/1:7,6:12:-24.01,-3.62,-19.11:99
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chr1 3383981 rs56341824 G T 14.44 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=1.70;MQ=59.25;MQ0=0;OQ=147.62;QD=5.90;SB=-6.99 GT:AD:DP:GL:GQ 0/1:17,8:23:-24.98,-6.93,-50.77:99
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chr1 3384110 rs10909948 C T 220.05 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=54.75;MQ0=0;OQ=493.02;QD=17.00;SB=-263.55 GT:AD:DP:GL:GQ 0/1:13,16:28:-61.02,-8.44,-45.99:99
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chr1 3384316 rs4638054 T C 12.90 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.07;MQ0=0;OQ=1239.78;QD=27.55;SB=-421.16 GT:AD:DP:GL:GQ 1/1:0,45:41:-127.61,-12.37,-0.05:99
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chr1 3384500 rs4422946 A G 10.27 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=2;HaplotypeScore=1.93;MQ=60.00;MQ0=0;OQ=259.70;QD=9.27;SB=-73.94 GT:AD:DP:GL:GQ 0/1:16,12:25:-36.79,-7.54,-56.39:99
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chr1 3384534 rs4534324 T C 47.15 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.99;MQ0=0;OQ=674.08;QD=29.31;SB=-343.44 GT:AD:DP:GL:GQ 1/1:0,23:22:-71.01,-6.63,-0.02:66.16
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chr1 3384899 rs10797395 G A 51.14 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=4.52;MQ=59.38;MQ0=0;OQ=712.83;QD=19.27;SB=-338.87 GT:AD:DP:GL:GQ 0/1:16,21:35:-85.11,-10.54,-50.14:99
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chr1 3385089 rs4553117 T C 310.38 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.76;MQ0=0;OQ=892.31;QD=26.24;SB=-387.26 GT:AD:DP:GL:GQ 1/1:0,34:29:-92.85,-8.75,-0.03:87.19
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chr1 3385248 rs28568519 C G 124.68 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.55;MQ=59.45;MQ0=0;OQ=725.71;QD=17.28;SB=-286.30 GT:AD:DP:GL:GQ 0/1:20,22:38:-87.31,-11.46,-71.37:99
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chr1 3386469 rs881978 C T 144.12 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=2.64;MQ=59.25;MQ0=0;OQ=1109.69;QD=19.82;SB=-578.43 GT:AD:DP:GL:GQ 0/1:23,33:55:-130.82,-16.57,-79.57:99
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chr1 3386922 rs56309807 G A 10.71 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=6.20;MQ=58.23;MQ0=0;OQ=434.23;QD=11.74;SB=-179.25 GT:AD:DP:GL:GQ 0/1:20,16:31:-56.05,-9.34,-54.39:99
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chr1 3387048 rs2487677 T C 22.85 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=1.93;MQ=58.11;MQ0=0;OQ=1498.47;QD=31.88;SB=-723.23 GT:AD:DP:GL:GQ 1/1:0,46:43:-153.45,-12.96,-0.02:99
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chr1 3387315 rs1051515 G A 124.17 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.61;MQ=59.55;MQ0=0;OQ=661.19;QD=15.03;SB=-242.52 GT:AD:DP:GL:GQ 0/1:21,23:41:-81.76,-12.36,-69.63:99
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chr1 3387424 rs1051517 C T 185.79 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=59.57;MQ0=0;OQ=722.32;QD=16.80;SB=-358.40 GT:AD:DP:GL:GQ 0/1:21,22:42:-88.17,-12.66,-71.34:99
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chr1 3387765 rs2487676 G C 0.92 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=1.72;MQ=59.56;MQ0=0;OQ=985.55;QD=23.47;SB=-402.96 GT:AD:DP:GL:GQ 0/1:13,29:39:-113.61,-11.77,-48.31:99
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chr1 3387785 rs10797396 G A 343.20 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=869.16;QD=19.75;SB=-452.50 GT:AD:DP:GL:GQ 0/1:15,29:41:-102.56,-12.36,-46.08:99
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chr1 3388739 . G C 3.92 PASS AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=47.12;MQ0=0;OQ=99.91;QD=7.14;SB=-0.98 GT:AD:DP:GL:GQ 0/1:10,4:13:-17.20,-3.93,-33.90:99
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chr1 3388844 rs11579276 C T 89.01 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=228.92;QD=8.80;SB=-0.98 GT:AD:DP:GL:GQ 0/1:16,10:21:-32.51,-6.33,-40.91:99
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chr1 3389315 rs2493316 T C 332.07 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=364.79;QD=11.40;SB=-143.65 GT:AD:DP:GL:GQ 0/1:18,14:32:-49.41,-9.65,-68.22:99
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chr1 3390585 rs12124659 C T 210.63 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.96;MQ0=0;OQ=1350.80;QD=37.52;SB=-227.30 GT:AD:DP:GL:GQ 1/1:0,36:35:-138.68,-10.55,-0.01:99
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chr1 3391131 rs2487674 A G 49.46 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=60.00;MQ0=0;OQ=2482.25;QD=31.82;SB=-1068.16 GT:AD:DP:GL:GQ 1/1:0,78:76:-251.87,-22.92,-0.06:99
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chr1 3392093 rs4648504 C T 77.49 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=3.60;MQ=53.45;MQ0=1;OQ=1952.99;QD=36.17;SB=-850.15 GT:AD:DP:GL:GQ 1/1:1,53:50:-198.90,-15.06,-0.02:99
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chr1 3394087 rs2821041 C T 330.28 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=2.16;MQ=59.75;MQ0=0;OQ=1098.32;QD=14.64;SB=-325.80 GT:AD:DP:GL:GQ 0/1:41,34:73:-135.10,-21.99,-140.04:99
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chr1 3394997 rs61759244 C G 135 PASS AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=59.37;MQ0=0;OQ=1716.91;QD=17.88;SB=-792.82 GT:AD:DP:GL:GQ 0/1:43,53:93:-203.04,-28.07,-171.23:99
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chr1 3395156 rs4648505 T C 309 PASS AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.51;MQ0=0;OQ=921.20;QD=9.70;SB=-319.80 GT:AD:DP:GL:GQ 0/1:57,38:95:-124.03,-28.62,-233.81:99
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chr1 3401826 rs2821034 T C 25.42 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=1;HaplotypeScore=5.69;MQ=57.22;MQ0=0;OQ=336.60;QD=15.30;SB=-157.73 GT:AD:DP:GL:GQ 1/1:0,21:12:-37.26,-3.62,-0.02:36.06
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chr1 3406983 . G A 147.34 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=493.27;QD=14.51;SB=-172.20 GT:AD:DP:GL:GQ 0/1:17,17:33:-62.55,-9.94,-60.75:99
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chr1 3408031 rs7516662 A G 45.84 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.10;MQ=59.41;MQ0=0;OQ=599.81;QD=15.38;SB=-119.66 GT:AD:DP:GL:GQ 0/1:18,21:37:-74.41,-11.15,-64.16:99
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chr1 3408425 rs2821030 T C 291.53 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.65;MQ=44.95;MQ0=0;OQ=775.65;QD=13.61;SB=-335.17 GT:AD:DP:GL:GQ 0/1:17,40:43:-93.82,-12.97,-49.21:99
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chr1 3408438 rs56284135 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=5;HaplotypeScore=43.60;MQ=44.49;MQ0=0;OQ=630.57;QD=9.70;SB=-139.40 GT:AD:DP:GL:GQ 0/1:28,36:49:-81.11,-14.77,-94.33:99
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chr1 3408476 rs57408931 G C 181.30 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=164;Dels=0.03;HRun=1;HaplotypeScore=218.91;MQ=41.51;MQ0=3;QD=1.11;SB=-63.16 GT:AD:DP:GL:GQ 0/1:117,24:115:-89.58,-68.17,-379.21:99
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chr1 3408478 rs57082253 G A 513.03 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=180;Dels=0.00;HRun=0;HaplotypeScore=193.59;MQ=41.21;MQ0=2;QD=2.85;SB=-274.73 GT:AD:DP:GL:GQ 0/1:134,38:129:-95.85,-41.26,-324.12:99
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chr1 3408517 rs7368034 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=115;Dels=0.00;HRun=0;HaplotypeScore=120.54;MQ=42.22;MQ0=3;OQ=514.65;QD=4.48;SB=-116.36 GT:AD:DP:GL:GQ 0/1:73,33:82:-88.72,-33.97,-192.96:99
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chr1 3411446 rs6669870 C T 607.77 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.14;MQ0=0;OQ=1485.27;QD=36.23;SB=-614.81 GT:AD:DP:GL:GQ 1/1:0,41:39:-152.13,-11.76,-0.02:99
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chr1 3411518 rs2821009 A T 529.19 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.77;MQ0=0;OQ=1252.41;QD=34.79;SB=-623.61 GT:AD:DP:GL:GQ 1/1:0,36:35:-128.84,-10.55,-0.01:99
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chr1 3411757 rs2821008 A G 31.18 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.15;MQ=59.41;MQ0=0;OQ=238.32;QD=6.11;SB=-110.60 GT:AD:DP:GL:GQ 0/1:25,14:37:-38.27,-11.15,-99.52:99
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chr1 3413327 rs947344 C T 169.75 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.94;MQ=58.66;MQ0=0;OQ=1006.19;QD=19.35;SB=-478.56 GT:AD:DP:GL:GQ 0/1:21,31:45:-117.47,-13.57,-45.94:99
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chr1 3413493 rs2821006 A G 514.34 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1416.92;QD=30.15;SB=-704.80 GT:AD:DP:GL:GQ 1/1:0,47:45:-145.32,-13.57,-0.04:99
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chr1 3413602 rs10797397 C A 230.35 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.01;MQ=59.11;MQ0=0;OQ=969.58;QD=16.43;SB=-386.82 GT:AD:DP:GL:GQ 0/1:25,34:55:-116.81,-16.57,-75.73:99
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chr1 3414248 rs947345 G A 253.45 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.28;MQ=59.23;MQ0=0;OQ=855.83;QD=14.26;SB=-381.90 GT:AD:DP:GL:GQ 0/1:31,29:53:-104.84,-15.98,-85.70:99
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chr1 3415290 rs2794358 A G 117.33 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1082.49;QD=30.93;SB=-492.45 GT:AD:DP:GL:GQ 1/1:0,35:32:-111.85,-9.64,-0.02:96.25
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chr1 3416927 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=1;HaplotypeScore=20.42;MQ=57.31;MQ0=0;OQ=341.32;QD=7.11;SB=-84.89 GT:AD:DP:GL:GQ 0/1:26,19:38:-51.91,-14.49,-87.40:99
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chr1 3416981 rs56310990 G C 2.17 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=51.26;MQ0=0;OQ=93.69;QD=3.02;SB=-14.81 GT:AD:DP:GL:GQ 0/1:25,6:25:-20.20,-7.54,-81.40:99
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chr1 3416998 . C T 35.62 PASS AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=49.93;MQ0=0;OQ=473.15;QD=15.77;SB=-230.75 GT:AD:DP:GL:GQ 0/1:10,20:24:-57.83,-7.23,-29.03:99
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chr1 3418020 rs2820999 T G 23.07 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=1.35;MQ=59.30;MQ0=0;OQ=1099.49;QD=33.32;SB=-419.27 GT:AD:DP:GL:GQ 1/1:0,32:32:-113.54,-9.64,-0.01:96.28
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chr1 3418284 rs4648391 G T 480.48 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.84;MQ0=0;OQ=1326.40;QD=33.16;SB=-497.29 GT:AD:DP:GL:GQ 1/1:0,40:39:-136.24,-11.75,-0.02:99
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chr1 3418288 rs4648514 C T 298.40 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=1504.64;QD=38.58;SB=-514.18 GT:AD:DP:GL:GQ 1/1:0,39:39:-154.07,-11.75,-0.02:99
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chr1 3418468 rs11585362 G A 504.11 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1061.06;QD=36.59;SB=-446.58 GT:AD:DP:GL:GQ 1/1:0,29:29:-109.71,-8.74,-0.02:87.27
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chr1 3419555 rs11587354 C A 388.99 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.09;MQ0=0;OQ=2174.38;QD=35.07;SB=-358.82 GT:AD:DP:GL:GQ 1/1:0,62:58:-221.04,-17.47,-0.02:99
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chr1 3420506 . T A 214.92 PASS AC=2;AF=1.00;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1094.09;QD=36.47;SB=-408.28 GT:AD:DP:GL:GQ 1/1:0,30:30:-113.00,-9.04,-0.01:90.28
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chr1 3422067 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=4;HaplotypeScore=5.56;MQ=56.93;MQ0=0;OQ=142.54;QD=3.85;SB=26.11 GT:AD:DP:GL:GQ 0/1:17,20:22:-24.18,-6.64,-53.52:99
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chr1 3422138 rs12045137 C G 147.05 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=1703.92;QD=40.57;SB=-765.63 GT:AD:DP:GL:GQ 1/1:0,42:41:-174.00,-12.36,-0.02:99
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chr1 3422853 rs11587498 G A 175.29 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.43;MQ=60.00;MQ0=0;OQ=415.52;QD=12.22;SB=-203.18 GT:AD:DP:GL:GQ 0/1:20,14:31:-54.19,-9.35,-54.52:99
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chr1 3424377 rs2820995 A G 162.79 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=58.66;MQ0=0;OQ=1805.64;QD=27.36;SB=-525.83 GT:AD:DP:GL:GQ 1/1:0,66:60:-184.23,-18.11,-0.08:99
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chr1 3424844 rs2794362 G C 500.34 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=1899.04;QD=42.20;SB=-801.86 GT:AD:DP:GL:GQ 1/1:0,45:44:-193.50,-13.26,-0.01:99
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chr1 3427795 rs2794365 T C 272.59 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.56;MQ0=0;OQ=540.74;QD=12.87;SB=-223.28 GT:AD:DP:GL:GQ 0/1:22,20:39:-69.11,-11.75,-73.06:99
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chr1 3428053 rs11587384 G A 58.66 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=2.73;MQ=58.59;MQ0=0;OQ=656.10;QD=19.88;SB=-350.39 GT:AD:DP:GL:GQ 0/1:13,20:30:-77.94,-9.05,-31.18:99
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chr1 3428530 rs10909958 C T 169.55 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.67;MQ=60.00;MQ0=0;OQ=649.49;QD=10.31;SB=-164.81 GT:AD:DP:GL:GQ 0/1:40,23:61:-86.62,-18.39,-128.91:99
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chr1 3429888 rs10797398 G C 1.63 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=2;HaplotypeScore=0.26;MQ=58.87;MQ0=0;OQ=1501.66;QD=40.59;SB=-598.80 GT:AD:DP:GL:GQ 1/1:0,37:37:-153.77,-11.16,-0.02:99
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chr1 3430507 rs2794322 T C 118.81 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=864.34;QD=26.19;SB=-416.15 GT:AD:DP:GL:GQ 1/1:0,33:29:-90.06,-8.75,-0.04:87.16
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chr1 3430803 rs12049449 A C 10.61 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=3;HaplotypeScore=1.13;MQ=59.39;MQ0=0;OQ=1279.24;QD=33.66;SB=-506.06 GT:AD:DP:GL:GQ 1/1:0,38:37:-131.52,-11.15,-0.02:99
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chr1 3431124 rs12093117 G A 200.25 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.17;MQ=59.61;MQ0=0;OQ=828.18;QD=17.25;SB=-263.28 GT:AD:DP:GL:GQ 0/1:20,28:45:-99.67,-13.57,-58.69:99
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chr1 3432615 rs11589895 G A 209.87 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=58.89;MQ0=0;OQ=771.91;QD=18.38;SB=-386.90 GT:AD:DP:GL:GQ 0/1:19,23:42:-93.13,-12.66,-62.18:99
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chr1 3433053 . C T 70.11 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.41;MQ=58.26;MQ0=0;OQ=707.05;QD=13.86;SB=-362.49 GT:AD:DP:GL:GQ 0/1:26,25:48:-88.45,-14.46,-91.49:99
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chr1 3435213 rs2821068 G C 38.82 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=58.11;MQ0=0;OQ=1371.97;QD=37.08;SB=-540.03 GT:AD:DP:GL:GQ 1/1:0,36:33:-140.79,-9.95,-0.01:99
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chr1 3435771 rs883427 G A 416.41 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.00;MQ0=0;OQ=1899.02;QD=38.76;SB=-741.50 GT:AD:DP:GL:GQ 1/1:0,49:48:-193.50,-14.46,-0.01:99
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chr1 3436171 rs11589175 G A 118.39 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=494.22;QD=9.88;SB=-114.31 GT:AD:DP:GL:GQ 0/1:32,17:48:-69.83,-17.13,-113.83:99
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chr1 3436855 rs11811714 C T 197.39 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.64;MQ=58.93;MQ0=0;OQ=2210.05;QD=36.23;SB=-988.23 GT:AD:DP:GL:GQ 1/1:0,61:58:-224.62,-17.49,-0.03:99
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chr1 3436977 rs56103034 G C 151.47 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=60.00;MQ0=0;OQ=361.61;QD=12.91;SB=-169.18 GT:AD:DP:GL:GQ 0/1:15,13:27:-47.59,-8.14,-66.07:99
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chr1 3437069 . A C 13.05 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=2;HaplotypeScore=6.13;MQ=58.68;MQ0=0;QD=0.25;SB=74.24 GT:AD:DP:GL:GQ 0/1:37,15:37:-15.71,-11.15,-109.98:45.67
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chr1 3438669 rs61762171 G A 197.19 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.08;MQ=59.50;MQ0=0;OQ=831.35;QD=18.07;SB=-356.42 GT:AD:DP:GL:GQ 0/1:21,25:43:-99.38,-12.97,-55.25:99
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chr1 3438727 rs55762450 C A 163.97 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=3.39;MQ=59.54;MQ0=0;OQ=660.37;QD=13.21;SB=-236.28 GT:AD:DP:GL:GQ 0/1:20,30:45:-82.89,-13.57,-69.96:99
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chr1 3440115 rs2493313 T C 297.46 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=56.74;MQ0=0;OQ=1008.77;QD=34.79;SB=-528.20 GT:AD:DP:GL:GQ 1/1:0,29:29:-104.47,-8.74,-0.01:87.25
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chr1 3444452 rs9970944 G T 111.06 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=2.08;MQ=58.11;MQ0=0;OQ=1564.30;QD=32.59;SB=-784.47 GT:AD:DP:GL:GQ 1/1:1,47:45:-160.04,-13.56,-0.02:99
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chr1 3445102 rs12049456 G A 432 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.32;MQ0=0;OQ=1256.64;QD=36.96;SB=-508.18 GT:AD:DP:GL:GQ 1/1:0,34:33:-129.26,-9.95,-0.01:99
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chr1 3445120 . C G 39.08 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=3.43;MQ=55.59;MQ0=2;QD=0.85;SB=59.22 GT:AD:DP:GL:GQ 0/1:40,6:41:-19.55,-12.36,-150.78:71.92
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chr1 3448511 rs2821064 A T 100.60 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=4.44;MQ=58.81;MQ0=0;OQ=526.36;QD=13.50;SB=-238.77 GT:AD:DP:GL:GQ 0/1:20,19:39:-67.67,-11.75,-70.26:99
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chr1 3448541 rs2794331 G C 111.94 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=0.83;MQ=58.71;MQ0=0;OQ=556.37;QD=15.45;SB=-245.10 GT:AD:DP:GL:GQ 0/1:19,17:32:-68.58,-9.65,-62.08:99
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chr1 3448992 rs12065874 C T 177.16 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.40;MQ=59.46;MQ0=0;OQ=793.34;QD=18.45;SB=-374.15 GT:AD:DP:GL:GQ 0/1:19,24:39:-94.38,-11.76,-47.24:99
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chr1 3452764 rs10797401 T C 166.54 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.03;MQ=59.52;MQ0=0;OQ=647.76;QD=16.61;SB=-319.33 GT:AD:DP:GL:GQ 0/1:16,23:38:-79.51,-11.45,-58.06:99
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chr1 3453088 rs28479691 G A 97.36 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=3.65;MQ=55.43;MQ0=1;OQ=249.39;QD=11.34;SB=-131.56 GT:AD:DP:GL:GQ 0/1:11,11:18:-33.65,-5.43,-32.56:99
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chr1 3453209 rs13374309 C G 5.21 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=2;HaplotypeScore=3.14;MQ=57.20;MQ0=0;OQ=292.98;QD=15.42;SB=-154.58 GT:AD:DP:GL:GQ 0/1:9,10:17:-37.71,-5.13,-33.06:99
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chr1 3455556 rs7539836 A G 113.09 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=60.00;MQ0=0;OQ=359.37;QD=13.82;SB=-189.55 GT:AD:DP:GL:GQ 0/1:12,14:25:-46.76,-7.53,-43.20:99
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chr1 3458010 rs7533321 G A 155.67 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=59.46;MQ0=0;OQ=810.48;QD=18.85;SB=-428.48 GT:AD:DP:GL:GQ 0/1:17,25:39:-96.09,-11.75,-47.40:99
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chr1 3458818 rs6413780 A C 146.27 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.53;MQ0=0;OQ=401.98;QD=8.20;SB=-115.74 GT:AD:DP:GL:GQ 0/1:29,20:47:-57.64,-14.16,-107.92:99
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chr1 3458949 rs7355038 G A 151.46 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.86;MQ=59.19;MQ0=0;OQ=998.13;QD=19.19;SB=-471.50 GT:AD:DP:GL:GQ 0/1:22,30:52:-118.77,-15.67,-71.64:99
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chr1 3460223 rs10909965 T G 23.16 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=1;HaplotypeScore=2.59;MQ=58.78;MQ0=0;OQ=201.44;QD=10.60;SB=-54.94 GT:AD:DP:GL:GQ 0/1:10,9:17:-28.55,-5.12,-30.64:99
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chr1 3460241 rs12078542 T C 57.79 PASS AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=58.39;MQ0=0;OQ=207.08;QD=7.14;SB=-117.62 GT:AD:DP:GL:GQ 0/1:17,12:22:-30.63,-6.64,-46.05:99
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chr1 3460729 rs1557089 T G 340.61 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.05;MQ0=0;OQ=311.87;QD=12.99;SB=-162.75 GT:AD:DP:GL:GQ 0/1:12,12:20:-40.49,-6.02,-30.26:99
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chr1 3462253 rs7516641 A G 481.67 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=514.29;QD=11.96;SB=-180.52 GT:AD:DP:GL:GQ 0/1:23,20:43:-67.67,-12.96,-92.19:99
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chr1 3466443 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=45;Dels=0.02;HRun=17;HaplotypeScore=21.57;MQ=53.85;MQ0=0;OQ=205.19;QD=4.56;SB=-78.83 GT:AD:DP:GL:GQ 0/1:24,20:32:-33.15,-9.34,-78.96:99
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chr1 3466697 . C G 64.69 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.65;MQ=58.96;MQ0=0;OQ=671.74;QD=12.44;SB=-259.12 GT:AD:DP:GL:GQ 0/1:31,23:50:-85.55,-15.09,-116.59:99
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chr1 3474782 rs56410789 G A 184.63 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.77;MQ=59.61;MQ0=0;OQ=703.19;QD=14.65;SB=-349.63 GT:AD:DP:GL:GQ 0/1:25,22:45:-89.80,-16.20,-75.19:99
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chr1 3480873 . T C 0.25 PASS AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=3;HaplotypeScore=1.82;MQ=59.06;MQ0=0;OQ=234.33;QD=11.72;SB=-33.65 GT:AD:DP:GL:GQ 0/1:10,10:19:-32.44,-5.72,-41.44:99
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chr1 3480967 rs4431782 T C 9.06 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=2.79;MQ=59.14;MQ0=0;OQ=141.27;QD=5.23;SB=-37.66 GT:AD:DP:GL:GQ 0/1:16,11:24:-24.65,-7.24,-64.66:99
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chr1 3482056 rs2821057 A G 50.28 Indel AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.04;HRun=0;HaplotypeScore=40.06;MQ=43.76;MQ0=3;QD=0.93;SB=-23.61 GT:AD:DP:GL:GQ 0/1:44,8:48:-22.18,-13.87,-154.71:83.12
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chr1 3483124 rs2821056 A T 583.97 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.89;MQ0=0;OQ=1839.69;QD=37.54;SB=-868.96 GT:AD:DP:GL:GQ 1/1:0,49:49:-187.56,-14.76,-0.01:99
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chr1 3483560 rs2821055 T C 111.86 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.95;MQ=57.13;MQ0=0;OQ=1375.27;QD=31.98;SB=-687.18 GT:AD:DP:GL:GQ 1/1:0,43:41:-141.13,-12.35,-0.02:99
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chr1 3483710 rs2821054 G T 266.86 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.07;MQ0=0;OQ=1733.58;QD=34.67;SB=-747.08 GT:AD:DP:GL:GQ 1/1:0,50:50:-176.97,-15.07,-0.02:99
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chr1 3484389 rs2794348 A G 1.13 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=6.39;MQ=58.05;MQ0=0;OQ=1127.20;QD=31.31;SB=-545.88 GT:AD:DP:GL:GQ 1/1:0,36:34:-116.33,-10.25,-0.02:99
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chr1 3484478 rs2794347 G C 132.33 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.47;MQ0=0;OQ=1529.91;QD=34.77;SB=-715.91 GT:AD:DP:GL:GQ 1/1:0,44:40:-156.62,-12.09,-0.05:99
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chr1 3484580 rs2794346 G A 64.20 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=980.89;QD=28.85;SB=-342.41 GT:AD:DP:GL:GQ 1/1:1,32:27:-101.70,-8.14,-0.02:81.23
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chr1 3485237 rs2794344 G A 227.50 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=58.20;MQ0=0;OQ=1135.92;QD=18.03;SB=-434.44 GT:AD:DP:GL:GQ 0/1:26,37:58:-134.36,-17.49,-77.46:99
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chr1 3485276 rs2794343 G T 262.44 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=58.14;MQ0=0;OQ=635.86;QD=12.00;SB=-319.27 GT:AD:DP:GL:GQ 0/1:28,25:50:-81.94,-15.07,-81.25:99
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chr1 3485297 rs2794342 T C 164.76 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.19;MQ=55.76;MQ0=0;OQ=873.19;QD=16.17;SB=-382.03 GT:AD:DP:GL:GQ 0/1:20,34:51:-105.98,-15.38,-70.34:99
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chr1 3485317 . C T 0.61 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.60;MQ=55.51;MQ0=0;OQ=217.69;QD=4.03;SB=-62.86 GT:AD:DP:GL:GQ 0/1:42,11:46:-38.92,-13.87,-116.02:99
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chr1 3485320 . C T 0.57 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=55.81;MQ0=0;OQ=186.10;QD=3.58;SB=-62.80 GT:AD:DP:GL:GQ 0/1:41,10:44:-35.15,-13.26,-125.21:99
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chr1 3485329 rs56044258 C G 8.19 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=4.19;MQ=55.35;MQ0=0;OQ=1813.27;QD=38.58;SB=-922.42 GT:AD:DP:GL:GQ 1/1:0,47:43:-184.93,-12.96,-0.02:99
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chr1 3485401 rs2821053 T C 608.29 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.09;MQ0=0;OQ=2115.06;QD=34.11;SB=-1060.08 GT:AD:DP:GL:GQ 1/1:0,62:60:-215.11,-18.07,-0.02:99
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chr1 3485841 rs2794341 T C 133.27 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.28;MQ=59.57;MQ0=0;OQ=1280.08;QD=29.77;SB=-579.98 GT:AD:DP:GL:GQ 1/1:0,43:41:-131.63,-12.37,-0.04:99
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chr1 3485914 rs2821052 G C 139.61 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=59.60;MQ0=0;OQ=1918.65;QD=40.82;SB=-901.42 GT:AD:DP:GL:GQ 1/1:0,47:46:-195.47,-13.86,-0.02:99
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chr1 3486188 rs2821051 T C 180.06 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.51;MQ0=0;OQ=1502.08;QD=31.96;SB=-651.24 GT:AD:DP:GL:GQ 1/1:0,47:44:-153.81,-13.26,-0.02:99
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chr1 3486339 rs2794340 T C 195.59 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=747.54;QD=27.69;SB=-185.41 GT:AD:DP:GL:GQ 1/1:0,27:25:-78.37,-7.54,-0.03:75.17
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chr1 3486805 rs2794339 G A 3.01 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=790.02;QD=34.35;SB=-39.54 GT:AD:DP:GL:GQ 1/1:0,23:21:-82.60,-6.33,-0.01:63.20
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chr1 3486898 . C G 23.94 LowQual AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=1;HaplotypeScore=3.33;MQ=60.00;MQ0=0;QD=2.18;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,7:5:-7.19,-1.52,-10.35:56.76
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chr1 3486969 rs2821050 A G 170.61 PASS AC=2;AF=1.00;AN=2;DB;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.66;MQ0=0;OQ=230.85;QD=23.09;SB=-101.03 GT:AD:DP:GL:GQ 1/1:0,10:9:-26.68,-2.72,-0.01:27.04
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chr1 3487085 rs2821049 G A 44.18 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.41;MQ0=1;OQ=1103.43;QD=35.59;SB=-441.32 GT:AD:DP:GL:GQ 1/1:0,31:29:-113.94,-8.74,-0.01:87.28
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chr1 3487785 rs2821048 T C 3.27 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=3;HaplotypeScore=0.79;MQ=59.07;MQ0=0;OQ=795.96;QD=29.48;SB=-323.61 GT:AD:DP:GL:GQ 1/1:0,26:24:-83.19,-7.23,-0.01:72.20
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chr1 3488346 rs2821047 A C 41.05 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=59.50;MQ0=0;OQ=1833.45;QD=33.34;SB=-923.21 GT:AD:DP:GL:GQ 1/1:0,55:53:-186.95,-15.96,-0.02:99
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chr1 3488543 rs2794338 G A 5.07 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=2.25;MQ=59.38;MQ0=0;OQ=1108.21;QD=36.94;SB=-425.07 GT:AD:DP:GL:GQ 1/1:0,30:29:-114.42,-8.74,-0.01:87.27
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chr1 3488600 rs2821046 T C 153.98 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.59;MQ=59.16;MQ0=0;OQ=1640.68;QD=29.83;SB=-825.95 GT:AD:DP:GL:GQ 1/1:0,55:53:-167.70,-15.99,-0.05:99
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chr1 3488885 rs2794337 T G 92.94 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.67;MQ0=0;OQ=1036.65;QD=29.62;SB=-469.86 GT:AD:DP:GL:GQ 1/1:0,35:34:-107.28,-10.25,-0.03:99
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chr1 3488911 rs2794336 C A 491.72 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=1159.72;QD=31.34;SB=-543.79 GT:AD:DP:GL:GQ 1/1:0,37:35:-119.58,-10.55,-0.02:99
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chr1 3489106 rs2821045 A G 0.45 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=15.70;MQ=58.09;MQ0=0;OQ=1342.02;QD=27.39;SB=-607.24 GT:AD:DP:GL:GQ 1/1:1,48:44:-137.83,-13.27,-0.05:99
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chr1 3489389 rs2794335 C G 104.49 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=56.91;MQ0=0;OQ=2044.98;QD=41.73;SB=-1038.63 GT:AD:DP:GL:GQ 1/1:0,49:48:-208.10,-14.46,-0.02:99
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chr1 3489541 rs2821044 A G 154.02 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=51.93;MQ0=0;OQ=1856.46;QD=32.01;SB=-939.38 GT:AD:DP:GL:GQ 1/1:0,58:53:-189.25,-15.96,-0.02:99
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chr1 3489730 . G A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=5.70;MQ=38.46;MQ0=13;OQ=219.88;QD=2.71;SB=-20.96 GT:AD:DP:GL:GQ 0/1:65,15:58:-42.77,-17.50,-145.53:99
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chr1 3489856 rs61762194 A G 22.79 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=13.90;MQ=6.46;MQ0=57;QD=0.35;SB=-34.94 GT:AD:DP:GL:GQ 0/1:19,46:3:-6.46,-0.90,-4.17:32.64
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chr1 3490108 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=122;Dels=0.00;HRun=0;HaplotypeScore=22.57;MQ=11.21;MQ0=79;OQ=52.09;QD=0.43;SB=2.03 GT:AD:DP:GL:GQ 0/1:64,55:12:-12.11,-3.62,-27.46:84.92
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chr1 3490124 . G C 37.51 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=1;HaplotypeScore=28.89;MQ=9.24;MQ0=69;QD=0.40;SB=-36.43 GT:AD:DP:GL:GQ 0/1:52,37:3:-7.94,-0.91,-4.59:36.89
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chr1 3490204 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=9.07;MQ=18.33;MQ0=40;OQ=221.10;QD=2.91;SB=-48.02 GT:AD:DP:GL:GQ 0/1:38,34:16:-30.22,-4.83,-23.80:99
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chr1 3490220 . G C 14.47 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=1;HaplotypeScore=18.26;MQ=21.29;MQ0=44;QD=0.14;SB=5.04 GT:AD:DP:GL:GQ 0/1:89,13:27:-12.87,-8.16,-91.89:47.15
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chr1 3490238 . G C 29.48 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=1;HaplotypeScore=19.99;MQ=24.83;MQ0=54;QD=0.24;SB=65.23 GT:AD:DP:GL:GQ 0/1:92,32:39:-18.02,-11.79,-132.68:62.32
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chr1 3490274 rs61762197 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=195;Dels=0.00;HRun=0;HaplotypeScore=31.55;MQ=26.52;MQ0=97;OQ=140.78;QD=0.72;SB=53.20 GT:AD:DP:GL:GQ 0/1:172,21:60:-35.47,-18.11,-209.36:99
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chr1 3490294 rs61762198 G A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=144;Dels=0.00;HRun=0;HaplotypeScore=18.88;MQ=30.38;MQ0=61;OQ=410.69;QD=2.85;SB=-6.44 GT:AD:DP:GL:GQ 0/1:110,32:48:-58.84,-14.49,-102.11:99
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chr1 3490309 rs61762199 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=126;Dels=0.00;HRun=0;HaplotypeScore=43.37;MQ=33.08;MQ0=48;OQ=683.06;QD=5.42;SB=-30.63 GT:AD:DP:GL:GQ 0/1:101,25:47:-85.76,-14.17,-79.46:99
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chr1 3490312 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=0;HaplotypeScore=46.24;MQ=34.26;MQ0=40;OQ=200.77;QD=1.72;SB=-32.50 GT:AD:DP:GL:GQ 0/1:85,31:40:-35.43,-12.07,-95.25:99
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chr1 3490435 rs2995009 G A 597.77 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.35;MQ0=0;OQ=1467.09;QD=38.61;SB=-711.36 GT:AD:DP:GL:GQ 1/1:0,38:38:-150.31,-11.45,-0.01:99
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chr1 3491040 rs2995008 T C 284.33 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=1828.19;QD=32.07;SB=-897.29 GT:AD:DP:GL:GQ 1/1:0,57:55:-186.44,-16.58,-0.04:99
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chr1 3492147 . G A 23.72 PASS AC=2;AF=1.00;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=55.26;MQ0=1;OQ=1679.66;QD=32.93;SB=-585.96 GT:AD:DP:GL:GQ 1/1:1,50:45:-171.57,-13.56,-0.02:99
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chr1 3492404 rs2487682 G A 109.67 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=55.97;MQ0=0;OQ=1664.54;QD=34.68;SB=-566.34 GT:AD:DP:GL:GQ 1/1:2,46:43:-170.05,-12.95,-0.01:99
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chr1 3493214 rs10909977 C T 290.65 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.46;MQ0=0;OQ=982.44;QD=37.79;SB=-341.35 GT:AD:DP:GL:GQ 1/1:0,26:26:-101.84,-7.83,-0.01:78.25
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chr1 3493427 rs12133810 G A 0.43 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=6.10;MQ=60.00;MQ0=0;OQ=1731.58;QD=36.07;SB=-586.35 GT:AD:DP:GL:GQ 1/1:0,47:45:-176.76,-13.56,-0.02:99
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chr1 3493933 rs12139206 T C 718.86 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.76;MQ0=0;OQ=2133.52;QD=33.87;SB=-1000.69 GT:AD:DP:GL:GQ 1/1:0,63:61:-216.96,-18.38,-0.03:99
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chr1 3494278 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=29.95;MQ=39.18;MQ0=0;OQ=57.06;QD=1.00;SB=32.12 GT:AD:DP:GL:GQ 0/1:51,6:50:-24.05,-15.06,-154.00:89.90
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chr1 3494280 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=31.95;MQ=39.34;MQ0=0;OQ=98.32;QD=1.76;SB=29.10 GT:AD:DP:GL:GQ 0/1:46,10:49:-27.88,-14.76,-138.47:99
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chr1 3494307 . T G 201.76 SnpCluster AC=1;AF=0.50;AN=2;DP=58;Dels=0.10;HRun=2;HaplotypeScore=112.88;MQ=32.38;MQ0=0;QD=3.48;SB=-117.62 GT:AD:DP:GL:GQ 0/1:34,18:28:-31.59,-8.13,-64.60:99
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chr1 3494310 rs61762200 C A 192.29 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=121.85;MQ=30.79;MQ0=0;QD=3.43;SB=-60.75 GT:AD:DP:GL:GQ 0/1:36,18:28:-30.95,-8.43,-66.22:99
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chr1 3494317 . G T 32.47 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=81.33;MQ=29.05;MQ0=0;QD=0.60;SB=-10.00 GT:AD:DP:GL:GQ 0/1:41,11:25:-14.06,-7.53,-79.10:65.31
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chr1 3494320 . G A 676.99 SnpCluster AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=53.82;MQ=29.06;MQ0=0;QD=13.02;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,41:24:-78.21,-7.23,-14.28:70.50
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chr1 3494331 . C T 224.74 SnpCluster AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=74.35;MQ=28.87;MQ0=0;QD=4.68;SB=-10.00 GT:AD:DP:GL:GQ 0/1:29,19:11:-29.07,-3.31,-14.19:99
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chr1 3494338 . G A 223.95 SnpCluster AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=78.36;MQ=28.88;MQ0=0;QD=4.76;SB=-10.00 GT:AD:DP:GL:GQ 0/1:25,22:10:-28.69,-3.01,-9.91:68.95
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chr1 3494340 . G A 250.50 SnpCluster AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=74.35;MQ=28.88;MQ0=0;QD=5.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,38:10:-31.35,-3.01,-6.64:36.27
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chr1 3494344 . G A 85.25 SnpCluster AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=68.88;MQ=28.67;MQ0=0;QD=1.85;SB=-10.00 GT:AD:DP:GL:GQ 0/1:41,5:14:-16.03,-4.22,-34.38:99
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chr1 3494347 . A T 143.02 SnpCluster AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=69.92;MQ=28.59;MQ0=0;QD=3.87;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,19:7:-19.69,-2.11,-6.98:48.71
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chr1 3494357 . G T 24.90 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=73.10;MQ=28.56;MQ0=0;QD=0.73;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,15:5:-7.28,-1.51,-10.87:57.73
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chr1 3494360 . G A 23.23 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=81.86;MQ=28.53;MQ0=0;QD=0.73;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,11:6:-7.41,-1.81,-14.17:56.05
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chr1 3494364 . G A 65.76 SnpCluster AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=1;HaplotypeScore=67.04;MQ=28.12;MQ0=1;QD=1.93;SB=-10.00 GT:AD:DP:GL:GQ 0/1:29,5:7:-11.97,-2.11,-13.57:98.60
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chr1 3494367 . G T 116.01 SnpCluster AC=1;AF=0.50;AN=2;DP=34;Dels=0.03;HRun=0;HaplotypeScore=76.86;MQ=28.12;MQ0=1;QD=3.41;SB=-10.00 GT:AD:DP:GL:GQ 0/1:14,19:9:-17.59,-2.71,-15.13:99
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chr1 3494370 . G C 77.61 SnpCluster AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=1;HaplotypeScore=62.98;MQ=28.25;MQ0=1;QD=2.87;SB=-10.00 GT:AD:DP:GL:GQ 0/1:8,7:9:-20.69,-9.65,-24.68:99
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chr1 3494377 . G T 26.91 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=64.80;MQ=28.23;MQ0=1;QD=1.03;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,4:4:-7.18,-1.20,-7.71:59.73
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chr1 3494378 . G A 98.30 SnpCluster AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=59.24;MQ=28.44;MQ0=1;QD=3.78;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,11:7:-15.22,-2.11,-10.61:84.98
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chr1 3494380 . G A 43.51 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=65.22;MQ=28.44;MQ0=1;QD=1.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:8,15:4:-12.40,-4.77,-6.87:20.98
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chr1 3494384 . G A 26.23 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=1;HaplotypeScore=51.99;MQ=28.44;MQ0=1;QD=1.01;SB=-10.00 GT:AD:DP:GL:GQ 0/1:20,6:7:-8.02,-2.11,-15.94:59.06
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chr1 3494390 . G A 130.87 SnpCluster AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=39.84;MQ=28.27;MQ0=1;QD=6.54;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,12:6:-18.18,-1.81,-3.67:18.63
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chr1 3494414 . G A 19.25 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=1;HaplotypeScore=22.06;MQ=28.20;MQ0=1;QD=1.13;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,2:8:-7.61,-2.41,-20.11:52.04
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chr1 3494416 . G C 113.75 SnpCluster AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=18.24;MQ=27.40;MQ0=1;QD=6.32;SB=-10.00 GT:AD:DP:GL:GQ 0/1:14,4:8:-17.07,-2.41,-16.09:99
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chr1 3494417 . A T 24.41 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=25.18;MQ=27.40;MQ0=1;QD=1.36;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,5:8:-14.34,-8.61,-21.17:57.23
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chr1 3494420 . C A 17.09 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=28.79;MQ=27.40;MQ0=1;QD=0.95;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,11:6:-6.79,-1.81,-13.20:49.84
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chr1 3494428 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=21.58;MQ=27.57;MQ0=1;OQ=101.33;QD=5.07;SB=-10.00 GT:AD:DP:GL:GQ 0/1:14,6:9:-16.13,-2.71,-15.44:99
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chr1 3494440 . A G 20.51 LowQual AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=4;HaplotypeScore=16.99;MQ=27.20;MQ0=1;QD=1.28;SB=-10.00 GT:AD:DP:GL:GQ 0/1:14,2:6:-7.14,-1.81,-14.72:53.31
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chr1 3494450 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=19.98;MQ=27.07;MQ0=1;OQ=136.86;QD=9.12;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,11:7:-19.08,-2.11,-6.94:48.30
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chr1 3494456 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=17;Dels=0.12;HRun=1;HaplotypeScore=13.10;MQ=27.31;MQ0=1;OQ=95.30;QD=5.61;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,5:11:-16.13,-3.31,-22.08:99
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chr1 3494463 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=1;HaplotypeScore=15.99;MQ=27.75;MQ0=0;OQ=76.78;QD=6.98;SB=-10.00 GT:AD:DP:GL:GQ 0/1:8,3:5:-12.47,-1.51,-7.14:56.32
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chr1 3494470 . G A 37.25 LowQual AC=1;AF=0.50;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=9.99;MQ=29.00;MQ0=0;QD=4.66;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,6:3:-7.91,-0.90,-3.57:26.65
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chr1 3494476 . C G 10.99 LowQual AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=6.99;MQ=29.00;MQ0=0;QD=1.83;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,3:1:-4.35,-0.30,-0.00:1.76
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chr1 3494500 . C A 20.04 LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=24.21;MQ=29.00;MQ0=0;QD=1.43;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,8:6:-7.09,-1.81,-14.10:52.83
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chr1 3494506 . G A 17.29 LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.05;HRun=1;HaplotypeScore=32.64;MQ=29.00;MQ0=0;QD=0.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:14,4:10:-8.02,-3.01,-25.65:50.04
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chr1 3494513 . G A 25.23 LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=1;HaplotypeScore=41.45;MQ=31.40;MQ0=0;QD=1.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,4:6:-7.61,-1.81,-13.27:58.06
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chr1 3494520 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=37.55;MQ=33.42;MQ0=0;OQ=64.77;QD=3.24;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,13:7:-11.87,-2.11,-12.97:97.60
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chr1 3494524 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=1;HaplotypeScore=27.25;MQ=33.22;MQ0=0;OQ=65.77;QD=3.13;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,3:5:-11.37,-1.51,-6.04:45.31
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chr1 3494544 . G A 102.31 SnpCluster AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=1;HaplotypeScore=60.62;MQ=32.58;MQ0=0;QD=4.09;SB=-10.00 GT:AD:DP:GL:GQ 0/1:21,4:9:-16.23,-2.71,-16.04:99
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chr1 3494547 . G T 87.64 SnpCluster AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=65.61;MQ=32.58;MQ0=0;QD=3.51;SB=-10.00 GT:AD:DP:GL:GQ 0/1:19,5:8:-14.46,-2.41,-14.43:99
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chr1 3494550 . A C 79.94 SnpCluster AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=1;HaplotypeScore=55.04;MQ=32.72;MQ0=0;QD=3.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:14,6:8:-16.58,-5.30,-13.73:84.35
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chr1 3494557 . G T 60.29 SnpCluster AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=39.81;MQ=31.18;MQ0=0;QD=2.87;SB=-10.00 GT:AD:DP:GL:GQ 0/1:11,8:4:-10.52,-1.20,-3.86:26.53
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chr1 3494560 . G A 91.28 SnpCluster AC=2;AF=1.00;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=38.65;MQ=31.18;MQ0=0;QD=4.35;SB=-10.00 GT:AD:DP:GL:GQ 1/1:7,11:4:-16.06,-4.57,-3.40:11.70
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chr1 3494564 . G A 29.24 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=1;HaplotypeScore=32.50;MQ=31.29;MQ0=0;QD=1.46;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,2:6:-8.02,-1.81,-12.47:62.07
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chr1 3494574 . A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=26.98;MQ=29.00;MQ0=0;OQ=69.17;QD=4.94;SB=-10.00 GT:AD:DP:GL:GQ 1/1:6,8:3:-10.41,-0.90,-0.00:9.03
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chr1 3494590 . G A 142.91 SnpCluster AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=22.40;MQ=29.00;MQ0=0;QD=9.53;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,8:6:-19.38,-1.81,-3.57:17.63
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chr1 3494597 . G T 106.99 SnpCluster AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=25.38;MQ=29.00;MQ0=0;QD=7.64;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,5:11:-17.30,-3.31,-21.74:99
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chr1 3494600 . G A 30.23 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=11.39;MQ=29.00;MQ0=0;QD=3.02;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,6:5:-7.81,-1.51,-10.71:63.06
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chr1 3494624 . A G 3.02 PASS AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=1;HaplotypeScore=2.14;MQ=23.68;MQ0=1;OQ=61.17;QD=10.20;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,5:4:-10.61,-1.20,-4.06:28.52
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chr1 3494941 rs3122612 T C 27.60 PASS AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.13;MQ0=0;OQ=190.96;QD=21.22;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:7:-22.68,-2.11,-0.00:21.05
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chr1 3496357 rs2794320 A G 629.67 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.59;MQ0=0;OQ=2197.16;QD=34.88;SB=-1063.87 GT:AD:DP:GL:GQ 1/1:0,63:62:-223.32,-18.67,-0.02:99
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chr1 3497672 rs12138013 G A 514.21 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1894.53;QD=36.43;SB=-916.70 GT:AD:DP:GL:GQ 1/1:0,52:50:-193.07,-15.07,-0.03:99
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chr1 3497721 rs4648527 G A 5.98 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=5.91;MQ=58.60;MQ0=0;OQ=1808.59;QD=36.17;SB=-904.68 GT:AD:DP:GL:GQ 1/1:0,50:47:-184.46,-14.16,-0.02:99
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chr1 3497811 rs4233026 A G 453.03 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=985.33;QD=29.86;SB=-500.18 GT:AD:DP:GL:GQ 1/1:0,33:33:-102.16,-9.96,-0.04:99
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chr1 3499530 rs10909980 C T 12.32 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.36;MQ0=0;OQ=831.01;QD=36.13;SB=-270.86 GT:AD:DP:GL:GQ 1/1:0,23:22:-86.69,-6.63,-0.01:66.21
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chr1 3501794 rs7513275 A G 98.91 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=60.00;MQ0=0;OQ=215.59;QD=10.78;SB=-81.80 GT:AD:DP:GL:GQ 0/1:7,13:17:-29.97,-5.13,-27.54:99
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chr1 3502201 rs2794327 C T 251.06 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=60.00;MQ0=0;OQ=1770.81;QD=37.68;SB=-842.63 GT:AD:DP:GL:GQ 1/1:0,47:45:-180.68,-13.55,-0.01:99
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chr1 3502376 rs2821025 T C 189.36 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.06;MQ0=0;OQ=1399.30;QD=34.13;SB=-531.22 GT:AD:DP:GL:GQ 1/1:1,40:40:-143.53,-12.05,-0.02:99
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chr1 3502406 rs2821024 G A 10.93 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=2.84;MQ=59.12;MQ0=0;OQ=1381.75;QD=37.34;SB=-602.98 GT:AD:DP:GL:GQ 1/1:0,37:36:-141.77,-10.85,-0.01:99
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chr1 3502660 rs2821023 T C 164.14 PASS AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=55.31;MQ0=0;OQ=631.91;QD=27.47;SB=-134.71 GT:AD:DP:GL:GQ 1/1:0,23:22:-66.81,-6.64,-0.03:66.13
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chr1 3503040 rs3001104 T C 11.75 LowQual AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=3;HaplotypeScore=0.89;MQ=53.43;MQ0=0;QD=0.90;SB=-7.00 GT:AD:DP:GL:GQ 0/1:11,2:9:-7.15,-2.72,-25.40:44.29
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chr1 3503107 rs6697282 T C 2.87 PASS AC=2;AF=1.00;AN=2;DB;DP=11;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=57.92;MQ0=0;OQ=303.24;QD=27.57;SB=-40.95 GT:AD:DP:GL:GQ 1/1:0,11:10:-33.91,-3.01,-0.00:30.08
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chr1 3503479 rs55936822 G A 66.02 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=385.29;QD=13.76;SB=-81.58 GT:AD:DP:GL:GQ 0/1:14,14:27:-49.96,-8.15,-41.31:99
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chr1 3504130 rs3001107 A T 92.54 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.03;MQ=60.00;MQ0=0;OQ=1158.27;QD=35.10;SB=-515.45 GT:AD:DP:GL:GQ 1/1:0,33:32:-119.42,-9.64,-0.01:96.30
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chr1 3504221 rs2995006 A G 438.56 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=1363.50;QD=34.96;SB=-648.28 GT:AD:DP:GL:GQ 1/1:0,39:39:-139.95,-11.75,-0.02:99
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chr1 3504611 rs6701230 T C 61.10 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=60.00;MQ0=0;OQ=1071.54;QD=26.79;SB=-482.12 GT:AD:DP:GL:GQ 1/1:0,40:34:-110.77,-10.26,-0.03:99
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chr1 3505152 . C G 6.95 PASS AC=2;AF=1.00;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=54.64;MQ0=0;OQ=215.54;QD=15.40;SB=-56.93 GT:AD:DP:GL:GQ 1/1:2,12:6:-25.13,-1.81,-0.00:18.06
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chr1 3505256 rs2794328 C A 31.98 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.33;MQ0=0;OQ=824.44;QD=29.44;SB=-191.27 GT:AD:DP:GL:GQ 1/1:1,27:24:-86.04,-7.23,-0.01:72.19
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chr1 3505590 rs2821011 T C 3.95 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=58.95;MQ0=0;OQ=1307.30;QD=29.71;SB=-329.39 GT:AD:DP:GL:GQ 1/1:0,44:40:-134.34,-12.06,-0.03:99
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chr1 3506096 rs4648395 G A 428.92 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.73;MQ0=0;OQ=1105.43;QD=35.66;SB=-453.34 GT:AD:DP:GL:GQ 1/1:0,31:29:-114.14,-8.74,-0.01:87.28
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chr1 3506280 rs7552280 C T 597.55 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1498.57;QD=38.42;SB=-699.42 GT:AD:DP:GL:GQ 1/1:0,39:38:-153.45,-11.45,-0.01:99
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chr1 3506640 rs4018202 C T 591.66 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=1796.97;QD=36.67;SB=-852.00 GT:AD:DP:GL:GQ 1/1:0,49:46:-183.30,-13.86,-0.02:99
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chr1 3507139 rs4648528 C T 150.35 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=58.89;MQ0=0;OQ=1470.55;QD=35.01;SB=-673.24 GT:AD:DP:GL:GQ 1/1:0,42:39:-150.66,-11.76,-0.02:99
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chr1 3507337 rs61373700 C G 106.29 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.76;MQ=57.26;MQ0=0;OQ=1716.27;QD=39.91;SB=-832.44 GT:AD:DP:GL:GQ 1/1:1,42:42:-175.24,-12.66,-0.02:99
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chr1 3507396 rs6693958 G A 63.42 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=58.29;MQ0=0;OQ=1559.78;QD=38.04;SB=-721.97 GT:AD:DP:GL:GQ 1/1:0,41:40:-159.58,-12.05,-0.01:99
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chr1 3507433 rs59013990 G C 40.65 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=59.41;MQ0=0;OQ=1114.70;QD=28.58;SB=-265.33 GT:AD:DP:GL:GQ 1/1:0,38:29:-115.08,-8.75,-0.02:87.28
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chr1 3508244 rs2821012 T C 433.71 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.32;MQ0=0;OQ=981.44;QD=28.87;SB=-510.19 GT:AD:DP:GL:GQ 1/1:0,34:32:-101.76,-9.65,-0.03:96.21
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chr1 3508275 rs12410528 G A 77.57 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.75;MQ=59.32;MQ0=0;OQ=639.66;QD=18.81;SB=-281.31 GT:AD:DP:GL:GQ 0/1:14,20:31:-76.59,-9.34,-39.32:99
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chr1 3508279 rs12401505 C T 12.42 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=2.61;MQ=59.32;MQ0=0;OQ=621.28;QD=18.27;SB=-279.19 GT:AD:DP:GL:GQ 0/1:14,19:31:-74.75,-9.34,-43.77:99
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chr1 3508347 rs56770023 C T 305.75 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.60;MQ0=0;OQ=1098.04;QD=36.60;SB=-308.27 GT:AD:DP:GL:GQ 1/1:0,30:29:-113.40,-8.74,-0.01:87.27
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chr1 3508348 rs60957843 A G 332.32 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=996.70;QD=34.37;SB=-270.42 GT:AD:DP:GL:GQ 1/1:0,29:29:-103.27,-8.74,-0.01:87.25
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chr1 3508499 rs2821013 C A 29.08 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=4.32;MQ=59.05;MQ0=0;OQ=1719.86;QD=35.10;SB=-757.10 GT:AD:DP:GL:GQ 1/1:0,49:47:-175.58,-14.15,-0.01:99
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chr1 3508603 rs7514061 C T 105.49 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.33;MQ0=0;OQ=1426.84;QD=33.97;SB=-607.00 GT:AD:DP:GL:GQ 1/1:0,42:38:-146.28,-11.45,-0.02:99
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chr1 3508717 rs2821014 A C 0.35 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=3;HaplotypeScore=1.13;MQ=59.42;MQ0=0;OQ=907.74;QD=22.69;SB=-295.54 GT:AD:DP:GL:GQ 1/1:0,37:28:-94.37,-8.43,-0.01:84.22
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chr1 3508804 rs7521546 T C 5.12 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=2;HaplotypeScore=1.42;MQ=57.17;MQ0=0;OQ=713.23;QD=28.53;SB=-330.78 GT:AD:DP:GL:GQ 1/1:0,25:24:-74.93,-7.24,-0.02:72.16
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chr1 3509294 rs12024499 A G 18.02 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=58.37;MQ0=0;OQ=1073.16;QD=24.96;SB=-338.38 GT:AD:DP:GL:GQ 1/1:0,43:37:-110.95,-11.17,-0.05:99
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chr1 3509463 rs12025426 T C 57.07 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=59.00;MQ0=0;OQ=1068.56;QD=25.44;SB=-559.52 GT:AD:DP:GL:GQ 1/1:0,42:36:-110.49,-10.87,-0.05:99
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chr1 3509651 rs56328010 C G 123.58 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=1.54;MQ=58.84;MQ0=0;OQ=608.86;QD=15.22;SB=-231.35 GT:AD:DP:GL:GQ 0/1:21,19:38:-75.63,-11.46,-87.10:99
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chr1 3509894 rs10752738 A G 106.20 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=57.39;MQ0=0;OQ=1124.20;QD=31.23;SB=-480.45 GT:AD:DP:GL:GQ 1/1:0,36:33:-116.02,-9.94,-0.01:99
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chr1 3509987 rs2821015 T C 88.77 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.95;MQ0=0;OQ=1023.67;QD=31.99;SB=-513.41 GT:AD:DP:GL:GQ 1/1:0,31:32:-108.71,-12.22,-2.76:94.68
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chr1 3510191 rs2794356 C A 66.82 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=58.63;MQ0=0;OQ=1082.36;QD=31.83;SB=-352.40 GT:AD:DP:GL:GQ 1/1:0,34:33:-111.84,-9.95,-0.02:99
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chr1 3510399 rs2794355 C T 148.33 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=60.22;MQ0=0;OQ=1723.81;QD=37.47;SB=-800.07 GT:AD:DP:GL:GQ 1/1:0,46:45:-175.99,-13.56,-0.02:99
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chr1 3510532 rs2821016 A C 65.43 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.42;MQ0=0;OQ=868.96;QD=27.16;SB=-409.86 GT:AD:DP:GL:GQ 1/1:0,32:29:-90.51,-8.74,-0.03:87.13
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chr1 3511971 rs56140438 T C 2680.91 Indel AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.68;MQ0=0;QD=34.82;SB=-1364.21 GT:AD:DP:GL:GQ 1/1:0,77:76:-271.70,-22.89,-0.02:99
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chr1 3513689 rs2794354 T C 23.29 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=1.40;MQ=60.00;MQ0=0;OQ=1332.54;QD=30.29;SB=-459.40 GT:AD:DP:GL:GQ 1/1:0,44:41:-136.87,-12.36,-0.03:99
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chr1 3513757 rs2821018 T C 1.28 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=4;HaplotypeScore=0.16;MQ=52.28;MQ0=0;OQ=1127.31;QD=32.21;SB=-555.88 GT:AD:DP:GL:GQ 1/1:0,35:33:-116.33,-9.94,-0.01:99
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chr1 3513776 rs2821019 A C 16.58 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=3.24;MQ=52.84;MQ0=0;OQ=1256.82;QD=30.65;SB=-634.67 GT:AD:DP:GL:GQ 1/1:0,41:37:-129.29,-11.15,-0.02:99
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chr1 3513778 rs2821020 G A 39.72 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=4.08;MQ=53.03;MQ0=0;OQ=1497.87;QD=35.66;SB=-772.68 GT:AD:DP:GL:GQ 1/1:0,42:39:-153.39,-11.75,-0.01:99
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chr1 3515181 rs2794353 G C 0.02 FDRtranche1.00to2.00 AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=5;HaplotypeScore=0.32;MQ=58.30;MQ0=0;OQ=1440.93;QD=40.03;SB=-600.98 GT:AD:DP:GL:GQ 1/1:0,36:34:-147.69,-10.24,-0.01:99
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chr1 3515467 rs36031771 G A 114.23 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=1598.59;QD=36.33;SB=-811.32 GT:AD:DP:GL:GQ 1/1:0,44:42:-163.46,-12.66,-0.02:99
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chr1 3515500 rs34852522 G A 546.80 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1591.31;QD=37.01;SB=-737.47 GT:AD:DP:GL:GQ 1/1:1,42:41:-162.73,-12.35,-0.01:99
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chr1 3515696 rs10909986 G A 566.50 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.67;MQ0=0;OQ=1907.24;QD=38.92;SB=-905.69 GT:AD:DP:GL:GQ 1/1:0,49:48:-194.32,-14.46,-0.01:99
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chr1 3516250 rs12121341 A G 86.74 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1093.76;QD=29.56;SB=-543.02 GT:AD:DP:GL:GQ 1/1:0,37:35:-112.99,-10.56,-0.03:99
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chr1 3518397 rs57902798 C A 88.78 PASS AC=2;AF=1.00;AN=2;DB;DP=25;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.13;MQ0=0;OQ=809.40;QD=32.38;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,25:24:-84.53,-7.23,-0.01:72.21
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chr1 3518534 rs1539126 G A 66.93 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=60.00;MQ0=0;OQ=1266.77;QD=36.19;SB=-476.64 GT:AD:DP:GL:GQ 1/1:0,34:33:-130.27,-9.94,-0.01:99
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chr1 3518701 rs2794326 T C 149.57 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.07;MQ0=0;OQ=1658.37;QD=33.17;SB=-790.25 GT:AD:DP:GL:GQ 1/1:0,50:49:-169.45,-14.76,-0.03:99
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chr1 3519249 rs10909987 G C 637.70 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=1866.21;QD=40.57;SB=-960.72 GT:AD:DP:GL:GQ 1/1:0,45:44:-190.22,-13.26,-0.01:99
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chr1 3521082 rs4648396 C T 0.76 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=5;HaplotypeScore=1.32;MQ=59.36;MQ0=0;OQ=2285.23;QD=39.40;SB=-1043.37 GT:AD:DP:GL:GQ 1/1:0,58:57:-232.12,-17.17,-0.02:99
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chr1 3521301 rs4648397 T C 39.86 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=59.20;MQ0=0;OQ=1821.49;QD=31.41;SB=-869.61 GT:AD:DP:GL:GQ 1/1:0,58:57:-185.78,-17.19,-0.04:99
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chr1 3521455 rs4648398 C T 121.83 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.69;MQ=58.90;MQ0=0;OQ=2021.45;QD=34.26;SB=-686.93 GT:AD:DP:GL:GQ 1/1:0,59:53:-205.75,-15.97,-0.02:99
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chr1 3522563 rs6693192 A G 270.85 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=513.63;QD=9.88;SB=-275.26 GT:AD:DP:GL:GQ 0/1:30,22:52:-70.32,-15.67,-121.33:99
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chr1 3522569 rs6678958 G A 350.18 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=670.10;QD=13.14;SB=-343.79 GT:AD:DP:GL:GQ 0/1:29,22:51:-85.67,-15.38,-96.37:99
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chr1 3523424 rs55728961 C A 42.05 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=240.49;QD=10.46;SB=-10.00 GT:AD:DP:GL:GQ 0/1:14,9:23:-34.26,-6.93,-47.21:99
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chr1 3523484 rs56385042 T C 1.74 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=3;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=309.24;QD=11.89;SB=-6.99 GT:AD:DP:GL:GQ 0/1:12,14:26:-42.05,-7.84,-46.91:99
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chr1 3523847 rs10797404 T C 200.70 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=602.56;QD=14.01;SB=-77.79 GT:AD:DP:GL:GQ 0/1:21,22:42:-76.19,-12.65,-81.56:99
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chr1 3524383 rs4648532 A G 19.20 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=2;HaplotypeScore=2.34;MQ=56.80;MQ0=0;OQ=354.98;QD=11.45;SB=-152.32 GT:AD:DP:GL:GQ 0/1:16,15:28:-47.22,-8.44,-59.85:99
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chr1 3524566 rs10909988 A G 146.87 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=60.00;MQ0=0;OQ=306.09;QD=9.28;SB=-127.66 GT:AD:DP:GL:GQ 0/1:17,15:30:-42.93,-9.04,-69.22:99
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chr1 3524652 rs7522500 G C 8.99 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=6.16;MQ=57.13;MQ0=0;OQ=583.92;QD=14.24;SB=-274.31 GT:AD:DP:GL:GQ 0/1:21,20:34:-71.93,-10.26,-66.25:99
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chr1 3524668 rs7522507 G A 205.38 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.19;MQ=57.92;MQ0=0;OQ=639.63;QD=14.21;SB=-315.32 GT:AD:DP:GL:GQ 0/1:22,23:42:-79.91,-12.67,-66.98:99
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chr1 3525324 rs7538707 A G 23.09 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=845.73;QD=19.67;SB=-223.67 GT:AD:DP:GL:GQ 0/1:16,27:42:-100.51,-12.65,-58.85:99
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chr1 3526188 rs4648533 G A 210.95 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.95;MQ=59.62;MQ0=0;OQ=1070.40;QD=17.55;SB=-483.49 GT:AD:DP:GL:GQ 0/1:29,32:60:-128.41,-18.08,-91.39:99
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chr1 3526260 rs4648534 T C 399.13 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.82;MQ0=0;OQ=652.36;QD=10.19;SB=-312.36 GT:AD:DP:GL:GQ 0/1:38,26:63:-87.50,-18.98,-151.40:99
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chr1 3526320 rs4648535 C A 306.52 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=54.45;MQ0=1;OQ=780.07;QD=10.99;SB=-371.06 GT:AD:DP:GL:GQ 0/1:40,31:67:-101.47,-20.18,-141.37:99
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chr1 3526422 rs4648399 A G 309.90 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.19;MQ0=0;OQ=1278.95;QD=17.52;SB=-632.97 GT:AD:DP:GL:GQ 0/1:30,43:71:-152.57,-21.39,-116.57:99
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chr1 3527222 rs4648400 A G 9.46 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=7.73;MQ=57.63;MQ0=0;OQ=603.16;QD=10.40;SB=-310.07 GT:AD:DP:GL:GQ 0/1:32,26:56:-80.48,-16.88,-126.15:99
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chr1 3527718 rs4648401 A G 74.64 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=2;HaplotypeScore=1.41;MQ=56.19;MQ0=0;OQ=587.94;QD=13.67;SB=-299.61 GT:AD:DP:GL:GQ 0/1:18,25:41:-74.44,-12.36,-73.19:99
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chr1 3528340 rs4400556 A T 87.37 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=2;HaplotypeScore=0.83;MQ=59.12;MQ0=0;OQ=994.97;QD=12.59;SB=-457.52 GT:AD:DP:GL:GQ 0/1:45,34:78:-126.28,-23.49,-166.80:99
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chr1 3528361 rs4364818 C T 460.83 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=58.38;MQ0=0;OQ=945.91;QD=13.14;SB=-450.44 GT:AD:DP:GL:GQ 0/1:42,30:72:-119.57,-21.70,-148.80:99
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chr1 3528695 rs6424087 G C 115.88 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=3.80;MQ=59.24;MQ0=0;OQ=909.93;QD=16.54;SB=-215.65 GT:AD:DP:GL:GQ 0/1:28,26:51:-109.65,-15.37,-108.54:99
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chr1 3528942 rs10909989 A G 309.85 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=2.12;MQ=59.00;MQ0=0;OQ=981.47;QD=13.82;SB=-369.60 GT:AD:DP:GL:GQ 0/1:36,35:70:-122.52,-21.09,-148.98:99
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chr1 3529341 rs10909990 A G 374.60 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=58.19;MQ0=0;OQ=916.10;QD=14.78;SB=-423.95 GT:AD:DP:GL:GQ 0/1:29,33:61:-113.27,-18.38,-114.82:99
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chr1 3529884 rs12757620 T G 87.41 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=3;HaplotypeScore=2.04;MQ=59.45;MQ0=0;OQ=798.71;QD=11.75;SB=-349.72 GT:AD:DP:GL:GQ 0/1:29,39:61:-101.54,-18.38,-103.90:99
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chr1 3532172 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=4.52;MQ=58.17;MQ0=0;OQ=111.86;QD=2.19;SB=68.21 GT:AD:DP:GL:GQ 0/1:30,21:37:-25.62,-11.15,-96.21:99
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chr1 3535452 rs41315304 G A 150.86 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=2.69;MQ=58.25;MQ0=0;OQ=1069.05;QD=16.70;SB=-525.75 GT:AD:DP:GL:GQ 0/1:32,32:63:-129.18,-18.99,-99.29:99
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chr1 3536795 rs2821007 G A 330.18 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=59.23;MQ0=0;OQ=1047.23;QD=17.45;SB=-508.04 GT:AD:DP:GL:GQ 0/1:27,33:59:-125.78,-17.78,-94.59:99
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chr1 3537996 rs2760321 T C 53.51 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=58.11;MQ0=0;OQ=916.84;QD=24.78;SB=-335.79 GT:AD:DP:GL:GQ 1/1:0,37:31:-95.30,-9.36,-0.04:93.19
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chr1 3538692 rs2760320 G C 208.41 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=1.05;MQ=58.15;MQ0=0;OQ=946.49;QD=15.02;SB=-485.84 GT:AD:DP:GL:GQ 0/1:35,28:62:-116.63,-18.70,-140.41:99
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chr1 3540707 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=4;HaplotypeScore=6.24;MQ=58.05;MQ0=0;OQ=310.07;QD=8.61;SB=35.15 GT:AD:DP:GL:GQ 0/1:20,16:27:-42.43,-8.14,-74.49:99
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chr1 3542640 rs2821061 A G 174.99 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.68;MQ=60.00;MQ0=0;OQ=519.03;QD=10.38;SB=-253.57 GT:AD:DP:GL:GQ 0/1:27,23:48:-69.65,-14.47,-105.26:99
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chr1 3543649 rs2821058 T C 578.48 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.21;MQ0=0;OQ=1559.49;QD=29.42;SB=-616.98 GT:AD:DP:GL:GQ 1/1:0,53:50:-159.58,-15.08,-0.04:99
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chr1 3545730 rs2760318 T G 276.33 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=500.47;QD=13.53;SB=-245.40 GT:AD:DP:GL:GQ 0/1:16,21:34:-63.58,-10.25,-53.36:99
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chr1 3546316 rs2760317 T C 74.82 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=1.30;MQ=59.23;MQ0=0;OQ=365.54;QD=12.18;SB=-82.96 GT:AD:DP:GL:GQ 0/1:16,13:27:-47.97,-8.14,-53.97:99
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chr1 3546766 rs2821032 A G 15.17 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=5.71;MQ=58.45;MQ0=0;OQ=501.73;QD=10.45;SB=-117.63 GT:AD:DP:GL:GQ 0/1:27,21:44:-66.72,-13.26,-92.65:99
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chr1 3546958 . G C 33.36 PASS AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=2.55;MQ=52.99;MQ0=1;OQ=414.27;QD=15.34;SB=-224.70 GT:AD:DP:GL:GQ 0/1:11,16:20:-50.74,-6.03,-33.52:99
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chr1 3550868 rs12408890 C T 50.15 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=714.51;QD=21.65;SB=-10.00 GT:AD:DP:GL:GQ 0/1:11,22:31:-84.07,-9.34,-33.99:99
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chr1 3556431 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=2;HaplotypeScore=3.37;MQ=56.43;MQ0=0;OQ=64.63;QD=2.69;SB=26.11 GT:AD:DP:GL:GQ 0/1:20,4:17:-14.89,-5.14,-48.86:97.47
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chr1 3556566 rs2251098 G A 89.65 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=58.00;MQ0=0;OQ=575.61;QD=16.45;SB=-81.09 GT:AD:DP:GL:GQ 0/1:16,19:34:-71.09,-10.24,-59.62:99
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chr1 3560743 rs6697769 C T 108.18 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=2.77;MQ=59.11;MQ0=0;OQ=591.49;QD=14.08;SB=-304.84 GT:AD:DP:GL:GQ 0/1:21,21:39:-74.19,-11.76,-62.78:99
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chr1 3562592 rs10752739 A G 278.74 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.27;MQ=56.42;MQ0=0;OQ=804.83;QD=14.63;SB=-300.66 GT:AD:DP:GL:GQ 0/1:25,30:50:-98.83,-15.07,-88.55:99
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chr1 3562634 rs2181484 A G 237.08 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=59.09;MQ0=0;OQ=421.19;QD=9.16;SB=-138.88 GT:AD:DP:GL:GQ 0/1:25,21:41:-57.77,-12.36,-88.24:99
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chr1 3564279 rs9662739 T A 199.17 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.11;MQ=58.99;MQ0=0;OQ=516.88;QD=11.24;SB=-252.67 GT:AD:DP:GL:GQ 0/1:26,19:44:-68.23,-13.26,-93.50:99
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chr1 3564280 rs9662052 C A 196.24 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=58.99;MQ0=0;OQ=511.23;QD=11.11;SB=-234.91 GT:AD:DP:GL:GQ 0/1:27,19:44:-67.66,-13.26,-88.90:99
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chr1 3565050 rs2368543 T C 86.26 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=1.56;MQ=57.97;MQ0=0;OQ=928.11;QD=12.89;SB=-445.02 GT:AD:DP:GL:GQ 0/1:38,33:71:-117.49,-21.39,-151.96:99
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chr1 3565471 rs4648544 C T 133.93 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=3;HaplotypeScore=1.75;MQ=59.57;MQ0=0;OQ=791.33;QD=14.65;SB=-418.72 GT:AD:DP:GL:GQ 0/1:30,24:54:-98.68,-16.27,-109.24:99
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chr1 3565693 rs2208993 C G 156.42 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=59.21;MQ0=0;OQ=372.36;QD=11.28;SB=-74.78 GT:AD:DP:GL:GQ 0/1:21,12:29:-49.27,-8.75,-66.40:99
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chr1 3565739 rs2208992 C T 135.51 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=555.57;QD=16.34;SB=-208.21 GT:AD:DP:GL:GQ 0/1:17,17:34:-69.09,-10.25,-52.42:99
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chr1 3565920 rs2224718 T C 463.85 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.60;MQ0=0;OQ=705.17;QD=14.10;SB=-316.42 GT:AD:DP:GL:GQ 0/1:24,26:48:-88.27,-14.47,-84.73:99
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chr1 3567181 rs4648545 A G 559.92 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=1256.11;QD=14.78;SB=-595.27 GT:AD:DP:GL:GQ 0/1:42,43:84:-154.20,-25.30,-171.31:99
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chr1 3568175 rs1885863 C T 33.02 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.95;MQ0=0;OQ=503.58;QD=17.98;SB=-117.62 GT:AD:DP:GL:GQ 0/1:13,15:28:-62.07,-8.43,-48.10:99
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chr1 3569688 rs1885861 A T 263.95 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=805.05;QD=14.38;SB=-228.60 GT:AD:DP:GL:GQ 0/1:30,26:55:-100.35,-16.57,-108.86:99
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chr1 3572104 rs6679556 T A 168.01 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.18;MQ0=0;OQ=534.82;QD=14.07;SB=-147.78 GT:AD:DP:GL:GQ 0/1:19,19:35:-67.31,-10.54,-60.93:99
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chr1 3572105 rs6679560 T G 310.70 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.18;MQ0=0;OQ=483.25;QD=12.72;SB=-122.88 GT:AD:DP:GL:GQ 0/1:19,19:35:-62.15,-10.55,-61.28:99
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chr1 3572847 rs1885860 T C 202.44 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.09;MQ=55.65;MQ0=0;OQ=1537.12;QD=28.47;SB=-796.29 GT:AD:DP:GL:GQ 1/1:0,54:50:-157.34,-15.08,-0.05:99
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chr1 3573552 rs1885859 G C 126.04 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=931.27;QD=19.81;SB=-452.38 GT:AD:DP:GL:GQ 0/1:21,26:45:-109.97,-13.56,-87.15:99
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chr1 3575442 rs3765694 G A 29.42 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=3.37;MQ=58.20;MQ0=0;OQ=1425.18;QD=36.54;SB=-559.30 GT:AD:DP:GL:GQ 1/1:0,39:37:-146.12,-11.15,-0.01:99
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chr1 3575611 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=3;HaplotypeScore=1.74;MQ=57.17;MQ0=0;OQ=76.89;QD=3.08;SB=14.07 GT:AD:DP:GL:GQ 0/1:14,11:13:-14.90,-3.93,-34.07:99
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chr1 3576288 rs1009345 G A 91.26 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=59.80;MQ0=0;OQ=1800.40;QD=39.14;SB=-661.66 GT:AD:DP:GL:GQ 1/1:0,46:46:-183.64,-13.86,-0.02:99
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chr1 3576560 rs6657895 G A 60.54 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=4.17;MQ=59.27;MQ0=0;OQ=1276.11;QD=33.58;SB=-586.96 GT:AD:DP:GL:GQ 1/1:1,37:35:-131.22,-10.55,-0.02:99
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chr1 3577406 rs3765697 C T 0.76 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=5.64;MQ=56.35;MQ0=0;OQ=1305.04;QD=33.46;SB=-441.58 GT:AD:DP:GL:GQ 1/1:0,39:35:-134.11,-10.55,-0.02:99
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chr1 3578761 rs3765700 G C 611.89 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=1985.98;QD=38.19;SB=-981.19 GT:AD:DP:GL:GQ 1/1:0,52:47:-202.21,-14.17,-0.02:99
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chr1 3578861 rs3765701 T A 287.36 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.60;MQ0=0;OQ=1646.63;QD=35.03;SB=-839.93 GT:AD:DP:GL:GQ 1/1:0,47:46:-168.27,-13.86,-0.02:99
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chr1 3579831 rs56255778 C A 326.05 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=59.60;MQ0=0;OQ=723.70;QD=12.70;SB=-343.37 GT:AD:DP:GL:GQ 0/1:30,27:51:-91.02,-15.37,-85.23:99
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chr1 3580285 rs6671482 G A 126.17 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=60.00;MQ0=0;OQ=1575.76;QD=35.81;SB=-662.31 GT:AD:DP:GL:GQ 1/1:1,43:41:-161.17,-12.35,-0.01:99
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chr1 3587189 . C T 94.68 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=58.81;MQ0=0;OQ=415.33;QD=10.65;SB=-200.88 GT:AD:DP:GL:GQ 0/1:25,14:37:-55.97,-11.16,-70.24:99
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chr1 3594672 rs12562573 G A 160.10 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=59.53;MQ0=0;OQ=1829.37;QD=37.33;SB=-900.21 GT:AD:DP:GL:GQ 1/1:0,49:48:-186.54,-14.47,-0.02:99
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chr1 3594957 rs1885872 G A 83.22 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.18;MQ=59.07;MQ0=0;OQ=1704.97;QD=37.89;SB=-859.63 GT:AD:DP:GL:GQ 1/1:0,45:44:-174.10,-13.26,-0.02:99
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chr1 3595447 rs1885870 G C 563.54 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.58;MQ0=0;OQ=1514.49;QD=32.92;SB=-721.32 GT:AD:DP:GL:GQ 1/1:1,45:40:-155.08,-12.08,-0.04:99
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chr1 3596410 rs3765725 C T 84.63 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.54;MQ0=0;OQ=1239.60;QD=30.23;SB=-472.10 GT:AD:DP:GL:GQ 1/1:0,41:33:-127.56,-9.95,-0.02:99
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chr1 3596486 rs3765727 G A 208.84 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.62;MQ0=0;OQ=883.29;QD=18.03;SB=-364.54 GT:AD:DP:GL:GQ 0/1:22,27:47:-105.77,-14.16,-69.54:99
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chr1 3596710 rs3765728 G A 119.20 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.63;MQ0=0;OQ=1974.23;QD=38.71;SB=-814.08 GT:AD:DP:GL:GQ 1/1:0,51:50:-201.02,-15.06,-0.01:99
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chr1 3597380 rs3765730 G A 180.45 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.40;MQ0=0;OQ=530.99;QD=17.13;SB=-202.91 GT:AD:DP:GL:GQ 0/1:13,18:30:-65.42,-9.04,-41.88:99
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chr1 3597871 rs10732965 C T 75.34 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=57.81;MQ0=0;OQ=940.44;QD=33.59;SB=-454.61 GT:AD:DP:GL:GQ 1/1:0,27:25:-97.64,-7.53,-0.01:75.24
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chr1 3598087 rs34868661 A G 136.79 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=3.27;MQ=59.05;MQ0=0;OQ=432.49;QD=9.83;SB=-227.39 GT:AD:DP:GL:GQ 0/1:23,20:41:-58.89,-12.36,-89.12:99
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chr1 3598141 rs12126706 C T 141.99 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=58.13;MQ0=0;OQ=455.42;QD=13.01;SB=-109.06 GT:AD:DP:GL:GQ 0/1:19,16:32:-58.47,-9.65,-57.68:99
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chr1 3598905 rs1078687 G A 163.20 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=58.42;MQ0=0;OQ=1623.93;QD=33.83;SB=-687.95 GT:AD:DP:GL:GQ 1/1:0,47:43:-166.00,-12.96,-0.02:99
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chr1 3599033 rs879622 G A 151.46 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.44;MQ0=0;OQ=684.79;QD=16.70;SB=-307.82 GT:AD:DP:GL:GQ 0/1:19,22:37:-82.91,-11.15,-57.20:99
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chr1 3599257 rs879621 C A 346.01 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.17;MQ0=0;OQ=766.56;QD=13.69;SB=-343.33 GT:AD:DP:GL:GQ 0/1:29,27:55:-96.51,-16.57,-104.71:99
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chr1 3599783 rs2146660 A G 32.89 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=3.25;MQ=57.85;MQ0=0;OQ=1704.59;QD=34.79;SB=-814.09 GT:AD:DP:GL:GQ 1/1:0,49:49:-174.06,-14.76,-0.02:99
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chr1 3600146 . T C 37.22 LowQual AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=2;HaplotypeScore=1.56;MQ=40.64;MQ0=2;QD=1.16;SB=-35.23 GT:AD:DP:GL:GQ 0/1:25,6:25:-14.54,-7.54,-78.76:70.05
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chr1 3600159 rs34095686 C A 8.52 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=38.58;MQ0=3;OQ=139.88;QD=4.37;SB=-64.01 GT:AD:DP:GL:GQ 0/1:23,9:27:-25.41,-8.14,-69.86:99
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chr1 3600191 . C G 0.30 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=5.79;MQ=36.62;MQ0=7;OQ=200.47;QD=5.90;SB=-62.84 GT:AD:DP:GL:GQ 0/1:21,13:22:-29.96,-6.63,-63.33:99
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chr1 3600194 rs34612797 A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=3;HaplotypeScore=5.12;MQ=34.72;MQ0=8;OQ=74.27;QD=2.12;SB=-16.93 GT:AD:DP:GL:GQ 0/1:24,11:20:-16.74,-6.03,-51.18:99
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chr1 3600242 . C T 27.02 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=0;HaplotypeScore=7.00;MQ=31.01;MQ0=9;QD=0.82;SB=14.05 GT:AD:DP:GL:GQ 0/1:28,5:16:-10.81,-4.82,-45.03:59.85
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chr1 3600252 . G A 0.25 PASS AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=5.21;MQ=33.15;MQ0=7;OQ=119.84;QD=4.99;SB=-7.00 GT:AD:DP:GL:GQ 0/1:19,5:10:-18.28,-3.02,-16.17:99
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chr1 3600264 rs61762234 A C 2.70 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=2;HaplotypeScore=2.09;MQ=34.74;MQ0=5;OQ=244.22;QD=13.57;SB=-10.00 GT:AD:DP:GL:GQ 1/1:4,14:8:-28.01,-2.41,-0.00:24.07
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chr1 3600309 . C A 44.81 LowQual AC=2;AF=1.00;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=28.74;MQ0=1;QD=8.96;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:2:-7.89,-0.60,-0.00:6.02
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chr1 3600350 . C T 27.34 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=12;Dels=0.00;HRun=1;HaplotypeScore=4.81;MQ=17.75;MQ0=4;QD=2.28;SB=-31.62 GT:AD:DP:GL:GQ 0/1:8,4:3:-6.92,-0.91,-3.40:24.94
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chr1 3600367 rs35012159 G C 33.49 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=10.16;MQ=14.95;MQ0=16;QD=0.93;SB=-40.88 GT:AD:DP:GL:GQ 0/1:29,7:6:-8.44,-1.81,-16.03:66.33
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chr1 3600427 . C T 85.30 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=22.31;MQ=14.22;MQ0=48;QD=0.87;SB=11.05 GT:AD:DP:GL:GQ 0/1:88,10:24:-19.05,-7.24,-63.74:99
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chr1 3600428 . G A 105.38 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=22.15;MQ=14.50;MQ0=46;QD=1.12;SB=-26.63 GT:AD:DP:GL:GQ 0/1:84,9:25:-21.36,-7.54,-60.74:99
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chr1 3600437 . G C 161.98 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=2;HaplotypeScore=28.11;MQ=14.54;MQ0=44;QD=1.78;SB=-27.40 GT:AD:DP:GL:GQ 0/1:81,9:25:-27.02,-7.53,-80.42:99
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chr1 3600440 . A C 23.09 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=2;HaplotypeScore=12.59;MQ=14.51;MQ0=44;QD=0.25;SB=-17.83 GT:AD:DP:GL:GQ 0/1:72,19:25:-13.12,-7.53,-77.67:55.91
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chr1 3600470 . C T 26.44 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=13.21;MQ=11.80;MQ0=28;QD=0.61;SB=2.03 GT:AD:DP:GL:GQ 0/1:41,2:8:-8.34,-2.41,-20.77:59.27
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chr1 3600475 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=2;HaplotypeScore=2.58;MQ=10.93;MQ0=23;OQ=89.38;QD=2.48;SB=-3.98 GT:AD:DP:GL:GQ 0/1:21,15:6:-14.03,-1.81,-7.79:59.84
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chr1 3600532 . C T 45.13 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=11.72;MQ0=9;QD=2.65;SB=-47.67 GT:AD:DP:GL:GQ 1/1:12,5:2:-7.92,-0.60,-0.00:6.02
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chr1 3600545 . A C 20.73 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=18.85;MQ0=10;QD=0.80;SB=-32.99 GT:AD:DP:GL:GQ 0/1:14,12:4:-6.56,-1.20,-7.53:53.53
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chr1 3600575 . C T 0.06 PASS AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=7.34;MQ=23.21;MQ0=9;OQ=164.83;QD=5.49;SB=-77.08 GT:AD:DP:GL:GQ 0/1:24,6:9:-22.48,-2.71,-11.26:85.52
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chr1 3600578 . C T 0.49 PASS AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=5.98;MQ=23.98;MQ0=9;OQ=197.36;QD=6.81;SB=-112.62 GT:AD:DP:GL:GQ 0/1:22,7:11:-26.34,-3.32,-14.46:99
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chr1 3600596 . C T 0.28 PASS AC=2;AF=1.00;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=33.58;MQ0=0;OQ=353.36;QD=25.24;SB=-175.22 GT:AD:DP:GL:GQ 1/1:0,14:10:-38.92,-3.01,-0.01:30.09
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chr1 3600667 . C T 19.38 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=18;Dels=0.00;HRun=1;HaplotypeScore=14.09;MQ=16.96;MQ0=7;QD=1.08;SB=-29.64 GT:AD:DP:GL:GQ 0/1:14,4:7:-7.33,-2.11,-16.23:52.17
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chr1 3600709 . C T 32.48 PASS AC=2;AF=1.00;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=3.31;MQ=14.75;MQ0=16;OQ=271.94;QD=8.77;SB=-129.00 GT:AD:DP:GL:GQ 1/1:10,20:8:-30.78,-2.41,-0.00:24.07
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chr1 3600734 . C A 11.22 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=2.94;MQ=17.16;MQ0=10;QD=0.59;SB=-7.00 GT:AD:DP:GL:GQ 0/1:17,2:6:-6.18,-1.81,-13.77:43.72
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chr1 3600738 . C T 23.24 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=1;HaplotypeScore=5.72;MQ=17.16;MQ0=10;QD=1.22;SB=-6.99 GT:AD:DP:GL:GQ 0/1:14,5:6:-7.41,-1.81,-13.10:56.06
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chr1 3600746 . G A 0.90 PASS AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=5.14;MQ=19.46;MQ0=10;OQ=147.44;QD=6.70;SB=-47.55 GT:AD:DP:GL:GQ 0/1:6,16:6:-19.82,-1.81,-3.10:12.90
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chr1 3600943 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=1;HaplotypeScore=3.94;MQ=10.81;MQ0=18;OQ=79.37;QD=2.27;SB=-10.00 GT:AD:DP:GL:GQ 0/1:27,8:5:-12.73,-1.51,-3.55:20.36
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chr1 3600944 . G A 31.47 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=1;HaplotypeScore=3.94;MQ=10.97;MQ0=17;QD=0.93;SB=-10.00 GT:AD:DP:GL:GQ 0/1:32,2:5:-7.94,-1.51,-9.29:64.30
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chr1 3600955 . C T 29.25 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=3.80;MQ=11.72;MQ0=17;QD=0.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:25,7:6:-8.02,-1.81,-11.97:62.08
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chr1 3600968 . A C 27.28 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=2;HaplotypeScore=4.96;MQ=11.75;MQ0=20;QD=0.80;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,16:5:-7.52,-1.51,-9.32:60.10
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chr1 3601000 . G C 23.03 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=2;HaplotypeScore=12.60;MQ=11.01;MQ0=30;QD=0.46;SB=-6.99 GT:AD:DP:GL:GQ 0/1:44,6:9:-8.30,-2.71,-30.70:55.84
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chr1 3601003 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=15.11;MQ=12.05;MQ0=28;OQ=191.04;QD=3.75;SB=-6.99 GT:AD:DP:GL:GQ 0/1:28,23:11:-25.70,-3.31,-14.21:99
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chr1 3601025 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=13.71;MQ=14.27;MQ0=33;OQ=53.75;QD=0.96;SB=-3.99 GT:AD:DP:GL:GQ 0/1:46,9:10:-11.67,-3.01,-22.44:86.59
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chr1 3601070 rs36156048 C G 0.13 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=10.95;MQ=20.17;MQ0=10;OQ=79.41;QD=3.18;SB=-46.45 GT:AD:DP:GL:GQ 0/1:14,11:6:-13.03,-1.81,-11.69:98.78
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chr1 3601096 . G A 20.37 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=8.03;MQ=17.90;MQ0=5;QD=1.20;SB=-27.52 GT:AD:DP:GL:GQ 0/1:13,3:5:-6.83,-1.51,-8.44:53.16
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chr1 3601143 . A C 0.18 PASS AC=1;AF=0.50;AN=2;DP=23;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=20.37;MQ0=7;OQ=150.35;QD=6.54;SB=-72.98 GT:AD:DP:GL:GQ 0/1:14,9:10:-21.33,-3.01,-13.91:99
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chr1 3601165 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=11.69;MQ=24.21;MQ0=10;OQ=173.39;QD=5.78;SB=-3.99 GT:AD:DP:GL:GQ 0/1:22,8:11:-23.94,-3.31,-15.90:99
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chr1 3601175 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=2;HaplotypeScore=35.74;MQ=29.63;MQ0=10;OQ=194.57;QD=4.75;SB=-123.70 GT:AD:DP:GL:GQ 0/1:27,14:21:-29.07,-6.33,-61.55:99
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chr1 3601178 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=2;HaplotypeScore=14.60;MQ=30.57;MQ0=8;OQ=427.34;QD=9.94;SB=-58.96 GT:AD:DP:GL:GQ 0/1:21,22:25:-53.55,-7.53,-34.82:99
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chr1 3601218 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=2;HaplotypeScore=16.31;MQ=41.71;MQ0=5;OQ=182.10;QD=2.43;SB=-33.64 GT:AD:DP:GL:GQ 0/1:61,14:63:-40.49,-19.00,-224.09:99
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chr1 3601225 rs12722819 A C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=3;HaplotypeScore=15.63;MQ=42.30;MQ0=5;OQ=524.29;QD=6.32;SB=-141.88 GT:AD:DP:GL:GQ 0/1:52,30:59:-73.50,-17.79,-124.07:99
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chr1 3601229 rs12727450 T C 0.93 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=3;HaplotypeScore=5.92;MQ=43.45;MQ0=6;OQ=762.30;QD=9.07;SB=-332.31 GT:AD:DP:GL:GQ 0/1:49,35:67:-99.71,-20.19,-147.26:99
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chr1 3601341 rs12239528 C T 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.01;HRun=0;HaplotypeScore=14.56;MQ=44.93;MQ0=17;OQ=62.54;QD=0.70;SB=44.13 GT:AD:DP:GL:GQ 0/1:79,8:62:-27.92,-18.38,-184.40:95.37
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chr1 3601342 rs11581562 G A 0.21 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.01;HRun=0;HaplotypeScore=14.40;MQ=44.68;MQ0=18;OQ=819.35;QD=9.10;SB=-177.16 GT:AD:DP:GL:GQ 0/1:53,33:59:-102.70,-17.49,-103.40:99
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chr1 3601389 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=2;HaplotypeScore=7.82;MQ=44.29;MQ0=18;OQ=186.02;QD=2.30;SB=-61.02 GT:AD:DP:GL:GQ 0/1:62,19:52:-37.55,-15.67,-142.29:99
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chr1 3601457 rs10910012 A G 122.78 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=54.59;MQ0=0;OQ=1506.74;QD=29.54;SB=-756.93 GT:AD:DP:GL:GQ 1/1:0,51:48:-154.31,-14.48,-0.05:99
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chr1 3601752 rs3765731 G A 361.77 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=59.28;MQ0=0;OQ=1001.62;QD=15.65;SB=-488.04 GT:AD:DP:GL:GQ 0/1:31,33:59:-121.23,-17.79,-88.90:99
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chr1 3601820 rs3765732 G A 2.96 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=5.00;MQ=59.03;MQ0=0;OQ=1613.11;QD=33.61;SB=-476.00 GT:AD:DP:GL:GQ 1/1:0,46:44:-167.13,-15.44,-2.23:99
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chr1 3602293 rs1885869 T C 376.91 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1214.50;QD=32.82;SB=-519.18 GT:AD:DP:GL:GQ 1/1:0,37:35:-125.05,-10.54,-0.02:99
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chr1 3603630 rs10910013 C T 111.93 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=59.47;MQ0=0;OQ=534.95;QD=15.28;SB=-205.85 GT:AD:DP:GL:GQ 0/1:18,17:34:-67.02,-10.25,-59.55:99
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chr1 3603781 rs35837097 A G 62.33 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=1.60;MQ=59.60;MQ0=0;OQ=546.71;QD=11.63;SB=-279.27 GT:AD:DP:GL:GQ 0/1:23,24:43:-70.92,-12.96,-83.70:99
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chr1 3605288 rs11580811 G A 73.23 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=2.02;MQ=59.17;MQ0=0;OQ=263.75;QD=9.42;SB=-51.00 GT:AD:DP:GL:GQ 0/1:17,11:22:-36.29,-6.63,-43.95:99
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chr1 3606461 rs3765736 C T 194.21 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=1.59;MQ=57.38;MQ0=0;OQ=406.81;QD=15.07;SB=-214.90 GT:AD:DP:GL:GQ 0/1:13,14:23:-50.90,-6.93,-35.03:99
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chr1 3606652 rs3765737 A G 468.77 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.79;MQ0=0;OQ=799.22;QD=12.89;SB=-323.13 GT:AD:DP:GL:GQ 0/1:30,32:60:-101.29,-18.08,-117.49:99
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chr1 3606658 rs3765738 G A 253.54 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=58.79;MQ0=0;OQ=935.05;QD=15.08;SB=-404.78 GT:AD:DP:GL:GQ 0/1:33,29:61:-115.17,-18.38,-103.51:99
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chr1 3606835 rs4610947 C A 292.86 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.39;MQ0=0;OQ=957.03;QD=17.09;SB=-493.95 GT:AD:DP:GL:GQ 0/1:24,31:55:-115.55,-16.56,-86.20:99
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chr1 3606979 rs4378145 G A 258.79 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=57.58;MQ0=5;OQ=1287.24;QD=16.29;SB=-484.49 GT:AD:DP:GL:GQ 0/1:40,39:72:-153.70,-21.69,-124.59:99
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chr1 3607481 rs3765739 A G 35.10 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=2.69;MQ=56.52;MQ0=0;OQ=316.46;QD=9.31;SB=-99.71 GT:AD:DP:GL:GQ 0/1:16,18:27:-43.07,-8.14,-49.38:99
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chr1 3608425 rs3819959 T C 21.46 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=2.02;MQ=53.67;MQ0=0;OQ=372.33;QD=9.08;SB=-195.61 GT:AD:DP:GL:GQ 0/1:23,18:34:-50.76,-10.24,-80.92:99
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chr1 3608574 rs3765740 T G 43.97 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=2;HaplotypeScore=1.03;MQ=59.11;MQ0=0;OQ=373.92;QD=14.38;SB=-208.83 GT:AD:DP:GL:GQ 0/1:12,14:26:-48.51,-7.83,-42.30:99
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chr1 3608643 rs3765741 A G 139.94 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.25;MQ0=0;OQ=277.44;QD=11.10;SB=-3.99 GT:AD:DP:GL:GQ 0/1:13,12:23:-37.96,-6.93,-45.69:99
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chr1 3608686 rs3765742 G A 11.54 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=299.52;QD=14.98;SB=-7.00 GT:AD:DP:GL:GQ 0/1:9,11:19:-38.96,-5.72,-31.25:99
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chr1 3608969 rs3765743 C T 17.24 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=315.53;QD=15.78;SB=-3.99 GT:AD:DP:GL:GQ 0/1:10,10:19:-40.56,-5.72,-31.07:99
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chr1 3609567 rs4648550 T A 206.11 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.98;MQ0=0;OQ=1535.78;QD=37.46;SB=-673.01 GT:AD:DP:GL:GQ 1/1:0,41:41:-157.17,-12.35,-0.01:99
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chr1 3609807 rs34881405 T C 7.83 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=0.49;MQ=57.54;MQ0=0;OQ=345.64;QD=7.86;SB=-128.25 GT:AD:DP:GL:GQ 0/1:24,20:40:-49.91,-12.06,-96.00:99
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chr1 3610040 rs17379833 A T 163.16 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=59.52;MQ0=0;OQ=999.11;QD=20.81;SB=-480.53 GT:AD:DP:GL:GQ 0/1:16,32:47:-117.35,-14.16,-58.41:99
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chr1 3610295 rs12742969 A G 136.51 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=514.16;QD=10.49;SB=-277.41 GT:AD:DP:GL:GQ 0/1:28,21:47:-68.86,-14.16,-115.22:99
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chr1 3610320 rs12735439 C A 230.39 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=60.00;MQ0=0;OQ=801.03;QD=16.35;SB=-378.77 GT:AD:DP:GL:GQ 0/1:22,27:48:-97.85,-14.46,-70.21:99
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chr1 3611339 rs3765749 A T 129.18 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=60.00;MQ0=0;OQ=640.71;QD=17.32;SB=-252.96 GT:AD:DP:GL:GQ 0/1:16,21:36:-78.20,-10.84,-56.57:99
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chr1 3612044 rs3765751 A G 0.64 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=6.05;MQ=58.84;MQ0=0;OQ=1141.41;QD=28.54;SB=-361.32 GT:AD:DP:GL:GQ 1/1:0,39:37:-117.76,-11.16,-0.04:99
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chr1 3612141 rs3765752 G A 98.32 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.42;MQ0=0;OQ=790.33;QD=19.76;SB=-403.21 GT:AD:DP:GL:GQ 0/1:16,24:40:-94.37,-12.05,-52.81:99
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chr1 3612166 rs3765753 T G 307.87 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=1135.84;QD=31.55;SB=-218.90 GT:AD:DP:GL:GQ 1/1:0,36:34:-117.19,-10.25,-0.02:99
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chr1 3612496 rs12086279 A T 144.33 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=53.76;MQ0=0;OQ=264.24;QD=12.01;SB=-145.87 GT:AD:DP:GL:GQ 0/1:12,10:20:-35.73,-6.03,-37.15:99
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chr1 3612742 rs56124535 A G 117.78 PASS AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=57.14;MQ0=0;OQ=143.16;QD=7.53;SB=-61.32 GT:AD:DP:GL:GQ 0/1:9,9:16:-22.43,-4.83,-33.66:99
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chr1 3612752 rs55976062 T C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=19;Dels=0.00;HRun=2;HaplotypeScore=16.88;MQ=55.46;MQ0=1;OQ=130.66;QD=6.88;SB=-60.86 GT:AD:DP:GL:GQ 0/1:11,8:16:-21.17,-4.82,-37.90:99
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chr1 3612857 rs10910014 T C 4.06 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=2.85;MQ=45.10;MQ0=1;OQ=122.28;QD=3.82;SB=-65.87 GT:AD:DP:GL:GQ 0/1:18,14:19:-21.24,-5.73,-45.71:99
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chr1 3612894 rs58140697 A G 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=4;HaplotypeScore=5.46;MQ=58.05;MQ0=0;OQ=210.19;QD=8.76;SB=-118.71 GT:AD:DP:GL:GQ 0/1:15,9:22:-30.93,-6.63,-52.73:99
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chr1 3612902 rs60071664 T C 130.61 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=57.06;MQ0=0;OQ=194.42;QD=7.48;SB=-106.60 GT:AD:DP:GL:GQ 0/1:16,10:25:-30.26,-7.53,-62.36:99
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chr1 3613185 rs12564843 G C 7.11 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=1.11;MQ=53.89;MQ0=0;OQ=1382.10;QD=38.39;SB=-571.48 GT:AD:DP:GL:GQ 1/1:0,36:33:-141.81,-9.95,-0.02:99
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chr1 3613274 rs9786966 A G 67.74 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=4.62;MQ=57.45;MQ0=0;OQ=414.03;QD=10.62;SB=-167.59 GT:AD:DP:GL:GQ 0/1:21,18:36:-55.53,-10.85,-77.07:99
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chr1 3613481 rs55657548 C T 77.12 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=58.92;MQ0=0;OQ=252.32;QD=6.47;SB=-105.49 GT:AD:DP:GL:GQ 0/1:27,11:38:-39.97,-11.45,-93.41:99
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chr1 3614769 rs10910016 G A 258.29 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.33;MQ=59.57;MQ0=0;OQ=815.07;QD=15.09;SB=-428.45 GT:AD:DP:GL:GQ 0/1:27,26:50:-99.87,-15.07,-79.93:99
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chr1 3615542 rs3765755 G C 6.35 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=2;HaplotypeScore=3.76;MQ=57.56;MQ0=0;OQ=289.35;QD=10.72;SB=-124.51 GT:AD:DP:GL:GQ 0/1:17,10:20:-38.26,-6.05,-38.86:99
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chr1 3615628 rs2368540 G A 45.74 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=57.64;MQ0=0;OQ=1334.80;QD=39.26;SB=-676.69 GT:AD:DP:GL:GQ 1/1:0,34:34:-137.07,-10.24,-0.01:99
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chr1 3615736 rs2368539 G A 82.76 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=3.19;MQ=58.99;MQ0=0;OQ=1720.73;QD=37.41;SB=-824.61 GT:AD:DP:GL:GQ 1/1:0,46:45:-175.68,-13.56,-0.02:99
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chr1 3616028 rs12130809 G A 272.35 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=838.34;QD=17.11;SB=-389.14 GT:AD:DP:GL:GQ 0/1:23,26:48:-101.58,-14.46,-75.57:99
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chr1 3616588 rs3753208 C T 1.11 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=2.44;MQ=57.64;MQ0=0;OQ=539.82;QD=20.76;SB=-254.78 GT:AD:DP:GL:GQ 0/1:9,17:24:-64.50,-7.23,-25.72:99
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chr1 3616624 rs3753209 G A 11.81 PASS AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=58.89;MQ0=0;OQ=522.74;QD=24.89;SB=-281.33 GT:AD:DP:GL:GQ 0/1:4,17:19:-61.28,-5.73,-9.34:36.13
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chr1 3618071 rs3819961 T C 130.28 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=2.02;MQ=59.30;MQ0=0;OQ=302.64;QD=9.17;SB=-168.93 GT:AD:DP:GL:GQ 0/1:19,14:29:-42.29,-8.74,-60.25:99
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chr1 3618163 rs3819962 C T 161.54 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.36;MQ0=0;OQ=457.21;QD=12.70;SB=-166.18 GT:AD:DP:GL:GQ 0/1:20,16:35:-59.55,-10.55,-68.25:99
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chr1 3618201 rs3819963 C T 122.91 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.07;MQ=60.00;MQ0=0;OQ=469.25;QD=9.98;SB=-160.23 GT:AD:DP:GL:GQ 0/1:28,19:40:-62.27,-12.06,-77.68:99
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chr1 3618523 rs6424089 A G 234.40 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.55;MQ0=0;OQ=515.26;QD=10.10;SB=-135.54 GT:AD:DP:GL:GQ 0/1:28,23:50:-69.88,-15.07,-112.69:99
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chr1 3618537 rs6424090 A G 547.53 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.83;MQ0=0;OQ=1664.50;QD=30.82;SB=-446.16 GT:AD:DP:GL:GQ 1/1:0,54:52:-170.07,-15.68,-0.04:99
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chr1 3619132 rs61568045 A T 75.76 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=1.40;MQ=60.00;MQ0=0;OQ=702.41;QD=14.05;SB=-308.70 GT:AD:DP:GL:GQ 0/1:27,23:49:-88.29,-14.76,-94.54:99
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chr1 3619452 rs3765758 A G 47.37 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.30;MQ0=0;OQ=878.57;QD=26.62;SB=-355.42 GT:AD:DP:GL:GQ 1/1:0,33:30:-91.48,-9.06,-0.04:90.16
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chr1 3620336 rs3765761 C T 430.43 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.64;MQ0=0;OQ=893.13;QD=17.18;SB=-472.49 GT:AD:DP:GL:GQ 0/1:25,27:51:-107.96,-15.36,-81.84:99
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chr1 3620975 rs3765763 C A 252.43 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.39;MQ0=0;OQ=502.24;QD=13.22;SB=-232.36 GT:AD:DP:GL:GQ 0/1:20,18:37:-64.65,-11.14,-68.16:99
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chr1 3621759 rs61759267 C T 206.85 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=58.40;MQ0=0;OQ=667.68;QD=16.28;SB=-326.34 GT:AD:DP:GL:GQ 0/1:19,22:40:-82.11,-12.06,-61.46:99
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chr1 3622468 rs3753211 T C 35.06 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=6.67;MQ=58.45;MQ0=0;OQ=511.74;QD=11.37;SB=-197.62 GT:AD:DP:GL:GQ 0/1:23,22:42:-67.14,-12.68,-73.45:99
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chr1 3622590 rs4648551 G A 13.99 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=8.04;MQ=59.11;MQ0=0;OQ=881.37;QD=14.94;SB=-385.40 GT:AD:DP:GL:GQ 0/1:30,29:55:-108.00,-16.58,-90.70:99
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chr1 3623397 rs3765764 G A 5.20 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=59.59;MQ0=0;OQ=1699.76;QD=37.77;SB=-349.25 GT:AD:DP:GL:GQ 1/1:0,44:44:-176.03,-15.59,-2.47:99
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chr1 3624319 rs3765765 C A 38.07 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=752.18;QD=20.33;SB=-184.22 GT:AD:DP:GL:GQ 0/1:13,24:36:-89.34,-10.84,-42.24:99
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chr1 3624520 rs3765766 T C 10.08 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=2;HaplotypeScore=2.32;MQ=58.08;MQ0=0;OQ=679.70;QD=30.90;SB=-324.14 GT:AD:DP:GL:GQ 1/1:0,22:21:-71.57,-6.33,-0.02:63.16
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chr1 3625325 rs3765767 G C 128.03 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.75;MQ=59.30;MQ0=0;OQ=648.42;QD=19.65;SB=-303.36 GT:AD:DP:GL:GQ 0/1:15,18:33:-78.07,-9.95,-65.85:99
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chr1 3625451 rs3765768 C T 99.15 PASS AC=1;AF=0.50;AN=2;DB;DP=22;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=57.87;MQ0=0;OQ=372.64;QD=16.94;SB=-111.62 GT:AD:DP:GL:GQ 0/1:9,13:20:-46.58,-6.03,-24.55:99
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chr1 3625480 rs3819968 G T 164.17 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.32;MQ0=0;OQ=519.45;QD=15.28;SB=-228.94 GT:AD:DP:GL:GQ 0/1:15,19:32:-64.87,-9.64,-47.62:99
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chr1 3627107 rs3765771 G C 208.39 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.53;MQ0=0;OQ=1861.37;QD=37.99;SB=-769.21 GT:AD:DP:GL:GQ 1/1:0,49:48:-189.76,-14.49,-0.04:99
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chr1 3627319 rs12731705 C T 198.62 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.16;MQ0=0;OQ=1887.80;QD=37.76;SB=-826.61 GT:AD:DP:GL:GQ 1/1:0,50:48:-192.38,-14.46,-0.01:99
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chr1 3627473 rs2146658 T G 374.11 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.91;MQ0=0;OQ=603.03;QD=10.05;SB=-295.81 GT:AD:DP:GL:GQ 0/1:35,25:58:-81.06,-17.47,-122.08:99
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chr1 3627672 rs2181487 C A 40.28 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=4.14;MQ=58.10;MQ0=0;OQ=433.83;QD=7.35;SB=-156.52 GT:AD:DP:GL:GQ 0/1:34,22:49:-61.43,-14.77,-105.52:99
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chr1 3628534 rs1801174 C T 158.46 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=59.66;MQ0=0;OQ=2550.78;QD=38.07;SB=-965.29 GT:AD:DP:GL:GQ 1/1:0,67:65:-258.68,-19.58,-0.02:99
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chr1 3628694 rs12737840 C T 176.16 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.52;MQ=58.05;MQ0=0;OQ=694.01;QD=14.46;SB=-295.84 GT:AD:DP:GL:GQ 0/1:22,26:42:-85.35,-12.67,-62.54:99
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chr1 3629503 rs4648552 T C 338.68 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=1294.39;QD=30.10;SB=-605.94 GT:AD:DP:GL:GQ 1/1:0,43:41:-133.06,-12.37,-0.04:99
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chr1 3629584 rs7537335 G A 0.43 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=6.65;MQ=58.30;MQ0=0;OQ=677.32;QD=21.85;SB=-284.30 GT:AD:DP:GL:GQ 0/1:10,21:29:-79.75,-8.74,-30.01:99
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chr1 3629945 rs6424091 C G 0.03 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=5;HaplotypeScore=2.31;MQ=58.54;MQ0=0;OQ=1470.54;QD=38.70;SB=-622.99 GT:AD:DP:GL:GQ 1/1:0,38:35:-150.65,-10.55,-0.01:99
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chr1 3630886 rs6687491 G A 255.56 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=58.48;MQ0=0;OQ=516.42;QD=12.91;SB=-227.77 GT:AD:DP:GL:GQ 0/1:22,18:36:-65.79,-10.86,-57.81:99
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chr1 3630983 rs6701784 A C 437.82 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=1276.86;QD=28.37;SB=-579.85 GT:AD:DP:GL:GQ 1/1:0,45:42:-131.31,-12.66,-0.04:99
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chr1 3632013 rs34178965 G C 41.74 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;QD=13.91;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-7.58,-0.60,-0.00:6.02
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chr1 3632108 . A G 92.54 PASS AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.46;MQ0=0;OQ=246.19;QD=30.77;SB=-85.92 GT:AD:DP:GL:GQ 1/1:0,8:8:-28.20,-2.41,-0.00:24.07
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chr1 3633787 rs2296031 A G 6.14 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=452.89;QD=19.69;SB=-150.34 GT:AD:DP:GL:GQ 0/1:6,16:22:-55.20,-6.63,-22.30:99
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chr1 3634209 rs2181486 A G 1.25 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=4;HaplotypeScore=1.69;MQ=58.39;MQ0=0;OQ=887.40;QD=30.60;SB=-422.16 GT:AD:DP:GL:GQ 1/1:0,29:29:-92.36,-8.75,-0.03:87.19
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chr1 3634234 rs2146657 A G 3.11 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=2.86;MQ=58.55;MQ0=0;OQ=912.28;QD=28.51;SB=-446.82 GT:AD:DP:GL:GQ 1/1:0,32:28:-94.83,-8.44,-0.02:84.21
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chr1 3634529 rs2236367 C T 14.74 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=-0.18;MQ=58.05;MQ0=0;OQ=381.45;QD=15.89;SB=-87.90 GT:AD:DP:GL:GQ 0/1:11,13:23:-48.37,-6.94,-31.96:99
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chr1 3634665 rs2236366 A G 76.17 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=2.83;MQ=58.92;MQ0=0;OQ=536.64;QD=13.76;SB=-250.32 GT:AD:DP:GL:GQ 0/1:16,23:35:-67.50,-10.56,-54.78:99
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chr1 3634718 rs2236365 G C 250.46 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=3.09;MQ=58.69;MQ0=0;OQ=951.80;QD=19.04;SB=-496.24 GT:AD:DP:GL:GQ 0/1:20,30:47:-112.65,-14.19,-78.43:99
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chr1 3634912 rs12095248 A G 50.60 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=529.65;QD=10.81;SB=-225.29 GT:AD:DP:GL:GQ 0/1:29,20:49:-71.01,-14.76,-117.85:99
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chr1 3635695 rs2254530 C A 234.40 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=56.85;MQ0=0;OQ=701.30;QD=15.58;SB=-270.34 GT:AD:DP:GL:GQ 0/1:17,28:43:-86.38,-12.96,-55.17:99
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chr1 3635704 rs2096224 G A 61.81 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.39;MQ0=0;OQ=843.06;QD=18.33;SB=-255.19 GT:AD:DP:GL:GQ 0/1:18,27:42:-100.25,-12.66,-49.65:99
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chr1 3635997 rs11589885 C T 153.88 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.19;MQ=58.55;MQ0=0;OQ=582.90;QD=18.22;SB=-289.86 GT:AD:DP:GL:GQ 0/1:14,18:32:-71.22,-9.65,-43.73:99
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chr1 3636052 rs1885867 G A 143.16 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=59.44;MQ0=0;OQ=1392.32;QD=33.96;SB=-648.62 GT:AD:DP:GL:GQ 1/1:1,40:37:-142.84,-11.16,-0.02:99
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chr1 3636074 rs1885866 T C 394.04 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=1194.73;QD=27.15;SB=-580.01 GT:AD:DP:GL:GQ 1/1:0,44:39:-123.10,-11.76,-0.04:99
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chr1 3636151 rs1885865 G A 33.35 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=2.52;MQ=59.03;MQ0=0;OQ=1851.65;QD=38.58;SB=-906.66 GT:AD:DP:GL:GQ 1/1:0,48:47:-188.76,-14.16,-0.01:99
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chr1 3637822 rs1745813 T C 55.74 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=5.13;MQ=58.97;MQ0=0;OQ=680.74;QD=15.13;SB=-289.66 GT:AD:DP:GL:GQ 0/1:18,27:43:-84.33,-12.97,-62.63:99
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chr1 3638114 rs34661835 G A 68.90 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=3.56;MQ=59.01;MQ0=0;OQ=1063.39;QD=15.19;SB=-366.89 GT:AD:DP:GL:GQ 0/1:37,33:66:-129.52,-19.90,-102.17:99
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chr1 3638739 rs4648553 G A 223.38 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.68;MQ=58.64;MQ0=0;OQ=511.89;QD=10.66;SB=-215.18 GT:AD:DP:GL:GQ 0/1:26,22:40:-66.54,-12.07,-70.14:99
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chr1 3640958 rs1181869 C T 138.76 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=782.45;QD=20.06;SB=-285.16 GT:AD:DP:GL:GQ 0/1:16,23:38:-92.98,-11.45,-54.47:99
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chr1 3640986 rs1181868 G T 357.91 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=59.51;MQ0=0;OQ=742.19;QD=14.55;SB=-306.02 GT:AD:DP:GL:GQ 0/1:23,27:47:-91.66,-14.16,-72.26:99
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chr1 3641178 rs1181867 A G 3.60 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=11.13;MQ=59.11;MQ0=0;OQ=463.08;QD=9.85;SB=-239.29 GT:AD:DP:GL:GQ 0/1:24,23:43:-62.56,-12.97,-88.46:99
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chr1 3642477 rs1047928 G C 24.63 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=59.25;MQ0=0;OQ=1110.64;QD=19.83;SB=-354.44 GT:AD:DP:GL:GQ 0/1:25,31:54:-130.64,-16.30,-94.09:99
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chr1 3642678 rs61759293 G A 143.34 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.60;MQ=59.59;MQ0=0;OQ=746.17;QD=16.22;SB=-262.29 GT:AD:DP:GL:GQ 0/1:23,23:46:-91.76,-13.86,-82.87:99
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chr1 3642682 rs9800 C G 193.80 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.34;MQ=59.59;MQ0=0;OQ=608.81;QD=13.23;SB=-238.07 GT:AD:DP:GL:GQ 0/1:25,21:45:-77.74,-13.57,-107.75:99
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chr1 3643272 rs1181866 A C 242.81 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=1714.13;QD=34.28;SB=-732.08 GT:AD:DP:GL:GQ 1/1:0,50:49:-175.01,-14.76,-0.02:99
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chr1 3643286 rs1181865 T C 423.19 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=1563.43;QD=32.57;SB=-664.24 GT:AD:DP:GL:GQ 1/1:0,48:46:-159.95,-13.86,-0.02:99
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chr1 3644050 rs1181864 A G 156.69 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=3.27;MQ=57.94;MQ0=0;OQ=704.72;QD=10.36;SB=-357.09 GT:AD:DP:GL:GQ 0/1:38,30:68:-94.25,-20.50,-152.69:99
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chr1 3644355 rs41315308 C T 206.84 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=57.86;MQ0=0;OQ=957.61;QD=14.96;SB=-405.80 GT:AD:DP:GL:GQ 0/1:34,30:63:-118.03,-18.99,-105.73:99
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chr1 3646184 rs1181863 T C 89.60 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=57.04;MQ0=1;OQ=1725.96;QD=27.84;SB=-738.77 GT:AD:DP:GL:GQ 1/1:0,62:55:-176.23,-16.59,-0.05:99
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chr1 3647330 rs61339658 C T 216.66 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.48;MQ0=0;OQ=622.56;QD=14.15;SB=-204.90 GT:AD:DP:GL:GQ 0/1:24,20:43:-78.50,-12.96,-75.30:99
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chr1 3647619 rs12117836 G A 258.44 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=59.76;MQ0=0;OQ=3087.35;QD=39.58;SB=-1142.52 GT:AD:DP:GL:GQ 1/1:0,78:77:-312.34,-23.20,-0.02:99
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chr1 3647643 rs55704710 C T 372.37 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1117.31;QD=14.14;SB=-441.41 GT:AD:DP:GL:GQ 0/1:44,35:79:-138.82,-23.81,-145.27:99
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chr1 3648097 rs10797409 G A 267.01 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.27;MQ0=0;OQ=783.87;QD=15.37;SB=-396.73 GT:AD:DP:GL:GQ 0/1:26,25:51:-97.04,-15.37,-93.66:99
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chr1 3648630 rs12068191 T C 36.85 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=59.42;MQ0=0;OQ=210.22;QD=6.57;SB=-113.63 GT:AD:DP:GL:GQ 0/1:20,12:30:-33.36,-9.05,-73.41:99
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chr1 3649517 rs2298222 G A 272.39 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.08;MQ=58.64;MQ0=0;OQ=639.47;QD=13.32;SB=-210.21 GT:AD:DP:GL:GQ 0/1:28,20:45:-80.80,-13.57,-77.92:99
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chr1 3650201 rs10910020 A G 239.62 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=60.00;MQ0=0;OQ=830.62;QD=14.32;SB=-256.96 GT:AD:DP:GL:GQ 0/1:22,36:55:-102.93,-16.58,-89.31:99
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chr1 3650655 rs61759295 C T 319.94 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=56.32;MQ0=0;OQ=1049.42;QD=17.20;SB=-513.15 GT:AD:DP:GL:GQ 0/1:29,32:58:-125.70,-17.48,-89.86:99
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chr1 3650715 . C T 1.43 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=1;HaplotypeScore=2.94;MQ=58.05;MQ0=0;OQ=1053.29;QD=21.50;SB=-546.76 GT:AD:DP:GL:GQ 0/1:18,30:49:-126.44,-17.83,-68.95:99
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chr1 3650833 rs61759296 C T 365.26 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=780.11;QD=18.14;SB=-365.90 GT:AD:DP:GL:GQ 0/1:18,25:43:-94.25,-12.96,-66.61:99
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chr1 3650834 rs61759297 A G 444.30 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=732.78;QD=16.65;SB=-378.33 GT:AD:DP:GL:GQ 0/1:18,26:44:-89.82,-13.26,-70.47:99
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chr1 3651042 . A G 50.56 PASS AC=2;AF=1.00;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.01;MQ0=0;OQ=2317.73;QD=30.50;SB=-942.03 GT:AD:DP:GL:GQ 1/1:0,76:75:-235.44,-22.63,-0.08:99
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chr1 3651109 . A G 1.79 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=5.08;MQ=56.71;MQ0=0;OQ=273.27;QD=7.01;SB=-125.50 GT:AD:DP:GL:GQ 0/1:24,15:37:-41.77,-11.16,-93.00:99
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chr1 3651611 rs61759298 C T 14.44 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=6.20;MQ=59.36;MQ0=0;OQ=487.25;QD=13.53;SB=-201.22 GT:AD:DP:GL:GQ 0/1:19,17:31:-61.35,-9.34,-53.39:99
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chr1 3651666 rs61759299 G A 290.38 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=58.58;MQ0=0;OQ=537.51;QD=11.69;SB=-229.48 GT:AD:DP:GL:GQ 0/1:28,18:45:-70.60,-13.56,-93.90:99
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chr1 3652705 rs3737589 A G 232.40 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=1820.89;QD=33.11;SB=-644.31 GT:AD:DP:GL:GQ 1/1:0,55:53:-185.70,-15.97,-0.02:99
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chr1 3652806 . C A 30.45 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=2;HaplotypeScore=18.21;MQ=58.71;MQ0=0;QD=0.56;SB=77.26 GT:AD:DP:GL:GQ 0/1:38,16:41:-18.69,-12.36,-124.87:63.28
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chr1 3652917 rs3737590 A T 248.79 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.59;MQ0=0;OQ=534.27;QD=11.87;SB=-180.50 GT:AD:DP:GL:GQ 0/1:25,20:43:-69.67,-12.96,-88.74:99
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chr1 3652988 rs3737591 G A 355.22 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=743.37;QD=18.13;SB=-354.36 GT:AD:DP:GL:GQ 0/1:19,22:40:-89.67,-12.05,-59.56:99
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chr1 3653501 . C T 1.63 PASS AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=1;HaplotypeScore=4.19;MQ=56.43;MQ0=0;OQ=295.19;QD=12.30;SB=-147.16 GT:AD:DP:GL:GQ 0/1:12,11:20:-38.83,-6.03,-35.51:99
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chr1 3654278 rs61759300 C T 319.11 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=59.50;MQ0=0;OQ=838.34;QD=14.71;SB=-382.16 GT:AD:DP:GL:GQ 0/1:29,28:55:-103.70,-16.58,-94.60:99
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chr1 3654412 . G A 1.87 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=3.14;MQ=59.58;MQ0=0;OQ=1116.86;QD=20.31;SB=-482.46 GT:AD:DP:GL:GQ 0/1:23,32:54:-131.23,-16.26,-80.42:99
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chr1 3655727 rs12120656 G T 277.67 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=59.16;MQ0=0;OQ=2493.88;QD=34.64;SB=-1022.51 GT:AD:DP:GL:GQ 1/1:0,71:69:-252.99,-20.78,-0.02:99
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chr1 3657359 rs61759301 C A 268.48 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.18;MQ=59.56;MQ0=0;OQ=858.70;QD=16.20;SB=-443.00 GT:AD:DP:GL:GQ 0/1:24,29:52:-104.82,-15.66,-81.51:99
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chr1 3657864 rs4648554 T C 343.27 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=57.67;MQ0=0;OQ=2306.57;QD=35.49;SB=-875.99 GT:AD:DP:GL:GQ 1/1:0,65:64:-234.26,-19.28,-0.02:99
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chr1 3658613 rs12128253 A C 493.82 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=800.32;QD=17.40;SB=-351.83 GT:AD:DP:GL:GQ 0/1:19,27:46:-97.17,-13.85,-71.32:99
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chr1 3658641 rs12123850 G T 445.21 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1182.07;QD=31.95;SB=-471.02 GT:AD:DP:GL:GQ 1/1:0,37:33:-121.80,-9.94,-0.01:99
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chr1 3659032 rs41315312 C T 393.31 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=747.09;QD=16.24;SB=-297.79 GT:AD:DP:GL:GQ 0/1:23,23:45:-91.55,-13.56,-71.39:99
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chr1 3659061 rs10797410 A G 617.38 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1286.97;QD=30.64;SB=-659.94 GT:AD:DP:GL:GQ 1/1:0,42:41:-132.32,-12.36,-0.04:99
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chr1 3659065 rs10910021 C G 483.45 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=1547.05;QD=38.68;SB=-689.48 GT:AD:DP:GL:GQ 1/1:0,40:36:-158.30,-10.85,-0.01:99
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chr1 3659480 rs10797411 T C 0.77 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=7.27;MQ=57.71;MQ0=0;OQ=1720.61;QD=33.09;SB=-601.34 GT:AD:DP:GL:GQ 1/1:0,51:50:-175.67,-15.06,-0.02:99
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chr1 3659744 . C T 75.39 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=20;HaplotypeScore=21.91;MQ=50.61;MQ0=1;QD=1.13;SB=59.16 GT:AD:DP:GL:GQ 0/1:57,10:52:-26.50,-15.68,-150.70:99
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chr1 3659750 . T C 207.45 SnpCluster AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=50.10;MQ=49.95;MQ0=1;QD=3.05;SB=-120.43 GT:AD:DP:GL:GQ 0/1:53,15:58:-41.51,-17.48,-178.17:99
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chr1 3659751 . T C 331.47 SnpCluster AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=48.26;MQ=49.78;MQ0=1;QD=4.95;SB=-162.44 GT:AD:DP:GL:GQ 0/1:46,21:55:-53.00,-16.57,-149.72:99
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chr1 3660887 rs1181889 T C 275.60 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.83;MQ=59.11;MQ0=0;OQ=722.62;QD=13.90;SB=-328.30 GT:AD:DP:GL:GQ 0/1:24,28:49:-90.30,-14.76,-97.70:99
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chr1 3661651 rs1181888 A G 399.70 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=60.00;MQ0=0;OQ=490.27;QD=11.14;SB=-251.93 GT:AD:DP:GL:GQ 0/1:22,22:42:-64.98,-12.67,-82.79:99
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chr1 3662016 rs4648555 C A 364.79 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=510.62;QD=9.46;SB=-259.25 GT:AD:DP:GL:GQ 0/1:34,20:53:-70.31,-15.96,-121.67:99
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chr1 3662783 rs12128087 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=13;HaplotypeScore=8.43;MQ=60.15;MQ0=0;OQ=558.18;QD=10.94;SB=-253.17 GT:AD:DP:GL:GQ 0/1:30,21:47:-73.27,-14.17,-94.61:99
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chr1 3663356 rs4648405 T G 117.92 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=59.45;MQ0=0;OQ=421.62;QD=10.04;SB=-89.84 GT:AD:DP:GL:GQ 0/1:24,18:40:-57.50,-12.05,-84.73:99
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chr1 3663862 rs1181887 T G 544.42 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1620.49;QD=34.48;SB=-656.23 GT:AD:DP:GL:GQ 1/1:0,47:47:-165.65,-14.16,-0.01:99
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chr1 3664012 rs7542464 C T 327.04 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.16;MQ0=0;OQ=1410.26;QD=37.11;SB=-358.47 GT:AD:DP:GL:GQ 1/1:0,38:38:-144.63,-11.46,-0.02:99
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chr1 3664166 . G A 2.11 PASS AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=3;HaplotypeScore=2.17;MQ=59.59;MQ0=0;OQ=801.46;QD=17.81;SB=-414.44 GT:AD:DP:GL:GQ 0/1:20,25:43:-96.39,-12.96,-61.16:99
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chr1 3664614 rs1181886 A T 88.61 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=59.65;MQ0=0;OQ=779.71;QD=14.44;SB=-332.65 GT:AD:DP:GL:GQ 0/1:28,26:52:-96.92,-15.66,-100.50:99
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chr1 3664618 rs9424312 T A 76.30 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=946.40;QD=17.53;SB=-254.96 GT:AD:DP:GL:GQ 0/1:24,30:54:-114.19,-16.27,-85.78:99
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chr1 3664638 rs59291549 A G 339.20 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.66;MQ0=0;OQ=754.74;QD=11.44;SB=-151.30 GT:AD:DP:GL:GQ 0/1:31,35:62:-97.45,-18.69,-125.83:99
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chr1 3664862 rs6682863 G A 201.85 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=59.78;MQ0=0;OQ=631.54;QD=12.63;SB=-190.86 GT:AD:DP:GL:GQ 0/1:30,20:45:-80.00,-13.57,-81.03:99
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chr1 3665697 rs12128570 C G 270.19 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=50.42;MQ0=0;OQ=767.84;QD=13.01;SB=-344.88 GT:AD:DP:GL:GQ 0/1:34,25:56:-96.94,-16.88,-141.00:99
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chr1 3665819 rs12131045 T G 461.26 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.52;MQ0=0;OQ=642.50;QD=12.12;SB=-333.74 GT:AD:DP:GL:GQ 0/1:24,29:50:-82.60,-15.07,-87.60:99
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chr1 3665937 rs12128669 C T 521.09 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.12;MQ0=0;OQ=862.45;QD=14.37;SB=-269.15 GT:AD:DP:GL:GQ 0/1:32,28:59:-107.30,-17.77,-116.90:99
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chr1 3666427 rs1181885 C T 33.74 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.66;MQ0=0;OQ=1204.99;QD=21.91;SB=-603.11 GT:AD:DP:GL:GQ 0/1:19,36:52:-139.46,-15.68,-54.65:99
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chr1 3666458 rs1181884 T C 438.67 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=1123.89;QD=17.56;SB=-533.09 GT:AD:DP:GL:GQ 0/1:26,38:63:-134.65,-18.98,-101.24:99
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chr1 3666632 rs12406474 T C 126.45 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=3;HaplotypeScore=1.53;MQ=58.86;MQ0=0;OQ=740.89;QD=13.00;SB=-344.59 GT:AD:DP:GL:GQ 0/1:29,28:56:-94.24,-16.87,-116.11:99
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chr1 3667793 rs1181883 T C 251.38 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.40;MQ=59.64;MQ0=0;OQ=2030.56;QD=31.73;SB=-682.90 GT:AD:DP:GL:GQ 1/1:0,64:64:-206.69,-19.29,-0.05:99
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chr1 3668081 rs1181882 G C 162.48 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=60.00;MQ0=0;OQ=1618.57;QD=31.13;SB=-715.93 GT:AD:DP:GL:GQ 1/1:0,52:43:-165.50,-13.00,-0.06:99
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chr1 3668091 rs7516756 A G 107.99 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=60.00;MQ0=0;OQ=613.13;QD=11.57;SB=-116.72 GT:AD:DP:GL:GQ 0/1:27,26:49:-79.36,-14.77,-98.00:99
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chr1 3668371 rs7516968 A G 62.28 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=60.00;MQ0=0;OQ=209.36;QD=9.10;SB=-37.93 GT:AD:DP:GL:GQ 0/1:13,10:22:-30.85,-6.63,-52.05:99
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chr1 3668596 . G A 15.65 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.87;MQ=57.44;MQ0=0;OQ=384.28;QD=10.98;SB=-65.05 GT:AD:DP:GL:GQ 0/1:22,13:35:-52.26,-10.55,-81.04:99
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chr1 3668758 rs1181881 A G 16.49 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=1.26;MQ=57.96;MQ0=0;OQ=916.82;QD=30.56;SB=-341.43 GT:AD:DP:GL:GQ 1/1:0,30:29:-95.29,-8.74,-0.02:87.21
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chr1 3668764 rs1181880 C T 45.57 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.66;MQ0=0;OQ=531.41;QD=18.98;SB=-213.73 GT:AD:DP:GL:GQ 0/1:11,17:28:-64.87,-8.45,-34.91:99
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chr1 3668999 rs1181879 T C 13.01 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=2.38;MQ=59.44;MQ0=0;OQ=1208.95;QD=29.49;SB=-449.15 GT:AD:DP:GL:GQ 1/1:0,41:38:-124.52,-11.46,-0.04:99
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chr1 3669006 rs4648556 G A 196.56 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=1.40;MQ=59.44;MQ0=0;OQ=524.36;QD=12.79;SB=-228.74 GT:AD:DP:GL:GQ 0/1:24,17:40:-67.77,-12.05,-80.81:99
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chr1 3669167 rs4648557 T C 163.44 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=60.00;MQ0=0;OQ=314.58;QD=10.15;SB=-171.98 GT:AD:DP:GL:GQ 0/1:15,16:28:-43.19,-8.45,-53.69:99
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chr1 3669321 rs4648558 A T 213.98 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=59.30;MQ0=0;OQ=430.63;QD=13.05;SB=-151.85 GT:AD:DP:GL:GQ 0/1:18,15:33:-56.29,-9.94,-66.61:99
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chr1 3669635 rs10910024 C T 223.39 PASS AC=1;AF=0.50;AN=2;DB;DP=25;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=60.00;MQ0=0;OQ=261.53;QD=10.46;SB=-131.12 GT:AD:DP:GL:GQ 0/1:15,10:24:-36.67,-7.23,-47.59:99
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chr1 3669916 rs56079032 G A 49.43 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.11;MQ0=0;OQ=457.75;QD=17.61;SB=-143.18 GT:AD:DP:GL:GQ 0/1:10,16:25:-56.59,-7.54,-35.59:99
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chr1 3670503 rs1181878 G A 204.22 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.96;MQ=58.92;MQ0=0;OQ=593.13;QD=15.21;SB=-209.18 GT:AD:DP:GL:GQ 0/1:21,18:39:-74.34,-11.75,-76.92:99
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chr1 3670589 rs1181877 C T 442.14 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=59.71;MQ0=0;OQ=1051.46;QD=16.43;SB=-536.72 GT:AD:DP:GL:GQ 0/1:31,33:61:-126.81,-18.38,-107.46:99
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chr1 3670923 rs6669358 A G 271.22 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.35;MQ=59.49;MQ0=0;OQ=863.52;QD=11.83;SB=-442.10 GT:AD:DP:GL:GQ 0/1:40,33:71:-111.03,-21.40,-156.37:99
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chr1 3671541 rs1181876 A G 312.30 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.35;MQ0=0;OQ=557.92;QD=8.72;SB=-268.23 GT:AD:DP:GL:GQ 0/1:36,28:60:-77.16,-18.08,-144.69:99
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chr1 3671691 rs1181875 T C 354.44 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.69;MQ0=0;OQ=768.78;QD=12.60;SB=-310.35 GT:AD:DP:GL:GQ 0/1:32,29:59:-97.93,-17.77,-128.86:99
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chr1 3671930 rs1181874 C A 548.97 PASS AC=1;AF=0.50;AN=2;DB;DP=111;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=1553.48;QD=14.00;SB=-588.81 GT:AD:DP:GL:GQ 0/1:58,53:110:-191.77,-33.14,-192.67:99
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chr1 3673550 rs1181873 A C 65.84 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=0.67;MQ=59.41;MQ0=0;OQ=502.42;QD=12.88;SB=-249.39 GT:AD:DP:GL:GQ 0/1:20,19:38:-64.97,-11.45,-71.58:99
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chr1 3673967 rs1181872 T A 314.39 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=59.13;MQ0=0;OQ=665.69;QD=15.48;SB=-321.70 GT:AD:DP:GL:GQ 0/1:19,24:41:-82.21,-12.35,-69.45:99
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chr1 3674181 rs1181871 A G 201.06 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=52.16;MQ0=0;OQ=271.85;QD=7.55;SB=-59.74 GT:AD:DP:GL:GQ 0/1:21,15:32:-40.11,-9.65,-77.03:99
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chr1 3674814 rs1181870 C A 305.27 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=57.69;MQ0=0;OQ=866.35;QD=12.93;SB=-280.62 GT:AD:DP:GL:GQ 0/1:36,31:65:-109.50,-19.58,-123.19:99
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chr1 3677599 rs1175552 C A 135.06 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.12;MQ=60.00;MQ0=0;OQ=585.48;QD=10.09;SB=-188.53 GT:AD:DP:GL:GQ 0/1:34,24:53:-77.81,-15.97,-102.27:99
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chr1 3678505 rs1175551 T C 166.68 PASS AC=1;AF=0.50;AN=2;DB;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.26;MQ=58.20;MQ0=0;OQ=103.01;QD=7.92;SB=-65.87 GT:AD:DP:GL:GQ 0/1:7,6:12:-17.20,-3.62,-26.14:99
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chr1 3679407 . C G 26.93 LowQual AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=1;HaplotypeScore=2.22;MQ=48.93;MQ0=0;QD=2.45;SB=-6.99 GT:AD:DP:GL:GQ 0/1:3,8:4:-7.19,-1.21,-8.24:59.76
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chr1 3681100 rs1184341 C T 108.25 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=3.04;MQ=59.23;MQ0=0;OQ=426.67;QD=14.22;SB=-164.69 GT:AD:DP:GL:GQ 0/1:15,15:28:-54.39,-8.44,-49.07:99
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chr1 3681124 rs2797432 A G 199.77 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=60.00;MQ0=0;OQ=396.40;QD=12.39;SB=-160.61 GT:AD:DP:GL:GQ 0/1:13,19:29:-51.67,-8.74,-51.47:99
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chr1 3681330 rs1181893 A C 235.23 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.61;MQ0=0;OQ=409.25;QD=27.28;SB=-143.01 GT:AD:DP:GL:GQ 1/1:0,15:13:-44.52,-3.92,-0.01:39.10
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chr1 3681388 rs1175550 A G 206.60 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=59.14;MQ0=0;OQ=268.33;QD=9.94;SB=-118.66 GT:AD:DP:GL:GQ 0/1:16,11:27:-38.26,-8.14,-61.45:99
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chr1 3681587 rs1175549 A C 56.97 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=1.73;MQ=59.28;MQ0=0;OQ=317.74;QD=9.93;SB=-135.67 GT:AD:DP:GL:GQ 0/1:18,14:31:-44.40,-9.34,-64.53:99
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chr1 3682892 rs1175548 A G 294.07 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.99;MQ0=0;OQ=521.21;QD=11.33;SB=-266.55 GT:AD:DP:GL:GQ 0/1:25,21:43:-68.36,-12.95,-93.71:99
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chr1 3683615 rs1175547 G T 106.09 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=58.25;MQ0=0;OQ=658.75;QD=16.47;SB=-219.58 GT:AD:DP:GL:GQ 0/1:18,22:39:-80.91,-11.75,-53.72:99
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chr1 3683769 rs1175546 C T 14.30 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=58.95;MQ0=0;OQ=845.89;QD=19.22;SB=-175.68 GT:AD:DP:GL:GQ 0/1:18,26:42:-100.52,-12.65,-61.88:99
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chr1 3684656 rs1891934 G A 75.40 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=0.97;MQ=59.58;MQ0=0;OQ=574.95;QD=13.07;SB=-268.25 GT:AD:DP:GL:GQ 0/1:26,18:41:-73.14,-12.36,-73.56:99
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chr1 3684836 . T G 29.95 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=2;HaplotypeScore=5.28;MQ=57.94;MQ0=0;QD=0.88;SB=50.17 GT:AD:DP:GL:GQ 0/1:20,14:25:-13.81,-7.53,-70.58:62.78
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chr1 3685860 rs2799182 T C 179.63 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=3.18;MQ=58.63;MQ0=0;OQ=681.56;QD=13.36;SB=-324.12 GT:AD:DP:GL:GQ 0/1:23,28:50:-86.51,-15.07,-94.22:99
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chr1 3686231 rs61759305 C T 280.07 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=512.50;QD=17.08;SB=-238.52 GT:AD:DP:GL:GQ 0/1:14,16:29:-63.27,-8.74,-47.74:99
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chr1 3686750 rs8379 A C 132.74 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.70;MQ0=0;OQ=512.51;QD=8.27;SB=-204.80 GT:AD:DP:GL:GQ 0/1:39,23:59:-72.31,-17.77,-139.60:99
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chr1 3687151 rs2996428 C T 323.10 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=2.20;MQ=59.68;MQ0=0;OQ=1332.10;QD=18.25;SB=-588.63 GT:AD:DP:GL:GQ 0/1:30,43:68:-156.98,-20.49,-102.01:99
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chr1 3688388 rs2799186 C G 198.40 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=60.00;MQ0=0;OQ=1120.38;QD=14.55;SB=-296.13 GT:AD:DP:GL:GQ 0/1:44,32:77:-141.06,-25.73,-190.14:99
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chr1 3688807 rs12122058 C T 132.91 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=1.81;MQ=60.00;MQ0=0;OQ=788.10;QD=15.16;SB=-353.46 GT:AD:DP:GL:GQ 0/1:27,25:50:-97.16,-15.07,-93.28:99
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chr1 3689428 rs2799185 G C 86.89 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=58.23;MQ0=0;OQ=644.64;QD=17.42;SB=-205.64 GT:AD:DP:GL:GQ 0/1:18,19:35:-78.30,-10.56,-70.47:99
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chr1 3689489 rs2799184 T G 198.26 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=4.30;MQ=56.35;MQ0=0;OQ=514.42;QD=13.19;SB=-238.40 GT:AD:DP:GL:GQ 0/1:19,20:37:-65.87,-11.14,-65.31:99
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chr1 3689844 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=16;HaplotypeScore=12.40;MQ=56.82;MQ0=0;OQ=207.53;QD=3.10;SB=47.88 GT:AD:DP:GL:GQ 0/1:50,16:53:-40.01,-15.97,-140.82:99
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chr1 3691351 rs2996426 A G 107.45 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=2.66;MQ=59.77;MQ0=0;OQ=576.97;QD=11.10;SB=-273.25 GT:AD:DP:GL:GQ 0/1:26,26:49:-75.76,-14.78,-98.82:99
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chr1 3693197 rs2368537 G C 138.15 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.55;MQ0=0;OQ=1805.49;QD=35.40;SB=-781.23 GT:AD:DP:GL:GQ 1/1:0,51:46:-184.17,-13.88,-0.03:99
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chr1 3693570 rs2253143 G A 60.94 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=3.58;MQ=58.41;MQ0=0;OQ=495.55;QD=11.26;SB=-141.61 GT:AD:DP:GL:GQ 0/1:26,18:41:-65.20,-12.37,-77.20:99
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chr1 3694312 rs12142183 T G 312.97 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=59.65;MQ0=0;OQ=615.52;QD=11.61;SB=-311.76 GT:AD:DP:GL:GQ 0/1:22,31:47:-79.00,-14.16,-79.12:99
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chr1 3694564 . G C 39.33 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=6.24;MQ=58.81;MQ0=0;QD=0.72;SB=44.18 GT:AD:DP:GL:GQ 0/1:42,12:37:-18.38,-11.17,-134.23:72.16
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chr1 3701498 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=71;Dels=0.03;HRun=20;HaplotypeScore=51.30;MQ=52.45;MQ0=0;OQ=259.27;QD=3.65;SB=80.25 GT:AD:DP:GL:GQ 0/1:46,23:54:-44.89,-15.68,-134.64:99
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chr1 3708347 rs6681383 G A 128.24 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.34;MQ0=0;OQ=1078.39;QD=18.92;SB=-322.85 GT:AD:DP:GL:GQ 0/1:24,33:53:-127.10,-15.97,-69.66:99
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chr1 3712148 rs2996425 A T 193.61 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.11;MQ=59.02;MQ0=0;OQ=2222.50;QD=35.85;SB=-1018.88 GT:AD:DP:GL:GQ 1/1:0,62:60:-225.85,-18.07,-0.02:99
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chr1 3714307 rs61759320 G A 326.68 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=53.55;MQ0=0;OQ=770.50;QD=14.01;SB=-354.84 GT:AD:DP:GL:GQ 0/1:29,25:53:-96.31,-15.97,-95.14:99
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chr1 3714663 . A C 15.04 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=2;HaplotypeScore=8.17;MQ=57.66;MQ0=0;QD=0.38;SB=56.19 GT:AD:DP:GL:GQ 0/1:24,16:28:-13.21,-8.44,-81.36:47.74
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chr1 3727878 . C T 38.08 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=2.42;MQ=59.48;MQ0=0;OQ=1399.61;QD=17.28;SB=-662.18 GT:AD:DP:GL:GQ 0/1:40,41:81:-167.65,-24.40,-140.98:99
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chr1 3731503 . A G 18.90 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=3;HaplotypeScore=1.79;MQ=54.69;MQ0=0;QD=0.73;SB=5.04 GT:AD:DP:GL:GQ 0/1:21,5:21:-11.50,-6.33,-70.25:51.68
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chr1 3735976 rs1836 A G 124.85 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.96;MQ=59.74;MQ0=0;OQ=2210.40;QD=31.13;SB=-963.45 GT:AD:DP:GL:GQ 1/1:0,70:69:-227.21,-23.18,-2.59:99
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chr1 3736114 rs2275830 T C 634.35 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=2088.07;QD=30.71;SB=-734.31 GT:AD:DP:GL:GQ 1/1:0,68:67:-212.46,-20.22,-0.07:99
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chr1 3736443 rs2275828 G T 17.64 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=3.28;MQ=59.05;MQ0=0;OQ=2655.56;QD=36.38;SB=-1342.28 GT:AD:DP:GL:GQ 1/1:0,73:72:-269.16,-21.68,-0.02:99
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chr1 3736449 rs2275826 C G 89.02 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.10;MQ0=0;OQ=3375.97;QD=43.84;SB=-1685.64 GT:AD:DP:GL:GQ 1/1:0,77:77:-336.60,-23.20,-0.02:99
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chr1 3737179 rs4648417 C T 55.97 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=58.05;MQ0=0;OQ=1230.92;QD=34.19;SB=-377.48 GT:AD:DP:GL:GQ 1/1:0,35:33:-126.70,-9.95,-0.02:99
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chr1 3737440 rs6424058 C T 106.25 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=3.83;MQ=56.84;MQ0=0;OQ=1463.09;QD=34.84;SB=-699.35 GT:AD:DP:GL:GQ 1/1:0,42:38:-149.91,-11.45,-0.01:99
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chr1 3737463 rs6413779 T C 36.87 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=57.40;MQ0=0;OQ=1023.14;QD=33.00;SB=-220.63 GT:AD:DP:GL:GQ 1/1:0,31:31:-105.92,-9.34,-0.02:93.25
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chr1 3737945 rs7522227 A G 230.87 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.22;MQ0=0;OQ=2674.63;QD=34.29;SB=-1340.60 GT:AD:DP:GL:GQ 1/1:0,77:76:-271.07,-22.89,-0.02:99
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chr1 3738031 rs7524765 T C 717.11 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2886.44;QD=35.20;SB=-1305.64 GT:AD:DP:GL:GQ 1/1:0,82:82:-292.25,-24.70,-0.03:99
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chr1 3738548 rs17403836 A C 593.74 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.20;MQ0=0;OQ=3340.65;QD=35.92;SB=-1448.19 GT:AD:DP:GL:GQ 1/1:0,93:93:-333.07,-28.01,-0.02:99
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chr1 3738842 rs61768911 C G 310.36 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.39;MQ0=2;OQ=606.83;QD=30.34;SB=-199.55 GT:AD:DP:GL:GQ 1/1:0,19:16:-64.28,-4.83,-0.01:48.16
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chr1 3738927 . T C 23.45 LowQual AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=5.48;MQ=47.67;MQ0=1;QD=0.60;SB=-5.57 GT:AD:DP:GL:GQ 0/1:32,7:31:-14.97,-9.34,-106.27:56.26
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chr1 3738930 . T C 7.68 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=3.51;MQ=48.29;MQ0=0;OQ=738.60;QD=19.44;SB=-353.38 GT:AD:DP:GL:GQ 0/1:6,32:31:-86.49,-9.35,-16.38:70.33
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chr1 3738954 rs61768912 T C 1249.83 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.18;MQ0=0;QD=28.41;SB=-561.89 GT:AD:DP:GL:GQ 1/1:0,43:40:-128.60,-12.06,-0.04:99
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chr1 3738962 rs61768913 A G 1521.07 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=53.09;MQ0=0;QD=28.17;SB=-501.21 GT:AD:DP:GL:GQ 1/1:0,54:48:-155.73,-14.47,-0.04:99
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chr1 3738964 rs61768914 A G 1823.57 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=53.35;MQ0=0;QD=32.56;SB=-678.27 GT:AD:DP:GL:GQ 1/1:0,56:52:-185.96,-15.66,-0.02:99
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chr1 3738975 rs61768915 T C 185.63 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.64;MQ=53.83;MQ0=0;OQ=2377.40;QD=34.96;SB=-853.97 GT:AD:DP:GL:GQ 1/1:0,68:67:-241.35,-20.18,-0.03:99
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chr1 3739217 rs6684560 G A 167.13 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=55.03;MQ0=0;OQ=2027.81;QD=36.87;SB=-859.02 GT:AD:DP:GL:GQ 1/1:1,54:53:-206.39,-15.97,-0.02:99
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chr1 3739448 rs6676260 T C 481.80 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.47;MQ0=0;OQ=1276.86;QD=30.40;SB=-555.08 GT:AD:DP:GL:GQ 1/1:0,42:41:-131.31,-12.36,-0.03:99
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chr1 3739507 rs10797344 C G 65.45 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=2.02;MQ=59.28;MQ0=0;OQ=2404.57;QD=37.57;SB=-1028.99 GT:AD:DP:GL:GQ 1/1:0,64:58:-244.08,-17.49,-0.04:99
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chr1 3739508 rs10797345 G A 56.93 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=2.68;MQ=59.28;MQ0=0;OQ=2416.64;QD=37.76;SB=-1154.54 GT:AD:DP:GL:GQ 1/1:0,64:63:-245.28,-18.99,-0.03:99
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chr1 3739554 rs6673716 A G 130.37 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.53;MQ0=0;OQ=1461.81;QD=29.83;SB=-615.96 GT:AD:DP:GL:GQ 1/1:0,49:46:-149.80,-13.87,-0.04:99
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chr1 3739633 rs6673807 A G 581.92 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.88;MQ0=0;OQ=2050.62;QD=35.36;SB=-778.99 GT:AD:DP:GL:GQ 1/1:0,58:58:-208.67,-17.47,-0.02:99
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chr1 3740027 rs2368533 G A 618.30 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=2881.32;QD=38.94;SB=-1374.05 GT:AD:DP:GL:GQ 1/1:0,74:73:-291.74,-21.99,-0.02:99
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chr1 3740589 rs6677381 A G 634.61 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=2780.11;QD=35.64;SB=-1088.76 GT:AD:DP:GL:GQ 1/1:0,78:77:-281.62,-23.19,-0.02:99
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chr1 3740591 rs6680017 T G 509.75 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=2637.83;QD=34.26;SB=-1082.49 GT:AD:DP:GL:GQ 1/1:0,77:75:-267.39,-22.59,-0.02:99
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chr1 3740758 . T A 7.56 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=55.28;MQ0=1;OQ=174.11;QD=4.71;SB=-20.31 GT:AD:DP:GL:GQ 0/1:28,9:34:-30.93,-10.24,-98.40:99
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chr1 3741138 rs2887273 C G 484.06 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2855.33;QD=43.26;SB=-1170.05 GT:AD:DP:GL:GQ 1/1:0,66:66:-289.13,-19.88,-0.02:99
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chr1 3741826 rs4648419 C G 552.08 PASS AC=2;AF=1.00;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.30;MQ0=0;OQ=3843.78;QD=42.24;SB=-1290.87 GT:AD:DP:GL:GQ 1/1:0,91:88:-383.38,-26.52,-0.03:99
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chr1 3742892 . G T 16.29 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=20;HaplotypeScore=18.89;MQ=55.03;MQ0=1;QD=0.28;SB=44.02 GT:AD:DP:GL:GQ 0/1:50,6:41:-19.70,-14.80,-98.51:49.02
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chr1 3742917 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.02;HRun=20;HaplotypeScore=34.21;MQ=57.45;MQ0=0;OQ=170.67;QD=3.28;SB=56.18 GT:AD:DP:GL:GQ 0/1:37,14:43:-33.01,-12.65,-114.45:99
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chr1 3742996 rs2275824 A T 710.47 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.86;MQ0=0;OQ=2009.53;QD=35.25;SB=-882.57 GT:AD:DP:GL:GQ 1/1:0,57:56:-204.56,-16.87,-0.02:99
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chr1 3744349 rs12409082 G C 531.14 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3059.06;QD=43.09;SB=-1422.83 GT:AD:DP:GL:GQ 1/1:0,71:71:-309.52,-21.40,-0.02:99
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chr1 3744456 rs6683827 G T 2.38 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=3;HaplotypeScore=4.28;MQ=58.86;MQ0=0;OQ=2501.40;QD=35.73;SB=-1071.46 GT:AD:DP:GL:GQ 1/1:0,70:69:-253.75,-20.78,-0.02:99
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chr1 3745535 rs1891941 T C 731.33 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2479.06;QD=35.42;SB=-1217.69 GT:AD:DP:GL:GQ 1/1:0,70:69:-251.51,-20.78,-0.02:99
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chr1 3745729 rs1891940 T C 456.28 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.01;MQ0=0;OQ=1634.49;QD=34.78;SB=-697.28 GT:AD:DP:GL:GQ 1/1:0,47:46:-167.05,-13.85,-0.01:99
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chr1 3745735 rs1891939 T G 249.79 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.99;MQ0=0;OQ=1553.73;QD=33.78;SB=-800.51 GT:AD:DP:GL:GQ 1/1:0,46:45:-158.97,-13.55,-0.02:99
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chr1 3745980 rs1539649 A G 625.14 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.71;MQ0=0;OQ=2553.81;QD=30.77;SB=-1180.11 GT:AD:DP:GL:GQ 1/1:0,83:80:-259.03,-24.12,-0.06:99
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chr1 3746353 rs7535887 T C 654.18 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1854.47;QD=30.91;SB=-854.01 GT:AD:DP:GL:GQ 1/1:0,60:59:-189.08,-17.79,-0.05:99
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chr1 3746392 rs10797346 T C 305.08 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2579.74;QD=35.83;SB=-1200.15 GT:AD:DP:GL:GQ 1/1:0,72:72:-261.58,-21.69,-0.02:99
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chr1 3747160 rs10909800 C T 207.27 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2281.73;QD=39.34;SB=-904.67 GT:AD:DP:GL:GQ 1/1:0,58:58:-231.78,-17.47,-0.02:99
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chr1 3748578 rs4381131 T C 118.61 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=57.58;MQ0=0;OQ=1302.81;QD=35.21;SB=-612.36 GT:AD:DP:GL:GQ 1/1:0,37:37:-133.88,-11.14,-0.01:99
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chr1 3748616 rs4411084 A G 124.66 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.91;MQ=57.27;MQ0=0;OQ=1453.01;QD=29.06;SB=-634.87 GT:AD:DP:GL:GQ 1/1:0,50:46:-148.93,-13.88,-0.04:99
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chr1 3749212 rs3765774 T A 197.18 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.09;MQ0=0;OQ=2826.29;QD=36.71;SB=-1358.75 GT:AD:DP:GL:GQ 1/1:0,77:76:-286.23,-22.89,-0.02:99
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chr1 3749644 rs10797347 A G 265.86 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=59.07;MQ0=0;OQ=1626.88;QD=34.61;SB=-812.67 GT:AD:DP:GL:GQ 1/1:0,47:46:-166.29,-13.86,-0.01:99
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chr1 3749797 rs10909801 A G 1.04 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=13.74;MQ=53.38;MQ0=0;OQ=1309.63;QD=23.81;SB=-631.48 GT:AD:DP:GL:GQ 1/1:0,53:41:-134.59,-12.37,-0.04:99
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chr1 3749921 rs6701360 G A 575.83 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.91;MQ0=0;OQ=2426.40;QD=38.51;SB=-904.68 GT:AD:DP:GL:GQ 1/1:0,63:63:-246.25,-18.99,-0.03:99
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chr1 3749974 rs6690371 A G 48.27 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=1.93;MQ=58.34;MQ0=0;OQ=1681.22;QD=35.03;SB=-728.27 GT:AD:DP:GL:GQ 1/1:0,48:48:-171.73,-14.47,-0.03:99
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chr1 3749989 rs6678020 C T 441.08 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.59;MQ0=0;OQ=1518.29;QD=37.96;SB=-571.34 GT:AD:DP:GL:GQ 1/1:0,40:39:-155.43,-11.75,-0.01:99
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chr1 3750090 rs6680552 C T 728 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.60;MQ0=1;OQ=1998.34;QD=35.06;SB=-998.84 GT:AD:DP:GL:GQ 1/1:0,57:51:-203.43,-15.36,-0.01:99
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chr1 3750216 rs6695657 T C 130.02 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.67;MQ0=0;OQ=1753.47;QD=29.72;SB=-613.96 GT:AD:DP:GL:GQ 1/1:0,59:56:-178.99,-16.89,-0.06:99
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chr1 3750378 rs10752723 A G 15.88 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=1.50;MQ=56.80;MQ0=0;OQ=1482.59;QD=32.95;SB=-488.54 GT:AD:DP:GL:GQ 1/1:1,43:41:-151.86,-12.35,-0.01:99
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chr1 3751141 rs6698930 T A 637.91 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=7;HaplotypeScore=46.26;MQ=41.75;MQ0=0;QD=7.78;SB=8.51 GT:AD:DP:GL:GQ 0/1:49,33:69:-87.87,-20.79,-167.40:99
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chr1 3751339 rs2275822 C T 226.46 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.23;MQ0=0;OQ=2373.96;QD=39.57;SB=-964.37 GT:AD:DP:GL:GQ 1/1:0,60:60:-241.00,-18.08,-0.02:99
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chr1 3751510 rs2275821 A G 573.45 PASS AC=2;AF=1.00;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.31;MQ0=0;OQ=3500.46;QD=35.36;SB=-1716.03 GT:AD:DP:GL:GQ 1/1:0,99:96:-349.05,-28.91,-0.03:99
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chr1 3751936 rs6699784 T C 22.54 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1634.61;QD=34.05;SB=-680.60 GT:AD:DP:GL:GQ 1/1:0,48:47:-167.07,-14.16,-0.02:99
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chr1 3751940 rs6699785 T C 457.63 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1716.61;QD=35.76;SB=-707.61 GT:AD:DP:GL:GQ 1/1:0,48:48:-175.26,-14.46,-0.02:99
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chr1 3752276 rs6687498 C A 0.86 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=7.86;MQ=58.29;MQ0=1;OQ=1565.75;QD=34.79;SB=-714.95 GT:AD:DP:GL:GQ 1/1:1,44:44:-160.17,-13.25,-0.01:99
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chr1 3752464 rs4494088 C T 130.82 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=59.01;MQ0=0;OQ=2585.87;QD=39.18;SB=-1275.71 GT:AD:DP:GL:GQ 1/1:0,66:65:-262.19,-19.58,-0.02:99
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chr1 3752510 . C A 11.64 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=20;HaplotypeScore=16.03;MQ=54.71;MQ0=1;QD=0.16;SB=98.34 GT:AD:DP:GL:GQ 0/1:63,8:53:-20.38,-15.96,-171.47:44.17
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chr1 3752581 rs4534323 A T 713.95 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=2157.31;QD=36.56;SB=-930.57 GT:AD:DP:GL:GQ 1/1:0,59:59:-219.34,-17.77,-0.02:99
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chr1 3753724 rs12047360 G A 108.34 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=59.36;MQ0=0;OQ=1255.98;QD=34.89;SB=-564.33 GT:AD:DP:GL:GQ 1/1:0,36:33:-129.19,-9.94,-0.01:99
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chr1 3754321 rs34401151 C T 220.62 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.55;MQ0=0;OQ=2357.19;QD=36.83;SB=-1184.12 GT:AD:DP:GL:GQ 1/1:0,63:62:-242.18,-21.42,-2.88:99
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chr1 3754471 rs55873991 T C 460.04 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=2216.85;QD=34.64;SB=-478.52 GT:AD:DP:GL:GQ 1/1:0,64:60:-225.28,-18.07,-0.01:99
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chr1 3755409 rs4648346 G A 377.30 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=56.94;MQ0=0;OQ=2718.34;QD=38.83;SB=-1289.71 GT:AD:DP:GL:GQ 1/1:0,70:68:-275.43,-20.48,-0.02:99
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chr1 3755538 rs4648423 C T 3.24 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=5.11;MQ=59.49;MQ0=0;OQ=1662.33;QD=36.94;SB=-681.30 GT:AD:DP:GL:GQ 1/1:0,44:44:-169.84,-13.26,-0.02:99
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chr1 3755615 rs4648347 T C 415.08 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=60.19;MQ0=0;OQ=2002.26;QD=34.52;SB=-940.97 GT:AD:DP:GL:GQ 1/1:0,58:56:-203.83,-16.87,-0.02:99
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chr1 3755919 rs12097923 G T 175.21 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=59.51;MQ0=0;OQ=2007.64;QD=34.03;SB=-971.58 GT:AD:DP:GL:GQ 1/1:0,58:57:-204.37,-17.17,-0.02:99
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chr1 3756146 rs17404435 G T 642.91 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.27;MQ0=0;OQ=1775.93;QD=34.82;SB=-654.09 GT:AD:DP:GL:GQ 1/1:0,51:50:-181.19,-15.06,-0.02:99
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chr1 3756301 rs6683156 C T 153.50 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=59.62;MQ0=0;OQ=3593.95;QD=38.64;SB=-1767.70 GT:AD:DP:GL:GQ 1/1:0,92:90:-358.39,-27.12,-0.03:99
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chr1 3757458 rs3765779 A G 312.92 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1547.17;QD=29.19;SB=-677.55 GT:AD:DP:GL:GQ 1/1:0,53:50:-158.35,-15.08,-0.05:99
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chr1 3757556 rs3765780 C T 73.74 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=1220.87;QD=37.00;SB=-540.71 GT:AD:DP:GL:GQ 1/1:0,33:32:-125.68,-9.64,-0.01:96.30
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chr1 3758579 rs1539647 T C 5.15 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=2;HaplotypeScore=3.94;MQ=58.65;MQ0=1;OQ=2215.43;QD=29.94;SB=-922.78 GT:AD:DP:GL:GQ 1/1:1,73:71:-228.15,-21.41,-3.03:99
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chr1 3758589 rs1539648 T C 162.50 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=59.09;MQ0=0;OQ=2319.86;QD=30.52;SB=-925.48 GT:AD:DP:GL:GQ 1/1:0,76:73:-235.63,-22.01,-0.06:99
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chr1 3759091 rs6657021 A G 451.01 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.04;MQ0=0;OQ=2173.33;QD=30.19;SB=-1093.08 GT:AD:DP:GL:GQ 1/1:0,72:68:-220.98,-20.51,-0.06:99
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chr1 3759136 rs6668213 G C 44.87 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.72;MQ0=0;OQ=2874.30;QD=41.66;SB=-1253.95 GT:AD:DP:GL:GQ 1/1:0,69:66:-291.04,-19.89,-0.02:99
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chr1 3759146 rs6693152 C T 203.33 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.07;MQ0=0;OQ=2711.10;QD=38.73;SB=-1194.58 GT:AD:DP:GL:GQ 1/1:0,70:68:-274.71,-20.49,-0.02:99
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chr1 3759189 rs6657132 A G 408.69 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.24;MQ0=0;OQ=1707.03;QD=31.04;SB=-847.00 GT:AD:DP:GL:GQ 1/1:0,55:50:-174.32,-15.07,-0.03:99
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chr1 3759225 rs6668306 G C 258.29 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=59.53;MQ0=0;OQ=1917.17;QD=39.13;SB=-849.44 GT:AD:DP:GL:GQ 1/1:0,49:46:-195.32,-13.87,-0.02:99
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chr1 3759237 rs6693259 C T 255.19 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1813.57;QD=38.59;SB=-875.61 GT:AD:DP:GL:GQ 1/1:0,47:47:-184.96,-14.17,-0.02:99
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chr1 3759339 . T C 4.24 PASS AC=2;AF=1.00;AN=2;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=37.66;MQ0=0;OQ=1291.89;QD=29.36;SB=-665.80 GT:AD:DP:GL:GQ 1/1:0,44:41:-132.82,-12.37,-0.04:99
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chr1 3759424 rs11576718 T C 18.88 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.78;MQ0=0;OQ=1915.98;QD=34.84;SB=-646.27 GT:AD:DP:GL:GQ 1/1:0,55:53:-195.20,-15.96,-0.02:99
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chr1 3759450 rs11578021 G C 393.67 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=2482.73;QD=42.08;SB=-1009.18 GT:AD:DP:GL:GQ 1/1:0,59:57:-251.88,-17.18,-0.02:99
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chr1 3760255 rs4130539 C A 200.10 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.57;MQ=59.43;MQ0=0;OQ=2921.40;QD=36.07;SB=-1317.55 GT:AD:DP:GL:GQ 1/1:0,81:81:-295.75,-24.40,-0.03:99
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chr1 3760285 rs4233023 G A 128.17 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.42;MQ0=0;OQ=2979.99;QD=37.25;SB=-1007.64 GT:AD:DP:GL:GQ 1/1:0,80:76:-301.61,-22.90,-0.03:99
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chr1 3760596 rs4582731 T C 194.06 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=1740.97;QD=31.65;SB=-868.36 GT:AD:DP:GL:GQ 1/1:0,55:54:-177.73,-16.29,-0.05:99
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chr1 3760968 rs12023761 T C 207.14 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=57.12;MQ0=0;OQ=2651.31;QD=33.99;SB=-1110.83 GT:AD:DP:GL:GQ 1/1:0,78:75:-268.74,-22.59,-0.02:99
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chr1 3760980 rs12023762 T C 71.74 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=2.08;MQ=56.93;MQ0=0;OQ=2310.56;QD=34.49;SB=-1074.87 GT:AD:DP:GL:GQ 1/1:0,66:64:-234.66,-19.27,-0.02:99
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chr1 3761023 rs12026284 G A 45.52 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=57.92;MQ0=0;OQ=1613.24;QD=38.41;SB=-773.05 GT:AD:DP:GL:GQ 1/1:0,42:41:-164.92,-12.35,-0.01:99
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chr1 3761229 rs12024538 T C 108.72 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=1.20;MQ=57.43;MQ0=0;OQ=2622.46;QD=34.06;SB=-1093.09 GT:AD:DP:GL:GQ 1/1:0,77:74:-265.86,-22.29,-0.03:99
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chr1 3761407 rs7552678 C T 182.01 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.23;MQ=55.63;MQ0=0;OQ=2322.80;QD=37.46;SB=-1101.95 GT:AD:DP:GL:GQ 1/1:0,61:58:-235.88,-17.47,-0.01:99
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chr1 3761583 rs10909805 A T 36.48 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=57.39;MQ0=0;OQ=1183.25;QD=32.87;SB=-378.79 GT:AD:DP:GL:GQ 1/1:0,36:34:-121.93,-10.24,-0.02:99
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chr1 3762135 rs4648348 G T 313.87 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.61;MQ0=0;OQ=2805.56;QD=36.44;SB=-1091.90 GT:AD:DP:GL:GQ 1/1:0,77:77:-284.17,-23.19,-0.03:99
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chr1 3762966 rs6424059 C T 50.97 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1794.59;QD=39.88;SB=-207.77 GT:AD:DP:GL:GQ 1/1:0,45:45:-183.06,-13.56,-0.01:99
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chr1 3763112 rs6424060 C A 1.11 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=57.94;MQ0=0;OQ=1225.37;QD=36.04;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,34:33:-126.13,-9.94,-0.01:99
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chr1 3763448 rs7542369 C G 0.46 PASS AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=407.00;QD=27.13;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:12:-44.31,-3.64,-0.03:36.11
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chr1 3763578 rs4648428 A G 5.56 PASS AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=286.53;QD=20.47;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,13:11:-32.26,-3.33,-0.02:33.05
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chr1 3764486 rs10909806 C A 23.23 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=2.13;MQ=58.37;MQ0=0;OQ=1559.40;QD=35.44;SB=-546.78 GT:AD:DP:GL:GQ 1/1:0,44:43:-159.54,-12.95,-0.01:99
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chr1 3765314 rs4376673 C G 417.23 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1404.99;QD=36.03;SB=-615.54 GT:AD:DP:GL:GQ 1/1:0,39:36:-144.12,-10.87,-0.03:99
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chr1 3765882 rs9786959 A G 29.68 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=59.70;MQ0=0;OQ=1920.48;QD=30.48;SB=-862.57 GT:AD:DP:GL:GQ 1/1:0,63:60:-195.68,-18.09,-0.05:99
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chr1 3767471 rs11800725 A G 13.03 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=58.98;MQ0=0;OQ=1927.36;QD=30.11;SB=-765.33 GT:AD:DP:GL:GQ 1/1:0,64:61:-196.39,-18.41,-0.06:99
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chr1 3767577 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=17;HaplotypeScore=9.33;MQ=55.19;MQ0=0;OQ=73.00;QD=1.66;SB=10.79 GT:AD:DP:GL:GQ 0/1:33,10:33:-20.53,-9.94,-95.54:99
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chr1 3767595 . G A 13.29 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=17;HaplotypeScore=14.08;MQ=55.46;MQ0=0;QD=0.23;SB=74.24 GT:AD:DP:GL:GQ 0/1:47,10:46:-18.45,-13.86,-142.27:45.92
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chr1 3769011 rs4400555 C T 258.35 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.08;MQ0=0;OQ=2381.95;QD=39.05;SB=-1005.83 GT:AD:DP:GL:GQ 1/1:0,61:61:-241.80,-18.38,-0.02:99
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chr1 3769497 rs4573474 G C 208.99 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.06;MQ0=0;OQ=1909.70;QD=37.45;SB=-679.47 GT:AD:DP:GL:GQ 1/1:0,51:49:-194.60,-14.79,-0.05:99
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chr1 3769504 rs4475689 T C 437.54 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.81;MQ0=0;OQ=1544.26;QD=28.60;SB=-549.88 GT:AD:DP:GL:GQ 1/1:0,54:50:-158.07,-15.09,-0.05:99
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chr1 3769540 rs4393098 C T 134.88 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.73;MQ0=0;OQ=2714.04;QD=39.33;SB=-879.18 GT:AD:DP:GL:GQ 1/1:0,69:68:-275.01,-20.48,-0.02:99
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chr1 3770416 rs10909807 A G 70.24 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=59.66;MQ0=0;OQ=2327.40;QD=34.23;SB=-632.25 GT:AD:DP:GL:GQ 1/1:0,68:65:-236.35,-19.58,-0.03:99
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chr1 3770956 rs10797348 C A 725.50 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2194.69;QD=35.40;SB=-970.66 GT:AD:DP:GL:GQ 1/1:0,62:61:-223.07,-18.37,-0.02:99
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chr1 3770996 rs10752724 C G 36.73 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.68;MQ0=0;OQ=3059.04;QD=41.90;SB=-884.77 GT:AD:DP:GL:GQ 1/1:0,73:70:-309.51,-21.10,-0.03:99
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chr1 3772468 rs10909809 C T 66.95 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.41;MQ=58.92;MQ0=0;OQ=1387.22;QD=35.57;SB=-471.11 GT:AD:DP:GL:GQ 1/1:0,38:37:-142.33,-11.16,-0.02:99
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chr1 3773138 rs10909810 A C 280.94 PASS AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.04;MQ0=0;OQ=955.91;QD=32.96;SB=-323.98 GT:AD:DP:GL:GQ 1/1:0,29:29:-99.19,-8.74,-0.02:87.21
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chr1 3773433 rs10797349 C T 164.73 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=58.68;MQ0=0;OQ=1490.84;QD=33.88;SB=-752.63 GT:AD:DP:GL:GQ 1/1:0,44:39:-152.69,-11.75,-0.02:99
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chr1 3773480 rs10797350 T C 13.89 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=2.15;MQ=58.30;MQ0=0;OQ=1471.72;QD=30.66;SB=-684.88 GT:AD:DP:GL:GQ 1/1:0,48:45:-150.79,-13.57,-0.03:99
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chr1 3773523 rs10752726 T G 347.66 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=1497.10;QD=33.27;SB=-446.81 GT:AD:DP:GL:GQ 1/1:0,45:43:-153.31,-12.95,-0.01:99
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chr1 3773611 rs12035912 C T 197.79 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=58.30;MQ0=0;OQ=2493.51;QD=37.78;SB=-1130.03 GT:AD:DP:GL:GQ 1/1:0,66:64:-252.96,-19.28,-0.02:99
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chr1 3775032 . T C 552.80 SnpCluster AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=33.42;MQ=46.78;MQ0=0;QD=6.28;SB=-111.60 GT:AD:DP:GL:GQ 0/1:60,28:83:-83.58,-25.02,-222.80:99
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chr1 3775037 . G T 197.57 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=0;HaplotypeScore=30.55;MQ=47.65;MQ0=0;QD=2.00;SB=65.19 GT:AD:DP:GL:GQ 0/1:82,15:90:-57.60,-34.56,-265.76:99
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chr1 3775038 rs11801559 A G 304.07 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=1;HaplotypeScore=31.22;MQ=47.58;MQ0=0;QD=3.07;SB=-149.93 GT:AD:DP:GL:GQ 0/1:75,24:82:-58.40,-24.71,-264.98:99
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chr1 3775067 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=168;Dels=0.00;HRun=0;HaplotypeScore=55.99;MQ=43.63;MQ0=2;OQ=741.54;QD=4.41;SB=-115.85 GT:AD:DP:GL:GQ 0/1:87,38:131:-206.86,-129.42,-352.70:99
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chr1 3775068 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=171;Dels=0.00;HRun=2;HaplotypeScore=57.14;MQ=43.69;MQ0=2;OQ=621.12;QD=3.63;SB=-22.34 GT:AD:DP:GL:GQ 0/1:130,41:133:-105.49,-40.09,-359.21:99
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chr1 3775097 . C T 202.73 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=156;Dels=0.02;HRun=0;HaplotypeScore=180.15;MQ=42.01;MQ0=2;QD=1.30;SB=-48.46 GT:AD:DP:GL:GQ 0/1:127,21:125:-62.81,-39.25,-356.59:99
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chr1 3775132 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=0;HaplotypeScore=17.94;MQ=41.24;MQ0=3;OQ=65.49;QD=0.68;SB=-47.12 GT:AD:DP:GL:GQ 0/1:77,9:78:-49.90,-40.06,-295.84:98.32
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chr1 3779522 rs11581471 A G 100.85 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.41;MQ0=0;OQ=1287.54;QD=29.26;SB=-667.82 GT:AD:DP:GL:GQ 1/1:0,44:42:-132.38,-12.67,-0.05:99
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chr1 3779990 rs12130391 G A 164 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.47;MQ0=0;OQ=2160.23;QD=35.41;SB=-916.74 GT:AD:DP:GL:GQ 1/1:0,60:57:-219.63,-17.18,-0.03:99
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chr1 3780767 . T C 4.63 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=30.96;MQ0=11;OQ=368.82;QD=6.36;SB=-104.61 GT:AD:DP:GL:GQ 0/1:34,24:38:-51.63,-11.46,-83.55:99
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chr1 3781074 rs10752727 C T 2.58 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=7.70;MQ=37.12;MQ0=12;OQ=1286.15;QD=21.08;SB=-457.95 GT:AD:DP:GL:GQ 1/1:3,58:36:-135.18,-10.85,-2.98:78.66
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chr1 3783772 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=19;HaplotypeScore=32.14;MQ=55.75;MQ0=0;OQ=200.26;QD=4.01;SB=53.19 GT:AD:DP:GL:GQ 0/1:32,18:38:-34.76,-11.45,-99.41:99
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chr1 3784133 rs12132240 C T 668.84 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.52;MQ0=0;OQ=2396.10;QD=39.93;SB=-998.03 GT:AD:DP:GL:GQ 1/1:0,60:60:-243.21,-18.07,-0.02:99
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chr1 3785251 rs10737189 T C 42.26 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=4.18;MQ=59.45;MQ0=0;OQ=2617.88;QD=31.17;SB=-945.37 GT:AD:DP:GL:GQ 1/1:0,84:80:-265.43,-24.12,-0.06:99
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chr1 3786402 rs12071660 G A 151.32 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2743.00;QD=38.63;SB=-1108.49 GT:AD:DP:GL:GQ 1/1:0,71:69:-277.90,-20.79,-0.02:99
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chr1 3787079 rs4074710 T C 1.91 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=9.84;MQ=58.78;MQ0=0;OQ=1684.95;QD=27.18;SB=-797.66 GT:AD:DP:GL:GQ 1/1:2,60:56:-176.09,-16.89,-4.01:99
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chr1 3787169 rs61768959 C T 435.29 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1824.58;QD=38.82;SB=-789.07 GT:AD:DP:GL:GQ 1/1:0,47:46:-186.05,-13.86,-0.01:99
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chr1 3787855 rs4073324 C T 458.35 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=1383.49;QD=37.39;SB=-414.06 GT:AD:DP:GL:GQ 1/1:0,37:37:-141.95,-11.15,-0.02:99
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chr1 3787909 rs4073323 A G 2.22 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=3.99;MQ=59.35;MQ0=0;OQ=1345.64;QD=32.04;SB=-424.45 GT:AD:DP:GL:GQ 1/1:0,42:40:-138.17,-12.05,-0.02:99
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chr1 3788260 rs12084944 C T 298.99 PASS AC=2;AF=1.00;AN=2;DB;DP=24;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=888.25;QD=37.01;SB=-436.08 GT:AD:DP:GL:GQ 1/1:0,24:23:-92.42,-6.93,-0.01:69.22
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chr1 3788534 rs12030906 T C 0.68 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.02;HRun=0;HaplotypeScore=9.00;MQ=56.58;MQ0=0;OQ=1607.45;QD=29.23;SB=-436.47 GT:AD:DP:GL:GQ 1/1:0,54:48:-164.35,-14.16,-0.02:99
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chr1 3789424 rs4382652 G A 2153.41 Indel AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=4.66;MQ=56.10;MQ0=0;QD=35.30;SB=-1010.66 GT:AD:DP:GL:GQ 1/1:0,61:57:-218.95,-17.18,-0.03:99
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chr1 3790102 rs3205087 A G 382.60 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.28;MQ0=0;OQ=1027.83;QD=26.35;SB=-300.09 GT:AD:DP:GL:GQ 1/1:0,39:35:-106.42,-10.57,-0.05:99
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chr1 3790340 rs7555538 G T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=8;HaplotypeScore=0.92;MQ=59.43;MQ0=0;OQ=2444.86;QD=33.49;SB=-1058.90 GT:AD:DP:GL:GQ 1/1:0,73:70:-248.10,-21.09,-0.03:99
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chr1 3791107 rs10909817 T G 151.89 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.65;MQ=57.75;MQ0=0;OQ=1681.31;QD=32.33;SB=-830.07 GT:AD:DP:GL:GQ 1/1:0,51:49:-171.73,-14.76,-0.02:99
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chr1 3792631 rs11584721 G C 5.17 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=5.57;MQ=57.48;MQ0=0;OQ=2243.27;QD=40.06;SB=-1057.19 GT:AD:DP:GL:GQ 1/1:1,55:53:-227.93,-15.97,-0.02:99
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chr1 3793561 rs12136187 C A 227.66 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.95;MQ0=0;OQ=1328.46;QD=34.06;SB=-683.01 GT:AD:DP:GL:GQ 1/1:0,39:37:-136.44,-11.15,-0.01:99
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chr1 3793615 rs7367066 T C 611.54 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.19;MQ0=0;OQ=1618.23;QD=29.97;SB=-707.63 GT:AD:DP:GL:GQ 1/1:0,53:51:-165.45,-15.38,-0.04:99
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chr1 3795300 rs6678851 C T 1.35 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=5.47;MQ=59.65;MQ0=0;OQ=2468.27;QD=37.97;SB=-809.33 GT:AD:DP:GL:GQ 1/1:0,65:63:-250.43,-18.98,-0.02:99
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chr1 3795934 rs4075974 G A 558.47 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.49;MQ0=0;OQ=2140.67;QD=39.64;SB=-940.34 GT:AD:DP:GL:GQ 1/1:0,54:54:-217.66,-16.27,-0.01:99
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chr1 3796218 rs10909819 T C 98.14 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=58.14;MQ0=0;OQ=2198.60;QD=32.33;SB=-948.97 GT:AD:DP:GL:GQ 1/1:0,68:64:-223.47,-19.28,-0.03:99
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chr1 3796503 rs4520357 T A 245.19 PASS AC=2;AF=1.00;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.09;MQ0=0;OQ=3186.37;QD=35.40;SB=-1505.31 GT:AD:DP:GL:GQ 1/1:0,90:85:-322.25,-25.60,-0.02:99
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chr1 3797453 rs4274008 G C 114.81 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=1.18;MQ=59.65;MQ0=0;OQ=2739.80;QD=42.15;SB=-1186.93 GT:AD:DP:GL:GQ 1/1:0,65:64:-277.59,-19.29,-0.02:99
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chr1 3798031 rs6701422 T C 38.91 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=4.04;MQ=51.74;MQ0=0;OQ=1832.37;QD=30.04;SB=-733.76 GT:AD:DP:GL:GQ 1/1:0,60:57:-186.87,-17.19,-0.05:99
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chr1 3798222 rs4446914 G A 207.99 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.90;MQ=50.14;MQ0=0;OQ=2015.61;QD=38.03;SB=-988.99 GT:AD:DP:GL:GQ 1/1:0,53:52:-205.17,-15.67,-0.02:99
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chr1 3798375 . A G 51.46 PASS AC=2;AF=1.00;AN=2;DP=13;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=16.12;MQ0=4;OQ=176.38;QD=13.57;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,13:6:-21.21,-1.81,-0.00:18.05
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chr1 3798911 rs12757258 A C 37.05 LowQual AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.57;MQ0=1;QD=7.41;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,3:2:-7.11,-0.60,-0.00:6.02
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chr1 3798957 rs12757292 A C 18.79 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=23.60;MQ0=1;OQ=75.37;QD=3.14;SB=-10.00 GT:AD:DP:GL:GQ 0/1:11,13:13:-14.74,-3.92,-26.95:99
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chr1 3799283 rs11807227 G A 605.39 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.57;MQ0=0;OQ=2371.97;QD=38.88;SB=-744.48 GT:AD:DP:GL:GQ 1/1:0,61:60:-240.80,-18.08,-0.02:99
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chr1 3800246 rs4568776 A G 199.91 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=2257.59;QD=31.80;SB=-934.52 GT:AD:DP:GL:GQ 1/1:0,71:68:-229.39,-20.50,-0.04:99
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chr1 3801063 rs7515869 A T 278.49 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=61.08;MQ0=0;OQ=1948.49;QD=33.03;SB=-981.77 GT:AD:DP:GL:GQ 1/1:0,57:54:-198.46,-16.27,-0.03:99
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chr1 3801228 rs6674160 G A 506.45 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.72;MQ0=0;OQ=1203.93;QD=37.62;SB=-496.15 GT:AD:DP:GL:GQ 1/1:0,32:32:-124.00,-9.65,-0.02:96.29
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chr1 3801965 rs10909822 A C 705.90 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=23;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=42.43;MQ0=0;QD=30.69;SB=-332.99 GT:AD:DP:GL:GQ 1/1:1,22:22:-74.19,-6.63,-0.02:66.14
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chr1 3801968 . T A 440.70 SnpCluster AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=38.89;MQ0=0;QD=11.60;SB=-170.81 GT:AD:DP:GL:GQ 0/1:21,17:32:-56.99,-9.64,-61.90:99
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chr1 3801971 . G T 508.15 SnpCluster AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=35.42;MQ0=0;QD=14.52;SB=-198.56 GT:AD:DP:GL:GQ 0/1:17,18:35:-64.64,-10.54,-61.42:99
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chr1 3801978 . G C 1059.09 Indel;SnpCluster AC=2;AF=1.00;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=45.04;MQ0=0;QD=40.73;SB=-392.21 GT:AD:DP:GL:GQ 1/1:0,26:25:-109.50,-7.53,-0.01:75.25
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chr1 3802009 rs12133786 A C 321.15 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=52.45;MQ0=0;OQ=1401.55;QD=33.37;SB=-709.03 GT:AD:DP:GL:GQ 1/1:0,42:41:-143.76,-12.35,-0.02:99
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chr1 3802570 rs10797352 T C 148.57 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.68;MQ0=0;OQ=1740.38;QD=32.84;SB=-623.49 GT:AD:DP:GL:GQ 1/1:0,53:51:-177.65,-15.37,-0.03:99
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chr1 3802708 rs10797353 C G 720.59 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2712.05;QD=38.74;SB=-1379.38 GT:AD:DP:GL:GQ 1/1:0,69:70:-279.01,-24.65,-4.23:99
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chr1 3804150 rs10797354 T C 170.50 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=59.56;MQ0=0;OQ=1825.12;QD=32.59;SB=-712.23 GT:AD:DP:GL:GQ 1/1:0,56:54:-186.12,-16.27,-0.03:99
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chr1 3804602 rs6658198 T C 302.07 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=59.62;MQ0=0;OQ=2079.20;QD=34.65;SB=-977.94 GT:AD:DP:GL:GQ 1/1:0,60:60:-211.53,-18.07,-0.02:99
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chr1 3806368 rs35131135 T C 13.18 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=0.92;MQ=58.87;MQ0=0;OQ=1257.30;QD=30.67;SB=-415.16 GT:AD:DP:GL:GQ 1/1:0,40:36:-129.33,-10.85,-0.01:99
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chr1 3806714 rs61770363 G A 10.79 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=58.71;MQ0=0;OQ=641.87;QD=35.66;SB=-278.65 GT:AD:DP:GL:GQ 1/1:0,18:18:-67.78,-5.43,-0.01:54.17
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chr1 3806753 rs4072725 C T 77.05 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.52;MQ0=0;OQ=544.23;QD=34.01;SB=-280.66 GT:AD:DP:GL:GQ 1/1:0,16:15:-58.01,-4.52,-0.01:45.14
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chr1 3808604 rs10797355 T C 125.29 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=53.60;MQ0=1;OQ=2350.13;QD=34.56;SB=-914.68 GT:AD:DP:GL:GQ 1/1:0,68:66:-238.63,-19.89,-0.03:99
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chr1 3808731 rs10797356 G A 43.83 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=2.07;MQ=58.71;MQ0=0;OQ=2012.52;QD=37.27;SB=-776.06 GT:AD:DP:GL:GQ 1/1:0,54:52:-204.86,-15.67,-0.02:99
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chr1 3809184 rs6672335 A G 119.40 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.56;MQ0=0;OQ=1683.69;QD=31.77;SB=-530.84 GT:AD:DP:GL:GQ 1/1:0,53:48:-171.97,-14.46,-0.02:99
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chr1 3809865 rs10909828 G A 654.97 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=2184.41;QD=38.32;SB=-826.35 GT:AD:DP:GL:GQ 1/1:0,57:56:-222.04,-16.87,-0.02:99
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chr1 3809876 rs12139857 G C 137.16 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.22;MQ0=0;OQ=2518.12;QD=42.68;SB=-984.74 GT:AD:DP:GL:GQ 1/1:0,59:58:-255.41,-17.48,-0.02:99
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chr1 3811076 rs6687869 G A 107.90 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.45;MQ0=0;OQ=1628.97;QD=38.79;SB=-568.34 GT:AD:DP:GL:GQ 1/1:0,42:42:-166.50,-12.65,-0.01:99
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chr1 3811194 rs10797357 G A 521.93 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.15;MQ0=0;OQ=1858.19;QD=37.92;SB=-535.68 GT:AD:DP:GL:GQ 1/1:0,49:48:-189.42,-14.46,-0.01:99
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chr1 3812563 rs10909830 C T 206.83 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=58.81;MQ0=0;OQ=2305.91;QD=36.60;SB=-919.31 GT:AD:DP:GL:GQ 1/1:0,63:60:-234.20,-18.08,-0.02:99
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chr1 3812792 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=14.74;MQ=58.39;MQ0=0;OQ=154.04;QD=2.80;SB=80.30 GT:AD:DP:GL:GQ 0/1:43,12:42:-31.36,-12.67,-148.77:99
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chr1 3816486 rs35332894 A G 12.94 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=1.52;MQ=58.25;MQ0=1;OQ=1726.98;QD=27.41;SB=-682.71 GT:AD:DP:GL:GQ 1/1:0,63:54:-176.33,-16.29,-0.05:99
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chr1 3817341 rs61770379 C T 109.94 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.38;MQ0=0;OQ=1418.14;QD=38.33;SB=-728.97 GT:AD:DP:GL:GQ 1/1:0,37:36:-145.41,-10.84,-0.01:99
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chr1 3819020 rs34825671 C T 409.20 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=1564.33;QD=39.11;SB=-750.02 GT:AD:DP:GL:GQ 1/1:0,40:40:-160.03,-12.05,-0.01:99
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chr1 3819278 rs35368826 T C 12.24 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.26;MQ=60.00;MQ0=0;OQ=1199.67;QD=27.90;SB=-424.22 GT:AD:DP:GL:GQ 1/1:0,43:38:-123.59,-11.46,-0.04:99
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chr1 3819474 rs35583447 A G 89.06 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=58.69;MQ0=0;OQ=1939.06;QD=31.79;SB=-974.91 GT:AD:DP:GL:GQ 1/1:0,61:57:-197.52,-17.18,-0.03:99
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chr1 3819901 rs34284135 A G 55.75 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=58.81;MQ0=0;OQ=1296.25;QD=30.15;SB=-641.91 GT:AD:DP:GL:GQ 1/1:0,43:38:-133.23,-11.45,-0.02:99
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chr1 3820479 rs4073647 C A 185.05 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.94;MQ=59.55;MQ0=0;OQ=1638.97;QD=32.14;SB=-804.86 GT:AD:DP:GL:GQ 1/1:0,51:47:-167.50,-14.16,-0.02:99
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chr1 3820963 rs35355307 G A 127.74 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.69;MQ0=0;OQ=2262.75;QD=37.09;SB=-711.99 GT:AD:DP:GL:GQ 1/1:0,61:59:-229.89,-17.78,-0.03:99
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chr1 3821092 rs35241263 A G 89.02 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=58.63;MQ0=0;OQ=1378.97;QD=27.04;SB=-599.21 GT:AD:DP:GL:GQ 1/1:0,51:45:-141.53,-13.58,-0.05:99
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chr1 3821416 rs34803434 G A 80.51 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=3.13;MQ=58.07;MQ0=0;OQ=1633.32;QD=35.51;SB=-688.34 GT:AD:DP:GL:GQ 1/1:1,45:44:-166.94,-13.26,-0.02:99
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chr1 3823053 rs61770387 C T 609.64 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=2714.99;QD=39.35;SB=-1139.68 GT:AD:DP:GL:GQ 1/1:0,69:68:-275.10,-20.48,-0.02:99
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chr1 3823181 rs61770388 T C 199.61 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.19;MQ0=0;OQ=1728.56;QD=33.24;SB=-864.04 GT:AD:DP:GL:GQ 1/1:0,52:50:-176.46,-15.06,-0.02:99
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chr1 3824979 rs61770390 T C 82.45 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.51;MQ=55.31;MQ0=0;OQ=486.55;QD=7.85;SB=-261.22 GT:AD:DP:GL:GQ 0/1:37,25:59:-69.72,-17.78,-147.85:99
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chr1 3824990 . C T 3.46 PASS AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=1;HaplotypeScore=3.66;MQ=55.46;MQ0=0;OQ=1251.91;QD=19.56;SB=-545.38 GT:AD:DP:GL:GQ 0/1:27,37:61:-146.86,-18.39,-82.02:99
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chr1 3825051 . C A 3.22 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=2;HaplotypeScore=3.18;MQ=58.29;MQ0=0;OQ=820.60;QD=11.56;SB=-414.89 GT:AD:DP:GL:GQ 0/1:42,29:71:-106.73,-21.38,-145.16:99
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chr1 3825054 . T C 10.09 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=1;HaplotypeScore=3.18;MQ=58.08;MQ0=0;OQ=722.16;QD=10.47;SB=-351.97 GT:AD:DP:GL:GQ 0/1:40,28:65:-95.08,-19.58,-155.89:99
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chr1 3825324 rs61770392 A T 88.32 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=57.20;MQ0=0;OQ=1894.97;QD=35.09;SB=-920.36 GT:AD:DP:GL:GQ 1/1:0,54:51:-193.10,-15.37,-0.02:99
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chr1 3827005 . C T 22.22 LowQual AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=2;HaplotypeScore=1.47;MQ=43.17;MQ0=3;QD=1.48;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,3:9:-8.21,-2.71,-24.78:55.03
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chr1 3827011 . C T 25.21 LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=2.11;MQ=38.99;MQ0=3;QD=1.80;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,2:8:-8.21,-2.41,-21.31:58.03
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chr1 3830505 rs35265992 A G 0.12 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=4;HaplotypeScore=5.22;MQ=58.50;MQ0=0;OQ=970.90;QD=17.34;SB=-315.39 GT:AD:DP:GL:GQ 0/1:20,36:52:-116.04,-15.67,-75.68:99
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chr1 3830738 rs35974482 G A 171.95 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.40;MQ=57.87;MQ0=0;OQ=551.40;QD=12.53;SB=-198.84 GT:AD:DP:GL:GQ 0/1:25,19:40:-70.48,-12.05,-78.52:99
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chr1 3830888 rs35314156 G C 209.73 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.07;MQ0=0;OQ=668.40;QD=13.37;SB=-257.46 GT:AD:DP:GL:GQ 0/1:30,20:50:-85.20,-15.08,-125.99:99
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chr1 3831972 rs34835780 T C 632.20 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.64;MQ0=0;OQ=2285.64;QD=35.16;SB=-1132.81 GT:AD:DP:GL:GQ 1/1:0,65:64:-232.17,-19.28,-0.02:99
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chr1 3833915 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=0;HaplotypeScore=17.15;MQ=47.19;MQ0=1;OQ=288.77;QD=3.66;SB=-113.05 GT:AD:DP:GL:GQ 0/1:64,15:78:-55.66,-23.49,-226.25:99
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chr1 3895148 . C A 18 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=35.10;MQ0=1;OQ=333.31;QD=9.80;SB=-100.81 GT:AD:DP:GL:GQ 0/1:15,18:23:-43.54,-6.93,-34.49:99
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chr1 3895632 . G A 3.06 PASS AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=4;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=959.16;QD=14.11;SB=-372.32 GT:AD:DP:GL:GQ 0/1:38,30:68:-119.69,-20.49,-137.83:99
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chr1 3895766 rs61770398 T C 202.83 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=3.65;MQ=59.18;MQ0=0;OQ=960.24;QD=12.98;SB=-389.21 GT:AD:DP:GL:GQ 0/1:40,34:73:-121.30,-21.99,-162.55:99
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chr1 3899769 . C G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=2;HaplotypeScore=8.09;MQ=59.49;MQ0=0;OQ=340.78;QD=7.57;SB=47.18 GT:AD:DP:GL:GQ 0/1:26,19:34:-47.63,-10.27,-85.91:99
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chr1 3902626 rs12073174 A G 196.76 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=56.14;MQ0=0;OQ=542.74;QD=11.31;SB=-148.64 GT:AD:DP:GL:GQ 0/1:27,21:46:-71.41,-13.85,-105.98:99
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chr1 3902680 rs61770400 C T 70.11 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=5.09;MQ=59.24;MQ0=0;OQ=954.92;QD=15.65;SB=-346.04 GT:AD:DP:GL:GQ 0/1:29,32:59:-116.56,-17.78,-99.06:99
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chr1 3903888 . C T 983.33 SnpCluster AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.15;MQ0=0;QD=17.88;SB=-501.10 GT:AD:DP:GL:GQ 0/1:24,31:52:-117.28,-15.67,-81.69:99
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chr1 3903897 rs12076404 C T 1044.63 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.20;MQ0=0;QD=18.01;SB=-538.06 GT:AD:DP:GL:GQ 0/1:25,33:54:-124.01,-16.27,-82.66:99
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chr1 3903898 . G A 621.65 SnpCluster AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.17;MQ0=0;QD=11.10;SB=-272.76 GT:AD:DP:GL:GQ 0/1:33,23:52:-81.12,-15.67,-110.15:99
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chr1 3904122 . C T 64.01 PASS AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=3.61;MQ=58.92;MQ0=0;OQ=1312.00;QD=16.00;SB=-449.98 GT:AD:DP:GL:GQ 0/1:43,39:81:-158.89,-24.40,-148.69:99
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chr1 3904123 rs7518198 G A 275.18 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=3.77;MQ=58.92;MQ0=0;OQ=1318.95;QD=16.08;SB=-404.76 GT:AD:DP:GL:GQ 0/1:38,44:78:-158.67,-23.50,-132.87:99
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chr1 3904259 rs55651676 C G 11.26 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=3;HaplotypeScore=0.67;MQ=58.80;MQ0=0;OQ=719.49;QD=18.45;SB=-354.47 GT:AD:DP:GL:GQ 0/1:17,22:35:-85.79,-10.56,-59.36:99
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chr1 3904673 rs56300127 T C 189.23 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.07;MQ0=0;OQ=384.21;QD=11.30;SB=-194.60 GT:AD:DP:GL:GQ 0/1:17,17:31:-51.05,-9.34,-58.99:99
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chr1 3905021 rs10915614 A G 3.58 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=4;HaplotypeScore=1.21;MQ=59.48;MQ0=0;OQ=428.89;QD=9.75;SB=-152.44 GT:AD:DP:GL:GQ 0/1:24,19:41:-58.53,-12.36,-93.35:99
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chr1 3905038 . G A 50.50 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.41;MQ0=0;OQ=477.39;QD=12.24;SB=-188.87 GT:AD:DP:GL:GQ 0/1:22,17:37:-62.18,-11.16,-67.50:99
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chr1 3905246 . C T 93.17 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=58.57;MQ0=0;OQ=1011.86;QD=16.32;SB=-440.98 GT:AD:DP:GL:GQ 0/1:30,32:58:-121.96,-17.49,-85.78:99
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chr1 3905920 rs7548668 T C 26.57 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=6.64;MQ=59.57;MQ0=0;OQ=666.76;QD=12.35;SB=-179.62 GT:AD:DP:GL:GQ 0/1:27,27:46:-83.82,-13.86,-87.80:99
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chr1 3906227 rs9793287 T C 337.13 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.61;MQ0=0;OQ=444.12;QD=9.25;SB=-215.36 GT:AD:DP:GL:GQ 0/1:27,21:46:-61.57,-13.87,-101.57:99
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chr1 3906248 rs12562706 C A 152.11 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=59.59;MQ0=0;OQ=415.45;QD=9.23;SB=-231.91 GT:AD:DP:GL:GQ 0/1:25,20:41:-57.18,-12.35,-86.80:99
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chr1 3906531 rs7526903 G A 280.93 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.63;MQ0=0;OQ=909.30;QD=17.83;SB=-442.97 GT:AD:DP:GL:GQ 0/1:23,27:47:-108.38,-14.16,-65.40:99
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chr1 3906648 rs7551771 C T 37.89 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=2.80;MQ=60.06;MQ0=0;OQ=776.93;QD=15.54;SB=-354.36 GT:AD:DP:GL:GQ 0/1:26,24:48:-95.43,-14.46,-92.96:99
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chr1 3906868 rs7519349 A G 578.45 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=764.11;QD=13.64;SB=-362.95 GT:AD:DP:GL:GQ 0/1:26,30:56:-96.58,-16.88,-105.57:99
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chr1 3906970 rs7519458 A G 232.59 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.80;MQ=60.00;MQ0=0;OQ=762.22;QD=13.14;SB=-199.60 GT:AD:DP:GL:GQ 0/1:26,31:57:-96.69,-17.19,-106.25:99
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chr1 3907888 rs10799162 T C 190.81 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=58.79;MQ0=0;OQ=719.58;QD=13.33;SB=-230.44 GT:AD:DP:GL:GQ 0/1:27,27:53:-91.22,-15.97,-102.46:99
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chr1 3907889 rs10799163 G T 86.43 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.13;MQ=58.79;MQ0=0;OQ=758.50;QD=14.05;SB=-193.54 GT:AD:DP:GL:GQ 0/1:27,26:51:-94.50,-15.37,-86.70:99
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chr1 3907912 rs10915345 G A 203.29 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.26;MQ=59.62;MQ0=0;OQ=1037.45;QD=17.01;SB=-258.26 GT:AD:DP:GL:GQ 0/1:29,32:57:-124.21,-17.18,-83.11:99
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chr1 3909896 rs6683165 G A 201.77 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.49;MQ=59.62;MQ0=0;OQ=837.44;QD=12.88;SB=-252.13 GT:AD:DP:GL:GQ 0/1:38,27:62:-105.71,-18.68,-120.77:99
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chr1 3910104 rs10799194 C T 90.26 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=1.69;MQ=60.00;MQ0=0;OQ=794.06;QD=13.23;SB=-418.44 GT:AD:DP:GL:GQ 0/1:34,26:57:-99.88,-17.19,-98.75:99
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chr1 3919557 rs9426474 A G 111.97 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.97;MQ0=0;OQ=1753.83;QD=29.73;SB=-828.62 GT:AD:DP:GL:GQ 1/1:0,59:55:-179.01,-16.59,-0.05:99
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chr1 3922104 rs9426475 T C 209.50 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=54.82;MQ0=0;OQ=1570.14;QD=28.55;SB=-720.64 GT:AD:DP:GL:GQ 1/1:0,55:50:-160.65,-15.09,-0.06:99
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chr1 3922325 rs10915469 T C 562.16 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1863.57;QD=28.24;SB=-798.65 GT:AD:DP:GL:GQ 1/1:0,66:58:-189.99,-17.49,-0.05:99
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chr1 3922572 rs7540846 C T 41.15 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=2;HaplotypeScore=0.57;MQ=53.34;MQ0=0;OQ=2905.34;QD=34.59;SB=-1359.03 GT:AD:DP:GL:GQ 1/1:0,81:75:-294.15,-22.60,-0.03:99
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chr1 3922839 rs7516192 G C 540.09 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.04;MQ0=0;OQ=2588.44;QD=42.43;SB=-1244.89 GT:AD:DP:GL:GQ 1/1:0,61:60:-262.44,-18.08,-0.02:99
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chr1 3922855 rs9426476 A G 185.57 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.74;MQ=58.63;MQ0=0;OQ=2064.09;QD=34.40;SB=-842.35 GT:AD:DP:GL:GQ 1/1:0,60:58:-210.01,-17.47,-0.02:99
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chr1 3922974 rs7541241 C A 552.27 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.64;MQ0=0;OQ=1520.98;QD=33.80;SB=-673.30 GT:AD:DP:GL:GQ 1/1:0,45:44:-155.71,-13.26,-0.03:99
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chr1 3923246 rs9426498 T C 9.78 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=52.33;MQ0=0;OQ=1450.84;QD=25.91;SB=-720.70 GT:AD:DP:GL:GQ 1/1:0,56:46:-148.71,-13.88,-0.05:99
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chr1 3923458 rs9426499 A C 507.51 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1349.47;QD=30.67;SB=-364.89 GT:AD:DP:GL:GQ 1/1:0,44:42:-138.57,-12.66,-0.04:99
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chr1 3923596 rs9426477 A G 619.10 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=2188.14;QD=34.73;SB=-945.36 GT:AD:DP:GL:GQ 1/1:0,63:61:-222.42,-18.37,-0.02:99
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chr1 3923941 rs6698811 T C 664.67 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=2773.83;QD=33.83;SB=-1404.50 GT:AD:DP:GL:GQ 1/1:0,82:80:-281.00,-24.10,-0.03:99
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chr1 3936055 rs10753378 T C 376.82 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.51;MQ0=0;OQ=543.43;QD=11.56;SB=-218.27 GT:AD:DP:GL:GQ 0/1:23,24:45:-71.19,-13.57,-90.09:99
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chr1 3938219 . C T 61.19 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.45;MQ=59.60;MQ0=0;OQ=740.10;QD=12.76;SB=-319.83 GT:AD:DP:GL:GQ 0/1:30,28:53:-93.28,-15.99,-88.25:99
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chr1 3940015 rs4654525 C T 311.29 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.10;MQ0=0;OQ=1004.75;QD=15.00;SB=-479.00 GT:AD:DP:GL:GQ 0/1:36,31:66:-123.64,-19.88,-133.78:99
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chr1 3942839 rs60972376 A C 11.72 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=4.30;MQ=58.67;MQ0=0;OQ=585.81;QD=11.96;SB=-197.90 GT:AD:DP:GL:GQ 0/1:20,28:43:-74.82,-12.96,-73.58:99
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chr1 3942909 rs55887893 C T 197.25 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=3.21;MQ=60.00;MQ0=0;OQ=588.30;QD=11.77;SB=-314.85 GT:AD:DP:GL:GQ 0/1:29,21:47:-76.28,-14.17,-92.23:99
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chr1 3944651 rs59118111 G C 246.41 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.29;MQ=60.00;MQ0=0;OQ=1068.67;QD=16.44;SB=-449.44 GT:AD:DP:GL:GQ 0/1:32,33:64:-129.45,-19.30,-140.55:99
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chr1 3945187 rs4654538 G A 29.36 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=4.53;MQ=58.81;MQ0=0;OQ=1094.72;QD=19.90;SB=-430.80 GT:AD:DP:GL:GQ 0/1:23,32:55:-129.32,-16.57,-83.23:99
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chr1 3947137 rs4654543 T C 110.66 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=60.00;MQ0=0;OQ=382.96;QD=9.82;SB=-135.53 GT:AD:DP:GL:GQ 0/1:21,18:38:-53.04,-11.46,-84.39:99
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chr1 3947479 rs10449244 C A 197.72 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=60.00;MQ0=0;OQ=744.81;QD=13.07;SB=-230.89 GT:AD:DP:GL:GQ 0/1:29,28:53:-93.73,-15.97,-94.52:99
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chr1 3948534 rs4654544 A G 534.93 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=551.19;QD=12.53;SB=-251.96 GT:AD:DP:GL:GQ 0/1:21,23:44:-71.67,-13.27,-84.12:99
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chr1 3949636 rs4654436 T C 195.22 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=3.10;MQ=59.16;MQ0=0;OQ=834.97;QD=11.60;SB=-298.88 GT:AD:DP:GL:GQ 0/1:38,34:66:-106.67,-19.89,-140.32:99
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chr1 3949646 rs6426416 A T 32.24 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=3;HaplotypeScore=2.47;MQ=59.20;MQ0=0;OQ=1168.58;QD=15.38;SB=-401.17 GT:AD:DP:GL:GQ 0/1:38,38:72:-141.84,-21.70,-126.75:99
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chr1 3950380 . A G 266.35 PASS AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=1356.42;QD=15.96;SB=-652.62 GT:AD:DP:GL:GQ 0/1:40,45:85:-164.53,-25.60,-164.89:99
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chr1 3950813 rs10737411 A G 175.98 PASS AC=1;AF=0.50;AN=2;DB;DP=108;Dels=0.00;HRun=1;HaplotypeScore=2.09;MQ=59.83;MQ0=0;OQ=1386.28;QD=12.84;SB=-502.53 GT:AD:DP:GL:GQ 0/1:55,53:107:-174.15,-32.24,-226.13:99
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chr1 3951883 rs6657331 G C 1.76 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=2.77;MQ=59.14;MQ0=0;OQ=976.24;QD=22.70;SB=-437.36 GT:AD:DP:GL:GQ 0/1:16,27:40:-112.97,-12.06,-59.28:99
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chr1 3951915 rs12145443 C T 0.21 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=14.98;MQ=58.72;MQ0=0;OQ=829.82;QD=21.84;SB=-313.85 GT:AD:DP:GL:GQ 0/1:13,25:37:-97.41,-11.15,-45.43:99
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chr1 3952816 rs10799236 A G 574.49 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=747.27;QD=14.10;SB=-330.89 GT:AD:DP:GL:GQ 0/1:27,26:52:-93.67,-15.66,-106.05:99
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chr1 3953295 rs12038964 T C 361.41 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.86;MQ0=0;OQ=750.82;QD=12.31;SB=-348.04 GT:AD:DP:GL:GQ 0/1:30,31:60:-96.45,-18.08,-120.40:99
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chr1 3953370 rs12040628 A G 147.24 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=2.81;MQ=59.55;MQ0=0;OQ=749.75;QD=14.70;SB=-277.27 GT:AD:DP:GL:GQ 0/1:21,30:49:-93.03,-14.77,-83.59:99
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chr1 3954832 rs9426500 A C 437.18 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=970.97;QD=16.46;SB=-363.09 GT:AD:DP:GL:GQ 0/1:25,34:59:-118.15,-17.77,-92.14:99
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chr1 3955140 rs7413013 G C 5.69 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.97;MQ=59.17;MQ0=0;OQ=1282.99;QD=22.91;SB=-362.10 GT:AD:DP:GL:GQ 0/1:21,35:56:-148.46,-16.87,-92.34:99
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chr1 3955487 rs9426501 T C 61.29 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=4.29;MQ=58.95;MQ0=0;OQ=1025.38;QD=16.54;SB=-268.62 GT:AD:DP:GL:GQ 0/1:26,36:60:-123.90,-18.08,-97.56:99
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chr1 3956324 rs28609919 G C 274.82 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=59.69;MQ0=0;OQ=890.13;QD=14.84;SB=-464.74 GT:AD:DP:GL:GQ 0/1:33,27:59:-110.08,-17.78,-139.21:99
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chr1 3957249 rs12756251 G A 25.08 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=2;HaplotypeScore=3.32;MQ=59.14;MQ0=0;OQ=1510.62;QD=18.65;SB=-581.41 GT:AD:DP:GL:GQ 0/1:36,45:78:-177.84,-23.50,-121.43:99
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chr1 3957262 rs12733769 T A 184.98 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=3.12;MQ=59.13;MQ0=0;OQ=1410.63;QD=17.63;SB=-590.40 GT:AD:DP:GL:GQ 0/1:34,46:77:-167.55,-23.20,-118.80:99
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chr1 3957348 rs12135298 A G 336.09 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=58.25;MQ0=0;OQ=781.36;QD=12.21;SB=-403.89 GT:AD:DP:GL:GQ 0/1:34,30:63:-100.41,-18.99,-132.61:99
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chr1 3959579 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=7.87;MQ=33.13;MQ0=5;OQ=83.58;QD=1.58;SB=-67.89 GT:AD:DP:GL:GQ 0/1:44,9:38:-23.11,-11.47,-97.21:99
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chr1 3959589 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=1;HaplotypeScore=8.30;MQ=33.13;MQ0=5;OQ=210.60;QD=3.76;SB=-42.01 GT:AD:DP:GL:GQ 0/1:42,14:42:-37.00,-12.66,-114.99:99
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chr1 3959610 rs4654559 T C 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=19.50;MQ=38.33;MQ0=4;OQ=745.10;QD=13.55;SB=-325.28 GT:AD:DP:GL:GQ 0/1:20,35:43:-90.76,-12.97,-56.11:99
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chr1 3959618 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=35.45;MQ=40.78;MQ0=4;OQ=377.28;QD=6.50;SB=-163.72 GT:AD:DP:GL:GQ 0/1:35,17:42:-66.15,-25.14,-90.45:99
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chr1 3959638 rs12137425 A G 6.15 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.13;MQ=49.20;MQ0=1;OQ=205.57;QD=4.28;SB=-109.83 GT:AD:DP:GL:GQ 0/1:33,15:40:-35.90,-12.06,-107.08:99
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chr1 3959766 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=11.71;MQ=40.06;MQ0=2;OQ=205.60;QD=3.54;SB=-53.76 GT:AD:DP:GL:GQ 0/1:44,14:49:-38.61,-14.76,-139.54:99
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chr1 3959787 rs11807610 T C 0.34 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=13.45;MQ=43.41;MQ0=2;OQ=585.11;QD=10.45;SB=-259.35 GT:AD:DP:GL:GQ 0/1:22,34:43:-74.76,-12.96,-79.59:99
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chr1 3959815 rs10915563 A G 47.44 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=13.21;MQ=50.51;MQ0=1;QD=0.72;SB=62.23 GT:AD:DP:GL:GQ 0/1:56,10:52:-23.70,-15.67,-173.58:80.28
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chr1 3959825 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=18.02;MQ=51.36;MQ0=1;OQ=581.75;QD=8.19;SB=-258.36 GT:AD:DP:GL:GQ 0/1:43,28:61:-79.84,-18.38,-149.14:99
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chr1 3959826 . A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=1;HaplotypeScore=9.14;MQ=50.86;MQ0=1;OQ=291.12;QD=3.93;SB=-139.48 GT:AD:DP:GL:GQ 0/1:51,23:56:-49.27,-16.88,-163.75:99
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chr1 3959854 rs10799245 C A 521.83 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.17;MQ0=0;OQ=879.17;QD=14.65;SB=-268.32 GT:AD:DP:GL:GQ 0/1:29,31:55:-107.78,-16.58,-78.49:99
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chr1 3961215 rs6670453 G C 331.68 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=59.13;MQ0=0;OQ=833.59;QD=15.73;SB=-292.89 GT:AD:DP:GL:GQ 0/1:29,24:53:-102.62,-15.98,-127.58:99
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chr1 3961230 rs6672877 G T 118.38 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.94;MQ=59.07;MQ0=0;OQ=633.10;QD=12.66;SB=-213.34 GT:AD:DP:GL:GQ 0/1:27,23:49:-81.35,-14.76,-89.22:99
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chr1 3961237 rs12045715 G A 510.42 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.09;MQ0=0;OQ=793.63;QD=15.56;SB=-285.83 GT:AD:DP:GL:GQ 0/1:26,25:51:-98.03,-15.38,-79.59:99
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chr1 3961468 rs12045781 G A 286.99 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=60.00;MQ0=0;OQ=606.20;QD=13.78;SB=-238.18 GT:AD:DP:GL:GQ 0/1:24,20:42:-76.57,-12.66,-72.65:99
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chr1 3961548 rs10799247 A G 169.43 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.55;MQ=58.33;MQ0=0;OQ=674.03;QD=12.04;SB=-151.92 GT:AD:DP:GL:GQ 0/1:31,24:52:-86.36,-15.67,-108.75:99
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chr1 3962010 rs4654565 G A 105.50 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=336.97;QD=12.96;SB=-103.61 GT:AD:DP:GL:GQ 0/1:14,12:25:-44.52,-7.54,-43.04:99
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chr1 3962589 rs4654447 A G 258.32 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=59.65;MQ0=0;OQ=712.70;QD=13.45;SB=-356.22 GT:AD:DP:GL:GQ 0/1:26,27:50:-89.62,-15.07,-95.62:99
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chr1 3962703 rs4654448 A C 265.60 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=756.85;QD=13.52;SB=-251.86 GT:AD:DP:GL:GQ 0/1:29,27:55:-95.53,-16.56,-103.20:99
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chr1 3962856 rs4654567 T C 95.03 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.58;MQ=59.17;MQ0=0;OQ=415.90;QD=9.24;SB=-159.46 GT:AD:DP:GL:GQ 0/1:25,20:42:-57.53,-12.66,-94.60:99
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chr1 3962899 rs4654449 G A 419.09 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=60.00;MQ0=0;OQ=648.86;QD=14.75;SB=-335.88 GT:AD:DP:GL:GQ 0/1:22,22:42:-80.82,-12.65,-78.42:99
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chr1 3963307 rs7520607 T C 230.94 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.28;MQ=58.42;MQ0=0;OQ=845.59;QD=14.58;SB=-424.34 GT:AD:DP:GL:GQ 0/1:26,32:53:-103.81,-15.97,-95.34:99
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chr1 3963607 rs4654568 T G 463.03 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.07;MQ0=0;OQ=931.94;QD=16.64;SB=-413.80 GT:AD:DP:GL:GQ 0/1:24,32:56:-113.34,-16.87,-88.78:99
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chr1 3963626 rs12027462 C T 248.09 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=57.57;MQ0=0;OQ=963.52;QD=17.21;SB=-429.93 GT:AD:DP:GL:GQ 0/1:26,30:55:-116.20,-16.57,-93.29:99
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chr1 3963784 rs4654451 G A 171.09 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=59.79;MQ0=0;OQ=912.02;QD=16.00;SB=-225.51 GT:AD:DP:GL:GQ 0/1:28,28:53:-110.46,-15.98,-78.09:99
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chr1 3964643 rs6426429 A G 60.66 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=1.27;MQ=59.56;MQ0=0;OQ=582.81;QD=11.00;SB=-285.59 GT:AD:DP:GL:GQ 0/1:28,25:51:-76.94,-15.38,-106.26:99
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chr1 3965132 rs4074993 C G 325.61 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.87;MQ=59.28;MQ0=0;OQ=814.87;QD=14.05;SB=-345.07 GT:AD:DP:GL:GQ 0/1:34,24:55:-101.37,-16.60,-121.74:99
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chr1 3965479 rs4074994 T C 268.09 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=52.28;MQ0=0;OQ=617.78;QD=12.36;SB=-300.36 GT:AD:DP:GL:GQ 0/1:25,25:49:-79.83,-14.77,-98.86:99
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chr1 3965536 rs57323923 T C 0.88 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=4;HaplotypeScore=2.11;MQ=50.55;MQ0=0;OQ=424.15;QD=8.48;SB=-173.38 GT:AD:DP:GL:GQ 0/1:29,21:47:-59.86,-14.17,-115.12:99
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chr1 3965975 . C G 7.70 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=58.67;MQ0=0;OQ=589.92;QD=12.04;SB=-25.38 GT:AD:DP:GL:GQ 0/1:32,17:46:-76.14,-13.87,-119.93:99
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chr1 3965977 . T C 0.69 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=2;HaplotypeScore=1.11;MQ=58.22;MQ0=0;OQ=427.57;QD=8.55;SB=-16.87 GT:AD:DP:GL:GQ 0/1:33,17:49:-60.80,-14.76,-127.29:99
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chr1 3966027 rs7414863 A C 144.45 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.13;MQ0=0;OQ=452.26;QD=9.42;SB=-62.85 GT:AD:DP:GL:GQ 0/1:27,21:45:-62.07,-13.56,-92.65:99
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chr1 3966540 rs3935559 C G 391.87 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.17;MQ0=0;OQ=1031.71;QD=18.42;SB=-312.99 GT:AD:DP:GL:GQ 0/1:24,32:56:-123.36,-16.90,-103.47:99
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chr1 3966816 . G A 1.68 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=5.13;MQ=57.97;MQ0=0;OQ=1415.89;QD=20.52;SB=-484.12 GT:AD:DP:GL:GQ 0/1:24,45:61:-163.26,-18.38,-64.39:99
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chr1 3967294 rs12747294 C T 4.07 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=8.87;MQ=56.15;MQ0=1;OQ=813.80;QD=16.95;SB=-391.14 GT:AD:DP:GL:GQ 0/1:22,26:45:-98.22,-13.56,-71.93:99
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chr1 3967372 rs6702213 C T 194.14 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.65;MQ=34.49;MQ0=0;OQ=718.26;QD=12.17;SB=-239.54 GT:AD:DP:GL:GQ 0/1:33,26:54:-91.39,-16.28,-98.59:99
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chr1 3967404 rs6661264 T C 167.37 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=40.81;MQ0=0;OQ=475.36;QD=8.80;SB=-244.91 GT:AD:DP:GL:GQ 0/1:34,20:52:-66.49,-15.67,-131.05:99
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chr1 3967405 rs6675434 G A 377.49 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=40.63;MQ0=0;OQ=533.67;QD=9.70;SB=-290.77 GT:AD:DP:GL:GQ 0/1:34,21:52:-72.31,-15.66,-122.28:99
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chr1 3967434 rs12747604 C T 38.96 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=46.12;MQ0=0;OQ=331.44;QD=7.71;SB=-108.07 GT:AD:DP:GL:GQ 0/1:29,14:41:-48.79,-12.36,-91.55:99
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chr1 3967444 rs56081307 C A 64.62 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=45.65;MQ0=0;OQ=391.03;QD=8.32;SB=-188.48 GT:AD:DP:GL:GQ 0/1:31,16:44:-55.64,-13.25,-103.38:99
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chr1 3967458 rs6661363 T C 158.21 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=46.22;MQ0=0;OQ=383.22;QD=7.82;SB=-172.51 GT:AD:DP:GL:GQ 0/1:29,19:44:-54.87,-13.26,-104.62:99
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chr1 3967912 rs6675979 G A 278.83 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.51;MQ=58.64;MQ0=0;OQ=1206.49;QD=19.46;SB=-623.12 GT:AD:DP:GL:GQ 0/1:25,37:60:-142.02,-18.08,-76.63:99
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chr1 3968006 rs12731145 A G 28.60 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=5.76;MQ=59.49;MQ0=0;OQ=439.53;QD=9.77;SB=-228.43 GT:AD:DP:GL:GQ 0/1:27,18:43:-60.19,-12.95,-105.51:99
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chr1 3968073 rs6426431 G A 223.15 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=59.56;MQ0=0;OQ=482.88;QD=9.29;SB=-221.45 GT:AD:DP:GL:GQ 0/1:34,18:50:-66.64,-15.07,-119.13:99
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chr1 3968105 rs12744667 G A 365.59 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.57;MQ=59.56;MQ0=0;OQ=827.90;QD=15.62;SB=-433.93 GT:AD:DP:GL:GQ 0/1:27,26:51:-101.44,-15.36,-92.63:99
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chr1 3968106 rs55866108 A G 217.98 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.57;MQ=59.57;MQ0=0;OQ=738.88;QD=13.68;SB=-284.42 GT:AD:DP:GL:GQ 0/1:27,27:53:-93.14,-15.96,-108.96:99
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chr1 3968537 rs12753281 C G 269.93 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.90;MQ0=0;OQ=1244.08;QD=14.99;SB=-559.96 GT:AD:DP:GL:GQ 0/1:45,38:83:-152.72,-25.03,-193.42:99
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chr1 3968581 rs12736036 A G 78.01 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=3.15;MQ=57.56;MQ0=0;OQ=949.82;QD=11.58;SB=-430.05 GT:AD:DP:GL:GQ 0/1:44,38:77:-121.46,-23.19,-177.75:99
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chr1 3968726 rs34940664 G T 190.81 PASS AC=1;AF=0.50;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.33;MQ0=0;OQ=1575.63;QD=16.24;SB=-709.50 GT:AD:DP:GL:GQ 0/1:45,52:96:-189.76,-28.91,-164.22:99
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chr1 3968753 rs35749996 A G 455.09 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=1487.59;QD=17.92;SB=-656.99 GT:AD:DP:GL:GQ 0/1:35,48:83:-177.04,-25.00,-145.40:99
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chr1 3968768 rs12753644 C G 340.70 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.54;MQ0=0;OQ=1876.77;QD=20.85;SB=-779.42 GT:AD:DP:GL:GQ 0/1:40,50:90:-218.08,-27.12,-169.27:99
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chr1 3968858 rs12045134 A C 23.52 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=5.51;MQ=58.42;MQ0=0;OQ=708.96;QD=8.54;SB=-321.59 GT:AD:DP:GL:GQ 0/1:52,31:81:-98.58,-24.40,-189.89:99
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chr1 3968949 rs12047590 G T 243.75 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.77;MQ=59.74;MQ0=0;OQ=980.09;QD=13.61;SB=-395.21 GT:AD:DP:GL:GQ 0/1:39,33:71:-122.68,-21.39,-124.97:99
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chr1 3969008 rs12027284 C T 226.70 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.68;MQ0=0;OQ=1351.13;QD=18.77;SB=-463.00 GT:AD:DP:GL:GQ 0/1:32,40:69:-159.19,-20.80,-95.94:99
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chr1 3969221 rs12045225 A G 0.63 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=9.56;MQ=58.22;MQ0=0;OQ=654.37;QD=13.09;SB=-95.63 GT:AD:DP:GL:GQ 0/1:21,29:44:-81.99,-13.27,-67.60:99
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chr1 3969391 rs12046014 A G 106.22 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.88;MQ=58.95;MQ0=0;OQ=580.96;QD=9.37;SB=-244.16 GT:AD:DP:GL:GQ 0/1:36,26:57:-78.56,-17.18,-134.21:99
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chr1 3969440 rs12044268 T C 521.33 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=58.87;MQ0=0;QD=12.72;SB=-263.94 GT:AD:DP:GL:GQ 0/1:19,21:40:-67.48,-12.06,-76.36:99
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chr1 3969444 rs12048464 G T 535.50 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.71;MQ0=0;QD=14.88;SB=-256.96 GT:AD:DP:GL:GQ 0/1:18,18:36:-67.68,-10.85,-54.15:99
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chr1 3969450 rs34283588 G A 563.46 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.55;MQ0=0;QD=17.61;SB=-257.77 GT:AD:DP:GL:GQ 0/1:15,17:30:-68.67,-9.04,-41.92:99
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chr1 3969504 rs12028147 C A 128.14 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=58.50;MQ0=0;OQ=1173.33;QD=18.92;SB=-401.82 GT:AD:DP:GL:GQ 0/1:25,37:62:-139.29,-18.67,-88.93:99
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chr1 3969731 rs35514116 C A 193.09 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=2.36;MQ=59.11;MQ0=0;OQ=1169.40;QD=14.99;SB=-425.64 GT:AD:DP:GL:GQ 0/1:38,39:78:-146.50,-26.28,-138.29:99
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chr1 3969738 rs35902612 G T 87.34 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=3.60;MQ=59.14;MQ0=0;OQ=1314.22;QD=16.22;SB=-492.89 GT:AD:DP:GL:GQ 0/1:38,43:80:-158.80,-24.09,-135.14:99
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chr1 3969835 rs34306433 G C 322.67 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=60.00;MQ0=0;OQ=1225.99;QD=18.03;SB=-578.33 GT:AD:DP:GL:GQ 0/1:31,36:68:-148.71,-22.83,-138.52:99
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chr1 3970192 rs34458454 T C 115.71 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=60.00;MQ0=0;OQ=393.81;QD=8.04;SB=-222.38 GT:AD:DP:GL:GQ 0/1:28,21:43:-55.63,-12.97,-98.60:99
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chr1 3970255 rs34994381 G A 356.92 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=1045.77;QD=16.09;SB=-475.47 GT:AD:DP:GL:GQ 0/1:34,31:61:-126.25,-18.39,-98.09:99
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chr1 3970431 rs35579324 A T 318.12 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.56;MQ0=0;OQ=768.67;QD=14.78;SB=-345.07 GT:AD:DP:GL:GQ 0/1:26,26:52:-95.82,-15.67,-98.48:99
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chr1 3970448 rs35474759 C T 457.86 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=955.78;QD=18.03;SB=-501.52 GT:AD:DP:GL:GQ 0/1:25,28:52:-114.52,-15.66,-86.38:99
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chr1 3970842 rs12049555 G A 157.06 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=59.39;MQ0=0;OQ=384.99;QD=10.13;SB=-163.62 GT:AD:DP:GL:GQ 0/1:23,15:35:-52.33,-10.55,-71.59:99
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chr1 3970912 rs6664533 C T 146.77 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=3.51;MQ=58.67;MQ0=0;OQ=505.76;QD=14.45;SB=-247.75 GT:AD:DP:GL:GQ 0/1:19,16:34:-64.11,-10.25,-57.21:99
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chr1 3971010 rs6664655 C G 360.39 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.39;MQ=59.06;MQ0=0;OQ=1105.77;QD=14.94;SB=-455.72 GT:AD:DP:GL:GQ 0/1:42,32:74:-136.16,-22.30,-181.19:99
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chr1 3971024 rs6686502 G A 241.40 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=59.09;MQ0=0;OQ=1058.60;QD=13.93;SB=-346.09 GT:AD:DP:GL:GQ 0/1:42,34:75:-131.76,-22.62,-128.76:99
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chr1 3971052 rs6672264 T C 278.60 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.20;MQ0=0;OQ=887.02;QD=10.95;SB=-268.12 GT:AD:DP:GL:GQ 0/1:49,32:80:-116.09,-24.10,-192.61:99
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chr1 3971195 rs6686709 G C 441.55 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=533.40;QD=11.85;SB=-281.29 GT:AD:DP:GL:GQ 0/1:29,16:42:-69.28,-12.66,-112.85:99
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chr1 3971259 rs6680847 A G 343.35 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=805.68;QD=13.21;SB=-291.63 GT:AD:DP:GL:GQ 0/1:33,28:60:-101.92,-18.07,-129.04:99
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chr1 3971430 rs6675053 T C 59.44 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=57.14;MQ0=0;OQ=478.62;QD=6.74;SB=-133.24 GT:AD:DP:GL:GQ 0/1:48,23:70:-72.24,-21.10,-194.61:99
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chr1 3971753 . C A 69.39 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=12;HaplotypeScore=26.59;MQ=52.60;MQ0=0;QD=1.16;SB=62.22 GT:AD:DP:GL:GQ 0/1:50,10:49:-24.98,-14.76,-146.09:99
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chr1 3971766 rs12030209 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=12;HaplotypeScore=17.56;MQ=52.68;MQ0=0;OQ=817.96;QD=12.39;SB=-315.05 GT:AD:DP:GL:GQ 0/1:32,34:60:-103.15,-18.07,-109.51:99
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chr1 3972069 rs55798869 G T 4.80 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=3;HaplotypeScore=5.71;MQ=56.04;MQ0=0;OQ=802.09;QD=13.37;SB=-418.83 GT:AD:DP:GL:GQ 0/1:32,28:52:-99.17,-15.67,-74.15:99
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chr1 3972136 rs55745368 T C 189.98 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=3.37;MQ=59.03;MQ0=0;OQ=1099.26;QD=12.08;SB=-445.57 GT:AD:DP:GL:GQ 0/1:52,39:91:-140.63,-27.42,-210.68:99
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chr1 3972189 rs7414301 T C 60.16 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=5.42;MQ=59.51;MQ0=0;OQ=1011.76;QD=11.76;SB=-466.68 GT:AD:DP:GL:GQ 0/1:46,40:86:-130.38,-25.92,-186.30:99
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chr1 3972623 . A C 192.74 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.77;MQ0=0;OQ=1230.69;QD=15.38;SB=-527.79 GT:AD:DP:GL:GQ 0/1:36,44:79:-150.15,-23.80,-134.39:99
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chr1 3972753 rs10915589 G A 130.98 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=59.30;MQ0=0;OQ=1165.16;QD=17.65;SB=-331.36 GT:AD:DP:GL:GQ 0/1:30,36:63:-138.78,-18.98,-103.29:99
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chr1 3972924 rs12023372 G C 321.94 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.20;MQ0=0;OQ=1325.91;QD=18.94;SB=-613.61 GT:AD:DP:GL:GQ 0/1:33,37:69:-156.66,-20.79,-145.10:99
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chr1 3973210 rs12023479 G A 281.53 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=59.70;MQ0=0;OQ=1046.55;QD=13.59;SB=-512.32 GT:AD:DP:GL:GQ 0/1:44,33:77:-131.15,-23.21,-144.02:99
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chr1 3973292 . A G 33.55 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=55.10;MQ0=0;OQ=633.05;QD=11.94;SB=-175.56 GT:AD:DP:GL:GQ 0/1:28,25:47:-80.75,-14.16,-95.41:99
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chr1 3973506 . G A 176.17 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.46;MQ0=0;OQ=876.83;QD=12.71;SB=-380.14 GT:AD:DP:GL:GQ 0/1:42,27:67:-111.16,-20.19,-131.21:99
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chr1 3973875 rs4654459 T A 52.35 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=2.73;MQ=58.55;MQ0=0;OQ=1176.09;QD=14.70;SB=-563.67 GT:AD:DP:GL:GQ 0/1:41,39:78:-144.39,-23.49,-149.95:99
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chr1 3973955 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=17;HaplotypeScore=22.03;MQ=54.06;MQ0=0;OQ=55.47;QD=1.03;SB=65.23 GT:AD:DP:GL:GQ 0/1:43,10:44:-22.08,-13.25,-133.74:88.31
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chr1 3974003 . A G 105.47 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.51;MQ0=0;OQ=461.72;QD=11.26;SB=-234.29 GT:AD:DP:GL:GQ 0/1:22,19:40:-61.51,-12.06,-83.11:99
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chr1 3974203 . T G 66.57 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=57.62;MQ0=0;OQ=954.85;QD=13.84;SB=-428.75 GT:AD:DP:GL:GQ 0/1:35,34:68:-119.25,-20.48,-128.89:99
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chr1 3974239 rs35998568 G A 463.07 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.48;MQ0=0;OQ=1184.56;QD=17.95;SB=-510.14 GT:AD:DP:GL:GQ 0/1:31,35:66:-141.63,-19.89,-102.39:99
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chr1 3974376 rs57696600 C T 6.14 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=4;HaplotypeScore=1.87;MQ=59.16;MQ0=0;OQ=1418.07;QD=19.70;SB=-722.06 GT:AD:DP:GL:GQ 0/1:30,42:71:-166.49,-21.40,-92.47:99
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chr1 3974614 rs4457544 A T 403.15 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=1649.20;QD=19.18;SB=-732.91 GT:AD:DP:GL:GQ 0/1:34,52:86:-194.11,-25.90,-133.63:99
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chr1 3974846 rs12025374 G A 466.59 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.31;MQ0=0;OQ=1051.59;QD=16.43;SB=-403.40 GT:AD:DP:GL:GQ 0/1:31,33:63:-127.44,-18.99,-100.16:99
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chr1 3975091 rs12049502 T C 199.42 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=58.55;MQ0=0;OQ=805.28;QD=16.78;SB=-288.47 GT:AD:DP:GL:GQ 0/1:19,29:47:-97.97,-14.16,-75.75:99
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chr1 3975721 rs34928897 A G 109.87 PASS AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=2.98;MQ=59.19;MQ0=1;OQ=1038.58;QD=10.93;SB=-532.63 GT:AD:DP:GL:GQ 0/1:53,42:94:-135.47,-28.33,-210.33:99
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chr1 3975829 rs12060834 A C 406.62 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=1062.88;QD=14.56;SB=-251.81 GT:AD:DP:GL:GQ 0/1:37,36:73:-131.56,-21.98,-139.84:99
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chr1 3975904 rs12026411 G T 347.07 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=57.00;MQ0=0;OQ=1228.86;QD=14.99;SB=-454.51 GT:AD:DP:GL:GQ 0/1:42,40:82:-150.86,-24.69,-151.44:99
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chr1 3976117 rs12034312 C T 244.48 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=60.00;MQ0=0;OQ=1562.01;QD=18.38;SB=-442.95 GT:AD:DP:GL:GQ 0/1:40,45:84:-184.80,-25.32,-123.96:99
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chr1 3976389 rs35297022 T C 334.71 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=962.55;QD=13.95;SB=-357.60 GT:AD:DP:GL:GQ 0/1:35,34:68:-120.03,-20.49,-141.31:99
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chr1 3976394 rs35043594 A T 325.11 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=916.45;QD=13.68;SB=-308.03 GT:AD:DP:GL:GQ 0/1:36,31:67:-115.11,-20.18,-137.00:99
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chr1 3976477 rs4641284 A G 171.33 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=58.95;MQ0=0;OQ=487.70;QD=11.08;SB=-180.60 GT:AD:DP:GL:GQ 0/1:26,18:42:-64.71,-12.65,-94.45:99
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chr1 3976506 rs34448752 C T 57.24 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=2.60;MQ=56.85;MQ0=0;OQ=445.94;QD=14.86;SB=-105.62 GT:AD:DP:GL:GQ 0/1:16,14:29:-56.62,-8.74,-46.04:99
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chr1 3976567 . C T 0.32 PASS AC=1;AF=0.50;AN=2;DP=12;Dels=0.00;HRun=0;HaplotypeScore=1.54;MQ=51.77;MQ0=0;OQ=226.37;QD=18.86;SB=-10.00 GT:AD:DP:GL:GQ 0/1:3,9:11:-29.24,-3.32,-8.40:50.74
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chr1 3976658 rs35326871 G T 11.99 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.52;MQ0=0;OQ=1096.88;QD=17.41;SB=-10.00 GT:AD:DP:GL:GQ 0/1:25,38:62:-131.64,-18.67,-93.14:99
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chr1 3977151 rs10915596 T G 1.14 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=3.48;MQ=59.09;MQ0=0;OQ=756.41;QD=14.83;SB=-45.56 GT:AD:DP:GL:GQ 0/1:22,29:48:-93.38,-14.46,-82.79:99
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chr1 3977453 rs4654599 G T 361.03 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.46;MQ0=0;OQ=1289.21;QD=16.74;SB=-567.82 GT:AD:DP:GL:GQ 0/1:35,42:77:-155.40,-23.19,-125.68:99
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chr1 3977541 rs4654600 T C 61.36 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=3.43;MQ=59.43;MQ0=0;OQ=838.26;QD=17.11;SB=-388.65 GT:AD:DP:GL:GQ 0/1:18,30:47:-103.58,-16.47,-75.42:99
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chr1 3977567 rs4654601 G A 272.32 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.55;MQ0=0;OQ=1148.82;QD=18.83;SB=-426.81 GT:AD:DP:GL:GQ 0/1:26,35:60:-136.24,-18.08,-87.47:99
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chr1 3977950 rs4654604 T C 322.32 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.77;MQ=59.65;MQ0=0;OQ=975.26;QD=14.78;SB=-339.18 GT:AD:DP:GL:GQ 0/1:28,38:65:-120.40,-19.59,-110.65:99
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chr1 3978231 rs4129099 T C 330.29 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=60.00;MQ0=0;OQ=733.04;QD=11.64;SB=-345.90 GT:AD:DP:GL:GQ 0/1:32,31:62:-95.28,-18.69,-130.06:99
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chr1 3978308 rs4129100 G A 317.73 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.48;MQ0=0;OQ=1482.59;QD=16.85;SB=-689.02 GT:AD:DP:GL:GQ 0/1:42,46:86:-177.46,-25.92,-132.95:99
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chr1 3980624 rs4323679 C T 566.66 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=703.77;QD=12.13;SB=-349.85 GT:AD:DP:GL:GQ 0/1:35,23:57:-90.85,-17.19,-108.01:99
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chr1 3980746 rs35182639 G A 123.92 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=4.13;MQ=59.70;MQ0=0;OQ=1453.16;QD=18.63;SB=-621.68 GT:AD:DP:GL:GQ 0/1:35,43:76:-171.51,-22.91,-105.10:99
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chr1 3980982 rs12747944 G A 386.78 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=60.00;MQ0=0;OQ=715.67;QD=12.56;SB=-369.37 GT:AD:DP:GL:GQ 0/1:32,24:53:-90.82,-15.97,-105.07:99
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chr1 3981385 rs17404600 C T 307.96 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.06;MQ=59.56;MQ0=0;OQ=909.30;QD=17.16;SB=-459.01 GT:AD:DP:GL:GQ 0/1:26,27:49:-108.98,-14.77,-70.07:99
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chr1 3981945 . G C 7.35 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=2;HaplotypeScore=2.62;MQ=59.25;MQ0=0;OQ=783.42;QD=13.99;SB=-334.02 GT:AD:DP:GL:GQ 0/1:33,23:54:-97.92,-16.29,-122.30:99
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chr1 3981947 rs10799260 C T 127.54 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=2.62;MQ=59.25;MQ0=0;OQ=721.41;QD=12.88;SB=-288.75 GT:AD:DP:GL:GQ 0/1:33,23:55:-91.99,-16.57,-116.30:99
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chr1 3982051 rs10753384 A G 287.89 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.81;MQ=59.62;MQ0=0;OQ=891.61;QD=14.62;SB=-286.59 GT:AD:DP:GL:GQ 0/1:30,31:60:-110.52,-18.08,-117.65:99
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chr1 3982227 rs10799261 T C 592.68 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=920.95;QD=13.35;SB=-433.27 GT:AD:DP:GL:GQ 0/1:35,34:67:-115.56,-20.18,-140.96:99
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chr1 3982891 rs12023925 T C 257.35 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=59.13;MQ0=0;OQ=486.42;QD=9.18;SB=-229.40 GT:AD:DP:GL:GQ 0/1:30,23:50:-67.00,-15.07,-113.54:99
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chr1 3984164 rs7418256 T G 46.90 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=4;HaplotypeScore=1.00;MQ=59.72;MQ0=0;OQ=1495.13;QD=18.23;SB=-531.78 GT:AD:DP:GL:GQ 0/1:33,49:80:-176.89,-24.10,-113.02:99
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chr1 3984958 rs6426436 A G 575.34 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=842.05;QD=12.95;SB=-332.89 GT:AD:DP:GL:GQ 0/1:35,30:64:-106.77,-19.28,-141.35:99
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chr1 3985143 rs5015188 T C 159.92 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=12.99;MQ=58.62;MQ0=0;QD=2.25;SB=-60.43 GT:AD:DP:GL:GQ 0/1:60,11:70:-40.36,-21.09,-240.05:99
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chr1 3985147 rs5015187 T C 314.93 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=67.96;MQ=58.31;MQ0=0;QD=4.37;SB=-165.46 GT:AD:DP:GL:GQ 0/1:57,15:70:-55.86,-21.08,-223.89:99
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chr1 3985151 rs5015186 T C 601.51 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.01;HRun=1;HaplotypeScore=11.99;MQ=58.34;MQ0=0;QD=8.24;SB=-304.19 GT:AD:DP:GL:GQ 0/1:49,23:71:-84.52,-21.09,-190.22:99
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chr1 3985364 rs4233266 A G 350.55 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=58.47;MQ0=0;OQ=817.82;QD=10.76;SB=-299.84 GT:AD:DP:GL:GQ 0/1:41,35:71:-106.46,-21.39,-162.85:99
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chr1 3985761 rs4654611 G C 378.30 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=59.78;MQ0=0;OQ=1274.73;QD=15.36;SB=-534.37 GT:AD:DP:GL:GQ 0/1:45,38:78:-154.27,-23.51,-187.35:99
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chr1 3985811 rs4654612 C T 99.80 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=4.68;MQ=59.17;MQ0=0;OQ=618.20;QD=11.04;SB=-273.28 GT:AD:DP:GL:GQ 0/1:30,25:47:-79.28,-14.18,-83.87:99
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chr1 3988267 rs3829818 C G 50.86 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.32;MQ0=0;OQ=1075.32;QD=19.55;SB=-391.87 GT:AD:DP:GL:GQ 0/1:26,29:54:-127.10,-16.29,-99.01:99
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chr1 3988626 rs34649702 A C 437.42 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=920.32;QD=18.41;SB=-485.28 GT:AD:DP:GL:GQ 0/1:20,30:49:-110.07,-14.76,-69.08:99
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chr1 3988704 rs55889146 T A 313.04 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=59.71;MQ0=0;OQ=1088.43;QD=16.75;SB=-492.44 GT:AD:DP:GL:GQ 0/1:29,36:65:-131.71,-19.58,-109.61:99
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chr1 3989745 rs35412083 G A 332.59 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.92;MQ0=0;OQ=1097.15;QD=11.93;SB=-405.76 GT:AD:DP:GL:GQ 0/1:55,36:89:-139.82,-26.82,-176.39:99
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chr1 3990405 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=94;Dels=0.03;HRun=18;HaplotypeScore=33.42;MQ=54.32;MQ0=1;OQ=80.49;QD=0.86;SB=90.81 GT:AD:DP:GL:GQ 0/1:76,15:73:-32.44,-21.10,-200.50:99
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chr1 3990446 rs34385055 G A 276.71 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.80;MQ=58.88;MQ0=0;OQ=865.10;QD=15.73;SB=-440.45 GT:AD:DP:GL:GQ 0/1:26,29:49:-104.56,-14.77,-74.37:99
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chr1 3990572 rs10915650 T C 322.59 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=53.91;MQ0=0;OQ=802.60;QD=15.43;SB=-363.11 GT:AD:DP:GL:GQ 0/1:19,33:50:-98.61,-15.07,-76.41:99
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chr1 3990932 rs4654614 C T 267.85 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=1697.75;QD=19.97;SB=-727.98 GT:AD:DP:GL:GQ 0/1:36,49:85:-198.66,-25.60,-134.20:99
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chr1 3991939 . G T 133.26 Indel AC=1;AF=0.50;AN=2;DP=31;Dels=0.03;HRun=0;HaplotypeScore=37.12;MQ=55.25;MQ0=0;QD=4.30;SB=-33.93 GT:AD:DP:GL:GQ 0/1:22,8:23:-23.24,-6.63,-47.74:99
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chr1 3992866 rs34160796 A G 334.90 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.66;MQ0=0;OQ=483.28;QD=9.29;SB=-177.56 GT:AD:DP:GL:GQ 0/1:33,19:51:-66.97,-15.36,-129.46:99
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chr1 3993123 rs10915661 A G 223.41 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=1.93;MQ=58.90;MQ0=0;OQ=752.89;QD=12.76;SB=-356.58 GT:AD:DP:GL:GQ 0/1:32,27:57:-95.74,-17.17,-122.04:99
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chr1 3993398 rs10799273 A G 39.64 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=2;HaplotypeScore=1.05;MQ=58.69;MQ0=0;OQ=432.60;QD=13.52;SB=-183.96 GT:AD:DP:GL:GQ 0/1:16,16:30:-55.58,-9.04,-60.72:99
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chr1 3993415 rs55877711 T C 152.20 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=1.59;MQ=59.43;MQ0=0;OQ=474.94;QD=14.39;SB=-232.31 GT:AD:DP:GL:GQ 0/1:16,17:31:-60.12,-9.34,-57.39:99
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chr1 3993656 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=16;HaplotypeScore=11.17;MQ=56.96;MQ0=0;OQ=77.46;QD=1.25;SB=65.19 GT:AD:DP:GL:GQ 0/1:50,11:45:-24.60,-13.57,-123.37:99
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chr1 3994923 rs4654469 G A 168.23 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.96;MQ=59.68;MQ0=0;OQ=1491.96;QD=20.44;SB=-717.78 GT:AD:DP:GL:GQ 0/1:30,43:72:-174.18,-21.70,-94.37:99
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chr1 3995705 rs34085171 T G 1347.57 Indel AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=60.38;MQ0=0;QD=15.85;SB=-684.75 GT:AD:DP:GL:GQ 0/1:40,45:84:-163.34,-25.30,-143.02:99
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chr1 3997814 . A G 166.71 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.77;MQ0=0;OQ=1047.22;QD=13.09;SB=-493.22 GT:AD:DP:GL:GQ 0/1:44,36:80:-132.11,-24.10,-175.80:99
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chr1 3999521 rs7533488 A C 424.91 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=59.32;MQ0=0;OQ=1161.71;QD=14.17;SB=-423.73 GT:AD:DP:GL:GQ 0/1:41,40:80:-143.55,-24.09,-150.24:99
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chr1 4000164 rs10753345 T C 207.13 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=3.46;MQ=54.60;MQ0=3;OQ=972.02;QD=12.62;SB=-388.88 GT:AD:DP:GL:GQ 0/1:39,38:72:-122.18,-21.70,-141.20:99
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chr1 4000350 rs10915304 A G 90.68 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=1.40;MQ=49.42;MQ0=0;OQ=302.07;QD=8.39;SB=-112.62 GT:AD:DP:GL:GQ 0/1:20,15:32:-43.14,-9.65,-72.05:99
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chr1 4001557 rs35079847 T C 179.63 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=42.74;MQ0=4;OQ=737.26;QD=10.24;SB=-356.16 GT:AD:DP:GL:GQ 0/1:43,29:67:-97.19,-20.18,-162.42:99
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chr1 4002410 rs9792845 T A 39.80 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=2;HaplotypeScore=2.16;MQ=49.63;MQ0=6;OQ=1137.13;QD=12.92;SB=-561.60 GT:AD:DP:GL:GQ 0/1:48,40:80:-141.09,-24.09,-168.17:99
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chr1 4002600 . C T 9.93 PASS AC=1;AF=0.50;AN=2;DP=126;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=34.65;MQ0=18;OQ=1297.58;QD=10.30;SB=-536.53 GT:AD:DP:GL:GQ 0/1:72,54:87:-159.25,-26.21,-171.14:99
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chr1 4003027 rs7539155 C T 270.27 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=49.52;MQ0=2;OQ=1241.45;QD=15.71;SB=-511.02 GT:AD:DP:GL:GQ 0/1:40,39:77:-150.62,-23.19,-144.23:99
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chr1 4003660 rs34911143 C G 406.63 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=1137.88;QD=19.96;SB=-593.22 GT:AD:DP:GL:GQ 0/1:26,31:56:-133.94,-16.87,-107.70:99
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chr1 4003790 . T C 0.57 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=5.22;MQ=56.08;MQ0=0;OQ=469.98;QD=8.55;SB=-182.54 GT:AD:DP:GL:GQ 0/1:35,20:52:-65.94,-15.66,-138.69:99
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chr1 4003932 rs60522686 C T 104.95 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=60.00;MQ0=0;OQ=1130.00;QD=21.32;SB=-533.08 GT:AD:DP:GL:GQ 0/1:20,33:53:-132.25,-15.97,-67.95:99
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chr1 4004106 rs12036981 T A 126.81 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=56.22;MQ0=2;OQ=519.83;QD=10.19;SB=-138.13 GT:AD:DP:GL:GQ 0/1:29,21:47:-69.43,-14.17,-100.44:99
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chr1 4004617 rs12036953 A G 190.96 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.43;MQ0=0;OQ=561.78;QD=8.64;SB=-245.46 GT:AD:DP:GL:GQ 0/1:41,24:63:-78.44,-18.98,-164.76:99
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chr1 4005149 rs5018354 G T 769.64 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=5;HaplotypeScore=8.12;MQ=53.93;MQ0=0;QD=10.84;SB=-410.03 GT:AD:DP:GL:GQ 0/1:41,30:69:-101.03,-20.78,-142.34:99
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chr1 4005155 . A T 709.63 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=5;HaplotypeScore=11.69;MQ=54.09;MQ0=0;QD=10.28;SB=-304.00 GT:AD:DP:GL:GQ 0/1:43,26:65:-93.83,-19.58,-142.00:99
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chr1 4005156 . A T 576.66 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=13.11;MQ=54.00;MQ0=0;QD=8.48;SB=-291.97 GT:AD:DP:GL:GQ 0/1:44,24:63:-79.93,-18.98,-151.00:99
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chr1 4005449 rs34905442 A G 30.08 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=5.92;MQ=57.79;MQ0=0;OQ=842.19;QD=15.89;SB=-428.92 GT:AD:DP:GL:GQ 0/1:23,30:52:-103.18,-15.68,-83.89:99
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chr1 4010416 rs55645535 A G 3.25 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=3;HaplotypeScore=0.83;MQ=58.64;MQ0=0;OQ=504.55;QD=16.28;SB=-163.34 GT:AD:DP:GL:GQ 0/1:10,21:29:-62.49,-8.75,-36.79:99
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chr1 4012539 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=20;HaplotypeScore=3.78;MQ=46.27;MQ0=3;OQ=496.42;QD=5.23;SB=131.33 GT:AD:DP:GL:GQ 0/1:70,25:77:-76.14,-23.22,-185.60:99
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chr1 4012545 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=7;HaplotypeScore=6.81;MQ=48.30;MQ0=1;OQ=296.48;QD=3.12;SB=125.35 GT:AD:DP:GL:GQ 0/1:68,26:74:-55.23,-22.30,-199.64:99
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chr1 4015436 rs10799171 T C 582.11 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=1395.24;QD=29.69;SB=-603.59 GT:AD:DP:GL:GQ 1/1:0,47:45:-143.16,-13.58,-0.05:99
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chr1 4015788 rs6426377 G C 79.87 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=58.24;MQ0=0;OQ=2118.03;QD=39.96;SB=-1018.28 GT:AD:DP:GL:GQ 1/1:0,53:49:-215.40,-14.76,-0.01:99
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chr1 4016464 rs3856168 T C 206.69 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=58.60;MQ0=0;OQ=1420.67;QD=28.41;SB=-682.89 GT:AD:DP:GL:GQ 1/1:0,50:45:-145.69,-13.57,-0.04:99
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chr1 4017003 rs4654403 T C 46.24 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.69;MQ=59.61;MQ0=0;OQ=1716.77;QD=29.10;SB=-823.60 GT:AD:DP:GL:GQ 1/1:0,59:55:-175.31,-16.59,-0.05:99
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chr1 4017098 rs4654404 C T 8.35 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=4.56;MQ=58.64;MQ0=0;OQ=1853.34;QD=38.61;SB=-777.68 GT:AD:DP:GL:GQ 1/1:0,48:47:-188.93,-14.16,-0.01:99
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chr1 4018431 rs4654475 T C 39.68 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=59.54;MQ0=0;OQ=1443.50;QD=28.87;SB=-682.71 GT:AD:DP:GL:GQ 1/1:0,50:46:-147.99,-13.88,-0.05:99
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chr1 4018760 rs7419106 C G 402.81 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=1082.64;QD=34.92;SB=-389.10 GT:AD:DP:GL:GQ 1/1:0,31:28:-111.87,-8.45,-0.02:84.27
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chr1 4018847 rs10799175 T C 20.86 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=4.16;MQ=58.50;MQ0=0;OQ=814.89;QD=26.29;SB=-376.57 GT:AD:DP:GL:GQ 1/1:1,29:28:-88.39,-10.61,-3.32:72.94
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chr1 4019483 rs10799177 G A 473.58 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.36;MQ0=0;OQ=1615.08;QD=33.65;SB=-313.91 GT:AD:DP:GL:GQ 1/1:0,48:42:-165.11,-12.66,-0.02:99
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chr1 4019522 rs9792946 G A 281.35 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=54.50;MQ0=0;OQ=2603.69;QD=38.29;SB=-1110.00 GT:AD:DP:GL:GQ 1/1:0,68:66:-263.98,-19.89,-0.02:99
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chr1 4019590 rs7418034 G A 135.96 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=43.49;MQ0=0;OQ=1841.94;QD=30.70;SB=-845.46 GT:AD:DP:GL:GQ 1/1:0,59:50:-190.21,-17.45,-2.43:99
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chr1 4019593 rs7412152 A C 123.30 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=42.41;MQ0=0;OQ=1763.32;QD=29.89;SB=-853.08 GT:AD:DP:GL:GQ 1/1:0,59:51:-179.93,-15.36,-0.02:99
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chr1 4019614 rs7411249 C G 15.77 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=3.88;MQ=36.55;MQ0=1;OQ=1713.38;QD=32.33;SB=-801.51 GT:AD:DP:GL:GQ 1/1:0,53:41:-174.94,-12.36,-0.02:99
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chr1 4019841 rs7412217 A G 301.34 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=36.34;MQ0=0;OQ=1308.64;QD=29.08;SB=-633.25 GT:AD:DP:GL:GQ 1/1:0,45:37:-134.46,-11.14,-0.01:99
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chr1 4019863 rs4310408 A G 15.48 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=44.42;MQ0=0;OQ=1396.45;QD=30.36;SB=-620.23 GT:AD:DP:GL:GQ 1/1:0,46:40:-143.25,-12.05,-0.02:99
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chr1 4019987 rs10737398 C T 456.73 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.86;MQ0=6;OQ=1422.85;QD=30.93;SB=-467.35 GT:AD:DP:GL:GQ 1/1:0,46:37:-145.88,-11.15,-0.01:99
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chr1 4020055 rs7411353 C A 1052.58 Indel;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=9;HaplotypeScore=6.69;MQ=42.23;MQ0=1;QD=22.40;SB=-302.56 GT:AD:DP:GL:GQ 1/1:0,47:31:-108.85,-9.34,-0.01:93.27
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chr1 4020059 . T A 16.07 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=4;HaplotypeScore=6.64;MQ=40.62;MQ0=1;QD=0.41;SB=14.07 GT:AD:DP:GL:GQ 0/1:27,12:17:-10.01,-5.13,-48.93:48.79
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chr1 4020065 rs6426379 G C 834.47 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=40.47;MQ0=0;QD=30.91;SB=-369.17 GT:AD:DP:GL:GQ 1/1:1,26:20:-87.04,-6.03,-0.01:60.20
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chr1 4020216 rs6426380 C T 178.01 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.98;MQ=56.52;MQ0=0;OQ=2286.70;QD=38.76;SB=-938.24 GT:AD:DP:GL:GQ 1/1:0,59:59:-232.28,-17.78,-0.03:99
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chr1 4020359 rs4233255 T A 506.79 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.30;MQ0=1;OQ=1405.72;QD=30.56;SB=-629.64 GT:AD:DP:GL:GQ 1/1:0,46:40:-144.18,-12.05,-0.02:99
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chr1 4020451 rs4654476 A G 27.72 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.11;MQ0=0;OQ=1489.65;QD=28.65;SB=-689.96 GT:AD:DP:GL:GQ 1/1:0,52:47:-152.59,-14.18,-0.04:99
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chr1 4020454 rs4654477 T C 48.40 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.13;MQ=59.54;MQ0=0;OQ=1536.11;QD=30.72;SB=-613.94 GT:AD:DP:GL:GQ 1/1:0,50:48:-157.24,-14.48,-0.04:99
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chr1 4020656 rs4233256 A C 90.34 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.86;MQ=59.09;MQ0=0;OQ=1344.37;QD=29.23;SB=-633.78 GT:AD:DP:GL:GQ 1/1:0,46:45:-138.07,-13.57,-0.05:99
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chr1 4020738 rs4233257 G A 285.07 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=56.81;MQ0=0;OQ=1954.21;QD=35.53;SB=-857.02 GT:AD:DP:GL:GQ 1/1:0,55:50:-199.02,-15.06,-0.01:99
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chr1 4020758 rs4233258 T C 590.90 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.92;MQ0=0;OQ=1509.42;QD=29.03;SB=-773.63 GT:AD:DP:GL:GQ 1/1:0,52:49:-154.57,-14.78,-0.05:99
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chr1 4020965 rs10915373 A G 41.68 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=3.05;MQ=59.15;MQ0=0;OQ=2124.75;QD=32.19;SB=-981.05 GT:AD:DP:GL:GQ 1/1:0,66:61:-216.09,-18.38,-0.03:99
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chr1 4021209 rs12087801 A G 66.82 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=1.20;MQ=59.44;MQ0=0;OQ=1399.12;QD=34.12;SB=-653.32 GT:AD:DP:GL:GQ 1/1:0,41:40:-143.51,-12.05,-0.01:99
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chr1 4021244 rs7524590 A G 21.98 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.56;MQ0=0;OQ=1518.93;QD=29.21;SB=-554.05 GT:AD:DP:GL:GQ 1/1:0,52:47:-155.52,-14.17,-0.04:99
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chr1 4021467 rs6426381 T C 70.46 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=57.82;MQ0=0;OQ=1271.75;QD=29.58;SB=-623.00 GT:AD:DP:GL:GQ 1/1:0,43:40:-130.79,-12.06,-0.03:99
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chr1 4021470 rs6665286 C T 565.39 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.82;MQ0=0;OQ=1632.61;QD=37.97;SB=-837.35 GT:AD:DP:GL:GQ 1/1:0,43:42:-166.86,-12.66,-0.02:99
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chr1 4021576 rs10799179 C T 140.80 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.60;MQ0=0;OQ=2105.87;QD=36.95;SB=-1023.68 GT:AD:DP:GL:GQ 1/1:0,57:54:-214.19,-16.27,-0.02:99
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chr1 4022324 rs10799180 T C 96.83 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1478.38;QD=30.80;SB=-697.61 GT:AD:DP:GL:GQ 1/1:0,48:47:-151.47,-14.18,-0.04:99
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chr1 4023064 rs12044274 A T 27.33 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.00;MQ0=0;OQ=1175.00;QD=33.57;SB=-370.25 GT:AD:DP:GL:GQ 1/1:0,34:33:-121.10,-9.94,-0.02:99
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chr1 4023346 rs12728781 C T 64.59 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=58.67;MQ0=0;OQ=1081.51;QD=30.90;SB=-492.01 GT:AD:DP:GL:GQ 1/1:1,34:29:-111.75,-8.74,-0.01:87.27
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chr1 4023709 rs10915381 G C 0.23 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=3;HaplotypeScore=3.44;MQ=58.92;MQ0=0;OQ=2348.10;QD=41.93;SB=-727.93 GT:AD:DP:GL:GQ 1/1:0,56:54:-238.42,-16.28,-0.02:99
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chr1 4024015 rs6672626 C T 663.95 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=46.30;MQ0=0;OQ=1764.84;QD=37.55;SB=-805.32 GT:AD:DP:GL:GQ 1/1:0,47:46:-180.09,-13.86,-0.02:99
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chr1 4024120 rs6672716 C T 182.48 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=36.16;MQ0=0;OQ=1966.97;QD=37.83;SB=-833.61 GT:AD:DP:GL:GQ 1/1:0,51:51:-203.16,-18.10,-2.88:99
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chr1 4024270 . T A 112.05 Indel AC=1;AF=0.50;AN=2;DP=33;Dels=0.03;HRun=0;HaplotypeScore=2.93;MQ=35.48;MQ0=0;QD=3.40;SB=-51.99 GT:AD:DP:GL:GQ 0/1:21,11:28:-22.63,-8.14,-76.45:99
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chr1 4024272 . A T 86.10 Indel AC=1;AF=0.50;AN=2;DP=34;Dels=0.03;HRun=0;HaplotypeScore=5.09;MQ=34.14;MQ0=0;QD=2.53;SB=-27.82 GT:AD:DP:GL:GQ 0/1:23,10:27:-19.73,-7.83,-71.54:99
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chr1 4024295 rs6683289 T C 432.26 Indel;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=27.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:16:-46.84,-4.84,-0.03:48.07
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chr1 4024297 rs6665849 G C 696.90 Indel;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=43.56;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:16:-73.28,-4.82,-0.00:48.16
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chr1 4024305 . T C 154.38 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=7.02;SB=-40.68 GT:AD:DP:GL:GQ 0/1:15,7:22:-25.35,-6.63,-60.61:99
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chr1 4024357 . T G 116.82 Indel AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=1.03;MQ=28.57;MQ0=0;QD=4.67;SB=-30.96 GT:AD:DP:GL:GQ 0/1:17,8:23:-21.89,-6.93,-59.79:99
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chr1 4024403 . G T 1246.60 Indel AC=2;AF=1.00;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=28.45;MQ0=0;QD=33.69;SB=-622.14 GT:AD:DP:GL:GQ 1/1:0,37:35:-128.26,-10.54,-0.01:99
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chr1 4024413 . C T 38.79 Indel;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=14.98;MQ=32.72;MQ0=0;QD=0.90;SB=-26.14 GT:AD:DP:GL:GQ 0/1:37,6:40:-19.21,-12.05,-127.12:71.63
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chr1 4024463 . G C 836.03 Indel AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=5.63;MQ=36.44;MQ0=0;QD=16.39;SB=-259.21 GT:AD:DP:GL:GQ 0/1:27,24:51:-102.25,-15.37,-114.08:99
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chr1 4024467 . C T 697.56 Indel AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=1;HaplotypeScore=4.47;MQ=36.57;MQ0=0;QD=13.95;SB=-194.79 GT:AD:DP:GL:GQ 0/1:28,22:49:-87.80,-14.76,-98.23:99
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chr1 4024517 rs28542205 C G 1129.16 Indel AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=18.36;MQ=32.35;MQ0=0;QD=26.26;SB=-522.33 GT:AD:DP:GL:GQ 0/1:8,31:35:-126.75,-10.55,-27.16:99
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chr1 4024521 . G C 975.12 Indel AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=18.89;MQ=30.36;MQ0=0;QD=23.78;SB=-491.19 GT:AD:DP:GL:GQ 0/1:9,27:35:-115.01,-14.21,-36.24:99
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chr1 4024603 . G C 2.26 PASS AC=1;AF=0.50;AN=2;DP=9;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=24.41;MQ0=0;OQ=50.98;QD=5.66;SB=-6.99 GT:AD:DP:GL:GQ 0/1:1,8:3:-9.29,-0.90,-4.69:37.89
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chr1 4024673 . T C 8.19 PASS AC=2;AF=1.00;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=30.71;MQ0=0;OQ=656.07;QD=31.24;SB=-288.45 GT:AD:DP:GL:GQ 1/1:0,21:20:-69.20,-6.03,-0.01:60.17
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chr1 4024788 . T C 850.29 Indel AC=2;AF=1.00;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=32.58;MQ0=0;QD=34.01;SB=-338.76 GT:AD:DP:GL:GQ 1/1:0,25:25:-88.63,-7.53,-0.01:75.20
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chr1 4024845 . T G 1.74 PASS AC=1;AF=0.50;AN=2;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=68.85;QD=17.21;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,3:4:-11.37,-1.20,-3.44:22.35
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chr1 4024894 . T C 62.45 Indel AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=7.00;MQ=29.00;MQ0=0;QD=12.49;SB=-41.94 GT:AD:DP:GL:GQ 0/1:2,3:4:-10.73,-1.20,-4.27:30.63
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chr1 4024923 . G A 22.24 Indel;LowQual AC=1;AF=0.50;AN=2;DP=8;Dels=0.25;HRun=0;HaplotypeScore=23.92;MQ=29.00;MQ0=0;QD=2.78;SB=-0.97 GT:AD:DP:GL:GQ 0/1:4,2:6:-7.31,-1.81,-14.76:55.05
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chr1 4024936 . T G 14.90 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=16;Dels=0.06;HRun=0;HaplotypeScore=31.98;MQ=29.00;MQ0=0;QD=0.93;SB=4.38 GT:AD:DP:GL:GQ 0/1:12,2:8:-11.00,-6.24,-20.74:47.59
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chr1 4024944 . C T 21.22 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=58.95;MQ=29.00;MQ0=0;QD=1.25;SB=8.05 GT:AD:DP:GL:GQ 0/1:15,2:9:-8.11,-2.71,-25.25:54.02
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chr1 4024945 . A T 15.01 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=58.95;MQ=29.00;MQ0=0;QD=0.88;SB=8.04 GT:AD:DP:GL:GQ 0/1:13,4:9:-7.48,-2.71,-24.43:47.70
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chr1 4024946 . C T 97.28 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=64.95;MQ=29.00;MQ0=0;QD=5.72;SB=8.05 GT:AD:DP:GL:GQ 0/1:13,4:11:-16.32,-3.31,-25.25:99
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chr1 4024979 . C T 611.81 Indel;SnpCluster AC=2;AF=1.00;AN=2;DP=18;Dels=0.00;HRun=0;HaplotypeScore=6.71;MQ=29.00;MQ0=0;QD=33.99;SB=-293.67 GT:AD:DP:GL:GQ 1/1:0,16:16:-64.77,-4.82,-0.00:48.16
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chr1 4024982 . T G 173 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=11.86;MQ=29.00;MQ0=0;QD=9.11;SB=14.07 GT:AD:DP:GL:GQ 0/1:10,7:16:-25.40,-4.82,-33.30:99
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chr1 4024983 . C T 250.37 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=1;HaplotypeScore=11.86;MQ=29.00;MQ0=0;QD=13.18;SB=14.06 GT:AD:DP:GL:GQ 0/1:11,8:16:-33.14,-4.82,-27.15:99
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chr1 4025014 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=2;HaplotypeScore=18.19;MQ=29.00;MQ0=0;OQ=197.67;QD=9.88;SB=17.08 GT:AD:DP:GL:GQ 0/1:13,7:18:-28.47,-5.42,-39.21:99
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chr1 4025033 . G A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=9.30;MQ=27.51;MQ0=1;OQ=89.74;QD=8.97;SB=2.03 GT:AD:DP:GL:GQ 0/1:5,5:9:-14.97,-2.71,-16.97:99
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chr1 4025048 . C T 21.22 DPFilter;Indel;LowQual AC=1;AF=0.50;AN=2;DP=10;Dels=0.00;HRun=1;HaplotypeScore=32.62;MQ=27.51;MQ0=1;QD=2.12;SB=2.04 GT:AD:DP:GL:GQ 0/1:8,2:9:-8.11,-2.71,-25.19:54.03
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chr1 4025070 . G A 35.48 LowQual AC=1;AF=0.50;AN=2;DP=4;Dels=0.00;HRun=1;HaplotypeScore=6.00;MQ=29.00;MQ0=0;QD=8.87;SB=-6.99 GT:AD:DP:GL:GQ 0/1:2,2:3:-7.73,-0.90,-3.47:25.65
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chr1 4025144 . C T 71.12 Indel AC=1;AF=0.50;AN=2;DP=8;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=8.89;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,6:5:-11.90,-1.51,-7.69:61.87
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chr1 4025168 . G C 48.97 LowQual AC=1;AF=0.50;AN=2;DP=7;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=29.00;MQ0=0;QD=7.00;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,5:4:-9.39,-1.21,-8.09:68.89
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chr1 4025186 . C T 0.12 PASS AC=1;AF=0.50;AN=2;DP=4;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=78.13;QD=19.53;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,3:4:-12.30,-1.20,-3.90:26.92
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chr1 4025245 . C T 49.25 LowQual;SnpCluster AC=2;AF=1.00;AN=2;DP=3;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=23.68;MQ0=1;QD=16.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,2:2:-8.33,-0.60,-0.00:6.02
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chr1 4025247 . G C 137.89 SnpCluster AC=2;AF=1.00;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=25.94;MQ0=1;QD=27.58;SB=-52.47 GT:AD:DP:GL:GQ 1/1:1,4:4:-17.32,-1.21,-0.00:12.04
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chr1 4025253 . T C 341.02 SnpCluster AC=2;AF=1.00;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=26.68;MQ0=2;QD=26.23;SB=-182.78 GT:AD:DP:GL:GQ 1/1:1,12:11:-37.69,-3.31,-0.01:33.09
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chr1 4025355 . C T 528.21 SnpCluster AC=2;AF=1.00;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=33.01;SB=-144.72 GT:AD:DP:GL:GQ 1/1:1,15:16:-59.68,-4.82,-3.30:15.20
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chr1 4025359 . T C 305.09 SnpCluster AC=1;AF=0.50;AN=2;DP=13;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=29.00;MQ0=0;QD=23.47;SB=-70.88 GT:AD:DP:GL:GQ 0/1:2,11:13:-37.71,-3.92,-7.64:37.23
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chr1 4025364 . T A 90.08 SnpCluster AC=2;AF=1.00;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=29.00;MQ0=0;QD=18.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,3:3:-12.50,-0.90,-0.00:9.03
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chr1 4025431 . G C 10.49 LowQual AC=1;AF=0.50;AN=2;DP=1;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=10.49;SB=-10.00 GT:AD:DP:GL:GQ 0/1:0,1:1:-4.29,-0.30,-0.00:1.76
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chr1 4025466 . T C 25.23 LowQual AC=1;AF=0.50;AN=2;DP=3;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=29.00;MQ0=0;QD=8.41;SB=-10.00 GT:AD:DP:GL:GQ 0/1:0,2:3:-9.75,-4.24,-3.95:1.79
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chr1 4025523 . A C 21.19 LowQual AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=1;HaplotypeScore=4.30;MQ=29.00;MQ0=0;QD=4.24;SB=-10.00 GT:AD:DP:GL:GQ 0/1:3,2:3:-6.30,-0.90,-3.10:21.92
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chr1 4025542 . T C 37.83 LowQual AC=2;AF=1.00;AN=2;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=12.61;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,2:2:-7.19,-0.60,-0.00:6.02
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chr1 4025586 . G C 7.40 PASS AC=1;AF=0.50;AN=2;DP=5;Dels=0.20;HRun=0;HaplotypeScore=2.25;MQ=29.00;MQ0=0;OQ=51.98;QD=10.40;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,3:3:-9.39,-0.90,-3.95:30.43
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chr1 4025618 . C T 7.86 PASS AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=29.00;MQ0=0;OQ=87.13;QD=12.45;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,5:3:-12.20,-0.90,-0.00:9.03
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chr1 4025642 . T C 158.22 Indel AC=2;AF=1.00;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=31.64;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,5:5:-19.38,-1.51,-0.00:15.05
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chr1 4025697 . A T 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=29.00;MQ0=0;OQ=113.07;QD=22.61;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,4:5:-16.09,-1.51,-3.64:21.34
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chr1 4025746 . T G 32.28 LowQual AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=3.93;MQ=23.71;MQ0=1;QD=6.46;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,2:3:-7.41,-0.90,-3.74:28.36
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chr1 4025760 . T C 33.23 LowQual AC=1;AF=0.50;AN=2;DP=4;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=26.51;MQ0=0;QD=8.31;SB=-10.00 GT:AD:DP:GL:GQ 0/1:1,2:3:-10.45,-4.14,-3.85:1.79
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chr1 4026171 . A T 209.87 Indel AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=25.28;MQ0=0;QD=14.99;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,9:8:-26.67,-2.41,-4.00:15.91
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chr1 4026180 . C G 33.92 Indel;LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=25.28;MQ0=0;QD=2.42;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,5:9:-9.39,-2.71,-29.13:66.75
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chr1 4026184 . C T 21.22 LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=25.28;MQ0=0;QD=1.52;SB=-10.00 GT:AD:DP:GL:GQ 0/1:9,5:9:-8.11,-2.71,-25.08:54.02
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chr1 4026206 . C G 51.98 Indel AC=1;AF=0.50;AN=2;DP=7;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.01;MQ0=1;QD=7.43;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,5:3:-9.39,-0.90,-4.15:32.44
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chr1 4026210 . G C 48.85 LowQual AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.61;MQ0=1;QD=8.14;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,5:2:-8.29,-0.60,-0.00:6.02
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chr1 4026326 . G C 28.47 Indel;LowQual AC=1;AF=0.50;AN=2;DP=15;Dels=0.00;HRun=0;HaplotypeScore=22.92;MQ=30.24;MQ0=0;QD=1.90;SB=-27.39 GT:AD:DP:GL:GQ 0/1:8,6:9:-8.84,-2.71,-32.55:61.30
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chr1 4026330 . C T 15.30 Indel;LowQual AC=1;AF=0.50;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=20.94;MQ=33.42;MQ0=0;QD=0.96;SB=-6.99 GT:AD:DP:GL:GQ 0/1:14,2:11:-8.11,-3.31,-31.44:48.01
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chr1 4026341 . A T 151.96 Indel AC=1;AF=0.50;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=32.82;MQ=37.84;MQ0=1;QD=7.24;SB=-45.98 GT:AD:DP:GL:GQ 0/1:14,7:14:-22.70,-4.22,-31.99:99
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chr1 4026383 . A G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=27.11;MQ=37.86;MQ0=1;OQ=685.36;QD=14.58;SB=-116.05 GT:AD:DP:GL:GQ 1/1:7,40:26:-76.32,-7.85,-4.20:36.49
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chr1 4026434 . C G 29.02 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.33;MQ0=0;QD=0.81;SB=5.05 GT:AD:DP:GL:GQ 0/1:34,2:8:-8.60,-2.41,-25.63:61.85
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chr1 4026435 . A T 728.54 SnpCluster AC=2;AF=1.00;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.33;MQ0=0;QD=20.24;SB=-50.99 GT:AD:DP:GL:GQ 1/1:2,34:20:-76.44,-6.02,-0.00:60.19
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chr1 4026437 . T A 762.24 SnpCluster AC=2;AF=1.00;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.33;MQ0=0;QD=21.17;SB=-46.39 GT:AD:DP:GL:GQ 1/1:2,34:20:-79.81,-6.02,-0.00:60.20
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chr1 4026440 . T G 564.23 SnpCluster AC=2;AF=1.00;AN=2;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.87;MQ0=0;QD=17.10;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,31:17:-60.01,-5.12,-0.00:51.15
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chr1 4026444 . C G 41.07 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=34.30;MQ0=1;QD=1.28;SB=-6.99 GT:AD:DP:GL:GQ 0/1:30,2:3:-8.29,-0.90,-4.25:33.44
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chr1 4026449 . A T 483.60 SnpCluster AC=2;AF=1.00;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=34.81;MQ0=1;QD=16.68;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,29:14:-51.95,-4.22,-0.00:42.13
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chr1 4026483 . G A 173.76 Indel AC=2;AF=1.00;AN=2;DP=7;Dels=0.14;HRun=0;HaplotypeScore=0.00;MQ=25.96;MQ0=0;QD=24.82;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:5:-20.94,-1.51,-0.00:15.05
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chr1 4026581 . T C 45.31 PASS AC=2;AF=1.00;AN=2;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=26.51;MQ0=0;OQ=56.13;QD=14.03;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,4:3:-9.11,-0.91,-0.01:9
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chr1 4026636 . T A 64.25 PASS AC=2;AF=1.00;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=32.75;MQ0=0;OQ=1092.89;QD=35.25;SB=-113.17 GT:AD:DP:GL:GQ 1/1:0,31:29:-112.88,-8.73,-0.01:87.28
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chr1 4026761 . T A 283.60 PASS AC=2;AF=1.00;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=39.63;MQ0=0;OQ=910.42;QD=32.51;SB=-440.82 GT:AD:DP:GL:GQ 1/1:0,28:25:-94.63,-7.53,-0.01:75.24
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chr1 4026798 . G C 10.99 LowQual AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=0;HaplotypeScore=12.99;MQ=22.58;MQ0=0;QD=2.20;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,3:1:-4.35,-0.30,-0.00:1.76
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chr1 4026914 . T C 49.44 PASS AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.57;MQ0=0;OQ=246.59;QD=24.66;SB=-150.73 GT:AD:DP:GL:GQ 1/1:0,10:9:-28.25,-2.72,-0.01:27.05
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chr1 4026927 . A T 206.91 PASS AC=2;AF=1.00;AN=2;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.61;MQ0=0;OQ=634.07;QD=30.19;SB=-308.12 GT:AD:DP:GL:GQ 1/1:0,21:18:-67.00,-5.42,-0.01:54.16
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chr1 4027026 . C T 64.95 Indel AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=32.20;MQ0=1;QD=1.71;SB=-49.74 GT:AD:DP:GL:GQ 0/1:32,6:37:-20.92,-11.15,-115.91:97.79
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chr1 4027042 . T C 614.97 Indel AC=2;AF=1.00;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=29.00;MQ0=0;QD=27.95;SB=-154.73 GT:AD:DP:GL:GQ 1/1:0,22:21:-65.11,-6.34,-0.03:63.13
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chr1 4027052 . T C 696.49 Indel AC=2;AF=1.00;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;QD=34.82;SB=-114.05 GT:AD:DP:GL:GQ 1/1:0,20:20:-73.24,-6.03,-0.01:60.18
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chr1 4027210 . G C 19.50 Indel;LowQual AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=26.88;MQ0=0;QD=1.39;SB=-27.39 GT:AD:DP:GL:GQ 0/1:12,2:10:-8.24,-3.01,-36.19:52.28
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chr1 4027332 . C G 36.70 PASS AC=2;AF=1.00;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.49;MQ0=0;OQ=1976.71;QD=43.93;SB=-544.06 GT:AD:DP:GL:GQ 1/1:0,45:45:-201.27,-13.56,-0.01:99
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chr1 4027338 . T C 290.59 PASS AC=2;AF=1.00;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.34;MQ0=0;OQ=1625.12;QD=35.33;SB=-497.48 GT:AD:DP:GL:GQ 1/1:0,46:46:-166.11,-13.85,-0.01:99
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chr1 4027382 rs4654478 T C 529.46 Indel AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=8.99;MQ=33.88;MQ0=0;QD=11.77;SB=-150.80 GT:AD:DP:GL:GQ 0/1:25,20:45:-69.78,-13.55,-102.60:99
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chr1 4027391 . A T 124.12 Indel AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=29.00;MQ0=0;QD=3.18;SB=-45.98 GT:AD:DP:GL:GQ 0/1:32,7:37:-26.84,-11.14,-119.06:99
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chr1 4027395 . T A 21.79 Indel;LowQual AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=29.00;MQ0=0;QD=0.61;SB=-10.00 GT:AD:DP:GL:GQ 0/1:32,4:36:-16.30,-10.84,-120.25:54.60
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chr1 4027428 rs4654405 C A 54.82 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=1067.75;QD=35.59;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,30:30:-110.36,-9.03,-0.00:90.28
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chr1 4027512 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=38;Dels=0.03;HRun=0;HaplotypeScore=41.12;MQ=30.70;MQ0=0;OQ=583.71;QD=15.36;SB=-96.83 GT:AD:DP:GL:GQ 0/1:11,26:29:-70.09,-8.44,-49.32:99
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chr1 4027516 . C G 4.55 PASS AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=0;HaplotypeScore=2.16;MQ=30.66;MQ0=0;OQ=294.17;QD=7.54;SB=2.04 GT:AD:DP:GL:GQ 0/1:30,9:29:-41.44,-8.74,-84.22:99
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chr1 4027660 rs4654407 G A 193.14 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=42.76;MQ0=0;OQ=2435.59;QD=39.28;SB=-760.64 GT:AD:DP:GL:GQ 1/1:0,62:62:-247.16,-18.68,-0.02:99
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chr1 4027721 rs4654408 C T 529.60 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.67;MQ0=0;OQ=1726.14;QD=39.23;SB=-623.32 GT:AD:DP:GL:GQ 1/1:0,44:43:-176.21,-12.95,-0.01:99
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chr1 4027907 rs4654409 G A 268.91 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.85;MQ0=0;OQ=2188.75;QD=36.48;SB=-1120.98 GT:AD:DP:GL:GQ 1/1:0,60:57:-222.49,-17.18,-0.03:99
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chr1 4028014 rs10915398 T C 85.36 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.65;MQ0=0;OQ=1826.56;QD=33.83;SB=-678.24 GT:AD:DP:GL:GQ 1/1:0,54:52:-186.26,-15.66,-0.02:99
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chr1 4028230 rs10753357 A C 280.70 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.61;MQ0=0;OQ=1933.90;QD=32.78;SB=-901.67 GT:AD:DP:GL:GQ 1/1:0,59:56:-196.99,-16.87,-0.02:99
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chr1 4028383 rs10753358 C A 101.29 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=2;HaplotypeScore=0.96;MQ=59.50;MQ0=0;OQ=3292.23;QD=35.40;SB=-1450.96 GT:AD:DP:GL:GQ 1/1:0,93:90:-328.22,-27.11,-0.03:99
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chr1 4028555 rs10915400 C T 609.81 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=2231.72;QD=39.15;SB=-1113.00 GT:AD:DP:GL:GQ 1/1:0,57:57:-226.78,-17.18,-0.02:99
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chr1 4028627 rs11586513 G A 570.71 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2205.25;QD=39.38;SB=-957.37 GT:AD:DP:GL:GQ 1/1:0,56:55:-224.12,-16.57,-0.01:99
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chr1 4029107 rs17404781 C A 590.07 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2642.82;QD=36.71;SB=-848.25 GT:AD:DP:GL:GQ 1/1:0,72:72:-267.88,-21.68,-0.02:99
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chr1 4029794 rs4603097 A G 153.18 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=60.00;MQ0=0;OQ=2799.69;QD=36.36;SB=-819.68 GT:AD:DP:GL:GQ 1/1:1,76:76:-283.57,-22.89,-0.02:99
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chr1 4030208 rs4130940 A G 693.73 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3003.68;QD=34.53;SB=-1360.53 GT:AD:DP:GL:GQ 1/1:0,87:86:-303.98,-25.91,-0.03:99
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chr1 4030429 rs4130941 T C 169.61 PASS AC=2;AF=1.00;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=60.00;MQ0=0;OQ=3432.78;QD=35.76;SB=-1689.36 GT:AD:DP:GL:GQ 1/1:0,96:95:-342.28,-28.61,-0.03:99
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chr1 4030544 rs4391636 T C 184.14 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2626.35;QD=31.27;SB=-1250.03 GT:AD:DP:GL:GQ 1/1:0,84:83:-266.29,-25.03,-0.07:99
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chr1 4030874 rs4262509 T C 686.40 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=2253.22;QD=36.34;SB=-816.67 GT:AD:DP:GL:GQ 1/1:0,62:62:-228.93,-18.68,-0.02:99
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chr1 4031041 rs4400586 C T 220 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.73;MQ0=0;OQ=2740.70;QD=40.30;SB=-1397.85 GT:AD:DP:GL:GQ 1/1:0,68:68:-277.67,-20.48,-0.01:99
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chr1 4031109 rs7537141 A G 223.55 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.17;MQ=58.69;MQ0=0;OQ=2389.72;QD=33.66;SB=-1060.09 GT:AD:DP:GL:GQ 1/1:0,70:68:-242.58,-20.48,-0.02:99
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chr1 4031170 rs7537236 A G 284.86 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.42;MQ0=0;OQ=1865.29;QD=33.31;SB=-585.57 GT:AD:DP:GL:GQ 1/1:0,56:52:-190.13,-15.66,-0.02:99
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chr1 4031176 rs7537237 A G 151.85 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=58.47;MQ0=0;OQ=1912.22;QD=32.97;SB=-672.55 GT:AD:DP:GL:GQ 1/1:0,58:55:-194.84,-16.57,-0.03:99
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chr1 4031220 rs7532788 C T 294.77 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.01;MQ0=0;OQ=2323.83;QD=38.10;SB=-1060.94 GT:AD:DP:GL:GQ 1/1:0,60:59:-235.99,-17.78,-0.02:99
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chr1 4031586 rs3936238 A G 138.31 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.67;MQ=58.69;MQ0=0;OQ=2519.09;QD=35.48;SB=-1162.71 GT:AD:DP:GL:GQ 1/1:0,71:71:-255.52,-21.39,-0.03:99
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chr1 4031878 rs9628649 C T 644.41 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.66;MQ0=0;OQ=2284.52;QD=38.72;SB=-825.09 GT:AD:DP:GL:GQ 1/1:0,59:58:-232.06,-17.48,-0.02:99
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chr1 4031986 rs9628650 G T 130.41 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=0.92;MQ=59.09;MQ0=0;OQ=2689.72;QD=35.39;SB=-1301.17 GT:AD:DP:GL:GQ 1/1:0,75:74:-272.58,-22.29,-0.02:99
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chr1 4032433 rs7529548 G C 483.28 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=2621.92;QD=40.34;SB=-1086.06 GT:AD:DP:GL:GQ 1/1:0,65:62:-265.80,-18.69,-0.02:99
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chr1 4032637 rs7538658 C T 720.56 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2747.15;QD=39.25;SB=-1233.63 GT:AD:DP:GL:GQ 1/1:0,70:70:-278.33,-21.09,-0.03:99
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chr1 4032742 rs7529853 G C 195.26 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.01;HRun=0;HaplotypeScore=1.43;MQ=59.67;MQ0=0;OQ=2970.07;QD=42.43;SB=-1256.98 GT:AD:DP:GL:GQ 1/1:0,69:70:-300.61,-20.79,-0.02:99
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chr1 4032815 rs10157040 T G 55.91 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.79;MQ=60.00;MQ0=0;OQ=2073.63;QD=33.99;SB=-743.38 GT:AD:DP:GL:GQ 1/1:0,61:60:-210.97,-18.07,-0.02:99
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chr1 4032895 rs60405213 A G 332.98 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=1606.75;QD=29.75;SB=-645.91 GT:AD:DP:GL:GQ 1/1:0,54:50:-164.30,-15.08,-0.04:99
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chr1 4032956 rs10157057 T C 590.98 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.21;MQ0=0;OQ=1852.28;QD=34.95;SB=-804.30 GT:AD:DP:GL:GQ 1/1:0,53:53:-188.83,-15.97,-0.02:99
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chr1 4033505 . A T 38.74 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=20;HaplotypeScore=16.08;MQ=50.01;MQ0=1;QD=0.73;SB=62.20 GT:AD:DP:GL:GQ 0/1:43,10:38:-18.61,-11.45,-119.32:71.58
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chr1 4035925 rs6686087 G A 676.98 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.29;MQ0=0;OQ=1910.92;QD=36.06;SB=-777.68 GT:AD:DP:GL:GQ 1/1:0,53:52:-194.71,-15.68,-0.03:99
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chr1 4036210 rs7553013 A G 89.18 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=60.00;MQ0=0;OQ=1455.02;QD=35.49;SB=-567.89 GT:AD:DP:GL:GQ 1/1:0,41:41:-149.10,-12.35,-0.01:99
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chr1 4037078 rs6671404 G A 595.18 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=49.26;MQ0=0;OQ=2338.43;QD=39.63;SB=-1084.95 GT:AD:DP:GL:GQ 1/1:0,59:59:-237.45,-17.77,-0.02:99
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chr1 4037233 . C T 0.09 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=10.47;MQ=23.53;MQ0=14;OQ=386.45;QD=7.43;SB=-174.70 GT:AD:DP:GL:GQ 0/1:24,28:16:-46.75,-4.82,-13.21:83.85
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chr1 4037300 rs12731949 G A 33.47 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=10.93;MQ=13.10;MQ0=15;QD=0.96;SB=-6.99 GT:AD:DP:GL:GQ 0/1:26,6:3:-7.53,-0.90,-3.57:26.65
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chr1 4037316 . A G 19.58 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=4.32;MQ=10.60;MQ0=15;QD=0.68;SB=-10.00 GT:AD:DP:GL:GQ 0/1:25,4:3:-6.14,-0.91,-2.76:18.51
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chr1 4037317 rs12747176 C T 33.48 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=4.32;MQ=10.78;MQ0=15;QD=1.20;SB=-10.00 GT:AD:DP:GL:GQ 0/1:25,3:3:-7.53,-0.90,-3.30:23.93
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chr1 4037349 rs55974954 C T 4.01 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=2.86;MQ=15.25;MQ0=10;OQ=78.13;QD=3.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:11,9:5:-12.60,-1.51,-5.79:42.85
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chr1 4037373 . C T 49.25 HARD_TO_VALIDATE;LowQual;SnpCluster AC=2;AF=1.00;AN=2;DP=23;Dels=0.09;HRun=0;HaplotypeScore=5.10;MQ=12.43;MQ0=14;QD=2.14;SB=-10.00 GT:AD:DP:GL:GQ 1/1:17,4:2:-8.33,-0.60,-0.00:6.02
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chr1 4037374 rs58910132 A G 67.17 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.10;HRun=0;HaplotypeScore=2.46;MQ=12.64;MQ0=13;QD=3.20;SB=-10.00 GT:AD:DP:GL:GQ 1/1:14,5:3:-10.21,-0.90,-0.00:9.03
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chr1 4037375 . C T 89.13 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=21;Dels=0.10;HRun=0;HaplotypeScore=2.62;MQ=12.64;MQ0=13;QD=4.24;SB=-10.00 GT:AD:DP:GL:GQ 1/1:14,5:3:-12.40,-0.90,-0.00:9.03
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chr1 4037523 . C T 36.25 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=8.14;MQ=8.07;MQ0=27;QD=0.91;SB=-10.00 GT:AD:DP:GL:GQ 0/1:35,5:3:-7.81,-0.90,-3.47:25.65
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chr1 4037532 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=7.98;MQ=8.93;MQ0=30;OQ=75.12;QD=1.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:32,13:5:-12.30,-1.51,-6.19:46.86
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chr1 4037589 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=30.55;MQ=12.67;MQ0=42;OQ=141.32;QD=1.74;SB=-10.00 GT:AD:DP:GL:GQ 0/1:62,18:18:-22.84,-5.42,-40.02:99
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chr1 4037590 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=0;HaplotypeScore=31.66;MQ=13.12;MQ0=42;OQ=99.34;QD=1.18;SB=-10.00 GT:AD:DP:GL:GQ 0/1:65,14:18:-18.65,-5.43,-43.06:99
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chr1 4037755 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=10.80;MQ=28.57;MQ0=9;OQ=123.11;QD=4.25;SB=-10.00 GT:AD:DP:GL:GQ 0/1:16,13:15:-20.11,-4.52,-34.90:99
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chr1 4037764 . G A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=11.39;MQ=27.02;MQ0=10;OQ=406.03;QD=10.68;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,21:18:-49.31,-5.43,-18.48:99
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chr1 4037797 . G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=1;HaplotypeScore=2.36;MQ=25.37;MQ0=16;OQ=242.41;QD=2.96;SB=-0.99 GT:AD:DP:GL:GQ 0/1:69,13:49:-42.29,-14.76,-143.27:99
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chr1 4037813 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=1;HaplotypeScore=30.43;MQ=23.50;MQ0=19;OQ=796.43;QD=8.38;SB=2.04 GT:AD:DP:GL:GQ 0/1:48,46:55:-99.50,-16.57,-97.10:99
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chr1 4037822 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=126;Dels=0.00;HRun=0;HaplotypeScore=35.10;MQ=23.24;MQ0=31;OQ=606.69;QD=4.81;SB=-57.33 GT:AD:DP:GL:GQ 0/1:70,54:63:-82.95,-19.00,-147.74:99
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chr1 4037843 rs61768802 C A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=180;Dels=0.00;HRun=1;HaplotypeScore=17.92;MQ=21.78;MQ0=58;OQ=417.65;QD=2.32;SB=-34.91 GT:AD:DP:GL:GQ 0/1:148,32:87:-71.25,-26.21,-246.67:99
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chr1 4037880 rs61768803 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=196;Dels=0.00;HRun=0;HaplotypeScore=29.31;MQ=22.28;MQ0=61;OQ=120.84;QD=0.62;SB=11.02 GT:AD:DP:GL:GQ 0/1:165,26:69:-36.22,-20.85,-175.88:99
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chr1 4037929 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=1;HaplotypeScore=2.77;MQ=21.90;MQ0=34;OQ=107.87;QD=1.14;SB=35.15 GT:AD:DP:GL:GQ 0/1:76,17:46:-27.95,-13.88,-137.64:99
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chr1 4037943 . C T 85.40 PASS AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.97;MQ=21.61;MQ0=16;OQ=809.30;QD=13.95;SB=-392.58 GT:AD:DP:GL:GQ 0/1:14,44:31:-93.56,-9.34,-20.82:99
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chr1 4037953 . T C 0.02 FDRtranche1.00to2.00 AC=2;AF=1.00;AN=2;DP=38;Dels=0.00;HRun=3;HaplotypeScore=11.12;MQ=21.57;MQ0=12;OQ=534.72;QD=14.07;SB=-137.10 GT:AD:DP:GL:GQ 1/1:2,36:20:-60.44,-6.03,-3.38:26.46
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chr1 4037971 . G A 35.49 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=12;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=11.71;MQ0=7;QD=2.96;SB=-7.00 GT:AD:DP:GL:GQ 0/1:2,10:3:-7.73,-0.90,-2.97:20.65
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chr1 4038007 . C T 11.96 PASS AC=2;AF=1.00;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=24.37;MQ0=17;OQ=478.18;QD=12.58;SB=-0.67 GT:AD:DP:GL:GQ 1/1:9,29:15:-54.99,-4.52,-3.70:8.18
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chr1 4038085 . G A 6.73 PASS AC=2;AF=1.00;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=25.54;MQ0=21;OQ=1434.12;QD=19.65;SB=-222.29 GT:AD:DP:GL:GQ 1/1:0,70:37:-147.01,-11.15,-0.01:99
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chr1 4038095 . A C 37.18 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=2;HaplotypeScore=5.05;MQ=31.28;MQ0=12;QD=0.48;SB=35.10 GT:AD:DP:GL:GQ 0/1:67,11:51:-22.37,-15.37,-153.89:70.01
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chr1 4038119 rs61768805 A G 52.49 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=34.39;MQ0=8;OQ=2201.59;QD=25.60;SB=-880.89 GT:AD:DP:GL:GQ 1/1:0,86:64:-223.78,-19.28,-0.04:99
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chr1 4038137 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=141;Dels=0.00;HRun=1;HaplotypeScore=16.06;MQ=35.46;MQ0=14;OQ=344.80;QD=2.45;SB=-97.28 GT:AD:DP:GL:GQ 0/1:105,36:95:-66.41,-28.65,-282.14:99
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chr1 4038181 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=266;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=35.03;MQ0=15;OQ=1093.66;QD=4.11;SB=-524.11 GT:AD:DP:GL:GQ 0/1:186,80:195:-171.41,-58.76,-524.00:99
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chr1 4038248 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=280;Dels=0.00;HRun=0;HaplotypeScore=30.85;MQ=29.46;MQ0=44;OQ=1065.01;QD=3.80;SB=-230.16 GT:AD:DP:GL:GQ 0/1:155,104:139:-156.85,-47.07,-312.49:99
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chr1 4038269 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=221;Dels=0.00;HRun=2;HaplotypeScore=13.90;MQ=27.15;MQ0=44;OQ=427.47;QD=1.93;SB=-154.75 GT:AD:DP:GL:GQ 0/1:158,62:110:-79.18,-33.15,-296.78:99
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chr1 4038306 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=0;HaplotypeScore=30.95;MQ=24.15;MQ0=24;OQ=80.75;QD=0.71;SB=17.44 GT:AD:DP:GL:GQ 0/1:88,21:54:-27.64,-16.28,-152.20:99
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chr1 4038311 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=30.17;MQ=23.18;MQ0=20;OQ=320.40;QD=3.56;SB=-113.10 GT:AD:DP:GL:GQ 0/1:60,30:46:-49.20,-13.87,-108.56:99
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chr1 4038321 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=3;HaplotypeScore=15.26;MQ=23.68;MQ0=14;OQ=766.53;QD=12.99;SB=-327.28 GT:AD:DP:GL:GQ 0/1:10,49:31:-89.28,-9.34,-16.69:73.43
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chr1 4038334 . G A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.69;MQ=25.40;MQ0=9;OQ=78.94;QD=1.49;SB=-27.72 GT:AD:DP:GL:GQ 0/1:40,11:25:-21.55,-10.37,-63.16:99
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chr1 4038397 . A G 17.54 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.28;MQ=29.53;MQ0=4;OQ=326.31;QD=7.42;SB=-58.84 GT:AD:DP:GL:GQ 0/1:24,20:28:-44.35,-8.44,-57.72:99
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chr1 4038422 rs61768806 G A 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=18.20;MQ=33.84;MQ0=4;OQ=183.71;QD=3.40;SB=-62.31 GT:AD:DP:GL:GQ 0/1:35,13:24:-31.46,-9.80,-50.09:99
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chr1 4038450 rs9426493 G A 0.12 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=7.50;MQ=40.53;MQ0=7;OQ=257.95;QD=3.31;SB=38.10 GT:AD:DP:GL:GQ 0/1:50,27:46:-42.95,-13.87,-108.04:99
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chr1 4038485 . T C 49.84 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=1;HaplotypeScore=36.99;MQ=38.79;MQ0=13;QD=0.38;SB=-42.38 GT:AD:DP:GL:GQ 0/1:107,23:79:-32.08,-23.81,-273.26:82.67
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chr1 4038495 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=3;HaplotypeScore=26.37;MQ=38.36;MQ0=11;OQ=110.49;QD=0.81;SB=81.70 GT:AD:DP:GL:GQ 0/1:101,35:77:-37.55,-23.22,-250.69:99
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chr1 4038559 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=2;HaplotypeScore=4.40;MQ=37.40;MQ0=14;OQ=181.94;QD=1.28;SB=76.72 GT:AD:DP:GL:GQ 0/1:114,27:102:-52.21,-30.74,-302.69:99
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chr1 4038595 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=10.57;MQ=44.92;MQ0=10;OQ=118.91;QD=1.67;SB=44.58 GT:AD:DP:GL:GQ 0/1:49,22:52:-30.86,-15.68,-162.15:99
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chr1 4038920 rs12240075 G A 506.65 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.13;MQ0=0;OQ=3029.69;QD=39.35;SB=-1486.40 GT:AD:DP:GL:GQ 1/1:0,77:75:-306.57,-22.59,-0.02:99
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chr1 4039098 rs4073835 G A 496.74 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2305.48;QD=39.08;SB=-997.03 GT:AD:DP:GL:GQ 1/1:0,59:59:-234.15,-17.78,-0.02:99
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chr1 4039791 rs4639725 C T 236.18 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.86;MQ=59.67;MQ0=0;OQ=2672.94;QD=38.18;SB=-1315.36 GT:AD:DP:GL:GQ 1/1:0,70:69:-270.90,-20.79,-0.02:99
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chr1 4039890 rs4436359 C A 272.88 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.38;MQ=60.00;MQ0=0;OQ=1804.54;QD=34.70;SB=-797.85 GT:AD:DP:GL:GQ 1/1:1,51:51:-184.06,-15.36,-0.02:99
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chr1 4040736 rs6684922 G A 149.31 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.70;MQ0=0;OQ=2464.15;QD=39.74;SB=-984.31 GT:AD:DP:GL:GQ 1/1:0,62:61:-250.01,-18.37,-0.01:99
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chr1 4041212 rs7418376 A G 9.41 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=4.36;MQ=59.69;MQ0=0;OQ=2587.00;QD=34.49;SB=-1318.64 GT:AD:DP:GL:GQ 1/1:0,75:71:-262.30,-21.38,-0.02:99
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chr1 4041774 rs6657076 T C 524.19 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.94;MQ0=0;OQ=2268.81;QD=30.25;SB=-1070.20 GT:AD:DP:GL:GQ 1/1:0,75:71:-230.53,-21.41,-0.06:99
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chr1 4045735 rs10915422 A C 14.87 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=4.42;MQ=59.68;MQ0=0;OQ=2455.12;QD=33.63;SB=-728.83 GT:AD:DP:GL:GQ 1/1:0,73:71:-249.12,-21.38,-0.02:99
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chr1 4045888 rs10915423 A C 727.77 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2031.28;QD=35.02;SB=-998.12 GT:AD:DP:GL:GQ 1/1:0,58:58:-206.73,-17.47,-0.02:99
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chr1 4046948 rs10915425 T G 80.45 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=53.47;MQ0=0;OQ=1869.59;QD=31.69;SB=-736.37 GT:AD:DP:GL:GQ 1/1:0,59:55:-190.57,-16.57,-0.02:99
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chr1 4046996 rs55774050 C G 2240.61 Indel AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=9.46;MQ=51.11;MQ0=0;QD=43.09;SB=-978.74 GT:AD:DP:GL:GQ 1/1:0,52:52:-227.66,-15.67,-0.01:99
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chr1 4047821 rs11578552 T C 402.68 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.32;MQ0=0;OQ=2100.45;QD=30.89;SB=-846.51 GT:AD:DP:GL:GQ 1/1:0,68:66:-213.69,-19.91,-0.06:99
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chr1 4047883 rs11577344 C T 490.32 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1935.40;QD=37.95;SB=-660.87 GT:AD:DP:GL:GQ 1/1:0,51:48:-197.13,-14.46,-0.01:99
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chr1 4049164 rs7411603 A G 3.63 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=6.69;MQ=58.71;MQ0=0;OQ=1270.28;QD=27.03;SB=-493.17 GT:AD:DP:GL:GQ 1/1:0,47:41:-130.65,-12.36,-0.04:99
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chr1 4050387 rs10753365 G A 99.83 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=58.61;MQ0=0;OQ=1534.51;QD=32.65;SB=-464.08 GT:AD:DP:GL:GQ 1/1:0,46:42:-157.07,-12.67,-0.03:99
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chr1 4051611 rs4548406 T C 78.22 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.20;MQ0=0;OQ=1346.57;QD=28.65;SB=-544.85 GT:AD:DP:GL:GQ 1/1:0,47:44:-138.29,-13.28,-0.05:99
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chr1 4051999 rs12123119 C T 624.91 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2169.89;QD=37.41;SB=-1044.39 GT:AD:DP:GL:GQ 1/1:0,58:55:-220.59,-16.57,-0.02:99
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chr1 4052066 rs4654410 C T 678.96 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.24;MQ0=0;OQ=2087.99;QD=37.96;SB=-873.17 GT:AD:DP:GL:GQ 1/1:0,55:53:-212.40,-15.97,-0.02:99
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chr1 4052788 rs4481820 C A 313.17 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=58.81;MQ0=0;OQ=1188.08;QD=18.86;SB=-612.83 GT:AD:DP:GL:GQ 0/1:26,37:61:-140.47,-18.38,-73.47:99
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chr1 4052947 rs6676961 T G 272.74 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=60.00;MQ0=0;OQ=1401.56;QD=15.75;SB=-713.67 GT:AD:DP:GL:GQ 0/1:39,50:87:-169.64,-26.20,-144.08:99
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chr1 4053067 rs12125719 A G 101.01 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.17;MQ0=0;OQ=1483.09;QD=29.08;SB=-606.95 GT:AD:DP:GL:GQ 1/1:0,51:48:-151.94,-14.48,-0.05:99
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chr1 4053090 rs12125725 A G 83.74 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.17;MQ0=0;OQ=1585.81;QD=31.09;SB=-493.18 GT:AD:DP:GL:GQ 1/1:0,51:49:-162.20,-14.77,-0.03:99
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chr1 4053122 rs12126649 T C 176.61 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=3.71;MQ=59.24;MQ0=0;OQ=907.97;QD=14.88;SB=-331.31 GT:AD:DP:GL:GQ 0/1:25,36:59:-111.87,-17.79,-96.53:99
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chr1 4055170 rs12033210 T C 0.60 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=1.74;MQ=28.53;MQ0=2;OQ=209.19;QD=4.65;SB=-102.57 GT:AD:DP:GL:GQ 0/1:32,13:39:-35.96,-11.75,-110.64:99
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chr1 4056038 rs10799198 G A 260.47 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=3.90;MQ=58.67;MQ0=0;OQ=782.28;QD=15.96;SB=-386.17 GT:AD:DP:GL:GQ 0/1:25,24:47:-95.68,-14.17,-75.73:99
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chr1 4057058 rs4600014 A G 442.87 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=917.69;QD=13.70;SB=-389.30 GT:AD:DP:GL:GQ 0/1:34,33:66:-114.93,-19.88,-136.81:99
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chr1 4057633 rs4361964 G C 120.54 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=2.73;MQ=59.22;MQ0=0;OQ=837.80;QD=15.51;SB=-437.88 GT:AD:DP:GL:GQ 0/1:29,25:53:-103.04,-15.97,-126.00:99
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chr1 4057702 rs4351611 C T 297.44 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=59.56;MQ0=0;OQ=594.05;QD=11.21;SB=-284.78 GT:AD:DP:GL:GQ 0/1:33,20:53:-78.67,-15.98,-105.42:99
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chr1 4057917 . A T 65.58 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.62;MQ0=0;OQ=752.30;QD=12.54;SB=-170.72 GT:AD:DP:GL:GQ 0/1:33,27:58:-95.98,-17.47,-122.23:99
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chr1 4058815 rs10915428 G T 369.02 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=59.39;MQ0=0;OQ=1224.65;QD=16.11;SB=-630.74 GT:AD:DP:GL:GQ 0/1:35,41:75:-148.34,-22.59,-115.71:99
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chr1 4059239 rs10799199 C T 251.96 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.66;MQ0=0;OQ=1243.57;QD=18.84;SB=-304.82 GT:AD:DP:GL:GQ 0/1:29,37:64:-146.92,-19.28,-100.42:99
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chr1 4059378 . C T 11.57 PASS AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=3;HaplotypeScore=0.47;MQ=59.47;MQ0=0;OQ=1236.26;QD=14.72;SB=-551.55 GT:AD:DP:GL:GQ 0/1:45,38:82:-151.61,-24.70,-168.36:99
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chr1 4060338 rs10799200 T C 170.59 PASS AC=1;AF=0.50;AN=2;DB;DP=20;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.06;MQ0=0;OQ=152.75;QD=7.64;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,7:19:-24.28,-5.72,-48.27:99
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chr1 4064782 rs61768818 G A 481.48 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.07;MQ0=0;OQ=848.15;QD=13.90;SB=-350.47 GT:AD:DP:GL:GQ 0/1:34,27:59:-105.87,-17.77,-118.54:99
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chr1 4066674 rs12032257 C T 294.19 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.68;MQ=59.36;MQ0=0;OQ=916.01;QD=14.09;SB=-410.80 GT:AD:DP:GL:GQ 0/1:35,30:64:-114.18,-19.29,-113.47:99
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chr1 4067283 . T C 0.61 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=2;HaplotypeScore=4.39;MQ=59.62;MQ0=0;OQ=557.04;QD=9.13;SB=-241.90 GT:AD:DP:GL:GQ 0/1:35,25:58:-76.48,-17.49,-133.72:99
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chr1 4067926 rs7542313 A G 387.57 PASS AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=220.94;QD=10.52;SB=-100.82 GT:AD:DP:GL:GQ 0/1:11,10:19:-31.10,-5.72,-40.90:99
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chr1 4075727 . C T 158.87 PASS AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.34;MQ=59.67;MQ0=0;OQ=1143.65;QD=16.34;SB=-503.75 GT:AD:DP:GL:GQ 0/1:35,35:66:-137.54,-19.89,-102.02:99
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chr1 4075966 rs6670920 T C 606.24 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=1104.32;QD=15.13;SB=-452.80 GT:AD:DP:GL:GQ 0/1:30,43:71:-135.11,-21.40,-121.92:99
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chr1 4077630 rs4654486 G A 691.51 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2711.47;QD=39.87;SB=-1087.95 GT:AD:DP:GL:GQ 1/1:0,68:68:-274.75,-20.48,-0.02:99
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chr1 4078163 rs10737402 T C 504.16 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=530.04;QD=10.82;SB=-231.26 GT:AD:DP:GL:GQ 0/1:26,23:49:-71.06,-14.78,-100.24:99
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chr1 4080498 rs12042946 T C 249.02 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=60.30;MQ0=0;OQ=891.53;QD=12.56;SB=-237.45 GT:AD:DP:GL:GQ 0/1:37,34:69:-113.22,-20.78,-148.64:99
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chr1 4080702 rs12040805 C T 139.94 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.60;MQ0=0;OQ=776.81;QD=15.54;SB=-108.61 GT:AD:DP:GL:GQ 0/1:26,24:46:-94.83,-13.87,-71.68:99
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chr1 4081256 rs10753367 T C 35.67 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=3;HaplotypeScore=2.04;MQ=59.74;MQ0=0;OQ=1167.96;QD=12.98;SB=-513.88 GT:AD:DP:GL:GQ 0/1:48,42:88:-146.59,-26.51,-188.24:99
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chr1 4081433 rs10799203 T G 17.84 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=0.74;MQ=59.59;MQ0=0;OQ=328.89;QD=7.15;SB=-123.86 GT:AD:DP:GL:GQ 0/1:29,17:43:-49.13,-12.95,-102.00:99
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chr1 4082645 rs4400585 G T 491.60 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=492.73;QD=10.71;SB=-210.53 GT:AD:DP:GL:GQ 0/1:27,19:44:-65.81,-13.26,-82.00:99
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chr1 4082866 rs10915437 A G 75.21 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=4.59;MQ=58.36;MQ0=0;OQ=891.90;QD=12.56;SB=-289.16 GT:AD:DP:GL:GQ 0/1:37,34:68:-112.97,-20.49,-138.67:99
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chr1 4083359 rs56090673 C T 320.01 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1009.69;QD=17.11;SB=-451.46 GT:AD:DP:GL:GQ 0/1:27,32:58:-121.73,-17.48,-93.77:99
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chr1 4083978 rs7531421 A G 116.24 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=57.42;MQ0=0;OQ=435.48;QD=7.02;SB=-215.25 GT:AD:DP:GL:GQ 0/1:41,21:60:-64.91,-18.08,-162.54:99
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chr1 4084862 rs6675734 C T 47.52 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=5.09;MQ=59.20;MQ0=0;OQ=1105.86;QD=19.07;SB=-554.64 GT:AD:DP:GL:GQ 0/1:25,33:57:-131.05,-17.18,-82.44:99
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chr1 4084986 rs10753368 A G 566.85 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=1198.41;QD=14.10;SB=-565.61 GT:AD:DP:GL:GQ 0/1:44,41:83:-148.13,-25.00,-168.94:99
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chr1 4085630 rs6679136 C T 24.06 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=4.32;MQ=58.42;MQ0=0;OQ=804.43;QD=14.36;SB=-252.24 GT:AD:DP:GL:GQ 0/1:29,27:53:-99.70,-15.97,-99.87:99
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chr1 4085663 rs6669476 G A 136.10 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=57.81;MQ0=0;OQ=833.61;QD=13.89;SB=-171.20 GT:AD:DP:GL:GQ 0/1:32,27:56:-103.51,-16.87,-106.04:99
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chr1 4086169 rs6426389 C T 138.99 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=0.83;MQ=59.69;MQ0=0;OQ=1183.25;QD=19.72;SB=-609.44 GT:AD:DP:GL:GQ 0/1:26,34:60:-139.68,-18.07,-94.16:99
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chr1 4086333 rs6663976 C G 599.30 PASS AC=2;AF=1.00;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=3962.79;QD=44.03;SB=-1451.88 GT:AD:DP:GL:GQ 1/1:0,90:89:-395.28,-26.81,-0.02:99
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chr1 4087812 rs4654487 T C 259.04 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.38;MQ=59.52;MQ0=0;OQ=1480.85;QD=30.85;SB=-766.73 GT:AD:DP:GL:GQ 1/1:0,48:47:-151.71,-14.17,-0.04:99
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chr1 4089403 . G C 16.75 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=2.80;MQ=58.74;MQ0=0;QD=0.45;SB=53.21 GT:AD:DP:GL:GQ 0/1:27,10:26:-12.79,-7.84,-102.04:49.49
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chr1 4089489 rs7536041 T C 90.49 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=59.19;MQ0=0;OQ=812.10;QD=15.62;SB=-146.31 GT:AD:DP:GL:GQ 0/1:23,29:51:-99.86,-15.37,-93.49:99
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chr1 4090545 rs4282783 T G 725.47 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=2332.11;QD=35.34;SB=-970.80 GT:AD:DP:GL:GQ 1/1:0,66:66:-236.81,-19.88,-0.02:99
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chr1 4091584 rs4654488 A T 219.84 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=2.30;MQ=60.00;MQ0=0;OQ=743.21;QD=16.52;SB=-370.44 GT:AD:DP:GL:GQ 0/1:20,25:44:-90.86,-13.25,-75.80:99
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chr1 4092168 rs10915441 C G 2.97 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=4;HaplotypeScore=3.62;MQ=59.69;MQ0=0;OQ=1389.48;QD=18.78;SB=-645.48 GT:AD:DP:GL:GQ 0/1:35,39:69:-163.06,-20.83,-116.77:99
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chr1 4092567 rs10915442 A G 394.78 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.42;MQ0=0;OQ=572.04;QD=14.30;SB=-311.22 GT:AD:DP:GL:GQ 0/1:18,22:39:-72.24,-11.76,-67.58:99
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chr1 4093270 rs10799206 C G 674.75 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.42;MQ0=0;OQ=2045.47;QD=38.59;SB=-902.40 GT:AD:DP:GL:GQ 1/1:0,52:50:-208.16,-15.07,-0.02:99
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chr1 4093286 rs12409803 G A 414.64 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=57.03;MQ0=0;OQ=773.71;QD=14.33;SB=-322.45 GT:AD:DP:GL:GQ 0/1:28,26:51:-96.03,-15.38,-79.04:99
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chr1 4093324 rs10915443 G C 254.64 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=58.02;MQ0=0;OQ=1430.72;QD=20.15;SB=-674.45 GT:AD:DP:GL:GQ 0/1:30,40:69:-167.15,-20.79,-134.28:99
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chr1 4093733 rs6693173 A G 464.34 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=1381.36;QD=28.78;SB=-644.93 GT:AD:DP:GL:GQ 1/1:0,48:45:-141.76,-13.57,-0.04:99
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chr1 4094457 rs4131506 A C 340.66 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=59.60;MQ0=0;OQ=704.94;QD=12.15;SB=-316.99 GT:AD:DP:GL:GQ 0/1:32,26:58:-91.25,-17.47,-120.43:99
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chr1 4094660 rs4131508 A G 571.17 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=1332.71;QD=17.31;SB=-634.89 GT:AD:DP:GL:GQ 0/1:33,44:77:-159.75,-23.19,-134.55:99
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chr1 4094683 rs4630099 A G 443.98 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1288.63;QD=16.31;SB=-670.63 GT:AD:DP:GL:GQ 0/1:36,43:77:-155.34,-23.19,-143.15:99
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chr1 4095397 rs10915444 T C 1.76 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=8.82;MQ=58.53;MQ0=0;OQ=789.45;QD=10.25;SB=-380.13 GT:AD:DP:GL:GQ 0/1:49,28:72:-103.91,-21.68,-179.32:99
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chr1 4095558 rs35986531 G A 271.33 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=1.49;MQ=56.64;MQ0=0;OQ=1336.75;QD=16.71;SB=-522.69 GT:AD:DP:GL:GQ 0/1:36,44:75:-159.55,-22.59,-133.47:99
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chr1 4095815 rs12118815 A T 0.50 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=1;HaplotypeScore=13.10;MQ=57.70;MQ0=3;OQ=1249.48;QD=13.88;SB=-570.06 GT:AD:DP:GL:GQ 0/1:44,46:80:-152.33,-24.10,-146.70:99
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chr1 4095919 . A T 39.64 LowQual AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=1.59;MQ=51.56;MQ0=5;QD=0.50;SB=-37.91 GT:AD:DP:GL:GQ 0/1:71,9:66:-27.13,-19.88,-223.94:72.48
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chr1 4096225 . A G 48.26 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=1.44;MQ=52.24;MQ0=7;QD=0.68;SB=74.28 GT:AD:DP:GL:GQ 0/1:64,7:63:-27.09,-18.98,-229.53:81.10
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chr1 4096236 . T G 0.06 PASS AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=54.07;MQ0=3;OQ=91.64;QD=1.31;SB=86.24 GT:AD:DP:GL:GQ 0/1:61,9:66:-32.33,-19.88,-208.22:99
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chr1 4096240 . A T 0.08 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=53.91;MQ0=2;OQ=161.77;QD=2.16;SB=86.29 GT:AD:DP:GL:GQ 0/1:64,11:72:-41.14,-21.68,-231.71:99
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chr1 4096257 . A T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=3.00;MQ=53.32;MQ0=2;OQ=207.48;QD=2.56;SB=92.31 GT:AD:DP:GL:GQ 0/1:68,13:79:-47.82,-23.79,-251.49:99
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chr1 4096278 . A G 232.76 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=0;HaplotypeScore=27.32;MQ=52.46;MQ0=1;QD=2.68;SB=98.35 GT:AD:DP:GL:GQ 0/1:72,15:85:-52.16,-25.60,-288.15:99
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chr1 4096286 . G A 106.04 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=1;HaplotypeScore=48.93;MQ=51.56;MQ0=1;QD=1.18;SB=98.32 GT:AD:DP:GL:GQ 0/1:78,12:85:-39.49,-25.60,-276.62:99
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chr1 4096288 rs34088827 G A 955.67 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=1;HaplotypeScore=48.46;MQ=51.26;MQ0=1;QD=10.62;SB=-379.33 GT:AD:DP:GL:GQ 0/1:57,33:88:-125.36,-26.51,-207.05:99
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chr1 4096294 . A T 86.31 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=1;HaplotypeScore=32.32;MQ=50.46;MQ0=1;QD=0.97;SB=89.30 GT:AD:DP:GL:GQ 0/1:73,16:80:-36.01,-24.10,-264.64:99
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chr1 4096606 rs28726337 A G 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=2;HaplotypeScore=13.44;MQ=43.57;MQ0=1;OQ=262.51;QD=2.76;SB=-123.92 GT:AD:DP:GL:GQ 0/1:75,20:86:-55.44,-25.91,-287.10:99
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chr1 4096617 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=1;HaplotypeScore=34.91;MQ=42.33;MQ0=1;OQ=1160.59;QD=10.01;SB=-606.06 GT:AD:DP:GL:GQ 0/1:70,46:109:-152.17,-32.83,-258.54:99
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chr1 4096620 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=123;Dels=0.01;HRun=0;HaplotypeScore=30.11;MQ=42.25;MQ0=1;OQ=989.14;QD=8.04;SB=-388.23 GT:AD:DP:GL:GQ 0/1:72,50:106:-134.12,-31.93,-263.47:99
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chr1 4096638 rs28412783 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=181;Dels=0.02;HRun=0;HaplotypeScore=64.64;MQ=40.70;MQ0=1;OQ=1178.07;QD=6.51;SB=-446.63 GT:AD:DP:GL:GQ 0/1:123,47:169:-194.38,-73.29,-545.37:99
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chr1 4096655 rs61768832 A G 321.42 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=228;Dels=0.00;HRun=1;HaplotypeScore=261.82;MQ=41.93;MQ0=0;QD=1.41;SB=-157.54 GT:AD:DP:GL:GQ 0/1:199,29:224:-102.90,-67.48,-791.83:99
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chr1 4096678 . T G 1342.80 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=236;Dels=0.00;HRun=0;HaplotypeScore=216.99;MQ=43.01;MQ0=0;QD=5.69;SB=-512.77 GT:AD:DP:GL:GQ 0/1:166,63:218:-227.86,-90.30,-587.53:99
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chr1 4096685 . A G 1626.24 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=239;Dels=0.00;HRun=1;HaplotypeScore=162.66;MQ=41.97;MQ0=0;QD=6.80;SB=-808.35 GT:AD:DP:GL:GQ 0/1:167,72:225:-233.68,-67.78,-652.24:99
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chr1 4096698 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=228;Dels=0.00;HRun=0;HaplotypeScore=76.98;MQ=42.62;MQ0=0;OQ=2269.48;QD=9.95;SB=-1066.45 GT:AD:DP:GL:GQ 0/1:129,90:219:-325.16,-94.93,-493.11:99
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chr1 4096706 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=230;Dels=0.00;HRun=1;HaplotypeScore=79.95;MQ=43.15;MQ0=0;OQ=1034.27;QD=4.50;SB=-170.01 GT:AD:DP:GL:GQ 0/1:185,45:223:-173.88,-67.17,-658.24:99
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chr1 4096718 rs61768834 G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=216;Dels=0.00;HRun=0;HaplotypeScore=38.48;MQ=44.61;MQ0=0;OQ=645.34;QD=2.99;SB=-265.93 GT:AD:DP:GL:GQ 0/1:168,32:157:-165.70,-97.89,-554.00:99
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chr1 4096731 . G A 559.62 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=179;Dels=0.00;HRun=1;HaplotypeScore=83.54;MQ=45.39;MQ0=0;QD=3.13;SB=44.95 GT:AD:DP:GL:GQ 0/1:150,29:155:-105.94,-46.69,-468.61:99
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chr1 4096732 rs61768835 A G 2251.43 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=171;Dels=0.00;HRun=2;HaplotypeScore=115.12;MQ=45.31;MQ0=0;QD=13.17;SB=-1083.79 GT:AD:DP:GL:GQ 0/1:80,91:158:-276.04,-47.61,-312.72:99
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chr1 4096736 rs61768836 A G 2066.81 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=169;Dels=0.02;HRun=0;HaplotypeScore=91.40;MQ=45.63;MQ0=0;QD=12.23;SB=-1029.89 GT:AD:DP:GL:GQ 0/1:85,81:160:-257.27,-47.30,-336.21:99
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chr1 4096755 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=1;HaplotypeScore=46.33;MQ=46.26;MQ0=0;OQ=201.55;QD=1.56;SB=65.52 GT:AD:DP:GL:GQ 0/1:112,17:113:-57.49,-34.05,-383.82:99
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chr1 4096759 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=124;Dels=0.00;HRun=0;HaplotypeScore=42.17;MQ=46.84;MQ0=0;OQ=310.94;QD=2.51;SB=-151.81 GT:AD:DP:GL:GQ 0/1:106,18:122:-71.13,-36.75,-367.88:99
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chr1 4096775 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=0;HaplotypeScore=30.95;MQ=47.51;MQ0=0;OQ=647.24;QD=5.73;SB=52.09 GT:AD:DP:GL:GQ 0/1:87,26:107:-100.24,-32.23,-298.38:99
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chr1 4096805 . A G 20.07 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=109;Dels=0.00;HRun=1;HaplotypeScore=14.94;MQ=48.07;MQ0=0;QD=0.18;SB=107.37 GT:AD:DP:GL:GQ 0/1:94,15:99:-35.11,-29.83,-355.50:52.86
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chr1 4096811 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=1;HaplotypeScore=14.56;MQ=47.07;MQ0=0;OQ=301.49;QD=2.87;SB=92.31 GT:AD:DP:GL:GQ 0/1:85,20:99:-63.26,-29.83,-325.00:99
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chr1 4096845 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=1;HaplotypeScore=27.21;MQ=46.78;MQ0=0;OQ=135.08;QD=1.34;SB=107.37 GT:AD:DP:GL:GQ 0/1:86,15:98:-46.31,-29.52,-344.47:99
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chr1 4096895 rs6702633 G A 282.98 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.30;MQ=48.03;MQ0=0;OQ=1209.14;QD=19.50;SB=-562.59 GT:AD:DP:GL:GQ 0/1:26,36:60:-142.27,-18.07,-91.55:99
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chr1 4097116 rs6663939 C T 575.23 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=1353.52;QD=17.35;SB=-623.00 GT:AD:DP:GL:GQ 0/1:38,40:78:-162.13,-23.49,-140.27:99
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chr1 4097278 rs4408122 C T 90.17 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=3.55;MQ=60.00;MQ0=0;OQ=1285.61;QD=19.78;SB=-663.71 GT:AD:DP:GL:GQ 0/1:26,39:64:-151.13,-19.28,-94.25:99
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chr1 4097502 rs10915445 G A 15.47 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=4.76;MQ=58.14;MQ0=0;OQ=1551.73;QD=21.26;SB=-659.25 GT:AD:DP:GL:GQ 0/1:29,44:69:-179.24,-20.78,-91.34:99
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chr1 4097702 rs4233259 G A 393.71 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=57.88;MQ0=0;OQ=488.96;QD=11.64;SB=-238.49 GT:AD:DP:GL:GQ 0/1:23,19:39:-63.93,-11.75,-79.38:99
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chr1 4097847 rs4233260 A G 265.81 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=58.25;MQ0=0;OQ=841.80;QD=15.31;SB=-425.02 GT:AD:DP:GL:GQ 0/1:21,34:53:-103.45,-15.98,-81.47:99
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chr1 4098460 rs4654489 C T 575.94 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=1233.62;QD=17.37;SB=-483.09 GT:AD:DP:GL:GQ 0/1:34,37:71:-148.05,-21.40,-108.91:99
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chr1 4098462 rs4654412 C G 408.58 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=1295.21;QD=18.24;SB=-423.31 GT:AD:DP:GL:GQ 0/1:36,35:70:-153.90,-21.10,-151.48:99
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chr1 4098561 rs4654490 T C 109.69 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=5.61;MQ=59.35;MQ0=0;OQ=707.20;QD=11.05;SB=-320.12 GT:AD:DP:GL:GQ 0/1:35,29:62:-92.69,-18.69,-135.70:99
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chr1 4098636 rs4654491 A T 298.65 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.55;MQ=58.32;MQ0=0;OQ=679.16;QD=12.81;SB=-348.54 GT:AD:DP:GL:GQ 0/1:28,25:51:-86.56,-15.36,-108.00:99
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chr1 4101675 rs4654492 C T 166.06 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=985.64;QD=17.92;SB=-310.22 GT:AD:DP:GL:GQ 0/1:24,31:53:-117.81,-15.96,-85.09:99
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chr1 4102203 rs10799207 G A 234.26 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=645.03;QD=15.36;SB=-340.37 GT:AD:DP:GL:GQ 0/1:22,20:41:-80.15,-12.36,-66.12:99
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chr1 4102678 rs7542208 A G 473.41 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=58.58;MQ0=0;OQ=945.73;QD=14.78;SB=-439.91 GT:AD:DP:GL:GQ 0/1:26,38:62:-116.54,-18.69,-104.23:99
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chr1 4102853 rs12143662 C T 77.17 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=3.06;MQ=59.31;MQ0=0;OQ=653.08;QD=14.51;SB=-306.78 GT:AD:DP:GL:GQ 0/1:23,22:43:-81.54,-12.95,-84.16:99
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chr1 4103423 rs12096127 C T 146.81 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=3;HaplotypeScore=0.93;MQ=59.48;MQ0=0;OQ=1299.31;QD=16.24;SB=-452.94 GT:AD:DP:GL:GQ 0/1:42,38:79:-157.01,-23.79,-152.41:99
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chr1 4104350 . G A 39.75 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=50.14;MQ=43.88;MQ0=0;QD=0.41;SB=41.13 GT:AD:DP:GL:GQ 0/1:55,43:59:-25.05,-17.79,-166.63:72.58
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chr1 4104372 . C A 158.64 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=1;HaplotypeScore=261.20;MQ=40.26;MQ0=0;QD=1.18;SB=50.16 GT:AD:DP:GL:GQ 0/1:118,16:102:-49.87,-30.72,-316.01:99
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chr1 4104378 . T C 1045.41 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=132;Dels=0.09;HRun=0;HaplotypeScore=252.28;MQ=39.40;MQ0=0;QD=7.92;SB=47.18 GT:AD:DP:GL:GQ 0/1:70,50:112:-140.05,-32.23,-268.85:99
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chr1 4104379 . G A 1387.27 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=131;Dels=0.09;HRun=0;HaplotypeScore=164.33;MQ=39.20;MQ0=0;QD=10.59;SB=44.10 GT:AD:DP:GL:GQ 0/1:65,54:109:-173.34,-31.33,-223.67:99
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chr1 4104399 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=192;Dels=0.00;HRun=0;HaplotypeScore=398.28;MQ=38.87;MQ0=2;OQ=296.43;QD=1.54;SB=-98.03 GT:AD:DP:GL:GQ 0/1:164,28:154:-79.31,-46.39,-472.12:99
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chr1 4104401 rs61768839 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=194;Dels=0.00;HRun=0;HaplotypeScore=419.03;MQ=39.00;MQ0=2;OQ=166.93;QD=0.86;SB=-91.09 GT:AD:DP:GL:GQ 0/1:156,37:153:-66.06,-46.09,-471.26:99
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chr1 4104420 rs56397723 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=252;Dels=0.01;HRun=1;HaplotypeScore=92.55;MQ=41.09;MQ0=3;OQ=4650.56;QD=18.45;SB=-702.42 GT:AD:DP:GL:GQ 0/1:91,159:212:-464.06,-63.56,-317.29:99
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chr1 4104448 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=303;Dels=0.00;HRun=1;HaplotypeScore=67.42;MQ=41.21;MQ0=8;OQ=4147.70;QD=13.69;SB=-263.14 GT:AD:DP:GL:GQ 0/1:172,131:260:-413.77,-78.32,-559.37:99
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chr1 4104453 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=303;Dels=0.00;HRun=0;HaplotypeScore=122.24;MQ=41.63;MQ0=7;OQ=1110.55;QD=3.67;SB=-37.03 GT:AD:DP:GL:GQ 0/1:232,70:246:-188.46,-74.12,-759.14:99
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chr1 4104461 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=296;Dels=0.01;HRun=1;HaplotypeScore=119.61;MQ=41.59;MQ0=7;OQ=214.27;QD=0.72;SB=-23.14 GT:AD:DP:GL:GQ 0/1:251,42:244:-97.34,-72.63,-828.00:99
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chr1 4104464 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=293;Dels=0.00;HRun=0;HaplotypeScore=47.37;MQ=41.56;MQ0=7;OQ=330.17;QD=1.13;SB=-9.81 GT:AD:DP:GL:GQ 0/1:251,41:246:-110.42,-74.12,-748.00:99
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chr1 4104493 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=213;Dels=0.00;HRun=1;HaplotypeScore=30.82;MQ=42.50;MQ0=6;OQ=2710.70;QD=12.73;SB=-739.33 GT:AD:DP:GL:GQ 0/1:93,120:174:-326.79,-52.44,-298.85:99
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chr1 4104517 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=157;Dels=0.00;HRun=0;HaplotypeScore=91.08;MQ=42.89;MQ0=5;OQ=579.51;QD=3.69;SB=-277.61 GT:AD:DP:GL:GQ 0/1:123,34:134:-101.62,-40.38,-368.83:99
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chr1 4104540 rs62641248 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=101.41;MQ=39.74;MQ0=1;OQ=311.08;QD=3.34;SB=-25.45 GT:AD:DP:GL:GQ 0/1:75,18:80:-58.50,-24.10,-250.10:99
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chr1 4104551 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=87.22;MQ=37.20;MQ0=4;OQ=331.14;QD=4.87;SB=-44.20 GT:AD:DP:GL:GQ 0/1:51,17:54:-52.67,-16.27,-140.50:99
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chr1 4104561 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=0;HaplotypeScore=32.90;MQ=39.14;MQ0=4;OQ=99.56;QD=1.56;SB=92.30 GT:AD:DP:GL:GQ 0/1:53,11:58:-30.72,-17.48,-172.38:99
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chr1 4104601 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=204;Dels=0.00;HRun=0;HaplotypeScore=38.41;MQ=39.91;MQ0=6;OQ=155.34;QD=0.76;SB=68.34 GT:AD:DP:GL:GQ 0/1:183,21:180:-73.04,-54.23,-586.07:99
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chr1 4104605 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=211;Dels=0.00;HRun=1;HaplotypeScore=39.02;MQ=40.58;MQ0=6;OQ=226.77;QD=1.07;SB=164.51 GT:AD:DP:GL:GQ 0/1:188,23:190:-83.19,-57.23,-627.45:99
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chr1 4104633 rs56023565 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=168;Dels=0.00;HRun=0;HaplotypeScore=43.28;MQ=41.56;MQ0=5;OQ=1077.06;QD=6.41;SB=128.56 GT:AD:DP:GL:GQ 0/1:117,50:150:-156.17,-45.18,-408.43:99
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chr1 4104638 rs62641251 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=155;Dels=0.00;HRun=1;HaplotypeScore=82.61;MQ=42.16;MQ0=4;OQ=1017.44;QD=6.56;SB=-202.97 GT:AD:DP:GL:GQ 0/1:99,56:128:-143.60,-38.57,-325.85:99
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chr1 4104646 rs56328141 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=133;Dels=0.05;HRun=0;HaplotypeScore=83.44;MQ=42.94;MQ0=3;OQ=598.93;QD=4.50;SB=-113.26 GT:AD:DP:GL:GQ 0/1:76,33:104:-104.27,-41.10,-292.97:99
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chr1 4104661 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=114;Dels=0.03;HRun=0;HaplotypeScore=168.88;MQ=43.79;MQ0=2;OQ=339.54;QD=2.98;SB=-7.31 GT:AD:DP:GL:GQ 0/1:92,17:99:-69.57,-32.33,-280.39:99
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chr1 4104695 rs58865682 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=107;Dels=0.00;HRun=0;HaplotypeScore=26.95;MQ=46.39;MQ0=1;OQ=148.27;QD=1.39;SB=113.35 GT:AD:DP:GL:GQ 0/1:90,17:100:-48.23,-30.12,-318.63:99
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chr1 4104698 rs59763636 A C 13.51 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=104;Dels=0.00;HRun=0;HaplotypeScore=26.94;MQ=46.80;MQ0=1;QD=0.13;SB=110.36 GT:AD:DP:GL:GQ 0/1:87,17:97:-33.83,-29.22,-321.32:46.15
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chr1 4104799 rs56113813 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=1;HaplotypeScore=110.54;MQ=45.23;MQ0=4;OQ=195.94;QD=2.13;SB=86.31 GT:AD:DP:GL:GQ 0/1:78,14:77:-46.07,-23.20,-257.99:99
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chr1 4106070 rs9426471 T C 595.81 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=1098.91;QD=16.16;SB=-453.97 GT:AD:DP:GL:GQ 0/1:32,36:68:-133.66,-20.48,-129.09:99
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chr1 4106148 rs9426494 C T 344.56 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=60.00;MQ0=0;OQ=1566.25;QD=17.40;SB=-768.74 GT:AD:DP:GL:GQ 0/1:44,46:88:-186.42,-26.51,-142.07:99
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chr1 4107203 rs6680278 C T 328.94 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.92;MQ0=0;OQ=777.87;QD=13.89;SB=-285.17 GT:AD:DP:GL:GQ 0/1:32,24:55:-97.64,-16.57,-110.93:99
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chr1 4107258 rs6672998 G A 334.86 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=520.45;QD=13.01;SB=-193.18 GT:AD:DP:GL:GQ 0/1:23,17:40:-67.38,-12.05,-82.67:99
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chr1 4107272 rs17406305 C T 361.32 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=60.00;MQ0=0;OQ=435.04;QD=9.89;SB=-220.70 GT:AD:DP:GL:GQ 0/1:26,18:41:-59.15,-12.36,-84.72:99
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chr1 4108156 rs7528351 G A 171.64 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=60.00;MQ0=0;OQ=978.84;QD=16.88;SB=-340.32 GT:AD:DP:GL:GQ 0/1:29,29:58:-118.64,-17.47,-104.14:99
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chr1 4108402 rs7539733 C T 327.50 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=58.92;MQ0=0;OQ=799.67;QD=15.38;SB=-336.43 GT:AD:DP:GL:GQ 0/1:24,28:47:-97.41,-14.16,-80.03:99
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chr1 4108778 rs9426495 G A 284.61 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=3.59;MQ=59.34;MQ0=0;OQ=895.14;QD=14.21;SB=-321.33 GT:AD:DP:GL:GQ 0/1:34,29:62:-111.48,-18.68,-120.65:99
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chr1 4108797 rs9426472 G C 415.96 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.20;MQ=59.27;MQ0=0;OQ=1011.60;QD=17.75;SB=-519.74 GT:AD:DP:GL:GQ 0/1:27,30:53:-120.42,-15.97,-106.06:99
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chr1 4109900 . A G 31.51 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=2;HaplotypeScore=6.53;MQ=57.95;MQ0=0;QD=0.55;SB=59.23 GT:AD:DP:GL:GQ 0/1:35,22:36:-17.29,-10.85,-119.86:64.34
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chr1 4110024 rs6690263 C T 117.28 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=60.00;MQ0=0;OQ=1118.91;QD=21.11;SB=-400.94 GT:AD:DP:GL:GQ 0/1:20,32:53:-134.68,-19.51,-68.02:99
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chr1 4110064 rs6695126 A G 708.48 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1770.58;QD=35.41;SB=-875.05 GT:AD:DP:GL:GQ 1/1:0,50:50:-180.66,-15.06,-0.02:99
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chr1 4110262 rs6683453 G A 435.74 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.65;MQ0=0;OQ=1205.59;QD=18.27;SB=-574.05 GT:AD:DP:GL:GQ 0/1:29,37:64:-143.13,-19.28,-100.61:99
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chr1 4110315 rs9426473 G A 464.67 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=896.46;QD=18.68;SB=-396.93 GT:AD:DP:GL:GQ 0/1:19,29:46:-106.79,-13.86,-67.55:99
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chr1 4110338 rs9426496 A G 430.77 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=545.25;QD=11.36;SB=-275.98 GT:AD:DP:GL:GQ 0/1:25,23:47:-71.97,-14.16,-100.50:99
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chr1 4111600 rs12752733 G A 194.11 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=59.12;MQ0=0;OQ=1088.74;QD=20.54;SB=-407.75 GT:AD:DP:GL:GQ 0/1:20,33:51:-127.52,-15.37,-66.14:99
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chr1 4111741 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=11;HaplotypeScore=4.85;MQ=55.91;MQ0=0;OQ=88.59;QD=2.16;SB=32.11 GT:AD:DP:GL:GQ 0/1:33,8:32:-21.79,-9.64,-86.81:99
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chr1 4112024 . C T 265.51 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.50;MQ0=0;OQ=941.42;QD=16.81;SB=-396.13 GT:AD:DP:GL:GQ 0/1:27,29:55:-113.99,-16.57,-97.04:99
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chr1 4112929 rs4654494 C G 169.07 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=2.42;MQ=60.00;MQ0=0;OQ=822.69;QD=13.27;SB=-341.77 GT:AD:DP:GL:GQ 0/1:34,28:54:-101.84,-16.28,-127.78:99
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chr1 4113201 rs55759139 G A 249.56 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.37;MQ=59.68;MQ0=0;OQ=761.01;QD=13.12;SB=-311.83 GT:AD:DP:GL:GQ 0/1:32,26:53:-95.35,-15.97,-100.34:99
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chr1 4113760 rs4498774 A C 130.48 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.50;MQ=58.71;MQ0=0;OQ=628.38;QD=9.67;SB=-313.59 GT:AD:DP:GL:GQ 0/1:36,29:64:-85.41,-19.28,-138.00:99
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chr1 4114825 rs7339911 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=10;HaplotypeScore=3.32;MQ=58.55;MQ0=0;OQ=757.63;QD=12.42;SB=-183.20 GT:AD:DP:GL:GQ 0/1:36,25:59:-96.82,-17.77,-126.07:99
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chr1 4116025 rs9988443 G A 336.18 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.45;MQ0=0;OQ=1567.78;QD=20.63;SB=-720.28 GT:AD:DP:GL:GQ 0/1:30,46:75:-182.67,-22.61,-94.32:99
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chr1 4116630 rs4336820 T C 72.02 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.26;MQ=59.52;MQ0=0;OQ=1667.19;QD=34.73;SB=-687.27 GT:AD:DP:GL:GQ 1/1:0,48:47:-170.32,-14.16,-0.01:99
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chr1 4116791 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=2;HaplotypeScore=12.66;MQ=58.95;MQ0=0;OQ=57.38;QD=1.43;SB=71.25 GT:AD:DP:GL:GQ 0/1:31,9:34:-19.31,-10.29,-109.30:90.22
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chr1 4117150 rs12062237 T C 0.56 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=3;HaplotypeScore=3.14;MQ=57.94;MQ0=0;OQ=1345.47;QD=32.82;SB=-624.25 GT:AD:DP:GL:GQ 1/1:0,41:39:-138.15,-11.75,-0.02:99
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chr1 4118916 rs3890798 A G 534.42 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.32;MQ0=0;OQ=2055.84;QD=30.23;SB=-868.59 GT:AD:DP:GL:GQ 1/1:0,68:65:-209.23,-19.60,-0.06:99
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chr1 4119595 rs6426391 A T 243.50 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=1.16;MQ=59.73;MQ0=0;OQ=1272.79;QD=18.45;SB=-602.37 GT:AD:DP:GL:GQ 0/1:28,41:68:-151.04,-20.48,-104.90:99
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chr1 4119856 . G A 80.75 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=54.88;MQ0=1;OQ=952.98;QD=16.15;SB=-461.48 GT:AD:DP:GL:GQ 0/1:28,31:56:-115.46,-16.88,-95.51:99
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chr1 4120161 rs7549636 G A 106.14 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=3.96;MQ=59.21;MQ0=1;OQ=708.05;QD=15.39;SB=-359.50 GT:AD:DP:GL:GQ 0/1:23,23:43:-87.04,-12.95,-74.47:99
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chr1 4120271 rs6426392 T C 252.19 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.44;MQ0=0;OQ=208.98;QD=7.74;SB=-130.51 GT:AD:DP:GL:GQ 0/1:16,11:25:-31.72,-7.54,-55.62:99
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chr1 4121295 rs4414012 C T 109.52 PASS AC=1;AF=0.50;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=243.26;QD=16.22;SB=-32.52 GT:AD:DP:GL:GQ 0/1:7,8:15:-32.13,-4.52,-23.19:99
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chr1 4121459 rs4614226 C T 3.52 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.33;MQ0=0;OQ=708.73;QD=25.31;SB=-192.72 GT:AD:DP:GL:GQ 0/1:8,20:25:-81.69,-7.53,-15.26:77.23
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chr1 4122266 rs4654495 C T 267.28 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.05;MQ0=0;OQ=844.66;QD=17.24;SB=-383.42 GT:AD:DP:GL:GQ 0/1:22,27:48:-102.21,-14.46,-81.80:99
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chr1 4122640 . C T 27.21 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=8;Dels=0.00;HRun=1;HaplotypeScore=9.85;MQ=48.82;MQ0=0;QD=3.40;SB=2.03 GT:AD:DP:GL:GQ 0/1:6,2:7:-8.11,-2.11,-18.35:60.04
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chr1 4122866 rs4654413 A G 16.01 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.58;MQ0=0;OQ=1224.52;QD=28.48;SB=-81.37 GT:AD:DP:GL:GQ 1/1:0,43:41:-126.09,-12.38,-0.05:99
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chr1 4122935 rs4654414 G A 17.67 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=53.29;MQ0=0;OQ=1666.36;QD=36.23;SB=-267.85 GT:AD:DP:GL:GQ 1/1:1,45:42:-170.23,-12.65,-0.01:99
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chr1 4123288 rs4233261 T C 17.26 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=4.16;MQ=58.63;MQ0=0;OQ=2395.13;QD=34.71;SB=-1054.42 GT:AD:DP:GL:GQ 1/1:0,69:66:-243.12,-19.88,-0.02:99
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chr1 4123748 rs6679293 T C 176.14 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.14;MQ0=0;OQ=1906.56;QD=31.26;SB=-831.63 GT:AD:DP:GL:GQ 1/1:0,61:59:-194.29,-17.79,-0.05:99
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chr1 4123963 rs4654496 C T 83.64 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=60.00;MQ0=0;OQ=2067.60;QD=39.01;SB=-750.62 GT:AD:DP:GL:GQ 1/1:0,53:53:-210.36,-15.97,-0.02:99
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chr1 4124418 rs4654497 T C 597.93 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.67;MQ0=0;OQ=1506.19;QD=30.74;SB=-582.98 GT:AD:DP:GL:GQ 1/1:0,49:47:-154.24,-14.17,-0.04:99
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chr1 4126306 rs4367764 C T 454.46 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2115.14;QD=39.17;SB=-864.64 GT:AD:DP:GL:GQ 1/1:0,54:53:-215.11,-15.97,-0.01:99
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chr1 4127324 rs12123330 C T 249.14 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1048.68;QD=17.77;SB=-496.03 GT:AD:DP:GL:GQ 0/1:27,32:56:-125.03,-16.88,-80.71:99
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chr1 4127494 rs4468133 G A 195.33 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=2.26;MQ=60.00;MQ0=0;OQ=1260.59;QD=18.01;SB=-425.95 GT:AD:DP:GL:GQ 0/1:31,38:68:-152.64,-23.30,-109.48:99
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chr1 4128172 rs4654498 A G 107.28 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.33;MQ=59.19;MQ0=0;OQ=2014.82;QD=35.35;SB=-1032.76 GT:AD:DP:GL:GQ 1/1:0,57:56:-205.08,-16.87,-0.01:99
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chr1 4128310 rs4654499 G T 305.85 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=983.44;QD=17.88;SB=-296.34 GT:AD:DP:GL:GQ 0/1:22,33:55:-118.19,-16.56,-78.95:99
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chr1 4130572 rs3890729 A T 141.84 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.07;MQ=59.18;MQ0=0;OQ=905.47;QD=17.75;SB=-227.90 GT:AD:DP:GL:GQ 0/1:23,28:51:-109.19,-15.36,-88.04:99
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chr1 4131311 rs10915460 G A 189.99 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.33;MQ=57.39;MQ0=0;OQ=480.50;QD=13.35;SB=-233.54 GT:AD:DP:GL:GQ 0/1:19,17:33:-61.28,-9.95,-54.49:99
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chr1 4131491 rs10915461 A G 151.47 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=2.56;MQ=51.87;MQ0=0;OQ=492.21;QD=9.65;SB=-268.94 GT:AD:DP:GL:GQ 0/1:28,23:49:-67.28,-14.77,-113.16:99
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chr1 4131545 rs10915462 T C 155.98 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=54.56;MQ0=0;OQ=299.94;QD=7.69;SB=-143.28 GT:AD:DP:GL:GQ 0/1:25,14:37:-44.43,-11.15,-99.76:99
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chr1 4131617 rs6688343 T C 208.72 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=2.28;MQ=58.31;MQ0=0;OQ=662.26;QD=13.25;SB=-230.45 GT:AD:DP:GL:GQ 0/1:25,25:48:-83.97,-14.46,-97.39:99
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chr1 4131656 rs6688428 T C 133.26 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.51;MQ=58.40;MQ0=0;OQ=444.13;QD=10.83;SB=-97.71 GT:AD:DP:GL:GQ 0/1:22,19:40:-59.75,-12.06,-84.80:99
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chr1 4131666 rs6688431 T C 70.94 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=58.40;MQ0=0;OQ=339.10;QD=8.27;SB=-98.71 GT:AD:DP:GL:GQ 0/1:23,18:37:-48.34,-11.15,-87.20:99
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chr1 4131704 . G A 41.43 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.69;MQ=58.60;MQ0=0;OQ=706.66;QD=14.13;SB=-238.75 GT:AD:DP:GL:GQ 0/1:28,22:49:-88.72,-14.77,-84.55:99
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chr1 4131824 rs12032295 C T 752.83 Indel AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.96;MQ0=0;QD=14.20;SB=-367.84 GT:AD:DP:GL:GQ 0/1:30,23:51:-93.93,-15.37,-94.00:99
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chr1 4132377 rs12405392 C T 226.32 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=4.69;MQ=59.66;MQ0=0;OQ=1021.86;QD=15.03;SB=-451.99 GT:AD:DP:GL:GQ 0/1:34,34:62:-124.15,-18.68,-109.47:99
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chr1 4132399 rs56827341 A G 272.74 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=59.66;MQ0=0;OQ=903.58;QD=13.29;SB=-319.89 GT:AD:DP:GL:GQ 0/1:32,36:65:-113.24,-19.60,-113.27:99
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chr1 4132555 rs11580927 G A 598.05 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=853.00;QD=13.76;SB=-450.44 GT:AD:DP:GL:GQ 0/1:34,28:61:-106.96,-18.38,-120.31:99
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chr1 4132654 rs11583685 T C 237.59 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=2.58;MQ=60.00;MQ0=0;OQ=809.75;QD=12.46;SB=-338.53 GT:AD:DP:GL:GQ 0/1:35,30:64:-103.54,-19.28,-136.81:99
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chr1 4134373 rs6690519 C T 596.27 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2577.92;QD=39.66;SB=-1051.40 GT:AD:DP:GL:GQ 1/1:0,65:64:-261.39,-19.28,-0.02:99
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chr1 4134652 rs12743431 G A 916.73 Indel AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=58.05;MQ0=0;QD=16.08;SB=-472.04 GT:AD:DP:GL:GQ 0/1:25,32:53:-110.92,-15.97,-91.04:99
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chr1 4134672 rs61037363 C T 207.69 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=58.34;MQ0=0;OQ=1244.96;QD=19.15;SB=-619.07 GT:AD:DP:GL:GQ 0/1:27,38:61:-146.16,-18.38,-83.21:99
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chr1 4135628 rs4654501 G A 449.34 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.45;MQ0=0;OQ=800.03;QD=17.78;SB=-327.85 GT:AD:DP:GL:GQ 0/1:21,24:44:-96.54,-13.26,-71.19:99
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chr1 4136297 rs4531262 C T 292.38 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.55;MQ0=0;OQ=900.23;QD=17.65;SB=-443.97 GT:AD:DP:GL:GQ 0/1:23,28:50:-108.37,-15.06,-81.34:99
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chr1 4136842 rs4233262 C T 514.56 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1175.57;QD=19.27;SB=-513.00 GT:AD:DP:GL:GQ 0/1:27,34:61:-139.22,-18.38,-97.14:99
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chr1 4137022 rs12726068 G A 202.41 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1078.50;QD=19.97;SB=-346.48 GT:AD:DP:GL:GQ 0/1:22,32:54:-127.40,-16.27,-78.49:99
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chr1 4137146 rs12741551 C T 188.79 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=2.60;MQ=60.00;MQ0=0;OQ=744.97;QD=14.06;SB=-275.26 GT:AD:DP:GL:GQ 0/1:28,23:51:-95.75,-17.97,-99.94:99
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chr1 4137455 rs34927664 C T 374.06 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.87;MQ0=0;OQ=672.79;QD=16.41;SB=-286.16 GT:AD:DP:GL:GQ 0/1:20,21:40:-82.61,-12.05,-71.71:99
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chr1 4137533 rs6687719 A G 359.14 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.55;MQ0=0;OQ=693.89;QD=13.61;SB=-371.11 GT:AD:DP:GL:GQ 0/1:24,27:51:-88.05,-15.37,-93.98:99
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chr1 4137942 rs4654415 A G 54.66 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=3;HaplotypeScore=0.52;MQ=59.28;MQ0=0;OQ=812.82;QD=15.63;SB=-375.38 GT:AD:DP:GL:GQ 0/1:23,29:51:-99.93,-15.36,-91.58:99
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chr1 4137964 rs4654416 T C 201.40 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.49;MQ=58.39;MQ0=0;OQ=863.33;QD=15.70;SB=-318.29 GT:AD:DP:GL:GQ 0/1:25,30:54:-105.89,-16.27,-96.91:99
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chr1 4138124 rs4654417 A G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.04;HRun=0;HaplotypeScore=22.45;MQ=53.05;MQ0=0;OQ=979.60;QD=14.62;SB=-425.14 GT:AD:DP:GL:GQ 0/1:30,34:67:-120.52,-19.28,-120.75:99
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chr1 4138539 rs10915465 C T 116.34 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=932.04;QD=16.95;SB=-231.54 GT:AD:DP:GL:GQ 0/1:26,28:51:-111.86,-15.37,-73.76:99
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chr1 4138848 rs4233263 T C 563.43 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.57;MQ0=0;OQ=1932.95;QD=31.18;SB=-950.38 GT:AD:DP:GL:GQ 1/1:0,61:61:-196.93,-18.40,-0.06:99
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chr1 4140038 rs4233264 T C 391.03 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.43;MQ0=0;OQ=1125.34;QD=13.89;SB=-437.57 GT:AD:DP:GL:GQ 0/1:41,40:80:-139.92,-24.10,-167.96:99
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chr1 4140287 rs4654502 A G 258.40 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=716.89;QD=12.36;SB=-328.15 GT:AD:DP:GL:GQ 0/1:28,30:57:-92.15,-17.18,-113.12:99
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chr1 4140357 rs4654503 A G 175.10 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.08;MQ=60.00;MQ0=0;OQ=528.96;QD=9.98;SB=-287.63 GT:AD:DP:GL:GQ 0/1:26,24:47:-70.35,-14.17,-96.77:99
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chr1 4140721 rs12074230 G C 441.98 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.79;MQ0=0;OQ=1211.59;QD=19.54;SB=-432.34 GT:AD:DP:GL:GQ 0/1:29,33:61:-142.82,-18.38,-122.06:99
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chr1 4141214 rs61770887 T A 176.81 Indel AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=41.85;MQ0=5;QD=2.39;SB=-58.97 GT:AD:DP:GL:GQ 0/1:35,39:44:-34.22,-13.25,-135.84:99
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chr1 4141739 . C G 151.90 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.44;MQ0=0;OQ=861.28;QD=11.64;SB=-403.50 GT:AD:DP:GL:GQ 0/1:45,29:72:-111.12,-21.71,-193.89:99
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chr1 4143108 rs7544125 G A 98.23 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=44.58;MQ0=4;OQ=463.56;QD=6.62;SB=-223.67 GT:AD:DP:GL:GQ 0/1:38,32:54:-65.91,-16.27,-136.81:99
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chr1 4143110 rs7515133 T G 11.80 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=44.83;MQ0=4;OQ=280.65;QD=3.95;SB=-136.72 GT:AD:DP:GL:GQ 0/1:40,31:55:-47.92,-16.57,-148.31:99
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chr1 4143183 rs4408123 T C 60.26 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=1.41;MQ=54.71;MQ0=0;OQ=2012.85;QD=31.45;SB=-855.54 GT:AD:DP:GL:GQ 1/1:0,63:62:-204.92,-18.70,-0.05:99
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chr1 4143665 rs4654505 C T 14.05 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=7.02;MQ=58.52;MQ0=0;OQ=1278.62;QD=17.05;SB=-644.75 GT:AD:DP:GL:GQ 0/1:36,39:72:-152.84,-21.70,-110.95:99
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chr1 4143971 rs56322069 G A 219.93 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=3.37;MQ=58.68;MQ0=0;OQ=1179.12;QD=14.38;SB=-509.98 GT:AD:DP:GL:GQ 0/1:47,35:78:-144.69,-23.49,-153.28:99
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chr1 4144717 rs4654419 G T 409.69 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=53.48;MQ0=0;OQ=576.97;QD=11.10;SB=-278.60 GT:AD:DP:GL:GQ 0/1:31,21:52:-76.65,-15.66,-108.30:99
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chr1 4144899 rs4654506 A G 59.06 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=3;HaplotypeScore=1.57;MQ=57.19;MQ0=0;OQ=798.47;QD=12.67;SB=-355.09 GT:AD:DP:GL:GQ 0/1:32,31:63:-102.12,-18.99,-128.03:99
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chr1 4145034 rs4654420 T C 208.27 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=57.63;MQ0=0;OQ=567.20;QD=9.30;SB=-299.19 GT:AD:DP:GL:GQ 0/1:35,26:59:-77.79,-17.78,-138.00:99
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chr1 4145265 rs10799210 A G 75.28 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=52.55;MQ0=0;OQ=2612.65;QD=35.79;SB=-1182.09 GT:AD:DP:GL:GQ 1/1:0,72:73:-267.51,-24.47,-2.66:99
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chr1 4146179 rs4354511 G A 19.37 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=3;HaplotypeScore=1.79;MQ=39.00;MQ0=1;OQ=2945.76;QD=39.28;SB=-1473.93 GT:AD:DP:GL:GQ 1/1:0,75:73:-298.18,-21.99,-0.02:99
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chr1 4146185 rs61770891 T G 349.70 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=40.44;MQ0=1;OQ=1123.38;QD=15.18;SB=-586.47 GT:AD:DP:GL:GQ 0/1:35,39:73:-137.61,-21.99,-124.99:99
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chr1 4146278 rs35969529 A C 46.41 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=2.80;MQ=52.18;MQ0=0;OQ=652.54;QD=12.55;SB=-341.77 GT:AD:DP:GL:GQ 0/1:27,25:52:-84.21,-15.67,-95.88:99
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chr1 4146315 rs34096100 G A 254.13 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=57.76;MQ0=0;OQ=657.20;QD=13.41;SB=-218.51 GT:AD:DP:GL:GQ 0/1:28,21:47:-83.18,-14.17,-82.42:99
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chr1 4146537 . C T 111.88 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=53.66;MQ0=1;OQ=1107.86;QD=16.06;SB=-448.39 GT:AD:DP:GL:GQ 0/1:34,35:67:-134.26,-20.19,-114.24:99
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chr1 4146953 rs4654421 T C 433.26 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.82;MQ0=0;OQ=2189.94;QD=31.74;SB=-1040.77 GT:AD:DP:GL:GQ 1/1:0,69:68:-222.64,-20.51,-0.06:99
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chr1 4147013 rs4654422 T A 163.99 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.20;MQ0=1;OQ=3024.40;QD=36.88;SB=-1331.44 GT:AD:DP:GL:GQ 1/1:1,80:81:-309.61,-27.75,-3.59:99
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chr1 4148323 rs35837871 C T 12.81 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=2.85;MQ=58.88;MQ0=0;OQ=689.43;QD=12.77;SB=-158.63 GT:AD:DP:GL:GQ 0/1:29,24:49:-86.99,-14.77,-93.34:99
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chr1 4148556 rs10753370 A G 191.60 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.30;MQ=57.40;MQ0=0;OQ=2083.85;QD=34.73;SB=-1040.92 GT:AD:DP:GL:GQ 1/1:0,60:59:-211.99,-17.77,-0.02:99
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chr1 4149011 rs12084286 A G 120.11 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=57.86;MQ0=0;OQ=472.12;QD=10.26;SB=-116.70 GT:AD:DP:GL:GQ 0/1:26,20:42:-63.15,-12.65,-98.66:99
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chr1 4149320 rs10733015 T C 59.23 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=3.72;MQ=56.65;MQ0=0;OQ=2004.37;QD=30.37;SB=-729.73 GT:AD:DP:GL:GQ 1/1:0,65:63:-204.08,-19.00,-0.06:99
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chr1 4149923 rs4654507 T C 369.93 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.77;MQ0=0;OQ=1162.12;QD=14.53;SB=-509.31 GT:AD:DP:GL:GQ 0/1:40,40:79:-143.29,-23.80,-162.73:99
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chr1 4150793 rs11808641 A G 288.49 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.73;MQ0=0;OQ=1163.51;QD=16.62;SB=-493.62 GT:AD:DP:GL:GQ 0/1:32,38:70:-140.72,-21.09,-129.98:99
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chr1 4151258 rs35392680 C A 277.92 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=1.25;MQ=59.48;MQ0=0;OQ=1358.51;QD=16.77;SB=-581.67 GT:AD:DP:GL:GQ 0/1:37,44:80:-163.23,-24.09,-127.72:99
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chr1 4151486 rs35452955 A T 64.63 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=0.98;MQ=60.00;MQ0=0;OQ=1469.46;QD=19.34;SB=-729.32 GT:AD:DP:GL:GQ 0/1:30,45:74:-172.52,-22.29,-110.18:99
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chr1 4151668 rs6703301 G T 631.77 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=3028.09;QD=37.38;SB=-1101.60 GT:AD:DP:GL:GQ 1/1:0,81:80:-306.41,-24.09,-0.01:99
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chr1 4151981 rs34414875 C T 365.71 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1305.64;QD=16.32;SB=-537.52 GT:AD:DP:GL:GQ 0/1:41,39:80:-157.95,-24.10,-144.69:99
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chr1 4152854 rs10915467 A T 474.45 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=1268.93;QD=17.38;SB=-610.43 GT:AD:DP:GL:GQ 0/1:33,40:72:-151.86,-21.68,-124.21:99
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chr1 4153158 rs12722935 C T 465.33 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1317.34;QD=16.26;SB=-636.13 GT:AD:DP:GL:GQ 0/1:41,40:80:-159.12,-24.10,-137.48:99
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chr1 4153203 rs55974255 T G 492.94 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1277.21;QD=15.39;SB=-533.71 GT:AD:DP:GL:GQ 0/1:38,45:83:-156.01,-25.00,-142.96:99
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chr1 4153672 rs6679104 T C 519.73 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.17;MQ0=0;OQ=1796.89;QD=30.98;SB=-648.94 GT:AD:DP:GL:GQ 1/1:0,58:56:-183.31,-16.88,-0.04:99
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chr1 4153751 rs12750830 G A 339.94 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=841.06;QD=12.19;SB=-424.91 GT:AD:DP:GL:GQ 0/1:41,27:67:-107.58,-20.19,-146.61:99
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chr1 4153835 rs12740143 T G 222.74 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=59.66;MQ0=0;OQ=767.69;QD=11.29;SB=-346.80 GT:AD:DP:GL:GQ 0/1:40,28:68:-100.53,-20.48,-145.06:99
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chr1 4154543 rs12143082 T C 171.80 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=2;HaplotypeScore=1.73;MQ=59.61;MQ0=1;OQ=1104.97;QD=14.17;SB=-407.20 GT:AD:DP:GL:GQ 0/1:39,39:74:-136.07,-22.29,-143.19:99
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chr1 4154828 rs4578184 A T 236.18 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=59.74;MQ0=0;OQ=3286.63;QD=37.35;SB=-1618.09 GT:AD:DP:GL:GQ 1/1:0,87:86:-327.66,-25.90,-0.02:99
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chr1 4156046 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=80;Dels=0.01;HRun=20;HaplotypeScore=22.75;MQ=49.75;MQ0=0;OQ=501.86;QD=6.27;SB=92.27 GT:AD:DP:GL:GQ 0/1:48,31:64:-72.46,-18.99,-149.51:99
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chr1 4157196 rs4276878 C G 356.37 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=1452.13;QD=15.78;SB=-539.06 GT:AD:DP:GL:GQ 0/1:47,45:92:-176.24,-27.75,-207.05:99
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chr1 4159822 rs34626829 T C 256.76 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.63;MQ=60.00;MQ0=0;OQ=966.32;QD=13.24;SB=-369.17 GT:AD:DP:GL:GQ 0/1:40,33:72:-121.60,-21.69,-157.15:99
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chr1 4159905 rs4654509 T C 45.94 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=1.31;MQ=59.48;MQ0=0;OQ=2796.88;QD=34.96;SB=-1388.49 GT:AD:DP:GL:GQ 1/1:0,80:80:-283.30,-24.10,-0.03:99
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chr1 4160278 rs6667065 G A 347.06 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=60.00;MQ0=0;OQ=1508.83;QD=20.12;SB=-751.28 GT:AD:DP:GL:GQ 0/1:32,43:74:-176.46,-22.30,-103.02:99
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chr1 4160487 rs6426401 C G 585.75 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=2415.89;QD=43.14;SB=-1118.15 GT:AD:DP:GL:GQ 1/1:0,56:56:-245.19,-16.88,-0.02:99
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chr1 4163843 rs4654511 A G 129.93 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=2;HaplotypeScore=0.90;MQ=59.46;MQ0=0;OQ=1014.81;QD=11.80;SB=-473.86 GT:AD:DP:GL:GQ 0/1:46,40:85:-130.38,-25.61,-186.22:99
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chr1 4163857 rs4654512 A G 307.08 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=59.44;MQ0=0;OQ=1070.59;QD=12.90;SB=-521.48 GT:AD:DP:GL:GQ 0/1:46,37:83:-135.34,-25.00,-185.85:99
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chr1 4164344 rs4529679 G C 272.38 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.61;MQ=59.36;MQ0=0;OQ=772.49;QD=10.73;SB=-392.69 GT:AD:DP:GL:GQ 0/1:46,26:70:-101.64,-21.10,-199.05:99
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chr1 4166949 rs16840901 T C 388.35 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=59.68;MQ0=0;OQ=1039.54;QD=14.24;SB=-434.53 GT:AD:DP:GL:GQ 0/1:37,36:73:-129.23,-21.99,-150.63:99
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chr1 4167749 rs10915471 T G 58.03 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=3.59;MQ=59.58;MQ0=0;OQ=744.43;QD=13.54;SB=-264.89 GT:AD:DP:GL:GQ 0/1:27,27:49:-92.49,-14.76,-80.31:99
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chr1 4168111 rs35122589 C T 228.78 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=1.76;MQ=59.26;MQ0=0;OQ=1364.57;QD=16.64;SB=-443.34 GT:AD:DP:GL:GQ 0/1:40,41:80:-163.84,-24.10,-142.82:99
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chr1 4168454 rs12095632 C G 92.77 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=2.95;MQ=59.32;MQ0=0;OQ=1054.00;QD=19.16;SB=-475.80 GT:AD:DP:GL:GQ 0/1:24,31:54:-124.96,-16.28,-104.73:99
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chr1 4168730 rs4130091 T C 180.54 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.33;MQ0=0;OQ=1367.19;QD=28.48;SB=-696.78 GT:AD:DP:GL:GQ 1/1:0,48:44:-140.35,-13.27,-0.05:99
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chr1 4169351 rs6426402 G T 131.41 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=3.41;MQ=58.55;MQ0=0;OQ=809.13;QD=11.40;SB=-425.17 GT:AD:DP:GL:GQ 0/1:41,30:69:-104.98,-20.78,-138.71:99
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chr1 4169394 rs6426403 C G 338.24 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=57.89;MQ0=0;OQ=727.35;QD=12.99;SB=-274.92 GT:AD:DP:GL:GQ 0/1:33,23:54:-92.30,-16.28,-134.02:99
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chr1 4169498 rs6426404 G A 414.13 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.75;MQ0=0;OQ=1380.19;QD=18.40;SB=-605.61 GT:AD:DP:GL:GQ 0/1:34,41:72:-163.00,-21.69,-105.58:99
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chr1 4169658 rs60017975 A G 318.13 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.77;MQ0=0;OQ=1450.14;QD=18.13;SB=-530.63 GT:AD:DP:GL:GQ 0/1:31,49:79:-172.10,-23.80,-127.67:99
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chr1 4170881 rs7550659 A G 248.87 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=51.70;MQ0=0;OQ=2075.07;QD=30.97;SB=-804.69 GT:AD:DP:GL:GQ 1/1:0,66:63:-211.13,-18.99,-0.04:99
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chr1 4171135 rs10799212 A G 40.61 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=3.91;MQ=40.70;MQ0=1;OQ=2175.11;QD=31.07;SB=-612.96 GT:AD:DP:GL:GQ 1/1:1,69:67:-221.14,-20.20,-0.04:99
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chr1 4171182 rs12410442 G A 385.57 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=27.19;MQ0=4;OQ=361.27;QD=10.95;SB=-197.20 GT:AD:DP:GL:GQ 0/1:20,13:27:-47.55,-8.14,-48.20:99
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chr1 4171315 . C A 41.63 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=20;HaplotypeScore=7.30;MQ=33.40;MQ0=5;QD=0.97;SB=41.16 GT:AD:DP:GL:GQ 0/1:37,6:31:-16.79,-9.34,-90.98:74.46
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chr1 4171344 rs10799213 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.01;HRun=20;HaplotypeScore=28.32;MQ=47.02;MQ0=1;OQ=768.09;QD=11.30;SB=-343.49 GT:AD:DP:GL:GQ 0/1:35,32:53:-95.75,-15.66,-101.72:99
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chr1 4171386 rs12022636 C A 71.32 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=6.39;MQ=55.43;MQ0=0;OQ=1032.82;QD=16.66;SB=-507.94 GT:AD:DP:GL:GQ 0/1:28,34:59:-124.34,-17.77,-88.85:99
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chr1 4171443 rs10799214 T A 380.15 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.02;MQ=52.31;MQ0=0;OQ=893.79;QD=14.65;SB=-401.19 GT:AD:DP:GL:GQ 0/1:30,31:58:-110.14,-17.48,-102.42:99
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chr1 4171775 rs7553814 A G 404.78 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.01;MQ0=0;OQ=970.08;QD=12.93;SB=-503.90 GT:AD:DP:GL:GQ 0/1:40,35:74:-122.58,-22.29,-161.95:99
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chr1 4171833 rs7553919 A G 37.31 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=3;HaplotypeScore=0.95;MQ=59.60;MQ0=0;OQ=2384.19;QD=34.55;SB=-1112.82 GT:AD:DP:GL:GQ 1/1:0,69:66:-242.02,-19.88,-0.02:99
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chr1 4171990 rs7554028 A G 628.72 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.32;MQ0=1;OQ=2341.28;QD=30.02;SB=-854.63 GT:AD:DP:GL:GQ 1/1:0,78:76:-237.79,-22.93,-0.08:99
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chr1 4173512 rs7517572 T A 699.45 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=2653.94;QD=34.47;SB=-1331.37 GT:AD:DP:GL:GQ 1/1:0,77:72:-269.00,-21.69,-0.02:99
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chr1 4173702 rs10753372 T C 483.13 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.88;MQ0=0;OQ=510.62;QD=9.82;SB=-265.21 GT:AD:DP:GL:GQ 0/1:30,22:52:-70.02,-15.68,-118.09:99
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chr1 4173822 rs10737404 T C 229.86 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1647.35;QD=29.95;SB=-655.93 GT:AD:DP:GL:GQ 1/1:0,55:53:-168.37,-15.99,-0.05:99
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chr1 4174045 rs10915473 C T 65.29 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=45.21;MQ0=0;OQ=1332.73;QD=36.02;SB=-585.26 GT:AD:DP:GL:GQ 1/1:0,37:35:-136.87,-10.55,-0.02:99
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chr1 4174057 . C T 1039.01 SnpCluster AC=2;AF=1.00;AN=2;DP=31;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=42.84;MQ0=0;QD=33.52;SB=-399.52 GT:AD:DP:GL:GQ 1/1:2,29:27:-107.50,-8.14,-0.01:81.26
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chr1 4174060 . A C 853.72 SnpCluster AC=2;AF=1.00;AN=2;DP=31;Dels=0.00;HRun=2;HaplotypeScore=1.07;MQ=43.67;MQ0=0;QD=27.54;SB=-294.55 GT:AD:DP:GL:GQ 1/1:0,31:26:-88.97,-7.83,-0.01:78.20
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chr1 4174064 . A C 949.90 SnpCluster AC=2;AF=1.00;AN=2;DP=33;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=44.60;MQ0=0;QD=28.78;SB=-378.69 GT:AD:DP:GL:GQ 1/1:0,33:28:-98.58,-8.43,-0.01:84.24
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chr1 4174382 rs1908491 C T 0.38 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=6.22;MQ=54.65;MQ0=0;OQ=1883.08;QD=36.21;SB=-503.01 GT:AD:DP:GL:GQ 1/1:0,52:48:-191.91,-14.46,-0.01:99
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chr1 4174484 rs10915474 T A 225.63 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.59;MQ=55.68;MQ0=0;OQ=801.30;QD=15.41;SB=-299.67 GT:AD:DP:GL:GQ 0/1:26,26:51:-98.78,-15.36,-93.02:99
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chr1 4174489 rs1908492 C T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=7;HaplotypeScore=1.12;MQ=55.99;MQ0=0;OQ=1860.19;QD=37.20;SB=-932.70 GT:AD:DP:GL:GQ 1/1:0,50:48:-189.62,-14.46,-0.02:99
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chr1 4174597 rs1908493 C T 268.28 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=59.04;MQ0=0;OQ=2611.89;QD=38.41;SB=-1140.03 GT:AD:DP:GL:GQ 1/1:0,68:66:-264.79,-19.88,-0.02:99
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chr1 4174874 rs1495245 T A 732.53 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=2554.22;QD=37.56;SB=-1304.61 GT:AD:DP:GL:GQ 1/1:0,68:68:-259.02,-20.48,-0.02:99
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chr1 4174974 rs11578399 C A 12.83 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=3.61;MQ=59.22;MQ0=0;OQ=421.58;QD=7.81;SB=-139.06 GT:AD:DP:GL:GQ 0/1:37,17:52:-61.11,-15.67,-117.17:99
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chr1 4175032 rs1495246 C G 204.50 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=3.07;MQ=56.85;MQ0=0;OQ=2607.23;QD=39.50;SB=-1308.71 GT:AD:DP:GL:GQ 1/1:0,66:62:-264.33,-18.68,-0.02:99
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chr1 4175046 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=2;HaplotypeScore=9.95;MQ=56.80;MQ0=0;OQ=180.72;QD=2.78;SB=92.29 GT:AD:DP:GL:GQ 0/1:40,25:50:-36.42,-15.06,-130.62:99
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chr1 4175151 rs10915476 G A 237.61 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.01;MQ0=0;OQ=567.09;QD=12.07;SB=-92.91 GT:AD:DP:GL:GQ 0/1:29,18:45:-73.55,-13.56,-90.83:99
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chr1 4175279 rs1495247 C T 209.45 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.34;MQ0=0;OQ=2597.96;QD=37.11;SB=-1279.76 GT:AD:DP:GL:GQ 1/1:0,70:67:-263.40,-20.19,-0.02:99
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chr1 4175302 rs7411802 C A 438.30 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=58.93;MQ0=0;OQ=2181.45;QD=35.76;SB=-1110.34 GT:AD:DP:GL:GQ 1/1:0,61:61:-221.75,-18.37,-0.02:99
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chr1 4175576 rs4326593 G A 325.64 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=55.58;MQ0=0;OQ=888.28;QD=16.76;SB=-433.95 GT:AD:DP:GL:GQ 0/1:25,28:48:-106.58,-14.47,-68.77:99
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chr1 4175736 rs4615813 G C 667.23 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.55;MQ0=0;OQ=2403.10;QD=41.43;SB=-1195.96 GT:AD:DP:GL:GQ 1/1:0,58:56:-243.91,-16.87,-0.02:99
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chr1 4175807 rs28600106 C T 6.13 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=7.59;MQ=48.39;MQ0=0;OQ=365.75;QD=9.89;SB=-206.69 GT:AD:DP:GL:GQ 0/1:22,15:31:-49.20,-9.35,-60.01:99
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chr1 4175944 rs2898790 T C 0.54 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=5.41;MQ=54.62;MQ0=0;OQ=1686.61;QD=30.67;SB=-329.61 GT:AD:DP:GL:GQ 1/1:0,55:50:-172.27,-15.06,-0.02:99
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chr1 4176053 rs2411737 G C 0.30 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=4.08;MQ=49.96;MQ0=0;OQ=907.29;QD=30.24;SB=-45.91 GT:AD:DP:GL:GQ 1/1:0,30:23:-94.32,-6.93,-0.01:69.23
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chr1 4176083 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=2;HaplotypeScore=5.12;MQ=50.79;MQ0=0;OQ=53.84;QD=1.17;SB=68.23 GT:AD:DP:GL:GQ 0/1:30,16:35:-19.21,-10.54,-99.51:86.68
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chr1 4176698 rs10915477 G A 75.54 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=2;HaplotypeScore=1.92;MQ=55.80;MQ0=0;OQ=3415.18;QD=40.18;SB=-1433.92 GT:AD:DP:GL:GQ 1/1:0,85:84:-340.52,-25.30,-0.02:99
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chr1 4176748 rs12060660 A C 70.84 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=3.65;MQ=58.23;MQ0=0;OQ=2781.95;QD=35.21;SB=-941.32 GT:AD:DP:GL:GQ 1/1:0,78:78:-285.04,-25.98,-3.27:99
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chr1 4176763 rs10915478 T C 721.59 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.18;MQ0=0;OQ=2617.35;QD=33.99;SB=-1088.89 GT:AD:DP:GL:GQ 1/1:0,77:74:-265.34,-22.29,-0.02:99
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chr1 4176794 rs12060664 A G 585.06 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2362.72;QD=33.28;SB=-1094.09 GT:AD:DP:GL:GQ 1/1:0,71:67:-239.88,-20.19,-0.03:99
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chr1 4177795 rs4654423 T C 596.30 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=1639.97;QD=29.29;SB=-739.78 GT:AD:DP:GL:GQ 1/1:0,56:52:-167.62,-15.68,-0.04:99
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chr1 4177808 rs10915479 T C 281.74 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.62;MQ0=0;OQ=507.44;QD=10.36;SB=-255.93 GT:AD:DP:GL:GQ 0/1:30,19:46:-67.89,-13.86,-108.27:99
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chr1 4179046 rs12116719 G A 182.10 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=2853.60;QD=39.09;SB=-1453.00 GT:AD:DP:GL:GQ 1/1:0,73:73:-288.97,-22.00,-0.02:99
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chr1 4179422 rs59176411 C T 132.99 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=3.16;MQ=56.41;MQ0=0;OQ=2598.61;QD=37.12;SB=-1098.00 GT:AD:DP:GL:GQ 1/1:1,69:68:-267.13,-20.49,-3.69:99
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chr1 4179485 rs10737405 A G 230.94 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.59;MQ0=0;OQ=1795.14;QD=34.52;SB=-680.95 GT:AD:DP:GL:GQ 1/1:1,51:52:-187.08,-15.66,-3.98:99
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chr1 4180030 rs6657617 C T 6.27 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=3;HaplotypeScore=2.45;MQ=59.28;MQ0=0;OQ=2474.15;QD=38.66;SB=-836.62 GT:AD:DP:GL:GQ 1/1:0,64:62:-251.01,-18.68,-0.02:99
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chr1 4180081 rs6426405 G A 604.48 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2617.17;QD=39.06;SB=-1069.36 GT:AD:DP:GL:GQ 1/1:0,67:67:-265.32,-20.19,-0.02:99
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chr1 4180490 rs4592237 G A 306.85 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.29;MQ0=0;OQ=1850.80;QD=34.92;SB=-947.36 GT:AD:DP:GL:GQ 1/1:0,53:49:-188.69,-14.77,-0.02:99
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chr1 4181020 rs10799216 G A 235.59 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=1.51;MQ=59.57;MQ0=0;OQ=3471.51;QD=40.37;SB=-1574.60 GT:AD:DP:GL:GQ 1/1:0,86:85:-346.15,-25.60,-0.02:99
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chr1 4181670 rs4233265 T C 517.98 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.29;MQ0=0;OQ=2065.74;QD=31.30;SB=-824.68 GT:AD:DP:GL:GQ 1/1:0,66:65:-210.21,-19.60,-0.06:99
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chr1 4182159 rs4654425 A G 260.71 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=1828.94;QD=35.17;SB=-776.99 GT:AD:DP:GL:GQ 1/1:0,52:51:-186.50,-15.36,-0.02:99
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chr1 4182646 rs11579829 C T 305.04 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.69;MQ0=0;OQ=2773.62;QD=37.48;SB=-1347.81 GT:AD:DP:GL:GQ 1/1:0,74:71:-280.97,-21.39,-0.02:99
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chr1 4183175 rs2132177 C A 639.97 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2919.91;QD=36.50;SB=-1144.30 GT:AD:DP:GL:GQ 1/1:0,80:79:-295.60,-23.79,-0.02:99
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chr1 4184348 rs55978003 G A 105.51 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=2.52;MQ=59.27;MQ0=0;OQ=776.05;QD=15.22;SB=-305.78 GT:AD:DP:GL:GQ 0/1:27,23:48:-95.35,-14.46,-90.95:99
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chr1 4184779 rs7528938 C T 220.92 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=59.11;MQ0=0;OQ=1623.71;QD=34.55;SB=-657.89 GT:AD:DP:GL:GQ 1/1:1,44:43:-165.98,-12.96,-0.02:99
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chr1 4185286 rs17415519 A G 242.16 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=1.28;MQ=60.00;MQ0=0;OQ=1345.26;QD=33.63;SB=-658.93 GT:AD:DP:GL:GQ 1/1:0,40:39:-138.12,-11.75,-0.01:99
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chr1 4185339 . G T 41.06 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=12;HaplotypeScore=2.80;MQ=54.83;MQ0=0;QD=0.98;SB=22.81 GT:AD:DP:GL:GQ 0/1:35,7:35:-17.93,-10.54,-103.81:73.90
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chr1 4185557 rs4654516 G C 54.16 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.67;MQ=58.74;MQ0=0;OQ=2607.62;QD=37.25;SB=-842.00 GT:AD:DP:GL:GQ 1/1:1,69:66:-264.40,-19.92,-0.05:99
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chr1 4187570 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=2;HaplotypeScore=8.14;MQ=58.89;MQ0=0;OQ=68.10;QD=0.81;SB=131.41 GT:AD:DP:GL:GQ 0/1:59,24:60:-28.18,-18.09,-178.30:99
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chr1 4188372 rs1874267 T G 455.60 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=59.37;MQ0=0;OQ=1048.28;QD=15.88;SB=-524.40 GT:AD:DP:GL:GQ 0/1:29,37:66:-127.99,-19.88,-107.31:99
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chr1 4188412 rs1874266 A G 468.39 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.24;MQ0=0;OQ=798.75;QD=14.52;SB=-409.67 GT:AD:DP:GL:GQ 0/1:23,32:52:-98.84,-15.68,-83.89:99
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chr1 4188663 rs10915480 A G 337.33 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=59.23;MQ0=0;OQ=1153.25;QD=13.73;SB=-560.60 GT:AD:DP:GL:GQ 0/1:38,45:83:-146.27,-27.66,-153.88:99
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chr1 4188905 rs10753374 A G 386.21 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1195.33;QD=15.73;SB=-552.85 GT:AD:DP:GL:GQ 0/1:35,41:76:-145.71,-22.90,-141.29:99
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chr1 4189544 rs10753375 T G 601.10 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=1995.47;QD=35.01;SB=-845.10 GT:AD:DP:GL:GQ 1/1:0,57:56:-203.15,-16.86,-0.01:99
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chr1 4189582 rs10799217 A G 68.61 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=-0.06;MQ=59.39;MQ0=0;OQ=909.16;QD=14.90;SB=-461.96 GT:AD:DP:GL:GQ 0/1:30,31:61:-112.58,-18.38,-119.06:99
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chr1 4189759 rs10799218 T C 84.36 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=3;HaplotypeScore=1.76;MQ=58.80;MQ0=0;OQ=827.52;QD=11.18;SB=-285.14 GT:AD:DP:GL:GQ 0/1:41,32:73:-108.03,-22.00,-167.09:99
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chr1 4191122 rs6426406 T C 3.61 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=7.31;MQ=59.57;MQ0=0;OQ=717.35;QD=10.71;SB=-224.24 GT:AD:DP:GL:GQ 0/1:37,30:64:-94.30,-19.28,-145.85:99
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chr1 4191702 rs7541544 T C 425.11 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=59.70;MQ0=0;OQ=729.14;QD=11.76;SB=-343.04 GT:AD:DP:GL:GQ 0/1:32,30:60:-94.28,-18.09,-122.33:99
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chr1 4191813 rs7534461 C G 457.73 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.78;MQ0=0;OQ=1324.41;QD=15.96;SB=-593.50 GT:AD:DP:GL:GQ 0/1:46,37:83:-160.73,-25.00,-206.24:99
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chr1 4191898 rs7534558 C T 290.90 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=2.06;MQ=60.00;MQ0=0;OQ=1246.57;QD=14.17;SB=-621.73 GT:AD:DP:GL:GQ 0/1:50,38:86:-153.86,-25.92,-153.30:99
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chr1 4191985 rs10799219 G C 69.97 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=2.07;MQ=59.38;MQ0=0;OQ=1617.32;QD=21.86;SB=-548.71 GT:AD:DP:GL:GQ 0/1:32,42:72:-186.71,-21.70,-128.86:99
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chr1 4192218 rs10159168 A T 343.86 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=1388.76;QD=16.94;SB=-472.56 GT:AD:DP:GL:GQ 0/1:39,43:82:-166.86,-24.70,-146.13:99
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chr1 4195817 rs1390135 T G 143.92 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=4.15;MQ=58.67;MQ0=0;OQ=705.86;QD=11.20;SB=-334.03 GT:AD:DP:GL:GQ 0/1:33,30:61:-92.25,-18.38,-113.54:99
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chr1 4197896 . G A 10.32 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.52;MQ0=0;OQ=1035.41;QD=21.57;SB=-410.45 GT:AD:DP:GL:GQ 0/1:18,30:48:-121.29,-14.46,-58.46:99
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chr1 4198535 rs1495242 A G 438.02 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=1076.27;QD=12.97;SB=-544.21 GT:AD:DP:GL:GQ 0/1:44,39:81:-135.31,-24.40,-175.25:99
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chr1 4199191 rs12124378 C T 379.71 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.35;MQ0=0;OQ=1302.45;QD=20.35;SB=-581.61 GT:AD:DP:GL:GQ 0/1:26,38:63:-152.50,-18.97,-95.47:99
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chr1 4199881 . G T 32.56 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=2;HaplotypeScore=5.28;MQ=57.83;MQ0=0;QD=0.74;SB=74.26 GT:AD:DP:GL:GQ 0/1:31,13:34:-16.78,-10.24,-105.31:65.40
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chr1 4200007 . G A 96.98 PASS AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=59.35;MQ0=0;OQ=1236.21;QD=18.45;SB=-537.73 GT:AD:DP:GL:GQ 0/1:28,39:63:-145.88,-18.98,-96.95:99
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chr1 4200165 rs6426407 A G 72.52 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=2;HaplotypeScore=1.47;MQ=58.49;MQ0=0;OQ=1344.67;QD=18.17;SB=-519.96 GT:AD:DP:GL:GQ 0/1:29,44:72:-159.44,-21.69,-113.24:99
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chr1 4200817 rs4654518 G A 711.75 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2818.25;QD=39.69;SB=-1209.38 GT:AD:DP:GL:GQ 1/1:0,71:70:-285.42,-21.08,-0.01:99
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chr1 4202021 rs12124548 G A 209.11 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=59.70;MQ0=0;OQ=1241.05;QD=20.02;SB=-465.47 GT:AD:DP:GL:GQ 0/1:26,36:61:-145.77,-18.38,-85.04:99
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chr1 4202445 rs12405770 A G 576.59 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1249.87;QD=15.62;SB=-595.92 GT:AD:DP:GL:GQ 0/1:37,43:79:-152.07,-23.80,-148.48:99
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chr1 4202474 rs6426409 T G 405.59 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.78;MQ0=0;OQ=1102.86;QD=13.13;SB=-556.72 GT:AD:DP:GL:GQ 0/1:44,40:82:-138.27,-24.70,-157.66:99
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chr1 4204888 rs12132080 A T 242.23 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=1.72;MQ=45.12;MQ0=6;OQ=964.76;QD=12.69;SB=-408.56 GT:AD:DP:GL:GQ 0/1:34,42:65:-119.34,-19.58,-129.51:99
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chr1 4208143 rs6690300 T G 448.20 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.45;MQ0=0;OQ=967.38;QD=12.73;SB=-340.51 GT:AD:DP:GL:GQ 0/1:41,35:76:-122.91,-22.89,-152.81:99
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chr1 4208388 rs12239600 T C 466.70 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.66;MQ0=0;OQ=937.21;QD=13.78;SB=-484.77 GT:AD:DP:GL:GQ 0/1:32,36:68:-117.50,-20.50,-127.59:99
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chr1 4208894 rs12078298 T A 402.94 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=59.48;MQ0=0;OQ=1434.64;QD=16.12;SB=-624.40 GT:AD:DP:GL:GQ 0/1:43,46:88:-173.25,-26.51,-162.85:99
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chr1 4209813 rs6679489 G A 164.07 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=2;HaplotypeScore=1.52;MQ=60.00;MQ0=0;OQ=1435.86;QD=16.89;SB=-638.14 GT:AD:DP:GL:GQ 0/1:41,44:83:-171.87,-25.00,-148.88:99
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chr1 4211295 rs4654519 C T 437.58 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.97;MQ0=0;OQ=1264.42;QD=19.76;SB=-439.80 GT:AD:DP:GL:GQ 0/1:26,38:62:-148.40,-18.68,-90.27:99
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chr1 4211773 rs10915487 T G 175.84 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.57;MQ=59.23;MQ0=0;OQ=638.07;QD=10.29;SB=-306.76 GT:AD:DP:GL:GQ 0/1:37,25:61:-85.47,-18.38,-128.27:99
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chr1 4212065 rs1908490 C T 369.52 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=57.82;MQ0=0;OQ=1109.73;QD=15.20;SB=-541.53 GT:AD:DP:GL:GQ 0/1:40,33:71:-135.64,-21.39,-134.48:99
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chr1 4213163 rs12741715 A T 578.55 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1267.51;QD=16.90;SB=-452.19 GT:AD:DP:GL:GQ 0/1:35,40:74:-152.32,-22.29,-133.91:99
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chr1 4215064 rs966321 G T 6.64 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=4;HaplotypeScore=2.95;MQ=59.70;MQ0=0;OQ=1037.52;QD=13.65;SB=-540.72 GT:AD:DP:GL:GQ 0/1:40,36:75:-129.62,-22.59,-142.94:99
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chr1 4215408 rs12691488 C T 601.59 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=1073.26;QD=16.02;SB=-541.06 GT:AD:DP:GL:GQ 0/1:35,32:66:-130.50,-19.89,-109.64:99
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chr1 4216644 rs964715 T C 389.60 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=939.74;QD=14.46;SB=-445.57 GT:AD:DP:GL:GQ 0/1:32,33:65:-116.84,-19.58,-130.15:99
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chr1 4217111 rs1495250 T C 316.94 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=60.00;MQ0=0;OQ=777.71;QD=11.44;SB=-393.04 GT:AD:DP:GL:GQ 0/1:36,32:67:-101.25,-20.19,-143.99:99
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chr1 4218910 rs11583756 G A 393.34 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=562.25;QD=10.41;SB=-300.82 GT:AD:DP:GL:GQ 0/1:33,21:51:-74.88,-15.38,-106.07:99
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chr1 4219107 rs7545415 G A 274.25 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=59.24;MQ0=0;OQ=794.53;QD=14.45;SB=-389.90 GT:AD:DP:GL:GQ 0/1:30,25:51:-98.11,-15.38,-85.30:99
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chr1 4221548 rs1826719 G A 1.65 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.02;HRun=1;HaplotypeScore=9.57;MQ=59.01;MQ0=0;OQ=1104.32;QD=16.73;SB=-370.86 GT:AD:DP:GL:GQ 0/1:31,34:63:-132.39,-18.68,-107.97:99
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chr1 4221834 rs1390137 T A 402.30 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.24;MQ0=0;OQ=1338.31;QD=14.71;SB=-600.22 GT:AD:DP:GL:GQ 0/1:48,43:91:-164.52,-27.41,-184.18:99
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chr1 4222993 rs7526339 A G 180.71 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=860.50;QD=13.04;SB=-424.26 GT:AD:DP:GL:GQ 0/1:36,30:65:-108.91,-19.58,-143.92:99
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chr1 4225449 rs9286982 A C 384.55 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.50;MQ0=0;OQ=1099.77;QD=14.66;SB=-338.80 GT:AD:DP:GL:GQ 0/1:38,37:74:-135.55,-22.29,-134.84:99
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chr1 4226228 rs2411738 G A 332.71 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=60.00;MQ0=0;OQ=1328.38;QD=18.98;SB=-511.52 GT:AD:DP:GL:GQ 0/1:30,40:68:-156.63,-20.50,-89.85:99
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chr1 4227495 rs2101576 C T 457.85 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.43;MQ0=0;OQ=1111.42;QD=15.22;SB=-551.59 GT:AD:DP:GL:GQ 0/1:39,34:73:-136.43,-22.01,-124.07:99
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chr1 4227724 rs10915493 G A 108.64 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.47;MQ=60.00;MQ0=0;OQ=1106.23;QD=18.75;SB=-402.40 GT:AD:DP:GL:GQ 0/1:26,33:59:-131.68,-17.78,-92.93:99
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chr1 4228365 . G A 59.74 PASS AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=2.28;MQ=58.73;MQ0=0;OQ=1218.17;QD=16.69;SB=-516.71 GT:AD:DP:GL:GQ 0/1:36,37:71:-146.49,-21.39,-124.67:99
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chr1 4228440 rs11586171 G A 378.40 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.94;MQ=59.25;MQ0=0;OQ=793.38;QD=14.17;SB=-261.74 GT:AD:DP:GL:GQ 0/1:30,26:52:-98.30,-15.68,-86.01:99
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chr1 4228626 rs10799221 A G 244.66 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=59.55;MQ0=0;OQ=773.13;QD=15.16;SB=-359.35 GT:AD:DP:GL:GQ 0/1:24,27:50:-95.66,-15.07,-89.39:99
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chr1 4230147 rs6677984 A G 313.94 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.80;MQ0=0;OQ=752.97;QD=10.61;SB=-294.25 GT:AD:DP:GL:GQ 0/1:36,35:64:-97.88,-19.30,-127.54:99
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chr1 4231035 . G A 41.87 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.60;MQ=59.27;MQ0=0;OQ=1023.37;QD=17.95;SB=-471.06 GT:AD:DP:GL:GQ 0/1:23,34:54:-121.89,-16.27,-83.08:99
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chr1 4231643 rs4654426 A G 357.68 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.82;MQ=59.13;MQ0=0;OQ=804.91;QD=14.63;SB=-368.10 GT:AD:DP:GL:GQ 0/1:22,33:51:-99.15,-15.37,-84.11:99
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chr1 4232195 . G A 71.35 PASS AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=3.41;MQ=60.00;MQ0=0;OQ=896.42;QD=13.18;SB=-396.87 GT:AD:DP:GL:GQ 0/1:39,29:68:-113.42,-20.50,-128.87:99
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chr1 4232590 rs7527612 G A 196.65 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.22;MQ=59.61;MQ0=0;OQ=598.22;QD=12.46;SB=-285.21 GT:AD:DP:GL:GQ 0/1:26,20:44:-76.37,-13.26,-81.07:99
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chr1 4233150 rs10737406 C T 190.39 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1662.89;QD=19.34;SB=-750.79 GT:AD:DP:GL:GQ 0/1:38,48:86:-195.48,-25.90,-136.98:99
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chr1 4233365 rs10737407 T C 106.83 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=2.10;MQ=59.79;MQ0=0;OQ=829.78;QD=9.43;SB=-420.85 GT:AD:DP:GL:GQ 0/1:52,36:87:-112.48,-26.22,-211.16:99
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chr1 4233528 rs10737408 T C 490.54 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=1057.73;QD=14.90;SB=-414.29 GT:AD:DP:GL:GQ 0/1:30,41:71:-130.46,-21.40,-122.91:99
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chr1 4233635 rs10799223 G C 53.92 PASS AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=4.97;MQ=59.34;MQ0=0;OQ=1650.26;QD=16.67;SB=-729.99 GT:AD:DP:GL:GQ 0/1:53,46:99:-198.14,-29.83,-227.12:99
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chr1 4234047 rs12095914 C T 0.73 PASS AC=1;AF=0.50;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=9.26;MQ=42.37;MQ0=0;OQ=137.29;QD=9.81;SB=-42.54 GT:AD:DP:GL:GQ 0/1:9,5:10:-20.03,-3.01,-17.15:99
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chr1 4234051 rs56077919 C T 1.78 PASS AC=1;AF=0.50;AN=2;DB;DP=12;Dels=0.00;HRun=0;HaplotypeScore=7.11;MQ=38.66;MQ0=0;OQ=106.65;QD=8.89;SB=-40.54 GT:AD:DP:GL:GQ 0/1:8,4:8:-16.36,-2.41,-14.46:99
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chr1 4234076 . T C 1.57 PASS AC=1;AF=0.50;AN=2;DP=9;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=36.23;MQ0=1;OQ=55.15;QD=6.13;SB=-6.99 GT:AD:DP:GL:GQ 0/1:6,3:7:-10.91,-2.11,-15.53:87.98
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chr1 4234095 rs12752111 C T 29.22 LowQual AC=1;AF=0.50;AN=2;DB;DP=8;Dels=0.00;HRun=1;HaplotypeScore=2.44;MQ=42.08;MQ0=1;QD=3.65;SB=-10.00 GT:AD:DP:GL:GQ 0/1:5,3:6:-8.01,-1.81,-14.07:62.05
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chr1 4234115 . T C 41.10 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=27.16;MQ=46.57;MQ0=0;QD=2.94;SB=-6.99 GT:AD:DP:GL:GQ 0/1:10,4:11:-10.71,-3.31,-31.76:73.94
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chr1 4234119 . T C 26.07 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=19;Dels=0.00;HRun=0;HaplotypeScore=23.15;MQ=48.70;MQ0=0;QD=1.37;SB=-6.99 GT:AD:DP:GL:GQ 0/1:13,6:15:-10.41,-4.52,-48.38:58.90
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chr1 4234123 . T C 99.42 SnpCluster AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=15.26;MQ=47.83;MQ0=0;QD=4.52;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,7:16:-18.04,-4.82,-44.01:99
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chr1 4234141 . C T 11.93 LowQual AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=3;HaplotypeScore=2.90;MQ=45.82;MQ0=0;QD=0.38;SB=-10.00 GT:AD:DP:GL:GQ 0/1:27,4:24:-11.68,-7.23,-69.44:44.48
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chr1 4234162 rs55680202 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.02;HRun=14;HaplotypeScore=7.57;MQ=46.57;MQ0=0;OQ=162.83;QD=3.54;SB=-20.39 GT:AD:DP:GL:GQ 0/1:36,9:39:-31.01,-11.45,-100.16:99
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chr1 4234461 rs2898791 C A 324.76 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=54.58;MQ0=0;OQ=1440.90;QD=17.57;SB=-669.70 GT:AD:DP:GL:GQ 0/1:33,49:78:-170.87,-23.50,-98.97:99
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chr1 4235747 rs1495243 G A 21.65 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=2;HaplotypeScore=0.87;MQ=59.34;MQ0=0;OQ=727.40;QD=20.78;SB=-304.24 GT:AD:DP:GL:GQ 0/1:14,21:34:-86.27,-10.24,-44.00:99
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chr1 4235753 rs903541 A G 320.84 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.74;MQ0=0;OQ=658.30;QD=17.79;SB=-304.49 GT:AD:DP:GL:GQ 0/1:15,22:36:-79.96,-10.84,-57.03:99
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chr1 4236215 rs2411739 T C 3.39 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=4;HaplotypeScore=1.73;MQ=54.14;MQ0=0;OQ=570.50;QD=9.84;SB=-308.25 GT:AD:DP:GL:GQ 0/1:27,31:50:-75.41,-15.07,-105.40:99
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chr1 4243198 rs6658727 T C 21.46 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=1.26;MQ=56.21;MQ0=0;OQ=1400.87;QD=30.45;SB=-402.32 GT:AD:DP:GL:GQ 1/1:0,46:43:-143.70,-12.96,-0.03:99
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chr1 4254604 rs1495248 G A 254.74 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.88;MQ0=0;OQ=575.96;QD=13.39;SB=-220.90 GT:AD:DP:GL:GQ 0/1:24,19:42:-73.53,-12.65,-79.75:99
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chr1 4255328 rs2130621 G A 47.37 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=4.28;MQ=59.31;MQ0=0;OQ=1064.10;QD=15.88;SB=-426.97 GT:AD:DP:GL:GQ 0/1:33,34:65:-129.28,-19.59,-111.47:99
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chr1 4255353 rs12123539 G C 316.52 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=60.00;MQ0=0;OQ=1198.39;QD=17.89;SB=-531.27 GT:AD:DP:GL:GQ 0/1:31,36:67:-143.33,-20.20,-136.21:99
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chr1 4255453 rs2029490 A G 353.66 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=59.70;MQ0=0;OQ=1028.79;QD=13.19;SB=-497.67 GT:AD:DP:GL:GQ 0/1:34,44:74:-128.48,-22.32,-128.69:99
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chr1 4256070 rs61769407 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.03;HRun=0;HaplotypeScore=33.48;MQ=52.67;MQ0=1;OQ=340.13;QD=5.08;SB=-156.75 GT:AD:DP:GL:GQ 0/1:47,18:58:-54.18,-16.88,-142.71:99
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chr1 4256256 rs12563155 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=93.47;MQ=55.97;MQ0=0;OQ=536.64;QD=7.56;SB=-213.44 GT:AD:DP:GL:GQ 0/1:49,22:63:-75.92,-18.98,-150.16:99
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chr1 4256294 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=8.05;MQ=57.07;MQ0=1;OQ=87.19;QD=1.23;SB=41.60 GT:AD:DP:GL:GQ 0/1:61,10:65:-31.59,-19.59,-196.34:99
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chr1 4256295 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=7.58;MQ=57.07;MQ0=1;OQ=86.67;QD=1.22;SB=35.22 GT:AD:DP:GL:GQ 0/1:61,10:60:-30.03,-18.08,-181.58:99
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chr1 4256665 rs11487456 A C 56.20 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=1;HaplotypeScore=2.90;MQ=57.92;MQ0=0;OQ=976.57;QD=11.10;SB=-464.71 GT:AD:DP:GL:GQ 0/1:50,38:85:-126.54,-25.60,-185.54:99
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chr1 4258667 rs10753377 G C 1.06 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=5;HaplotypeScore=1.15;MQ=59.53;MQ0=0;OQ=783.06;QD=15.98;SB=-363.09 GT:AD:DP:GL:GQ 0/1:26,23:47:-95.76,-14.17,-99.93:99
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chr1 4259991 rs592323 G T 282.55 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=1759.13;QD=36.65;SB=-870.26 GT:AD:DP:GL:GQ 1/1:0,48:48:-179.51,-14.45,-0.01:99
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chr1 4261395 rs513096 G A 177.19 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=58.45;MQ0=0;OQ=707.77;QD=15.73;SB=-231.55 GT:AD:DP:GL:GQ 0/1:23,22:44:-87.33,-13.26,-70.99:99
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chr1 4262899 . A G 18.25 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=43.81;MQ=48.38;MQ0=0;QD=0.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:50,5:40:-17.15,-12.05,-140.45:51.02
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chr1 4262904 rs28675202 G A 73.10 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=14.98;MQ=50.70;MQ0=0;QD=1.43;SB=-10.00 GT:AD:DP:GL:GQ 0/1:40,11:45:-24.15,-13.55,-132.97:99
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chr1 4262909 . G A 79.12 SnpCluster AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=5.00;MQ=50.76;MQ0=0;QD=1.65;SB=-10.00 GT:AD:DP:GL:GQ 0/1:37,11:43:-24.15,-12.95,-125.43:99
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chr1 4262914 rs629808 G A 33.56 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=52.89;MQ=50.96;MQ0=0;QD=0.68;SB=-10.00 GT:AD:DP:GL:GQ 0/1:39,10:44:-19.89,-13.25,-132.97:66.40
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chr1 4262923 . C T 231.89 SnpCluster AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=36.64;MQ=51.44;MQ0=0;QD=5.27;SB=-10.00 GT:AD:DP:GL:GQ 0/1:30,14:37:-37.63,-11.16,-89.50:99
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chr1 4262924 rs3124336 G A 119.70 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=42.63;MQ=51.44;MQ0=0;QD=2.72;SB=-10.00 GT:AD:DP:GL:GQ 0/1:30,14:37:-26.40,-11.15,-102.56:99
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chr1 4262928 . C T 227.91 SnpCluster AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=40.91;MQ=51.65;MQ0=0;QD=5.06;SB=-10.00 GT:AD:DP:GL:GQ 0/1:31,14:38:-37.54,-11.47,-89.09:99
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chr1 4262934 . G A 212.81 SnpCluster AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=38.78;MQ=51.84;MQ0=0;QD=4.63;SB=-10.00 GT:AD:DP:GL:GQ 0/1:35,11:39:-36.31,-11.75,-102.65:99
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chr1 4262955 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=1;HaplotypeScore=10.30;MQ=55.28;MQ0=0;OQ=119.85;QD=3.24;SB=-10.00 GT:AD:DP:GL:GQ 0/1:30,7:34:-25.51,-10.24,-106.69:99
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chr1 4262965 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=55.83;MQ0=0;OQ=58.64;QD=1.63;SB=-10.00 GT:AD:DP:GL:GQ 0/1:31,5:33:-19.09,-9.94,-116.28:91.47
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chr1 4263200 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=16.50;MQ=29.51;MQ0=20;OQ=97.44;QD=2.38;SB=-10.00 GT:AD:DP:GL:GQ 0/1:35,5:14:-17.24,-4.22,-36.40:99
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chr1 4263205 rs12035244 T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=20.28;MQ=30.89;MQ0=18;OQ=95.43;QD=2.27;SB=-10.00 GT:AD:DP:GL:GQ 0/1:37,5:15:-17.34,-4.52,-40.16:99
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chr1 4263595 rs34429154 C A 184.54 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=59.01;MQ0=0;OQ=488.72;QD=10.40;SB=-267.26 GT:AD:DP:GL:GQ 0/1:29,18:46:-66.01,-13.86,-101.87:99
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chr1 4263832 rs584035 G A 216.29 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=59.61;MQ0=0;OQ=1091.44;QD=18.50;SB=-496.53 GT:AD:DP:GL:GQ 0/1:27,32:59:-130.21,-17.78,-86.40:99
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chr1 4263930 rs503536 G A 202.82 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=3.37;MQ=59.57;MQ0=0;OQ=661.52;QD=12.25;SB=-344.44 GT:AD:DP:GL:GQ 0/1:32,22:49:-84.20,-14.76,-96.54:99
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chr1 4264086 rs693734 C T 101.31 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=2.89;MQ=58.91;MQ0=0;OQ=1021.37;QD=17.02;SB=-501.11 GT:AD:DP:GL:GQ 0/1:29,31:59:-123.20,-17.78,-92.76:99
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chr1 4264332 rs1106307 A G 290.23 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.63;MQ=59.33;MQ0=0;OQ=913.45;QD=14.73;SB=-354.33 GT:AD:DP:GL:GQ 0/1:28,34:58:-112.10,-17.47,-104.59:99
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chr1 4264424 rs2132176 A G 368.22 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=613.38;QD=11.15;SB=-237.28 GT:AD:DP:GL:GQ 0/1:30,25:53:-80.60,-15.97,-111.46:99
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chr1 4264542 rs2132174 T A 221.74 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=52.27;MQ0=0;OQ=1008.56;QD=17.69;SB=-458.63 GT:AD:DP:GL:GQ 0/1:21,35:54:-122.63,-18.49,-81.00:99
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chr1 4264801 rs3007778 G C 66.30 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=1.47;MQ=58.11;MQ0=0;OQ=580.26;QD=12.35;SB=-271.29 GT:AD:DP:GL:GQ 0/1:28,19:44:-74.59,-13.28,-102.55:99
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chr1 4265009 rs3007777 C A 272.57 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.09;MQ0=0;OQ=812.00;QD=17.65;SB=-415.86 GT:AD:DP:GL:GQ 0/1:19,27:45:-98.04,-13.55,-64.20:99
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chr1 4265174 . G A 199.75 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.87;MQ0=0;OQ=560.44;QD=13.67;SB=-202.85 GT:AD:DP:GL:GQ 0/1:23,18:41:-71.68,-12.35,-78.36:99
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chr1 4265866 rs56198562 A G 125.40 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=2.61;MQ=59.78;MQ0=0;OQ=979.47;QD=11.66;SB=-298.20 GT:AD:DP:GL:GQ 0/1:43,41:82:-125.95,-24.72,-170.33:99
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chr1 4266398 rs1495240 C T 180.37 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=59.09;MQ0=0;OQ=962.96;QD=18.88;SB=-480.01 GT:AD:DP:GL:GQ 0/1:23,28:47:-113.74,-14.16,-62.01:99
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chr1 4266494 rs1845634 G A 227.70 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=1124.56;QD=17.85;SB=-553.73 GT:AD:DP:GL:GQ 0/1:30,33:63:-134.72,-18.98,-108.50:99
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chr1 4267183 rs1490413 G A 163.02 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=1.58;MQ=59.39;MQ0=0;OQ=1192.58;QD=17.54;SB=-578.10 GT:AD:DP:GL:GQ 0/1:31,37:66:-142.43,-19.88,-110.71:99
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chr1 4267249 rs16838591 G A 109.35 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.45;MQ0=0;OQ=560.73;QD=16.49;SB=-154.59 GT:AD:DP:GL:GQ 0/1:17,17:34:-69.60,-10.24,-59.00:99
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chr1 4267670 rs17448695 C T 256.61 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=2.17;MQ=59.11;MQ0=0;OQ=785.86;QD=16.72;SB=-406.95 GT:AD:DP:GL:GQ 0/1:22,24:45:-95.42,-13.55,-80.15:99
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chr1 4267782 rs1817914 T C 324.51 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.97;MQ0=0;OQ=827.52;QD=14.03;SB=-394.24 GT:AD:DP:GL:GQ 0/1:29,30:58:-103.51,-17.47,-117.96:99
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chr1 4267840 rs2934983 G A 322.55 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.36;MQ0=0;OQ=1060.38;QD=18.28;SB=-513.09 GT:AD:DP:GL:GQ 0/1:26,32:57:-126.49,-17.17,-95.38:99
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chr1 4267886 rs1817913 A G 440.55 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=738.48;QD=13.43;SB=-393.26 GT:AD:DP:GL:GQ 0/1:24,31:50:-92.21,-15.08,-81.77:99
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chr1 4268301 rs351622 A T 719.15 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.09;MQ0=0;OQ=1814.47;QD=35.58;SB=-930.73 GT:AD:DP:GL:GQ 1/1:0,51:49:-185.04,-14.76,-0.01:99
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chr1 4268579 rs351621 T C 72.96 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.35;MQ=59.25;MQ0=0;OQ=1364.91;QD=27.30;SB=-524.09 GT:AD:DP:GL:GQ 1/1:0,50:43:-140.11,-12.97,-0.04:99
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chr1 4268604 rs351620 C T 134.99 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.70;MQ=59.46;MQ0=0;OQ=1433.75;QD=33.34;SB=-736.64 GT:AD:DP:GL:GQ 1/1:0,43:39:-146.99,-11.76,-0.03:99
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chr1 4268679 rs351619 G A 84.28 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=1739.98;QD=37.83;SB=-519.64 GT:AD:DP:GL:GQ 1/1:0,46:44:-177.59,-13.26,-0.01:99
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chr1 4268802 rs351618 T C 98.42 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=60.00;MQ0=0;OQ=1092.21;QD=26.64;SB=-356.42 GT:AD:DP:GL:GQ 1/1:0,41:37:-112.85,-11.17,-0.05:99
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chr1 4268811 rs351617 C T 143.28 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1491.48;QD=36.38;SB=-509.63 GT:AD:DP:GL:GQ 1/1:1,40:39:-152.75,-11.76,-0.02:99
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chr1 4268960 rs2087571 C T 152.24 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=53.63;MQ0=0;OQ=643.83;QD=17.40;SB=-299.23 GT:AD:DP:GL:GQ 0/1:15,22:34:-77.91,-10.25,-47.03:99
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chr1 4269767 rs351616 A G 168.33 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.39;MQ=58.87;MQ0=0;OQ=1214.77;QD=29.63;SB=-431.27 GT:AD:DP:GL:GQ 1/1:0,41:38:-125.09,-11.46,-0.03:99
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chr1 4270245 rs351615 G A 292.81 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=58.55;MQ0=0;OQ=1966.57;QD=35.76;SB=-975.01 GT:AD:DP:GL:GQ 1/1:0,54:52:-200.27,-15.67,-0.02:99
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chr1 4271723 rs351614 C T 601.68 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.33;MQ0=0;OQ=2473.56;QD=39.90;SB=-1111.03 GT:AD:DP:GL:GQ 1/1:0,62:62:-250.96,-18.68,-0.01:99
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chr1 4271809 rs12132314 C T 430.38 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.65;MQ0=0;OQ=1181.91;QD=18.18;SB=-613.64 GT:AD:DP:GL:GQ 0/1:30,35:65:-141.06,-19.59,-97.20:99
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chr1 4273032 rs171260 A C 300.19 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.30;MQ=60.00;MQ0=0;OQ=870.08;QD=12.08;SB=-225.83 GT:AD:DP:GL:GQ 0/1:41,31:71:-111.68,-21.38,-150.14:99
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chr1 4274131 rs351613 A C 265.29 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.14;MQ0=0;OQ=2299.32;QD=35.37;SB=-1119.04 GT:AD:DP:GL:GQ 1/1:0,65:65:-233.54,-19.58,-0.02:99
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chr1 4277771 rs351596 C T 568.91 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=2579.09;QD=39.68;SB=-949.23 GT:AD:DP:GL:GQ 1/1:0,65:64:-261.51,-19.28,-0.02:99
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chr1 4279737 rs876273 C G 132.40 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=4.17;MQ=59.56;MQ0=0;OQ=768.76;QD=14.78;SB=-189.63 GT:AD:DP:GL:GQ 0/1:23,29:48:-94.65,-14.49,-97.38:99
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chr1 4279818 rs351598 A T 381.51 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.53;MQ=59.66;MQ0=0;OQ=991.33;QD=14.58;SB=-452.46 GT:AD:DP:GL:GQ 0/1:35,33:67:-122.60,-20.18,-130.61:99
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chr1 4280055 rs1874269 C T 619.47 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.78;MQ0=0;OQ=2766.74;QD=39.52;SB=-1179.55 GT:AD:DP:GL:GQ 1/1:0,70:69:-280.28,-20.79,-0.02:99
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chr1 4280204 rs2411741 C A 180.72 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=2;HaplotypeScore=1.15;MQ=60.13;MQ0=0;OQ=1218.75;QD=14.51;SB=-564.82 GT:AD:DP:GL:GQ 0/1:42,42:82:-149.85,-24.70,-149.73:99
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chr1 4280489 rs351599 C T 413.51 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=59.72;MQ0=0;OQ=1071.03;QD=16.23;SB=-457.49 GT:AD:DP:GL:GQ 0/1:33,33:66:-130.29,-19.90,-102.77:99
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chr1 4285644 . A G 0.07 PASS AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=4;HaplotypeScore=2.54;MQ=57.79;MQ0=0;OQ=595.83;QD=12.16;SB=-120.71 GT:AD:DP:GL:GQ 0/1:26,23:47:-77.03,-14.16,-95.21:99
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chr1 4288221 . G A 0.84 PASS AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=1;HaplotypeScore=8.13;MQ=58.71;MQ0=0;OQ=1360.73;QD=16.39;SB=-394.38 GT:AD:DP:GL:GQ 0/1:43,40:81:-163.76,-24.40,-149.01:99
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chr1 4289709 . T G 46.86 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=1;HaplotypeScore=16.54;MQ=56.55;MQ0=0;QD=0.98;SB=53.18 GT:AD:DP:GL:GQ 0/1:27,21:32:-17.62,-9.65,-87.21:79.70
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chr1 4292594 rs34245285 G C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=3.96;MQ=50.65;MQ0=4;OQ=195.36;QD=3.15;SB=-102.43 GT:AD:DP:GL:GQ 0/1:47,15:34:-33.09,-10.27,-97.74:99
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chr1 4293081 rs34762254 C G 17.74 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=35.42;MQ0=7;QD=0.43;SB=11.07 GT:AD:DP:GL:GQ 0/1:35,5:26:-12.90,-7.85,-90.70:50.51
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chr1 4293374 . G A 3.97 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=44.45;MQ0=2;OQ=329.37;QD=6.59;SB=0.51 GT:AD:DP:GL:GQ 0/1:31,19:40:-48.28,-12.06,-89.72:99
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chr1 4296431 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.01;HRun=0;HaplotypeScore=166.11;MQ=33.71;MQ0=1;OQ=76.77;QD=0.64;SB=116.41 GT:AD:DP:GL:GQ 0/1:95,22:100:-40.80,-29.83,-343.52:99
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chr1 4296441 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=126;Dels=0.07;HRun=0;HaplotypeScore=204.38;MQ=34.16;MQ0=1;OQ=63.06;QD=0.50;SB=111.78 GT:AD:DP:GL:GQ 0/1:104,10:96:-43.83,-34.24,-290.54:95.89
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chr1 4296449 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=0;HaplotypeScore=184.01;MQ=35.76;MQ0=1;OQ=76.57;QD=0.81;SB=108.85 GT:AD:DP:GL:GQ 0/1:78,6:65:-53.79,-42.85,-256.56:99
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chr1 4296459 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=1;HaplotypeScore=225.82;MQ=37.43;MQ0=0;OQ=345.89;QD=3.98;SB=26.09 GT:AD:DP:GL:GQ 0/1:63,24:68:-58.36,-20.48,-198.46:99
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chr1 4296469 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=95;Dels=0.00;HRun=1;HaplotypeScore=189.98;MQ=37.41;MQ0=0;OQ=75.74;QD=0.80;SB=12.63 GT:AD:DP:GL:GQ 0/1:84,11:69:-31.64,-20.79,-221.92:99
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chr1 4296493 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=88.30;MQ=41.30;MQ0=0;OQ=474.04;QD=4.65;SB=-167.48 GT:AD:DP:GL:GQ 0/1:59,36:81:-93.85,-43.16,-272.31:99
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chr1 4296506 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=103;Dels=0.03;HRun=1;HaplotypeScore=78.61;MQ=43.01;MQ0=0;OQ=51.88;QD=0.50;SB=101.36 GT:AD:DP:GL:GQ 0/1:87,13:87:-34.09,-25.62,-299.11:84.72
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chr1 4296513 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=100;Dels=0.02;HRun=0;HaplotypeScore=60.45;MQ=43.56;MQ0=0;OQ=185.47;QD=1.85;SB=-3.86 GT:AD:DP:GL:GQ 0/1:80,18:74:-44.13,-22.29,-236.48:99
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chr1 4296520 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=111;Dels=0.00;HRun=1;HaplotypeScore=86.57;MQ=43.66;MQ0=0;OQ=90.49;QD=0.82;SB=69.81 GT:AD:DP:GL:GQ 0/1:99,12:95:-40.96,-28.62,-301.41:99
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chr1 4296571 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=100;Dels=0.02;HRun=0;HaplotypeScore=148.81;MQ=42.35;MQ0=0;OQ=149.13;QD=1.49;SB=56.28 GT:AD:DP:GL:GQ 0/1:64,20:79:-66.77,-48.58,-247.91:99
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chr1 4296587 . G A 55.07 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=113;Dels=0.02;HRun=0;HaplotypeScore=138.42;MQ=36.11;MQ0=2;QD=0.49;SB=3.46 GT:AD:DP:GL:GQ 0/1:83,28:77:-31.99,-23.20,-236.17:87.91
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chr1 4296590 . A G 63.20 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=113;Dels=0.01;HRun=1;HaplotypeScore=134.39;MQ=36.11;MQ0=2;QD=0.56;SB=44.15 GT:AD:DP:GL:GQ 0/1:101,11:84:-34.62,-25.01,-283.57:96.04
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chr1 4296596 . G A 133.96 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=190.44;MQ=35.58;MQ0=2;QD=1.09;SB=41.12 GT:AD:DP:GL:GQ 0/1:107,16:99:-46.51,-29.83,-296.83:99
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chr1 4296607 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=125;Dels=0.00;HRun=1;HaplotypeScore=185.73;MQ=34.74;MQ0=2;OQ=309.12;QD=2.47;SB=41.15 GT:AD:DP:GL:GQ 0/1:106,19:100:-64.31,-30.12,-298.02:99
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chr1 4296636 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=0;HaplotypeScore=188.32;MQ=35.30;MQ0=3;OQ=116.48;QD=0.91;SB=56.18 GT:AD:DP:GL:GQ 0/1:110,17:102:-45.68,-30.75,-346.20:99
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chr1 4296642 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=1;HaplotypeScore=236.73;MQ=34.36;MQ0=5;OQ=253.36;QD=1.95;SB=47.15 GT:AD:DP:GL:GQ 0/1:113,17:102:-59.34,-30.72,-306.11:99
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chr1 4296665 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=0;HaplotypeScore=107.40;MQ=33.96;MQ0=6;OQ=319.22;QD=2.73;SB=50.15 GT:AD:DP:GL:GQ 0/1:91,24:96:-64.13,-28.92,-272.83:99
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chr1 4296668 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=119;Dels=0.01;HRun=0;HaplotypeScore=114.24;MQ=34.12;MQ0=7;OQ=295.42;QD=2.48;SB=-19.17 GT:AD:DP:GL:GQ 0/1:99,19:98:-62.05,-29.23,-276.38:99
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chr1 4296677 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=110;Dels=0.03;HRun=0;HaplotypeScore=117.38;MQ=34.73;MQ0=5;OQ=320.24;QD=2.91;SB=47.14 GT:AD:DP:GL:GQ 0/1:86,21:91:-62.13,-26.82,-250.93:99
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chr1 4296686 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=54.93;MQ=36.96;MQ0=5;OQ=147.08;QD=1.67;SB=50.15 GT:AD:DP:GL:GQ 0/1:78,10:74:-40.29,-22.30,-219.44:99
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chr1 4308180 . C T 161.22 PASS AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.53;MQ0=0;OQ=1282.15;QD=17.56;SB=-488.11 GT:AD:DP:GL:GQ 0/1:35,38:73:-153.50,-22.00,-116.62:99
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chr1 4309112 . A C 86.02 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=1.15;MQ=59.03;MQ0=0;OQ=562.66;QD=13.09;SB=-287.67 GT:AD:DP:GL:GQ 0/1:22,20:43:-74.67,-15.12,-82.44:99
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chr1 4310347 . C T 101.72 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=59.41;MQ0=0;OQ=1172.68;QD=16.52;SB=-579.36 GT:AD:DP:GL:GQ 0/1:36,35:70:-141.64,-21.08,-130.80:99
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chr1 4314528 . T C 249.50 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1047.71;QD=18.38;SB=-476.64 GT:AD:DP:GL:GQ 0/1:22,35:57:-125.23,-17.17,-90.17:99
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chr1 4316332 . T G 43.87 PASS AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.09;MQ=59.28;MQ0=0;OQ=471.43;QD=14.73;SB=-242.41 GT:AD:DP:GL:GQ 0/1:14,18:31:-59.77,-9.34,-47.32:99
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chr1 4316334 . C G 15.52 PASS AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=59.32;MQ0=0;OQ=676.22;QD=19.89;SB=-323.04 GT:AD:DP:GL:GQ 0/1:15,19:34:-81.16,-10.25,-60.88:99
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chr1 4318103 rs349395 A G 659.54 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.24;MQ0=0;OQ=1716.14;QD=31.20;SB=-834.63 GT:AD:DP:GL:GQ 1/1:0,55:54:-175.24,-16.28,-0.05:99
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chr1 4319680 rs349393 A C 563.28 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=813.26;QD=15.95;SB=-376.77 GT:AD:DP:GL:GQ 0/1:23,28:51:-99.97,-15.36,-86.41:99
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chr1 4319765 rs102083 A T 361.40 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=55.80;MQ0=0;OQ=747.97;QD=14.96;SB=-385.65 GT:AD:DP:GL:GQ 0/1:24,26:48:-92.54,-14.46,-85.84:99
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chr1 4319782 rs28431405 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=20;HaplotypeScore=17.05;MQ=53.28;MQ0=0;OQ=875.22;QD=14.59;SB=-406.12 GT:AD:DP:GL:GQ 0/1:25,35:49:-105.57,-14.76,-69.63:99
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chr1 4319814 rs102085 G A 15.88 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=5.54;MQ=52.08;MQ0=0;OQ=929.67;QD=17.22;SB=-462.49 GT:AD:DP:GL:GQ 0/1:25,29:49:-111.01,-14.76,-74.46:99
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chr1 4319857 rs17410050 C T 91.63 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=57.83;MQ0=0;OQ=1009.89;QD=18.36;SB=-347.35 GT:AD:DP:GL:GQ 0/1:26,29:55:-120.84,-16.57,-94.75:99
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chr1 4320268 rs349392 G T 359.85 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.27;MQ=58.71;MQ0=0;OQ=818.84;QD=15.16;SB=-433.16 GT:AD:DP:GL:GQ 0/1:23,30:49:-99.94,-14.77,-68.96:99
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chr1 4320352 rs101287 A C 9.82 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=3;HaplotypeScore=2.94;MQ=58.91;MQ0=0;OQ=686.61;QD=10.73;SB=-323.81 GT:AD:DP:GL:GQ 0/1:36,28:61:-90.33,-18.38,-119.68:99
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chr1 4321671 rs56216403 A T 13.76 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=7.66;MQ=57.98;MQ0=0;OQ=569.50;QD=12.94;SB=-290.67 GT:AD:DP:GL:GQ 0/1:24,20:41:-72.59,-12.36,-76.85:99
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chr1 4321865 rs349391 T C 61.74 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.58;MQ=58.51;MQ0=0;OQ=775.30;QD=16.50;SB=-140.34 GT:AD:DP:GL:GQ 0/1:20,26:42:-93.47,-12.66,-62.46:99
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chr1 4321866 rs56376431 G A 8.49 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.58;MQ=58.51;MQ0=0;OQ=873.71;QD=18.59;SB=-178.26 GT:AD:DP:GL:GQ 0/1:21,26:42:-103.31,-12.65,-56.39:99
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chr1 4322006 rs56162804 C T 116.80 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.53;MQ0=0;OQ=1021.04;QD=20.84;SB=-534.77 GT:AD:DP:GL:GQ 0/1:19,30:49:-120.16,-14.77,-59.62:99
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chr1 4322030 rs55838104 C T 52.16 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.96;MQ=60.00;MQ0=0;OQ=1120.64;QD=21.14;SB=-534.76 GT:AD:DP:GL:GQ 0/1:20,33:52:-131.01,-15.67,-66.54:99
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chr1 4322090 rs16838800 A G 416.20 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=910.62;QD=19.80;SB=-423.34 GT:AD:DP:GL:GQ 0/1:16,30:46:-108.20,-13.86,-64.49:99
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chr1 4322538 rs12403556 C G 69.76 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=60.00;MQ0=0;OQ=1513.57;QD=24.81;SB=-525.74 GT:AD:DP:GL:GQ 0/1:20,41:61:-173.03,-18.39,-83.32:99
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chr1 4322543 rs12404034 A G 25.15 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=3.64;MQ=60.00;MQ0=0;OQ=1221.46;QD=20.02;SB=-417.22 GT:AD:DP:GL:GQ 0/1:20,41:60:-143.50,-18.07,-80.25:99
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chr1 4322609 rs12404038 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=5;HaplotypeScore=9.16;MQ=59.56;MQ0=0;OQ=664.61;QD=12.54;SB=-143.41 GT:AD:DP:GL:GQ 0/1:24,29:49:-84.51,-14.77,-94.35:99
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chr1 4322739 rs12404366 T C 226.21 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=432.95;QD=9.41;SB=-158.54 GT:AD:DP:GL:GQ 0/1:29,17:46:-60.44,-13.86,-115.98:99
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chr1 4322916 rs12402553 G A 357.39 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.62;MQ0=0;OQ=842.62;QD=13.81;SB=-393.36 GT:AD:DP:GL:GQ 0/1:35,26:59:-105.32,-17.77,-117.60:99
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chr1 4323438 rs16838810 A G 123.66 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=3;HaplotypeScore=0.32;MQ=59.40;MQ0=0;OQ=808.90;QD=13.05;SB=-366.96 GT:AD:DP:GL:GQ 0/1:30,32:61:-102.56,-18.39,-119.19:99
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chr1 4323490 rs55944275 G A 62.78 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.36;MQ0=0;OQ=1153.53;QD=19.89;SB=-343.36 GT:AD:DP:GL:GQ 0/1:24,34:57:-135.81,-17.17,-85.54:99
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chr1 4323756 rs349390 T C 313.61 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.62;MQ0=0;OQ=671.97;QD=11.20;SB=-140.85 GT:AD:DP:GL:GQ 0/1:34,26:58:-87.95,-17.47,-136.36:99
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chr1 4323757 rs58351078 G A 132.53 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.61;MQ0=0;OQ=802.14;QD=13.60;SB=-181.76 GT:AD:DP:GL:GQ 0/1:34,25:59:-101.27,-17.77,-124.39:99
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chr1 4323928 rs61676533 C T 374.12 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.48;MQ0=0;OQ=1036.80;QD=14.40;SB=-477.00 GT:AD:DP:GL:GQ 0/1:40,32:72:-128.65,-21.69,-142.77:99
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chr1 4323975 rs16838812 A G 340.79 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=59.17;MQ0=0;OQ=822.30;QD=12.09;SB=-364.22 GT:AD:DP:GL:GQ 0/1:38,30:68:-106.00,-20.49,-150.74:99
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chr1 4324005 rs16838813 G A 586.02 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.08;MQ0=0;OQ=833.74;QD=14.13;SB=-356.82 GT:AD:DP:GL:GQ 0/1:33,26:58:-104.14,-17.48,-106.56:99
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chr1 4324062 rs56775247 A G 352.77 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.86;MQ0=0;OQ=755.78;QD=11.81;SB=-150.88 GT:AD:DP:GL:GQ 0/1:37,27:64:-98.14,-19.28,-148.79:99
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chr1 4324102 rs57599092 A T 199.13 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.94;MQ=53.27;MQ0=0;OQ=1008.31;QD=14.83;SB=-333.61 GT:AD:DP:GL:GQ 0/1:34,34:66:-123.99,-19.88,-127.49:99
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chr1 4324399 rs11804096 T C 269.49 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=45.70;MQ0=1;OQ=598.48;QD=11.29;SB=-306.38 GT:AD:DP:GL:GQ 0/1:28,25:48:-77.59,-14.46,-100.69:99
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chr1 4324626 rs11803736 A G 203.50 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=51.26;MQ0=1;OQ=569.48;QD=10.55;SB=-273.41 GT:AD:DP:GL:GQ 0/1:32,22:52:-75.89,-15.66,-126.39:99
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chr1 4324693 rs11801800 G A 371.17 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=50.70;MQ0=1;OQ=920.80;QD=14.85;SB=-460.99 GT:AD:DP:GL:GQ 0/1:32,30:59:-113.14,-17.77,-113.29:99
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chr1 4324939 rs12729994 C A 219.08 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=56.71;MQ0=0;OQ=746.98;QD=16.98;SB=-320.72 GT:AD:DP:GL:GQ 0/1:18,26:42:-90.63,-12.65,-55.46:99
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chr1 4325115 rs12742617 T G 433.06 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.56;MQ0=0;OQ=1013.88;QD=12.07;SB=-397.13 GT:AD:DP:GL:GQ 0/1:47,37:83:-129.67,-25.00,-173.24:99
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chr1 4325508 rs34012704 A G 166.42 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.90;MQ=59.63;MQ0=0;OQ=986.31;QD=19.34;SB=-504.18 GT:AD:DP:GL:GQ 0/1:17,34:49:-116.68,-14.77,-62.75:99
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chr1 4325583 . G A 54.73 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.68;MQ=60.00;MQ0=0;OQ=709.46;QD=16.50;SB=-303.82 GT:AD:DP:GL:GQ 0/1:18,25:41:-86.59,-12.36,-64.70:99
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chr1 4325707 rs12405082 A G 0.52 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=3;HaplotypeScore=6.04;MQ=58.57;MQ0=0;OQ=521.78;QD=8.42;SB=-177.38 GT:AD:DP:GL:GQ 0/1:38,24:56:-72.34,-16.88,-134.28:99
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chr1 4325759 . C T 1.66 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=2;HaplotypeScore=2.89;MQ=58.50;MQ0=0;OQ=768.28;QD=12.39;SB=-160.15 GT:AD:DP:GL:GQ 0/1:32,29:57:-97.29,-17.18,-106.60:99
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chr1 4325887 rs12403671 G C 245.59 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.67;MQ0=0;OQ=1119.45;QD=19.64;SB=-552.71 GT:AD:DP:GL:GQ 0/1:24,33:54:-131.50,-16.27,-104.02:99
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chr1 4325945 rs12404619 C T 347.85 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.65;MQ0=0;OQ=874.85;QD=15.91;SB=-387.13 GT:AD:DP:GL:GQ 0/1:26,29:53:-106.74,-15.97,-91.70:99
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chr1 4326338 rs16838819 A C 229.78 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=4.02;MQ=58.63;MQ0=0;OQ=550.44;QD=10.79;SB=-296.79 GT:AD:DP:GL:GQ 0/1:29,22:49:-73.09,-14.76,-103.75:99
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chr1 4327728 rs34472761 G C 257.96 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=59.05;MQ0=0;OQ=1072.08;QD=16.75;SB=-550.71 GT:AD:DP:GL:GQ 0/1:32,32:62:-129.19,-18.70,-130.17:99
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chr1 4328031 rs56108323 G A 198.39 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=626.21;QD=12.28;SB=-249.12 GT:AD:DP:GL:GQ 0/1:27,24:48:-80.37,-14.46,-97.54:99
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chr1 4329322 rs483344 A G 283.35 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.68;MQ=59.34;MQ0=0;OQ=672.82;QD=9.61;SB=-273.11 GT:AD:DP:GL:GQ 0/1:41,29:68:-91.06,-20.50,-159.89:99
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chr1 4331124 rs572439 A C 450.24 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.73;MQ0=0;OQ=1069.67;QD=15.73;SB=-417.82 GT:AD:DP:GL:GQ 0/1:30,38:67:-130.43,-20.18,-110.75:99
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chr1 4331158 rs572343 G A 289.61 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.72;MQ0=0;OQ=1247.65;QD=18.62;SB=-597.10 GT:AD:DP:GL:GQ 0/1:31,36:64:-147.32,-19.27,-103.83:99
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chr1 4331483 rs12750862 T C 292.32 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=2.22;MQ=59.55;MQ0=0;OQ=752.94;QD=14.76;SB=-378.63 GT:AD:DP:GL:GQ 0/1:24,27:49:-93.35,-14.77,-86.37:99
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chr1 4331508 . C T 49.49 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=60.00;MQ0=0;OQ=892.12;QD=17.84;SB=-369.91 GT:AD:DP:GL:GQ 0/1:18,31:43:-105.46,-12.97,-47.94:99
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chr1 4333712 rs2926485 T C 268.41 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=2.56;MQ=59.83;MQ0=0;OQ=1004.92;QD=15.70;SB=-484.15 GT:AD:DP:GL:GQ 0/1:28,35:61:-122.15,-18.38,-108.51:99
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chr1 4334184 rs57575485 C T 360.52 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.70;MQ0=0;OQ=1292.51;QD=16.79;SB=-566.07 GT:AD:DP:GL:GQ 0/1:37,40:76:-155.43,-22.90,-133.07:99
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chr1 4334834 rs661536 A G 714.01 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1993.62;QD=34.98;SB=-900.02 GT:AD:DP:GL:GQ 1/1:0,57:57:-202.97,-17.17,-0.02:99
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chr1 4339520 rs902403 T C 449.51 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=846.06;QD=12.44;SB=-357.94 GT:AD:DP:GL:GQ 0/1:35,33:68:-108.38,-20.49,-140.89:99
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chr1 4339677 rs2926482 C G 218.76 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2219.96;QD=42.69;SB=-974.35 GT:AD:DP:GL:GQ 1/1:0,52:52:-225.60,-15.67,-0.01:99
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chr1 4340373 rs590798 A C 514.93 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=2632.91;QD=34.64;SB=-1142.61 GT:AD:DP:GL:GQ 1/1:0,76:76:-266.90,-22.89,-0.03:99
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chr1 4344158 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=3;HaplotypeScore=3.49;MQ=60.00;MQ0=0;OQ=63.29;QD=1.07;SB=56.21 GT:AD:DP:GL:GQ 0/1:42,17:47:-23.79,-14.18,-151.98:96.13
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chr1 4344566 rs349413 C A 606.43 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1116.07;QD=14.69;SB=-454.53 GT:AD:DP:GL:GQ 0/1:39,37:76:-137.78,-22.89,-141.17:99
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chr1 4345038 rs164598 G A 482.03 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.02;MQ0=0;OQ=1164.61;QD=17.38;SB=-524.70 GT:AD:DP:GL:GQ 0/1:32,35:67:-139.93,-20.18,-113.85:99
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chr1 4347591 rs4654526 C T 500.86 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1310.21;QD=20.16;SB=-660.78 GT:AD:DP:GL:GQ 0/1:25,40:61:-152.69,-18.39,-71.94:99
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chr1 4351708 rs11585123 G T 52.90 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=3;HaplotypeScore=1.96;MQ=59.43;MQ0=0;OQ=956.92;QD=13.11;SB=-391.99 GT:AD:DP:GL:GQ 0/1:39,34:73:-120.97,-21.99,-133.39:99
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chr1 4352257 rs627555 G A 556.89 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.08;MQ0=0;OQ=1274.67;QD=14.01;SB=-577.49 GT:AD:DP:GL:GQ 0/1:53,38:91:-158.16,-27.41,-187.48:99
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chr1 4352698 . A C 145.09 PASS AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=1251.00;QD=14.55;SB=-612.69 GT:AD:DP:GL:GQ 0/1:43,43:84:-153.68,-25.30,-154.64:99
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chr1 4353326 rs7523383 C T 223.33 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=1125.20;QD=18.75;SB=-322.36 GT:AD:DP:GL:GQ 0/1:24,35:55:-132.39,-16.58,-65.47:99
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chr1 4354986 rs55703746 G T 228.36 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=1494.65;QD=18.68;SB=-625.43 GT:AD:DP:GL:GQ 0/1:32,48:80:-176.84,-24.10,-112.47:99
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chr1 4358435 . C T 24.59 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=1;HaplotypeScore=3.25;MQ=55.69;MQ0=0;QD=0.61;SB=41.14 GT:AD:DP:GL:GQ 0/1:35,4:36:-16.60,-10.86,-102.91:57.41
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chr1 4358482 . C G 35.61 LowQual AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=3.12;MQ=54.32;MQ0=0;QD=1.05;SB=-23.70 GT:AD:DP:GL:GQ 0/1:30,4:32:-16.49,-9.64,-124.37:68.45
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chr1 4359549 rs6679220 T C 288.35 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=543.81;QD=10.66;SB=-272.37 GT:AD:DP:GL:GQ 0/1:30,21:50:-72.72,-15.06,-124.68:99
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chr1 4360825 rs56081339 G A 327.33 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=59.43;MQ0=0;OQ=993.85;QD=13.61;SB=-456.06 GT:AD:DP:GL:GQ 0/1:40,33:70:-123.78,-21.11,-120.70:99
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chr1 4363525 rs349402 G A 561.81 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.26;MQ0=0;OQ=1290.95;QD=16.99;SB=-425.80 GT:AD:DP:GL:GQ 0/1:36,40:74:-154.68,-22.30,-119.31:99
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chr1 4367389 rs4654429 G A 56.05 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=5.58;MQ=57.65;MQ0=0;OQ=1142.68;QD=16.80;SB=-522.78 GT:AD:DP:GL:GQ 0/1:32,36:64:-136.84,-19.29,-93.56:99
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chr1 4367566 rs4654430 T C 472.63 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.33;MQ0=0;OQ=611.79;QD=10.92;SB=-199.58 GT:AD:DP:GL:GQ 0/1:34,22:55:-81.03,-16.57,-131.86:99
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chr1 4368744 rs547923 C A 335.14 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=58.91;MQ0=0;OQ=794.59;QD=12.42;SB=-343.21 GT:AD:DP:GL:GQ 0/1:34,30:61:-101.12,-18.38,-116.77:99
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chr1 4369295 rs6687224 C G 567.99 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1064.80;QD=17.75;SB=-495.28 GT:AD:DP:GL:GQ 0/1:29,31:59:-127.55,-17.78,-120.89:99
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chr1 4369728 rs733308 T G 295.33 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=1.39;MQ=59.19;MQ0=1;OQ=894.22;QD=10.65;SB=-355.63 GT:AD:DP:GL:GQ 0/1:48,36:83:-117.71,-25.00,-176.40:99
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chr1 4370735 rs2926477 A G 468.63 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=995.20;QD=15.31;SB=-357.26 GT:AD:DP:GL:GQ 0/1:29,36:64:-122.09,-19.28,-116.14:99
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chr1 4371593 rs505933 A G 376.41 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=58.99;MQ0=0;OQ=894.44;QD=10.78;SB=-423.73 GT:AD:DP:GL:GQ 0/1:45,38:82:-117.44,-24.72,-179.72:99
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chr1 4371867 rs693045 T C 492.95 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.26;MQ0=0;OQ=669.20;QD=9.99;SB=-303.21 GT:AD:DP:GL:GQ 0/1:37,30:64:-89.50,-19.29,-143.01:99
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chr1 4371873 rs10915529 G C 482.75 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.33;MQ0=0;OQ=903.58;QD=12.91;SB=-393.25 GT:AD:DP:GL:GQ 0/1:40,30:69:-114.44,-20.80,-177.40:99
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chr1 4371886 rs659514 T C 97.64 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=1.39;MQ=58.28;MQ0=0;OQ=683.73;QD=10.05;SB=-268.51 GT:AD:DP:GL:GQ 0/1:42,26:67:-91.84,-20.18,-171.36:99
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chr1 4372308 rs4654533 C G 209.19 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.20;MQ0=0;OQ=1490.53;QD=19.61;SB=-620.61 GT:AD:DP:GL:GQ 0/1:35,41:72:-174.05,-21.72,-126.16:99
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chr1 4375044 rs349405 A C 311.25 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=541.86;QD=10.62;SB=-270.89 GT:AD:DP:GL:GQ 0/1:31,20:51:-72.83,-15.36,-116.45:99
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chr1 4375626 rs349406 T C 212.51 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=2.99;MQ=59.38;MQ0=0;OQ=1112.63;QD=14.84;SB=-554.63 GT:AD:DP:GL:GQ 0/1:36,39:72:-136.23,-21.69,-140.85:99
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chr1 4375771 rs12562242 G T 432.17 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=59.23;MQ0=0;OQ=915.50;QD=12.54;SB=-381.76 GT:AD:DP:GL:GQ 0/1:39,34:71:-116.22,-21.39,-137.78:99
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chr1 4376133 rs349407 G A 305.49 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.03;MQ0=1;OQ=1382.00;QD=18.43;SB=-530.55 GT:AD:DP:GL:GQ 0/1:31,44:71:-162.87,-21.39,-107.28:99
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chr1 4376945 rs10915530 C T 589.94 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=1129.31;QD=16.13;SB=-586.64 GT:AD:DP:GL:GQ 0/1:35,35:68:-136.71,-20.50,-105.26:99
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chr1 4377252 rs1490416 T A 34.72 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.01;HRun=1;HaplotypeScore=4.80;MQ=59.18;MQ0=0;OQ=1402.77;QD=16.50;SB=-436.53 GT:AD:DP:GL:GQ 0/1:39,45:80:-167.66,-24.10,-131.13:99
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chr1 4377771 rs349409 C T 337.62 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=2.02;MQ=59.15;MQ0=0;OQ=1097.95;QD=15.46;SB=-477.48 GT:AD:DP:GL:GQ 0/1:37,34:69:-133.86,-20.78,-131.05:99
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chr1 4377899 rs349410 C A 42.06 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=4.55;MQ=59.19;MQ0=0;OQ=1054.50;QD=18.50;SB=-399.14 GT:AD:DP:GL:GQ 0/1:22,35:56:-125.60,-16.87,-75.99:99
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chr1 4377949 rs349411 C T 2.69 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=11.72;MQ=58.87;MQ0=0;OQ=1481.01;QD=18.06;SB=-689.93 GT:AD:DP:GL:GQ 0/1:37,45:80:-175.49,-24.10,-130.86:99
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chr1 4377999 rs10915531 A G 391.37 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=59.24;MQ0=0;OQ=1298.04;QD=16.23;SB=-576.28 GT:AD:DP:GL:GQ 0/1:36,44:80:-157.19,-24.10,-146.95:99
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chr1 4380137 rs493178 G C 0.36 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=2.09;MQ=57.06;MQ0=0;OQ=874.81;QD=23.64;SB=-165.59 GT:AD:DP:GL:GQ 0/1:11,26:34:-101.01,-10.25,-40.96:99
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chr1 4380197 . G A 21.03 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=23.38;MQ=29.95;MQ0=2;QD=0.68;SB=41.12 GT:AD:DP:GL:GQ 0/1:26,5:22:-12.01,-6.63,-63.36:53.84
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chr1 4380201 rs59237016 A T 117.83 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=21.39;MQ=30.09;MQ0=2;QD=4.36;SB=-11.73 GT:AD:DP:GL:GQ 0/1:19,6:13:-24.36,-9.29,-27.60:99
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chr1 4380203 . A G 41.11 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=24.37;MQ=28.28;MQ0=2;QD=1.64;SB=-10.00 GT:AD:DP:GL:GQ 0/1:17,7:10:-10.41,-3.01,-27.49:73.95
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chr1 4380215 . G A 523.36 SnpCluster AC=2;AF=1.00;AN=2;DP=19;Dels=0.05;HRun=0;HaplotypeScore=13.20;MQ=29.01;MQ0=2;QD=27.55;SB=-164.67 GT:AD:DP:GL:GQ 1/1:1,17:14:-55.92,-4.22,-0.00:42.14
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chr1 4380217 rs60888156 G A 452.59 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=19;Dels=0.05;HRun=0;HaplotypeScore=13.68;MQ=29.01;MQ0=2;QD=23.82;SB=-163.66 GT:AD:DP:GL:GQ 1/1:4,14:14:-51.77,-4.22,-2.97:12.46
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chr1 4380219 . G A 274.46 SnpCluster AC=1;AF=0.50;AN=2;DP=17;Dels=0.06;HRun=0;HaplotypeScore=11.89;MQ=29.85;MQ0=1;QD=16.14;SB=-148.61 GT:AD:DP:GL:GQ 0/1:5,11:13:-34.65,-3.92,-13.88:99
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chr1 4380249 . G A 49.25 LowQual AC=2;AF=1.00;AN=2;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=23.68;MQ0=1;QD=16.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-8.33,-0.60,-0.00:6.02
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chr1 4380271 rs6697112 G A 9.28 PASS AC=2;AF=1.00;AN=2;DB;DP=5;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=37.32;MQ0=0;OQ=124.22;QD=24.84;SB=-44.55 GT:AD:DP:GL:GQ 1/1:1,4:4:-15.96,-1.21,-0.00:12.04
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chr1 4380311 rs1309838 C A 157.04 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=54.85;MQ0=0;OQ=623.10;QD=14.84;SB=-208.87 GT:AD:DP:GL:GQ 0/1:19,23:41:-77.95,-12.35,-68.48:99
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chr1 4380330 rs1309839 C T 0.61 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=7.73;MQ=55.45;MQ0=0;OQ=843.65;QD=20.09;SB=-255.33 GT:AD:DP:GL:GQ 0/1:15,27:37:-98.80,-11.15,-35.58:99
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chr1 4380929 . T C 25.32 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=2;HaplotypeScore=5.44;MQ=59.32;MQ0=0;QD=0.37;SB=122.43 GT:AD:DP:GL:GQ 0/1:48,20:54:-22.08,-16.27,-188.06:58.14
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chr1 4380941 rs349386 C T 474.31 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.84;MQ0=0;OQ=1352.78;QD=17.80;SB=-554.75 GT:AD:DP:GL:GQ 0/1:36,40:74:-160.85,-22.29,-128.59:99
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chr1 4381075 rs4654432 C T 88.73 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=3;HaplotypeScore=1.63;MQ=60.32;MQ0=0;OQ=870.11;QD=12.80;SB=-258.77 GT:AD:DP:GL:GQ 0/1:40,28:66:-110.19,-19.90,-123.57:99
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chr1 4381353 rs35799150 A G 389.01 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=820.10;QD=12.06;SB=-192.18 GT:AD:DP:GL:GQ 0/1:39,29:68:-105.78,-20.48,-159.19:99
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chr1 4381492 rs4654433 G A 604.36 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=1070.93;QD=15.98;SB=-493.09 GT:AD:DP:GL:GQ 0/1:35,32:67:-130.57,-20.19,-112.83:99
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chr1 4382470 rs737324 G C 535.52 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.88;MQ0=0;OQ=1310.24;QD=17.47;SB=-409.80 GT:AD:DP:GL:GQ 0/1:38,37:74:-156.61,-22.31,-151.67:99
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chr1 4382624 rs349385 A G 200.13 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=56.49;MQ0=0;OQ=1553.01;QD=28.76;SB=-619.97 GT:AD:DP:GL:GQ 1/1:0,53:51:-158.94,-15.39,-0.06:99
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chr1 4383263 rs41266223 T C 212.32 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.22;MQ=57.69;MQ0=0;OQ=666.08;QD=11.29;SB=-355.38 GT:AD:DP:GL:GQ 0/1:32,27:53:-85.86,-15.97,-114.12:99
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chr1 4385955 rs4654537 A G 109.83 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=60.00;MQ0=0;OQ=187.72;QD=8.16;SB=-92.99 GT:AD:DP:GL:GQ 0/1:12,10:21:-28.39,-6.33,-46.97:99
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chr1 4386470 rs1762818 A G 620.72 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=2262.65;QD=34.81;SB=-1121.77 GT:AD:DP:GL:GQ 1/1:0,65:63:-229.87,-18.98,-0.02:99
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chr1 4386565 rs2035009 T C 346.94 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=58.05;MQ0=0;OQ=655.98;QD=10.93;SB=-329.97 GT:AD:DP:GL:GQ 0/1:30,30:56:-85.78,-16.89,-109.09:99
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chr1 4386918 rs2035008 T A 56.82 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=1.25;MQ=55.07;MQ0=0;OQ=728.43;QD=12.14;SB=-228.91 GT:AD:DP:GL:GQ 0/1:33,27:58:-93.60,-17.47,-122.91:99
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chr1 4387800 . G A 279.77 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1023.92;QD=16.25;SB=-391.36 GT:AD:DP:GL:GQ 0/1:32,31:61:-124.06,-18.39,-99.73:99
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chr1 4388151 rs4654542 C T 244.41 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=60.00;MQ0=0;OQ=1264.25;QD=16.63;SB=-528.76 GT:AD:DP:GL:GQ 0/1:37,39:75:-152.31,-22.60,-121.60:99
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chr1 4388316 rs4654434 G A 492.22 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1047.13;QD=14.54;SB=-490.97 GT:AD:DP:GL:GQ 0/1:40,32:72:-129.68,-21.69,-147.17:99
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chr1 4388691 rs6667927 C T 322.46 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.79;MQ0=0;OQ=1604.10;QD=18.23;SB=-806.38 GT:AD:DP:GL:GQ 0/1:41,47:88:-190.20,-26.51,-149.18:99
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chr1 4388839 rs6658372 G A 449.72 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.10;MQ0=0;OQ=954.40;QD=14.24;SB=-360.06 GT:AD:DP:GL:GQ 0/1:36,31:66:-118.61,-19.88,-128.27:99
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chr1 4389258 rs6678792 T C 469.97 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.45;MQ0=0;OQ=1167.87;QD=15.37;SB=-534.97 GT:AD:DP:GL:GQ 0/1:37,39:76:-142.96,-22.89,-149.63:99
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chr1 4389389 rs10915533 G A 316.56 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.43;MQ=59.63;MQ0=0;OQ=829.91;QD=13.39;SB=-417.75 GT:AD:DP:GL:GQ 0/1:33,29:58:-103.75,-17.48,-109.80:99
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chr1 4389459 rs995749 T C 99.11 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=3.02;MQ=59.19;MQ0=0;OQ=673.64;QD=11.82;SB=-297.62 GT:AD:DP:GL:GQ 0/1:29,28:55:-87.23,-16.58,-114.38:99
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chr1 4390198 rs6676603 A T 439.97 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.38;MQ0=0;OQ=1300.48;QD=17.57;SB=-634.13 GT:AD:DP:GL:GQ 0/1:32,42:73:-155.32,-21.99,-116.56:99
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chr1 4390481 rs12128251 T C 259.49 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=57.96;MQ0=0;OQ=632.69;QD=11.94;SB=-295.21 GT:AD:DP:GL:GQ 0/1:28,25:50:-81.62,-15.07,-105.90:99
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chr1 4391861 rs2007533 T A 193.95 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=57.74;MQ0=0;OQ=586.86;QD=11.51;SB=-140.76 GT:AD:DP:GL:GQ 0/1:30,21:48:-76.43,-14.46,-99.70:99
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chr1 4391958 rs1809702 T C 301.51 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=1033.40;QD=12.45;SB=-514.71 GT:AD:DP:GL:GQ 0/1:39,44:81:-131.04,-24.42,-155.02:99
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chr1 4392226 rs736265 G A 87.76 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=4.07;MQ=59.56;MQ0=0;OQ=793.67;QD=14.97;SB=-313.81 GT:AD:DP:GL:GQ 0/1:27,26:51:-98.01,-15.36,-98.57:99
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chr1 4393075 rs1556691 A G 599.93 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.74;MQ0=0;OQ=937.52;QD=14.88;SB=-473.07 GT:AD:DP:GL:GQ 0/1:29,34:61:-115.41,-18.38,-116.29:99
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chr1 4393225 rs4654435 T C 403.94 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=60.00;MQ0=0;OQ=690.21;QD=11.50;SB=-328.14 GT:AD:DP:GL:GQ 0/1:28,31:55:-88.89,-16.58,-104.73:99
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chr1 4394358 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=18;HaplotypeScore=18.20;MQ=57.05;MQ0=0;OQ=138.13;QD=2.76;SB=68.21 GT:AD:DP:GL:GQ 0/1:39,11:43:-30.06,-12.96,-119.55:99
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chr1 4394377 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=18;HaplotypeScore=17.15;MQ=55.75;MQ0=0;OQ=145.86;QD=2.75;SB=25.24 GT:AD:DP:GL:GQ 0/1:40,13:43:-30.82,-12.95,-126.23:99
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chr1 4394834 rs12072315 G A 483.58 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=835.16;QD=15.47;SB=-392.90 GT:AD:DP:GL:GQ 0/1:29,25:53:-102.78,-15.98,-90.62:99
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chr1 4394951 rs7546444 A G 181.93 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.12;MQ0=0;OQ=846.04;QD=12.26;SB=-340.27 GT:AD:DP:GL:GQ 0/1:38,31:68:-108.38,-20.49,-147.54:99
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chr1 4395538 rs1591426 T C 726.29 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=2474.70;QD=34.37;SB=-1102.69 GT:AD:DP:GL:GQ 1/1:0,72:71:-251.09,-21.39,-0.04:99
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chr1 4395562 rs1591425 A G 113.89 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.25;MQ0=0;OQ=1914.52;QD=29.01;SB=-807.30 GT:AD:DP:GL:GQ 1/1:0,66:62:-195.10,-18.70,-0.06:99
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chr1 4396040 rs10915536 C T 108.05 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.40;MQ0=0;OQ=3075.21;QD=39.94;SB=-1236.02 GT:AD:DP:GL:GQ 1/1:0,77:77:-311.12,-23.19,-0.02:99
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chr1 4396189 rs1762813 C T 709.23 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.85;MQ0=0;OQ=1988.33;QD=37.52;SB=-957.81 GT:AD:DP:GL:GQ 1/1:0,52:51:-202.43,-15.36,-0.01:99
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chr1 4396377 rs1674876 G A 690.55 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.24;MQ0=0;OQ=3414.62;QD=39.70;SB=-1526.04 GT:AD:DP:GL:GQ 1/1:0,86:85:-340.46,-25.61,-0.02:99
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chr1 4396770 rs1335365 G A 180.08 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=3218.44;QD=38.31;SB=-1546.06 GT:AD:DP:GL:GQ 1/1:0,84:82:-325.46,-24.71,-0.03:99
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chr1 4396978 rs6660514 C T 529.47 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=2569.74;QD=40.15;SB=-881.18 GT:AD:DP:GL:GQ 1/1:0,64:63:-260.57,-18.97,-0.01:99
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chr1 4396990 rs1335363 G A 705.95 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=2655.20;QD=39.05;SB=-1068.35 GT:AD:DP:GL:GQ 1/1:0,68:67:-269.12,-20.18,-0.02:99
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chr1 4397408 rs35211041 C G 282.09 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=59.56;MQ0=0;OQ=845.74;QD=15.96;SB=-404.93 GT:AD:DP:GL:GQ 0/1:28,25:51:-103.22,-15.37,-116.49:99
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chr1 4397651 rs1234932 T C 32.13 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=2.62;MQ=59.08;MQ0=0;OQ=2038.22;QD=30.88;SB=-895.04 GT:AD:DP:GL:GQ 1/1:0,66:64:-207.46,-19.30,-0.06:99
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chr1 4399691 rs780572 T C 25.86 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=3.98;MQ=59.66;MQ0=0;OQ=2164.78;QD=32.31;SB=-610.95 GT:AD:DP:GL:GQ 1/1:0,67:65:-220.10,-19.59,-0.04:99
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chr1 4400105 rs12727067 C T 348.64 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.54;MQ0=0;OQ=3168.12;QD=39.11;SB=-1535.71 GT:AD:DP:GL:GQ 1/1:0,81:79:-320.41,-23.80,-0.02:99
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chr1 4400296 rs12731060 C T 672.05 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2631.07;QD=38.69;SB=-901.20 GT:AD:DP:GL:GQ 1/1:0,68:67:-266.72,-20.19,-0.02:99
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chr1 4401014 rs6674190 C T 89.86 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.77;MQ0=0;OQ=3223.06;QD=39.79;SB=-1621.16 GT:AD:DP:GL:GQ 1/1:0,81:80:-325.90,-24.10,-0.02:99
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chr1 4401844 rs780573 A G 655.69 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=2538.38;QD=30.96;SB=-1020.34 GT:AD:DP:GL:GQ 1/1:0,82:80:-257.49,-24.12,-0.07:99
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chr1 4403585 rs780581 T C 628.63 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=2729.37;QD=35.91;SB=-1251.85 GT:AD:DP:GL:GQ 1/1:0,76:75:-276.54,-22.59,-0.02:99
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chr1 4405826 rs780587 T C 579.37 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=1799.99;QD=35.29;SB=-764.96 GT:AD:DP:GL:GQ 1/1:0,51:50:-183.60,-15.06,-0.02:99
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chr1 4406185 rs780588 T G 731.95 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.29;MQ0=0;OQ=2276.92;QD=35.03;SB=-1150.64 GT:AD:DP:GL:GQ 1/1:0,65:65:-231.29,-19.58,-0.02:99
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chr1 4407102 rs780589 G T 206.11 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.17;MQ0=0;OQ=2615.53;QD=35.83;SB=-1329.09 GT:AD:DP:GL:GQ 1/1:0,73:72:-265.16,-21.68,-0.02:99
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chr1 4407119 rs12032561 A G 117.17 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.23;MQ0=0;OQ=2421.51;QD=30.65;SB=-1099.12 GT:AD:DP:GL:GQ 1/1:0,79:76:-245.80,-22.92,-0.06:99
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chr1 4407230 rs780590 C A 140.01 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.82;MQ=60.00;MQ0=0;OQ=2388.18;QD=35.64;SB=-981.59 GT:AD:DP:GL:GQ 1/1:0,67:66:-242.42,-19.88,-0.02:99
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chr1 4407326 rs780591 G C 50.40 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=59.66;MQ0=0;OQ=2352.09;QD=42.77;SB=-1101.12 GT:AD:DP:GL:GQ 1/1:0,54:54:-238.81,-16.27,-0.01:99
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chr1 4407520 rs780592 G A 361.64 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=3300.47;QD=41.26;SB=-1496.40 GT:AD:DP:GL:GQ 1/1:0,80:80:-329.05,-24.10,-0.02:99
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chr1 4407623 rs780594 T C 139.31 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=2.07;MQ=59.52;MQ0=0;OQ=2627.95;QD=34.13;SB=-1058.85 GT:AD:DP:GL:GQ 1/1:0,77:75:-266.41,-22.59,-0.03:99
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chr1 4408032 rs705684 C T 627.36 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2940.63;QD=39.21;SB=-1334.78 GT:AD:DP:GL:GQ 1/1:0,75:74:-297.67,-22.29,-0.02:99
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chr1 4408272 rs780595 C G 8.91 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=58.81;MQ0=0;OQ=2333.53;QD=42.43;SB=-1051.66 GT:AD:DP:GL:GQ 1/1:0,55:54:-236.95,-16.27,-0.02:99
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chr1 4408429 rs2054268 A G 302.92 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=59.14;MQ0=0;OQ=2648.73;QD=34.85;SB=-1019.36 GT:AD:DP:GL:GQ 1/1:0,76:74:-268.49,-22.29,-0.03:99
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chr1 4408966 rs780596 C G 540.01 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=3023.42;QD=42.58;SB=-1306.69 GT:AD:DP:GL:GQ 1/1:0,71:71:-305.95,-21.40,-0.02:99
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chr1 4409197 rs2054269 G A 716.76 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.30;MQ0=0;OQ=2812.55;QD=39.06;SB=-1393.37 GT:AD:DP:GL:GQ 1/1:0,72:71:-284.86,-21.39,-0.02:99
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chr1 4409239 rs2054270 C A 370.19 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.01;MQ0=0;OQ=2523.69;QD=36.05;SB=-1226.28 GT:AD:DP:GL:GQ 1/1:0,70:69:-255.97,-20.78,-0.02:99
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chr1 4411281 rs922114 C T 206.92 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.24;MQ=60.00;MQ0=0;OQ=2458.23;QD=37.82;SB=-1122.24 GT:AD:DP:GL:GQ 1/1:0,65:63:-249.43,-18.99,-0.03:99
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chr1 4411941 rs56397589 A G 10.74 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=3;HaplotypeScore=1.47;MQ=60.00;MQ0=0;OQ=772.90;QD=13.56;SB=-158.90 GT:AD:DP:GL:GQ 0/1:30,27:56:-97.44,-16.87,-122.46:99
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chr1 4412859 . G T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=17.52;MQ=58.30;MQ0=0;OQ=443.68;QD=5.55;SB=107.30 GT:AD:DP:GL:GQ 0/1:54,26:67:-67.84,-20.19,-156.44:99
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chr1 4413809 rs780599 T C 203.02 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=933.92;QD=15.06;SB=-130.24 GT:AD:DP:GL:GQ 0/1:31,31:62:-115.35,-18.67,-127.44:99
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chr1 4413942 rs1235308 A G 208.55 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=59.56;MQ0=0;OQ=574.66;QD=10.84;SB=-295.15 GT:AD:DP:GL:GQ 0/1:24,29:45:-74.32,-13.57,-86.44:99
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chr1 4413949 rs12135334 A G 227.02 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.57;MQ0=0;OQ=600.78;QD=11.13;SB=-278.65 GT:AD:DP:GL:GQ 0/1:25,29:50:-78.44,-15.07,-99.43:99
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chr1 4414313 rs11584026 G A 462.20 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.70;MQ0=0;OQ=1258.44;QD=16.56;SB=-579.09 GT:AD:DP:GL:GQ 0/1:37,39:74:-151.43,-22.31,-123.49:99
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chr1 4415137 rs1213919 T C 340.20 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.64;MQ0=0;OQ=1036.94;QD=16.20;SB=-428.11 GT:AD:DP:GL:GQ 0/1:27,37:63:-125.96,-18.98,-110.60:99
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chr1 4415275 rs6426411 G A 271.15 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=1.51;MQ=58.90;MQ0=0;OQ=891.44;QD=15.11;SB=-416.76 GT:AD:DP:GL:GQ 0/1:31,28:59:-110.20,-17.77,-112.97:99
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chr1 4415367 rs6663198 A C 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=21.51;MQ=59.22;MQ0=0;OQ=1036.43;QD=12.49;SB=-473.70 GT:AD:DP:GL:GQ 0/1:44,39:81:-131.33,-24.40,-153.13:99
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chr1 4416433 rs12131294 C T 93.74 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=2.89;MQ=59.15;MQ0=0;OQ=414.02;QD=9.20;SB=-113.50 GT:AD:DP:GL:GQ 0/1:24,20:37:-55.83,-11.15,-84.17:99
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chr1 4416884 . G A 3.05 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=5.94;MQ=57.87;MQ0=0;OQ=823.53;QD=14.97;SB=-276.27 GT:AD:DP:GL:GQ 0/1:30,25:53:-101.62,-15.98,-87.09:99
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chr1 4417194 rs7550318 A T 249.83 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=2.46;MQ=57.79;MQ0=0;OQ=1140.48;QD=17.28;SB=-502.48 GT:AD:DP:GL:GQ 0/1:29,37:65:-136.91,-19.58,-108.54:99
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chr1 4417494 . G A 25.73 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=20;HaplotypeScore=6.20;MQ=50.61;MQ0=1;QD=0.42;SB=98.27 GT:AD:DP:GL:GQ 0/1:53,9:50:-20.92,-15.07,-146.64:58.56
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chr1 4417741 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=39;Dels=0.00;HRun=20;HaplotypeScore=20.09;MQ=49.19;MQ0=1;OQ=84.58;QD=2.17;SB=26.11 GT:AD:DP:GL:GQ 0/1:26,12:27:-19.88,-8.14,-73.60:99
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chr1 4417905 rs642409 A G 618.44 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.41;MQ0=0;OQ=2544.54;QD=34.39;SB=-1201.82 GT:AD:DP:GL:GQ 1/1:0,74:71:-258.06,-21.38,-0.02:99
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chr1 4418004 rs10127576 A G 16.51 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=5.95;MQ=57.57;MQ0=1;OQ=493.53;QD=8.97;SB=-221.25 GT:AD:DP:GL:GQ 0/1:34,21:50:-67.70,-15.07,-117.20:99
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chr1 4420145 rs6426412 G T 345.35 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.50;MQ0=0;OQ=1296.90;QD=17.29;SB=-663.60 GT:AD:DP:GL:GQ 0/1:33,42:75:-155.57,-22.59,-114.39:99
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chr1 4420362 . C T 102.52 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.20;MQ=60.52;MQ0=0;OQ=920.19;QD=15.34;SB=-456.47 GT:AD:DP:GL:GQ 0/1:27,31:53:-111.28,-15.98,-79.42:99
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chr1 4421024 rs12137057 A C 291.19 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=701.05;QD=10.62;SB=-364.06 GT:AD:DP:GL:GQ 0/1:39,27:63:-92.36,-18.97,-137.12:99
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chr1 4421180 rs61771168 T G 222.08 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=1.81;MQ=59.49;MQ0=0;OQ=588.51;QD=13.08;SB=-310.47 GT:AD:DP:GL:GQ 0/1:23,22:43:-75.09,-12.95,-79.35:99
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chr1 4421771 . C T 52.82 PASS AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=58.00;MQ0=0;OQ=457.94;QD=13.08;SB=-230.51 GT:AD:DP:GL:GQ 0/1:18,17:32:-58.72,-9.64,-61.49:99
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chr1 4422658 . C T 17.02 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=1;HaplotypeScore=3.11;MQ=59.25;MQ0=0;OQ=990.31;QD=15.97;SB=-404.43 GT:AD:DP:GL:GQ 0/1:32,30:60:-120.40,-18.09,-95.94:99
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chr1 4423184 . G A 28.31 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.99;MQ=59.25;MQ0=0;OQ=1264.58;QD=20.40;SB=-650.72 GT:AD:DP:GL:GQ 0/1:26,36:62:-148.42,-18.68,-94.18:99
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chr1 4423217 rs664520 C T 648.65 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=1886.50;QD=38.50;SB=-821.33 GT:AD:DP:GL:GQ 1/1:0,49:49:-192.25,-14.76,-0.02:99
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chr1 4423270 rs17453664 G A 225.88 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.40;MQ=58.29;MQ0=0;OQ=839.10;QD=16.14;SB=-245.23 GT:AD:DP:GL:GQ 0/1:25,27:50:-102.26,-15.06,-88.51:99
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chr1 4424136 . C G 13.14 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=4.07;MQ=59.20;MQ0=0;OQ=717.79;QD=15.27;SB=-220.02 GT:AD:DP:GL:GQ 0/1:26,21:46:-88.93,-13.87,-108.02:99
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chr1 4424195 rs16839046 G A 266.41 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=59.35;MQ0=0;OQ=1078.45;QD=16.85;SB=-521.17 GT:AD:DP:GL:GQ 0/1:30,33:62:-129.81,-18.69,-96.72:99
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chr1 4424280 rs17419859 G A 351.26 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=59.18;MQ0=0;OQ=665.56;QD=13.05;SB=-350.50 GT:AD:DP:GL:GQ 0/1:25,26:46:-83.71,-13.87,-77.13:99
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chr1 4424589 rs681175 T C 281.02 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=1804.45;QD=35.38;SB=-864.37 GT:AD:DP:GL:GQ 1/1:0,51:50:-184.04,-15.06,-0.01:99
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chr1 4426611 rs16839061 C T 6.85 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=8.78;MQ=59.11;MQ0=0;OQ=724.58;QD=13.42;SB=-330.47 GT:AD:DP:GL:GQ 0/1:31,23:51:-91.11,-15.37,-92.01:99
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chr1 4427201 rs350167 T C 190.81 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=59.66;MQ0=0;OQ=925.11;QD=16.82;SB=-378.98 GT:AD:DP:GL:GQ 0/1:23,32:53:-111.76,-15.96,-93.83:99
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chr1 4427323 . G A 294.49 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=680.55;QD=13.09;SB=-356.53 GT:AD:DP:GL:GQ 0/1:28,24:44:-84.60,-13.26,-76.63:99
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chr1 4433698 . G A 123.19 PASS AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.52;MQ0=0;OQ=1403.52;QD=17.99;SB=-721.04 GT:AD:DP:GL:GQ 0/1:36,42:75:-166.24,-22.60,-109.14:99
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chr1 4433807 . T G 23.74 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=3;HaplotypeScore=5.51;MQ=60.00;MQ0=0;QD=0.37;SB=80.27 GT:AD:DP:GL:GQ 0/1:45,20:51:-21.03,-15.37,-149.91:56.55
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chr1 4434327 rs645724 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=38.18;MQ=55.12;MQ0=0;OQ=2008.88;QD=24.50;SB=-765.25 GT:AD:DP:GL:GQ 0/1:13,69:74:-226.47,-22.30,-33.80:99
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chr1 4434328 rs55641638 T A 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=5;HaplotypeScore=34.59;MQ=55.12;MQ0=0;OQ=2483.75;QD=30.29;SB=-1104.11 GT:AD:DP:GL:GQ 1/1:7,75:79:-274.28,-23.80,-22.35:14.43
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chr1 4434380 rs350168 C T 706.48 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.94;MQ0=0;OQ=2402.65;QD=38.14;SB=-988.02 GT:AD:DP:GL:GQ 1/1:0,63:61:-243.87,-18.38,-0.02:99
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chr1 4434761 . C A 101.78 PASS AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=59.39;MQ0=0;OQ=1132.04;QD=16.65;SB=-530.30 GT:AD:DP:GL:GQ 0/1:30,38:67:-136.67,-20.18,-105.81:99
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chr1 4435588 rs350169 T A 602.50 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=1092.18;QD=14.76;SB=-420.48 GT:AD:DP:GL:GQ 0/1:38,36:74:-134.79,-22.29,-147.43:99
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chr1 4439106 rs610189 T C 76.59 PASS AC=2;AF=1.00;AN=2;DB;DP=98;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.49;MQ0=0;OQ=3044.46;QD=31.07;SB=-1448.66 GT:AD:DP:GL:GQ 1/1:0,98:95:-308.11,-28.64,-0.07:99
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chr1 4440903 rs13376654 C A 79.52 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=3.21;MQ=58.73;MQ0=0;OQ=748.18;QD=13.60;SB=-293.00 GT:AD:DP:GL:GQ 0/1:29,26:54:-94.37,-16.27,-89.76:99
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chr1 4440904 rs638289 A G 184.76 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=3.21;MQ=59.14;MQ0=0;OQ=1717.40;QD=31.80;SB=-743.85 GT:AD:DP:GL:GQ 1/1:0,54:53:-175.37,-15.98,-0.04:99
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chr1 4441250 rs11799990 A C 16.32 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=4.98;MQ=58.47;MQ0=0;OQ=285.71;QD=5.19;SB=-147.75 GT:AD:DP:GL:GQ 0/1:37,17:50:-46.92,-15.06,-127.84:99
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chr1 4441285 rs6426418 T C 92.05 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=4.50;MQ=58.52;MQ0=0;OQ=434.66;QD=7.63;SB=-199.21 GT:AD:DP:GL:GQ 0/1:38,19:55:-63.32,-16.57,-152.10:99
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chr1 4441304 rs16839089 G A 505.50 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.35;MQ0=0;OQ=685.41;QD=10.71;SB=-336.42 GT:AD:DP:GL:GQ 0/1:40,24:63:-90.81,-18.98,-145.42:99
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chr1 4441520 . C T 159.13 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.36;MQ=59.58;MQ0=0;OQ=767.39;QD=13.95;SB=-405.80 GT:AD:DP:GL:GQ 0/1:29,25:52:-95.70,-15.68,-88.39:99
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chr1 4441584 rs28597953 G C 102.96 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=59.54;MQ0=0;OQ=377.89;QD=7.56;SB=-189.56 GT:AD:DP:GL:GQ 0/1:35,14:50:-59.58,-18.50,-155.34:99
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chr1 4441595 rs12057544 C T 296.32 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=442.52;QD=10.06;SB=-117.50 GT:AD:DP:GL:GQ 0/1:29,15:44:-60.79,-13.25,-105.58:99
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chr1 4441615 rs12094629 G A 446.77 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=438.29;QD=12.17;SB=-145.60 GT:AD:DP:GL:GQ 0/1:21,15:35:-57.67,-10.56,-64.23:99
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chr1 4442760 rs705686 T G 190.01 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=58.65;MQ0=0;OQ=1305.06;QD=29.00;SB=-525.86 GT:AD:DP:GL:GQ 1/1:0,45:42:-134.13,-12.66,-0.04:99
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chr1 4443102 rs16839093 T A 368.23 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=60.00;MQ0=0;OQ=943.42;QD=16.85;SB=-414.85 GT:AD:DP:GL:GQ 0/1:25,31:55:-114.19,-16.57,-93.32:99
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chr1 4443523 rs6656245 A G 229.68 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=4.49;MQ=59.68;MQ0=0;OQ=985.54;QD=13.50;SB=-516.93 GT:AD:DP:GL:GQ 0/1:35,37:70:-125.21,-23.37,-142.93:99
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chr1 4444038 rs350170 T C 370.74 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=60.00;MQ0=0;OQ=854.91;QD=14.49;SB=-264.93 GT:AD:DP:GL:GQ 0/1:30,29:59:-106.55,-17.78,-120.47:99
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chr1 4444166 . C T 124.24 PASS AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.74;MQ0=0;OQ=1098.39;QD=15.05;SB=-487.09 GT:AD:DP:GL:GQ 0/1:39,34:70:-134.21,-21.09,-126.03:99
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chr1 4446069 rs16839101 C T 439.86 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.34;MQ0=0;OQ=969.43;QD=15.39;SB=-381.11 GT:AD:DP:GL:GQ 0/1:31,32:61:-118.60,-18.38,-109.31:99
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chr1 4448313 rs705687 A G 587.11 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.53;MQ0=0;OQ=1218.14;QD=32.06;SB=-513.41 GT:AD:DP:GL:GQ 1/1:0,38:37:-125.42,-11.15,-0.02:99
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chr1 4448490 rs10799234 G A 167.56 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=924.80;QD=18.50;SB=-481.51 GT:AD:DP:GL:GQ 0/1:22,28:50:-110.83,-15.07,-72.35:99
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chr1 4449095 . G T 15.09 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=3.41;MQ=59.46;MQ0=0;OQ=820.94;QD=19.09;SB=-383.80 GT:AD:DP:GL:GQ 0/1:15,28:42:-98.03,-12.65,-50.79:99
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chr1 4449190 . G A 102.60 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=1775.95;QD=21.93;SB=-864.43 GT:AD:DP:GL:GQ 0/1:30,51:79:-204.67,-23.80,-104.40:99
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chr1 4449240 rs705690 G A 133.54 PASS AC=2;AF=1.00;AN=2;DB;DP=91;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.24;MQ0=0;OQ=3632.63;QD=39.92;SB=-1598.65 GT:AD:DP:GL:GQ 1/1:0,91:90:-362.26,-27.11,-0.03:99
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chr1 4449262 rs780606 A G 76.06 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=2;HaplotypeScore=0.63;MQ=59.06;MQ0=0;OQ=718.78;QD=9.71;SB=-329.85 GT:AD:DP:GL:GQ 0/1:44,30:73:-97.16,-22.00,-175.35:99
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chr1 4449723 . G A 148.11 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.81;MQ=59.52;MQ0=0;OQ=713.60;QD=14.87;SB=-335.48 GT:AD:DP:GL:GQ 0/1:25,23:48:-89.11,-14.47,-81.14:99
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chr1 4449964 rs706145 G A 636.09 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=2653.69;QD=37.38;SB=-1188.98 GT:AD:DP:GL:GQ 1/1:0,71:69:-268.98,-20.79,-0.03:99
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chr1 4452662 rs1878052 G A 714.61 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2298.20;QD=38.95;SB=-1111.02 GT:AD:DP:GL:GQ 1/1:0,59:59:-233.42,-17.78,-0.02:99
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chr1 4454614 . A C 20.74 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=601.74;QD=13.68;SB=-220.89 GT:AD:DP:GL:GQ 0/1:20,24:43:-76.41,-12.95,-71.27:99
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chr1 4455561 rs10737412 T A 735.37 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=2244.31;QD=37.41;SB=-1132.68 GT:AD:DP:GL:GQ 1/1:0,60:60:-228.03,-18.07,-0.02:99
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chr1 4455707 rs4654547 C T 580.91 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=1;OQ=2435.91;QD=38.67;SB=-681.41 GT:AD:DP:GL:GQ 1/1:0,63:61:-247.19,-18.38,-0.02:99
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chr1 4456823 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=121.08;MQ=43.96;MQ0=0;OQ=445.21;QD=5.86;SB=-205.75 GT:AD:DP:GL:GQ 0/1:54,22:71:-69.19,-21.39,-207.74:99
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chr1 4456825 rs61765158 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=3;HaplotypeScore=133.78;MQ=43.18;MQ0=0;OQ=324.30;QD=4.44;SB=-88.42 GT:AD:DP:GL:GQ 0/1:59,14:70:-56.80,-21.09,-201.65:99
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chr1 4456850 rs780601 T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=50.11;MQ=42.32;MQ0=0;OQ=775.14;QD=10.77;SB=-395.42 GT:AD:DP:GL:GQ 0/1:41,31:67:-100.98,-20.18,-144.33:99
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chr1 4457263 rs780603 T C 535.20 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=1544.09;QD=29.13;SB=-491.17 GT:AD:DP:GL:GQ 1/1:0,53:48:-158.03,-14.47,-0.03:99
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chr1 4457873 rs9659744 G A 216.40 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=4.18;MQ=58.81;MQ0=0;OQ=722.66;QD=13.14;SB=-250.79 GT:AD:DP:GL:GQ 0/1:29,25:52:-94.30,-18.75,-103.70:99
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chr1 4457887 rs12029583 T C 182.25 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.02;MQ=58.88;MQ0=0;OQ=815.22;QD=14.06;SB=-229.41 GT:AD:DP:GL:GQ 0/1:25,33:54:-101.08,-16.28,-89.40:99
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chr1 4458652 rs10915548 G A 313.44 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.49;MQ=58.63;MQ0=0;OQ=1202.04;QD=18.21;SB=-612.14 GT:AD:DP:GL:GQ 0/1:31,35:64:-142.78,-19.29,-94.64:99
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chr1 4458793 rs609506 T C 135.30 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=58.91;MQ0=0;OQ=2002.23;QD=32.82;SB=-965.38 GT:AD:DP:GL:GQ 1/1:0,61:57:-203.83,-17.17,-0.03:99
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chr1 4458832 rs13374152 G A 510.02 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.65;MQ0=0;OQ=1323.30;QD=19.75;SB=-559.77 GT:AD:DP:GL:GQ 0/1:28,39:65:-155.19,-19.58,-97.96:99
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chr1 4459077 rs10799235 G C 517.01 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2392.46;QD=41.97;SB=-1062.67 GT:AD:DP:GL:GQ 1/1:0,57:55:-242.85,-16.57,-0.02:99
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chr1 4459761 rs4654438 T C 731.30 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.40;MQ0=0;OQ=2338.83;QD=34.91;SB=-1062.10 GT:AD:DP:GL:GQ 1/1:0,67:66:-237.49,-19.88,-0.02:99
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chr1 4460253 . G A 71.25 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=54.34;MQ0=0;OQ=761.29;QD=16.20;SB=-383.16 GT:AD:DP:GL:GQ 0/1:23,24:45:-92.98,-13.56,-67.37:99
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chr1 4460265 rs9660574 G A 698.27 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.97;MQ0=0;OQ=1971.68;QD=38.66;SB=-993.84 GT:AD:DP:GL:GQ 1/1:0,51:50:-200.77,-15.06,-0.01:99
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chr1 4460731 rs675509 A G 75.44 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.19;MQ0=0;OQ=1733.09;QD=33.33;SB=-850.97 GT:AD:DP:GL:GQ 1/1:0,52:50:-176.92,-15.06,-0.02:99
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chr1 4460821 rs675641 C T 619.56 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2267.76;QD=39.10;SB=-1112.00 GT:AD:DP:GL:GQ 1/1:0,58:57:-230.38,-17.17,-0.02:99
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chr1 4462336 rs4654548 G A 293.32 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.55;MQ0=0;OQ=1820.62;QD=35.70;SB=-883.64 GT:AD:DP:GL:GQ 1/1:0,51:47:-185.66,-14.16,-0.02:99
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chr1 4462612 rs661886 C G 122.47 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1803.84;QD=41.95;SB=-867.51 GT:AD:DP:GL:GQ 1/1:0,43:43:-183.98,-12.96,-0.01:99
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chr1 4462757 rs597453 T C 1.51 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=3;HaplotypeScore=2.36;MQ=60.00;MQ0=0;OQ=1873.91;QD=29.28;SB=-570.21 GT:AD:DP:GL:GQ 1/1:0,64:56:-191.00,-16.87,-0.03:99
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chr1 4463867 rs10799237 G A 181.35 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=59.13;MQ0=0;OQ=2001.42;QD=37.76;SB=-711.98 GT:AD:DP:GL:GQ 1/1:0,53:51:-203.74,-15.36,-0.01:99
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chr1 4464187 . T C 30.12 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.10;MQ=59.33;MQ0=0;OQ=552.68;QD=8.91;SB=-289.28 GT:AD:DP:GL:GQ 0/1:39,23:60:-76.63,-18.08,-155.34:99
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chr1 4465057 rs4654549 G A 100.14 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=3.11;MQ=59.46;MQ0=0;OQ=1572.23;QD=20.42;SB=-717.81 GT:AD:DP:GL:GQ 0/1:31,46:75:-183.10,-22.59,-108.27:99
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chr1 4465240 rs4654439 A G 186.31 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=59.65;MQ0=0;OQ=1824.70;QD=28.07;SB=-920.11 GT:AD:DP:GL:GQ 1/1:1,64:61:-189.47,-18.40,-3.41:99
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chr1 4465350 rs4654550 C T 464.58 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.14;MQ0=0;OQ=1183.55;QD=15.57;SB=-491.13 GT:AD:DP:GL:GQ 0/1:39,37:73:-143.65,-22.01,-117.80:99
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chr1 4465703 rs16839157 C G 292.75 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=2.96;MQ=59.46;MQ0=0;OQ=1332.22;QD=15.49;SB=-637.02 GT:AD:DP:GL:GQ 0/1:48,38:85:-162.12,-25.61,-205.23:99
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chr1 4465766 rs10753381 C T 668.70 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.33;MQ0=0;OQ=2452.18;QD=39.55;SB=-960.97 GT:AD:DP:GL:GQ 1/1:0,62:62:-248.82,-18.68,-0.02:99
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chr1 4465913 rs10753382 A C 344.57 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.23;MQ=42.45;MQ0=0;OQ=1152.30;QD=15.16;SB=-375.76 GT:AD:DP:GL:GQ 0/1:35,41:75:-141.10,-22.59,-129.43:99
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chr1 4465925 rs4654440 A G 314.62 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=45.24;MQ0=0;OQ=2545.78;QD=35.36;SB=-1008.34 GT:AD:DP:GL:GQ 1/1:0,72:72:-258.19,-21.69,-0.03:99
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chr1 4466035 rs4654551 T C 137.52 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=59.71;MQ0=0;OQ=2345.07;QD=29.31;SB=-919.32 GT:AD:DP:GL:GQ 1/1:0,80:75:-238.17,-22.62,-0.07:99
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chr1 4466375 rs4654441 A G 153.58 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=1.97;MQ=59.14;MQ0=0;OQ=1252.72;QD=16.48;SB=-599.98 GT:AD:DP:GL:GQ 0/1:32,44:75:-151.15,-22.60,-128.71:99
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chr1 4466539 . G C 13.68 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.10;MQ=60.00;MQ0=0;OQ=1133.87;QD=19.22;SB=-442.73 GT:AD:DP:GL:GQ 0/1:26,33:58:-134.16,-17.49,-113.78:99
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chr1 4466591 rs7537577 T C 558.12 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1692.69;QD=36.01;SB=-710.63 GT:AD:DP:GL:GQ 1/1:0,47:47:-172.87,-14.16,-0.01:99
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chr1 4466655 rs1870509 A G 172.47 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=58.79;MQ0=0;OQ=1784.46;QD=27.04;SB=-725.30 GT:AD:DP:GL:GQ 1/1:0,66:58:-182.10,-17.50,-0.07:99
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chr1 4467025 rs1018306 G A 522.41 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=2397.83;QD=37.47;SB=-678.32 GT:AD:DP:GL:GQ 1/1:0,64:61:-243.39,-18.38,-0.02:99
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chr1 4467405 . G A 173.51 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=60.00;MQ0=0;OQ=1037.40;QD=16.73;SB=-505.13 GT:AD:DP:GL:GQ 0/1:31,31:60:-125.11,-18.08,-96.58:99
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chr1 4467882 rs10799238 G A 201.42 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=57.23;MQ0=0;OQ=2039.74;QD=37.09;SB=-730.98 GT:AD:DP:GL:GQ 1/1:0,54:52:-207.58,-15.67,-0.02:99
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chr1 4468054 rs10799239 G T 526.93 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.10;MQ0=0;OQ=2381.50;QD=35.54;SB=-1199.06 GT:AD:DP:GL:GQ 1/1:0,67:66:-241.76,-19.88,-0.02:99
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chr1 4468702 rs780570 T C 301.27 PASS AC=2;AF=1.00;AN=2;DB;DP=22;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=55.66;MQ0=0;OQ=692.07;QD=31.46;SB=-209.70 GT:AD:DP:GL:GQ 1/1:0,22:21:-72.80,-6.33,-0.01:63.17
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chr1 4468728 . G A 3.90 PASS AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=1;HaplotypeScore=1.85;MQ=52.20;MQ0=0;OQ=192.92;QD=6.65;SB=-94.59 GT:AD:DP:GL:GQ 0/1:18,10:25:-30.11,-7.53,-60.00:99
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chr1 4468760 rs60725706 C T 2.79 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=2.68;MQ=47.80;MQ0=0;OQ=892.66;QD=25.50;SB=-420.32 GT:AD:DP:GL:GQ 1/1:1,34:26:-92.87,-7.84,-0.02:78.22
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chr1 4468793 . C T 155.10 SnpCluster AC=1;AF=0.50;AN=2;DP=45;Dels=0.00;HRun=2;HaplotypeScore=28.66;MQ=43.47;MQ0=0;QD=3.45;SB=-75.82 GT:AD:DP:GL:GQ 0/1:34,11:31:-28.13,-9.34,-89.19:99
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chr1 4468798 rs57105176 C T 210.28 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=33.72;MQ=43.23;MQ0=0;QD=4.38;SB=-105.47 GT:AD:DP:GL:GQ 0/1:33,15:33:-34.25,-9.94,-88.69:99
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chr1 4468800 . C T 23.55 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=2;HaplotypeScore=34.30;MQ=43.63;MQ0=0;QD=0.48;SB=32.09 GT:AD:DP:GL:GQ 0/1:44,5:35:-16.18,-10.54,-113.19:56.36
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chr1 4468801 . T C 10.10 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=1;HaplotypeScore=35.27;MQ=44.04;MQ0=0;QD=0.21;SB=32.13 GT:AD:DP:GL:GQ 0/1:43,5:35:-14.79,-10.54,-128.12:42.49
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chr1 4469243 rs12031045 G A 324.76 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=623.89;QD=15.22;SB=-230.72 GT:AD:DP:GL:GQ 0/1:20,21:41:-78.04,-12.36,-70.49:99
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chr1 4469296 rs780569 T A 228.26 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.28;MQ0=0;OQ=1316.01;QD=34.63;SB=-627.73 GT:AD:DP:GL:GQ 1/1:0,38:37:-135.20,-11.15,-0.01:99
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chr1 4469318 rs12035160 A T 129.07 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=57.81;MQ0=0;OQ=613.76;QD=19.18;SB=-234.94 GT:AD:DP:GL:GQ 0/1:11,21:31:-74.00,-9.34,-42.52:99
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chr1 4469407 rs10799241 A G 224.26 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=1.03;MQ=57.87;MQ0=0;OQ=407.85;QD=8.87;SB=-207.21 GT:AD:DP:GL:GQ 0/1:29,17:45:-57.62,-13.55,-119.36:99
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chr1 4469520 rs16839168 G A 432.40 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=846.65;QD=16.28;SB=-413.43 GT:AD:DP:GL:GQ 0/1:26,26:51:-103.31,-15.37,-89.05:99
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chr1 4469555 rs16839171 G T 425.50 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.63;MQ0=0;OQ=647.76;QD=12.70;SB=-289.64 GT:AD:DP:GL:GQ 0/1:27,24:51:-83.43,-15.37,-93.72:99
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chr1 4469694 rs780568 A G 87.34 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=1.60;MQ=59.63;MQ0=0;OQ=1699.95;QD=33.33;SB=-755.94 GT:AD:DP:GL:GQ 1/1:0,51:49:-173.60,-14.76,-0.02:99
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chr1 4470136 rs16839175 T C 275.26 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.63;MQ0=0;OQ=746.25;QD=11.85;SB=-286.15 GT:AD:DP:GL:GQ 0/1:31,32:61:-96.29,-18.39,-125.52:99
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chr1 4470246 rs1612698 A G 417.84 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.34;MQ=60.15;MQ0=0;OQ=917.82;QD=12.40;SB=-358.93 GT:AD:DP:GL:GQ 0/1:42,32:74:-117.36,-22.29,-169.05:99
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chr1 4470842 rs4654552 C T 182.29 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=2.85;MQ=59.68;MQ0=0;OQ=1084.53;QD=15.28;SB=-349.06 GT:AD:DP:GL:GQ 0/1:37,34:71:-133.13,-21.39,-131.43:99
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chr1 4471600 rs1710415 A G 89.74 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=59.45;MQ0=0;OQ=1235.30;QD=29.41;SB=-309.47 GT:AD:DP:GL:GQ 1/1:0,42:39:-127.15,-11.76,-0.03:99
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chr1 4471806 rs1762825 T A 126.40 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.16;MQ0=0;OQ=1997.53;QD=36.32;SB=-643.98 GT:AD:DP:GL:GQ 1/1:0,55:54:-203.35,-16.27,-0.02:99
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chr1 4471883 rs10915549 G A 333.26 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.45;MQ0=0;OQ=443.28;QD=10.55;SB=-159.64 GT:AD:DP:GL:GQ 0/1:26,16:40:-59.67,-12.06,-79.56:99
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chr1 4472000 rs4654442 G A 195.09 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.37;MQ0=0;OQ=2467.21;QD=37.38;SB=-970.01 GT:AD:DP:GL:GQ 1/1:0,66:62:-250.32,-18.68,-0.02:99
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chr1 4472928 rs4568797 G T 198.75 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.61;MQ=59.01;MQ0=0;OQ=1306.78;QD=17.19;SB=-394.04 GT:AD:DP:GL:GQ 0/1:30,46:73:-155.95,-21.99,-98.20:99
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chr1 4472959 rs4480324 A G 92.82 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.63;MQ0=0;OQ=1914.93;QD=30.40;SB=-560.92 GT:AD:DP:GL:GQ 1/1:0,63:60:-195.13,-18.10,-0.06:99
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chr1 4472994 rs4323680 T C 685.55 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=1931.20;QD=32.73;SB=-824.33 GT:AD:DP:GL:GQ 1/1:0,59:55:-196.72,-16.57,-0.02:99
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chr1 4473017 rs4437847 T C 44.80 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=58.88;MQ0=0;OQ=1770.27;QD=28.55;SB=-781.74 GT:AD:DP:GL:GQ 1/1:0,62:55:-180.66,-16.58,-0.05:99
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chr1 4473102 rs4442344 T C 686.66 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=1772.96;QD=35.46;SB=-792.00 GT:AD:DP:GL:GQ 1/1:0,50:50:-180.90,-15.06,-0.02:99
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chr1 4473320 rs1710418 A G 44.26 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=1771.10;QD=32.20;SB=-713.21 GT:AD:DP:GL:GQ 1/1:0,54:51:-180.72,-15.36,-0.02:99
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chr1 4473327 rs1762828 G A 169.38 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.60;MQ0=0;OQ=2054.72;QD=36.05;SB=-823.34 GT:AD:DP:GL:GQ 1/1:0,57:53:-209.08,-15.97,-0.02:99
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chr1 4473546 rs1710419 C A 168.66 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.06;MQ=57.84;MQ0=0;OQ=1495.45;QD=32.51;SB=-770.46 GT:AD:DP:GL:GQ 1/1:0,46:43:-153.15,-12.95,-0.02:99
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chr1 4473664 rs1710420 C T 149.96 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.90;MQ=59.20;MQ0=0;OQ=902.97;QD=15.57;SB=-230.52 GT:AD:DP:GL:GQ 0/1:30,28:57:-110.76,-17.18,-94.35:99
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chr1 4473849 rs1710421 C T 247.57 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.67;MQ0=0;OQ=2607.62;QD=37.79;SB=-1041.32 GT:AD:DP:GL:GQ 1/1:0,69:66:-264.37,-19.88,-0.02:99
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chr1 4473977 rs1710422 C T 77.88 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=58.90;MQ0=0;OQ=2084.84;QD=37.91;SB=-795.07 GT:AD:DP:GL:GQ 1/1:0,55:54:-212.09,-16.27,-0.02:99
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chr1 4473997 rs1710423 T C 135.26 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=59.07;MQ0=0;OQ=1147.64;QD=25.50;SB=-601.59 GT:AD:DP:GL:GQ 1/1:0,45:37:-118.39,-11.16,-0.04:99
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chr1 4474861 rs1710424 A G 675.73 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.21;MQ0=0;OQ=2263.90;QD=31.89;SB=-1103.74 GT:AD:DP:GL:GQ 1/1:0,71:67:-230.02,-20.19,-0.04:99
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chr1 4475148 rs12036337 G A 158.77 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=56.87;MQ0=1;OQ=1002.66;QD=14.75;SB=-286.76 GT:AD:DP:GL:GQ 0/1:34,34:59:-121.33,-17.78,-94.02:99
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chr1 4475283 . G A 82.68 PASS AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.84;MQ=59.35;MQ0=0;OQ=845.94;QD=13.22;SB=-362.87 GT:AD:DP:GL:GQ 0/1:34,30:60:-105.97,-18.09,-111.99:99
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chr1 4475382 rs10915550 C T 345.50 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.41;MQ=58.10;MQ0=0;OQ=927.67;QD=14.96;SB=-380.90 GT:AD:DP:GL:GQ 0/1:33,29:62:-114.73,-18.68,-118.48:99
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chr1 4476131 rs10737413 C T 15.63 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=59.60;MQ0=0;OQ=1742.86;QD=37.08;SB=-655.67 GT:AD:DP:GL:GQ 1/1:0,47:45:-177.88,-13.56,-0.01:99
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chr1 4476657 rs1710430 C G 535.69 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=2311.95;QD=41.28;SB=-1026.21 GT:AD:DP:GL:GQ 1/1:0,56:54:-234.80,-16.27,-0.02:99
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chr1 4476980 rs4654443 C T 562.55 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1325.65;QD=15.60;SB=-630.22 GT:AD:DP:GL:GQ 0/1:45,40:85:-161.45,-25.60,-165.34:99
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chr1 4477487 rs12033789 G T 214.07 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=1.85;MQ=60.00;MQ0=0;OQ=905.30;QD=15.34;SB=-363.43 GT:AD:DP:GL:GQ 0/1:29,30:59:-111.58,-17.77,-100.35:99
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chr1 4477488 rs12036603 C T 258.44 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=60.00;MQ0=0;OQ=969.57;QD=16.16;SB=-419.81 GT:AD:DP:GL:GQ 0/1:30,30:59:-118.02,-17.78,-101.27:99
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chr1 4478406 rs596607 G A 55.59 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=59.40;MQ0=0;OQ=1761.44;QD=22.88;SB=-768.34 GT:AD:DP:GL:GQ 0/1:27,50:75:-202.03,-22.60,-83.51:99
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chr1 4478558 rs12039806 T A 70.60 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=6.67;MQ=59.12;MQ0=0;OQ=1156.91;QD=14.64;SB=-441.48 GT:AD:DP:GL:GQ 0/1:42,37:77:-142.17,-23.19,-150.58:99
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chr1 4478614 rs12039814 T C 10.71 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=7.09;MQ=59.66;MQ0=0;OQ=671.25;QD=10.02;SB=-294.21 GT:AD:DP:GL:GQ 0/1:37,30:64:-89.71,-19.30,-136.10:99
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chr1 4478650 rs12038994 A T 269.76 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.65;MQ0=0;OQ=1147.45;QD=17.39;SB=-509.94 GT:AD:DP:GL:GQ 0/1:28,38:64:-137.31,-19.28,-105.10:99
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chr1 4478709 . A C 2.11 PASS AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=1;HaplotypeScore=7.65;MQ=58.73;MQ0=0;OQ=1101.58;QD=15.09;SB=-425.69 GT:AD:DP:GL:GQ 0/1:30,42:69:-134.23,-20.79,-106.44:99
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chr1 4478753 rs16839198 G T 52.90 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=7.25;MQ=58.23;MQ0=0;OQ=906.23;QD=13.73;SB=-344.31 GT:AD:DP:GL:GQ 0/1:32,33:64:-113.20,-19.29,-98.09:99
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chr1 4478891 . A G 89.93 PASS AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.48;MQ=59.39;MQ0=0;OQ=917.93;QD=13.50;SB=-396.16 GT:AD:DP:GL:GQ 0/1:36,32:68:-115.57,-20.49,-141.62:99
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chr1 4478991 rs12039070 A G 301.10 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=3.59;MQ=59.71;MQ0=0;OQ=1280.19;QD=16.00;SB=-441.58 GT:AD:DP:GL:GQ 0/1:37,43:80:-155.40,-24.10,-149.81:99
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chr1 4479035 rs12034930 G A 326.95 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=59.68;MQ0=0;OQ=1133.14;QD=15.74;SB=-491.00 GT:AD:DP:GL:GQ 0/1:34,37:69:-137.39,-20.79,-119.61:99
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chr1 4479073 rs12039100 A G 27.26 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=3.20;MQ=58.95;MQ0=0;OQ=915.49;QD=13.87;SB=-279.55 GT:AD:DP:GL:GQ 0/1:35,31:66:-114.72,-19.89,-140.84:99
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chr1 4479099 rs12039101 A G 318.42 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.13;MQ=59.02;MQ0=0;OQ=1020.75;QD=14.38;SB=-348.94 GT:AD:DP:GL:GQ 0/1:36,35:70:-126.45,-21.09,-134.68:99
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chr1 4479118 rs1229148 A G 277.76 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.65;MQ=59.11;MQ0=0;OQ=784.46;QD=10.75;SB=-374.59 GT:AD:DP:GL:GQ 0/1:37,36:67:-101.94,-20.21,-133.99:99
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chr1 4479593 rs12035830 G A 298.83 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=3.09;MQ=59.59;MQ0=0;OQ=906.38;QD=16.19;SB=-375.12 GT:AD:DP:GL:GQ 0/1:28,28:56:-110.79,-16.87,-99.66:99
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chr1 4479841 rs13375249 G C 20.65 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=3;HaplotypeScore=1.63;MQ=59.73;MQ0=0;OQ=1230.24;QD=17.57;SB=-290.56 GT:AD:DP:GL:GQ 0/1:33,37:66:-146.20,-19.90,-135.57:99
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chr1 4479995 rs13375764 T C 66.03 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=4.40;MQ=59.54;MQ0=0;OQ=574.33;QD=11.49;SB=-245.91 GT:AD:DP:GL:GQ 0/1:28,22:47:-74.88,-14.16,-104.49:99
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chr1 4480068 rs56226943 T C 40.29 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=4.82;MQ=59.62;MQ0=0;OQ=881.12;QD=14.44;SB=-433.94 GT:AD:DP:GL:GQ 0/1:29,32:60:-109.48,-18.08,-115.28:99
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chr1 4480417 . C T 49.35 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=55.69;MQ0=0;OQ=1159.90;QD=16.81;SB=-282.22 GT:AD:DP:GL:GQ 0/1:33,36:66:-139.16,-19.89,-99.45:99
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chr1 4480560 rs61765366 A G 285.70 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=56.94;MQ0=0;OQ=701.52;QD=11.89;SB=-268.60 GT:AD:DP:GL:GQ 0/1:29,30:57:-90.62,-17.18,-111.39:99
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chr1 4480691 rs61765367 A G 0.21 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=4.75;MQ=57.81;MQ0=0;OQ=122.26;QD=1.63;SB=-4.55 GT:AD:DP:GL:GQ 0/1:63,11:59:-33.30,-17.79,-184.25:99
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chr1 4480787 rs61765379 A G 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=7.68;MQ=56.41;MQ0=0;OQ=64.97;QD=0.82;SB=-50.25 GT:AD:DP:GL:GQ 0/1:64,12:67:-29.98,-20.20,-222.76:97.81
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chr1 4480849 rs549627 C T 251.36 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.29;MQ=56.04;MQ0=0;OQ=1162.07;QD=16.37;SB=-467.11 GT:AD:DP:GL:GQ 0/1:33,37:67:-139.69,-20.20,-99.87:99
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chr1 4480920 rs548786 G A 173 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=56.79;MQ0=1;OQ=670.11;QD=12.41;SB=-198.20 GT:AD:DP:GL:GQ 0/1:30,24:48:-84.77,-14.47,-84.01:99
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chr1 4481090 rs12039682 C T 474.84 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=58.78;MQ0=0;OQ=980.72;QD=14.21;SB=-480.03 GT:AD:DP:GL:GQ 0/1:39,30:68:-121.84,-20.48,-138.54:99
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chr1 4481198 rs12039710 C A 19.16 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=3;HaplotypeScore=2.99;MQ=59.79;MQ0=0;OQ=1468.40;QD=16.69;SB=-755.87 GT:AD:DP:GL:GQ 0/1:41,47:88:-176.63,-26.50,-144.72:99
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chr1 4481445 rs608203 T C 400.08 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=60.00;MQ0=0;OQ=763.64;QD=11.93;SB=-242.90 GT:AD:DP:GL:GQ 0/1:33,31:64:-98.94,-19.29,-134.86:99
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chr1 4481949 rs518456 T G 602.74 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=1221.17;QD=15.26;SB=-525.73 GT:AD:DP:GL:GQ 0/1:37,43:77:-148.59,-23.19,-127.99:99
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chr1 4481956 rs57010025 C T 238.50 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.40;MQ0=0;OQ=1419.96;QD=18.44;SB=-598.08 GT:AD:DP:GL:GQ 0/1:35,42:76:-168.18,-22.90,-116.42:99
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chr1 4482059 rs10489135 T C 436.47 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.51;MQ0=0;OQ=1051.73;QD=13.84;SB=-549.55 GT:AD:DP:GL:GQ 0/1:39,37:73:-130.44,-21.99,-146.62:99
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chr1 4482139 rs57559146 A C 431.51 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.06;MQ0=0;OQ=970.54;QD=17.33;SB=-397.86 GT:AD:DP:GL:GQ 0/1:23,33:54:-116.60,-16.26,-81.57:99
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chr1 4482422 rs60071491 T C 92.13 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=2;HaplotypeScore=0.92;MQ=56.24;MQ0=0;OQ=1374.62;QD=16.76;SB=-668.88 GT:AD:DP:GL:GQ 0/1:37,45:82:-165.44,-24.69,-153.42:99
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chr1 4482693 rs4112336 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=102.81;MQ=56.77;MQ0=0;OQ=769.43;QD=9.27;SB=-197.80 GT:AD:DP:GL:GQ 0/1:55,28:82:-104.92,-24.70,-193.00:99
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chr1 4482708 . C A 39.18 Indel;LowQual AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=48.79;MQ=55.68;MQ0=0;QD=0.43;SB=-10.83 GT:AD:DP:GL:GQ 0/1:82,10:90:-34.30,-27.10,-291.82:72.01
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chr1 4482756 rs1229150 T G 280.23 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=57.57;MQ0=0;OQ=1600.43;QD=18.83;SB=-735.72 GT:AD:DP:GL:GQ 0/1:32,53:82:-188.02,-24.70,-112.53:99
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chr1 4482784 rs1229151 A G 1304.96 Indel AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=53.27;MQ0=0;QD=17.88;SB=-660.04 GT:AD:DP:GL:GQ 0/1:30,43:72:-155.47,-21.69,-120.71:99
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chr1 4482854 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=78.29;MQ=48.56;MQ0=0;OQ=195.41;QD=2.87;SB=-84.58 GT:AD:DP:GL:GQ 0/1:55,13:66:-42.70,-19.88,-199.63:99
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chr1 4482959 rs2097536 C T 73.43 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.49;MQ0=0;OQ=999.17;QD=22.20;SB=-274.28 GT:AD:DP:GL:GQ 0/1:16,29:44:-116.46,-13.25,-55.39:99
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chr1 4486372 rs12040164 C T 326.57 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.99;MQ=59.42;MQ0=0;OQ=1051.54;QD=14.60;SB=-388.33 GT:AD:DP:GL:GQ 0/1:40,32:72:-130.14,-21.70,-132.54:99
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chr1 4487829 rs241237 C T 194.54 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.46;MQ0=0;OQ=801.99;QD=18.65;SB=-287.22 GT:AD:DP:GL:GQ 0/1:18,25:42:-96.14,-12.66,-58.53:99
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chr1 4488590 . G A 17.21 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1047.83;QD=22.78;SB=-295.25 GT:AD:DP:GL:GQ 0/1:15,31:44:-121.33,-13.26,-41.74:99
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chr1 4489266 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=19.48;MQ=53.94;MQ0=1;OQ=546.80;QD=8.68;SB=-157.24 GT:AD:DP:GL:GQ 0/1:31,26:42:-73.40,-15.44,-84.22:99
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chr1 4489270 rs241234 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=25.61;MQ=53.85;MQ0=1;OQ=785.85;QD=12.28;SB=-389.60 GT:AD:DP:GL:GQ 0/1:33,31:57:-99.04,-17.17,-115.38:99
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chr1 4490410 rs241233 T C 169.60 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=1.70;MQ=59.74;MQ0=0;OQ=1074.01;QD=14.92;SB=-553.96 GT:AD:DP:GL:GQ 0/1:36,36:72:-132.37,-21.68,-149.45:99
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chr1 4490829 rs241232 G A 84.32 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=59.60;MQ0=0;OQ=913.96;QD=19.45;SB=-389.16 GT:AD:DP:GL:GQ 0/1:20,27:47:-108.84,-14.16,-68.00:99
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chr1 4492019 . C T 107.27 PASS AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=59.07;MQ0=0;OQ=862.99;QD=13.28;SB=-457.42 GT:AD:DP:GL:GQ 0/1:38,27:64:-108.86,-19.28,-134.13:99
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chr1 4492104 rs241229 G A 148.93 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=59.63;MQ0=0;OQ=584.46;QD=9.28;SB=-212.39 GT:AD:DP:GL:GQ 0/1:43,20:63:-80.71,-18.98,-155.69:99
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chr1 4494463 rs537398 T C 597.93 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=930.45;QD=15.51;SB=-426.29 GT:AD:DP:GL:GQ 0/1:29,31:60:-114.40,-18.07,-118.90:99
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chr1 4494858 rs34231005 T G 11.27 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=4;HaplotypeScore=0.14;MQ=59.76;MQ0=0;OQ=881.39;QD=11.30;SB=-322.46 GT:AD:DP:GL:GQ 0/1:45,33:76:-114.31,-22.89,-158.76:99
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chr1 4495171 rs509960 T C 253.48 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=2.40;MQ=60.00;MQ0=0;OQ=1172.46;QD=18.04;SB=-611.00 GT:AD:DP:GL:GQ 0/1:27,38:65:-140.10,-19.58,-110.54:99
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chr1 4495869 . C T 861.60 Indel AC=1;AF=0.50;AN=2;DP=74;Dels=0.04;HRun=1;HaplotypeScore=22.99;MQ=51.44;MQ0=0;QD=11.64;SB=-342.41 GT:AD:DP:GL:GQ 0/1:44,27:74:-110.83,-21.38,-161.62:99
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chr1 4495871 . C A 736.52 Indel AC=1;AF=0.50;AN=2;DP=74;Dels=0.04;HRun=0;HaplotypeScore=22.99;MQ=51.44;MQ0=0;QD=9.95;SB=-304.20 GT:AD:DP:GL:GQ 0/1:44,27:74:-98.32,-21.38,-161.31:99
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chr1 4496138 rs10915553 T C 458.40 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.54;MQ0=0;OQ=880.60;QD=11.90;SB=-349.17 GT:AD:DP:GL:GQ 0/1:42,32:72:-113.03,-21.69,-158.51:99
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chr1 4496148 rs10915554 G A 271.40 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=55.61;MQ0=0;OQ=1132.53;QD=15.10;SB=-504.97 GT:AD:DP:GL:GQ 0/1:40,35:73:-138.53,-22.00,-129.42:99
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chr1 4496394 rs12084169 C T 196.40 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=2.09;MQ=59.54;MQ0=0;OQ=1321.84;QD=16.12;SB=-685.73 GT:AD:DP:GL:GQ 0/1:41,41:80:-159.57,-24.10,-141.56:99
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chr1 4496424 rs12086217 A G 463.85 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.43;MQ0=0;OQ=859.99;QD=13.23;SB=-378.26 GT:AD:DP:GL:GQ 0/1:34,31:65:-108.86,-19.58,-137.17:99
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chr1 4496942 rs623217 G C 175.34 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=59.66;MQ0=0;OQ=1355.72;QD=19.94;SB=-471.80 GT:AD:DP:GL:GQ 0/1:31,37:66:-158.75,-19.89,-127.17:99
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chr1 4496949 rs472113 G A 230.42 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.66;MQ0=0;OQ=1272.49;QD=18.99;SB=-462.43 GT:AD:DP:GL:GQ 0/1:30,37:67:-150.71,-20.18,-109.30:99
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chr1 4497460 rs556890 A G 2.32 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=9.81;MQ=58.48;MQ0=0;OQ=661.76;QD=14.39;SB=-333.32 GT:AD:DP:GL:GQ 0/1:21,24:43:-82.42,-12.96,-78.26:99
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chr1 4497578 . G A 145.29 PASS AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=55.81;MQ0=2;OQ=939.73;QD=13.42;SB=-372.83 GT:AD:DP:GL:GQ 0/1:38,32:59:-115.04,-17.78,-100.90:99
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chr1 4497715 rs609304 T C 122.41 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=1.73;MQ=59.55;MQ0=0;OQ=597.13;QD=11.71;SB=-145.28 GT:AD:DP:GL:GQ 0/1:26,25:50:-78.07,-15.08,-99.80:99
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chr1 4497726 rs554335 A T 316.28 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=640.98;QD=12.57;SB=-272.29 GT:AD:DP:GL:GQ 0/1:29,22:51:-82.74,-15.36,-107.67:99
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chr1 4497802 rs16838465 A G 196.23 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=59.68;MQ0=0;OQ=953.26;QD=13.06;SB=-260.95 GT:AD:DP:GL:GQ 0/1:33,40:71:-120.01,-21.40,-135.23:99
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chr1 4497821 rs553435 A G 265.49 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=3.67;MQ=59.70;MQ0=0;OQ=1049.73;QD=13.63;SB=-281.63 GT:AD:DP:GL:GQ 0/1:34,43:75:-130.87,-22.61,-136.05:99
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chr1 4497861 rs608492 G C 466.90 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.05;MQ0=0;OQ=1478.41;QD=20.82;SB=-714.38 GT:AD:DP:GL:GQ 0/1:30,41:69:-171.91,-20.79,-131.74:99
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chr1 4497881 rs12726510 T C 431.64 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=56.08;MQ0=0;OQ=981.66;QD=11.69;SB=-387.89 GT:AD:DP:GL:GQ 0/1:41,43:78:-124.95,-23.50,-161.69:99
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chr1 4497887 rs12752601 C A 191.53 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=1.76;MQ=56.08;MQ0=0;OQ=1107.25;QD=13.18;SB=-552.73 GT:AD:DP:GL:GQ 0/1:44,40:81:-138.40,-24.39,-157.12:99
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chr1 4497950 rs12737521 G A 266.94 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=58.10;MQ0=0;OQ=874.33;QD=12.67;SB=-378.16 GT:AD:DP:GL:GQ 0/1:41,28:69:-111.51,-20.80,-136.23:99
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chr1 4498077 rs551359 A G 240.90 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=2.63;MQ=59.32;MQ0=0;OQ=1496.06;QD=16.81;SB=-547.59 GT:AD:DP:GL:GQ 0/1:39,50:88:-179.39,-26.50,-159.21:99
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chr1 4498168 rs495682 T C 312.82 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.73;MQ0=0;OQ=1219.53;QD=14.52;SB=-615.78 GT:AD:DP:GL:GQ 0/1:41,43:83:-150.24,-25.00,-166.52:99
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chr1 4498170 rs596848 G A 305.85 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.72;MQ0=0;OQ=1391.50;QD=16.77;SB=-693.72 GT:AD:DP:GL:GQ 0/1:40,43:81:-166.83,-24.40,-145.63:99
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chr1 4498284 rs596360 G A 603.53 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=984.96;QD=14.92;SB=-509.05 GT:AD:DP:GL:GQ 0/1:36,30:66:-121.68,-19.90,-113.72:99
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chr1 4498314 rs494638 T C 459.72 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.34;MQ0=0;OQ=1145.34;QD=15.69;SB=-585.28 GT:AD:DP:GL:GQ 0/1:33,40:71:-139.20,-21.39,-128.86:99
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chr1 4498825 rs489371 A G 35.40 PASS AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=1;HaplotypeScore=4.84;MQ=56.29;MQ0=0;OQ=1173.41;QD=12.62;SB=-564.58 GT:AD:DP:GL:GQ 0/1:51,42:90:-147.73,-27.11,-207.42:99
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chr1 4498854 rs489316 A G 383.07 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=53.44;MQ0=0;OQ=1022.72;QD=11.24;SB=-456.67 GT:AD:DP:GL:GQ 0/1:50,41:90:-132.68,-27.12,-202.80:99
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chr1 4499103 rs592726 C T 522.92 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.01;MQ0=0;OQ=1251.74;QD=14.06;SB=-614.59 GT:AD:DP:GL:GQ 0/1:50,39:87:-154.68,-26.22,-160.76:99
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chr1 4499256 rs6673713 A T 601.23 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.46;MQ0=0;OQ=969.14;QD=15.38;SB=-478.55 GT:AD:DP:GL:GQ 0/1:32,31:63:-119.17,-18.97,-123.21:99
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chr1 4499545 rs6677142 T C 474.20 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=56.97;MQ0=0;OQ=1056.33;QD=15.77;SB=-489.28 GT:AD:DP:GL:GQ 0/1:31,36:67:-129.10,-20.18,-124.32:99
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chr1 4499557 rs10158638 A G 600.71 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.01;MQ0=0;OQ=954.47;QD=14.46;SB=-498.28 GT:AD:DP:GL:GQ 0/1:33,33:66:-118.61,-19.88,-133.94:99
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chr1 4499695 rs28694108 C T 122.88 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.23;MQ=60.16;MQ0=0;OQ=1387.28;QD=20.11;SB=-460.49 GT:AD:DP:GL:GQ 0/1:27,42:67:-162.21,-20.20,-83.84:99
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chr1 4499852 rs569392 T C 181.23 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=1.97;MQ=59.40;MQ0=0;OQ=1301.88;QD=15.50;SB=-652.84 GT:AD:DP:GL:GQ 0/1:40,44:84:-158.78,-25.30,-162.80:99
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chr1 4499866 rs638811 G A 371.51 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.47;MQ0=0;OQ=1161.22;QD=14.70;SB=-516.05 GT:AD:DP:GL:GQ 0/1:40,38:72:-141.11,-21.71,-113.94:99
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chr1 4500093 rs627374 C A 201.56 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=3.04;MQ=56.24;MQ0=0;OQ=1409.06;QD=17.18;SB=-575.67 GT:AD:DP:GL:GQ 0/1:36,45:77:-170.76,-26.57,-102.66:99
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chr1 4500144 rs1612095 G C 191.96 PASS AC=1;AF=0.50;AN=2;DB;DP=98;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=58.14;MQ0=0;OQ=1652.98;QD=16.87;SB=-714.30 GT:AD:DP:GL:GQ 0/1:51,47:96:-197.51,-28.93,-219.71:99
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chr1 4500181 rs1612008 C T 343.92 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.55;MQ0=0;OQ=1543.90;QD=16.78;SB=-630.74 GT:AD:DP:GL:GQ 0/1:42,49:86:-183.59,-25.91,-132.31:99
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chr1 4500274 rs544513 A G 399.63 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=703.77;QD=11.00;SB=-261.96 GT:AD:DP:GL:GQ 0/1:33,31:62:-92.35,-18.69,-134.62:99
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chr1 4500351 rs543653 T G 570.98 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=699.52;QD=12.27;SB=-362.58 GT:AD:DP:GL:GQ 0/1:31,26:56:-90.10,-16.87,-111.77:99
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chr1 4500481 rs542688 C G 360.13 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=59.76;MQ0=0;OQ=1267.59;QD=16.05;SB=-449.73 GT:AD:DP:GL:GQ 0/1:41,38:77:-153.25,-23.20,-181.78:99
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chr1 4500512 rs625627 C T 286.16 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.37;MQ=59.08;MQ0=0;OQ=914.91;QD=12.89;SB=-281.75 GT:AD:DP:GL:GQ 0/1:39,32:67:-114.97,-20.19,-123.19:99
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chr1 4500529 rs541929 A G 325.19 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=59.16;MQ0=0;OQ=945.37;QD=12.28;SB=-290.30 GT:AD:DP:GL:GQ 0/1:42,34:76:-120.71,-22.89,-170.67:99
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chr1 4500606 rs10915556 C T 355.71 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1316.31;QD=19.65;SB=-489.56 GT:AD:DP:GL:GQ 0/1:29,38:66:-154.80,-19.88,-102.91:99
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chr1 4500644 rs2051642 G T 498.30 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1142.97;QD=16.33;SB=-501.30 GT:AD:DP:GL:GQ 0/1:32,38:70:-138.67,-21.09,-110.82:99
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chr1 4500677 rs2051641 C T 126.58 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=2.61;MQ=60.00;MQ0=0;OQ=1424.93;QD=18.04;SB=-396.12 GT:AD:DP:GL:GQ 0/1:37,42:79:-169.57,-23.79,-134.20:99
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chr1 4500995 rs694361 G A 987.12 Indel AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=10;HaplotypeScore=19.73;MQ=59.67;MQ0=0;QD=14.31;SB=-451.85 GT:AD:DP:GL:GQ 0/1:36,33:64:-121.28,-19.29,-109.34:99
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chr1 4501161 rs10915557 A C 322.35 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.59;MQ0=0;OQ=772.74;QD=13.80;SB=-198.82 GT:AD:DP:GL:GQ 0/1:27,28:54:-96.83,-16.27,-94.26:99
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chr1 4501182 rs10915558 G T 398.28 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=829.24;QD=13.16;SB=-280.30 GT:AD:DP:GL:GQ 0/1:32,31:61:-104.58,-18.38,-107.72:99
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chr1 4501418 rs988089 G T 231.64 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=59.83;MQ0=0;OQ=785.83;QD=14.29;SB=-379.13 GT:AD:DP:GL:GQ 0/1:28,27:55:-98.43,-16.57,-95.26:99
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chr1 4501445 rs988088 G A 287.91 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=59.35;MQ0=0;OQ=635.25;QD=14.77;SB=-270.30 GT:AD:DP:GL:GQ 0/1:21,22:39:-78.57,-11.76,-58.80:99
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chr1 4501584 rs1988134 A T 372.09 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.72;MQ0=0;OQ=1235.61;QD=14.89;SB=-511.29 GT:AD:DP:GL:GQ 0/1:43,40:83:-151.84,-25.00,-162.60:99
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chr1 4501936 rs508056 T C 0.28 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.01;HRun=1;HaplotypeScore=15.97;MQ=59.84;MQ0=0;OQ=1145.11;QD=15.07;SB=-479.27 GT:AD:DP:GL:GQ 0/1:36,39:76:-140.39,-22.59,-147.97:99
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chr1 4501948 rs594535 A T 38.55 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.01;HRun=0;HaplotypeScore=7.00;MQ=59.51;MQ0=0;OQ=1283.54;QD=17.83;SB=-623.13 GT:AD:DP:GL:GQ 0/1:31,40:72:-153.02,-21.38,-116.42:99
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chr1 4502177 rs640624 T C 14.98 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=7.76;MQ=59.57;MQ0=0;OQ=1108.01;QD=16.29;SB=-573.02 GT:AD:DP:GL:GQ 0/1:30,38:66:-133.97,-19.88,-116.04:99
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chr1 4502677 . A G 145.65 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.30;MQ0=0;OQ=805.91;QD=12.21;SB=-395.14 GT:AD:DP:GL:GQ 0/1:37,29:66:-103.76,-19.88,-150.61:99
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chr1 4502871 rs2411775 C T 188.48 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.39;MQ0=0;OQ=1230.48;QD=17.83;SB=-330.32 GT:AD:DP:GL:GQ 0/1:32,36:67:-146.52,-20.19,-100.70:99
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chr1 4503184 rs694935 T A 28.68 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=3;HaplotypeScore=2.73;MQ=59.33;MQ0=0;OQ=840.35;QD=13.55;SB=-222.90 GT:AD:DP:GL:GQ 0/1:31,31:58:-104.80,-17.48,-105.42:99
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chr1 4503230 rs694967 T G 352.39 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.39;MQ=57.78;MQ0=0;OQ=1098.27;QD=15.25;SB=-535.44 GT:AD:DP:GL:GQ 0/1:33,39:72:-134.80,-21.69,-119.88:99
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chr1 4503601 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=1;HaplotypeScore=106.52;MQ=39.06;MQ0=0;OQ=897.90;QD=7.48;SB=-269.21 GT:AD:DP:GL:GQ 0/1:86,34:118:-128.61,-35.54,-314.22:99
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chr1 4503616 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=137;Dels=0.00;HRun=1;HaplotypeScore=12.83;MQ=37.47;MQ0=0;OQ=467.51;QD=3.41;SB=-122.22 GT:AD:DP:GL:GQ 0/1:111,26:134:-90.40,-40.36,-439.82:99
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chr1 4503623 rs241214 C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=148;Dels=0.00;HRun=0;HaplotypeScore=94.05;MQ=37.91;MQ0=0;OQ=4273.01;QD=28.87;SB=-1538.72 GT:AD:DP:GL:GQ 0/1:32,114:147:-426.30,-51.49,-123.04:99
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chr1 4503639 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=0;HaplotypeScore=260.99;MQ=37.36;MQ0=0;OQ=1166.38;QD=7.34;SB=-484.60 GT:AD:DP:GL:GQ 0/1:114,44:124:-157.27,-37.35,-295.16:99
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chr1 4503657 rs12754029 A C 1394.26 DPFilter;Indel AC=1;AF=0.50;AN=2;DB;DP=153;Dels=0.00;HRun=1;HaplotypeScore=166.14;MQ=39.29;MQ0=0;QD=9.11;SB=-599.12 GT:AD:DP:GL:GQ 0/1:73,77:122:-190.87,-48.16,-269.49:99
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chr1 4503674 rs61111938 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=147;Dels=0.00;HRun=0;HaplotypeScore=137.11;MQ=42.18;MQ0=0;OQ=392.40;QD=2.67;SB=-58.59 GT:AD:DP:GL:GQ 0/1:124,23:123:-79.58,-37.06,-405.54:99
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chr1 4503686 rs61202630 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=124;Dels=0.03;HRun=0;HaplotypeScore=163.66;MQ=45.68;MQ0=0;OQ=981.22;QD=7.91;SB=-498.66 GT:AD:DP:GL:GQ 0/1:79,40:116:-138.71,-37.31,-281.28:99
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chr1 4503715 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=16.61;MQ=53.48;MQ0=0;OQ=158.20;QD=1.86;SB=-90.66 GT:AD:DP:GL:GQ 0/1:72,13:84:-44.41,-25.30,-293.89:99
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chr1 4503964 rs241215 T A 444.25 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=54.88;MQ0=0;OQ=1312.48;QD=17.50;SB=-618.08 GT:AD:DP:GL:GQ 0/1:34,41:75:-157.12,-22.59,-129.67:99
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chr1 4504029 rs241216 G A 155.80 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=4.03;MQ=59.43;MQ0=0;OQ=1251.65;QD=17.15;SB=-469.46 GT:AD:DP:GL:GQ 0/1:35,38:70:-149.55,-21.10,-107.16:99
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chr1 4504349 rs241217 C G 275.14 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=1603.60;QD=22.59;SB=-778.42 GT:AD:DP:GL:GQ 0/1:29,42:71:-185.04,-21.39,-125.25:99
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chr1 4505282 rs241218 T C 43.78 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=7.22;MQ=59.15;MQ0=0;OQ=812.13;QD=11.44;SB=-395.26 GT:AD:DP:GL:GQ 0/1:37,34:67:-104.70,-20.20,-130.72:99
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chr1 4506052 rs241219 T C 334.21 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.94;MQ=59.17;MQ0=0;OQ=741.75;QD=13.25;SB=-389.65 GT:AD:DP:GL:GQ 0/1:27,29:55:-94.04,-16.58,-103.55:99
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chr1 4508064 rs241220 G A 334 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=60.00;MQ0=0;OQ=1163.49;QD=17.37;SB=-431.97 GT:AD:DP:GL:GQ 0/1:32,35:66:-139.53,-19.90,-98.33:99
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chr1 4508910 rs241221 T C 373.72 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=59.20;MQ0=0;OQ=874.89;QD=15.08;SB=-418.55 GT:AD:DP:GL:GQ 0/1:25,33:55:-107.34,-16.57,-97.13:99
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chr1 4509116 rs241222 G C 267.87 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=3.24;MQ=59.18;MQ0=0;OQ=1337.43;QD=18.07;SB=-676.08 GT:AD:DP:GL:GQ 0/1:37,37:72:-158.72,-21.69,-154.68:99
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chr1 4510110 rs241244 A T 180.09 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.78;MQ=60.38;MQ0=0;OQ=930.99;QD=16.33;SB=-387.46 GT:AD:DP:GL:GQ 0/1:27,30:57:-113.55,-17.17,-101.72:99
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chr1 4510493 rs241245 T C 361.78 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=60.00;MQ0=0;OQ=851.20;QD=14.43;SB=-421.93 GT:AD:DP:GL:GQ 0/1:29,30:57:-105.58,-17.17,-107.45:99
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chr1 4510920 rs241246 T C 463.10 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.63;MQ0=0;OQ=864.46;QD=13.94;SB=-382.19 GT:AD:DP:GL:GQ 0/1:32,30:62:-108.40,-18.67,-129.80:99
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chr1 4510938 rs241247 G T 223.55 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=4.47;MQ=59.71;MQ0=0;OQ=1111.82;QD=14.07;SB=-561.61 GT:AD:DP:GL:GQ 0/1:42,37:78:-137.96,-23.49,-147.67:99
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chr1 4511101 rs241248 G A 90.66 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=4.65;MQ=58.90;MQ0=0;OQ=1137.70;QD=15.80;SB=-412.89 GT:AD:DP:GL:GQ 0/1:38,34:72:-138.74,-21.69,-139.14:99
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chr1 4512226 rs241249 C A 118.09 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=2704.76;QD=36.06;SB=-1203.75 GT:AD:DP:GL:GQ 1/1:0,75:73:-274.08,-21.98,-0.01:99
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chr1 4512612 rs12117466 C T 434.32 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=1595.86;QD=21.57;SB=-705.78 GT:AD:DP:GL:GQ 0/1:28,46:74:-185.16,-22.29,-104.90:99
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chr1 4512789 rs2222050 C G 399.97 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=51.66;MQ0=0;OQ=560.26;QD=12.18;SB=-284.90 GT:AD:DP:GL:GQ 0/1:29,17:46:-73.17,-13.86,-129.73:99
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chr1 4512997 . G C 109.15 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.26;MQ0=0;OQ=1039.37;QD=14.64;SB=-540.64 GT:AD:DP:GL:GQ 0/1:41,30:70:-128.31,-21.09,-176.73:99
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chr1 4513093 rs241250 C T 592.78 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.64;MQ0=0;OQ=2215.68;QD=40.29;SB=-1120.49 GT:AD:DP:GL:GQ 1/1:0,55:55:-225.17,-16.57,-0.01:99
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chr1 4513279 rs241251 T C 191.39 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.46;MQ=56.17;MQ0=0;OQ=859.05;QD=12.10;SB=-428.93 GT:AD:DP:GL:GQ 0/1:40,31:71:-110.57,-21.39,-162.21:99
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chr1 4513371 rs241252 G A 678.22 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2454.05;QD=39.58;SB=-997.85 GT:AD:DP:GL:GQ 1/1:0,61:61:-249.00,-18.37,-0.01:99
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chr1 4513556 rs56948682 G C 523.60 Indel AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=3.31;MQ=55.31;MQ0=0;QD=11.90;SB=-218.66 GT:AD:DP:GL:GQ 0/1:25,19:40:-67.72,-12.07,-92.30:99
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chr1 4513868 rs241254 G A 271.50 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.27;MQ=58.71;MQ0=0;OQ=649.43;QD=12.03;SB=-239.26 GT:AD:DP:GL:GQ 0/1:28,25:50:-83.30,-15.07,-98.60:99
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chr1 4513881 rs241255 G C 176.18 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=58.80;MQ0=0;OQ=2370.20;QD=40.87;SB=-1167.06 GT:AD:DP:GL:GQ 1/1:0,58:55:-240.62,-16.57,-0.01:99
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chr1 4514372 rs241256 C T 582.40 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=913.61;QD=13.44;SB=-345.84 GT:AD:DP:GL:GQ 0/1:39,29:68:-115.13,-20.48,-142.92:99
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chr1 4514476 rs6426419 T A 347.17 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.60;MQ0=0;OQ=541.18;QD=9.33;SB=-252.68 GT:AD:DP:GL:GQ 0/1:37,21:57:-74.57,-17.17,-137.52:99
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chr1 4514682 rs241257 C T 286.90 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=2358.24;QD=39.97;SB=-1174.07 GT:AD:DP:GL:GQ 1/1:0,59:59:-239.42,-17.77,-0.01:99
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chr1 4514873 rs171319 C T 380.27 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=59.42;MQ0=0;OQ=1086.37;QD=13.58;SB=-534.53 GT:AD:DP:GL:GQ 0/1:46,34:78:-135.44,-23.52,-140.72:99
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chr1 4515369 rs241258 G A 48.68 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=47.21;MQ0=0;OQ=749.09;QD=17.42;SB=-181.27 GT:AD:DP:GL:GQ 0/1:20,23:42:-90.85,-12.66,-63.49:99
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chr1 4515444 rs241259 C G 22.32 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=50.43;MQ0=0;OQ=2118.85;QD=40.75;SB=-972.73 GT:AD:DP:GL:GQ 1/1:0,52:49:-215.48,-14.76,-0.01:99
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chr1 4515588 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=15;HaplotypeScore=4.97;MQ=51.27;MQ0=0;OQ=250.35;QD=4.47;SB=56.21 GT:AD:DP:GL:GQ 0/1:42,14:49:-43.09,-14.77,-129.95:99
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chr1 4515926 rs241260 C G 33.59 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=2;HaplotypeScore=2.19;MQ=55.21;MQ0=0;OQ=3292.12;QD=42.21;SB=-1616.25 GT:AD:DP:GL:GQ 1/1:0,78:75:-328.21,-22.60,-0.02:99
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chr1 4515962 rs241261 T C 602.08 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.64;MQ0=0;OQ=2469.23;QD=29.75;SB=-1091.36 GT:AD:DP:GL:GQ 1/1:0,83:79:-250.58,-23.83,-0.08:99
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chr1 4516659 rs241262 T G 634.51 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2557.93;QD=35.53;SB=-1149.62 GT:AD:DP:GL:GQ 1/1:0,72:72:-259.40,-21.69,-0.02:99
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chr1 4517716 rs10799244 T C 405.95 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.15;MQ0=0;OQ=1346.22;QD=18.96;SB=-628.34 GT:AD:DP:GL:GQ 0/1:27,44:70:-158.99,-21.09,-107.87:99
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chr1 4518111 rs6685798 G A 309.27 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=59.32;MQ0=0;OQ=1238.56;QD=18.21;SB=-627.62 GT:AD:DP:GL:GQ 0/1:30,37:65:-146.72,-19.58,-98.24:99
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chr1 4518139 rs916408 T C 232.25 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.86;MQ=59.63;MQ0=0;OQ=609.90;QD=9.84;SB=-241.88 GT:AD:DP:GL:GQ 0/1:34,28:60:-82.36,-18.09,-138.61:99
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chr1 4518389 rs916407 C A 294.22 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.44;MQ0=0;OQ=593.42;QD=10.99;SB=-258.24 GT:AD:DP:GL:GQ 0/1:32,22:53:-78.59,-15.97,-110.59:99
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chr1 4518393 rs916406 T C 102.38 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=58.50;MQ0=0;OQ=426.60;QD=7.62;SB=-216.22 GT:AD:DP:GL:GQ 0/1:34,22:50:-61.02,-15.07,-122.30:99
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chr1 4518582 rs241263 T C 395.70 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2663.66;QD=36.49;SB=-1355.60 GT:AD:DP:GL:GQ 1/1:0,73:73:-269.97,-21.98,-0.02:99
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chr1 4518898 rs241264 C T 593.29 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=3315.63;QD=40.93;SB=-1267.69 GT:AD:DP:GL:GQ 1/1:0,81:81:-330.56,-24.40,-0.02:99
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chr1 4519253 rs241265 G T 396.78 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=442.53;QD=9.42;SB=-108.63 GT:AD:DP:GL:GQ 0/1:30,17:47:-61.69,-14.15,-109.08:99
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chr1 4520150 rs241266 G A 572.22 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=1309.70;QD=16.79;SB=-634.24 GT:AD:DP:GL:GQ 0/1:38,40:77:-157.45,-23.20,-135.23:99
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chr1 4520783 rs10915560 T C 479.08 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=617.89;QD=10.13;SB=-279.12 GT:AD:DP:GL:GQ 0/1:36,25:60:-83.15,-18.08,-142.30:99
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chr1 4520856 rs12120353 C A 156.50 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=694.57;QD=12.19;SB=-303.22 GT:AD:DP:GL:GQ 0/1:32,25:54:-89.01,-16.27,-103.65:99
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chr1 4521323 rs241267 C T 378.46 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.60;MQ0=0;OQ=620.84;QD=13.21;SB=-243.25 GT:AD:DP:GL:GQ 0/1:25,22:45:-78.94,-13.58,-74.16:99
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chr1 4521646 rs12748186 C T 419.48 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=983.89;QD=18.92;SB=-364.52 GT:AD:DP:GL:GQ 0/1:23,29:52:-117.34,-15.67,-75.86:99
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chr1 4522500 rs241268 A G 490.54 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1548.29;QD=30.97;SB=-704.61 GT:AD:DP:GL:GQ 1/1:0,50:49:-158.46,-14.78,-0.04:99
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chr1 4523101 . G T 20.08 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=16;HaplotypeScore=10.17;MQ=50.32;MQ0=0;QD=0.35;SB=50.87 GT:AD:DP:GL:GQ 0/1:48,10:42:-17.95,-12.66,-121.78:52.87
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chr1 4523283 rs241269 C T 335.48 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=806.86;QD=12.81;SB=-308.31 GT:AD:DP:GL:GQ 0/1:36,27:61:-102.37,-18.40,-111.88:99
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chr1 4523749 rs55956326 C T 46.96 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=776.69;QD=17.65;SB=-140.14 GT:AD:DP:GL:GQ 0/1:21,23:44:-94.21,-13.26,-66.49:99
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chr1 4524365 rs497517 C A 203.92 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.25;MQ=57.23;MQ0=0;OQ=2311.84;QD=35.57;SB=-943.65 GT:AD:DP:GL:GQ 1/1:0,65:64:-234.79,-19.27,-0.02:99
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chr1 4524639 rs190250 T C 96.54 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=54.62;MQ0=1;OQ=1410.76;QD=28.22;SB=-520.24 GT:AD:DP:GL:GQ 1/1:1,49:43:-144.69,-12.96,-0.03:99
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chr1 4525049 rs241270 T A 128.22 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=57.31;MQ0=0;OQ=2756.56;QD=35.80;SB=-964.62 GT:AD:DP:GL:GQ 1/1:0,76:75:-279.26,-22.59,-0.02:99
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chr1 4525775 . C T 82.15 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=60.00;MQ0=0;OQ=631.76;QD=12.39;SB=-287.21 GT:AD:DP:GL:GQ 0/1:28,23:47:-80.62,-14.16,-88.43:99
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chr1 4526115 rs241271 T C 508.56 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=1796.29;QD=29.45;SB=-877.68 GT:AD:DP:GL:GQ 1/1:0,61:57:-183.26,-17.19,-0.05:99
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chr1 4526127 rs241272 T G 620.21 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.35;MQ0=0;OQ=2425.30;QD=34.16;SB=-1142.12 GT:AD:DP:GL:GQ 1/1:0,71:70:-246.14,-21.08,-0.02:99
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chr1 4526146 rs1515670 A G 180.27 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=3.98;MQ=58.96;MQ0=0;OQ=860.15;QD=12.84;SB=-436.91 GT:AD:DP:GL:GQ 0/1:37,30:66:-109.18,-19.88,-145.10:99
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chr1 4526937 rs241273 A C 421.62 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=60.00;MQ0=0;OQ=1105.42;QD=16.02;SB=-515.69 GT:AD:DP:GL:GQ 0/1:31,38:69:-134.61,-20.78,-114.90:99
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chr1 4527342 rs241274 A C 51.54 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=1996.50;QD=32.20;SB=-821.03 GT:AD:DP:GL:GQ 1/1:0,62:58:-203.26,-17.47,-0.02:99
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chr1 4527839 rs241275 A G 555.63 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=2594.28;QD=29.48;SB=-1228.48 GT:AD:DP:GL:GQ 1/1:0,88:82:-263.09,-24.73,-0.08:99
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chr1 4528191 rs28665533 G A 434.73 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1407.19;QD=19.02;SB=-661.67 GT:AD:DP:GL:GQ 0/1:32,42:74:-166.29,-22.29,-115.61:99
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chr1 4528559 rs241276 C T 153.75 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=4.22;MQ=59.30;MQ0=0;OQ=909.72;QD=13.78;SB=-324.82 GT:AD:DP:GL:GQ 0/1:37,29:65:-113.86,-19.61,-110.36:99
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chr1 4529046 rs241277 A C 117.60 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=2.18;MQ=60.00;MQ0=0;OQ=2433.72;QD=33.34;SB=-1159.13 GT:AD:DP:GL:GQ 1/1:0,73:69:-246.98,-20.78,-0.02:99
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chr1 4529268 rs241278 T C 273.02 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.43;MQ=59.61;MQ0=0;OQ=2074.79;QD=35.17;SB=-848.12 GT:AD:DP:GL:GQ 1/1:0,59:58:-211.08,-17.47,-0.02:99
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chr1 4530244 rs7531281 A C 607.97 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2071.97;QD=33.42;SB=-943.11 GT:AD:DP:GL:GQ 1/1:0,62:60:-210.80,-18.07,-0.02:99
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chr1 4530343 rs7526879 C T 127.03 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=59.29;MQ0=0;OQ=2841.32;QD=39.46;SB=-1410.68 GT:AD:DP:GL:GQ 1/1:0,72:71:-287.74,-21.39,-0.02:99
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chr1 4531126 rs241212 G T 328.23 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=59.37;MQ0=0;OQ=847.33;QD=14.36;SB=-341.38 GT:AD:DP:GL:GQ 0/1:30,29:58:-105.49,-17.47,-104.18:99
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chr1 4531264 rs55850443 C A 105.26 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=3.29;MQ=59.66;MQ0=0;OQ=907.20;QD=13.54;SB=-364.99 GT:AD:DP:GL:GQ 0/1:34,33:65:-113.58,-19.58,-115.11:99
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chr1 4532420 rs980092 A G 568.56 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.63;MQ0=0;OQ=2136.98;QD=31.43;SB=-1016.73 GT:AD:DP:GL:GQ 1/1:0,68:67:-217.34,-20.21,-0.06:99
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chr1 4532678 rs34339970 T C 238.67 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=59.68;MQ0=0;OQ=686.96;QD=9.41;SB=-234.24 GT:AD:DP:GL:GQ 0/1:42,31:70:-93.08,-21.10,-159.73:99
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chr1 4532688 rs171317 C A 295.77 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.69;MQ0=0;OQ=2546.98;QD=34.42;SB=-1274.23 GT:AD:DP:GL:GQ 1/1:0,74:71:-258.31,-21.38,-0.02:99
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chr1 4532830 rs35748829 C T 224.19 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.37;MQ0=0;OQ=1280.71;QD=19.40;SB=-516.15 GT:AD:DP:GL:GQ 0/1:29,37:64:-150.64,-19.29,-86.56:99
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chr1 4532839 rs35106071 C T 30.34 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=3;HaplotypeScore=0.47;MQ=59.31;MQ0=0;OQ=1092.68;QD=17.91;SB=-426.77 GT:AD:DP:GL:GQ 0/1:29,32:61:-130.92,-18.37,-105.58:99
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chr1 4533414 rs6673089 G A 59.57 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=5.78;MQ=59.66;MQ0=0;OQ=1175.25;QD=17.54;SB=-391.70 GT:AD:DP:GL:GQ 0/1:31,35:66:-140.69,-19.88,-114.80:99
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chr1 4533499 rs6426421 C T 279.59 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=56.21;MQ0=0;OQ=3052.51;QD=38.64;SB=-1294.73 GT:AD:DP:GL:GQ 1/1:0,79:78:-308.86,-23.50,-0.03:99
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chr1 4533545 rs7527742 G A 582.48 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.29;MQ0=0;OQ=1245.18;QD=15.19;SB=-388.08 GT:AD:DP:GL:GQ 0/1:45,37:81:-152.20,-24.40,-157.64:99
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chr1 4533745 rs241208 T C 151.85 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.23;MQ0=0;OQ=641.89;QD=11.07;SB=-289.57 GT:AD:DP:GL:GQ 0/1:35,23:57:-84.64,-17.17,-139.99:99
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chr1 4533782 rs17344823 A T 343.49 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=50.31;MQ0=0;OQ=1106.34;QD=17.56;SB=-567.72 GT:AD:DP:GL:GQ 0/1:26,37:60:-131.99,-18.07,-92.40:99
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chr1 4533944 rs241207 T G 366.15 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.27;MQ0=0;OQ=1080.62;QD=29.21;SB=-322.00 GT:AD:DP:GL:GQ 1/1:0,37:32:-111.66,-9.64,-0.02:96.25
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chr1 4534250 rs11584033 T C 380.79 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=58.88;MQ0=0;OQ=947.57;QD=16.34;SB=-494.15 GT:AD:DP:GL:GQ 0/1:26,32:58:-115.51,-17.47,-106.56:99
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chr1 4534838 rs1541318 A G 459.08 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1096.76;QD=16.87;SB=-540.58 GT:AD:DP:GL:GQ 0/1:28,37:65:-132.54,-19.58,-112.37:99
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chr1 4535109 rs2411777 C T 151.18 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=59.69;MQ0=0;OQ=1491.80;QD=20.16;SB=-710.25 GT:AD:DP:GL:GQ 0/1:30,44:73:-174.45,-21.99,-106.04:99
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chr1 4536054 rs10799246 T A 279.36 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=56.28;MQ0=1;OQ=1123.37;QD=19.37;SB=-579.73 GT:AD:DP:GL:GQ 0/1:23,35:56:-132.49,-16.87,-78.58:99
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chr1 4536627 rs1157688 T C 729.05 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2286.18;QD=34.64;SB=-1059.42 GT:AD:DP:GL:GQ 1/1:1,65:64:-232.22,-19.28,-0.02:99
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chr1 4537253 rs12746043 A G 196.32 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.75;MQ=59.75;MQ0=0;OQ=742.34;QD=10.03;SB=-306.91 GT:AD:DP:GL:GQ 0/1:43,31:74:-99.82,-22.30,-175.74:99
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chr1 4537334 rs12073968 A T 357.38 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=1269.08;QD=15.67;SB=-567.67 GT:AD:DP:GL:GQ 0/1:40,41:80:-154.29,-24.09,-150.38:99
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chr1 4537921 rs12724503 G A 310.14 PASS AC=1;AF=0.50;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=60.00;MQ0=0;OQ=1523.81;QD=15.09;SB=-617.07 GT:AD:DP:GL:GQ 0/1:55,46:100:-185.79,-30.12,-188.53:99
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chr1 4538097 rs4654561 G A 508.13 PASS AC=2;AF=1.00;AN=2;DB;DP=94;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.71;MQ0=0;OQ=3756.30;QD=39.96;SB=-1777.79 GT:AD:DP:GL:GQ 1/1:0,92:93:-374.63,-34.91,-7.66:99
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chr1 4538181 rs4654562 G A 215.56 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=2.80;MQ=59.13;MQ0=0;OQ=1260.80;QD=15.19;SB=-602.60 GT:AD:DP:GL:GQ 0/1:45,38:82:-154.08,-24.71,-143.05:99
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chr1 4538603 rs4654563 G A 371.27 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=1202.15;QD=16.03;SB=-528.76 GT:AD:DP:GL:GQ 0/1:39,36:74:-145.80,-22.30,-125.85:99
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chr1 4538973 rs7543382 T C 333.40 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=59.17;MQ0=0;OQ=1070.40;QD=14.66;SB=-356.54 GT:AD:DP:GL:GQ 0/1:37,36:73:-132.31,-21.99,-147.75:99
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chr1 4539030 rs7540656 A G 325.75 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.39;MQ0=0;OQ=796.84;QD=11.72;SB=-299.04 GT:AD:DP:GL:GQ 0/1:36,32:68:-103.46,-20.49,-144.09:99
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chr1 4540675 rs1963269 C G 227.56 PASS AC=1;AF=0.50;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.54;MQ0=0;OQ=1695.02;QD=16.62;SB=-763.36 GT:AD:DP:GL:GQ 0/1:55,47:97:-202.01,-29.22,-223.35:99
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chr1 4540762 rs1024139 T C 542 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.15;MQ0=0;OQ=842.09;QD=11.70;SB=-437.91 GT:AD:DP:GL:GQ 0/1:42,30:72:-109.18,-21.69,-170.21:99
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chr1 4541602 rs241225 G A 260.13 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=59.63;MQ0=0;OQ=2333.57;QD=37.04;SB=-1016.38 GT:AD:DP:GL:GQ 1/1:0,63:59:-236.96,-17.77,-0.01:99
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chr1 4541659 rs241224 G T 284.32 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.28;MQ0=0;OQ=2085.58;QD=35.96;SB=-859.24 GT:AD:DP:GL:GQ 1/1:0,58:57:-212.16,-17.17,-0.02:99
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chr1 4541986 rs61765446 G A 358.57 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=942.30;QD=14.28;SB=-483.10 GT:AD:DP:GL:GQ 0/1:37,29:65:-117.11,-19.59,-114.27:99
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chr1 4542017 rs241223 C T 513.72 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2827.32;QD=39.82;SB=-1402.70 GT:AD:DP:GL:GQ 1/1:0,71:71:-286.34,-21.39,-0.02:99
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chr1 4542337 rs184781 C T 269.78 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=2680.27;QD=40.00;SB=-1072.41 GT:AD:DP:GL:GQ 1/1:0,67:66:-271.63,-19.88,-0.01:99
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chr1 4542995 . A T 0.76 PASS AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=53.06;MQ0=0;OQ=196.97;QD=3.28;SB=-90.71 GT:AD:DP:GL:GQ 0/1:48,11:53:-38.95,-15.97,-156.27:99
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chr1 4543292 rs2078573 A C 86.48 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=6.05;MQ=56.75;MQ0=0;OQ=1341.41;QD=16.77;SB=-537.82 GT:AD:DP:GL:GQ 0/1:31,48:77:-160.62,-23.19,-115.03:99
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chr1 4543548 rs515279 T C 17.62 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=59.29;MQ0=0;OQ=1923.64;QD=29.59;SB=-45.69 GT:AD:DP:GL:GQ 1/1:0,65:64:-196.03,-19.32,-0.08:99
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chr1 4543717 rs587108 T G 137.04 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.89;MQ0=0;OQ=716.08;QD=34.10;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,21:21:-75.20,-6.33,-0.01:63.19
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chr1 4543945 rs588347 C T 45.56 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=256.94;QD=10.71;SB=-10.00 GT:AD:DP:GL:GQ 0/1:15,9:24:-36.21,-7.23,-52.03:99
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chr1 4544067 rs588861 G A 43.71 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=54.12;MQ0=0;OQ=1783.57;QD=37.95;SB=-560.73 GT:AD:DP:GL:GQ 1/1:0,47:45:-181.96,-13.56,-0.01:99
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chr1 4544173 rs488684 T A 310.68 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.99;MQ0=0;OQ=2644.21;QD=36.73;SB=-1277.61 GT:AD:DP:GL:GQ 1/1:0,72:70:-268.02,-21.08,-0.01:99
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chr1 4545564 rs616180 T G 115.98 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=58.74;MQ0=0;OQ=2469.47;QD=35.28;SB=-1055.12 GT:AD:DP:GL:GQ 1/1:0,70:69:-250.55,-20.78,-0.02:99
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chr1 4545738 rs617046 T C 49.62 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=60.00;MQ0=0;OQ=1303.79;QD=31.80;SB=-288.55 GT:AD:DP:GL:GQ 1/1:0,41:40:-133.99,-12.05,-0.02:99
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chr1 4545788 rs57374319 C T 229.72 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.48;MQ0=0;OQ=594.52;QD=13.51;SB=-275.28 GT:AD:DP:GL:GQ 0/1:24,20:43:-75.69,-12.95,-87.49:99
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chr1 4545807 rs563158 G C 408.48 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=2250.93;QD=42.47;SB=-845.32 GT:AD:DP:GL:GQ 1/1:0,53:52:-228.70,-15.67,-0.02:99
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chr1 4545915 rs617610 A G 103.88 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=58.73;MQ0=0;OQ=1514.17;QD=27.53;SB=-766.72 GT:AD:DP:GL:GQ 1/1:0,55:49:-155.05,-14.78,-0.05:99
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chr1 4545933 rs561468 C A 155.56 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.22;MQ0=0;OQ=1902.16;QD=32.24;SB=-898.65 GT:AD:DP:GL:GQ 1/1:0,59:54:-193.82,-16.27,-0.02:99
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chr1 4546125 rs538655 G A 601.67 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.21;MQ0=0;OQ=2022.14;QD=38.15;SB=-935.74 GT:AD:DP:GL:GQ 1/1:0,53:52:-205.82,-15.67,-0.02:99
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chr1 4546239 rs619364 G A 445.90 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=837.24;QD=13.95;SB=-392.12 GT:AD:DP:GL:GQ 0/1:34,26:60:-105.08,-18.07,-121.77:99
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chr1 4546345 rs536749 A G 482 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1853.11;QD=30.38;SB=-858.57 GT:AD:DP:GL:GQ 1/1:0,61:58:-188.95,-17.49,-0.05:99
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chr1 4546432 rs4654446 C T 238.01 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=2.88;MQ=59.28;MQ0=0;OQ=947.38;QD=16.33;SB=-474.49 GT:AD:DP:GL:GQ 0/1:28,30:56:-114.89,-16.87,-97.02:99
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chr1 4546657 rs562787 A G 229.14 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.76;MQ0=0;OQ=1701.20;QD=30.38;SB=-810.66 GT:AD:DP:GL:GQ 1/1:0,56:54:-173.76,-16.29,-0.05:99
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chr1 4546823 rs532259 C T 169.24 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.40;MQ0=0;OQ=2521.38;QD=40.67;SB=-1140.51 GT:AD:DP:GL:GQ 1/1:0,62:62:-255.74,-18.67,-0.01:99
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chr1 4547018 rs559200 G C 1813.47 Indel AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.18;MQ0=0;QD=40.30;SB=-734.75 GT:AD:DP:GL:GQ 1/1:0,44:43:-184.95,-12.96,-0.01:99
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chr1 4547035 rs6691728 C T 1783.47 Indel AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=57.64;MQ0=0;QD=39.63;SB=-856.02 GT:AD:DP:GL:GQ 1/1:0,45:45:-181.94,-13.55,-0.01:99
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chr1 4547069 rs558411 G C 0.77 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=4;HaplotypeScore=0.63;MQ=58.20;MQ0=0;OQ=1617.71;QD=41.48;SB=-687.82 GT:AD:DP:GL:GQ 1/1:0,39:38:-165.37,-11.45,-0.01:99
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chr1 4547307 rs634075 C T 118.64 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.75;MQ=59.44;MQ0=0;OQ=1786.25;QD=34.35;SB=-705.43 GT:AD:DP:GL:GQ 1/1:0,51:47:-182.23,-14.17,-0.02:99
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chr1 4547329 rs644647 C A 608.94 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.55;MQ0=0;OQ=1779.42;QD=34.89;SB=-902.65 GT:AD:DP:GL:GQ 1/1:0,51:50:-181.54,-15.06,-0.02:99
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chr1 4547506 rs2674014 C T 604.69 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=3048.33;QD=39.08;SB=-1465.48 GT:AD:DP:GL:GQ 1/1:0,78:77:-308.44,-23.20,-0.02:99
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chr1 4548034 rs669252 A G 36.37 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=2;HaplotypeScore=0.97;MQ=59.78;MQ0=0;OQ=2568.64;QD=30.58;SB=-1254.84 GT:AD:DP:GL:GQ 1/1:0,84:80:-260.52,-24.13,-0.08:99
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chr1 4548229 rs527146 C T 195.56 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.54;MQ0=0;OQ=2361.57;QD=37.49;SB=-975.04 GT:AD:DP:GL:GQ 1/1:2,61:63:-246.39,-18.98,-6.65:99
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chr1 4548230 rs553803 A G 202.91 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.54;MQ0=0;OQ=2093.62;QD=33.23;SB=-906.61 GT:AD:DP:GL:GQ 1/1:2,61:63:-221.00,-18.97,-8.05:99
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chr1 4548433 rs504274 C T 6.37 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=4;HaplotypeScore=2.30;MQ=59.56;MQ0=0;OQ=3385.81;QD=39.83;SB=-1431.01 GT:AD:DP:GL:GQ 1/1:0,85:84:-337.58,-25.30,-0.02:99
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chr1 4548537 rs916404 A G 176.85 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.01;MQ=59.60;MQ0=0;OQ=1563.60;QD=27.43;SB=-730.94 GT:AD:DP:GL:GQ 1/1:0,57:51:-160.00,-15.38,-0.05:99
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chr1 4548552 rs1811133 G A 623.08 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=2054.70;QD=38.77;SB=-776.53 GT:AD:DP:GL:GQ 1/1:0,53:52:-209.07,-15.66,-0.01:99
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chr1 4548640 rs10915566 C T 338.58 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.69;MQ=59.67;MQ0=0;OQ=1058.12;QD=15.12;SB=-552.39 GT:AD:DP:GL:GQ 0/1:37,33:67:-129.29,-20.20,-113.66:99
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chr1 4548685 rs2176113 C T 467.66 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1206.49;QD=16.76;SB=-424.43 GT:AD:DP:GL:GQ 0/1:37,35:72:-145.62,-21.68,-138.53:99
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chr1 4548689 rs549918 C T 547.08 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2745.70;QD=39.22;SB=-872.18 GT:AD:DP:GL:GQ 1/1:0,70:69:-278.17,-20.79,-0.02:99
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chr1 4548722 rs549150 C T 597.32 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=3119.07;QD=40.51;SB=-1266.19 GT:AD:DP:GL:GQ 1/1:0,77:77:-315.51,-23.19,-0.01:99
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chr1 4548785 rs548958 A C 587.96 PASS AC=2;AF=1.00;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=3225.28;QD=33.25;SB=-1553.11 GT:AD:DP:GL:GQ 1/1:0,97:93:-326.16,-28.01,-0.03:99
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chr1 4548901 rs683704 G A 493.67 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2363.22;QD=39.39;SB=-1015.37 GT:AD:DP:GL:GQ 1/1:0,60:60:-239.92,-18.08,-0.02:99
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chr1 4549335 rs572875 G A 610.19 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.57;MQ0=0;OQ=2583.49;QD=39.75;SB=-1223.62 GT:AD:DP:GL:GQ 1/1:0,65:64:-261.95,-19.28,-0.01:99
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chr1 4549598 rs520532 C T 634.82 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=1;OQ=2560.49;QD=37.65;SB=-1198.62 GT:AD:DP:GL:GQ 1/1:0,68:66:-259.66,-19.89,-0.02:99
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chr1 4550061 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=20;HaplotypeScore=23.52;MQ=43.78;MQ0=0;OQ=658.49;QD=6.86;SB=83.26 GT:AD:DP:GL:GQ 0/1:53,43:71:-90.53,-21.40,-163.68:99
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chr1 4550163 rs189538 T C 1.23 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=2;HaplotypeScore=4.99;MQ=53.64;MQ0=0;OQ=1059.98;QD=26.50;SB=-540.85 GT:AD:DP:GL:GQ 1/1:0,40:35:-109.62,-10.56,-0.04:99
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chr1 4550501 rs10915567 A T 204.42 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=58.86;MQ0=0;OQ=971.67;QD=17.35;SB=-337.66 GT:AD:DP:GL:GQ 0/1:25,31:54:-116.71,-16.26,-86.04:99
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chr1 4550640 rs241213 G A 356.42 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=2857.67;QD=40.25;SB=-1367.83 GT:AD:DP:GL:GQ 1/1:0,71:71:-289.37,-21.39,-0.02:99
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chr1 4550851 rs164775 A G 34.10 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=5.34;MQ=59.24;MQ0=0;OQ=775.11;QD=14.09;SB=-373.36 GT:AD:DP:GL:GQ 0/1:28,27:55:-97.36,-16.57,-110.68:99
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chr1 4551064 rs12079284 G A 324.95 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=2.40;MQ=59.55;MQ0=0;OQ=1490.67;QD=17.96;SB=-575.98 GT:AD:DP:GL:GQ 0/1:39,44:83:-177.35,-25.00,-139.24:99
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chr1 4551090 rs164774 A C 75.23 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=3;HaplotypeScore=0.79;MQ=59.47;MQ0=0;OQ=2365.79;QD=33.80;SB=-1092.51 GT:AD:DP:GL:GQ 1/1:0,70:67:-240.18,-20.18,-0.02:99
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chr1 4551865 rs10489134 G C 328.76 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=59.44;MQ0=0;OQ=1198.12;QD=16.19;SB=-348.77 GT:AD:DP:GL:GQ 0/1:36,38:72:-144.81,-21.71,-156.52:99
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chr1 4552887 rs7554766 G A 776.54 Indel AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.13;MQ0=0;QD=12.13;SB=-327.33 GT:AD:DP:GL:GQ 0/1:39,25:57:-98.11,-17.17,-116.23:99
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chr1 4552953 rs7518655 C T 177.07 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=2.86;MQ=58.99;MQ0=0;OQ=677.30;QD=14.72;SB=-320.35 GT:AD:DP:GL:GQ 0/1:23,23:43:-83.97,-12.96,-72.15:99
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chr1 4553124 rs7518781 C A 341.53 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.10;MQ=59.31;MQ0=0;OQ=849.36;QD=13.92;SB=-331.16 GT:AD:DP:GL:GQ 0/1:30,31:56:-105.09,-16.87,-90.31:99
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chr1 4553830 rs164770 A G 0.31 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=3;HaplotypeScore=7.02;MQ=59.30;MQ0=0;OQ=1972.78;QD=32.88;SB=-746.94 GT:AD:DP:GL:GQ 1/1:2,57:55:-200.88,-16.57,-0.02:99
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chr1 4554084 rs61767667 T A 362.66 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=502.84;QD=10.48;SB=-173.16 GT:AD:DP:GL:GQ 0/1:30,18:48:-68.02,-14.46,-113.49:99
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chr1 4554189 rs61767668 G A 492.83 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=958.92;QD=14.31;SB=-387.15 GT:AD:DP:GL:GQ 0/1:38,29:66:-119.06,-19.89,-123.05:99
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chr1 4555833 rs540572 C A 391.14 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=602.48;QD=12.30;SB=-99.63 GT:AD:DP:GL:GQ 0/1:24,25:46:-77.39,-13.85,-83.99:99
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chr1 4556007 rs6426423 C A 388.51 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=59.29;MQ0=0;OQ=809.24;QD=15.27;SB=-378.16 GT:AD:DP:GL:GQ 0/1:24,29:51:-99.57,-15.36,-78.05:99
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chr1 4556396 rs531363 C T 270.22 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=785.64;QD=14.03;SB=-358.40 GT:AD:DP:GL:GQ 0/1:30,26:54:-98.13,-16.29,-91.52:99
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chr1 4556558 rs129794 G A 506.73 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=510.17;QD=11.09;SB=-262.22 GT:AD:DP:GL:GQ 0/1:29,17:46:-68.16,-13.86,-103.52:99
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chr1 4556721 rs10799248 G A 151.65 PASS AC=1;AF=0.50;AN=2;DB;DP=32;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=483.34;QD=15.10;SB=-178.66 GT:AD:DP:GL:GQ 0/1:17,15:30:-60.66,-9.04,-48.95:99
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chr1 4556909 rs526695 T C 306.82 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=58.98;MQ0=0;OQ=2857.53;QD=34.85;SB=-1208.70 GT:AD:DP:GL:GQ 1/1:0,82:80:-289.36,-24.10,-0.02:99
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chr1 4556982 rs516947 G A 448.32 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.06;MQ0=0;OQ=2681.00;QD=38.86;SB=-634.83 GT:AD:DP:GL:GQ 1/1:0,69:67:-271.71,-20.19,-0.02:99
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chr1 4556992 rs516977 A G 448.48 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.27;MQ0=0;OQ=1828.72;QD=29.03;SB=-545.85 GT:AD:DP:GL:GQ 1/1:0,63:60:-186.53,-18.11,-0.07:99
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chr1 4557030 rs517092 A C 349.51 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=1428.85;QD=26.46;SB=-498.86 GT:AD:DP:GL:GQ 1/1:0,54:46:-146.51,-13.87,-0.04:99
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chr1 4557056 rs524982 C T 158.92 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=59.64;MQ0=0;OQ=2000.95;QD=38.48;SB=-916.28 GT:AD:DP:GL:GQ 1/1:0,52:51:-203.70,-15.37,-0.02:99
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chr1 4557155 rs651695 A T 85.58 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=3;HaplotypeScore=2.39;MQ=59.42;MQ0=0;OQ=1262.50;QD=15.98;SB=-615.05 GT:AD:DP:GL:GQ 0/1:40,39:78:-153.02,-23.49,-149.00:99
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chr1 4557694 rs653988 C T 110.63 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.82;MQ0=0;OQ=2793.65;QD=39.91;SB=-1109.49 GT:AD:DP:GL:GQ 1/1:0,70:70:-282.97,-21.09,-0.02:99
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chr1 4558171 rs549239 T C 727.04 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.17;MQ0=0;OQ=2944.97;QD=35.06;SB=-1221.82 GT:AD:DP:GL:GQ 1/1:0,84:83:-298.11,-25.00,-0.03:99
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chr1 4558199 rs12726702 T A 2233 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=6;HaplotypeScore=61.64;MQ=53.38;MQ0=0;QD=26.58;SB=-718.98 GT:AD:DP:GL:GQ 0/1:14,70:81:-250.99,-24.40,-50.82:99
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chr1 4558206 rs549087 T A 2870.37 Indel;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.01;HRun=6;HaplotypeScore=46.58;MQ=52.93;MQ0=0;QD=35.88;SB=-1138.04 GT:AD:DP:GL:GQ 1/1:0,79:79:-290.65,-23.50,-0.03:99
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chr1 4558209 rs28687799 A T 819.27 Indel;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=4;HaplotypeScore=29.81;MQ=52.84;MQ0=0;QD=10.37;SB=-175.59 GT:AD:DP:GL:GQ 0/1:49,30:77:-108.41,-23.20,-171.08:99
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chr1 4558214 rs59930628 A T 84.16 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.03;HRun=4;HaplotypeScore=38.67;MQ=53.63;MQ0=0;QD=1.09;SB=56.66 GT:AD:DP:GL:GQ 0/1:66,9:73:-33.09,-21.39,-235.05:99
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chr1 4558250 rs666799 A C 496.03 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.14;MQ0=0;OQ=2047.56;QD=34.70;SB=-847.08 GT:AD:DP:GL:GQ 1/1:0,59:58:-208.36,-17.47,-0.02:99
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chr1 4558398 rs12567277 C T 337.11 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.53;MQ0=0;OQ=912.06;QD=18.61;SB=-436.84 GT:AD:DP:GL:GQ 0/1:22,27:48:-108.95,-14.46,-68.62:99
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chr1 4558676 rs553691 C T 200.13 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.21;MQ0=0;OQ=1974.68;QD=37.26;SB=-1009.66 GT:AD:DP:GL:GQ 1/1:0,53:52:-201.08,-15.67,-0.02:99
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chr1 4560412 rs589176 A G 118.19 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=2.29;MQ=58.87;MQ0=0;OQ=545.72;QD=13.31;SB=-145.53 GT:AD:DP:GL:GQ 0/1:20,21:40:-69.91,-12.06,-74.33:99
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chr1 4561004 rs602244 T C 195.92 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=2.83;MQ=59.64;MQ0=0;OQ=1077.64;QD=16.84;SB=-452.16 GT:AD:DP:GL:GQ 0/1:26,38:63:-130.03,-18.98,-104.11:99
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chr1 4561499 rs604465 G A 250.02 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=59.13;MQ0=0;OQ=735.55;QD=15.32;SB=-280.30 GT:AD:DP:GL:GQ 0/1:25,23:45:-90.40,-13.56,-80.37:99
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chr1 4561737 rs563481 C T 22.90 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=3;HaplotypeScore=0.93;MQ=60.00;MQ0=0;OQ=747.56;QD=17.80;SB=-287.30 GT:AD:DP:GL:GQ 0/1:20,22:42:-90.69,-12.65,-73.13:99
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chr1 4562268 rs537761 C A 317.78 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=820.87;QD=16.75;SB=-394.13 GT:AD:DP:GL:GQ 0/1:21,28:48:-99.83,-14.46,-74.67:99
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chr1 4562392 rs618751 G A 349.01 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=2.29;MQ=60.00;MQ0=0;OQ=1032.44;QD=14.14;SB=-366.34 GT:AD:DP:GL:GQ 0/1:41,32:73:-128.52,-21.99,-148.49:99
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chr1 4562641 rs534159 C T 355.83 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=808.69;QD=13.71;SB=-376.39 GT:AD:DP:GL:GQ 0/1:33,26:58:-101.65,-17.50,-100.37:99
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chr1 4565129 rs241243 A G 370.62 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=694.01;QD=8.07;SB=-138.39 GT:AD:DP:GL:GQ 0/1:53,33:82:-97.39,-24.71,-212.58:99
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chr1 4565904 rs10915569 C A 242.27 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.39;MQ0=0;OQ=1490.43;QD=19.61;SB=-754.94 GT:AD:DP:GL:GQ 0/1:27,49:74:-174.61,-22.29,-94.95:99
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chr1 4566354 rs164780 C G 240.11 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=59.64;MQ0=0;OQ=2456.30;QD=38.38;SB=-1204.26 GT:AD:DP:GL:GQ 1/1:0,64:63:-249.27,-19.01,-0.05:99
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chr1 4566679 rs151716 A G 365.52 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=59.43;MQ0=0;OQ=771.72;QD=11.87;SB=-373.98 GT:AD:DP:GL:GQ 0/1:33,32:64:-99.75,-19.29,-131.65:99
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chr1 4567238 rs4654450 G A 244.97 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=59.42;MQ0=0;OQ=1219.09;QD=16.93;SB=-598.62 GT:AD:DP:GL:GQ 0/1:35,37:71:-146.59,-21.39,-121.89:99
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chr1 4567954 rs151715 A G 136 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.44;MQ0=0;OQ=821.52;QD=10.95;SB=-417.84 GT:AD:DP:GL:GQ 0/1:41,34:74:-107.74,-22.30,-168.10:99
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chr1 4568017 rs241242 G T 115.78 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.56;MQ=60.00;MQ0=0;OQ=1682.11;QD=33.64;SB=-638.02 GT:AD:DP:GL:GQ 1/1:0,49:48:-171.82,-14.46,-0.02:99
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chr1 4568283 rs11590266 A G 358.35 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.33;MQ=59.56;MQ0=0;OQ=565.36;QD=10.87;SB=-241.59 GT:AD:DP:GL:GQ 0/1:27,24:51:-77.60,-17.78,-112.88:99
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chr1 4571271 rs164779 C G 314.41 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=2.18;MQ=59.44;MQ0=0;OQ=1283.51;QD=17.11;SB=-664.28 GT:AD:DP:GL:GQ 0/1:38,37:72:-153.33,-21.69,-161.13:99
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chr1 4571572 . C T 90.66 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=59.56;MQ0=0;OQ=626.01;QD=12.04;SB=-331.33 GT:AD:DP:GL:GQ 0/1:32,20:47:-80.06,-14.17,-86.19:99
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chr1 4572354 rs164778 T C 225.65 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1559.84;QD=35.45;SB=-660.32 GT:AD:DP:GL:GQ 1/1:0,44:44:-159.58,-13.25,-0.01:99
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chr1 4572615 rs6703429 T C 577.31 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=862.43;QD=13.07;SB=-402.26 GT:AD:DP:GL:GQ 0/1:35,31:65:-109.11,-19.58,-142.67:99
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chr1 4574299 . C A 554.66 Indel AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.59;MQ0=0;QD=10.47;SB=-260.28 GT:AD:DP:GL:GQ 0/1:31,22:48:-73.21,-14.46,-96.27:99
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chr1 4576029 rs164776 C T 259.84 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.56;MQ0=0;OQ=893.05;QD=17.17;SB=-421.82 GT:AD:DP:GL:GQ 0/1:24,28:50:-107.66,-15.07,-72.44:99
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chr1 4576797 rs2411886 G C 186.46 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.24;MQ=59.03;MQ0=0;OQ=1978.62;QD=41.22;SB=-1006.27 GT:AD:DP:GL:GQ 1/1:0,47:46:-201.46,-13.86,-0.01:99
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chr1 4576947 rs2411887 C T 275.87 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=58.35;MQ0=0;OQ=1931.75;QD=37.88;SB=-945.28 GT:AD:DP:GL:GQ 1/1:0,51:50:-196.78,-15.07,-0.02:99
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chr1 4577395 rs4403602 C G 245.41 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=59.46;MQ0=0;OQ=1536.03;QD=35.72;SB=-775.22 GT:AD:DP:GL:GQ 1/1:0,43:41:-157.23,-12.38,-0.05:99
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chr1 4577589 rs7554628 T C 1.90 PASS AC=2;AF=1.00;AN=2;DB;DP=32;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=57.95;MQ0=0;OQ=730.12;QD=22.82;SB=-185.76 GT:AD:DP:GL:GQ 1/1:0,31:25:-79.87,-10.17,-3.27:69.05
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chr1 4577983 rs7555011 T C 161.26 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.09;MQ0=0;OQ=1457.56;QD=28.58;SB=-435.18 GT:AD:DP:GL:GQ 1/1:0,51:47:-149.39,-14.18,-0.05:99
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chr1 4578231 rs35259920 T A 832.15 Indel AC=2;AF=1.00;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.20;MQ0=0;QD=28.69;SB=-10.00 GT:AD:DP:GL:GQ 1/1:1,28:26:-86.82,-7.84,-0.02:78.19
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chr1 4578361 rs7554792 A C 303.82 PASS AC=2;AF=1.00;AN=2;DB;DP=9;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.92;MQ0=0;OQ=236.46;QD=26.27;SB=-138.00 GT:AD:DP:GL:GQ 1/1:0,9:8:-27.23,-2.41,-0.00:24.06
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chr1 4578400 . A T 84.19 Indel AC=1;AF=0.50;AN=2;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=46.65;MQ0=0;QD=6.01;SB=-42.96 GT:AD:DP:GL:GQ 0/1:10,4:13:-15.62,-3.92,-34.97:99
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chr1 4579811 rs1905304 C A 19.42 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=5;HaplotypeScore=0.00;MQ=58.10;MQ0=0;OQ=2321.72;QD=36.28;SB=-1110.43 GT:AD:DP:GL:GQ 1/1:0,64:63:-235.77,-18.97,-0.01:99
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chr1 4580559 rs56945522 G A 92.56 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=61.48;MQ0=0;OQ=2293.20;QD=38.87;SB=-907.71 GT:AD:DP:GL:GQ 1/1:0,59:58:-232.92,-17.48,-0.02:99
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chr1 4581964 rs6668002 T C 241.68 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=60.00;MQ0=0;OQ=2274.26;QD=30.73;SB=-1092.12 GT:AD:DP:GL:GQ 1/1:0,73:71:-231.07,-21.41,-0.06:99
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chr1 4583570 rs1573748 A G 1957.91 Indel AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.66;MQ=60.10;MQ0=0;QD=31.08;SB=-816.28 GT:AD:DP:GL:GQ 1/1:0,63:58:-199.41,-17.48,-0.04:99
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chr1 4584109 rs6657421 G A 130.49 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=59.13;MQ0=0;OQ=1834.09;QD=38.21;SB=-703.35 GT:AD:DP:GL:GQ 1/1:0,48:47:-187.01,-14.16,-0.01:99
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chr1 4584165 rs6674936 T C 66.31 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=2.13;MQ=59.25;MQ0=0;OQ=1819.57;QD=32.49;SB=-925.04 GT:AD:DP:GL:GQ 1/1:0,56:51:-185.56,-15.36,-0.01:99
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chr1 4585082 rs1107467 G A 137.40 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=60.00;MQ0=0;OQ=1423.05;QD=35.58;SB=-452.60 GT:AD:DP:GL:GQ 1/1:0,39:38:-145.91,-11.45,-0.02:99
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chr1 4585332 rs1483199 A G 386.56 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2234.69;QD=31.04;SB=-675.88 GT:AD:DP:GL:GQ 1/1:0,72:67:-227.10,-20.19,-0.04:99
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chr1 4585508 rs875808 G A 162.26 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.39;MQ=60.00;MQ0=0;OQ=2216.84;QD=38.89;SB=-1106.64 GT:AD:DP:GL:GQ 1/1:0,57:57:-225.29,-17.17,-0.02:99
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chr1 4585532 rs875807 A G 300.51 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=59.66;MQ0=0;OQ=1870.43;QD=34.01;SB=-960.39 GT:AD:DP:GL:GQ 1/1:0,55:53:-190.65,-15.97,-0.02:99
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chr1 4585731 rs875806 G C 165.71 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2133.21;QD=42.66;SB=-847.32 GT:AD:DP:GL:GQ 1/1:0,50:49:-216.92,-14.76,-0.01:99
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chr1 4586501 rs56028718 G A 84.95 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=3.12;MQ=59.59;MQ0=0;OQ=1260.05;QD=18.53;SB=-634.67 GT:AD:DP:GL:GQ 0/1:31,37:66:-149.17,-19.88,-106.57:99
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chr1 4587142 rs2269620 C T 114.33 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.59;MQ0=0;OQ=2196.52;QD=39.22;SB=-630.34 GT:AD:DP:GL:GQ 1/1:0,56:56:-223.26,-16.87,-0.02:99
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chr1 4587674 rs4654576 A C 214.87 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=886.13;QD=32.82;SB=-420.04 GT:AD:DP:GL:GQ 1/1:0,27:26:-92.21,-7.83,-0.01:78.22
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chr1 4587807 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=2;HaplotypeScore=15.00;MQ=58.93;MQ0=0;OQ=113.78;QD=1.87;SB=74.25 GT:AD:DP:GL:GQ 0/1:34,27:42:-27.32,-12.66,-112.79:99
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chr1 4587893 rs6662425 C G 115.34 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.27;MQ=59.36;MQ0=0;OQ=2651.42;QD=40.79;SB=-1007.19 GT:AD:DP:GL:GQ 1/1:0,65:61:-268.75,-18.38,-0.02:99
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chr1 4588021 rs6426430 G T 639.03 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1436.10;QD=35.90;SB=-672.10 GT:AD:DP:GL:GQ 1/1:0,40:40:-147.21,-12.05,-0.01:99
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chr1 4590753 rs7527078 C T 465.85 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.20;MQ0=0;OQ=2043.97;QD=40.08;SB=-576.76 GT:AD:DP:GL:GQ 1/1:0,51:50:-207.99,-15.06,-0.01:99
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chr1 4591042 rs4654577 A G 251.52 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=58.37;MQ0=0;OQ=1466.76;QD=34.11;SB=-679.59 GT:AD:DP:GL:GQ 1/1:0,43:43:-150.28,-12.96,-0.02:99
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chr1 4592515 . G C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.74;MQ=48.08;MQ0=6;OQ=54.55;QD=1.03;SB=38.38 GT:AD:DP:GL:GQ 0/1:45,8:39:-20.50,-11.76,-139.98:87.39
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chr1 4592571 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=14.42;MQ=41.26;MQ0=11;OQ=65.05;QD=1.07;SB=-23.62 GT:AD:DP:GL:GQ 0/1:49,12:36:-20.65,-10.86,-123.87:97.89
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chr1 4592585 . G C 20.06 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=5.14;MQ=40.25;MQ0=10;QD=0.33;SB=-5.33 GT:AD:DP:GL:GQ 0/1:54,7:37:-16.45,-11.17,-134.84:52.86
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chr1 4592620 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=1;HaplotypeScore=15.36;MQ=35.46;MQ0=10;OQ=92.00;QD=1.46;SB=0.26 GT:AD:DP:GL:GQ 0/1:54,9:42:-25.15,-12.66,-150.31:99
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chr1 4592627 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=1;HaplotypeScore=16.06;MQ=35.72;MQ0=7;OQ=153.87;QD=2.75;SB=-54.16 GT:AD:DP:GL:GQ 0/1:46,10:37:-29.82,-11.15,-128.78:99
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chr1 4592634 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=17.36;MQ=35.58;MQ0=7;OQ=255.85;QD=4.57;SB=-124.48 GT:AD:DP:GL:GQ 0/1:41,15:33:-38.82,-9.95,-100.95:99
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chr1 4592642 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=1;HaplotypeScore=28.60;MQ=35.10;MQ0=5;OQ=106.45;QD=2.01;SB=3.57 GT:AD:DP:GL:GQ 0/1:41,12:38:-25.38,-11.45,-106.45:99
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chr1 4592649 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=27.47;MQ=35.61;MQ0=5;OQ=241.86;QD=4.65;SB=-127.53 GT:AD:DP:GL:GQ 0/1:36,16:37:-38.62,-11.15,-91.45:99
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chr1 4592656 . C A 10.05 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=32.68;MQ=34.61;MQ0=6;QD=0.18;SB=-22.79 GT:AD:DP:GL:GQ 0/1:46,10:31:-13.58,-9.34,-92.74:42.43
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chr1 4592670 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=26.44;MQ=31.55;MQ0=8;OQ=92.67;QD=1.54;SB=-36.78 GT:AD:DP:GL:GQ 0/1:47,13:38:-24.00,-11.45,-105.70:99
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chr1 4592691 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=17.99;MQ=28.93;MQ0=15;OQ=182.04;QD=2.64;SB=-62.36 GT:AD:DP:GL:GQ 0/1:58,11:38:-32.95,-11.46,-95.16:99
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chr1 4592711 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=1;HaplotypeScore=17.40;MQ=30.26;MQ0=13;OQ=418.56;QD=8.21;SB=-184.24 GT:AD:DP:GL:GQ 0/1:21,29:22:-51.78,-6.64,-35.47:99
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chr1 4592725 rs7533445 C G 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=21.58;MQ=31.66;MQ0=7;OQ=325.36;QD=9.30;SB=-162.82 GT:AD:DP:GL:GQ 0/1:18,17:13:-39.75,-3.93,-11.50:75.69
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chr1 4592733 . C A 17.31 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=13.87;MQ=30.28;MQ0=8;QD=0.56;SB=5.02 GT:AD:DP:GL:GQ 0/1:27,3:12:-8.63,-3.62,-27.94:50.06
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chr1 4592740 rs7537972 A C 0.16 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=10.05;MQ=27.67;MQ0=11;OQ=104.80;QD=3.38;SB=-67.99 GT:AD:DP:GL:GQ 0/1:22,9:8:-16.18,-2.41,-9.32:69.09
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chr1 4592747 rs7537975 A C 18.33 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=1;HaplotypeScore=8.21;MQ=28.35;MQ0=11;QD=0.76;SB=-7.00 GT:AD:DP:GL:GQ 0/1:17,7:4:-6.32,-1.21,-6.24:50.29
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chr1 4592767 rs7533530 C G 42.27 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=1;HaplotypeScore=11.04;MQ=30.06;MQ0=7;QD=3.02;SB=-43.89 GT:AD:DP:GL:GQ 1/1:8,5:2:-7.64,-0.61,-0.00:6.02
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chr1 4592837 . C G 13.29 LowQual AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=1;HaplotypeScore=4.96;MQ=12.04;MQ0=3;QD=2.66;SB=-10.00 GT:AD:DP:GL:GQ 0/1:4,1:1:-4.59,-0.30,-0.00:1.76
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chr1 4592901 . T C 5.07 PASS AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=42.32;MQ0=2;OQ=126.93;QD=6.35;SB=-77.93 GT:AD:DP:GL:GQ 0/1:9,11:15:-20.50,-4.52,-36.40:99
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chr1 4592906 . T C 0.11 PASS AC=2;AF=1.00;AN=2;DP=23;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=41.84;MQ0=3;OQ=578.85;QD=25.17;SB=-157.83 GT:AD:DP:GL:GQ 1/1:0,23:17:-61.47,-5.12,-0.00:51.15
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chr1 4592960 . G C 0.12 PASS AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=4.10;MQ=41.92;MQ0=6;OQ=217.66;QD=2.79;SB=-81.57 GT:AD:DP:GL:GQ 0/1:56,22:47:-39.23,-14.18,-153.65:99
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chr1 4592971 . T C 18.17 PASS AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=3.38;MQ=41.63;MQ0=7;OQ=666.60;QD=8.55;SB=-228.49 GT:AD:DP:GL:GQ 0/1:28,48:45:-83.52,-13.57,-69.37:99
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chr1 4592996 . A C 48.48 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=1;HaplotypeScore=4.82;MQ=40.87;MQ0=9;QD=0.70;SB=-26.49 GT:AD:DP:GL:GQ 0/1:54,15:47:-22.29,-14.16,-139.10:81.32
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chr1 4593024 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=14.22;MQ=41.13;MQ0=10;OQ=73.34;QD=1.41;SB=-39.79 GT:AD:DP:GL:GQ 0/1:35,17:30:-19.66,-9.04,-83.95:99
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chr1 4593037 . G C 11.64 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=41;Dels=0.02;HRun=0;HaplotypeScore=21.01;MQ=42.10;MQ0=8;QD=0.28;SB=26.12 GT:AD:DP:GL:GQ 0/1:33,7:20:-10.45,-6.03,-72.33:44.16
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chr1 4593066 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=16.64;MQ=38.83;MQ0=9;OQ=95.97;QD=2.23;SB=-64.04 GT:AD:DP:GL:GQ 0/1:31,12:22:-19.51,-6.63,-53.44:99
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chr1 4593072 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=12.35;MQ=36.60;MQ0=11;OQ=58.68;QD=1.25;SB=-50.80 GT:AD:DP:GL:GQ 0/1:40,7:24:-16.40,-7.25,-78.79:91.52
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chr1 4593128 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=7.00;MQ=42.60;MQ0=10;OQ=87.22;QD=1.86;SB=11.06 GT:AD:DP:GL:GQ 0/1:39,8:24:-19.25,-7.24,-80.14:99
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chr1 4593184 . G C 48.23 LowQual AC=1;AF=0.50;AN=2;DP=32;Dels=0.00;HRun=0;HaplotypeScore=5.25;MQ=50.03;MQ0=1;QD=1.51;SB=-24.84 GT:AD:DP:GL:GQ 0/1:27,5:22:-14.75,-6.64,-72.91:81.07
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chr1 4593205 . G C 35.18 LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=3.11;MQ=47.39;MQ0=4;QD=0.88;SB=-15.82 GT:AD:DP:GL:GQ 0/1:35,5:30:-15.86,-9.06,-106.35:68.02
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chr1 4593241 rs12752874 A C 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=2.83;MQ=43.47;MQ0=5;OQ=55.07;QD=1.28;SB=-27.98 GT:AD:DP:GL:GQ 0/1:30,13:26:-16.62,-7.83,-74.90:87.90
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chr1 4594330 rs34642555 G A 223.53 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.30;MQ=59.56;MQ0=0;OQ=741.34;QD=13.99;SB=-378.39 GT:AD:DP:GL:GQ 0/1:29,24:52:-93.10,-15.68,-88.17:99
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chr1 4599106 rs10753383 T G 347.62 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.01;MQ0=0;OQ=412.58;QD=12.50;SB=-151.92 GT:AD:DP:GL:GQ 0/1:17,16:32:-54.18,-9.64,-62.40:99
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chr1 4599463 rs7513957 G C 46.62 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=2;HaplotypeScore=1.18;MQ=57.56;MQ0=0;OQ=399.60;QD=12.11;SB=-196.33 GT:AD:DP:GL:GQ 0/1:20,13:31:-52.60,-9.35,-73.06:99
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chr1 4600658 rs12122002 G A 36.86 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=2.74;MQ=58.47;MQ0=0;OQ=1298.26;QD=21.28;SB=-656.75 GT:AD:DP:GL:GQ 0/1:24,37:59:-150.88,-17.77,-80.26:99
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chr1 4601609 rs55711858 A G 373.59 PASS AC=1;AF=0.50;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=1068.23;QD=10.68;SB=-465.77 GT:AD:DP:GL:GQ 0/1:56,44:100:-140.25,-30.14,-225.51:99
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chr1 4601750 rs2411891 G A 156.02 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=3;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1085.67;QD=16.96;SB=-561.13 GT:AD:DP:GL:GQ 0/1:31,33:63:-130.83,-18.98,-106.71:99
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chr1 4602156 rs61764994 A G 74.11 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=2.57;MQ=60.00;MQ0=0;OQ=509.21;QD=7.60;SB=-244.13 GT:AD:DP:GL:GQ 0/1:40,27:63:-73.19,-18.99,-161.05:99
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chr1 4602810 rs61764995 C T 382.37 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=850.22;QD=17.35;SB=-339.44 GT:AD:DP:GL:GQ 0/1:22,27:48:-102.77,-14.46,-79.78:99
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chr1 4602966 rs34993795 C T 235.21 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=59.03;MQ0=0;OQ=1118.32;QD=16.69;SB=-465.43 GT:AD:DP:GL:GQ 0/1:34,33:66:-135.00,-19.88,-119.08:99
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chr1 4604462 rs2035452 C G 271.67 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=397.56;QD=15.29;SB=-96.30 GT:AD:DP:GL:GQ 0/1:14,12:25:-50.58,-7.54,-52.60:99
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chr1 4606381 rs10915576 T C 220.72 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=882.56;QD=16.97;SB=-410.32 GT:AD:DP:GL:GQ 0/1:21,31:51:-106.90,-15.36,-86.72:99
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chr1 4606615 rs12125737 C T 418.26 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.71;MQ0=0;OQ=1209.07;QD=18.60;SB=-598.14 GT:AD:DP:GL:GQ 0/1:29,36:62:-142.87,-18.68,-88.99:99
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chr1 4607135 rs12122921 G A 2.76 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=10.90;MQ=57.40;MQ0=0;OQ=881.42;QD=13.16;SB=-408.91 GT:AD:DP:GL:GQ 0/1:36,31:56:-108.31,-16.88,-93.30:99
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chr1 4607451 rs28759408 G T 57.59 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=5.28;MQ=57.88;MQ0=1;OQ=710.71;QD=10.45;SB=-279.36 GT:AD:DP:GL:GQ 0/1:39,29:61:-92.73,-18.38,-123.60:99
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chr1 4608914 rs7535194 C A 224.06 PASS AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=57.78;MQ0=0;OQ=1544.72;QD=16.26;SB=-662.45 GT:AD:DP:GL:GQ 0/1:44,51:95:-186.37,-28.61,-160.23:99
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chr1 4609123 . C T 10.31 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=1;HaplotypeScore=2.00;MQ=56.96;MQ0=2;QD=0.17;SB=19.65 GT:AD:DP:GL:GQ 0/1:53,6:55:-20.84,-16.57,-182.90:42.72
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chr1 4609208 rs7539862 A C 150.58 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=258.18;QD=5.87;SB=-149.80 GT:AD:DP:GL:GQ 0/1:32,12:43:-42.05,-12.95,-117.22:99
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chr1 4609234 . G A 18.35 LowQual AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=3.99;MQ=56.87;MQ0=1;QD=0.46;SB=-22.94 GT:AD:DP:GL:GQ 0/1:35,5:36:-15.96,-10.84,-114.15:51.13
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chr1 4609248 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=1;HaplotypeScore=35.67;MQ=56.49;MQ0=1;OQ=135.28;QD=2.42;SB=50.20 GT:AD:DP:GL:GQ 0/1:46,10:51:-32.18,-15.36,-170.39:99
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chr1 4609249 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=1;HaplotypeScore=97.70;MQ=56.55;MQ0=1;OQ=82.36;QD=1.44;SB=50.16 GT:AD:DP:GL:GQ 0/1:47,10:52:-27.18,-15.66,-163.18:99
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chr1 4609260 rs61764999 C T 6.41 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=5.81;MQ=56.56;MQ0=1;OQ=641.66;QD=10.03;SB=-130.56 GT:AD:DP:GL:GQ 0/1:42,22:63:-86.43,-18.98,-148.93:99
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chr1 4609527 rs4654581 C G 33.46 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.03;MQ=59.43;MQ0=0;QD=0.67;SB=28.36 GT:AD:DP:GL:GQ 0/1:45,5:49:-21.39,-14.76,-192.44:66.29
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chr1 4610341 rs10799250 T C 191.96 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.62;MQ0=0;OQ=886.46;QD=10.43;SB=-400.18 GT:AD:DP:GL:GQ 0/1:51,34:83:-116.93,-25.00,-199.77:99
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chr1 4610346 rs10915577 A G 286.28 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=1.73;MQ=59.62;MQ0=0;OQ=927.42;QD=11.04;SB=-372.61 GT:AD:DP:GL:GQ 0/1:50,34:82:-120.73,-24.70,-201.64:99
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chr1 4611161 rs12405862 C T 55.82 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=2.70;MQ=59.65;MQ0=0;OQ=705.61;QD=13.31;SB=-372.08 GT:AD:DP:GL:GQ 0/1:30,23:53:-89.81,-15.97,-107.55:99
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chr1 4612905 rs1466520 A G 508.10 PASS AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.49;MQ0=0;OQ=1092.36;QD=32.13;SB=-567.90 GT:AD:DP:GL:GQ 1/1:0,34:32:-112.83,-9.64,-0.01:96.28
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chr1 4613357 rs4144451 T C 2.82 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=4;HaplotypeScore=1.16;MQ=60.00;MQ0=0;OQ=378.96;QD=8.81;SB=-197.21 GT:AD:DP:GL:GQ 0/1:27,16:40:-53.24,-12.06,-95.58:99
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chr1 4616788 rs12127797 G C 214.89 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=4.57;MQ=59.39;MQ0=0;OQ=1251.84;QD=16.47;SB=-458.74 GT:AD:DP:GL:GQ 0/1:41,34:72:-150.17,-21.70,-159.82:99
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chr1 4619890 rs7544371 G A 283.12 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.45;MQ0=0;OQ=1234.26;QD=22.04;SB=-596.70 GT:AD:DP:GL:GQ 0/1:21,35:56:-143.59,-16.88,-63.94:99
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chr1 4621067 rs6426432 G C 375.69 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.65;MQ=60.00;MQ0=0;OQ=975.42;QD=15.73;SB=-398.88 GT:AD:DP:GL:GQ 0/1:35,27:62:-119.51,-18.68,-150.23:99
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chr1 4621285 rs6658403 C T 186.42 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=2.18;MQ=59.63;MQ0=0;OQ=651.01;QD=10.50;SB=-348.83 GT:AD:DP:GL:GQ 0/1:39,23:60:-86.46,-18.07,-139.05:99
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chr1 4622291 rs2035454 A G 361.79 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=1.59;MQ=59.15;MQ0=0;OQ=932.32;QD=13.13;SB=-403.21 GT:AD:DP:GL:GQ 0/1:39,32:70:-117.60,-21.09,-152.00:99
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chr1 4622303 rs1531830 T C 306.21 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=1.43;MQ=59.12;MQ0=0;OQ=753.21;QD=10.92;SB=-275.11 GT:AD:DP:GL:GQ 0/1:39,30:68:-99.09,-20.49,-155.18:99
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chr1 4623109 rs10799251 G A 463.40 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=863.86;QD=15.43;SB=-362.38 GT:AD:DP:GL:GQ 0/1:30,26:56:-106.54,-16.87,-110.57:99
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chr1 4623282 rs10799252 G C 114.19 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=53.79;MQ0=0;OQ=899.36;QD=20.92;SB=-445.94 GT:AD:DP:GL:GQ 0/1:17,26:42:-105.88,-12.66,-71.37:99
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chr1 4623298 rs10799253 T C 313.76 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=52.77;MQ0=0;OQ=616.14;QD=14.00;SB=-298.33 GT:AD:DP:GL:GQ 0/1:18,26:39:-76.66,-11.76,-55.81:99
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chr1 4623777 rs10915578 A G 84.84 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=0.82;MQ=58.86;MQ0=0;OQ=552.36;QD=9.69;SB=-296.32 GT:AD:DP:GL:GQ 0/1:35,22:57:-75.70,-17.18,-138.68:99
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chr1 4623873 rs10915579 T C 271.16 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=1.57;MQ=57.84;MQ0=0;OQ=661.07;QD=10.17;SB=-259.38 GT:AD:DP:GL:GQ 0/1:40,25:64:-88.68,-19.29,-154.96:99
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chr1 4624091 rs12135245 G C 41.47 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=3;HaplotypeScore=1.89;MQ=59.70;MQ0=0;OQ=1186.96;QD=19.14;SB=-476.78 GT:AD:DP:GL:GQ 0/1:28,34:59:-139.77,-17.79,-108.63:99
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chr1 4624130 rs12140542 T C 140.19 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=2.13;MQ=59.74;MQ0=0;OQ=656.89;QD=9.12;SB=-348.92 GT:AD:DP:GL:GQ 0/1:43,29:71:-90.37,-21.40,-172.64:99
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chr1 4624492 rs2035455 C T 468.68 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=702.27;QD=12.54;SB=-335.31 GT:AD:DP:GL:GQ 0/1:34,22:55:-90.09,-16.58,-106.86:99
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chr1 4624817 rs17421247 C T 331.36 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=59.65;MQ0=0;OQ=1014.16;QD=15.37;SB=-402.77 GT:AD:DP:GL:GQ 0/1:35,31:64:-123.99,-19.29,-104.67:99
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chr1 4626224 rs10915580 G C 281.25 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=58.07;MQ0=0;OQ=1106.61;QD=18.14;SB=-348.42 GT:AD:DP:GL:GQ 0/1:31,30:61:-132.34,-18.40,-124.48:99
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chr1 4626314 rs12567266 T C 443.89 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=51.48;MQ0=0;OQ=855.53;QD=18.20;SB=-345.35 GT:AD:DP:GL:GQ 0/1:19,28:47:-102.99,-14.16,-75.71:99
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chr1 4626341 rs12752003 A G 152.30 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=47.43;MQ0=0;OQ=459.90;QD=12.10;SB=-75.78 GT:AD:DP:GL:GQ 0/1:17,21:35:-59.82,-10.55,-67.90:99
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chr1 4626392 rs12565906 G A 175.56 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=1.36;MQ=51.30;MQ0=0;OQ=647.78;QD=15.42;SB=-283.17 GT:AD:DP:GL:GQ 0/1:21,21:41:-80.41,-12.35,-73.25:99
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chr1 4626545 rs12137938 T C 1.78 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=2;HaplotypeScore=6.74;MQ=54.18;MQ0=1;OQ=220.73;QD=6.49;SB=-111.61 GT:AD:DP:GL:GQ 0/1:20,14:29:-34.11,-8.75,-66.24:99
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chr1 4626759 rs10799254 A G 12.84 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=1;HaplotypeScore=7.18;MQ=56.44;MQ0=0;OQ=516.47;QD=13.59;SB=-271.00 GT:AD:DP:GL:GQ 0/1:15,23:33:-64.88,-9.95,-53.03:99
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chr1 4626886 rs12137092 A G 70.84 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=50.68;MQ0=3;OQ=425.89;QD=8.19;SB=-166.49 GT:AD:DP:GL:GQ 0/1:30,22:47:-60.04,-14.17,-111.36:99
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chr1 4627103 rs6663166 A G 61.80 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=1.05;MQ=58.88;MQ0=0;OQ=507.83;QD=9.40;SB=-149.43 GT:AD:DP:GL:GQ 0/1:33,21:53:-70.04,-15.97,-130.76:99
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chr1 4627150 rs12138132 T C 261.25 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.66;MQ0=0;OQ=429.65;QD=7.81;SB=-213.21 GT:AD:DP:GL:GQ 0/1:37,18:55:-62.82,-16.57,-149.18:99
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chr1 4627390 rs12133670 G A 454.29 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.64;MQ0=0;OQ=810.38;QD=15.58;SB=-415.38 GT:AD:DP:GL:GQ 0/1:28,24:51:-99.69,-15.36,-91.80:99
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chr1 4628089 rs12133909 G T 196.70 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=59.88;MQ0=0;OQ=673.35;QD=10.52;SB=-318.02 GT:AD:DP:GL:GQ 0/1:40,24:62:-89.30,-18.68,-116.17:99
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chr1 4628258 rs6703379 G A 0.30 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=13.50;MQ=55.99;MQ0=1;OQ=611.30;QD=11.32;SB=-213.68 GT:AD:DP:GL:GQ 0/1:33,21:47:-78.59,-14.17,-86.02:99
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chr1 4628265 rs6672122 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.04;HRun=0;HaplotypeScore=25.47;MQ=56.13;MQ0=1;OQ=602.93;QD=10.77;SB=-162.48 GT:AD:DP:GL:GQ 0/1:29,25:52:-78.65,-15.07,-102.50:99
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chr1 4628677 rs6703802 G A 334.66 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=937.15;QD=18.02;SB=-393.92 GT:AD:DP:GL:GQ 0/1:24,28:51:-112.37,-15.37,-73.40:99
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chr1 4630143 rs4654582 T A 2.35 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=10.18;MQ=58.22;MQ0=0;OQ=526.78;QD=10.54;SB=-97.11 GT:AD:DP:GL:GQ 0/1:25,22:38:-67.41,-11.45,-72.86:99
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chr1 4630312 rs4654583 T C 361.82 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1108.52;QD=16.07;SB=-319.34 GT:AD:DP:GL:GQ 0/1:31,38:68:-134.62,-20.48,-127.03:99
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chr1 4630977 rs12141394 A G 593.81 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.47;MQ0=0;OQ=900.99;QD=13.45;SB=-440.92 GT:AD:DP:GL:GQ 0/1:31,36:65:-112.97,-19.59,-120.61:99
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chr1 4631016 rs12139858 C T 367.23 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=891.25;QD=15.37;SB=-441.97 GT:AD:DP:GL:GQ 0/1:31,27:57:-109.59,-17.18,-94.97:99
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chr1 4631110 rs12141432 A G 226.87 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=58.67;MQ0=0;OQ=787.70;QD=12.50;SB=-349.34 GT:AD:DP:GL:GQ 0/1:35,28:62:-100.73,-18.67,-138.62:99
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chr1 4631448 rs4144452 A G 502.74 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=648.74;QD=10.64;SB=-332.00 GT:AD:DP:GL:GQ 0/1:33,28:59:-85.94,-17.78,-131.20:99
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chr1 4631992 rs12138000 G A 396.61 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=1014.12;QD=15.85;SB=-413.79 GT:AD:DP:GL:GQ 0/1:32,32:63:-123.69,-18.99,-104.09:99
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chr1 4632333 rs1564667 A G 289.52 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.70;MQ0=0;OQ=656.79;QD=8.64;SB=-323.90 GT:AD:DP:GL:GQ 0/1:44,32:72:-90.67,-21.71,-171.92:99
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chr1 4633099 rs4654585 T C 336.77 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=1.88;MQ=59.60;MQ0=0;OQ=968.60;QD=16.70;SB=-498.14 GT:AD:DP:GL:GQ 0/1:26,32:58:-117.61,-17.47,-104.79:99
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chr1 4633208 rs4654586 T A 613.80 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2145.98;QD=37.00;SB=-956.61 GT:AD:DP:GL:GQ 1/1:0,58:58:-218.20,-17.47,-0.01:99
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chr1 4633215 rs4654455 T C 484.54 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1991.47;QD=34.94;SB=-790.66 GT:AD:DP:GL:GQ 1/1:0,57:56:-202.75,-16.87,-0.02:99
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chr1 4636316 rs10915584 G T 377.31 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.90;MQ=59.34;MQ0=0;OQ=844.77;QD=13.41;SB=-404.78 GT:AD:DP:GL:GQ 0/1:32,31:58:-105.23,-17.47,-102.72:99
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chr1 4637265 . T C 225.79 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=776.05;QD=14.64;SB=-255.94 GT:AD:DP:GL:GQ 0/1:26,27:53:-96.86,-15.97,-103.32:99
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chr1 4638345 . G A 67.79 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.29;MQ0=0;OQ=991.16;QD=18.70;SB=-412.80 GT:AD:DP:GL:GQ 0/1:24,29:51:-117.77,-15.37,-70.20:99
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chr1 4642883 rs2859392 C G 348.55 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=1.26;MQ=59.71;MQ0=0;OQ=833.93;QD=12.83;SB=-304.28 GT:AD:DP:GL:GQ 0/1:37,28:61:-105.07,-18.39,-160.99:99
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chr1 4643564 rs763238 C T 66.20 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.77;MQ0=0;OQ=1042.05;QD=19.66;SB=-208.90 GT:AD:DP:GL:GQ 0/1:21,32:50:-122.56,-15.07,-63.38:99
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chr1 4644154 rs4993529 C T 334.67 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=60.00;MQ0=0;OQ=1314.27;QD=19.62;SB=-670.69 GT:AD:DP:GL:GQ 0/1:27,40:65:-154.30,-19.59,-85.13:99
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chr1 4646074 rs242043 T C 1.61 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=13.28;MQ=59.47;MQ0=0;OQ=1026.27;QD=14.45;SB=-395.20 GT:AD:DP:GL:GQ 0/1:34,37:70:-127.00,-21.09,-134.39:99
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chr1 4646297 rs61765026 G A 183.35 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.73;MQ0=0;OQ=1519.28;QD=17.87;SB=-749.72 GT:AD:DP:GL:GQ 0/1:39,46:84:-180.53,-25.32,-123.19:99
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chr1 4646496 rs10915587 C T 288.71 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.87;MQ=60.00;MQ0=0;OQ=1042.81;QD=16.04;SB=-490.54 GT:AD:DP:GL:GQ 0/1:32,33:64:-126.86,-19.30,-98.43:99
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chr1 4646880 rs17344953 G A 102.24 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=5.33;MQ=59.62;MQ0=0;OQ=1025.96;QD=17.10;SB=-396.44 GT:AD:DP:GL:GQ 0/1:26,33:55:-122.45,-16.57,-85.52:99
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chr1 4647597 rs12747700 G A 323.59 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.03;MQ=59.29;MQ0=0;OQ=999.88;QD=16.95;SB=-503.14 GT:AD:DP:GL:GQ 0/1:28,31:57:-120.45,-17.18,-86.54:99
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chr1 4648034 rs6684528 G T 259.70 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.52;MQ0=0;OQ=808.60;QD=16.85;SB=-296.69 GT:AD:DP:GL:GQ 0/1:20,28:48:-98.60,-14.46,-70.03:99
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chr1 4648165 rs1076944 G T 243.38 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=58.38;MQ0=0;OQ=602.15;QD=11.58;SB=-146.14 GT:AD:DP:GL:GQ 0/1:27,25:49:-78.26,-14.76,-94.92:99
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chr1 4648936 rs4092257 G A 283.88 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=57.56;MQ0=0;OQ=450.85;QD=13.66;SB=-204.90 GT:AD:DP:GL:GQ 0/1:17,16:32:-58.02,-9.65,-54.32:99
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chr1 4649873 rs187148 C G 93.57 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=3.10;MQ=59.76;MQ0=0;OQ=296.24;QD=8.98;SB=-132.74 GT:AD:DP:GL:GQ 0/1:22,11:31:-42.26,-9.35,-85.65:99
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chr1 4651624 . C A 146.63 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=797.72;QD=17.34;SB=-280.69 GT:AD:DP:GL:GQ 0/1:17,29:42:-95.71,-12.66,-50.88:99
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chr1 4652138 rs171380 A G 10.05 PASS AC=1;AF=0.50;AN=2;DB;DP=30;Dels=0.00;HRun=2;HaplotypeScore=3.45;MQ=58.45;MQ0=0;OQ=324.85;QD=10.83;SB=-162.34 GT:AD:DP:GL:GQ 0/1:14,16:28:-44.21,-8.45,-55.22:99
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chr1 4653917 rs7525374 A G 301.57 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=624.45;QD=13.58;SB=-244.30 GT:AD:DP:GL:GQ 0/1:21,25:46:-79.59,-13.86,-85.75:99
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chr1 4653963 rs7528195 T C 276.57 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.00;MQ0=0;OQ=479.46;QD=11.42;SB=-265.36 GT:AD:DP:GL:GQ 0/1:21,21:39:-62.99,-11.76,-78.32:99
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chr1 4654404 rs1076945 C T 142.94 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=4.82;MQ=58.13;MQ0=0;OQ=818.85;QD=13.65;SB=-233.53 GT:AD:DP:GL:GQ 0/1:33,27:59:-102.95,-17.78,-107.70:99
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chr1 4655581 . C T 85.40 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=59.44;MQ0=0;OQ=1224.61;QD=16.55;SB=-495.16 GT:AD:DP:GL:GQ 0/1:36,38:73:-147.75,-22.00,-119.12:99
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chr1 4656328 rs10915588 T C 75.83 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=629.83;QD=11.88;SB=-281.45 GT:AD:DP:GL:GQ 0/1:30,23:52:-81.93,-15.66,-115.22:99
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chr1 4656461 rs3886389 A G 234.27 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=59.53;MQ0=0;OQ=467.67;QD=9.54;SB=-232.27 GT:AD:DP:GL:GQ 0/1:28,21:49:-64.82,-14.77,-113.76:99
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chr1 4657736 rs6669203 T C 161.22 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=58.29;MQ0=0;OQ=397.97;QD=9.71;SB=-145.57 GT:AD:DP:GL:GQ 0/1:23,18:37:-54.24,-11.16,-78.29:99
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chr1 4658187 rs12121882 C T 363.11 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=849.30;QD=18.07;SB=-359.52 GT:AD:DP:GL:GQ 0/1:21,26:46:-102.08,-13.87,-62.23:99
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chr1 4659178 rs242054 A G 123.55 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=57.49;MQ0=0;OQ=1370.79;QD=30.46;SB=-653.90 GT:AD:DP:GL:GQ 1/1:0,45:44:-140.71,-13.27,-0.04:99
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chr1 4660176 rs61765031 A G 230.02 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.54;MQ=59.01;MQ0=0;OQ=811.95;QD=12.30;SB=-390.16 GT:AD:DP:GL:GQ 0/1:34,31:61:-102.85,-18.37,-129.51:99
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chr1 4663049 rs6686733 T C 216.77 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=4.72;MQ=59.04;MQ0=0;OQ=1082.32;QD=15.92;SB=-503.34 GT:AD:DP:GL:GQ 0/1:29,39:64:-130.80,-19.28,-107.21:99
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chr1 4663261 rs6681520 C T 227.08 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=1006.77;QD=22.88;SB=-416.49 GT:AD:DP:GL:GQ 0/1:15,29:43:-116.92,-12.96,-47.72:99
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chr1 4665250 rs12131565 A G 49.08 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=2.95;MQ=47.43;MQ0=2;OQ=1030.19;QD=13.38;SB=-443.10 GT:AD:DP:GL:GQ 0/1:41,36:75:-128.89,-22.59,-163.25:99
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chr1 4665448 rs10915590 T C 343.30 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.85;MQ0=0;OQ=469.57;QD=9.58;SB=-224.22 GT:AD:DP:GL:GQ 0/1:29,20:48:-64.71,-14.47,-110.90:99
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chr1 4665815 rs10915592 T C 6.94 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=2.44;MQ=60.00;MQ0=0;OQ=940.71;QD=17.75;SB=-259.53 GT:AD:DP:GL:GQ 0/1:21,32:50:-112.42,-15.06,-71.48:99
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chr1 4667613 rs2101196 A G 254.46 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=2.34;MQ=56.97;MQ0=0;OQ=1013.81;QD=15.13;SB=-354.95 GT:AD:DP:GL:GQ 0/1:32,35:65:-124.25,-19.58,-123.74:99
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chr1 4667836 . T C 82.17 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=758.61;QD=12.24;SB=-402.64 GT:AD:DP:GL:GQ 0/1:31,31:61:-97.53,-18.39,-127.98:99
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chr1 4667882 rs2086718 C T 43.81 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.02;HRun=0;HaplotypeScore=5.21;MQ=57.79;MQ0=0;OQ=518.41;QD=9.43;SB=-229.72 GT:AD:DP:GL:GQ 0/1:31,22:40:-66.89,-11.76,-68.62:99
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chr1 4667894 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=12;HaplotypeScore=6.56;MQ=55.45;MQ0=0;OQ=63.00;QD=0.98;SB=-8.73 GT:AD:DP:GL:GQ 0/1:54,10:56:-26.47,-16.89,-148.75:95.84
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chr1 4668291 rs6670802 G A 143.50 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.43;MQ=56.73;MQ0=0;OQ=372.96;QD=8.29;SB=-147.60 GT:AD:DP:GL:GQ 0/1:28,16:38:-52.04,-11.46,-80.12:99
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chr1 4668400 rs6688423 T C 371.01 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=710.41;QD=13.16;SB=-359.33 GT:AD:DP:GL:GQ 0/1:26,28:52:-89.99,-15.67,-104.81:99
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chr1 4668882 . T C 49.86 LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=3;HaplotypeScore=9.17;MQ=57.66;MQ0=0;QD=2.49;SB=-0.98 GT:AD:DP:GL:GQ 0/1:11,9:11:-11.59,-3.32,-24.54:82.70
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chr1 4669925 rs12760917 T C 439.23 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.29;MQ0=0;OQ=917.38;QD=14.11;SB=-279.27 GT:AD:DP:GL:GQ 0/1:29,36:64:-114.31,-19.29,-115.57:99
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chr1 4670306 rs4654594 T C 240.89 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=58.06;MQ0=0;OQ=1070.08;QD=17.54;SB=-482.88 GT:AD:DP:GL:GQ 0/1:21,40:58:-127.77,-17.48,-76.71:99
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chr1 4670764 rs1483197 T C 225.25 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=4.25;MQ=58.29;MQ0=0;OQ=709.74;QD=13.65;SB=-285.29 GT:AD:DP:GL:GQ 0/1:22,29:49:-89.03,-14.77,-80.10:99
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chr1 4670879 . G T 21.82 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=60.00;MQ0=0;OQ=722.25;QD=15.70;SB=-186.19 GT:AD:DP:GL:GQ 0/1:22,24:42:-88.16,-12.65,-60.03:99
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chr1 4671525 rs989309 G C 65.26 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=1;HaplotypeScore=2.50;MQ=60.00;MQ0=0;OQ=327.78;QD=9.93;SB=-148.55 GT:AD:DP:GL:GQ 0/1:21,12:30:-45.12,-9.05,-74.66:99
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chr1 4671555 rs989310 G C 120.18 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.63;MQ=60.00;MQ0=0;OQ=521.90;QD=14.11;SB=-193.59 GT:AD:DP:GL:GQ 0/1:21,16:35:-66.02,-10.55,-86.58:99
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chr1 4671913 rs1061968 T C 32.96 PASS AC=1;AF=0.50;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=58.55;MQ0=0;OQ=101.72;QD=6.36;SB=-10.00 GT:AD:DP:GL:GQ 0/1:10,6:16:-18.28,-4.82,-40.28:99
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chr1 4672577 rs242056 G A 47.38 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.45;MQ0=0;OQ=1114.83;QD=37.16;SB=-369.99 GT:AD:DP:GL:GQ 1/1:0,30:28:-115.07,-8.43,-0.01:84.28
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chr1 4673126 rs2071999 A C 360.34 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=60.00;MQ0=0;OQ=766.03;QD=12.77;SB=-408.20 GT:AD:DP:GL:GQ 0/1:27,33:59:-97.67,-17.78,-97.47:99
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chr1 4673232 rs56401224 C G 273.95 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.62;MQ=59.63;MQ0=0;OQ=825.52;QD=16.51;SB=-362.08 GT:AD:DP:GL:GQ 0/1:25,25:46:-99.70,-13.86,-96.30:99
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chr1 4673712 rs242057 G A 40.47 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=3;HaplotypeScore=2.46;MQ=59.65;MQ0=0;OQ=947.24;QD=14.35;SB=-485.02 GT:AD:DP:GL:GQ 0/1:36,30:63:-116.99,-18.98,-120.15:99
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chr1 4674298 rs242058 T C 345.93 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.63;MQ0=0;OQ=778.59;QD=15.27;SB=-272.44 GT:AD:DP:GL:GQ 0/1:23,28:50:-96.21,-15.07,-89.60:99
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chr1 4676145 rs4654595 A C 407.01 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2257.07;QD=35.83;SB=-1055.12 GT:AD:DP:GL:GQ 1/1:0,63:63:-229.31,-18.97,-0.02:99
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chr1 4676402 rs4654596 G A 207.21 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.44;MQ0=0;OQ=2768.52;QD=37.41;SB=-1042.40 GT:AD:DP:GL:GQ 1/1:0,74:71:-280.46,-21.39,-0.02:99
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chr1 4678092 rs3766959 C T 358.01 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.73;MQ0=0;OQ=1524.54;QD=23.10;SB=-743.34 GT:AD:DP:GL:GQ 0/1:22,44:65:-175.33,-19.59,-68.56:99
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chr1 4679148 rs242040 A G 228.84 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.49;MQ=60.00;MQ0=0;OQ=836.32;QD=13.07;SB=-312.23 GT:AD:DP:GL:GQ 0/1:34,30:63:-105.89,-18.98,-137.28:99
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chr1 4679557 rs242041 G C 23.06 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=3;HaplotypeScore=1.52;MQ=58.81;MQ0=0;OQ=500.09;QD=9.81;SB=-250.11 GT:AD:DP:GL:GQ 0/1:32,19:47:-67.48,-14.18,-123.03:99
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chr1 4681011 rs3820251 C T 321.37 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=59.05;MQ0=0;OQ=1264.98;QD=15.06;SB=-599.08 GT:AD:DP:GL:GQ 0/1:45,39:83:-154.80,-25.02,-140.75:99
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chr1 4683002 rs12566272 G A 75.66 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=6.06;MQ=59.60;MQ0=0;OQ=811.79;QD=14.00;SB=-379.10 GT:AD:DP:GL:GQ 0/1:30,28:55:-101.04,-16.58,-98.62:99
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chr1 4683215 rs12085854 C T 250.87 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=58.71;MQ0=0;OQ=595.12;QD=16.53;SB=-237.77 GT:AD:DP:GL:GQ 0/1:12,24:28:-71.24,-8.44,-31.48:99
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chr1 4684416 rs3820252 C T 67.11 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.40;MQ=59.16;MQ0=0;OQ=1099.71;QD=21.99;SB=-407.20 GT:AD:DP:GL:GQ 0/1:18,32:50:-128.32,-15.07,-57.31:99
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chr1 4684710 rs4554693 C T 27.64 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.03;MQ=59.86;MQ0=0;OQ=1309.90;QD=22.98;SB=-464.01 GT:AD:DP:GL:GQ 0/1:20,37:57:-151.45,-17.18,-62.35:99
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chr1 4685955 rs11586740 G T 36.42 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=7.65;MQ=60.00;MQ0=0;OQ=1269.15;QD=17.39;SB=-560.71 GT:AD:DP:GL:GQ 0/1:30,43:69:-150.98,-20.79,-94.07:99
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chr1 4686129 . A G 0.31 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=58.20;MQ0=0;OQ=188.73;QD=3.63;SB=-3.68 GT:AD:DP:GL:GQ 0/1:41,11:52:-37.84,-15.68,-155.85:99
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chr1 4686130 . G C 4.40 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=58.20;MQ0=0;OQ=258.95;QD=4.98;SB=-16.68 GT:AD:DP:GL:GQ 0/1:42,10:52:-44.85,-15.67,-182.52:99
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chr1 4686979 rs242044 A G 24.21 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=0.79;MQ=59.56;MQ0=0;OQ=1479.37;QD=27.91;SB=-538.14 GT:AD:DP:GL:GQ 1/1:0,52:45:-151.55,-13.56,-0.03:99
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chr1 4687176 rs242045 T C 255.59 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=1371.92;QD=34.30;SB=-697.63 GT:AD:DP:GL:GQ 1/1:0,40:40:-140.79,-12.05,-0.02:99
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chr1 4687868 rs242047 A C 103.52 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=2.65;MQ=59.62;MQ0=0;OQ=770.92;QD=12.85;SB=-248.85 GT:AD:DP:GL:GQ 0/1:32,28:59:-98.15,-17.77,-114.07:99
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chr1 4688746 rs242048 A G 112.68 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=1.71;MQ=59.36;MQ0=0;OQ=768.10;QD=21.34;SB=-331.78 GT:AD:DP:GL:GQ 1/1:0,36:26:-80.42,-7.84,-0.03:78.16
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chr1 4688889 rs242049 T G 239.30 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=60.00;MQ0=0;OQ=1481.34;QD=32.92;SB=-635.03 GT:AD:DP:GL:GQ 1/1:0,45:44:-151.74,-13.26,-0.02:99
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chr1 4695274 rs446529 T C 363.34 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=55.31;MQ0=0;OQ=516.35;QD=9.93;SB=-227.25 GT:AD:DP:GL:GQ 0/1:29,23:50:-69.99,-15.07,-114.97:99
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chr1 4695606 rs648712 C T 1.54 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=10.04;MQ=47.15;MQ0=0;OQ=816.40;QD=17.01;SB=-434.45 GT:AD:DP:GL:GQ 0/1:23,25:46:-98.78,-13.86,-79.74:99
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chr1 4695607 . T G 0.18 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=11.01;MQ=47.15;MQ0=0;OQ=688.64;QD=14.35;SB=-357.86 GT:AD:DP:GL:GQ 0/1:23,25:47:-86.31,-14.16,-83.32:99
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chr1 4695638 rs432330 T A 460.16 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.80;MQ0=0;OQ=772.11;QD=15.14;SB=-337.40 GT:AD:DP:GL:GQ 0/1:24,27:50:-95.56,-15.06,-90.18:99
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chr1 4695654 rs449261 T C 245.99 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=2.57;MQ=53.57;MQ0=0;OQ=702.97;QD=13.52;SB=-345.62 GT:AD:DP:GL:GQ 0/1:26,26:49:-88.35,-14.77,-92.65:99
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chr1 4695676 rs435239 G C 185.06 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=2.08;MQ=57.17;MQ0=0;OQ=826.31;QD=16.53;SB=-414.36 GT:AD:DP:GL:GQ 0/1:24,26:47:-100.09,-14.18,-90.75:99
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chr1 4695734 rs416953 T C 152.01 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=59.13;MQ0=0;OQ=882.63;QD=16.65;SB=-283.45 GT:AD:DP:GL:GQ 0/1:22,31:50:-106.61,-15.06,-78.94:99
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chr1 4696083 rs383650 C G 345.55 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.53;MQ=59.10;MQ0=0;OQ=1382.15;QD=17.95;SB=-715.96 GT:AD:DP:GL:GQ 0/1:38,39:75:-164.11,-22.61,-152.21:99
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chr1 4696156 rs436132 G C 8.37 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=1112.40;QD=19.86;SB=-564.68 GT:AD:DP:GL:GQ 0/1:25,31:56:-131.40,-16.88,-111.00:99
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chr1 4696361 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=2;HaplotypeScore=10.18;MQ=60.26;MQ0=0;OQ=143.73;QD=2.08;SB=104.31 GT:AD:DP:GL:GQ 0/1:45,24:52:-33.32,-15.67,-137.68:99
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chr1 4696418 rs392630 A G 270.27 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=59.71;MQ0=0;OQ=1265.58;QD=13.76;SB=-582.79 GT:AD:DP:GL:GQ 0/1:45,47:87:-156.05,-26.21,-176.07:99
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chr1 4697358 rs544738 C A 298.87 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.61;MQ=59.01;MQ0=0;OQ=538.34;QD=14.17;SB=-233.94 GT:AD:DP:GL:GQ 0/1:19,19:37:-68.26,-11.15,-60.83:99
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chr1 4697618 rs445060 G A 155.17 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=2.45;MQ=59.60;MQ0=0;OQ=740.87;QD=12.77;SB=-313.26 GT:AD:DP:GL:GQ 0/1:32,26:54:-93.63,-16.26,-111.70:99
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chr1 4698713 rs578528 A G 87.54 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=59.36;MQ0=0;OQ=385.70;QD=10.71;SB=-193.63 GT:AD:DP:GL:GQ 0/1:21,15:36:-52.70,-10.85,-81.97:99
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chr1 4699130 rs449181 G A 397.02 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.84;MQ=59.67;MQ0=0;OQ=927.44;QD=16.56;SB=-380.14 GT:AD:DP:GL:GQ 0/1:27,29:54:-112.30,-16.28,-85.10:99
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chr1 4700289 rs13376290 T G 0.41 PASS AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=4;HaplotypeScore=0.10;MQ=48.01;MQ0=0;OQ=193.53;QD=7.44;SB=-0.43 GT:AD:DP:GL:GQ 0/1:15,11:24:-29.87,-7.23,-54.19:99
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chr1 4700426 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=2;HaplotypeScore=11.52;MQ=48.42;MQ0=0;OQ=136.63;QD=5.25;SB=-6.99 GT:AD:DP:GL:GQ 0/1:7,19:10:-19.97,-3.02,-19.59:99
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chr1 4700705 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=20;HaplotypeScore=32.92;MQ=48.95;MQ0=0;OQ=199.23;QD=3.83;SB=71.25 GT:AD:DP:GL:GQ 0/1:35,17:41:-35.56,-12.35,-113.25:99
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chr1 4700881 rs529853 G C 174.83 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=3.66;MQ=53.91;MQ0=0;OQ=810.63;QD=16.54;SB=-402.70 GT:AD:DP:GL:GQ 0/1:22,27:47:-98.53,-14.18,-93.65:99
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chr1 4701141 rs381339 T C 9.53 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=2.72;MQ=59.22;MQ0=0;OQ=750.05;QD=11.54;SB=-112.61 GT:AD:DP:GL:GQ 0/1:29,33:53:-94.27,-15.98,-96.69:99
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chr1 4701497 rs382623 T C 282.35 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=59.48;MQ0=0;OQ=1093.69;QD=13.50;SB=-513.56 GT:AD:DP:GL:GQ 0/1:38,43:80:-136.77,-24.11,-153.00:99
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chr1 4701516 rs382646 T C 490.40 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=1091.01;QD=14.36;SB=-413.27 GT:AD:DP:GL:GQ 0/1:38,38:75:-134.98,-22.59,-157.29:99
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chr1 4701783 rs392620 C T 260.56 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.19;MQ=59.38;MQ0=0;OQ=1111.05;QD=15.01;SB=-420.88 GT:AD:DP:GL:GQ 0/1:41,33:73:-136.38,-21.99,-143.11:99
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chr1 4702373 rs448741 C T 315.12 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.33;MQ0=0;OQ=1161.48;QD=16.83;SB=-516.10 GT:AD:DP:GL:GQ 0/1:33,36:68:-139.92,-20.49,-116.50:99
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chr1 4702588 rs431966 C G 301.89 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.74;MQ0=0;OQ=1167.37;QD=16.21;SB=-392.89 GT:AD:DP:GL:GQ 0/1:35,37:71:-141.44,-21.42,-151.57:99
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chr1 4703125 rs367673 G C 285.90 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.24;MQ0=0;OQ=1282.03;QD=21.02;SB=-602.59 GT:AD:DP:GL:GQ 0/1:26,35:61:-149.87,-18.38,-114.22:99
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chr1 4703446 rs540299 A G 321.95 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=59.10;MQ0=0;OQ=1141.42;QD=14.82;SB=-449.59 GT:AD:DP:GL:GQ 0/1:36,41:75:-140.02,-22.60,-142.02:99
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chr1 4703496 rs648346 G A 131.26 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=58.29;MQ0=0;OQ=1435.37;QD=17.50;SB=-321.28 GT:AD:DP:GL:GQ 0/1:40,42:79:-170.63,-23.81,-120.02:99
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chr1 4703694 rs393976 G A 298.73 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=59.30;MQ0=0;OQ=1022.50;QD=17.04;SB=-396.14 GT:AD:DP:GL:GQ 0/1:30,30:58:-123.01,-17.47,-100.86:99
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chr1 4704145 rs375781 T C 253.06 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=57.53;MQ0=0;OQ=380.91;QD=10.02;SB=-211.48 GT:AD:DP:GL:GQ 0/1:19,19:35:-51.92,-10.55,-74.06:99
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chr1 4704212 rs406065 A T 598.24 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.74;MQ0=0;OQ=1026.86;QD=14.88;SB=-405.55 GT:AD:DP:GL:GQ 0/1:35,34:69:-126.75,-20.78,-135.77:99
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chr1 4704412 rs396199 G A 86.73 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.14;MQ=59.62;MQ0=0;OQ=915.71;QD=18.69;SB=-324.82 GT:AD:DP:GL:GQ 0/1:21,28:47:-109.02,-14.16,-69.65:99
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chr1 4704606 rs413178 A G 154.93 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=56.43;MQ0=0;OQ=958.14;QD=15.45;SB=-233.27 GT:AD:DP:GL:GQ 0/1:25,37:59:-116.89,-17.79,-90.61:99
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chr1 4704966 rs414176 A C 426.79 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.63;MQ0=0;OQ=751.31;QD=11.93;SB=-297.47 GT:AD:DP:GL:GQ 0/1:31,32:62:-97.10,-18.68,-109.53:99
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chr1 4705294 rs371605 A G 188.84 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=2.08;MQ=59.55;MQ0=0;OQ=418.07;QD=8.20;SB=-210.35 GT:AD:DP:GL:GQ 0/1:28,23:46:-58.96,-13.87,-104.25:99
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chr1 4705534 rs409048 T C 345.87 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=59.35;MQ0=0;OQ=802.66;QD=12.54;SB=-363.20 GT:AD:DP:GL:GQ 0/1:35,29:64:-102.83,-19.28,-139.39:99
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chr1 4706241 rs368808 A G 17.45 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=2;HaplotypeScore=4.09;MQ=59.49;MQ0=0;OQ=756.36;QD=9.22;SB=-230.86 GT:AD:DP:GL:GQ 0/1:48,34:80:-103.04,-24.12,-189.26:99
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chr1 4707706 rs368940 A G 105.39 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=599.08;QD=17.12;SB=-212.56 GT:AD:DP:GL:GQ 0/1:14,21:35:-73.73,-10.54,-57.28:99
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chr1 4707911 . C A 31.90 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=13;HaplotypeScore=26.77;MQ=58.47;MQ0=0;QD=0.52;SB=52.91 GT:AD:DP:GL:GQ 0/1:52,9:48:-20.93,-14.46,-146.08:64.73
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chr1 4708314 rs2802721 G A 450.84 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=56.44;MQ0=0;OQ=981.54;QD=15.34;SB=-489.03 GT:AD:DP:GL:GQ 0/1:28,36:59:-119.22,-17.78,-99.55:99
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chr1 4708405 rs394808 C A 233.49 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.96;MQ=56.69;MQ0=0;OQ=782.76;QD=14.77;SB=-324.34 GT:AD:DP:GL:GQ 0/1:26,27:51:-96.92,-15.37,-78.87:99
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chr1 4708536 rs395145 C T 383.51 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1269.10;QD=19.83;SB=-521.54 GT:AD:DP:GL:GQ 0/1:25,39:63:-149.18,-18.98,-84.36:99
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chr1 4708674 rs4654602 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=69.80;MQ=46.48;MQ0=0;OQ=293.59;QD=4.19;SB=-93.14 GT:AD:DP:GL:GQ 0/1:56,14:66:-52.53,-19.89,-198.60:99
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chr1 4708678 rs406913 A G 32.76 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=20.07;MQ=45.13;MQ0=0;QD=0.48;SB=9.87 GT:AD:DP:GL:GQ 0/1:59,9:58:-24.04,-17.48,-194.48:65.59
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chr1 4708830 rs433427 A G 13.73 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=6.55;MQ=59.08;MQ0=0;OQ=748.71;QD=10.55;SB=-350.04 GT:AD:DP:GL:GQ 0/1:40,31:70:-99.25,-21.09,-163.31:99
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chr1 4708980 rs2802720 C T 373.55 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=55.41;MQ0=0;OQ=1008.97;QD=15.29;SB=-359.05 GT:AD:DP:GL:GQ 0/1:35,31:66:-124.06,-19.88,-124.56:99
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chr1 4710412 rs364642 C T 180.53 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=3.52;MQ=58.91;MQ0=0;OQ=814.43;QD=13.57;SB=-402.86 GT:AD:DP:GL:GQ 0/1:32,28:58:-102.20,-17.48,-113.74:99
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chr1 4712675 rs381240 A G 265.51 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=57.93;MQ0=0;OQ=805.26;QD=10.19;SB=-382.86 GT:AD:DP:GL:GQ 0/1:44,35:76:-106.72,-22.91,-172.59:99
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chr1 4712931 rs448221 T C 105.17 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=3.03;MQ=56.15;MQ0=0;OQ=384.09;QD=10.38;SB=-115.63 GT:AD:DP:GL:GQ 0/1:18,19:34:-51.95,-10.25,-67.62:99
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chr1 4712934 rs431884 C T 132.31 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=3.03;MQ=56.04;MQ0=0;OQ=441.73;QD=12.27;SB=-157.22 GT:AD:DP:GL:GQ 0/1:18,18:33:-57.41,-9.95,-59.19:99
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chr1 4712975 rs380239 A G 454.99 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=55.78;MQ0=0;OQ=728.95;QD=12.57;SB=-369.58 GT:AD:DP:GL:GQ 0/1:31,26:56:-93.05,-16.87,-121.44:99
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chr1 4713977 rs434474 A T 435.77 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.38;MQ0=0;OQ=788.95;QD=11.78;SB=-384.44 GT:AD:DP:GL:GQ 0/1:40,27:64:-101.46,-19.28,-136.23:99
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chr1 4714260 rs428001 G A 188.72 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=394.17;QD=7.58;SB=-208.83 GT:AD:DP:GL:GQ 0/1:37,15:47:-56.86,-14.16,-117.42:99
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chr1 4714368 rs413383 G C 359.15 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=902.57;QD=15.56;SB=-389.66 GT:AD:DP:GL:GQ 0/1:30,28:56:-110.43,-16.89,-123.48:99
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chr1 4714807 rs401110 C T 341.51 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=642.13;QD=13.96;SB=-230.50 GT:AD:DP:GL:GQ 0/1:24,21:44:-80.76,-13.26,-78.68:99
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chr1 4715337 rs434504 G A 250 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.39;MQ0=0;OQ=582.19;QD=15.32;SB=-195.19 GT:AD:DP:GL:GQ 0/1:19,19:36:-72.35,-10.85,-57.76:99
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chr1 4718265 rs423796 G A 245.56 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=58.44;MQ0=0;OQ=1032.37;QD=16.92;SB=-496.08 GT:AD:DP:GL:GQ 0/1:28,33:59:-124.29,-17.77,-98.91:99
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chr1 4718977 rs41511844 A C 15.67 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=3;HaplotypeScore=0.79;MQ=59.53;MQ0=0;OQ=807.51;QD=16.48;SB=-276.90 GT:AD:DP:GL:GQ 0/1:21,28:49:-98.80,-14.76,-77.17:99
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chr1 4719527 rs523141 G A 331.15 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.63;MQ0=1;OQ=362.25;QD=9.29;SB=-60.24 GT:AD:DP:GL:GQ 0/1:25,14:36:-50.35,-10.84,-83.10:99
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chr1 4719663 rs368420 T C 450.85 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=60.00;MQ0=0;OQ=1132.30;QD=16.90;SB=-528.33 GT:AD:DP:GL:GQ 0/1:29,38:66:-136.39,-19.88,-119.33:99
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chr1 4720200 rs34125417 T A 155.86 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=3.33;MQ=59.59;MQ0=0;OQ=796.97;QD=13.51;SB=-224.76 GT:AD:DP:GL:GQ 0/1:29,29:54:-99.25,-16.27,-103.01:99
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chr1 4720659 rs397559 C T 380.37 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.71;MQ0=0;OQ=1207.74;QD=18.87;SB=-534.79 GT:AD:DP:GL:GQ 0/1:27,37:63:-143.05,-18.99,-86.17:99
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chr1 4721157 rs443850 C T 216.92 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=4.76;MQ=59.51;MQ0=0;OQ=1138.02;QD=14.97;SB=-525.69 GT:AD:DP:GL:GQ 0/1:42,34:73:-139.07,-21.99,-142.33:99
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chr1 4721448 rs9426481 G T 366.43 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=988.26;QD=14.53;SB=-519.87 GT:AD:DP:GL:GQ 0/1:35,33:67:-122.29,-20.18,-120.50:99
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chr1 4722600 rs742245 A C 591.38 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=1064.86;QD=15.00;SB=-554.90 GT:AD:DP:GL:GQ 0/1:34,37:68:-130.25,-20.48,-117.18:99
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chr1 4722971 rs760815 C A 224.06 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=59.29;MQ0=0;OQ=950.16;QD=16.10;SB=-349.23 GT:AD:DP:GL:GQ 0/1:26,33:58:-115.77,-17.47,-92.37:99
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chr1 4723061 rs2743978 G A 259.98 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=60.00;MQ0=0;OQ=829.12;QD=15.07;SB=-390.87 GT:AD:DP:GL:GQ 0/1:28,27:53:-102.17,-15.97,-92.75:99
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chr1 4723683 rs411832 G C 0.53 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.02;HRun=0;HaplotypeScore=12.73;MQ=59.54;MQ0=0;OQ=809.82;QD=16.20;SB=-394.90 GT:AD:DP:GL:GQ 0/1:25,24:48:-98.44,-14.17,-99.99:99
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chr1 4723923 rs425005 C A 167.26 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=59.70;MQ0=0;OQ=997.52;QD=16.09;SB=-361.25 GT:AD:DP:GL:GQ 0/1:28,34:61:-121.41,-18.38,-98.67:99
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chr1 4724602 rs424723 C T 274.96 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.39;MQ0=0;OQ=1215.08;QD=19.92;SB=-584.11 GT:AD:DP:GL:GQ 0/1:24,36:58:-142.27,-17.47,-75.15:99
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chr1 4725012 rs2743979 G A 336.31 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.68;MQ0=0;OQ=1008.07;QD=17.38;SB=-481.48 GT:AD:DP:GL:GQ 0/1:28,30:57:-121.27,-17.17,-91.06:99
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chr1 4725752 rs57646199 C T 319.32 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=1002.06;QD=17.89;SB=-467.46 GT:AD:DP:GL:GQ 0/1:26,30:56:-120.36,-16.87,-93.54:99
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chr1 4725910 rs2802717 C T 220.45 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=59.68;MQ0=0;OQ=1230.52;QD=17.09;SB=-300.80 GT:AD:DP:GL:GQ 0/1:35,36:70:-147.42,-21.09,-124.52:99
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chr1 4725964 rs2802716 C A 41.54 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=4;HaplotypeScore=0.93;MQ=59.48;MQ0=0;OQ=1484.28;QD=18.55;SB=-734.49 GT:AD:DP:GL:GQ 0/1:32,48:80:-175.81,-24.10,-113.80:99
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chr1 4726365 rs9426502 G A 127.06 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.67;MQ0=0;OQ=1140.71;QD=16.53;SB=-410.70 GT:AD:DP:GL:GQ 0/1:35,34:69:-138.14,-20.78,-128.81:99
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chr1 4726520 rs2743980 G A 355.47 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.45;MQ=59.68;MQ0=0;OQ=913.23;QD=12.68;SB=-432.39 GT:AD:DP:GL:GQ 0/1:43,29:72:-116.30,-21.69,-156.11:99
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chr1 4726900 rs7548728 G A 477.89 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=780.16;QD=13.69;SB=-340.47 GT:AD:DP:GL:GQ 0/1:32,25:55:-97.88,-16.58,-97.83:99
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chr1 4727923 rs426095 G A 378.93 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.64;MQ0=0;OQ=878.95;QD=13.73;SB=-378.83 GT:AD:DP:GL:GQ 0/1:36,28:61:-109.56,-18.38,-120.39:99
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chr1 4728243 rs396629 C T 353.19 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.62;MQ0=0;OQ=1145.27;QD=18.77;SB=-564.43 GT:AD:DP:GL:GQ 0/1:27,34:61:-136.20,-18.39,-85.13:99
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chr1 4728440 . G A 47.68 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.39;MQ=58.84;MQ0=0;OQ=1100.89;QD=19.66;SB=-554.66 GT:AD:DP:GL:GQ 0/1:23,33:56:-130.25,-16.88,-72.13:99
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chr1 4730266 rs410413 T C 266.24 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=57.84;MQ0=0;OQ=500.27;QD=10.01;SB=-265.95 GT:AD:DP:GL:GQ 0/1:25,25:45:-66.88,-13.57,-94.91:99
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chr1 4730269 rs410414 T C 250.89 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=57.08;MQ0=0;OQ=462.87;QD=9.85;SB=-198.61 GT:AD:DP:GL:GQ 0/1:25,22:45:-63.14,-13.57,-96.77:99
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chr1 4730645 rs395467 A G 11.96 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=4.91;MQ=52.28;MQ0=0;OQ=653.20;QD=9.90;SB=-279.13 GT:AD:DP:GL:GQ 0/1:38,27:64:-87.89,-19.29,-148.52:99
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chr1 4730689 rs9426503 G C 129.77 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=1.89;MQ=56.81;MQ0=0;OQ=1027.62;QD=14.27;SB=-322.37 GT:AD:DP:GL:GQ 0/1:41,31:67:-126.24,-20.20,-160.02:99
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chr1 4730760 rs9426483 C T 334.33 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.53;MQ=58.90;MQ0=0;OQ=750.53;QD=13.65;SB=-332.36 GT:AD:DP:GL:GQ 0/1:31,24:54:-94.60,-16.27,-107.97:99
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chr1 4730936 rs423285 C T 421.63 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=56.95;MQ0=0;OQ=670.76;QD=11.37;SB=-300.79 GT:AD:DP:GL:GQ 0/1:33,25:55:-86.95,-16.59,-101.75:99
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chr1 4730990 rs395508 G A 57.05 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.76;MQ=59.27;MQ0=0;OQ=529.54;QD=9.29;SB=-260.10 GT:AD:DP:GL:GQ 0/1:38,19:53:-72.20,-15.97,-127.10:99
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chr1 4731053 rs418045 T C 525.89 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=529.19;QD=11.50;SB=-290.44 GT:AD:DP:GL:GQ 0/1:26,20:45:-69.76,-13.55,-105.89:99
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chr1 4731180 rs396112 G A 318.68 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=740.76;QD=17.64;SB=-379.17 GT:AD:DP:GL:GQ 0/1:19,23:39:-89.12,-11.76,-51.25:99
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chr1 4731341 rs406847 A G 411.20 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.80;MQ0=0;OQ=513.60;QD=14.67;SB=-259.91 GT:AD:DP:GL:GQ 0/1:17,18:35:-65.19,-10.54,-67.57:99
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chr1 4731471 rs428580 C T 186.08 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=867.64;QD=20.18;SB=-459.01 GT:AD:DP:GL:GQ 0/1:17,26:42:-102.70,-12.65,-55.85:99
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chr1 4731684 rs407301 C T 107.33 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=57.23;MQ0=0;OQ=697.47;QD=20.51;SB=-327.88 GT:AD:DP:GL:GQ 0/1:12,22:33:-82.98,-9.95,-39.91:99
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chr1 4732014 . T A 875.95 Indel AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=12.12;MQ=51.16;MQ0=0;QD=14.13;SB=-350.44 GT:AD:DP:GL:GQ 0/1:31,31:60:-108.95,-18.08,-110.80:99
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chr1 4732015 . T A 970.99 Indel AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=9;HaplotypeScore=12.28;MQ=51.00;MQ0=0;QD=15.92;SB=-364.45 GT:AD:DP:GL:GQ 0/1:29,32:58:-117.85,-17.47,-98.32:99
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chr1 4733241 rs414434 G C 239.58 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1334.69;QD=20.22;SB=-556.62 GT:AD:DP:GL:GQ 0/1:28,38:63:-155.75,-19.00,-107.17:99
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chr1 4734056 rs9426504 G A 5.32 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=4;HaplotypeScore=2.44;MQ=58.18;MQ0=0;OQ=895.74;QD=16.59;SB=-312.82 GT:AD:DP:GL:GQ 0/1:25,29:51:-108.23,-15.38,-75.31:99
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chr1 4734062 rs451162 G C 249.29 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=58.57;MQ0=0;OQ=977.80;QD=18.80;SB=-417.05 GT:AD:DP:GL:GQ 0/1:24,28:49:-115.83,-14.77,-93.28:99
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chr1 4734089 rs388631 T C 200.06 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.48;MQ=59.01;MQ0=0;OQ=598.20;QD=12.73;SB=-188.41 GT:AD:DP:GL:GQ 0/1:21,25:44:-76.37,-13.27,-78.74:99
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chr1 4734466 rs389959 T C 132.65 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.40;MQ=60.00;MQ0=0;OQ=323.31;QD=6.22;SB=-138.87 GT:AD:DP:GL:GQ 0/1:33,18:48:-50.08,-14.47,-128.38:99
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chr1 4734711 rs397852 T C 337.97 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=60.00;MQ0=0;OQ=458.03;QD=9.35;SB=-228.25 GT:AD:DP:GL:GQ 0/1:29,20:49:-63.86,-14.77,-115.16:99
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chr1 4735235 rs399377 T C 222.18 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=339.75;QD=9.71;SB=-124.62 GT:AD:DP:GL:GQ 0/1:21,14:33:-47.20,-9.94,-76.89:99
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chr1 4735981 rs394594 A G 305.79 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.38;MQ0=0;OQ=773.72;QD=10.46;SB=-332.92 GT:AD:DP:GL:GQ 0/1:41,33:73:-102.66,-22.01,-163.48:99
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chr1 4738101 rs414909 C T 441.62 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=1084.42;QD=16.19;SB=-452.94 GT:AD:DP:GL:GQ 0/1:35,32:67:-131.91,-20.18,-129.56:99
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chr1 4738908 rs381304 A G 65.84 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=2;HaplotypeScore=2.37;MQ=58.77;MQ0=0;OQ=1458.03;QD=16.76;SB=-529.55 GT:AD:DP:GL:GQ 0/1:36,51:84:-174.40,-25.31,-140.93:99
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chr1 4739028 rs392984 T C 105.21 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=5.08;MQ=58.80;MQ0=0;OQ=588.16;QD=10.14;SB=-181.39 GT:AD:DP:GL:GQ 0/1:30,28:53:-78.07,-15.97,-115.29:99
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chr1 4739512 rs2802719 A G 384.48 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=757.23;QD=14.85;SB=-244.45 GT:AD:DP:GL:GQ 0/1:23,28:48:-93.47,-14.47,-78.98:99
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chr1 4739710 rs2802718 G C 11.18 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=3;HaplotypeScore=0.83;MQ=56.67;MQ0=0;OQ=1199.49;QD=18.74;SB=-370.48 GT:AD:DP:GL:GQ 0/1:31,33:60:-141.32,-18.09,-113.09:99
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chr1 4740018 rs7544523 T C 161.93 PASS AC=1;AF=0.50;AN=2;DB;DP=36;Dels=0.00;HRun=0;HaplotypeScore=2.09;MQ=58.16;MQ0=0;OQ=429.98;QD=11.94;SB=-175.51 GT:AD:DP:GL:GQ 0/1:18,18:35:-56.83,-10.55,-68.38:99
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chr1 4744236 rs9426506 C T 327.10 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.29;MQ=58.57;MQ0=0;OQ=856.13;QD=13.81;SB=-428.92 GT:AD:DP:GL:GQ 0/1:35,27:62:-107.57,-18.68,-125.85:99
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chr1 4744972 rs9426484 G A 347.64 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=59.65;MQ0=0;OQ=799.48;QD=12.30;SB=-407.88 GT:AD:DP:GL:GQ 0/1:38,27:60:-101.32,-18.09,-111.41:99
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chr1 4745752 rs6426434 G A 271.15 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.41;MQ=60.00;MQ0=0;OQ=1169.68;QD=19.49;SB=-538.80 GT:AD:DP:GL:GQ 0/1:24,36:57:-137.43,-17.18,-72.34:99
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chr1 4747705 rs4654460 G A 332.93 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=755.91;QD=18.90;SB=-379.91 GT:AD:DP:GL:GQ 0/1:17,23:38:-90.34,-11.46,-46.09:99
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chr1 4748668 rs12133924 A G 455.19 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=1019.13;QD=13.07;SB=-468.04 GT:AD:DP:GL:GQ 0/1:42,36:77:-128.39,-23.20,-162.75:99
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chr1 4748969 rs6701069 A G 376.11 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.72;MQ0=0;OQ=1003.27;QD=12.39;SB=-469.20 GT:AD:DP:GL:GQ 0/1:46,35:80:-127.71,-24.10,-182.44:99
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chr1 4749244 rs2235438 T C 581.54 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=891.88;QD=13.12;SB=-467.00 GT:AD:DP:GL:GQ 0/1:32,36:65:-112.06,-19.59,-124.79:99
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chr1 4750683 rs909757 T C 410.80 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.22;MQ0=0;OQ=683.00;QD=11.78;SB=-347.56 GT:AD:DP:GL:GQ 0/1:31,27:55:-88.15,-16.57,-119.32:99
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chr1 4751405 rs17345239 T G 179.05 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=774.24;QD=13.12;SB=-344.85 GT:AD:DP:GL:GQ 0/1:30,29:56:-97.57,-16.87,-106.85:99
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chr1 4753272 rs742246 A C 355.98 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=617.26;QD=14.03;SB=-196.34 GT:AD:DP:GL:GQ 0/1:21,23:43:-77.96,-12.95,-77.17:99
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chr1 4753548 rs932350 T C 408.09 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.22;MQ0=0;OQ=924.37;QD=14.22;SB=-295.30 GT:AD:DP:GL:GQ 0/1:29,36:64:-115.01,-19.29,-116.32:99
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chr1 4753607 rs12082538 G C 138.47 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=3.84;MQ=60.48;MQ0=0;OQ=606.35;QD=13.47;SB=-132.52 GT:AD:DP:GL:GQ 0/1:25,20:43:-76.88,-12.96,-107.57:99
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chr1 4753770 rs7519688 C T 2.09 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=3;HaplotypeScore=5.33;MQ=59.09;MQ0=0;OQ=802.41;QD=15.73;SB=-282.79 GT:AD:DP:GL:GQ 0/1:25,26:48:-97.99,-14.47,-73.03:99
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chr1 4755384 rs727906 C T 371.77 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.67;MQ=60.00;MQ0=0;OQ=954.50;QD=12.40;SB=-422.82 GT:AD:DP:GL:GQ 0/1:47,30:76:-121.64,-22.91,-153.23:99
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chr1 4756029 rs2411946 T A 426.26 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.59;MQ0=0;OQ=610.43;QD=13.57;SB=-308.69 GT:AD:DP:GL:GQ 0/1:23,22:44:-77.58,-13.26,-87.22:99
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chr1 4756791 rs760816 A G 307.58 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.08;MQ=60.00;MQ0=0;OQ=644.43;QD=11.51;SB=-270.35 GT:AD:DP:GL:GQ 0/1:29,27:54:-84.00,-16.27,-113.95:99
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chr1 4758251 . A G 4.99 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=3;HaplotypeScore=0.95;MQ=59.34;MQ0=1;OQ=796.90;QD=10.77;SB=-383.18 GT:AD:DP:GL:GQ 0/1:42,32:64:-102.26,-19.28,-139.02:99
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chr1 4758268 rs4654606 T G 84.96 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=4.06;MQ=59.35;MQ0=0;OQ=681.65;QD=10.65;SB=-311.85 GT:AD:DP:GL:GQ 0/1:38,26:61:-89.83,-18.38,-124.54:99
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chr1 4759471 rs2142949 C T 488.93 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=986.38;QD=17.01;SB=-326.41 GT:AD:DP:GL:GQ 0/1:27,31:57:-119.09,-17.17,-96.06:99
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chr1 4761020 rs4654607 C T 187.79 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=1317.32;QD=16.67;SB=-650.17 GT:AD:DP:GL:GQ 0/1:40,39:77:-158.21,-23.19,-137.71:99
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chr1 4763236 rs2064168 C T 278.30 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=1185.65;QD=19.12;SB=-513.73 GT:AD:DP:GL:GQ 0/1:25,37:60:-139.92,-18.08,-90.33:99
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chr1 4763773 rs760817 T C 455.12 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.94;MQ=59.11;MQ0=0;OQ=932.67;QD=12.78;SB=-440.55 GT:AD:DP:GL:GQ 0/1:40,33:73:-118.54,-21.99,-163.26:99
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chr1 4764845 rs10915606 A G 585.97 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1075.05;QD=14.15;SB=-528.93 GT:AD:DP:GL:GQ 0/1:37,39:74:-133.08,-22.29,-148.56:99
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chr1 4765718 rs10429868 G A 452.05 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=1155.78;QD=15.62;SB=-602.60 GT:AD:DP:GL:GQ 0/1:39,35:74:-141.15,-22.29,-141.78:99
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chr1 4766001 rs12022466 T A 597.92 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1259.06;QD=15.94;SB=-558.66 GT:AD:DP:GL:GQ 0/1:39,40:79:-152.98,-23.79,-151.51:99
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chr1 4766045 . G A 13.96 PASS AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=1207.52;QD=14.55;SB=-582.08 GT:AD:DP:GL:GQ 0/1:47,36:81:-148.43,-24.40,-164.42:99
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chr1 4766280 rs12752806 G T 477.99 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.50;MQ0=0;OQ=1250.24;QD=15.06;SB=-480.84 GT:AD:DP:GL:GQ 0/1:42,41:81:-152.70,-24.39,-146.62:99
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chr1 4767409 rs7534770 A T 437.84 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=1042.20;QD=14.28;SB=-531.39 GT:AD:DP:GL:GQ 0/1:39,34:72:-129.19,-21.69,-145.29:99
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chr1 4767544 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=6;HaplotypeScore=47.32;MQ=56.17;MQ0=2;OQ=190.67;QD=2.98;SB=86.31 GT:AD:DP:GL:GQ 0/1:48,16:57:-39.52,-17.17,-173.24:99
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chr1 4769118 rs10915610 A C 208.85 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=4.78;MQ=58.87;MQ0=0;OQ=1164.63;QD=14.93;SB=-551.67 GT:AD:DP:GL:GQ 0/1:37,39:77:-145.10,-25.36,-142.76:99
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chr1 4770972 . C A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=2;HaplotypeScore=8.28;MQ=56.35;MQ0=0;OQ=111.37;QD=1.89;SB=65.23 GT:AD:DP:GL:GQ 0/1:35,24:40:-26.47,-12.05,-113.84:99
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chr1 4771531 rs1118009 A G 323.35 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=1;HaplotypeScore=1.82;MQ=56.74;MQ0=0;OQ=1333.25;QD=15.32;SB=-605.42 GT:AD:DP:GL:GQ 0/1:38,49:86:-162.53,-25.92,-151.96:99
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chr1 4771617 rs1118010 C T 407.70 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=1431.00;QD=18.58;SB=-550.33 GT:AD:DP:GL:GQ 0/1:34,43:77:-169.58,-23.20,-123.43:99
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chr1 4772431 rs10799262 G A 68.65 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=59.76;MQ0=0;OQ=1610.76;QD=20.65;SB=-755.30 GT:AD:DP:GL:GQ 0/1:32,46:78:-187.86,-23.50,-115.14:99
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chr1 4772511 rs10915611 C T 585.75 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=1219.72;QD=17.42;SB=-547.54 GT:AD:DP:GL:GQ 0/1:34,36:70:-146.34,-21.08,-121.82:99
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chr1 4772916 rs10915612 A G 195.17 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=58.68;MQ0=0;OQ=1058.43;QD=15.80;SB=-539.98 GT:AD:DP:GL:GQ 0/1:30,37:67:-129.31,-20.19,-122.36:99
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chr1 4773270 rs7540367 G A 242.80 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.44;MQ0=0;OQ=792.22;QD=13.66;SB=-213.92 GT:AD:DP:GL:GQ 0/1:33,25:57:-99.68,-17.18,-105.56:99
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chr1 4773658 . G A 112.25 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.50;MQ0=0;OQ=985.30;QD=17.59;SB=-495.06 GT:AD:DP:GL:GQ 0/1:26,30:55:-118.38,-16.57,-94.83:99
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chr1 4773754 rs12120205 T A 372.54 PASS AC=1;AF=0.50;AN=2;DB;DP=98;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=1585.82;QD=16.18;SB=-556.42 GT:AD:DP:GL:GQ 0/1:49,49:98:-191.38,-29.51,-188.67:99
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chr1 4774287 rs10799263 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=7;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1045.47;QD=15.84;SB=-449.52 GT:AD:DP:GL:GQ 0/1:30,36:65:-127.41,-19.58,-109.32:99
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chr1 4774365 rs10915613 G A 361.24 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1223.17;QD=16.31;SB=-630.64 GT:AD:DP:GL:GQ 0/1:38,37:73:-147.61,-22.01,-118.37:99
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chr1 4776755 rs12145180 C G 356.13 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.24;MQ=59.64;MQ0=0;OQ=975.57;QD=15.24;SB=-415.28 GT:AD:DP:GL:GQ 0/1:32,32:62:-119.54,-18.70,-139.99:99
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chr1 4776903 rs10915615 C A 330.11 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=59.69;MQ0=0;OQ=909.18;QD=12.12;SB=-404.10 GT:AD:DP:GL:GQ 0/1:43,32:72:-115.90,-21.70,-128.82:99
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chr1 4777460 rs12118812 T G 167.49 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.73;MQ0=0;OQ=842.15;QD=11.86;SB=-431.75 GT:AD:DP:GL:GQ 0/1:41,30:70:-108.58,-21.08,-144.58:99
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chr1 4777525 rs12118818 T G 101.66 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=1.33;MQ=59.72;MQ0=0;OQ=940.16;QD=13.63;SB=-473.22 GT:AD:DP:GL:GQ 0/1:36,33:67:-117.48,-20.18,-125.31:99
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chr1 4777535 rs12143219 G T 70.17 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=4;HaplotypeScore=0.27;MQ=60.00;MQ0=0;OQ=1005.40;QD=15.47;SB=-447.46 GT:AD:DP:GL:GQ 0/1:32,33:65:-123.40,-19.58,-114.32:99
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chr1 4778731 rs1120120 C T 347.86 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=1.94;MQ=59.78;MQ0=0;OQ=1277.01;QD=15.02;SB=-471.94 GT:AD:DP:GL:GQ 0/1:47,38:84:-156.28,-25.30,-171.76:99
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chr1 4780340 rs10915616 C T 196.28 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=881.43;QD=16.95;SB=-113.96 GT:AD:DP:GL:GQ 0/1:26,26:52:-107.09,-15.66,-92.07:99
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chr1 4780435 rs12121890 T C 347.71 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.73;MQ0=0;OQ=1105.50;QD=16.26;SB=-426.60 GT:AD:DP:GL:GQ 0/1:30,38:67:-134.02,-20.18,-117.11:99
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chr1 4781127 rs12122126 T C 314.12 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=58.69;MQ0=0;OQ=674.99;QD=13.50;SB=-298.62 GT:AD:DP:GL:GQ 0/1:26,24:49:-85.54,-14.76,-106.72:99
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chr1 4781899 rs12117810 G A 242.85 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.88;MQ0=0;OQ=1031.36;QD=17.78;SB=-437.45 GT:AD:DP:GL:GQ 0/1:28,30:56:-123.30,-16.88,-83.86:99
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chr1 4782182 rs10915619 A T 438.63 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=58.65;MQ0=0;OQ=1009.97;QD=12.47;SB=-431.43 GT:AD:DP:GL:GQ 0/1:47,34:80:-128.38,-24.10,-172.98:99
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chr1 4782516 rs1883345 G A 146.28 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=59.45;MQ0=0;OQ=906.47;QD=11.93;SB=-338.27 GT:AD:DP:GL:GQ 0/1:44,32:71:-115.32,-21.39,-152.63:99
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chr1 4782885 rs1883346 T A 397.96 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.70;MQ=58.75;MQ0=0;OQ=1064.02;QD=14.99;SB=-456.50 GT:AD:DP:GL:GQ 0/1:37,34:70:-130.77,-21.08,-141.61:99
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chr1 4782955 rs1883347 T C 221.56 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=4.24;MQ=59.50;MQ0=0;OQ=856.09;QD=11.57;SB=-450.96 GT:AD:DP:GL:GQ 0/1:43,30:73:-110.88,-21.99,-176.74:99
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chr1 4783491 rs4654610 T C 960.35 Indel AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=11.46;MQ=47.61;MQ0=0;QD=14.12;SB=-407.25 GT:AD:DP:GL:GQ 0/1:31,37:63:-118.30,-18.98,-112.03:99
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chr1 4793106 rs61766789 G A 240.39 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.34;MQ=58.98;MQ0=1;OQ=1230.74;QD=17.33;SB=-554.58 GT:AD:DP:GL:GQ 0/1:35,36:69:-147.14,-20.78,-120.71:99
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chr1 4794663 . C T 274.23 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=833.44;QD=12.63;SB=-440.37 GT:AD:DP:GL:GQ 0/1:40,26:66:-106.51,-19.88,-144.25:99
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chr1 4794952 rs12074481 C A 271.91 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=57.82;MQ0=0;OQ=1066.30;QD=15.02;SB=-452.97 GT:AD:DP:GL:GQ 0/1:33,38:69:-130.70,-20.79,-110.83:99
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chr1 4798693 rs7522386 A G 341.25 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=1.98;MQ=58.39;MQ0=0;OQ=1056.56;QD=15.77;SB=-495.12 GT:AD:DP:GL:GQ 0/1:31,36:65:-128.52,-19.58,-122.92:99
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chr1 4801597 rs7527319 C A 582.07 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=923.07;QD=13.78;SB=-344.17 GT:AD:DP:GL:GQ 0/1:34,33:66:-115.47,-19.88,-121.89:99
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chr1 4806096 rs7547779 T C 457.63 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.53;MQ0=0;OQ=897.02;QD=13.39;SB=-364.21 GT:AD:DP:GL:GQ 0/1:34,33:65:-112.57,-19.58,-135.93:99
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chr1 4807563 rs11582327 T C 467.91 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.73;MQ0=0;OQ=911.00;QD=13.40;SB=-422.86 GT:AD:DP:GL:GQ 0/1:32,36:67:-114.58,-20.19,-127.73:99
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chr1 4807672 rs7536960 T C 326.99 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=60.00;MQ0=0;OQ=720.71;QD=12.64;SB=-286.29 GT:AD:DP:GL:GQ 0/1:27,30:55:-91.93,-16.58,-105.91:99
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chr1 4808516 rs6669130 G A 323.43 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=1.64;MQ=59.98;MQ0=0;OQ=1529.46;QD=17.58;SB=-724.76 GT:AD:DP:GL:GQ 0/1:42,45:83:-181.23,-25.00,-146.35:99
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chr1 4808719 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=2;HaplotypeScore=4.69;MQ=58.91;MQ0=0;OQ=57.76;QD=0.90;SB=95.29 GT:AD:DP:GL:GQ 0/1:40,24:48:-23.52,-14.46,-139.84:90.60
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chr1 4808761 rs6683849 A G 156.55 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=737.58;QD=13.17;SB=-272.54 GT:AD:DP:GL:GQ 0/1:30,26:56:-93.91,-16.87,-119.65:99
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chr1 4808953 rs12725011 G A 96.81 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=3;HaplotypeScore=1.25;MQ=59.67;MQ0=0;OQ=1362.18;QD=19.46;SB=-645.68 GT:AD:DP:GL:GQ 0/1:29,41:69:-160.29,-20.79,-101.64:99
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chr1 4808976 rs11582462 A G 74 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=3.61;MQ=59.32;MQ0=0;OQ=923.86;QD=13.59;SB=-481.59 GT:AD:DP:GL:GQ 0/1:33,35:64:-114.94,-19.28,-135.51:99
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chr1 4809567 rs11582936 A C 302.66 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.32;MQ=59.67;MQ0=0;OQ=605.80;QD=10.63;SB=-281.94 GT:AD:DP:GL:GQ 0/1:26,30:52:-79.53,-15.67,-97.13:99
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chr1 4809668 rs7543326 T C 173.23 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=2;HaplotypeScore=1.68;MQ=59.71;MQ0=0;OQ=1092.10;QD=13.82;SB=-474.60 GT:AD:DP:GL:GQ 0/1:37,42:79:-136.31,-23.81,-148.02:99
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chr1 4811032 rs6693945 T C 292.95 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=59.41;MQ0=0;OQ=916.53;QD=14.55;SB=-321.25 GT:AD:DP:GL:GQ 0/1:30,31:62:-117.13,-22.19,-125.33:99
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chr1 4811983 rs2209167 G A 414.43 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.70;MQ0=0;OQ=1021.76;QD=13.10;SB=-414.40 GT:AD:DP:GL:GQ 0/1:45,33:75:-128.08,-22.62,-135.03:99
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chr1 4813003 rs6426439 C T 133.12 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=3.37;MQ=59.50;MQ0=0;OQ=1367.37;QD=18.48;SB=-705.27 GT:AD:DP:GL:GQ 0/1:34,40:72:-161.71,-21.69,-122.06:99
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chr1 4813419 rs1886113 T G 294.59 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=612.34;QD=12.76;SB=-248.40 GT:AD:DP:GL:GQ 0/1:25,23:47:-78.67,-14.15,-95.57:99
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chr1 4813733 rs10915628 T C 146.41 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.97;MQ=60.00;MQ0=0;OQ=870.49;QD=12.26;SB=-270.52 GT:AD:DP:GL:GQ 0/1:41,30:71:-111.72,-21.39,-167.00:99
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chr1 4813800 rs10915631 C T 467.08 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=60.00;MQ0=0;OQ=1109.44;QD=15.20;SB=-509.01 GT:AD:DP:GL:GQ 0/1:39,34:73:-136.22,-21.99,-139.36:99
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chr1 4813826 rs10799266 A G 440.81 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=60.00;MQ0=0;OQ=1025.69;QD=13.50;SB=-528.56 GT:AD:DP:GL:GQ 0/1:40,36:76:-128.75,-22.90,-159.57:99
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chr1 4814770 rs6426440 C A 361.03 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=60.00;MQ0=0;OQ=964.05;QD=12.68;SB=-378.13 GT:AD:DP:GL:GQ 0/1:42,34:76:-122.59,-22.91,-131.06:99
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chr1 4814802 rs6426441 A T 191.96 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=5.04;MQ=59.57;MQ0=0;OQ=882.35;QD=13.17;SB=-416.80 GT:AD:DP:GL:GQ 0/1:37,30:65:-111.10,-19.58,-134.21:99
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chr1 4815146 rs2411949 G T 0.34 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=15.15;MQ=59.31;MQ0=0;OQ=1233.12;QD=16.23;SB=-582.79 GT:AD:DP:GL:GQ 0/1:35,40:72:-148.29,-21.69,-101.37:99
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chr1 4815330 rs6658680 A G 154.72 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=57.17;MQ0=0;OQ=454.29;QD=9.09;SB=-126.50 GT:AD:DP:GL:GQ 0/1:29,21:47:-62.88,-14.17,-108.85:99
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chr1 4815340 rs6692964 G T 169.92 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.65;MQ=56.50;MQ0=0;OQ=607.11;QD=11.90;SB=-203.41 GT:AD:DP:GL:GQ 0/1:29,22:51:-79.35,-15.36,-103.70:99
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chr1 4815344 rs6692966 G A 446.58 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.57;MQ0=0;OQ=669.90;QD=12.88;SB=-297.81 GT:AD:DP:GL:GQ 0/1:28,24:50:-85.35,-15.08,-90.67:99
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chr1 4815634 rs2147028 C A 82.12 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=1.79;MQ=59.43;MQ0=0;OQ=1001.39;QD=15.41;SB=-277.32 GT:AD:DP:GL:GQ 0/1:32,33:62:-122.10,-18.67,-102.09:99
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chr1 4815904 rs2209166 G A 117.08 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=1754.50;QD=22.21;SB=-892.01 GT:AD:DP:GL:GQ 0/1:28,51:79:-202.53,-23.80,-99.82:99
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chr1 4816064 rs6693706 G T 446.40 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.64;MQ0=0;OQ=733.52;QD=14.11;SB=-350.37 GT:AD:DP:GL:GQ 0/1:26,26:52:-92.30,-15.67,-93.55:99
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chr1 4816465 rs1535736 C T 112.29 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=1112.33;QD=17.38;SB=-338.80 GT:AD:DP:GL:GQ 0/1:31,33:64:-133.80,-19.28,-110.54:99
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chr1 4816766 rs1535734 A G 420.29 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=908.64;QD=12.62;SB=-359.52 GT:AD:DP:GL:GQ 0/1:39,33:70:-115.23,-21.09,-156.36:99
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chr1 4817101 rs6693352 A G 227.39 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=3.08;MQ=59.68;MQ0=0;OQ=949.71;QD=13.19;SB=-443.55 GT:AD:DP:GL:GQ 0/1:38,34:70:-119.35,-21.09,-147.05:99
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chr1 4817128 rs2898848 G A 216.99 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=1195.65;QD=16.61;SB=-558.57 GT:AD:DP:GL:GQ 0/1:36,36:72:-144.54,-21.69,-131.83:99
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chr1 4817320 rs2209165 C T 145.82 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=59.39;MQ0=0;OQ=1415.52;QD=20.82;SB=-731.10 GT:AD:DP:GL:GQ 0/1:27,41:68:-165.32,-20.49,-90.68:99
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chr1 4817405 rs2209164 A G 118.02 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.63;MQ0=0;OQ=527.84;QD=8.51;SB=-187.44 GT:AD:DP:GL:GQ 0/1:40,22:60:-74.14,-18.07,-157.62:99
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chr1 4817514 rs2209163 G A 238.41 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.72;MQ0=0;OQ=933.49;QD=13.93;SB=-217.50 GT:AD:DP:GL:GQ 0/1:38,29:66:-116.53,-19.90,-117.09:99
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chr1 4817749 rs3938469 A G 107.60 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=486.41;QD=8.11;SB=-117.18 GT:AD:DP:GL:GQ 0/1:41,19:60:-70.00,-18.07,-168.54:99
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chr1 4817969 rs2093769 G A 229.16 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=3.14;MQ=59.44;MQ0=0;OQ=1190.09;QD=14.51;SB=-381.33 GT:AD:DP:GL:GQ 0/1:44,38:79:-146.09,-23.80,-153.77:99
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chr1 4818044 rs2093768 A G 314.22 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.33;MQ0=0;OQ=811.36;QD=13.09;SB=-280.55 GT:AD:DP:GL:GQ 0/1:29,33:61:-102.81,-18.39,-114.06:99
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chr1 4818509 rs10159142 G A 308.93 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.55;MQ=58.95;MQ0=0;OQ=899.59;QD=15.51;SB=-448.42 GT:AD:DP:GL:GQ 0/1:30,28:58:-110.72,-17.47,-107.08:99
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chr1 4818666 rs10799268 T C 278.30 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=1.43;MQ=59.42;MQ0=0;OQ=887.47;QD=13.87;SB=-404.24 GT:AD:DP:GL:GQ 0/1:33,31:62:-110.70,-18.67,-130.15:99
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chr1 4818872 rs10753387 T C 88.47 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.63;MQ=55.54;MQ0=0;OQ=718.25;QD=13.30;SB=-324.13 GT:AD:DP:GL:GQ 0/1:25,29:53:-91.08,-15.98,-99.45:99
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chr1 4819100 rs10753388 G A 0.17 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=17.64;MQ=55.33;MQ0=0;OQ=1324.27;QD=17.66;SB=-679.33 GT:AD:DP:GL:GQ 0/1:36,39:70:-156.80,-21.09,-111.06:99
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chr1 4819163 rs10753389 A G 70.61 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=49.63;MQ0=1;OQ=764.05;QD=12.53;SB=-256.89 GT:AD:DP:GL:GQ 0/1:33,28:59:-97.46,-17.77,-133.52:99
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chr1 4819348 rs10915632 G A 8.54 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=2;HaplotypeScore=6.46;MQ=58.48;MQ0=0;OQ=1415.77;QD=15.91;SB=-658.28 GT:AD:DP:GL:GQ 0/1:47,42:87:-171.06,-26.20,-164.95:99
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chr1 4819622 rs10799269 C G 347.45 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.05;MQ0=0;OQ=934.79;QD=12.98;SB=-429.59 GT:AD:DP:GL:GQ 0/1:41,31:69:-117.56,-20.80,-181.53:99
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chr1 4819655 rs10799270 G A 353.44 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.56;MQ0=0;OQ=1064.88;QD=14.39;SB=-436.38 GT:AD:DP:GL:GQ 0/1:41,33:74:-132.06,-22.29,-148.73:99
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chr1 4819737 rs2147027 T C 200.63 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.22;MQ=55.94;MQ0=0;OQ=778.52;QD=14.69;SB=-321.29 GT:AD:DP:GL:GQ 0/1:25,28:51:-96.50,-15.36,-95.69:99
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chr1 4820060 rs2181701 T C 0.91 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=11.39;MQ=52.25;MQ0=0;OQ=485.51;QD=9.52;SB=-244.48 GT:AD:DP:GL:GQ 0/1:29,22:49:-66.61,-14.77,-110.48:99
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chr1 4820091 rs4265399 G A 243.46 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.14;MQ0=0;OQ=512.92;QD=10.06;SB=-45.99 GT:AD:DP:GL:GQ 0/1:32,19:48:-69.05,-14.48,-96.83:99
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chr1 4820096 rs2181700 T G 75.96 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=50.99;MQ0=0;OQ=433.90;QD=8.34;SB=-40.01 GT:AD:DP:GL:GQ 0/1:33,19:51:-62.03,-15.36,-122.01:99
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chr1 4820154 rs9725470 C T 281.54 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.90;MQ0=2;OQ=495.62;QD=9.01;SB=-102.52 GT:AD:DP:GL:GQ 0/1:37,18:51:-68.22,-15.38,-108.69:99
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chr1 4820216 rs9726479 T G 79.72 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=1.15;MQ=45.62;MQ0=0;OQ=697.41;QD=12.24;SB=-299.44 GT:AD:DP:GL:GQ 0/1:30,27:55:-89.59,-16.56,-110.14:99
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chr1 4820227 rs9725796 C A 40.52 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=3;HaplotypeScore=0.33;MQ=47.59;MQ0=0;OQ=717.90;QD=11.58;SB=-300.16 GT:AD:DP:GL:GQ 0/1:34,28:59:-92.84,-17.77,-118.69:99
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chr1 4820388 rs9726805 T C 201.46 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=2.98;MQ=51.02;MQ0=0;OQ=985.45;QD=12.17;SB=-457.03 GT:AD:DP:GL:GQ 0/1:42,39:76:-124.72,-22.89,-168.04:99
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chr1 4820748 . A G 1.13 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=3.54;MQ=35.53;MQ0=6;OQ=268.28;QD=5.37;SB=-1.83 GT:AD:DP:GL:GQ 0/1:28,21:34:-40.35,-10.24,-88.65:99
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chr1 4820850 . T C 0.21 PASS AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=3.41;MQ=43.66;MQ0=1;OQ=84.14;QD=3.12;SB=-53.32 GT:AD:DP:GL:GQ 0/1:14,12:16:-16.52,-4.83,-39.77:99
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chr1 4820858 . G A 0.93 PASS AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=4.23;MQ=41.11;MQ0=1;OQ=153.45;QD=5.29;SB=-40.65 GT:AD:DP:GL:GQ 0/1:13,15:17:-23.75,-5.12,-38.01:99
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chr1 4820952 rs61766808 C T 152.82 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=38.70;MQ0=1;OQ=409.25;QD=9.09;SB=-225.93 GT:AD:DP:GL:GQ 0/1:30,15:42:-56.86,-12.66,-95.36:99
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chr1 4821240 rs9726227 C T 470.14 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=37.63;MQ0=1;OQ=887.90;QD=12.87;SB=-408.68 GT:AD:DP:GL:GQ 0/1:36,33:62:-110.75,-18.67,-130.57:99
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chr1 4821376 rs9726241 C A 8.68 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=39.07;MQ0=5;OQ=305.92;QD=4.86;SB=-1.55 GT:AD:DP:GL:GQ 0/1:37,26:47:-48.04,-14.16,-121.88:99
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chr1 4821609 rs9726885 A C 47.17 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=36.89;MQ0=14;OQ=448.17;QD=5.67;SB=-207.28 GT:AD:DP:GL:GQ 0/1:47,32:61:-66.47,-18.37,-159.23:99
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chr1 4821773 rs9726925 A G 101.03 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=38.22;MQ0=2;OQ=859.75;QD=9.35;SB=-417.48 GT:AD:DP:GL:GQ 0/1:47,45:74:-111.55,-22.29,-173.37:99
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chr1 4821818 rs12135318 C A 320.75 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=44.85;MQ0=0;OQ=1111.50;QD=12.21;SB=-470.83 GT:AD:DP:GL:GQ 0/1:41,50:79:-138.22,-23.79,-149.34:99
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chr1 4821875 rs10915634 A G 55.48 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=46.72;MQ0=5;OQ=657.16;QD=7.64;SB=-166.48 GT:AD:DP:GL:GQ 0/1:46,40:75:-91.61,-22.61,-188.45:99
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chr1 4822060 rs7411909 A G 472.44 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.58;MQ0=0;OQ=844.08;QD=14.07;SB=-331.93 GT:AD:DP:GL:GQ 0/1:31,29:60:-105.77,-18.08,-125.13:99
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chr1 4822115 rs4617370 G A 221.57 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=59.00;MQ0=0;OQ=1387.37;QD=17.13;SB=-675.38 GT:AD:DP:GL:GQ 0/1:40,41:81:-166.44,-24.42,-127.76:99
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chr1 4822681 rs6660173 C T 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.01;HRun=3;HaplotypeScore=10.96;MQ=52.45;MQ0=0;OQ=1014.70;QD=13.71;SB=-426.92 GT:AD:DP:GL:GQ 0/1:42,31:73:-126.44,-21.69,-150.88:99
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chr1 4822687 rs6660177 C A 163.11 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=52.56;MQ0=0;OQ=900.97;QD=12.01;SB=-430.11 GT:AD:DP:GL:GQ 0/1:44,31:74:-115.67,-22.28,-156.45:99
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chr1 4822710 rs6668068 T C 72.65 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=2.96;MQ=50.82;MQ0=0;OQ=906.69;QD=11.78;SB=-477.93 GT:AD:DP:GL:GQ 0/1:44,33:75:-116.54,-22.59,-176.01:99
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chr1 4822958 rs6665282 A G 464.18 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.16;MQ0=0;OQ=785.44;QD=13.78;SB=-331.28 GT:AD:DP:GL:GQ 0/1:30,27:57:-99.00,-17.17,-122.67:99
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chr1 4823049 rs6665388 A G 56.61 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=2.47;MQ=55.61;MQ0=0;OQ=907.22;QD=12.60;SB=-445.14 GT:AD:DP:GL:GQ 0/1:36,36:67:-114.19,-20.18,-139.94:99
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chr1 4823137 rs12087020 A G 358.36 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=54.38;MQ0=0;OQ=1125.73;QD=15.86;SB=-588.93 GT:AD:DP:GL:GQ 0/1:32,39:69:-136.64,-20.78,-130.19:99
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chr1 4823207 rs10915638 C T 285.22 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=0.98;MQ=57.74;MQ0=0;OQ=1338.14;QD=15.93;SB=-487.03 GT:AD:DP:GL:GQ 0/1:44,40:82:-161.79,-24.70,-152.84:99
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chr1 4823247 rs10915639 C T 70.93 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=3;HaplotypeScore=1.40;MQ=59.24;MQ0=0;OQ=1272.31;QD=17.19;SB=-602.12 GT:AD:DP:GL:GQ 0/1:37,37:73:-152.51,-22.00,-119.03:99
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chr1 4823334 rs10915640 G T 485.36 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.40;MQ0=0;OQ=978.54;QD=13.05;SB=-397.99 GT:AD:DP:GL:GQ 0/1:40,35:71:-122.52,-21.38,-136.84:99
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chr1 4823422 rs10915641 G A 453.84 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.14;MQ0=3;OQ=955.26;QD=11.79;SB=-332.42 GT:AD:DP:GL:GQ 0/1:46,35:73:-120.80,-21.99,-150.35:99
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chr1 4824006 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=60;Dels=0.03;HRun=20;HaplotypeScore=17.44;MQ=44.47;MQ0=0;OQ=216.45;QD=3.61;SB=56.16 GT:AD:DP:GL:GQ 0/1:34,24:43:-37.29,-12.36,-108.08:99
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chr1 4824255 rs6656943 G A 241.34 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=48.13;MQ0=0;OQ=486.99;QD=9.37;SB=-207.48 GT:AD:DP:GL:GQ 0/1:29,22:45:-65.55,-13.57,-87.60:99
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chr1 4824523 rs6674586 T A 163.54 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=48.28;MQ0=0;OQ=656.95;QD=12.17;SB=-109.40 GT:AD:DP:GL:GQ 0/1:27,27:47:-83.14,-14.16,-95.96:99
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chr1 4824573 rs6674680 T C 13.56 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.68;MQ=52.32;MQ0=0;OQ=270.57;QD=5.11;SB=-156.88 GT:AD:DP:GL:GQ 0/1:35,18:46:-44.20,-13.86,-137.80:99
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chr1 4824574 . G A 7.24 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.68;MQ=52.42;MQ0=0;OQ=361.86;QD=6.83;SB=-143.57 GT:AD:DP:GL:GQ 0/1:34,19:46:-53.32,-13.85,-117.68:99
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chr1 4824682 rs12135493 G A 249.33 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=51.42;MQ0=1;OQ=988.12;QD=12.83;SB=-444.35 GT:AD:DP:GL:GQ 0/1:44,32:73:-124.08,-21.99,-153.59:99
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chr1 4824703 rs6671779 A G 149.25 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=3.56;MQ=45.45;MQ0=6;OQ=857.95;QD=10.46;SB=-366.21 GT:AD:DP:GL:GQ 0/1:48,33:70:-110.16,-21.08,-158.61:99
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chr1 4824716 rs6674795 T A 84.16 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=5.06;MQ=43.80;MQ0=7;OQ=985.67;QD=11.60;SB=-441.50 GT:AD:DP:GL:GQ 0/1:51,34:73:-123.84,-21.98,-157.76:99
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chr1 4824850 rs36062377 G T 24.04 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=3;HaplotypeScore=2.62;MQ=51.81;MQ0=1;OQ=1235.06;QD=17.15;SB=-475.54 GT:AD:DP:GL:GQ 0/1:30,42:67:-146.97,-20.18,-98.26:99
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chr1 4825033 rs7529540 T C 245.46 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=39.74;MQ0=8;OQ=558.43;QD=7.55;SB=-301.05 GT:AD:DP:GL:GQ 0/1:47,27:63:-78.11,-18.99,-158.23:99
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chr1 4825352 rs4559467 G A 108.52 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=5.62;MQ=48.67;MQ0=0;OQ=560.80;QD=11.22;SB=-300.78 GT:AD:DP:GL:GQ 0/1:27,20:40:-71.42,-12.05,-75.01:99
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chr1 4825513 rs4638087 G C 326.19 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.47;MQ0=0;OQ=1176.04;QD=19.60;SB=-421.03 GT:AD:DP:GL:GQ 0/1:27,33:59:-138.66,-17.78,-117.95:99
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chr1 4825553 rs4551566 C G 30.76 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.33;MQ0=0;OQ=1250.51;QD=22.33;SB=-448.38 GT:AD:DP:GL:GQ 0/1:22,34:55:-144.91,-16.57,-96.90:99
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chr1 4826034 rs7529926 A G 223.14 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=2.45;MQ=57.60;MQ0=0;OQ=1139.50;QD=13.57;SB=-533.50 GT:AD:DP:GL:GQ 0/1:44,39:83:-142.23,-25.00,-178.33:99
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chr1 4826162 rs7525613 C T 13.44 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=2;HaplotypeScore=3.45;MQ=59.36;MQ0=1;OQ=993.15;QD=10.80;SB=-409.28 GT:AD:DP:GL:GQ 0/1:59,33:90:-129.72,-27.12,-195.16:99
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chr1 4826345 rs2104305 G T 184.73 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=57.85;MQ0=1;OQ=505.67;QD=12.64;SB=-209.45 GT:AD:DP:GL:GQ 0/1:21,19:39:-65.60,-11.75,-75.98:99
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chr1 4826423 rs2093767 G A 138.65 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=3.61;MQ=58.83;MQ0=0;OQ=815.33;QD=15.68;SB=-288.73 GT:AD:DP:GL:GQ 0/1:27,25:52:-100.48,-15.67,-95.85:99
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chr1 4826585 rs2093766 C T 86.86 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=59.52;MQ0=0;OQ=705.53;QD=13.07;SB=-332.40 GT:AD:DP:GL:GQ 0/1:31,23:54:-90.10,-16.27,-110.86:99
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chr1 4826810 rs10915643 T G 203.85 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=57.12;MQ0=0;OQ=525.52;QD=11.94;SB=-258.86 GT:AD:DP:GL:GQ 0/1:23,21:42:-68.49,-12.65,-82.71:99
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chr1 4827586 rs55916988 A T 25.36 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=889.58;QD=14.35;SB=-432.48 GT:AD:DP:GL:GQ 0/1:33,29:62:-110.92,-18.68,-123.75:99
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chr1 4827658 rs10915644 C T 105.99 PASS AC=1;AF=0.50;AN=2;DB;DP=104;Dels=0.00;HRun=0;HaplotypeScore=1.87;MQ=60.00;MQ0=0;OQ=1865.95;QD=17.94;SB=-912.01 GT:AD:DP:GL:GQ 0/1:46,58:101:-220.30,-30.43,-168.62:99
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chr1 4828047 rs10915645 G T 162.71 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=59.35;MQ0=0;OQ=1117.38;QD=13.97;SB=-570.65 GT:AD:DP:GL:GQ 0/1:41,39:77:-138.21,-23.19,-142.58:99
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chr1 4828218 rs10915646 T C 280.72 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.03;MQ=59.65;MQ0=0;OQ=827.35;QD=15.32;SB=-429.21 GT:AD:DP:GL:GQ 0/1:26,28:54:-102.28,-16.26,-103.92:99
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chr1 4829521 rs7525315 A G 34.89 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=2;HaplotypeScore=1.86;MQ=60.00;MQ0=0;OQ=437.24;QD=11.82;SB=-193.62 GT:AD:DP:GL:GQ 0/1:19,18:35:-57.55,-10.55,-75.26:99
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chr1 4829549 rs7511935 G C 92.43 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=2.47;MQ=60.00;MQ0=0;OQ=512.56;QD=13.85;SB=-232.38 GT:AD:DP:GL:GQ 0/1:19,18:33:-64.49,-9.95,-73.26:99
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chr1 4829662 rs7512035 G A 4.93 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=9.93;MQ=58.76;MQ0=0;OQ=838.03;QD=17.10;SB=-374.88 GT:AD:DP:GL:GQ 0/1:21,27:46:-104.45,-17.36,-74.24:99
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chr1 4830041 rs1886112 T C 323.11 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.65;MQ=58.39;MQ0=0;OQ=754.42;QD=11.79;SB=-313.28 GT:AD:DP:GL:GQ 0/1:35,29:61:-97.11,-18.38,-135.74:99
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chr1 4830111 rs2411950 A G 299.57 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=2.97;MQ=59.44;MQ0=0;OQ=788.01;QD=11.76;SB=-302.20 GT:AD:DP:GL:GQ 0/1:34,33:66:-101.98,-19.90,-134.57:99
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chr1 4831214 rs11588518 A G 386.42 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.12;MQ=58.39;MQ0=0;OQ=816.62;QD=14.85;SB=-422.33 GT:AD:DP:GL:GQ 0/1:26,29:53:-100.91,-15.96,-102.18:99
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chr1 4832304 rs10915647 T G 357.62 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=59.21;MQ0=0;OQ=992.87;QD=12.89;SB=-411.65 GT:AD:DP:GL:GQ 0/1:36,41:75:-125.17,-22.60,-131.25:99
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chr1 4833095 rs10489136 G A 381.62 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.25;MQ0=0;OQ=597.16;QD=11.94;SB=-271.12 GT:AD:DP:GL:GQ 0/1:30,20:49:-77.76,-14.76,-108.40:99
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chr1 4833385 rs11809159 G A 313.41 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.57;MQ0=0;OQ=671.57;QD=12.44;SB=-350.34 GT:AD:DP:GL:GQ 0/1:33,21:52:-86.11,-15.67,-111.35:99
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chr1 4834568 rs12691490 G A 57.53 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=2;HaplotypeScore=1.52;MQ=59.19;MQ0=0;OQ=1072.80;QD=14.30;SB=-179.14 GT:AD:DP:GL:GQ 0/1:41,34:74:-132.86,-22.29,-148.17:99
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chr1 4834712 rs11810903 C T 299.28 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=59.50;MQ0=0;OQ=847.25;QD=15.99;SB=-334.31 GT:AD:DP:GL:GQ 0/1:27,26:50:-103.07,-15.06,-90.22:99
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chr1 4835505 . G A 70.11 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=57.18;MQ0=2;OQ=1406.02;QD=19.00;SB=-566.58 GT:AD:DP:GL:GQ 0/1:33,41:71:-165.27,-21.39,-109.48:99
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chr1 4835574 rs60862815 A G 389.11 PASS AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.44;MQ0=0;OQ=1406.97;QD=14.66;SB=-683.24 GT:AD:DP:GL:GQ 0/1:48,48:95:-172.59,-28.61,-196.25:99
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chr1 4835660 . A G 23.51 PASS AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=53.01;MQ0=0;OQ=1833.96;QD=19.10;SB=-522.87 GT:AD:DP:GL:GQ 0/1:39,57:96:-215.59,-28.91,-159.74:99
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chr1 4837550 rs35283465 T G 356.52 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=1133.74;QD=16.67;SB=-504.82 GT:AD:DP:GL:GQ 0/1:30,38:68:-137.14,-20.48,-110.12:99
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chr1 4837913 rs10753390 T C 137.37 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=2.60;MQ=60.00;MQ0=0;OQ=941.83;QD=14.72;SB=-459.61 GT:AD:DP:GL:GQ 0/1:30,34:62:-116.15,-18.68,-119.75:99
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chr1 4839426 rs942248 G A 447.55 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.57;MQ=60.00;MQ0=0;OQ=1139.23;QD=16.75;SB=-553.39 GT:AD:DP:GL:GQ 0/1:34,34:68:-137.70,-20.50,-108.59:99
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chr1 4841270 rs10915651 A G 240.97 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=57.66;MQ0=0;OQ=816.55;QD=11.66;SB=-378.12 GT:AD:DP:GL:GQ 0/1:39,31:68:-105.42,-20.48,-155.28:99
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chr1 4841714 rs4654463 A C 478.61 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=555.94;QD=9.75;SB=-254.73 GT:AD:DP:GL:GQ 0/1:35,22:56:-75.74,-16.86,-132.35:99
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chr1 4844074 rs10733017 T C 2.18 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=11.82;MQ=59.63;MQ0=0;OQ=699.51;QD=11.10;SB=-327.09 GT:AD:DP:GL:GQ 0/1:36,27:62:-91.91,-18.68,-144.88:99
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chr1 4844167 rs11576728 C A 571.03 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=1050.49;QD=13.64;SB=-532.68 GT:AD:DP:GL:GQ 0/1:42,35:77:-131.52,-23.19,-153.03:99
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chr1 4844702 rs7543026 G A 584.71 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.93;MQ0=0;OQ=948.11;QD=15.54;SB=-391.87 GT:AD:DP:GL:GQ 0/1:33,28:60:-116.18,-18.08,-104.09:99
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chr1 4845341 rs6658585 A C 76.93 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=4.00;MQ=59.18;MQ0=0;OQ=1071.52;QD=16.74;SB=-367.56 GT:AD:DP:GL:GQ 0/1:26,38:62:-129.11,-18.67,-97.88:99
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chr1 4845498 rs12057393 G A 364.71 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=12;HaplotypeScore=3.79;MQ=47.74;MQ0=0;QD=4.19;SB=-24.81 GT:AD:DP:GL:GQ 0/1:67,20:77:-62.95,-23.20,-211.18:99
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chr1 4845501 . G A 272.57 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=2;HaplotypeScore=5.43;MQ=47.58;MQ0=0;QD=3.17;SB=59.32 GT:AD:DP:GL:GQ 0/1:69,17:79:-54.34,-23.80,-226.78:99
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chr1 4845504 . G A 237.01 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=2;HaplotypeScore=5.58;MQ=47.42;MQ0=0;QD=2.79;SB=100.89 GT:AD:DP:GL:GQ 0/1:69,16:79:-50.79,-23.80,-233.92:99
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chr1 4846112 rs34320332 A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=25.56;MQ=59.10;MQ0=1;OQ=980.42;QD=12.41;SB=-508.92 GT:AD:DP:GL:GQ 0/1:43,36:73:-123.31,-21.99,-148.19:99
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chr1 4846138 rs4141866 T G 321.22 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=1084.74;QD=12.91;SB=-515.88 GT:AD:DP:GL:GQ 0/1:44,39:81:-136.16,-24.40,-149.14:99
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chr1 4846537 rs2224810 C T 118.17 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=2;HaplotypeScore=2.15;MQ=60.00;MQ0=0;OQ=819.69;QD=11.71;SB=-407.37 GT:AD:DP:GL:GQ 0/1:43,26:69:-109.19,-23.93,-141.50:99
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chr1 4846628 rs2209160 C T 102.30 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=6.02;MQ=59.71;MQ0=0;OQ=1103.05;QD=13.96;SB=-498.70 GT:AD:DP:GL:GQ 0/1:45,34:78:-137.10,-23.51,-139.74:99
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chr1 4847013 rs4654617 G A 341.44 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.65;MQ=60.12;MQ0=0;OQ=1328.73;QD=14.44;SB=-558.05 GT:AD:DP:GL:GQ 0/1:51,41:91:-163.57,-27.42,-178.46:99
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chr1 4847234 rs4654618 G A 257.57 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.79;MQ0=0;OQ=1473.23;QD=16.93;SB=-644.65 GT:AD:DP:GL:GQ 0/1:44,43:86:-176.51,-25.90,-155.83:99
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chr1 4847304 rs11576619 A C 410.62 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=1115.68;QD=12.54;SB=-555.85 GT:AD:DP:GL:GQ 0/1:50,39:89:-141.65,-26.80,-188.69:99
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chr1 4848245 rs10915655 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.04;HRun=13;HaplotypeScore=40.55;MQ=53.84;MQ0=0;OQ=783.98;QD=11.53;SB=-399.49 GT:AD:DP:GL:GQ 0/1:35,30:57:-98.55,-16.87,-112.34:99
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chr1 4848259 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=13;HaplotypeScore=8.75;MQ=53.39;MQ0=0;OQ=145.61;QD=2.24;SB=43.71 GT:AD:DP:GL:GQ 0/1:50,15:51:-33.22,-15.38,-143.27:99
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chr1 4848272 rs59534952 C T 83.18 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=2.85;MQ=55.61;MQ0=0;OQ=567.99;QD=11.83;SB=-226.73 GT:AD:DP:GL:GQ 0/1:29,19:46:-73.94,-13.86,-98.14:99
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chr1 4849613 rs2224809 G T 40.55 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=5.98;MQ=59.05;MQ0=0;OQ=753.24;QD=11.77;SB=-371.10 GT:AD:DP:GL:GQ 0/1:36,28:62:-97.28,-18.68,-118.15:99
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chr1 4851425 rs4654464 C A 99.04 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=3;HaplotypeScore=1.30;MQ=59.74;MQ0=0;OQ=1201.43;QD=13.50;SB=-585.67 GT:AD:DP:GL:GQ 0/1:47,42:87:-149.63,-26.21,-164.62:99
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chr1 4851649 rs1544062 A C 506.42 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.80;MQ0=0;OQ=1031.53;QD=11.21;SB=-464.74 GT:AD:DP:GL:GQ 0/1:52,40:90:-133.54,-27.11,-194.44:99
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chr1 4852648 rs6664880 A G 404.16 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=757.37;QD=15.15;SB=-338.35 GT:AD:DP:GL:GQ 0/1:21,29:49:-93.79,-14.77,-78.78:99
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chr1 4853388 rs16839786 G T 224.38 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=53.58;MQ0=0;OQ=920.28;QD=16.43;SB=-211.55 GT:AD:DP:GL:GQ 0/1:26,30:55:-111.88,-16.57,-81.39:99
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chr1 4853673 rs61764897 T A 731.06 Indel AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=49.62;MQ0=0;QD=11.25;SB=-257.66 GT:AD:DP:GL:GQ 0/1:39,26:64:-95.67,-19.28,-148.40:99
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chr1 4854729 rs11578197 G A 258.41 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.18;MQ=59.65;MQ0=0;OQ=1050.33;QD=16.16;SB=-476.48 GT:AD:DP:GL:GQ 0/1:33,32:63:-127.30,-18.99,-107.48:99
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chr1 4855018 rs16839789 C T 363.83 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=59.33;MQ0=0;OQ=1117.05;QD=14.70;SB=-538.76 GT:AD:DP:GL:GQ 0/1:39,37:73:-136.99,-22.00,-128.05:99
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chr1 4855722 rs6426446 C T 346.09 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.43;MQ0=0;OQ=1302.13;QD=17.84;SB=-634.73 GT:AD:DP:GL:GQ 0/1:34,39:71:-154.89,-21.40,-105.41:99
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chr1 4855930 rs6426447 T C 166.41 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=57.78;MQ0=0;OQ=489.14;QD=8.58;SB=-219.87 GT:AD:DP:GL:GQ 0/1:31,26:53:-68.18,-15.98,-120.90:99
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chr1 4856415 rs7547152 G C 495.16 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.79;MQ0=0;OQ=942.12;QD=15.20;SB=-441.90 GT:AD:DP:GL:GQ 0/1:35,27:61:-115.88,-18.38,-149.41:99
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chr1 4857229 rs58851741 C T 459.60 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=966.78;QD=16.67;SB=-403.91 GT:AD:DP:GL:GQ 0/1:27,31:57:-117.15,-17.19,-83.93:99
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chr1 4857438 rs6663654 A G 150.02 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=1.74;MQ=59.66;MQ0=0;OQ=1188.14;QD=17.73;SB=-597.99 GT:AD:DP:GL:GQ 0/1:26,41:63:-141.07,-18.98,-97.28:99
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chr1 4857938 rs4654466 T G 14.09 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=3;HaplotypeScore=2.02;MQ=60.00;MQ0=0;OQ=2439.19;QD=33.41;SB=-1032.90 GT:AD:DP:GL:GQ 1/1:0,73:72:-247.54,-21.70,-0.04:99
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chr1 4857962 rs4654620 T C 617.25 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2216.51;QD=34.63;SB=-1013.85 GT:AD:DP:GL:GQ 1/1:0,64:63:-225.26,-18.98,-0.03:99
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chr1 4858133 rs12026056 C T 160.83 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.48;MQ0=0;OQ=1391.17;QD=19.32;SB=-472.46 GT:AD:DP:GL:GQ 0/1:31,41:70:-163.49,-21.09,-105.37:99
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chr1 4858331 rs2411952 T G 714.78 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2714.55;QD=33.93;SB=-941.23 GT:AD:DP:GL:GQ 1/1:0,80:78:-275.06,-23.49,-0.02:99
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chr1 4858799 rs10915656 A G 325.06 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=541.63;QD=8.88;SB=-253.33 GT:AD:DP:GL:GQ 0/1:37,24:61:-75.83,-18.39,-146.51:99
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chr1 4859646 rs2031246 A G 219.32 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=58.68;MQ0=0;OQ=1950.88;QD=29.12;SB=-966.30 GT:AD:DP:GL:GQ 1/1:0,67:62:-198.73,-18.70,-0.06:99
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chr1 4859671 . T C 13.11 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=1;HaplotypeScore=3.64;MQ=59.06;MQ0=0;OQ=883.63;QD=12.81;SB=-329.17 GT:AD:DP:GL:GQ 0/1:37,32:67:-111.83,-20.19,-139.59:99
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chr1 4859954 rs34895557 G T 206.38 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.25;MQ=59.24;MQ0=0;OQ=744.21;QD=13.53;SB=-251.43 GT:AD:DP:GL:GQ 0/1:28,27:52:-93.37,-15.67,-91.09:99
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chr1 4860771 rs1998542 A G 287.69 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.36;MQ0=0;OQ=1092.68;QD=14.57;SB=-569.57 GT:AD:DP:GL:GQ 0/1:37,38:74:-134.84,-22.29,-148.74:99
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chr1 4861394 rs12564397 A T 437.24 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.84;MQ0=0;OQ=1000.40;QD=17.86;SB=-441.86 GT:AD:DP:GL:GQ 0/1:25,31:56:-120.19,-16.87,-93.72:99
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chr1 4861557 rs35411636 G A 169.15 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=1.73;MQ=59.72;MQ0=0;OQ=1208.45;QD=18.04;SB=-440.97 GT:AD:DP:GL:GQ 0/1:30,37:64:-143.41,-19.28,-105.19:99
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chr1 4863429 . C T 229.25 PASS AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=1493.09;QD=17.36;SB=-728.57 GT:AD:DP:GL:GQ 0/1:41,45:85:-178.20,-25.60,-151.88:99
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chr1 4863497 rs7524606 G A 427.14 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=1.18;MQ=60.00;MQ0=0;OQ=1511.71;QD=17.58;SB=-634.67 GT:AD:DP:GL:GQ 0/1:42,44:85:-180.06,-25.60,-147.35:99
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chr1 4863865 rs1980722 C T 503.84 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3056.08;QD=40.21;SB=-645.86 GT:AD:DP:GL:GQ 1/1:0,76:76:-309.21,-22.89,-0.02:99
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chr1 4864428 rs11580747 G C 245.21 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=59.63;MQ0=0;OQ=942.97;QD=14.97;SB=-334.34 GT:AD:DP:GL:GQ 0/1:36,27:61:-115.96,-18.38,-154.60:99
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chr1 4865012 rs17345545 A C 595.58 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=1349.09;QD=16.06;SB=-446.78 GT:AD:DP:GL:GQ 0/1:36,48:82:-162.89,-24.70,-132.81:99
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chr1 4865105 rs57839229 A T 93.37 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=1.14;MQ=59.34;MQ0=0;OQ=1132.50;QD=17.98;SB=-522.98 GT:AD:DP:GL:GQ 0/1:27,36:62:-135.21,-18.67,-99.92:99
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chr1 4865351 rs4654467 A G 16.96 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.01;HRun=0;HaplotypeScore=4.70;MQ=59.78;MQ0=0;OQ=2675.08;QD=31.11;SB=-1049.26 GT:AD:DP:GL:GQ 1/1:0,84:83:-271.15,-24.72,-0.06:99
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chr1 4866087 rs10915662 A T 363.81 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.38;MQ0=0;OQ=1323.19;QD=19.75;SB=-593.71 GT:AD:DP:GL:GQ 0/1:27,40:67:-155.78,-20.18,-103.30:99
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chr1 4866400 rs12064982 G A 103.40 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=3.34;MQ=60.00;MQ0=0;OQ=973.54;QD=18.03;SB=-247.54 GT:AD:DP:GL:GQ 0/1:25,29:53:-116.61,-15.97,-79.83:99
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chr1 4866918 rs12031154 A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=24.82;MQ=54.18;MQ0=0;OQ=935.81;QD=11.27;SB=-380.06 GT:AD:DP:GL:GQ 0/1:43,40:73:-118.86,-22.00,-142.88:99
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chr1 4866921 rs12026933 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.03;HRun=18;HaplotypeScore=19.70;MQ=54.46;MQ0=0;OQ=1554.81;QD=17.87;SB=-743.33 GT:AD:DP:GL:GQ 0/1:33,51:81:-182.28,-23.51,-100.13:99
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chr1 4867019 rs11803696 A G 583.39 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=1173.47;QD=12.90;SB=-430.96 GT:AD:DP:GL:GQ 0/1:48,43:89:-147.44,-26.81,-193.48:99
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chr1 4867070 rs6672145 C T 154.08 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=58.49;MQ0=0;OQ=2949.30;QD=37.81;SB=-1148.66 GT:AD:DP:GL:GQ 1/1:0,78:74:-298.53,-22.29,-0.02:99
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chr1 4867333 rs10737414 C T 577.78 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=3774.90;QD=40.59;SB=-1090.96 GT:AD:DP:GL:GQ 1/1:0,93:91:-376.49,-27.41,-0.02:99
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chr1 4867363 rs7533707 A T 409.29 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=3186.97;QD=36.63;SB=-1277.61 GT:AD:DP:GL:GQ 1/1:0,87:84:-322.30,-25.30,-0.02:99
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chr1 4867599 rs7520488 G C 176.88 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=3.17;MQ=58.98;MQ0=0;OQ=1260.85;QD=19.70;SB=-431.87 GT:AD:DP:GL:GQ 0/1:29,35:63:-148.35,-18.98,-119.77:99
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chr1 4867836 rs10753391 C T 252.04 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.73;MQ=58.82;MQ0=0;OQ=2192.96;QD=37.17;SB=-1090.48 GT:AD:DP:GL:GQ 1/1:0,58:57:-222.90,-17.17,-0.02:99
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chr1 4869610 rs10753392 A G 2.94 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=12.66;MQ=58.15;MQ0=0;OQ=2566.56;QD=33.77;SB=-1061.07 GT:AD:DP:GL:GQ 1/1:1,75:72:-260.27,-21.69,-0.02:99
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chr1 4869715 rs10753393 A G 57.47 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.94;MQ=55.52;MQ0=0;OQ=2164.34;QD=32.79;SB=-1098.81 GT:AD:DP:GL:GQ 1/1:0,66:62:-220.05,-18.68,-0.03:99
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chr1 4869773 rs10737415 G A 79.07 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=59.56;MQ0=0;OQ=867.20;QD=16.36;SB=-154.19 GT:AD:DP:GL:GQ 0/1:24,29:51:-105.37,-15.37,-83.26:99
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chr1 4869802 rs10753394 T C 256.85 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.38;MQ=60.00;MQ0=0;OQ=1715.99;QD=30.64;SB=-772.60 GT:AD:DP:GL:GQ 1/1:0,56:56:-175.25,-16.90,-0.06:99
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chr1 4869982 rs10915666 G A 210.38 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.64;MQ=58.75;MQ0=0;OQ=1883.17;QD=36.21;SB=-696.34 GT:AD:DP:GL:GQ 1/1:0,50:49:-191.92,-14.76,-0.02:99
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chr1 4870346 rs6675549 G A 170.55 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=4.29;MQ=57.91;MQ0=0;OQ=1211.32;QD=19.23;SB=-547.10 GT:AD:DP:GL:GQ 0/1:28,35:62:-143.11,-18.69,-84.61:99
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chr1 4870866 rs60530383 A G 40.28 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=2.54;MQ=60.00;MQ0=0;OQ=824.16;QD=14.46;SB=-305.38 GT:AD:DP:GL:GQ 0/1:28,29:56:-102.57,-16.87,-109.85:99
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chr1 4871367 rs12034557 C T 506.72 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=1054.17;QD=18.82;SB=-458.82 GT:AD:DP:GL:GQ 0/1:25,31:55:-125.27,-16.57,-85.80:99
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chr1 4871442 rs11584441 T G 5.72 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=1.95;MQ=57.60;MQ0=1;OQ=392.05;QD=7.00;SB=-149.17 GT:AD:DP:GL:GQ 0/1:35,21:54:-58.76,-16.27,-123.74:99
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chr1 4871485 rs12034590 C T 165.34 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.35;MQ0=0;OQ=1273.44;QD=19.90;SB=-540.59 GT:AD:DP:GL:GQ 0/1:26,38:62:-149.30,-18.68,-91.11:99
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chr1 4871683 rs10915667 G A 252.09 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=1.13;MQ=59.56;MQ0=0;OQ=868.47;QD=16.70;SB=-440.82 GT:AD:DP:GL:GQ 0/1:26,26:50:-105.19,-15.06,-84.43:99
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chr1 4872046 rs41524347 T G 240.01 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=531.74;QD=7.28;SB=-248.55 GT:AD:DP:GL:GQ 0/1:47,26:72:-78.15,-21.69,-181.81:99
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chr1 4872269 rs7549400 A G 96.19 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=1.52;MQ=58.82;MQ0=1;OQ=894.68;QD=13.76;SB=-387.61 GT:AD:DP:GL:GQ 0/1:34,31:64:-112.04,-19.29,-126.05:99
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chr1 4872967 rs11805753 C T 385.01 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=59.68;MQ0=0;OQ=1214.98;QD=17.11;SB=-484.47 GT:AD:DP:GL:GQ 0/1:35,36:70:-145.88,-21.10,-111.38:99
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chr1 4873161 rs10915668 C T 676.89 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2872.25;QD=39.89;SB=-1024.38 GT:AD:DP:GL:GQ 1/1:0,72:72:-290.83,-21.69,-0.02:99
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chr1 4874423 rs10915669 T C 15.37 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=2.47;MQ=59.06;MQ0=0;OQ=1979.91;QD=28.69;SB=-648.94 GT:AD:DP:GL:GQ 1/1:0,69:62:-201.63,-18.69,-0.05:99
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chr1 4875425 rs10157835 A G 332.29 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.11;MQ0=0;OQ=1038.14;QD=16.48;SB=-539.00 GT:AD:DP:GL:GQ 0/1:28,35:63:-126.07,-18.98,-114.44:99
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chr1 4877097 rs12565275 C G 395.93 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.57;MQ0=0;OQ=611.15;QD=11.32;SB=-239.42 GT:AD:DP:GL:GQ 0/1:33,21:54:-80.69,-16.29,-144.98:99
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chr1 4877956 rs2898849 G C 124.47 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=59.05;MQ0=0;OQ=3110.04;QD=42.60;SB=-1016.57 GT:AD:DP:GL:GQ 1/1:0,72:72:-314.62,-21.70,-0.03:99
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chr1 4878047 rs12564793 G C 328.95 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.70;MQ0=0;OQ=765.57;QD=12.15;SB=-303.80 GT:AD:DP:GL:GQ 0/1:37,26:61:-98.24,-18.40,-159.57:99
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chr1 4880219 rs11585512 A G 134.50 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=3.24;MQ=59.43;MQ0=0;OQ=632.04;QD=9.58;SB=-314.90 GT:AD:DP:GL:GQ 0/1:35,31:61:-84.88,-18.39,-132.31:99
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chr1 4880279 rs11583660 G A 590.60 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.47;MQ0=0;OQ=976.49;QD=13.95;SB=-412.71 GT:AD:DP:GL:GQ 0/1:40,30:69:-121.72,-20.78,-142.93:99
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chr1 4880552 rs12035499 G A 202.58 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.63;MQ0=0;OQ=1072.23;QD=21.02;SB=-458.86 GT:AD:DP:GL:GQ 0/1:20,31:50:-125.57,-15.06,-66.05:99
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chr1 4881363 rs942245 A G 135.80 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=2549.24;QD=35.41;SB=-1267.52 GT:AD:DP:GL:GQ 1/1:0,72:71:-258.53,-21.38,-0.02:99
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chr1 4882246 rs6698453 G A 17.37 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=3;HaplotypeScore=2.99;MQ=60.00;MQ0=0;OQ=1152.61;QD=20.22;SB=-564.76 GT:AD:DP:GL:GQ 0/1:24,33:57:-135.71,-17.17,-88.68:99
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chr1 4883339 rs12043326 T C 559.70 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=840.35;QD=11.84;SB=-378.86 GT:AD:DP:GL:GQ 0/1:36,35:67:-107.51,-20.19,-138.68:99
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chr1 4883603 rs10915672 C A 302.35 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=917.14;QD=15.81;SB=-477.86 GT:AD:DP:GL:GQ 0/1:28,30:58:-112.47,-17.47,-92.34:99
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chr1 4883658 rs4141867 T C 369.29 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=1888.75;QD=33.14;SB=-779.12 GT:AD:DP:GL:GQ 1/1:0,57:54:-192.48,-16.27,-0.02:99
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chr1 4883885 rs6702564 G A 362.71 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=1074.71;QD=17.62;SB=-363.86 GT:AD:DP:GL:GQ 0/1:29,32:61:-129.13,-18.37,-105.65:99
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chr1 4884232 rs1535733 T C 178.47 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=1.73;MQ=59.20;MQ0=1;OQ=1010.15;QD=15.08;SB=-514.02 GT:AD:DP:GL:GQ 0/1:32,35:66:-124.18,-19.88,-130.89:99
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chr1 4884527 rs6666792 C A 73.74 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=3;HaplotypeScore=1.81;MQ=60.00;MQ0=0;OQ=1017.13;QD=16.14;SB=-354.42 GT:AD:DP:GL:GQ 0/1:29,34:62:-123.67,-18.68,-100.25:99
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chr1 4884742 rs2093765 A G 735.50 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=2661.52;QD=35.97;SB=-1066.10 GT:AD:DP:GL:GQ 1/1:0,74:74:-269.76,-22.29,-0.02:99
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chr1 4885223 rs6667433 C T 727.08 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=1991.58;QD=36.21;SB=-991.61 GT:AD:DP:GL:GQ 1/1:1,54:54:-205.04,-16.28,-2.29:99
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chr1 4885428 rs10753395 A C 505.64 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.54;MQ0=0;OQ=2504.61;QD=34.79;SB=-1254.33 GT:AD:DP:GL:GQ 1/1:0,72:71:-254.07,-21.38,-0.02:99
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chr1 4885629 rs10915675 C T 373.73 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.90;MQ=59.20;MQ0=0;OQ=841.96;QD=14.52;SB=-410.79 GT:AD:DP:GL:GQ 0/1:31,27:56:-104.36,-16.88,-95.31:99
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chr1 4886330 rs2411956 G T 352.27 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.52;MQ=59.33;MQ0=0;OQ=915.03;QD=14.76;SB=-419.13 GT:AD:DP:GL:GQ 0/1:29,33:59:-112.57,-17.78,-93.60:99
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chr1 4886464 rs2898852 G A 427.35 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.13;MQ=59.69;MQ0=0;OQ=1311.14;QD=17.48;SB=-649.71 GT:AD:DP:GL:GQ 0/1:36,39:74:-156.69,-22.29,-124.22:99
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chr1 4887284 rs6666453 T G 591.26 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=819.61;QD=13.22;SB=-407.64 GT:AD:DP:GL:GQ 0/1:31,31:61:-103.62,-18.37,-115.39:99
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chr1 4887891 rs61271613 G A 361.07 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.32;MQ0=0;OQ=1029.14;QD=15.13;SB=-413.79 GT:AD:DP:GL:GQ 0/1:37,31:68:-126.69,-20.50,-120.37:99
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chr1 4887923 rs12567162 A C 597.28 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=1047.19;QD=16.36;SB=-475.28 GT:AD:DP:GL:GQ 0/1:27,37:63:-126.98,-18.97,-102.36:99
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chr1 4888122 rs11584727 G A 343.84 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=58.62;MQ0=0;OQ=960.03;QD=15.74;SB=-414.74 GT:AD:DP:GL:GQ 0/1:31,30:58:-116.76,-17.47,-107.44:99
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chr1 4888166 rs10799275 T C 449.24 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=759.70;QD=14.07;SB=-405.31 GT:AD:DP:GL:GQ 0/1:28,26:54:-95.52,-16.26,-116.08:99
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chr1 4888741 rs6667349 A G 162.92 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=1.54;MQ=60.00;MQ0=0;OQ=906.44;QD=15.63;SB=-403.28 GT:AD:DP:GL:GQ 0/1:26,32:57:-111.10,-17.17,-105.01:99
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chr1 4891078 rs10915677 A C 501.83 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=791.64;QD=10.84;SB=-393.76 GT:AD:DP:GL:GQ 0/1:42,31:72:-104.14,-21.69,-153.97:99
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chr1 4891278 rs10753396 A G 48.68 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=3.33;MQ=59.27;MQ0=0;OQ=705.13;QD=13.83;SB=-249.29 GT:AD:DP:GL:GQ 0/1:25,26:49:-88.56,-14.77,-92.96:99
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chr1 4892541 rs6675977 C T 304.31 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.24;MQ0=0;OQ=854.23;QD=15.53;SB=-341.48 GT:AD:DP:GL:GQ 0/1:29,26:53:-104.68,-15.97,-89.47:99
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chr1 4893597 rs9426511 G A 254.52 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.65;MQ=59.63;MQ0=0;OQ=950.24;QD=15.08;SB=-473.01 GT:AD:DP:GL:GQ 0/1:32,31:60:-116.38,-18.07,-112.58:99
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chr1 4894312 rs12409253 G A 317.80 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=59.37;MQ0=0;OQ=1178.40;QD=17.85;SB=-478.44 GT:AD:DP:GL:GQ 0/1:31,35:66:-141.01,-19.88,-111.62:99
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chr1 4894801 rs12044092 G A 352.37 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.41;MQ=58.46;MQ0=0;OQ=1019.91;QD=14.36;SB=-390.41 GT:AD:DP:GL:GQ 0/1:36,34:67:-125.46,-20.19,-124.85:99
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chr1 4894886 rs12049256 T C 300.25 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.80;MQ=59.40;MQ0=0;OQ=829.82;QD=11.85;SB=-433.52 GT:AD:DP:GL:GQ 0/1:40,30:69:-107.05,-20.79,-158.76:99
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chr1 4895006 rs11588368 G A 587.49 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=820.91;QD=16.10;SB=-424.82 GT:AD:DP:GL:GQ 0/1:26,25:51:-100.74,-15.37,-86.84:99
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chr1 4895035 rs11591047 T C 208.88 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=60.00;MQ0=0;OQ=456.13;QD=9.70;SB=-221.38 GT:AD:DP:GL:GQ 0/1:26,21:45:-62.46,-13.57,-101.40:99
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chr1 4895453 rs10915681 C A 168.48 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.78;MQ=58.81;MQ0=0;OQ=612.66;QD=11.14;SB=-214.30 GT:AD:DP:GL:GQ 0/1:31,24:51:-79.91,-15.36,-100.29:99
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chr1 4895802 rs10915682 G C 444.70 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.75;MQ0=0;OQ=770.78;QD=14.82;SB=-369.80 GT:AD:DP:GL:GQ 0/1:29,22:52:-98.80,-18.44,-131.37:99
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chr1 4896045 rs10915683 A G 284.67 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=59.68;MQ0=0;OQ=528.33;QD=8.95;SB=-128.57 GT:AD:DP:GL:GQ 0/1:38,21:56:-72.98,-16.87,-140.47:99
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chr1 4896086 rs4654470 A G 55.66 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=5.44;MQ=59.62;MQ0=0;OQ=494.74;QD=8.11;SB=-214.66 GT:AD:DP:GL:GQ 0/1:40,20:59:-73.24,-20.48,-157.99:99
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chr1 4896521 rs12037632 T C 412.13 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.62;MQ0=0;OQ=681.99;QD=11.18;SB=-282.28 GT:AD:DP:GL:GQ 0/1:32,29:59:-89.26,-17.78,-128.31:99
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chr1 4896528 . C T 86.04 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.85;MQ=59.65;MQ0=0;OQ=946.41;QD=14.34;SB=-376.12 GT:AD:DP:GL:GQ 0/1:36,30:66:-117.81,-19.89,-127.23:99
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chr1 4896632 rs12040043 G A 26.46 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=5.45;MQ=59.30;MQ0=0;OQ=1274.10;QD=19.30;SB=-654.71 GT:AD:DP:GL:GQ 0/1:28,38:65:-150.27,-19.58,-99.74:99
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chr1 4897223 rs9426467 A G 376.87 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=60.00;MQ0=0;OQ=1052.07;QD=15.47;SB=-512.94 GT:AD:DP:GL:GQ 0/1:31,37:66:-128.37,-19.88,-120.24:99
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chr1 4897430 . C G 135.89 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1675.35;QD=20.68;SB=-845.32 GT:AD:DP:GL:GQ 0/1:35,46:79:-194.65,-23.83,-135.28:99
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chr1 4898245 rs9426468 A G 643.42 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=1735.77;QD=32.14;SB=-669.84 GT:AD:DP:GL:GQ 1/1:0,54:54:-177.21,-16.28,-0.04:99
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chr1 4899159 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=3;HaplotypeScore=6.05;MQ=46.85;MQ0=0;OQ=120.33;QD=2.27;SB=65.24 GT:AD:DP:GL:GQ 0/1:32,21:41:-27.68,-12.36,-128.17:99
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chr1 4899332 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=18.81;MQ=41.26;MQ0=0;OQ=75.19;QD=0.84;SB=83.30 GT:AD:DP:GL:GQ 0/1:74,15:82:-35.50,-24.70,-289.36:99
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chr1 4899338 rs61764934 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=103;Dels=0.00;HRun=1;HaplotypeScore=53.72;MQ=39.00;MQ0=0;OQ=98.84;QD=0.96;SB=80.29 GT:AD:DP:GL:GQ 0/1:81,22:86:-39.08,-25.91,-300.72:99
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chr1 4899353 . A G 53.98 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=107;Dels=0.00;HRun=1;HaplotypeScore=114.06;MQ=38.02;MQ0=0;QD=0.50;SB=80.29 GT:AD:DP:GL:GQ 0/1:92,15:73:-30.68,-22.00,-253.39:86.82
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chr1 4899362 . C T 241.59 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=82.55;MQ=36.98;MQ0=0;QD=2.20;SB=83.28 GT:AD:DP:GL:GQ 0/1:96,14:84:-52.74,-25.30,-256.82:99
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chr1 4899363 . A G 254.83 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=107;Dels=0.00;HRun=0;HaplotypeScore=89.52;MQ=36.48;MQ0=0;QD=2.38;SB=77.27 GT:AD:DP:GL:GQ 0/1:93,14:79:-52.57,-23.80,-259.03:99
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chr1 4899383 . A G 183.41 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=106;Dels=0.00;HRun=0;HaplotypeScore=35.87;MQ=33.65;MQ0=0;QD=1.73;SB=12.92 GT:AD:DP:GL:GQ 0/1:63,43:62:-40.31,-18.69,-193.47:99
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chr1 4899387 . G A 263.62 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=99;Dels=0.00;HRun=1;HaplotypeScore=43.90;MQ=33.13;MQ0=0;QD=2.66;SB=77.22 GT:AD:DP:GL:GQ 0/1:87,12:64:-48.92,-19.28,-184.60:99
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chr1 4899389 . C T 535.44 SnpCluster AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=0;HaplotypeScore=29.97;MQ=33.38;MQ0=0;QD=5.76;SB=-42.73 GT:AD:DP:GL:GQ 0/1:50,43:64:-76.11,-19.28,-160.16:99
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chr1 4899390 . A G 274.25 SnpCluster AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=29.97;MQ=32.97;MQ0=0;QD=2.98;SB=-22.76 GT:AD:DP:GL:GQ 0/1:49,43:57:-47.88,-17.17,-174.44:99
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chr1 4899396 . A G 365.84 SnpCluster AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=37.97;MQ=32.55;MQ0=0;QD=4.02;SB=-65.46 GT:AD:DP:GL:GQ 0/1:57,34:58:-57.34,-17.48,-166.05:99
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chr1 4899406 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=33.13;MQ=34.08;MQ0=0;OQ=385.33;QD=4.76;SB=65.23 GT:AD:DP:GL:GQ 0/1:64,17:63:-60.79,-18.98,-180.67:99
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chr1 4899410 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=33.12;MQ=33.37;MQ0=0;OQ=280.21;QD=3.64;SB=-127.85 GT:AD:DP:GL:GQ 0/1:61,16:68:-51.79,-20.49,-213.95:99
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chr1 4899418 rs61764937 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=24.96;MQ=35.60;MQ0=0;OQ=416.78;QD=5.56;SB=-32.80 GT:AD:DP:GL:GQ 0/1:58,17:68:-65.44,-20.48,-183.51:99
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chr1 4899454 . A G 399.94 SnpCluster AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=32.10;MQ=40.74;MQ0=0;QD=4.49;SB=-98.78 GT:AD:DP:GL:GQ 0/1:68,21:81:-67.68,-24.40,-246.97:99
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chr1 4899458 . A G 39.06 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=68.26;MQ=40.42;MQ0=0;QD=0.40;SB=83.30 GT:AD:DP:GL:GQ 0/1:88,9:79:-30.98,-23.79,-291.61:71.90
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chr1 4899460 . A G 118.03 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=0;HaplotypeScore=72.96;MQ=40.46;MQ0=0;QD=1.18;SB=77.27 GT:AD:DP:GL:GQ 0/1:89,11:76:-37.98,-22.90,-265.09:99
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chr1 4899462 . C T 72.49 SnpCluster AC=1;AF=0.50;AN=2;DP=103;Dels=0.00;HRun=1;HaplotypeScore=75.80;MQ=40.64;MQ0=0;QD=0.70;SB=-1.28 GT:AD:DP:GL:GQ 0/1:95,8:73:-32.52,-21.98,-238.14:99
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chr1 4899467 . A G 135.65 SnpCluster AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=98.40;MQ=41.18;MQ0=0;QD=1.23;SB=-29.35 GT:AD:DP:GL:GQ 0/1:96,14:86:-42.76,-25.91,-295.60:99
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chr1 4899468 rs12745382 A T 958.03 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=110;Dels=0.00;HRun=0;HaplotypeScore=107.35;MQ=41.23;MQ0=0;QD=8.71;SB=-316.45 GT:AD:DP:GL:GQ 0/1:64,46:95:-127.70,-28.61,-236.36:99
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chr1 4899487 rs12745394 A G 720.77 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=218;Dels=0.00;HRun=0;HaplotypeScore=160.10;MQ=38.29;MQ0=1;QD=3.31;SB=-244.39 GT:AD:DP:GL:GQ 0/1:161,57:163:-124.48,-49.12,-501.88:99
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chr1 4899493 . T C 260.40 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=248;Dels=0.00;HRun=0;HaplotypeScore=303.17;MQ=38.85;MQ0=1;QD=1.05;SB=56.79 GT:AD:DP:GL:GQ 0/1:215,32:203:-90.48,-61.15,-713.61:99
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chr1 4899494 . G A 174.70 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=252;Dels=0.00;HRun=0;HaplotypeScore=310.33;MQ=39.06;MQ0=1;QD=0.69;SB=21.87 GT:AD:DP:GL:GQ 0/1:226,26:203:-81.91,-61.15,-646.58:99
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chr1 4899498 . A G 872.52 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=252;Dels=0.00;HRun=0;HaplotypeScore=250.40;MQ=38.78;MQ0=1;QD=3.46;SB=78.26 GT:AD:DP:GL:GQ 0/1:199,53:211:-154.09,-63.56,-686.66:99
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chr1 4899500 rs12724550 G A 2189.95 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=250;Dels=0.00;HRun=0;HaplotypeScore=245.89;MQ=38.85;MQ0=1;QD=8.76;SB=-1087.26 GT:AD:DP:GL:GQ 0/1:149,76:205:-341.91,-119.63,-478.96:99
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chr1 4899501 . T G 179.31 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=252;Dels=0.00;HRun=1;HaplotypeScore=255.20;MQ=39.12;MQ0=1;QD=0.71;SB=215.88 GT:AD:DP:GL:GQ 0/1:226,25:204:-82.66,-61.45,-660.80:99
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chr1 4899507 . A G 466.12 DPFilter;Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=254;Dels=0.00;HRun=0;HaplotypeScore=236.48;MQ=39.39;MQ0=1;QD=1.84;SB=155.66 GT:AD:DP:GL:GQ 0/1:206,47:211:-113.47,-63.57,-712.04:99
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chr1 4899538 . A G 1219.52 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=258;Dels=0.00;HRun=0;HaplotypeScore=176.47;MQ=39.21;MQ0=0;QD=4.73;SB=-218.54 GT:AD:DP:GL:GQ 0/1:190,68:212:-189.10,-63.86,-642.45:99
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chr1 4899540 . A G 894.27 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=255;Dels=0.00;HRun=0;HaplotypeScore=176.74;MQ=39.03;MQ0=0;QD=3.51;SB=-184.63 GT:AD:DP:GL:GQ 0/1:181,72:195:-154.12,-61.41,-609.10:99
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chr1 4899547 rs61764939 G A 1318.72 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=260;Dels=0.00;HRun=0;HaplotypeScore=220.06;MQ=39.48;MQ0=0;QD=5.07;SB=-35.22 GT:AD:DP:GL:GQ 0/1:180,80:174:-187.61,-52.45,-416.57:99
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chr1 4899554 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=252;Dels=0.00;HRun=0;HaplotypeScore=215.32;MQ=39.44;MQ0=0;OQ=71.48;QD=0.28;SB=245.79 GT:AD:DP:GL:GQ 0/1:233,19:178:-64.05,-53.62,-575.35:99
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chr1 4899560 . A G 527.43 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=244;Dels=0.00;HRun=0;HaplotypeScore=182.32;MQ=39.84;MQ0=0;QD=2.16;SB=62.05 GT:AD:DP:GL:GQ 0/1:191,43:207:-132.12,-76.10,-688.26:99
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chr1 4899566 . C T 228.85 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=230;Dels=0.00;HRun=0;HaplotypeScore=151.86;MQ=39.79;MQ0=0;QD=0.99;SB=29.83 GT:AD:DP:GL:GQ 0/1:207,23:173:-78.29,-52.12,-551.64:99
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chr1 4899567 . A G 591.79 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=224;Dels=0.00;HRun=0;HaplotypeScore=146.70;MQ=39.85;MQ0=0;QD=2.64;SB=-287.04 GT:AD:DP:GL:GQ 0/1:172,52:165:-112.16,-49.70,-538.18:99
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chr1 4899578 . G A 586.91 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=167;Dels=0.00;HRun=1;HaplotypeScore=122.95;MQ=41.57;MQ0=0;QD=3.51;SB=-235.54 GT:AD:DP:GL:GQ 0/1:137,30:123:-99.03,-37.05,-345.51:99
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chr1 4899580 . G A 442.86 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=161;Dels=0.00;HRun=0;HaplotypeScore=120.46;MQ=41.82;MQ0=0;QD=2.75;SB=-225.49 GT:AD:DP:GL:GQ 0/1:135,26:120:-83.72,-36.15,-349.19:99
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chr1 4899586 . T C 690.02 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=149;Dels=0.00;HRun=1;HaplotypeScore=129.55;MQ=42.82;MQ0=0;QD=4.63;SB=-75.61 GT:AD:DP:GL:GQ 0/1:103,46:129:-111.14,-38.86,-403.04:99
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chr1 4899587 . G A 484.27 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=146;Dels=0.00;HRun=0;HaplotypeScore=116.82;MQ=42.67;MQ0=0;QD=3.32;SB=137.44 GT:AD:DP:GL:GQ 0/1:119,26:124:-89.06,-37.35,-358.44:99
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chr1 4899593 . C T 11.57 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=0;HaplotypeScore=60.92;MQ=43.18;MQ0=0;QD=0.10;SB=158.52 GT:AD:DP:GL:GQ 0/1:100,17:99:-34.23,-29.82,-323.42:44.09
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chr1 4899594 . A G 11.09 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=0;HaplotypeScore=60.92;MQ=43.00;MQ0=0;QD=0.10;SB=173.58 GT:AD:DP:GL:GQ 0/1:99,17:103:-35.39,-31.03,-369.44:43.58
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chr1 4899610 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=9.15;MQ=43.55;MQ0=0;OQ=197.17;QD=2.22;SB=-29.37 GT:AD:DP:GL:GQ 0/1:75,14:86:-48.93,-25.93,-238.79:99
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chr1 4899946 rs4654471 T C 43.86 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=5.91;MQ=59.14;MQ0=0;OQ=975.13;QD=18.06;SB=-440.01 GT:AD:DP:GL:GQ 0/1:20,34:52:-116.46,-15.67,-76.61:99
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chr1 4902227 rs7555212 C T 596.69 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=2926.83;QD=40.65;SB=-1218.62 GT:AD:DP:GL:GQ 1/1:0,72:72:-296.28,-21.69,-0.02:99
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chr1 4902317 rs6426367 G T 224.74 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=2;HaplotypeScore=-0.06;MQ=59.74;MQ0=0;OQ=3145.50;QD=36.16;SB=-1581.61 GT:AD:DP:GL:GQ 1/1:0,87:85:-318.15,-25.60,-0.02:99
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chr1 4902486 rs6426368 C T 717.48 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.86;MQ0=0;OQ=2201.20;QD=38.62;SB=-1092.00 GT:AD:DP:GL:GQ 1/1:0,57:56:-223.72,-16.87,-0.02:99
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chr1 4902573 rs6669905 T C 700.95 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.30;MQ0=0;OQ=2165.11;QD=36.09;SB=-859.36 GT:AD:DP:GL:GQ 1/1:0,60:59:-220.11,-17.77,-0.01:99
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chr1 4903007 rs6678838 G T 279.14 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=56.35;MQ0=0;OQ=1768.51;QD=34.01;SB=-813.84 GT:AD:DP:GL:GQ 1/1:0,52:50:-180.45,-15.06,-0.02:99
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chr1 4903027 rs12142452 G T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.05;HRun=16;HaplotypeScore=13.19;MQ=49.10;MQ0=0;OQ=2384.03;QD=31.37;SB=-1040.48 GT:AD:DP:GL:GQ 1/1:0,72:70:-242.01,-20.48,-0.02:99
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chr1 4903364 rs9286971 G A 258.61 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=52.70;MQ0=0;OQ=2159.66;QD=37.89;SB=-926.32 GT:AD:DP:GL:GQ 1/1:0,57:54:-219.56,-16.27,-0.01:99
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chr1 4904108 rs10799141 A G 488.42 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.61;MQ0=0;OQ=2393.63;QD=33.71;SB=-1173.70 GT:AD:DP:GL:GQ 1/1:0,71:69:-242.98,-20.79,-0.03:99
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chr1 4904115 rs10753341 C T 707.52 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.70;MQ0=0;OQ=2995.63;QD=39.42;SB=-1442.45 GT:AD:DP:GL:GQ 1/1:0,76:76:-303.17,-22.90,-0.02:99
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chr1 4904188 rs10753342 G A 611.86 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3529.10;QD=39.65;SB=-1221.14 GT:AD:DP:GL:GQ 1/1:0,89:89:-351.91,-26.82,-0.03:99
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chr1 4905340 rs7531490 A G 249.81 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.93;MQ0=0;OQ=2004.17;QD=30.83;SB=-867.03 GT:AD:DP:GL:GQ 1/1:0,65:64:-204.06,-19.31,-0.06:99
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chr1 4905635 rs7534281 T C 82.15 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=2.19;MQ=59.65;MQ0=0;OQ=2315.03;QD=35.08;SB=-1175.74 GT:AD:DP:GL:GQ 1/1:0,66:65:-235.11,-19.58,-0.02:99
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chr1 4905656 rs7542048 G A 139.59 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.78;MQ=59.63;MQ0=0;OQ=2472.89;QD=39.25;SB=-1234.03 GT:AD:DP:GL:GQ 1/1:0,62:62:-250.89,-18.68,-0.02:99
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chr1 4906196 rs6426371 T C 169.21 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=58.85;MQ0=0;OQ=1914.58;QD=30.88;SB=-835.64 GT:AD:DP:GL:GQ 1/1:0,62:59:-195.09,-17.79,-0.04:99
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chr1 4906502 rs6426372 G C 538.03 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.04;MQ0=0;OQ=3170.49;QD=42.84;SB=-1473.31 GT:AD:DP:GL:GQ 1/1:0,73:73:-320.65,-21.99,-0.02:99
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chr1 4907095 rs10915296 T C 149.48 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=1;HaplotypeScore=1.07;MQ=58.97;MQ0=0;OQ=3030.02;QD=34.83;SB=-1495.63 GT:AD:DP:GL:GQ 1/1:0,87:84:-306.61,-25.30,-0.03:99
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chr1 4907407 rs6702058 C T 201.43 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.82;MQ=59.72;MQ0=0;OQ=3144.08;QD=38.34;SB=-1502.68 GT:AD:DP:GL:GQ 1/1:0,81:79:-318.01,-23.80,-0.02:99
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chr1 4907813 rs6677619 G T 634.30 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2646.47;QD=36.25;SB=-1071.58 GT:AD:DP:GL:GQ 1/1:0,73:72:-268.25,-21.68,-0.02:99
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chr1 4909109 rs7413385 A G 73.69 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=58.33;MQ0=0;OQ=950.25;QD=33.94;SB=-350.81 GT:AD:DP:GL:GQ 1/1:0,28:27:-98.62,-8.13,-0.01:81.24
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chr1 4909713 rs7413847 A G 78.92 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.66;MQ=58.99;MQ0=0;OQ=2491.44;QD=34.13;SB=-1130.80 GT:AD:DP:GL:GQ 1/1:0,72:69:-252.75,-20.78,-0.02:99
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chr1 4909933 rs7411727 C T 614.98 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=2836.35;QD=38.85;SB=-1407.70 GT:AD:DP:GL:GQ 1/1:0,73:71:-287.24,-21.39,-0.02:99
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chr1 4910002 rs10915297 T C 288.13 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.37;MQ0=0;OQ=2563.56;QD=35.12;SB=-1064.10 GT:AD:DP:GL:GQ 1/1:0,73:72:-259.97,-21.69,-0.02:99
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chr1 4910067 rs10799142 G A 129.23 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=58.55;MQ0=0;OQ=2372.23;QD=38.89;SB=-1035.39 GT:AD:DP:GL:GQ 1/1:0,61:60:-240.82,-18.08,-0.02:99
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chr1 4910738 rs6426373 T C 29.48 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=4;HaplotypeScore=1.33;MQ=59.62;MQ0=0;OQ=2095.65;QD=34.35;SB=-1007.72 GT:AD:DP:GL:GQ 1/1:0,61:59:-213.17,-17.77,-0.02:99
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chr1 4910848 rs6664358 C T 341.96 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.71;MQ0=0;OQ=2577.25;QD=39.65;SB=-933.73 GT:AD:DP:GL:GQ 1/1:0,65:64:-261.33,-19.28,-0.02:99
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chr1 4911242 rs9426489 G T 99.79 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=59.58;MQ0=0;OQ=1563.55;QD=28.43;SB=-641.98 GT:AD:DP:GL:GQ 1/1:2,53:45:-159.96,-13.56,-0.02:99
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chr1 4911262 rs9426490 A G 133.69 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=1.03;MQ=60.00;MQ0=0;OQ=2076.79;QD=34.05;SB=-972.82 GT:AD:DP:GL:GQ 1/1:0,61:59:-211.29,-17.77,-0.02:99
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chr1 4911898 rs7522655 C T 592.58 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2724.61;QD=40.67;SB=-1189.07 GT:AD:DP:GL:GQ 1/1:0,67:67:-276.06,-20.18,-0.01:99
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chr1 4911961 rs7544541 G A 150.94 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=1.61;MQ=59.39;MQ0=0;OQ=2947.98;QD=38.79;SB=-1404.70 GT:AD:DP:GL:GQ 1/1:1,75:74:-298.40,-22.29,-0.02:99
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chr1 4911968 rs7544542 G A 170.72 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=59.72;MQ0=0;OQ=3112.64;QD=37.96;SB=-1553.08 GT:AD:DP:GL:GQ 1/1:0,82:78:-314.87,-23.50,-0.02:99
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chr1 4912150 rs9426469 G A 193 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.69;MQ0=0;OQ=2864.62;QD=38.19;SB=-1302.32 GT:AD:DP:GL:GQ 1/1:0,75:72:-290.07,-21.69,-0.02:99
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chr1 4913505 rs9426491 A G 394.38 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.04;MQ0=0;OQ=3121.73;QD=35.88;SB=-1295.55 GT:AD:DP:GL:GQ 1/1:0,87:85:-315.78,-25.60,-0.02:99
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chr1 4914443 rs6692780 T C 192.39 PASS AC=2;AF=1.00;AN=2;DB;DP=103;Dels=0.00;HRun=0;HaplotypeScore=2.33;MQ=59.62;MQ0=0;OQ=3691.18;QD=35.84;SB=-1586.36 GT:AD:DP:GL:GQ 1/1:1,102:102:-368.12,-30.72,-0.04:99
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chr1 4914588 rs6701289 G A 24.03 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=4;HaplotypeScore=1.20;MQ=58.58;MQ0=0;OQ=3206.41;QD=40.08;SB=-1396.85 GT:AD:DP:GL:GQ 1/1:0,80:78:-324.24,-23.49,-0.01:99
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chr1 4915327 rs6693486 A T 79.70 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=3;HaplotypeScore=0.67;MQ=59.04;MQ0=0;OQ=2495.92;QD=36.70;SB=-983.49 GT:AD:DP:GL:GQ 1/1:0,68:67:-253.20,-20.19,-0.02:99
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chr1 4915704 rs6656223 G A 492.16 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1843.82;QD=39.23;SB=-720.96 GT:AD:DP:GL:GQ 1/1:0,47:46:-187.98,-13.86,-0.01:99
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chr1 4917206 rs12098076 G A 321.24 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=59.37;MQ0=0;OQ=1024.17;QD=17.36;SB=-411.74 GT:AD:DP:GL:GQ 0/1:27,32:58:-123.18,-17.47,-93.16:99
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chr1 4918178 rs9426470 C A 210.31 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=2272.14;QD=33.41;SB=-999.37 GT:AD:DP:GL:GQ 1/1:0,68:66:-230.83,-19.89,-0.03:99
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chr1 4918637 rs6696925 G C 480.06 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=1020.90;QD=16.74;SB=-452.39 GT:AD:DP:GL:GQ 0/1:33,28:59:-123.15,-17.78,-134.82:99
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chr1 4920934 rs7546019 A G 7.79 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=3.94;MQ=55.17;MQ0=0;OQ=1312.69;QD=25.74;SB=-576.91 GT:AD:DP:GL:GQ 1/1:0,51:42:-134.90,-12.67,-0.04:99
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chr1 4920939 rs10799143 A G 1.06 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=9.55;MQ=55.37;MQ0=0;OQ=685.84;QD=14.29;SB=-109.82 GT:AD:DP:GL:GQ 1/1:0,38:24:-75.74,-10.17,-3.57:66.02
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chr1 4920972 rs10753343 C T 150.22 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=58.67;MQ0=0;OQ=1219.60;QD=34.85;SB=-488.14 GT:AD:DP:GL:GQ 1/1:0,34:33:-125.56,-9.95,-0.02:99
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chr1 4921030 rs10799144 A G 161.31 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=1.20;MQ=58.57;MQ0=0;OQ=1984.77;QD=33.64;SB=-769.10 GT:AD:DP:GL:GQ 1/1:0,59:57:-202.08,-17.17,-0.02:99
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chr1 4921060 rs10799145 T G 245.52 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=58.90;MQ0=0;OQ=1759.60;QD=29.82;SB=-867.69 GT:AD:DP:GL:GQ 1/1:0,59:58:-179.61,-17.49,-0.06:99
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chr1 4921319 . C T 71.66 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=56.87;MQ0=0;OQ=1537.50;QD=20.78;SB=-754.34 GT:AD:DP:GL:GQ 0/1:29,45:71:-178.43,-21.40,-86.91:99
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chr1 4921542 . G A 297.10 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=827.15;QD=15.32;SB=-385.90 GT:AD:DP:GL:GQ 0/1:29,25:54:-102.27,-16.28,-92.99:99
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chr1 4921651 . A G 14.60 PASS AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=3;HaplotypeScore=0.89;MQ=59.42;MQ0=0;OQ=1167.54;QD=16.22;SB=-587.69 GT:AD:DP:GL:GQ 0/1:31,41:71:-141.43,-21.39,-125.09:99
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chr1 4921748 . T C 1.07 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=7.77;MQ=59.39;MQ0=0;OQ=610.60;QD=12.72;SB=-231.30 GT:AD:DP:GL:GQ 0/1:26,22:47:-78.51,-14.17,-96.88:99
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chr1 4921801 . A G 290.73 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=740.93;QD=13.98;SB=-339.17 GT:AD:DP:GL:GQ 0/1:24,29:53:-93.36,-15.98,-94.97:99
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chr1 4921915 rs12118118 A G 141.47 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.35;MQ=59.65;MQ0=0;OQ=641.25;QD=9.87;SB=-176.55 GT:AD:DP:GL:GQ 0/1:39,26:63:-86.39,-18.98,-152.81:99
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chr1 4922627 rs12119864 T C 423.73 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=1.43;MQ=58.63;MQ0=0;OQ=1289.06;QD=15.17;SB=-556.56 GT:AD:DP:GL:GQ 0/1:33,52:81:-156.60,-24.41,-132.69:99
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chr1 4923016 rs6426374 A G 591.79 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.54;MQ0=0;OQ=2408.23;QD=29.37;SB=-1057.43 GT:AD:DP:GL:GQ 1/1:0,82:76:-244.48,-22.92,-0.07:99
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chr1 4923151 . C T 132.84 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.33;MQ0=0;OQ=908.76;QD=16.23;SB=-453.45 GT:AD:DP:GL:GQ 0/1:28,28:56:-111.04,-16.88,-89.80:99
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chr1 4923249 . A G 76.65 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=58.95;MQ0=0;OQ=491.85;QD=11.18;SB=-227.32 GT:AD:DP:GL:GQ 0/1:25,19:38:-63.92,-11.45,-77.07:99
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chr1 4923272 . A G 41.93 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.77;MQ=59.16;MQ0=0;OQ=549.57;QD=9.99;SB=-300.17 GT:AD:DP:GL:GQ 0/1:32,23:55:-74.82,-16.58,-127.48:99
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chr1 4923290 rs6702660 A G 624.31 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1543.54;QD=30.27;SB=-737.76 GT:AD:DP:GL:GQ 1/1:0,51:50:-157.99,-15.08,-0.05:99
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chr1 4923916 . G A 53.20 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=57.14;MQ0=0;OQ=1330.08;QD=17.97;SB=-412.89 GT:AD:DP:GL:GQ 0/1:35,39:72:-157.99,-21.70,-107.79:99
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chr1 4923977 . T C 92.93 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.60;MQ=56.31;MQ0=0;OQ=878.08;QD=13.94;SB=-397.92 GT:AD:DP:GL:GQ 0/1:29,34:62:-109.78,-18.69,-109.67:99
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chr1 4924245 rs7523398 G T 624.90 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.01;HRun=0;HaplotypeScore=0.00;MQ=52.50;MQ0=0;OQ=2976.14;QD=35.01;SB=-1222.44 GT:AD:DP:GL:GQ 1/1:0,84:82:-301.22,-24.40,-0.02:99
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chr1 4924289 . C T 145.80 Indel AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=20.35;MQ=47.42;MQ0=2;QD=1.80;SB=-17.33 GT:AD:DP:GL:GQ 0/1:69,12:76:-40.75,-22.89,-240.21:99
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chr1 4924318 . A G 303.69 PASS AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.53;MQ0=0;OQ=1150.10;QD=15.13;SB=-395.92 GT:AD:DP:GL:GQ 0/1:29,47:72:-140.00,-21.70,-115.03:99
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chr1 4924353 . A G 6.39 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=1;HaplotypeScore=4.52;MQ=59.31;MQ0=0;OQ=1199.85;QD=16.00;SB=-524.06 GT:AD:DP:GL:GQ 0/1:32,42:73:-145.26,-21.99,-127.06:99
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chr1 4924370 . T G 76.39 PASS AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=60.52;MQ0=0;OQ=1415.60;QD=18.15;SB=-500.81 GT:AD:DP:GL:GQ 0/1:31,47:78:-168.34,-23.49,-113.39:99
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chr1 4924651 rs140619 A C 98.30 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=1.45;MQ=58.44;MQ0=0;OQ=1008.29;QD=14.00;SB=-504.32 GT:AD:DP:GL:GQ 0/1:36,36:69:-124.90,-20.78,-122.36:99
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chr1 4924659 rs140620 C G 66.97 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=2;HaplotypeScore=3.55;MQ=58.47;MQ0=0;OQ=1278.05;QD=17.51;SB=-626.38 GT:AD:DP:GL:GQ 0/1:37,36:72:-152.80,-21.71,-149.62:99
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chr1 4924842 rs3101217 G A 427.04 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.23;MQ=60.00;MQ0=0;OQ=946.64;QD=12.46;SB=-438.36 GT:AD:DP:GL:GQ 0/1:44,31:68:-118.44,-20.49,-128.20:99
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chr1 4924889 rs3101218 G C 576.23 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1334.27;QD=16.68;SB=-624.99 GT:AD:DP:GL:GQ 0/1:41,39:77:-159.91,-23.20,-177.20:99
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chr1 4924920 rs3101219 T C 593.97 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=1041.98;QD=16.28;SB=-455.18 GT:AD:DP:GL:GQ 0/1:28,36:64:-126.76,-19.28,-110.51:99
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chr1 4924999 rs3101220 G C 298.13 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=59.20;MQ0=0;OQ=811.79;QD=14.00;SB=-233.01 GT:AD:DP:GL:GQ 0/1:32,26:57:-101.64,-17.18,-138.57:99
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chr1 4925039 rs3128678 A G 0.26 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=4;HaplotypeScore=3.38;MQ=59.22;MQ0=0;OQ=1744.26;QD=32.30;SB=-816.04 GT:AD:DP:GL:GQ 1/1:0,54:50:-178.03,-15.06,-0.02:99
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chr1 4925077 rs3101221 C A 25.14 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=6.44;MQ=58.58;MQ0=0;OQ=647.61;QD=11.56;SB=-325.00 GT:AD:DP:GL:GQ 0/1:30,26:49:-82.82,-14.77,-78.79:99
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chr1 4925169 rs3128679 A G 107.98 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=60.00;MQ0=0;OQ=535.15;QD=8.92;SB=-144.42 GT:AD:DP:GL:GQ 0/1:36,24:59:-74.58,-17.78,-140.21:99
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chr1 4925429 rs3128680 G A 469.33 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=766.43;QD=14.46;SB=-348.86 GT:AD:DP:GL:GQ 0/1:29,24:53:-95.89,-15.97,-104.44:99
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chr1 4925430 rs3101222 C G 427.23 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=771.83;QD=15.13;SB=-299.97 GT:AD:DP:GL:GQ 0/1:28,23:50:-95.55,-15.08,-110.57:99
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chr1 4925635 rs3101223 A G 252.82 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=59.74;MQ0=0;OQ=1091.51;QD=12.26;SB=-378.11 GT:AD:DP:GL:GQ 0/1:48,41:87:-138.64,-26.21,-194.64:99
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chr1 4926101 rs3128681 G A 350.75 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.95;MQ=59.68;MQ0=0;OQ=1174.87;QD=16.55;SB=-610.10 GT:AD:DP:GL:GQ 0/1:35,35:70:-141.86,-21.09,-114.49:99
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chr1 4926299 rs1017724 C T 190.62 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1174.58;QD=15.06;SB=-383.10 GT:AD:DP:GL:GQ 0/1:41,37:77:-143.94,-23.19,-149.98:99
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chr1 4926372 rs1017726 A G 298.07 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=60.00;MQ0=0;OQ=887.74;QD=17.07;SB=-423.28 GT:AD:DP:GL:GQ 0/1:22,30:52:-107.72,-15.67,-84.02:99
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chr1 4926476 rs3128682 A G 470.65 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=981.70;QD=13.27;SB=-502.91 GT:AD:DP:GL:GQ 0/1:33,41:71:-122.87,-21.41,-123.57:99
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chr1 4926532 rs3128683 G T 372.36 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.69;MQ0=0;OQ=1069.82;QD=14.26;SB=-471.94 GT:AD:DP:GL:GQ 0/1:37,38:72:-131.95,-21.69,-128.03:99
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chr1 4926586 rs34841047 T C 307.90 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.74;MQ0=0;OQ=1407.30;QD=15.64;SB=-662.64 GT:AD:DP:GL:GQ 0/1:42,48:89:-170.82,-26.81,-167.25:99
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chr1 4926613 rs7547938 A C 101.18 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=59.79;MQ0=0;OQ=2670.20;QD=30.00;SB=-1246.34 GT:AD:DP:GL:GQ 1/1:1,88:87:-270.68,-26.22,-0.07:99
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chr1 4926617 . G A 38.65 PASS AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=1;HaplotypeScore=1.60;MQ=59.78;MQ0=0;OQ=1691.34;QD=19.90;SB=-782.69 GT:AD:DP:GL:GQ 0/1:36,49:84:-197.72,-25.30,-133.23:99
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chr1 4926705 rs10799146 C G 149.65 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.64;MQ0=0;OQ=2201.93;QD=42.34;SB=-980.37 GT:AD:DP:GL:GQ 1/1:0,52:52:-223.80,-15.67,-0.02:99
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chr1 4926719 . T C 99.55 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=59.60;MQ0=0;OQ=721.00;QD=12.65;SB=-331.93 GT:AD:DP:GL:GQ 0/1:26,31:55:-91.96,-16.58,-103.71:99
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chr1 4926770 . T G 92.62 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.63;MQ=58.93;MQ0=0;OQ=842.91;QD=13.82;SB=-346.83 GT:AD:DP:GL:GQ 0/1:28,33:58:-105.05,-17.47,-101.93:99
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chr1 4926781 rs10915300 G A 186.83 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=58.91;MQ0=0;OQ=2257.64;QD=37.63;SB=-1055.32 GT:AD:DP:GL:GQ 1/1:0,60:57:-229.37,-17.17,-0.02:99
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chr1 4927339 rs6426375 C A 293.44 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=1.65;MQ=59.63;MQ0=0;OQ=1104.83;QD=17.54;SB=-437.22 GT:AD:DP:GL:GQ 0/1:25,38:59:-131.54,-17.77,-79.77:99
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chr1 4927361 rs12122012 G C 449.67 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=855.62;QD=14.50;SB=-302.94 GT:AD:DP:GL:GQ 0/1:34,25:57:-106.02,-17.18,-140.73:99
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chr1 4927449 rs12129823 C A 265.42 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.57;MQ=58.95;MQ0=0;OQ=867.88;QD=14.00;SB=-380.76 GT:AD:DP:GL:GQ 0/1:32,30:60:-108.15,-18.08,-97.33:99
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chr1 4927847 rs12122183 G A 490.19 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=1239.90;QD=16.31;SB=-577.98 GT:AD:DP:GL:GQ 0/1:38,38:75:-149.87,-22.60,-137.70:99
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chr1 4928324 rs10799147 T G 316.36 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.64;MQ0=0;OQ=672.70;QD=12.94;SB=-277.80 GT:AD:DP:GL:GQ 0/1:27,25:51:-85.91,-15.36,-101.41:99
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chr1 4928782 . A T 20.70 PASS AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.98;MQ0=0;OQ=748.61;QD=18.26;SB=-256.98 GT:AD:DP:GL:GQ 0/1:17,24:41:-90.49,-12.35,-66.37:99
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chr1 4930115 rs10799148 T G 517.72 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=2291.16;QD=34.71;SB=-1027.09 GT:AD:DP:GL:GQ 1/1:0,66:65:-232.72,-19.58,-0.02:99
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chr1 4930427 rs34645017 G C 291.45 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=722.42;QD=16.05;SB=-202.61 GT:AD:DP:GL:GQ 0/1:25,20:45:-89.08,-13.56,-109.77:99
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chr1 4930735 rs11578909 A G 280.08 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=59.36;MQ0=0;OQ=698.77;QD=12.05;SB=-374.99 GT:AD:DP:GL:GQ 0/1:29,28:57:-90.34,-17.18,-117.72:99
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chr1 4931239 rs10799149 G A 641.63 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.08;MQ0=0;OQ=2438.74;QD=39.98;SB=-916.20 GT:AD:DP:GL:GQ 1/1:0,61:60:-247.47,-18.07,-0.01:99
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chr1 4931421 rs7518523 A G 261.63 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.88;MQ0=0;OQ=2083.34;QD=31.09;SB=-1042.40 GT:AD:DP:GL:GQ 1/1:0,67:65:-211.96,-19.60,-0.05:99
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chr1 4931997 rs10753344 T C 618.70 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2888.62;QD=33.98;SB=-1001.71 GT:AD:DP:GL:GQ 1/1:0,85:82:-292.48,-24.71,-0.04:99
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chr1 4932316 rs12127329 G A 183.50 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=60.00;MQ0=0;OQ=2411.54;QD=39.53;SB=-1136.02 GT:AD:DP:GL:GQ 1/1:0,61:61:-244.76,-18.38,-0.02:99
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chr1 4932881 rs11585724 C T 291.52 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.68;MQ=59.24;MQ0=0;OQ=985.86;QD=16.16;SB=-484.11 GT:AD:DP:GL:GQ 0/1:30,31:59:-119.65,-17.78,-92.67:99
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chr1 4932899 rs56016205 G C 205.73 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=58.78;MQ0=0;OQ=942.89;QD=16.54;SB=-283.52 GT:AD:DP:GL:GQ 0/1:30,27:56:-114.45,-16.88,-128.26:99
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chr1 4933102 rs56190527 G A 17.84 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=7.39;MQ=59.07;MQ0=0;OQ=754.79;QD=15.10;SB=-398.92 GT:AD:DP:GL:GQ 0/1:26,24:48:-93.22,-14.46,-90.86:99
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chr1 4933190 rs56216708 T C 104.26 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=59.13;MQ0=0;OQ=1884.00;QD=35.55;SB=-879.00 GT:AD:DP:GL:GQ 1/1:0,53:53:-192.00,-15.97,-0.02:99
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chr1 4933296 . G A 768.22 SnpCluster AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.45;MQ0=0;QD=12.59;SB=-376.12 GT:AD:DP:GL:GQ 0/1:35,26:58:-97.59,-17.48,-110.76:99
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chr1 4933297 . C T 815.45 SnpCluster AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.45;MQ0=0;QD=13.37;SB=-431.91 GT:AD:DP:GL:GQ 0/1:35,26:61:-103.20,-18.37,-126.35:99
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chr1 4933303 . G A 803.12 SnpCluster AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.37;MQ0=0;QD=13.39;SB=-365.85 GT:AD:DP:GL:GQ 0/1:35,25:58:-101.08,-17.48,-105.94:99
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chr1 4933521 rs7535462 G A 371.82 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=1957.02;QD=39.14;SB=-986.02 GT:AD:DP:GL:GQ 1/1:0,50:49:-199.30,-14.76,-0.01:99
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chr1 4933673 . C G 6.69 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=58.23;MQ0=0;OQ=1494.10;QD=22.64;SB=-505.26 GT:AD:DP:GL:GQ 0/1:26,40:63:-171.68,-18.99,-100.63:99
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chr1 4934014 rs12128545 G A 43.64 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=0.74;MQ=59.66;MQ0=0;OQ=1421.27;QD=20.90;SB=-664.71 GT:AD:DP:GL:GQ 0/1:27,41:67:-165.59,-20.18,-95.71:99
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chr1 4934078 rs12136209 C G 149.50 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.61;MQ=60.00;MQ0=0;OQ=1636.42;QD=21.82;SB=-832.32 GT:AD:DP:GL:GQ 0/1:31,44:75:-189.53,-22.60,-132.33:99
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chr1 4934416 rs12126894 T G 441.68 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.57;MQ0=0;OQ=586.00;QD=11.49;SB=-304.83 GT:AD:DP:GL:GQ 0/1:29,22:51:-77.25,-15.36,-105.02:99
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chr1 4935048 rs10915303 A G 334.36 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.69;MQ=51.50;MQ0=0;OQ=770.15;QD=12.84;SB=-364.97 GT:AD:DP:GL:GQ 0/1:27,33:52:-95.98,-15.68,-87.76:99
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chr1 4935474 rs34001007 G A 343.02 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=962.36;QD=16.88;SB=-495.13 GT:AD:DP:GL:GQ 0/1:27,30:56:-116.40,-16.88,-86.00:99
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chr1 4935789 rs12128035 T C 226.01 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.43;MQ=58.94;MQ0=0;OQ=796.37;QD=12.64;SB=-306.28 GT:AD:DP:GL:GQ 0/1:34,29:62:-101.60,-18.68,-137.85:99
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chr1 4936034 rs6689050 G C 388.76 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=1874.06;QD=42.59;SB=-652.91 GT:AD:DP:GL:GQ 1/1:0,44:44:-191.00,-13.26,-0.01:99
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chr1 4936094 rs12757902 G A 302.17 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=59.62;MQ0=0;OQ=578.28;QD=11.80;SB=-268.20 GT:AD:DP:GL:GQ 0/1:27,21:43:-74.09,-12.98,-70.80:99
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chr1 4936362 rs12126016 G T 367.30 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.41;MQ0=0;OQ=1064.42;QD=14.99;SB=-543.63 GT:AD:DP:GL:GQ 0/1:34,37:71:-131.11,-21.39,-120.19:99
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chr1 4936409 rs11581023 G A 329.13 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=58.70;MQ0=0;OQ=1088.63;QD=16.49;SB=-413.38 GT:AD:DP:GL:GQ 0/1:32,34:63:-131.13,-18.99,-102.39:99
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chr1 4936482 rs12122541 A G 353.13 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=58.04;MQ0=0;OQ=684.77;QD=12.45;SB=-247.32 GT:AD:DP:GL:GQ 0/1:27,28:52:-87.43,-15.67,-100.04:99
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chr1 4936602 rs11584985 C T 191.63 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.33;MQ=59.29;MQ0=0;OQ=1088.30;QD=18.45;SB=-387.41 GT:AD:DP:GL:GQ 0/1:25,34:57:-129.30,-17.18,-77.34:99
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chr1 4936637 rs898335 T G 589.23 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=2347.69;QD=35.57;SB=-808.10 GT:AD:DP:GL:GQ 1/1:0,66:66:-238.37,-19.88,-0.02:99
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chr1 4937911 rs12739724 G A 135.48 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.00;MQ=59.34;MQ0=0;OQ=1173.07;QD=20.58;SB=-518.55 GT:AD:DP:GL:GQ 0/1:24,33:57:-137.76,-17.17,-89.96:99
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chr1 4937953 rs6666618 A C 126.74 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=2.81;MQ=60.00;MQ0=0;OQ=1008.55;QD=15.28;SB=-391.76 GT:AD:DP:GL:GQ 0/1:30,36:65:-123.72,-19.58,-111.64:99
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chr1 4939240 rs1841241 A G 358.83 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=59.68;MQ0=0;OQ=900.69;QD=12.34;SB=-390.90 GT:AD:DP:GL:GQ 0/1:37,36:72:-115.05,-21.70,-146.81:99
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chr1 4939654 rs6660626 C G 245.03 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=1.40;MQ=59.55;MQ0=0;OQ=1495.04;QD=18.01;SB=-651.03 GT:AD:DP:GL:GQ 0/1:41,42:81:-177.21,-24.42,-163.44:99
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chr1 4940611 . A G 75.27 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.50;MQ0=0;OQ=761.25;QD=16.55;SB=-322.41 GT:AD:DP:GL:GQ 0/1:18,28:44:-92.67,-13.26,-69.31:99
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chr1 4941180 rs12138041 C G 147.56 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.43;MQ0=0;OQ=1446.36;QD=22.25;SB=-675.09 GT:AD:DP:GL:GQ 0/1:27,38:64:-167.20,-19.28,-114.12:99
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chr1 4941754 rs6426376 A C 0.05 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=6;HaplotypeScore=1.65;MQ=58.89;MQ0=0;OQ=2125.54;QD=33.74;SB=-942.08 GT:AD:DP:GL:GQ 1/1:0,63:61:-216.16,-18.37,-0.02:99
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chr1 4942581 . C G 69.18 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.19;MQ0=0;OQ=1081.86;QD=18.98;SB=-432.32 GT:AD:DP:GL:GQ 0/1:28,29:57:-128.65,-17.18,-121.65:99
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chr1 4942801 rs12132419 G A 594.05 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=1256.99;QD=16.76;SB=-497.49 GT:AD:DP:GL:GQ 0/1:35,40:73:-150.98,-21.99,-126.45:99
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chr1 4943594 rs1563791 C A 403.62 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.68;MQ0=0;OQ=828.65;QD=15.63;SB=-357.20 GT:AD:DP:GL:GQ 0/1:25,28:53:-102.11,-15.96,-89.65:99
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chr1 4943942 rs10737391 T A 518.14 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.47;MQ0=0;OQ=2837.87;QD=37.84;SB=-993.50 GT:AD:DP:GL:GQ 1/1:0,75:74:-287.39,-22.29,-0.02:99
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chr1 4943949 rs6674570 C G 129.66 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.29;MQ0=0;OQ=3029.36;QD=43.28;SB=-1059.65 GT:AD:DP:GL:GQ 1/1:0,70:69:-306.54,-20.79,-0.02:99
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chr1 4943976 rs6689766 T C 365.66 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=56.77;MQ0=0;OQ=827.54;QD=14.03;SB=-391.26 GT:AD:DP:GL:GQ 0/1:29,30:57:-103.21,-17.17,-110.62:99
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chr1 4943997 rs6698166 G T 369.44 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=57.73;MQ0=0;OQ=860.15;QD=13.87;SB=-411.14 GT:AD:DP:GL:GQ 0/1:31,31:60:-107.37,-18.08,-104.72:99
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chr1 4943998 rs6698167 G A 353.24 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=57.73;MQ0=0;OQ=1051.24;QD=16.96;SB=-519.06 GT:AD:DP:GL:GQ 0/1:30,32:61:-126.79,-18.38,-103.11:99
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chr1 4944360 rs12131010 A G 342.06 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=58.85;MQ0=0;OQ=760.68;QD=9.88;SB=-317.87 GT:AD:DP:GL:GQ 0/1:43,34:75:-101.96,-22.60,-172.57:99
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chr1 4944890 rs1106586 G A 276.08 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.40;MQ=59.59;MQ0=0;OQ=802.40;QD=14.33;SB=-392.78 GT:AD:DP:GL:GQ 0/1:30,26:55:-100.10,-16.58,-95.63:99
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chr1 4945646 rs898336 G C 25.91 PASS AC=2;AF=1.00;AN=2;DB;DP=96;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=56.72;MQ0=0;OQ=4154.41;QD=43.28;SB=-1921.01 GT:AD:DP:GL:GQ 1/1:0,96:94:-414.44,-28.32,-0.03:99
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chr1 4945654 rs7417805 T C 207.20 PASS AC=2;AF=1.00;AN=2;DB;DP=101;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=56.30;MQ0=0;OQ=3685.03;QD=36.49;SB=-1843.78 GT:AD:DP:GL:GQ 1/1:0,101:100:-367.50,-30.12,-0.02:99
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chr1 4946090 rs12046931 C T 231 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.55;MQ=56.28;MQ0=0;OQ=1030.23;QD=13.56;SB=-511.04 GT:AD:DP:GL:GQ 0/1:44,32:74:-128.62,-22.31,-131.20:99
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chr1 4946898 rs6679312 A G 627.33 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.42;MQ0=0;OQ=2846.93;QD=36.04;SB=-1277.52 GT:AD:DP:GL:GQ 1/1:0,79:79:-288.30,-23.79,-0.02:99
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chr1 4947277 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=1;HaplotypeScore=4.31;MQ=58.55;MQ0=0;OQ=58.76;QD=0.92;SB=83.26 GT:AD:DP:GL:GQ 0/1:39,25:47:-23.33,-14.17,-133.19:91.60
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chr1 4947969 rs716671 G T 362.39 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.74;MQ=59.37;MQ0=0;OQ=959.61;QD=14.54;SB=-385.78 GT:AD:DP:GL:GQ 0/1:32,34:63:-118.22,-18.98,-106.13:99
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chr1 4948484 rs7541612 T C 301.06 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.16;MQ0=0;OQ=2459.32;QD=34.16;SB=-1006.88 GT:AD:DP:GL:GQ 1/1:0,72:70:-249.54,-21.08,-0.02:99
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chr1 4948794 rs10737392 A C 185.94 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2094.20;QD=29.50;SB=-992.36 GT:AD:DP:GL:GQ 1/1:0,71:69:-213.07,-20.80,-0.07:99
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chr1 4951092 rs12725971 A G 439.70 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.52;MQ0=0;OQ=1026.84;QD=13.16;SB=-423.90 GT:AD:DP:GL:GQ 0/1:43,35:78:-129.46,-23.49,-174.67:99
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chr1 4951570 rs6683624 C T 353.86 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.63;MQ=59.06;MQ0=0;OQ=1065.83;QD=15.45;SB=-486.02 GT:AD:DP:GL:GQ 0/1:35,34:67:-130.05,-20.19,-121.88:99
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chr1 4953123 rs7418901 T C 620.55 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=2650.80;QD=31.56;SB=-1309.87 GT:AD:DP:GL:GQ 1/1:0,84:83:-268.73,-25.03,-0.06:99
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chr1 4955464 rs1459754 T C 197.18 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.56;MQ0=0;OQ=2710.14;QD=31.88;SB=-1351.75 GT:AD:DP:GL:GQ 1/1:0,85:84:-274.67,-25.33,-0.07:99
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chr1 4956424 rs12566071 T C 456.39 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.68;MQ0=0;OQ=1092.05;QD=27.30;SB=-412.16 GT:AD:DP:GL:GQ 1/1:0,40:36:-112.83,-10.86,-0.04:99
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chr1 4956725 rs12047194 C T 71.14 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.61;MQ=60.00;MQ0=0;OQ=1049.88;QD=16.93;SB=-178.21 GT:AD:DP:GL:GQ 0/1:29,33:61:-126.65,-18.37,-103.04:99
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chr1 4957085 . G A 6.71 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.62;MQ0=0;OQ=1318.00;QD=21.61;SB=-441.83 GT:AD:DP:GL:GQ 0/1:23,38:60:-153.16,-18.08,-75.01:99
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chr1 4957708 rs9701766 C T 287.33 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=59.24;MQ0=0;OQ=1921.26;QD=34.93;SB=-917.67 GT:AD:DP:GL:GQ 1/1:0,55:50:-195.73,-15.07,-0.02:99
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chr1 4957732 rs12134477 T G 328.37 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.88;MQ=59.35;MQ0=0;OQ=737.05;QD=11.52;SB=-389.76 GT:AD:DP:GL:GQ 0/1:34,30:62:-95.67,-18.68,-123.44:99
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chr1 4960336 rs9286972 T C 80.40 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=3;HaplotypeScore=0.87;MQ=59.38;MQ0=0;OQ=2352.51;QD=35.11;SB=-877.01 GT:AD:DP:GL:GQ 1/1:0,67:65:-238.86,-19.58,-0.02:99
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chr1 4960363 rs9286973 A G 217.69 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.91;MQ=58.74;MQ0=0;OQ=2328.65;QD=33.27;SB=-776.20 GT:AD:DP:GL:GQ 1/1:0,68:66:-236.47,-19.88,-0.02:99
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chr1 4960544 rs10158116 T C 435.93 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.17;MQ0=0;OQ=930.68;QD=33.24;SB=-423.17 GT:AD:DP:GL:GQ 1/1:0,28:27:-96.66,-8.13,-0.01:81.23
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chr1 4961077 rs1380469 C T 600.30 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3571.25;QD=40.58;SB=-1432.72 GT:AD:DP:GL:GQ 1/1:0,88:87:-356.13,-26.20,-0.02:99
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chr1 4961379 rs10158288 T C 503.56 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=2541.28;QD=30.99;SB=-793.00 GT:AD:DP:GL:GQ 1/1:0,82:80:-257.79,-24.13,-0.07:99
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chr1 4963153 rs10915307 G A 69.93 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=3;HaplotypeScore=1.45;MQ=59.07;MQ0=0;OQ=713.61;QD=14.27;SB=-252.29 GT:AD:DP:GL:GQ 0/1:25,25:45:-88.21,-13.57,-68.76:99
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chr1 4964065 rs10737393 G C 566.31 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1749.68;QD=40.69;SB=-797.25 GT:AD:DP:GL:GQ 1/1:0,43:42:-178.57,-12.66,-0.02:99
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chr1 4964532 rs28667637 T C 501.28 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1316.20;QD=16.05;SB=-509.69 GT:AD:DP:GL:GQ 0/1:33,49:82:-159.62,-24.71,-131.78:99
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chr1 4964976 rs12027167 C T 376.96 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.50;MQ0=0;OQ=1085.57;QD=14.47;SB=-544.31 GT:AD:DP:GL:GQ 0/1:42,33:75:-134.44,-22.60,-148.57:99
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chr1 4965052 rs28444318 G A 401.64 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.69;MQ0=0;OQ=1204.51;QD=18.82;SB=-457.96 GT:AD:DP:GL:GQ 0/1:28,36:62:-142.42,-18.68,-88.92:99
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chr1 4965449 rs10915308 C T 686.42 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=2543.15;QD=38.53;SB=-937.28 GT:AD:DP:GL:GQ 1/1:0,66:64:-257.91,-19.28,-0.02:99
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chr1 4965556 rs12123277 C A 350.21 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=722.36;QD=9.63;SB=-338.31 GT:AD:DP:GL:GQ 0/1:48,27:74:-97.81,-22.29,-174.39:99
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chr1 4965577 rs1380470 A G 738.02 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2392.77;QD=36.25;SB=-1196.76 GT:AD:DP:GL:GQ 1/1:0,66:66:-242.88,-19.88,-0.01:99
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chr1 4965710 rs10915309 G A 204.24 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.87;MQ=59.60;MQ0=0;OQ=2319.12;QD=39.98;SB=-986.30 GT:AD:DP:GL:GQ 1/1:0,58:58:-235.51,-17.47,-0.02:99
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chr1 4968070 rs10915310 A G 390.05 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=59.15;MQ0=0;OQ=1179.59;QD=14.39;SB=-449.76 GT:AD:DP:GL:GQ 0/1:38,44:81:-145.65,-24.41,-157.59:99
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chr1 4968105 rs10799151 A G 154.91 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=3.73;MQ=58.89;MQ0=0;OQ=1031.60;QD=12.74;SB=-406.80 GT:AD:DP:GL:GQ 0/1:40,41:78:-129.95,-23.51,-157.15:99
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chr1 4968710 . C G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=1.90;MQ=53.48;MQ0=0;OQ=64.03;QD=1.56;SB=-49.12 GT:AD:DP:GL:GQ 0/1:36,5:37:-20.84,-11.15,-143.24:96.86
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chr1 4968815 rs10915311 A C 217.55 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.03;MQ0=0;OQ=2004.53;QD=29.92;SB=-920.78 GT:AD:DP:GL:GQ 1/1:0,66:64:-204.09,-19.29,-0.06:99
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chr1 4969030 rs34951087 G T 218.41 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.09;MQ0=0;OQ=572.86;QD=11.23;SB=-277.34 GT:AD:DP:GL:GQ 0/1:30,21:51:-75.93,-15.36,-106.99:99
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chr1 4970267 rs10915312 A G 154.58 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=1.56;MQ=58.90;MQ0=0;OQ=985.64;QD=12.32;SB=-409.96 GT:AD:DP:GL:GQ 0/1:41,39:79:-125.65,-23.81,-166.76:99
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chr1 4970523 rs12045336 A G 132 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=3.57;MQ=59.62;MQ0=0;OQ=1080.57;QD=17.71;SB=-383.65 GT:AD:DP:GL:GQ 0/1:25,36:60:-129.41,-18.07,-101.07:99
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chr1 4971344 . A C 49.60 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=0;HaplotypeScore=45.73;MQ=55.38;MQ0=0;QD=0.57;SB=95.30 GT:AD:DP:GL:GQ 0/1:77,10:78:-31.75,-23.50,-240.44:82.44
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chr1 4972155 rs1870516 C T 119.50 PASS AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=2;HaplotypeScore=2.64;MQ=59.76;MQ0=0;OQ=1584.03;QD=16.67;SB=-599.54 GT:AD:DP:GL:GQ 0/1:49,46:91:-189.10,-27.42,-151.90:99
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chr1 4972838 rs1459756 T C 570.91 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.06;MQ0=0;OQ=978.37;QD=13.22;SB=-505.27 GT:AD:DP:GL:GQ 0/1:38,36:72:-122.81,-21.69,-153.16:99
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chr1 4972952 rs9286975 G A 397.79 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2673.75;QD=39.91;SB=-1305.72 GT:AD:DP:GL:GQ 1/1:0,67:67:-270.98,-20.18,-0.02:99
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chr1 4973015 rs9662653 T A 589.24 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.20;MQ0=0;OQ=1272.49;QD=16.74;SB=-576.01 GT:AD:DP:GL:GQ 0/1:36,40:76:-153.42,-22.89,-135.61:99
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chr1 4973096 rs9701780 T C 360.62 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.34;MQ0=0;OQ=907.74;QD=12.97;SB=-427.52 GT:AD:DP:GL:GQ 0/1:38,32:70:-115.14,-21.08,-154.90:99
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chr1 4973099 rs1459757 A G 435.82 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.36;MQ0=0;OQ=906.72;QD=12.59;SB=-477.95 GT:AD:DP:GL:GQ 0/1:40,32:72:-115.64,-21.69,-161.61:99
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chr1 4973396 rs10753346 T C 325.42 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.65;MQ0=0;OQ=745.38;QD=11.29;SB=-293.22 GT:AD:DP:GL:GQ 0/1:39,27:65:-97.40,-19.58,-152.44:99
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chr1 4973518 rs10799152 A C 461.39 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.77;MQ0=0;OQ=1062.89;QD=13.29;SB=-461.68 GT:AD:DP:GL:GQ 0/1:43,37:80:-133.67,-24.09,-159.84:99
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chr1 4974497 rs35292186 A G 69.66 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=59.78;MQ0=0;OQ=1148.97;QD=13.84;SB=-573.87 GT:AD:DP:GL:GQ 0/1:43,40:81:-142.58,-24.40,-174.12:99
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chr1 4976182 rs10915314 G C 291.75 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.96;MQ=60.00;MQ0=0;OQ=1306.22;QD=17.65;SB=-415.30 GT:AD:DP:GL:GQ 0/1:38,36:73:-155.90,-22.00,-163.97:99
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chr1 4977412 rs12047764 T C 324.11 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=59.63;MQ0=0;OQ=712.65;QD=11.49;SB=-368.84 GT:AD:DP:GL:GQ 0/1:33,29:62:-93.24,-18.69,-135.85:99
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chr1 4978209 rs10915315 A G 314.02 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.17;MQ0=0;OQ=593.55;QD=8.73;SB=-263.22 GT:AD:DP:GL:GQ 0/1:42,26:67:-82.83,-20.19,-168.85:99
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chr1 4978799 rs10915316 T C 253.84 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=3.42;MQ=59.03;MQ0=0;OQ=793.88;QD=11.03;SB=-421.21 GT:AD:DP:GL:GQ 0/1:40,31:69:-103.46,-20.78,-159.70:99
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chr1 4980236 . G A 100.41 PASS AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.79;MQ0=0;OQ=1786.33;QD=21.02;SB=-886.64 GT:AD:DP:GL:GQ 0/1:34,51:83:-206.92,-25.00,-119.27:99
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chr1 4980926 rs10915317 T C 438.47 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.66;MQ0=0;OQ=838.53;QD=12.33;SB=-314.09 GT:AD:DP:GL:GQ 0/1:34,34:67:-107.33,-20.19,-138.42:99
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chr1 4981033 rs898337 G A 348.85 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.70;MQ0=0;OQ=1302.29;QD=16.91;SB=-502.50 GT:AD:DP:GL:GQ 0/1:36,41:75:-156.11,-22.60,-126.45:99
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chr1 4981597 rs7516703 C T 165.71 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=60.19;MQ0=0;OQ=561.42;QD=9.85;SB=-184.86 GT:AD:DP:GL:GQ 0/1:36,21:54:-75.71,-16.28,-112.37:99
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chr1 4982000 rs10799153 A G 596.01 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.94;MQ0=0;OQ=1157.46;QD=16.30;SB=-464.59 GT:AD:DP:GL:GQ 0/1:32,39:71:-140.42,-21.40,-120.74:99
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chr1 4983908 . G A 17.79 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=16;HaplotypeScore=7.18;MQ=55.71;MQ0=0;QD=0.27;SB=86.25 GT:AD:DP:GL:GQ 0/1:51,16:49:-19.83,-14.77,-145.36:50.55
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chr1 4985809 rs9439574 C T 11.86 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=4;HaplotypeScore=0.16;MQ=58.95;MQ0=0;OQ=1576.28;QD=19.70;SB=-625.03 GT:AD:DP:GL:GQ 0/1:34,46:79:-184.71,-23.79,-124.63:99
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chr1 4985815 rs9439575 A G 487 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.98;MQ0=0;OQ=1410.52;QD=17.20;SB=-545.94 GT:AD:DP:GL:GQ 0/1:36,46:82:-169.04,-24.70,-144.72:99
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chr1 4986567 rs10218468 A C 245.59 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.31;MQ0=0;OQ=789.54;QD=11.78;SB=-394.67 GT:AD:DP:GL:GQ 0/1:34,33:66:-102.12,-19.88,-128.07:99
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chr1 4987124 rs10442625 A G 373.16 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=59.63;MQ0=0;OQ=720.29;QD=11.43;SB=-219.26 GT:AD:DP:GL:GQ 0/1:37,26:62:-93.99,-18.68,-145.68:99
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chr1 4988477 rs2169089 A G 373.87 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=59.69;MQ0=0;OQ=1114.19;QD=14.86;SB=-356.97 GT:AD:DP:GL:GQ 0/1:29,45:72:-136.41,-21.71,-118.67:99
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chr1 4988875 rs716112 A G 453.40 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=842.62;QD=12.58;SB=-426.87 GT:AD:DP:GL:GQ 0/1:33,34:66:-107.44,-19.90,-129.75:99
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chr1 4990575 rs1459764 C T 573.83 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.71;MQ0=0;OQ=1234.93;QD=15.63;SB=-612.07 GT:AD:DP:GL:GQ 0/1:42,37:78:-150.28,-23.50,-132.81:99
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chr1 4990857 rs9439507 A G 285 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.35;MQ0=0;OQ=2461.09;QD=34.66;SB=-1130.69 GT:AD:DP:GL:GQ 1/1:0,71:71:-249.72,-21.39,-0.03:99
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chr1 4991092 rs10442626 G C 211.49 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=59.60;MQ0=0;OQ=718.97;QD=12.61;SB=-159.21 GT:AD:DP:GL:GQ 0/1:31,26:54:-91.46,-16.28,-132.88:99
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chr1 4991687 rs4949164 A G 470.49 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=1103.70;QD=13.80;SB=-401.93 GT:AD:DP:GL:GQ 0/1:38,42:79:-137.46,-23.80,-155.83:99
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chr1 4993546 rs7533014 T C 526.25 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1036.32;QD=11.39;SB=-442.91 GT:AD:DP:GL:GQ 0/1:49,42:90:-134.04,-27.12,-197.59:99
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chr1 4993852 rs11580542 A G 170.64 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.73;MQ0=0;OQ=650.23;QD=9.56;SB=-317.81 GT:AD:DP:GL:GQ 0/1:43,25:66:-88.19,-19.88,-168.41:99
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chr1 4994065 . C T 20.53 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1330.95;QD=18.75;SB=-592.09 GT:AD:DP:GL:GQ 0/1:33,38:71:-157.76,-21.38,-120.30:99
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chr1 4994295 rs6693990 G A 335.33 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.95;MQ=57.88;MQ0=0;OQ=1019.69;QD=16.19;SB=-465.42 GT:AD:DP:GL:GQ 0/1:31,32:60:-123.32,-18.07,-111.15:99
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chr1 4994563 rs1459763 A G 13.43 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=5.21;MQ=58.04;MQ0=0;OQ=377.66;QD=9.21;SB=-181.57 GT:AD:DP:GL:GQ 0/1:25,16:38:-52.50,-11.45,-93.25:99
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chr1 4995722 rs1459762 C T 513.24 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=1249.58;QD=19.22;SB=-511.06 GT:AD:DP:GL:GQ 0/1:27,38:64:-147.53,-19.29,-84.78:99
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chr1 4996533 . T G 102.56 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=59.08;MQ0=0;OQ=597.86;QD=9.80;SB=-320.69 GT:AD:DP:GL:GQ 0/1:35,26:61:-81.45,-18.38,-132.05:99
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chr1 4999697 . C G 5.71 PASS AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.53;MQ0=0;OQ=2076.06;QD=23.59;SB=-758.01 GT:AD:DP:GL:GQ 0/1:34,54:87:-237.12,-26.23,-133.95:99
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chr1 4999785 . A G 153.89 PASS AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.27;MQ=59.42;MQ0=0;OQ=950.41;QD=13.20;SB=-485.20 GT:AD:DP:GL:GQ 0/1:39,33:71:-119.71,-21.39,-153.18:99
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chr1 5000124 rs35565495 A G 217.11 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=57.68;MQ0=0;OQ=905.68;QD=12.41;SB=-443.62 GT:AD:DP:GL:GQ 0/1:40,33:73:-115.85,-22.00,-156.82:99
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chr1 5000551 rs1459761 A G 316.71 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=59.68;MQ0=0;OQ=1082.64;QD=18.35;SB=-522.18 GT:AD:DP:GL:GQ 0/1:24,35:59:-129.32,-17.77,-97.53:99
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chr1 5002004 rs12403444 A G 454.86 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.14;MQ=59.69;MQ0=0;OQ=1008.17;QD=13.62;SB=-385.25 GT:AD:DP:GL:GQ 0/1:38,36:71:-125.49,-21.39,-141.83:99
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chr1 5002384 rs12403749 A G 334.10 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.18;MQ0=0;OQ=762.42;QD=12.92;SB=-306.27 GT:AD:DP:GL:GQ 0/1:32,27:59:-97.30,-17.77,-132.93:99
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chr1 5002965 rs55998096 C T 265.85 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1237.12;QD=16.95;SB=-623.66 GT:AD:DP:GL:GQ 0/1:35,38:72:-148.68,-21.69,-128.69:99
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chr1 5003908 rs1459759 T G 287.81 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=59.68;MQ0=0;OQ=1018.83;QD=14.15;SB=-495.74 GT:AD:DP:GL:GQ 0/1:34,38:70:-126.25,-21.08,-125.30:99
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chr1 5004548 . C T 0.18 PASS AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=4;HaplotypeScore=0.97;MQ=55.65;MQ0=0;OQ=1952.83;QD=19.15;SB=-933.54 GT:AD:DP:GL:GQ 0/1:44,58:102:-229.30,-30.73,-156.88:99
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chr1 5004874 rs55883351 G A 211.60 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=41.17;MQ0=0;OQ=1434.24;QD=17.49;SB=-707.75 GT:AD:DP:GL:GQ 0/1:39,43:79:-170.52,-23.81,-118.83:99
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chr1 5005796 . T G 22.56 PASS AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=2;HaplotypeScore=0.97;MQ=52.68;MQ0=0;OQ=1101.12;QD=15.73;SB=-417.74 GT:AD:DP:GL:GQ 0/1:29,41:66:-133.27,-19.88,-106.95:99
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chr1 5005889 rs10737394 A G 342.71 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.43;MQ0=0;OQ=434.38;QD=9.05;SB=-233.28 GT:AD:DP:GL:GQ 0/1:27,21:46:-60.59,-13.87,-106.69:99
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chr1 5006532 rs10799156 G C 195.83 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=38.14;MQ0=9;OQ=508.53;QD=10.38;SB=-226.35 GT:AD:DP:GL:GQ 0/1:19,30:34:-64.39,-10.25,-81.21:99
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chr1 5007005 rs6603829 T C 0.07 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=16.12;MQ=27.87;MQ0=17;OQ=171.08;QD=2.19;SB=-108.70 GT:AD:DP:GL:GQ 0/1:51,27:35:-30.94,-10.55,-97.26:99
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chr1 5007006 rs6603830 G A 0.04 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=18.32;MQ=27.85;MQ0=18;OQ=165.82;QD=2.13;SB=-81.55 GT:AD:DP:GL:GQ 0/1:59,19:36:-30.72,-10.85,-97.29:99
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chr1 5007287 . C G 0.46 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=8.19;MQ=48.27;MQ0=4;OQ=754.87;QD=14.52;SB=-244.08 GT:AD:DP:GL:GQ 0/1:26,25:44:-92.04,-13.27,-89.64:99
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chr1 5007421 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=1;HaplotypeScore=5.43;MQ=22.24;MQ0=26;OQ=110.20;QD=1.12;SB=7.49 GT:AD:DP:GL:GQ 0/1:85,12:42:-26.95,-12.65,-140.65:99
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chr1 5007424 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=2;HaplotypeScore=3.53;MQ=23.00;MQ0=24;OQ=143.47;QD=1.54;SB=3.27 GT:AD:DP:GL:GQ 0/1:81,12:42:-30.29,-12.66,-152.47:99
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chr1 5011084 . C G 46.29 PASS AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=45.50;MQ0=2;OQ=1885.25;QD=20.27;SB=-717.97 GT:AD:DP:GL:GQ 0/1:41,52:88:-218.32,-26.51,-163.98:99
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chr1 5011731 . C T 18.24 PASS AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=2;HaplotypeScore=0.79;MQ=54.65;MQ0=1;OQ=1577.37;QD=18.13;SB=-623.62 GT:AD:DP:GL:GQ 0/1:41,46:86:-186.92,-25.90,-147.64:99
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chr1 5012084 rs10915327 C T 347.57 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=48.94;MQ0=2;OQ=1240.99;QD=17.24;SB=-606.09 GT:AD:DP:GL:GQ 0/1:32,40:68:-147.88,-20.49,-101.20:99
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chr1 5012508 . G A 165.62 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.74;MQ=34.81;MQ0=2;OQ=954.73;QD=16.75;SB=-470.48 GT:AD:DP:GL:GQ 0/1:23,33:48:-113.23,-14.48,-57.23:99
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chr1 5014453 . C A 65.76 PASS AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=59.79;MQ0=0;OQ=1613.72;QD=18.13;SB=-734.55 GT:AD:DP:GL:GQ 0/1:38,51:88:-191.16,-26.50,-131.97:99
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chr1 5016018 . T G 165.96 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=1295.09;QD=17.50;SB=-624.73 GT:AD:DP:GL:GQ 0/1:31,43:74:-155.08,-22.29,-116.52:99
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chr1 5018516 rs4262591 A T 76.12 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=2;HaplotypeScore=0.94;MQ=59.27;MQ0=0;OQ=1137.62;QD=12.78;SB=-520.24 GT:AD:DP:GL:GQ 0/1:50,39:87:-143.25,-26.20,-190.22:99
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chr1 5020923 rs970119 A C 493.82 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=718.78;QD=10.27;SB=-241.77 GT:AD:DP:GL:GQ 0/1:40,30:69:-95.95,-20.78,-149.31:99
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chr1 5023267 . C G 91.77 PASS AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.92;MQ0=0;OQ=800.92;QD=19.07;SB=-315.01 GT:AD:DP:GL:GQ 0/1:20,22:41:-95.73,-12.36,-81.61:99
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chr1 5024719 rs1563792 G A 196.62 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=59.54;MQ0=0;OQ=1348.55;QD=16.45;SB=-599.05 GT:AD:DP:GL:GQ 0/1:42,40:80:-162.25,-24.11,-132.60:99
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chr1 5027451 rs56184292 G T 6.36 PASS AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=4;HaplotypeScore=0.58;MQ=60.00;MQ0=0;OQ=1415.10;QD=15.05;SB=-721.57 GT:AD:DP:GL:GQ 0/1:44,49:93:-172.81,-28.02,-154.91:99
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chr1 5029434 rs2061494 T A 49.68 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=2;HaplotypeScore=1.72;MQ=59.72;MQ0=0;OQ=1567.79;QD=19.36;SB=-635.43 GT:AD:DP:GL:GQ 0/1:33,47:79:-183.86,-23.79,-122.93:99
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chr1 5029438 rs2061493 T A 66.27 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=2;HaplotypeScore=1.72;MQ=59.72;MQ0=0;OQ=1477.11;QD=18.24;SB=-663.80 GT:AD:DP:GL:GQ 0/1:33,48:80:-175.09,-24.10,-128.48:99
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chr1 5029774 rs55724572 C A 223.76 PASS AC=1;AF=0.50;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.17;MQ0=0;OQ=1394.44;QD=13.81;SB=-671.07 GT:AD:DP:GL:GQ 0/1:55,46:101:-173.14,-30.41,-200.20:99
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chr1 5029802 rs56297253 G A 420.62 PASS AC=1;AF=0.50;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.18;MQ0=0;OQ=1452.74;QD=14.24;SB=-632.72 GT:AD:DP:GL:GQ 0/1:58,44:100:-178.69,-30.14,-182.65:99
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chr1 5030141 rs1459758 C G 545.16 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2835.80;QD=42.33;SB=-1264.90 GT:AD:DP:GL:GQ 1/1:0,67:65:-287.18,-19.58,-0.01:99
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chr1 5032542 rs977665 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=14;HaplotypeScore=4.90;MQ=58.74;MQ0=0;OQ=53.47;QD=0.58;SB=128.44 GT:AD:DP:GL:GQ 0/1:77,15:69:-29.43,-20.80,-218.90:86.30
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chr1 5036504 rs922123 T C 526.95 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.12;MQ0=0;OQ=805.20;QD=10.88;SB=-361.22 GT:AD:DP:GL:GQ 0/1:44,30:74:-106.10,-22.29,-176.34:99
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chr1 5036703 rs55875722 T A 259.30 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.65;MQ0=0;OQ=1241.65;QD=18.81;SB=-625.13 GT:AD:DP:GL:GQ 0/1:28,38:64:-146.72,-19.28,-96.42:99
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chr1 5036704 rs922124 T A 61.83 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.48;MQ=59.67;MQ0=0;OQ=2561.19;QD=37.12;SB=-1099.66 GT:AD:DP:GL:GQ 1/1:0,69:68:-259.72,-20.48,-0.02:99
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chr1 5036974 rs56077964 G A 617 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=2268.61;QD=38.45;SB=-1080.42 GT:AD:DP:GL:GQ 1/1:0,59:56:-230.46,-16.87,-0.01:99
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chr1 5039060 rs56186517 C T 567.90 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=3555.73;QD=39.95;SB=-1607.16 GT:AD:DP:GL:GQ 1/1:0,89:87:-354.57,-26.20,-0.02:99
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chr1 5039732 rs56347558 T C 203.59 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=59.06;MQ0=0;OQ=2530.73;QD=34.20;SB=-928.36 GT:AD:DP:GL:GQ 1/1:0,73:71:-256.68,-21.39,-0.02:99
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chr1 5040152 rs3128686 G T 232.26 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=59.70;MQ0=0;OQ=2534.37;QD=32.49;SB=-1255.28 GT:AD:DP:GL:GQ 1/1:1,77:71:-257.05,-21.39,-0.03:99
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chr1 5040933 rs12045197 A T 91.33 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=2.81;MQ=44.79;MQ0=0;OQ=1582.06;QD=35.96;SB=-689.38 GT:AD:DP:GL:GQ 1/1:0,44:44:-161.81,-13.26,-0.02:99
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chr1 5041153 rs3128687 G T 199.02 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=55.94;MQ0=0;OQ=2861.17;QD=36.22;SB=-1432.06 GT:AD:DP:GL:GQ 1/1:0,79:77:-289.72,-23.19,-0.02:99
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chr1 5041314 rs3128688 A T 418.75 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.72;MQ0=0;OQ=2724.95;QD=37.85;SB=-1190.46 GT:AD:DP:GL:GQ 1/1:0,72:72:-276.10,-21.69,-0.02:99
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chr1 5041500 rs3128689 C A 313.60 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.24;MQ=59.77;MQ0=0;OQ=2974.21;QD=36.27;SB=-1175.38 GT:AD:DP:GL:GQ 1/1:0,82:81:-301.03,-24.39,-0.02:99
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chr1 5042266 rs10915339 G A 611.24 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.20;MQ0=0;OQ=2730.95;QD=39.01;SB=-1105.02 GT:AD:DP:GL:GQ 1/1:0,70:70:-276.70,-21.09,-0.02:99
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chr1 5042286 rs10915340 T C 619.37 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.86;MQ0=0;OQ=2323.00;QD=35.20;SB=-939.39 GT:AD:DP:GL:GQ 1/1:0,65:65:-235.90,-19.58,-0.02:99
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chr1 5042412 rs10915341 T G 227.06 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=59.39;MQ0=0;OQ=2175.06;QD=35.66;SB=-984.12 GT:AD:DP:GL:GQ 1/1:0,61:61:-221.11,-18.37,-0.01:99
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chr1 5042489 rs12029437 C G 85.77 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=2.70;MQ=59.16;MQ0=0;OQ=2913.26;QD=40.46;SB=-1456.73 GT:AD:DP:GL:GQ 1/1:0,72:69:-294.94,-20.80,-0.03:99
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chr1 5042644 rs12047111 A G 505.22 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=1237.53;QD=28.78;SB=-430.81 GT:AD:DP:GL:GQ 1/1:0,43:41:-127.38,-12.37,-0.05:99
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chr1 5042678 rs2334263 T C 624.61 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.35;MQ0=0;OQ=1911.69;QD=29.87;SB=-888.47 GT:AD:DP:GL:GQ 1/1:0,64:60:-194.81,-18.10,-0.06:99
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chr1 5043104 rs10799159 C A 257.58 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.14;MQ0=0;OQ=3046.41;QD=35.84;SB=-1505.91 GT:AD:DP:GL:GQ 1/1:0,85:84:-308.25,-25.30,-0.02:99
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chr1 5043177 rs10799160 G A 205.89 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=59.29;MQ0=0;OQ=2756.78;QD=37.25;SB=-1155.91 GT:AD:DP:GL:GQ 1/1:1,72:71:-282.75,-21.39,-3.49:99
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chr1 5043218 rs10799161 A C 127.41 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.10;MQ0=0;OQ=2285.87;QD=29.69;SB=-810.83 GT:AD:DP:GL:GQ 1/1:0,77:71:-232.22,-21.39,-0.05:99
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chr1 5048318 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=4;HaplotypeScore=11.35;MQ=48.17;MQ0=0;OQ=57.54;QD=0.83;SB=77.27 GT:AD:DP:GL:GQ 0/1:47,22:47:-23.20,-14.17,-150.00:90.38
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chr1 5048545 rs10915343 T C 699.40 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.89;MQ0=0;OQ=1690.53;QD=34.50;SB=-831.35 GT:AD:DP:GL:GQ 1/1:0,49:48:-172.65,-14.46,-0.01:99
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chr1 5050626 rs3101213 A G 203.57 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=59.71;MQ0=0;OQ=2864.75;QD=36.26;SB=-1335.60 GT:AD:DP:GL:GQ 1/1:0,79:79:-290.08,-23.79,-0.02:99
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chr1 5051336 rs2199215 T C 701.57 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=2974.37;QD=35.84;SB=-1419.92 GT:AD:DP:GL:GQ 1/1:0,83:83:-301.05,-25.00,-0.02:99
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chr1 5052019 rs12121092 G T 639.83 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2775.75;QD=36.52;SB=-1128.45 GT:AD:DP:GL:GQ 1/1:0,76:76:-281.18,-22.89,-0.02:99
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chr1 5057740 rs55852005 G A 37.87 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=3;HaplotypeScore=1.46;MQ=59.22;MQ0=0;OQ=1090.29;QD=18.48;SB=-513.03 GT:AD:DP:GL:GQ 0/1:26,33:57:-129.48,-17.17,-87.67:99
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chr1 5058085 rs4949171 C T 168.96 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.62;MQ=59.33;MQ0=0;OQ=2116.23;QD=37.79;SB=-957.98 GT:AD:DP:GL:GQ 1/1:0,56:55:-215.23,-16.58,-0.02:99
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chr1 5058717 rs9803863 G A 206.60 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.13;MQ0=0;OQ=2766.44;QD=39.52;SB=-1272.71 GT:AD:DP:GL:GQ 1/1:0,69:70:-283.01,-23.72,-2.78:99
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chr1 5059210 rs982156 T C 60.22 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.49;MQ=59.24;MQ0=0;OQ=1823.01;QD=33.15;SB=-568.39 GT:AD:DP:GL:GQ 1/1:0,55:54:-185.91,-16.27,-0.03:99
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chr1 5060220 rs992597 C T 157.27 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.89;MQ=59.01;MQ0=0;OQ=2915.53;QD=38.36;SB=-981.32 GT:AD:DP:GL:GQ 1/1:0,76:74:-295.16,-22.30,-0.02:99
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chr1 5060522 rs2242157 G T 298.92 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.45;MQ0=0;OQ=2405.81;QD=35.38;SB=-942.03 GT:AD:DP:GL:GQ 1/1:0,68:68:-244.19,-20.49,-0.03:99
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chr1 5060591 rs1459766 T G 395.54 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.24;MQ0=0;OQ=2600.59;QD=35.14;SB=-1143.14 GT:AD:DP:GL:GQ 1/1:0,74:73:-263.67,-21.99,-0.02:99
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chr1 5061734 rs9439532 C T 112.42 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.81;MQ=59.34;MQ0=0;OQ=2118.20;QD=37.16;SB=-1042.39 GT:AD:DP:GL:GQ 1/1:0,57:54:-215.42,-16.27,-0.02:99
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chr1 5062366 rs6683881 C T 35.99 PASS AC=2;AF=1.00;AN=2;DB;DP=91;Dels=0.00;HRun=1;HaplotypeScore=1.70;MQ=59.80;MQ0=0;OQ=3619.28;QD=39.77;SB=-1734.02 GT:AD:DP:GL:GQ 1/1:0,91:89:-360.93,-26.81,-0.02:99
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chr1 5062541 rs4949170 A G 156.11 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=59.71;MQ0=0;OQ=2632.93;QD=33.33;SB=-1332.58 GT:AD:DP:GL:GQ 1/1:0,79:75:-266.90,-22.59,-0.03:99
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chr1 5062567 rs4949169 A T 172.52 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.83;MQ=59.68;MQ0=0;OQ=2759.54;QD=37.80;SB=-995.13 GT:AD:DP:GL:GQ 1/1:0,73:72:-279.55,-21.68,-0.01:99
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chr1 5063485 rs9439576 C G 98.90 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=1.11;MQ=59.17;MQ0=0;OQ=3111.26;QD=39.89;SB=-1145.60 GT:AD:DP:GL:GQ 1/1:0,77:71:-314.73,-21.39,-0.02:99
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chr1 5063671 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=2;HaplotypeScore=26.54;MQ=57.06;MQ0=0;OQ=128.17;QD=2.14;SB=77.28 GT:AD:DP:GL:GQ 0/1:38,22:39:-27.89,-11.79,-122.93:99
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chr1 5064284 rs2169090 T C 707.36 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=3152.45;QD=35.42;SB=-1370.23 GT:AD:DP:GL:GQ 1/1:0,89:88:-318.85,-26.50,-0.02:99
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chr1 5066340 rs57000660 A G 484.39 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=766.60;QD=12.99;SB=-402.18 GT:AD:DP:GL:GQ 0/1:32,27:59:-97.71,-17.77,-131.87:99
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chr1 5066393 rs1037809 C T 706.58 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3074.28;QD=39.41;SB=-1449.38 GT:AD:DP:GL:GQ 1/1:0,78:78:-311.04,-23.50,-0.02:99
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chr1 5068397 rs6659363 G C 337.44 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.22;MQ0=0;OQ=768.71;QD=14.24;SB=-229.04 GT:AD:DP:GL:GQ 0/1:31,23:53:-96.12,-15.97,-137.34:99
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chr1 5068500 rs12124337 A C 365.74 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=1243.29;QD=15.94;SB=-471.71 GT:AD:DP:GL:GQ 0/1:35,43:77:-150.81,-23.19,-127.77:99
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chr1 5068523 rs10733013 C T 471.58 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1107.71;QD=14.39;SB=-422.79 GT:AD:DP:GL:GQ 0/1:43,34:75:-136.66,-22.60,-133.09:99
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chr1 5069554 rs2722789 G A 592.26 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1009.56;QD=14.02;SB=-503.00 GT:AD:DP:GL:GQ 0/1:41,31:72:-125.95,-21.71,-131.55:99
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chr1 5070551 rs4949160 A T 476.97 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.42;MQ0=0;OQ=1068.05;QD=14.83;SB=-488.53 GT:AD:DP:GL:GQ 0/1:37,35:71:-131.47,-21.38,-142.74:99
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chr1 5071819 . G A 258.71 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=1213.24;QD=16.18;SB=-353.81 GT:AD:DP:GL:GQ 0/1:39,36:75:-147.20,-22.59,-142.20:99
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chr1 5071854 . T A 81.17 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=60.00;MQ0=0;OQ=1149.23;QD=14.19;SB=-304.96 GT:AD:DP:GL:GQ 0/1:43,38:80:-142.31,-24.10,-164.66:99
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chr1 5072229 . G A 304.80 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=81;Dels=0.01;HRun=0;HaplotypeScore=64.90;MQ=44.02;MQ0=0;QD=3.76;SB=86.27 GT:AD:DP:GL:GQ 0/1:66,14:79:-57.26,-23.50,-230.57:99
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chr1 5072230 . C G 37.37 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=83;Dels=0.01;HRun=2;HaplotypeScore=55.89;MQ=43.72;MQ0=0;QD=0.45;SB=80.30 GT:AD:DP:GL:GQ 0/1:67,6:72:-38.59,-31.57,-277.78:70.20
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chr1 5072236 . A G 214.30 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=80;Dels=0.08;HRun=2;HaplotypeScore=77.80;MQ=44.49;MQ0=0;QD=2.68;SB=83.29 GT:AD:DP:GL:GQ 0/1:56,12:72:-66.82,-42.10,-235.08:99
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chr1 5072261 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=81;Dels=0.05;HRun=0;HaplotypeScore=73.45;MQ=43.15;MQ0=0;OQ=399.38;QD=4.93;SB=83.29 GT:AD:DP:GL:GQ 0/1:51,25:67:-62.51,-19.29,-172.53:99
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chr1 5072278 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=86;Dels=0.01;HRun=1;HaplotypeScore=43.28;MQ=42.83;MQ0=0;OQ=260.49;QD=3.03;SB=63.28 GT:AD:DP:GL:GQ 0/1:59,19:75:-74.72,-45.39,-204.92:99
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chr1 5072305 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=82;Dels=0.04;HRun=0;HaplotypeScore=77.14;MQ=40.79;MQ0=0;OQ=744.26;QD=9.08;SB=-270.19 GT:AD:DP:GL:GQ 0/1:44,35:70:-97.91,-20.20,-140.23:99
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chr1 5072314 . C A 26.92 LowQual AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=53.92;MQ=40.19;MQ0=0;QD=0.34;SB=-28.60 GT:AD:DP:GL:GQ 0/1:60,11:56:-29.71,-23.73,-169.35:59.74
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chr1 5072329 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=71;Dels=0.01;HRun=0;HaplotypeScore=74.94;MQ=38.44;MQ0=0;OQ=775.14;QD=10.92;SB=-292.22 GT:AD:DP:GL:GQ 0/1:41,28:64:-99.78,-18.98,-129.83:99
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chr1 5072338 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=63;Dels=0.02;HRun=2;HaplotypeScore=51.40;MQ=37.08;MQ0=0;OQ=162.47;QD=2.58;SB=101.36 GT:AD:DP:GL:GQ 0/1:48,8:57:-50.13,-30.60,-201.42:99
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chr1 5072354 . A G 70.72 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=68;Dels=0.01;HRun=3;HaplotypeScore=80.87;MQ=34.07;MQ0=1;QD=1.04;SB=50.19 GT:AD:DP:GL:GQ 0/1:55,12:60:-28.14,-17.78,-195.72:99
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chr1 5072357 . A G 633.36 SnpCluster AC=1;AF=0.50;AN=2;DP=67;Dels=0.01;HRun=1;HaplotypeScore=71.93;MQ=33.53;MQ0=1;QD=9.45;SB=-235.45 GT:AD:DP:GL:GQ 0/1:28,25:61:-115.70,-49.08,-135.16:99
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chr1 5072359 . A C 486.53 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=69;Dels=0.03;HRun=0;HaplotypeScore=52.12;MQ=33.41;MQ0=1;QD=7.05;SB=62.18 GT:AD:DP:GL:GQ 0/1:42,24:63:-73.40,-21.46,-136.62:99
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chr1 5072383 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=1;HaplotypeScore=82.78;MQ=35.86;MQ0=1;OQ=50.85;QD=0.50;SB=43.30 GT:AD:DP:GL:GQ 0/1:88,10:72:-37.48,-29.11,-217.86:83.68
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chr1 5072395 . C A 570.19 SnpCluster AC=1;AF=0.50;AN=2;DP=99;Dels=0.02;HRun=1;HaplotypeScore=88.86;MQ=38.13;MQ0=1;QD=5.76;SB=-12.89 GT:AD:DP:GL:GQ 0/1:64,28:75:-96.04,-35.74,-177.41:99
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chr1 5072402 . A G 56.63 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=3;HaplotypeScore=106.83;MQ=38.72;MQ0=1;QD=0.58;SB=77.28 GT:AD:DP:GL:GQ 0/1:88,10:70:-30.04,-21.10,-237.13:89.47
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chr1 5072405 . G T 211.27 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=95;Dels=0.03;HRun=0;HaplotypeScore=106.15;MQ=39.10;MQ0=1;QD=2.22;SB=86.26 GT:AD:DP:GL:GQ 0/1:74,17:80:-48.52,-24.11,-223.42:99
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chr1 5072419 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=1;HaplotypeScore=52.76;MQ=39.26;MQ0=1;OQ=413.09;QD=4.44;SB=8.43 GT:AD:DP:GL:GQ 0/1:71,20:77:-71.28,-26.69,-194.57:99
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chr1 5072442 . A G 31.37 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=2;HaplotypeScore=72.31;MQ=41.30;MQ0=0;QD=0.48;SB=47.17 GT:AD:DP:GL:GQ 0/1:57,8:62:-25.11,-18.69,-212.28:64.20
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chr1 5073664 rs2611423 C A 218.42 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=2432.37;QD=35.25;SB=-1208.34 GT:AD:DP:GL:GQ 1/1:0,69:67:-246.84,-20.18,-0.02:99
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chr1 5073938 rs2611424 A G 134.32 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=59.25;MQ0=0;OQ=2912.91;QD=35.96;SB=-1287.55 GT:AD:DP:GL:GQ 1/1:0,81:80:-294.90,-24.09,-0.02:99
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chr1 5074030 rs2611425 C T 598.88 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.51;MQ0=0;OQ=2372.22;QD=38.89;SB=-1023.68 GT:AD:DP:GL:GQ 1/1:0,61:60:-240.82,-18.07,-0.01:99
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chr1 5074510 rs9439534 C T 637.40 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.93;MQ0=0;OQ=2321.21;QD=36.27;SB=-1159.05 GT:AD:DP:GL:GQ 1/1:0,64:59:-235.72,-17.77,-0.02:99
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chr1 5074638 rs57003830 G C 372.48 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=43.54;MQ0=4;OQ=1370.10;QD=15.75;SB=-494.22 GT:AD:DP:GL:GQ 0/1:45,42:79:-164.10,-23.81,-179.75:99
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chr1 5075049 rs9439577 C T 95.46 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=2.23;MQ=38.28;MQ0=7;OQ=1971.59;QD=31.30;SB=-484.14 GT:AD:DP:GL:GQ 1/1:0,62:51:-200.77,-15.37,-0.03:99
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chr1 5075121 rs9439535 A G 238.22 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=43.82;MQ0=4;OQ=1529.43;QD=28.32;SB=-495.19 GT:AD:DP:GL:GQ 1/1:0,54:47:-156.56,-14.17,-0.03:99
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chr1 5075150 rs9439578 T G 135.05 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=2.71;MQ=50.05;MQ0=3;OQ=2063.78;QD=31.75;SB=-748.06 GT:AD:DP:GL:GQ 1/1:0,65:60:-209.99,-18.08,-0.02:99
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chr1 5075197 rs10915347 C T 55.81 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=2.29;MQ=47.56;MQ0=6;OQ=2171.81;QD=32.91;SB=-915.72 GT:AD:DP:GL:GQ 1/1:0,65:56:-220.79,-16.88,-0.02:99
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chr1 5075319 rs28828787 G A 102.87 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=26.02;MQ0=15;OQ=432.78;QD=8.32;SB=-48.66 GT:AD:DP:GL:GQ 0/1:29,23:28:-55.00,-8.44,-46.26:99
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chr1 5075370 rs10799164 C T 16.89 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=20.22;MQ0=13;OQ=746.84;QD=17.78;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,40:19:-78.27,-5.72,-0.00:57.19
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chr1 5075558 rs10799165 C T 9.35 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=9.90;MQ=22.74;MQ0=30;OQ=955.91;QD=12.58;SB=-324.43 GT:AD:DP:GL:GQ 1/1:31,45:25:-99.18,-7.53,-0.01:75.24
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chr1 5075601 rs10753349 C T 1.18 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=10.53;MQ=14.77;MQ0=51;OQ=525.81;QD=6.49;SB=-249.33 GT:AD:DP:GL:GQ 1/1:43,38:14:-56.17,-4.22,-0.00:42.14
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chr1 5075696 rs4949168 A G 0.23 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=5.94;MQ=11.29;MQ0=39;OQ=183.21;QD=2.91;SB=-118.05 GT:AD:DP:GL:GQ 1/1:33,30:6:-21.89,-1.81,-0.00:18.06
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chr1 5075699 rs10799166 G C 0.14 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=5.78;MQ=10.86;MQ0=38;OQ=173.64;QD=2.85;SB=-103.85 GT:AD:DP:GL:GQ 1/1:32,29:5:-20.93,-1.51,-0.00:15.05
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chr1 5075751 rs4949159 C A 0.57 PASS AC=2;AF=1.00;AN=2;DB;DP=36;Dels=0.00;HRun=1;HaplotypeScore=9.84;MQ=21.77;MQ0=1;OQ=523.96;QD=14.55;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,33:15:-55.98,-4.52,-0.00:45.14
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chr1 5075757 rs4949167 T C 1.62 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=5.17;MQ=21.64;MQ0=3;OQ=605.43;QD=14.41;SB=-10.00 GT:AD:DP:GL:GQ 1/1:7,35:18:-64.13,-5.42,-0.00:54.16
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chr1 5076314 rs9439579 C G 74.36 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.92;MQ=43.71;MQ0=2;OQ=2095.83;QD=33.80;SB=-956.72 GT:AD:DP:GL:GQ 1/1:3,59:49:-213.18,-14.76,-0.01:99
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chr1 5076393 rs10915349 G A 1.75 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=6.65;MQ=47.36;MQ0=1;OQ=1988.87;QD=34.29;SB=-955.74 GT:AD:DP:GL:GQ 1/1:1,57:52:-202.50,-15.68,-0.03:99
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chr1 5076841 rs10799167 C T 211.34 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=45.50;MQ0=4;OQ=2210.86;QD=35.66;SB=-962.98 GT:AD:DP:GL:GQ 1/1:1,61:56:-224.69,-16.87,-0.02:99
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chr1 5077036 rs10799168 A G 167.61 PASS AC=2;AF=1.00;AN=2;DB;DP=27;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=21.14;MQ0=7;OQ=400.64;QD=14.84;SB=-196.71 GT:AD:DP:GL:GQ 1/1:8,19:13:-43.66,-3.92,-0.01:39.11
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chr1 5077055 rs7414866 A G 123.85 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=21.33;MQ0=4;OQ=281.43;QD=13.40;SB=-64.87 GT:AD:DP:GL:GQ 1/1:4,17:10:-31.74,-3.02,-0.01:30.04
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chr1 5077077 rs7412613 C T 3.36 PASS AC=2;AF=1.00;AN=2;DB;DP=18;Dels=0.00;HRun=1;HaplotypeScore=1.37;MQ=22.40;MQ0=3;OQ=333.18;QD=18.51;SB=-10.00 GT:AD:DP:GL:GQ 1/1:2,15:9:-36.90,-2.71,-0.00:27.09
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chr1 5077090 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=2;HaplotypeScore=4.92;MQ=29.30;MQ0=3;OQ=51.83;QD=1.85;SB=-3.99 GT:AD:DP:GL:GQ 0/1:19,9:11:-11.79,-3.32,-22.43:84.66
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chr1 5077136 rs55919453 T G 371.05 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=38.18;MQ0=2;OQ=1590.74;QD=31.81;SB=-546.07 GT:AD:DP:GL:GQ 1/1:0,50:44:-162.67,-13.25,-0.01:99
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chr1 5077346 rs28778348 C A 55.21 PASS AC=2;AF=1.00;AN=2;DB;DP=30;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=26.70;MQ0=2;OQ=838.40;QD=27.95;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,29:24:-87.43,-7.23,-0.01:72.21
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chr1 5077349 rs28898289 T G 16.95 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=26.06;MQ0=2;OQ=780.24;QD=25.17;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,31:23:-81.62,-6.93,-0.01:69.20
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chr1 5077435 rs7415381 A T 121.52 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=26.22;MQ0=5;OQ=1349.62;QD=28.72;SB=-637.67 GT:AD:DP:GL:GQ 1/1:0,47:37:-138.56,-11.15,-0.01:99
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chr1 5077528 rs56184987 T C 231.69 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=24.13;MQ0=2;OQ=814.91;QD=18.95;SB=-252.77 GT:AD:DP:GL:GQ 1/1:0,43:27:-85.10,-8.15,-0.03:81.19
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chr1 5077549 rs55934905 G A 0.24 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=3;HaplotypeScore=0.98;MQ=23.80;MQ0=7;OQ=1118.88;QD=22.38;SB=-246.01 GT:AD:DP:GL:GQ 1/1:0,50:29:-115.48,-8.74,-0.01:87.28
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chr1 5077770 rs60669416 C A 584.28 Indel AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=10;HaplotypeScore=19.78;MQ=46.83;MQ0=2;QD=11.69;SB=-270.35 GT:AD:DP:GL:GQ 0/1:25,24:45:-75.27,-13.56,-79.00:99
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chr1 5077806 rs2334261 C T 3.91 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.02;HRun=2;HaplotypeScore=6.33;MQ=31.47;MQ0=13;OQ=1098.90;QD=20.35;SB=-473.36 GT:AD:DP:GL:GQ 1/1:5,48:29:-113.48,-8.43,-0.01:84.27
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chr1 5077915 rs11582268 A T 437.65 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.80;MQ0=5;OQ=869.48;QD=19.32;SB=-460.68 GT:AD:DP:GL:GQ 1/1:0,44:25:-90.55,-7.54,-0.02:75.21
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chr1 5078308 rs12043988 C A 291.59 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=47.74;MQ0=0;OQ=2467.70;QD=37.39;SB=-935.67 GT:AD:DP:GL:GQ 1/1:0,66:65:-250.36,-19.57,-0.01:99
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chr1 5078509 rs9439503 T C 20.38 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=4.15;MQ=38.39;MQ0=4;OQ=1877.97;QD=28.03;SB=-657.32 GT:AD:DP:GL:GQ 1/1:1,66:53:-191.40,-15.96,-0.02:99
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chr1 5078532 rs9439504 C G 494.66 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.41;MQ0=3;OQ=2205.88;QD=36.16;SB=-588.53 GT:AD:DP:GL:GQ 1/1:0,61:50:-224.18,-15.06,-0.01:99
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chr1 5078612 rs10915350 C T 169.93 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=47.49;MQ0=1;OQ=2196.12;QD=36.60;SB=-847.62 GT:AD:DP:GL:GQ 1/1:1,58:57:-223.22,-17.18,-0.02:99
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chr1 5079390 rs10799170 A C 350.19 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=57.35;MQ0=0;OQ=2787.95;QD=35.29;SB=-1421.63 GT:AD:DP:GL:GQ 1/1:0,79:78:-282.40,-23.49,-0.02:99
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chr1 5079434 rs10915352 G T 571.75 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.02;MQ0=0;OQ=3162.32;QD=36.77;SB=-1557.78 GT:AD:DP:GL:GQ 1/1:0,86:86:-319.84,-25.90,-0.02:99
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chr1 5079595 rs10915353 G C 43.37 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.36;MQ0=0;OQ=2638.35;QD=40.59;SB=-999.16 GT:AD:DP:GL:GQ 1/1:0,65:61:-267.45,-18.39,-0.03:99
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chr1 5079666 rs6701939 T C 563.06 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2172.86;QD=35.05;SB=-713.27 GT:AD:DP:GL:GQ 1/1:0,62:60:-220.89,-18.07,-0.02:99
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chr1 5080376 . C T 202.08 PASS AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.09;MQ0=0;OQ=426.51;QD=11.22;SB=-188.16 GT:AD:DP:GL:GQ 0/1:24,14:37:-57.08,-11.15,-81.03:99
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chr1 5080399 . C A 264.12 DPFilter;Indel AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=20;HaplotypeScore=11.69;MQ=57.12;MQ0=0;QD=4.63;SB=53.19 GT:AD:DP:GL:GQ 0/1:38,19:40:-41.75,-12.05,-100.11:99
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chr1 5080680 rs10753350 A G 105.81 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=58.32;MQ0=0;OQ=1525.28;QD=28.25;SB=-610.83 GT:AD:DP:GL:GQ 1/1:0,54:51:-156.18,-15.39,-0.07:99
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chr1 5080690 rs10753351 A C 1.11 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=3;HaplotypeScore=2.95;MQ=55.25;MQ0=0;OQ=2140.46;QD=31.48;SB=-1004.07 GT:AD:DP:GL:GQ 1/1:0,68:63:-217.66,-18.98,-0.03:99
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chr1 5081475 rs10737396 T C 76.32 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=3;HaplotypeScore=0.91;MQ=60.00;MQ0=0;OQ=2367.06;QD=33.34;SB=-935.73 GT:AD:DP:GL:GQ 1/1:0,71:67:-240.32,-20.19,-0.03:99
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chr1 5081878 rs2722794 T G 569.46 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.93;MQ0=0;OQ=2825.92;QD=34.89;SB=-1425.62 GT:AD:DP:GL:GQ 1/1:0,81:79:-286.20,-23.79,-0.02:99
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chr1 5081972 rs2611426 T A 81.80 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.88;MQ=59.18;MQ0=0;OQ=2310.37;QD=35.01;SB=-624.95 GT:AD:DP:GL:GQ 1/1:0,66:62:-234.64,-18.68,-0.02:99
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chr1 5083407 rs2045587 A G 34.52 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=59.31;MQ0=0;OQ=1821.48;QD=33.73;SB=-913.93 GT:AD:DP:GL:GQ 1/1:0,54:52:-185.75,-15.67,-0.02:99
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chr1 5083733 rs4313443 C T 652.84 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2295.78;QD=39.58;SB=-913.70 GT:AD:DP:GL:GQ 1/1:0,58:58:-233.18,-17.47,-0.01:99
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chr1 5083785 rs4356099 G A 29.40 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=1.30;MQ=60.00;MQ0=0;OQ=1676.22;QD=38.98;SB=-527.70 GT:AD:DP:GL:GQ 1/1:0,43:43:-171.22,-12.96,-0.02:99
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chr1 5083937 rs2722793 G T 729.18 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=2771.95;QD=36.96;SB=-1328.90 GT:AD:DP:GL:GQ 1/1:0,75:75:-280.80,-22.59,-0.02:99
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chr1 5084549 rs10753352 G C 80.52 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.74;MQ0=0;OQ=3116.41;QD=42.69;SB=-1439.29 GT:AD:DP:GL:GQ 1/1:0,73:73:-315.25,-22.00,-0.03:99
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chr1 5085006 rs2722792 C A 486.51 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=3029.86;QD=36.95;SB=-1518.84 GT:AD:DP:GL:GQ 1/1:0,82:81:-306.59,-24.39,-0.02:99
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chr1 5085686 rs2611419 A C 735.40 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2513.45;QD=35.40;SB=-1104.10 GT:AD:DP:GL:GQ 1/1:0,71:71:-254.95,-21.38,-0.02:99
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chr1 5087139 rs2611420 C G 615.49 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3365.59;QD=43.15;SB=-1251.98 GT:AD:DP:GL:GQ 1/1:0,78:76:-335.56,-22.90,-0.03:99
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chr1 5087240 rs2611421 C T 489.75 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=3117.95;QD=41.03;SB=-1433.39 GT:AD:DP:GL:GQ 1/1:0,76:76:-315.39,-22.89,-0.01:99
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chr1 5087511 rs2722791 G A 190.82 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=2.68;MQ=59.73;MQ0=0;OQ=3174.39;QD=37.35;SB=-1593.03 GT:AD:DP:GL:GQ 1/1:0,85:81:-321.05,-24.40,-0.02:99
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chr1 5088299 rs2611422 C T 24.96 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.01;HRun=4;HaplotypeScore=1.63;MQ=59.49;MQ0=0;OQ=3139.82;QD=38.29;SB=-1155.06 GT:AD:DP:GL:GQ 1/1:0,81:82:-317.60,-24.41,-0.03:99
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chr1 5088851 rs898338 G T 586.23 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1967.21;QD=32.25;SB=-901.77 GT:AD:DP:GL:GQ 1/1:0,61:55:-200.32,-16.57,-0.02:99
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chr1 5091688 rs11588537 G C 0.39 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=2;HaplotypeScore=2.02;MQ=59.44;MQ0=0;OQ=1667.23;QD=40.66;SB=-503.13 GT:AD:DP:GL:GQ 1/1:0,41:41:-170.32,-12.36,-0.02:99
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chr1 5092085 rs4245628 G A 151.82 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=2.46;MQ=59.41;MQ0=0;OQ=3066.13;QD=39.31;SB=-1187.61 GT:AD:DP:GL:GQ 1/1:0,78:77:-310.22,-23.19,-0.02:99
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chr1 5092563 rs6671889 C A 625.41 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.16;MQ0=0;OQ=3060.89;QD=36.88;SB=-1358.20 GT:AD:DP:GL:GQ 1/1:0,83:82:-309.69,-24.69,-0.01:99
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chr1 5092609 rs4949165 G C 633.91 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=3087.67;QD=42.88;SB=-1533.25 GT:AD:DP:GL:GQ 1/1:0,72:72:-312.37,-21.69,-0.02:99
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chr1 5092886 rs10492923 A G 560.12 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=897.90;QD=12.47;SB=-469.86 GT:AD:DP:GL:GQ 0/1:34,38:69:-113.87,-20.80,-132.03:99
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chr1 5093533 rs9439505 C T 206.84 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=2.29;MQ=59.13;MQ0=0;OQ=1236.94;QD=16.49;SB=-238.14 GT:AD:DP:GL:GQ 0/1:38,37:73:-148.98,-22.00,-117.20:99
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chr1 5093841 rs12143009 G A 1328.69 Indel AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=3;HaplotypeScore=2.85;MQ=59.81;MQ0=1;QD=15.27;SB=-676.33 GT:AD:DP:GL:GQ 0/1:46,41:84:-161.46,-25.31,-156.05:99
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chr1 5094064 rs16840020 C T 380.84 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.11;MQ=59.40;MQ0=0;OQ=843.58;QD=13.61;SB=-387.37 GT:AD:DP:GL:GQ 0/1:36,26:61:-106.01,-18.37,-128.57:99
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chr1 5094308 rs9439536 C G 94.57 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=-0.06;MQ=57.94;MQ0=0;OQ=2369.61;QD=43.08;SB=-1192.92 GT:AD:DP:GL:GQ 1/1:0,55:55:-240.56,-16.57,-0.02:99
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chr1 5094675 rs9439537 G A 205.12 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=56.69;MQ0=0;OQ=2327.54;QD=36.95;SB=-997.02 GT:AD:DP:GL:GQ 1/1:0,63:59:-236.35,-17.77,-0.02:99
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chr1 5095027 rs10737397 A C 379.35 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.02;HRun=2;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1853.36;QD=34.97;SB=-880.10 GT:AD:DP:GL:GQ 1/1:0,52:52:-188.93,-15.66,-0.01:99
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chr1 5095151 rs10915359 A G 343.67 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=60.00;MQ0=0;OQ=1130.12;QD=15.92;SB=-404.21 GT:AD:DP:GL:GQ 0/1:33,38:69:-137.08,-20.78,-130.21:99
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chr1 5095177 rs12122020 C T 430.32 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1196.16;QD=13.91;SB=-341.80 GT:AD:DP:GL:GQ 0/1:49,37:84:-148.20,-25.30,-177.14:99
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chr1 5095231 rs10492925 T C 590.40 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1272.89;QD=14.98;SB=-556.65 GT:AD:DP:GL:GQ 0/1:35,50:83:-155.59,-25.02,-138.70:99
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chr1 5095242 rs12045223 A T 548.90 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1555.76;QD=18.52;SB=-658.48 GT:AD:DP:GL:GQ 0/1:35,49:82:-183.56,-24.70,-128.89:99
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chr1 5096599 rs9439506 A G 501.16 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=607.79;QD=10.30;SB=-265.38 GT:AD:DP:GL:GQ 0/1:36,23:58:-81.54,-17.47,-140.55:99
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chr1 5097069 . C T 27.83 PASS AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.95;MQ0=0;OQ=280.61;QD=35.08;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:8:-31.64,-2.41,-0.00:24.08
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chr1 5097076 . C A 58.51 PASS AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.95;MQ0=0;OQ=242.27;QD=30.28;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:8:-27.81,-2.41,-0.00:24.07
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chr1 5097414 rs34593428 C T 209.20 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=1.12;MQ=60.00;MQ0=0;OQ=915.00;QD=14.52;SB=-282.17 GT:AD:DP:GL:GQ 0/1:34,29:62:-113.46,-18.67,-123.11:99
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chr1 5097811 rs10799172 T C 730.17 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=2361.85;QD=34.73;SB=-1109.84 GT:AD:DP:GL:GQ 1/1:0,68:67:-239.79,-20.18,-0.02:99
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chr1 5097837 rs10799173 C T 610.42 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=2894.02;QD=39.64;SB=-1458.48 GT:AD:DP:GL:GQ 1/1:0,73:72:-293.00,-21.69,-0.02:99
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chr1 5098649 rs16840051 C T 466.71 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.76;MQ0=0;OQ=1115.98;QD=14.31;SB=-521.66 GT:AD:DP:GL:GQ 0/1:43,35:76:-137.77,-22.89,-150.84:99
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chr1 5099594 rs61576661 T C 2.98 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.02;HRun=0;HaplotypeScore=9.91;MQ=59.43;MQ0=0;OQ=660.15;QD=12.23;SB=-250.93 GT:AD:DP:GL:GQ 0/1:29,24:54:-85.27,-15.97,-115.92:99
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chr1 5100592 rs6681359 C T 709.39 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=3001.23;QD=40.02;SB=-1288.71 GT:AD:DP:GL:GQ 1/1:0,75:75:-303.72,-22.59,-0.02:99
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chr1 5102008 rs7543139 A C 24.50 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=8.00;MQ=58.40;MQ0=0;OQ=1023.25;QD=14.62;SB=-311.81 GT:AD:DP:GL:GQ 0/1:35,35:67:-125.80,-20.19,-114.71:99
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chr1 5102179 rs16840055 A G 103.26 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.48;MQ=59.41;MQ0=0;OQ=1029.92;QD=14.51;SB=-438.97 GT:AD:DP:GL:GQ 0/1:36,35:69:-127.06,-20.79,-136.54:99
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chr1 5103146 rs4484964 T C 669.95 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.67;MQ0=0;OQ=2031.10;QD=32.24;SB=-774.73 GT:AD:DP:GL:GQ 1/1:0,63:62:-206.74,-18.69,-0.04:99
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chr1 5103788 . G T 167.53 PASS AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.70;MQ0=0;OQ=1064.37;QD=14.00;SB=-541.64 GT:AD:DP:GL:GQ 0/1:38,38:74:-132.01,-22.29,-131.40:99
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chr1 5106305 rs9439509 G A 600.29 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=2218.17;QD=38.92;SB=-991.33 GT:AD:DP:GL:GQ 1/1:0,57:57:-225.42,-17.18,-0.02:99
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chr1 5106499 rs4345839 A G 149.68 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=1.56;MQ=59.43;MQ0=0;OQ=2177.60;QD=33.50;SB=-1108.75 GT:AD:DP:GL:GQ 1/1:0,64:62:-221.38,-18.68,-0.03:99
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chr1 5107407 rs4584438 T G 105.42 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=1.66;MQ=60.00;MQ0=0;OQ=2390.91;QD=33.67;SB=-961.60 GT:AD:DP:GL:GQ 1/1:0,70:70:-246.35,-24.25,-3.68:99
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chr1 5107616 rs4543848 T C 111.63 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=2.89;MQ=59.72;MQ0=0;OQ=2325.30;QD=34.71;SB=-962.92 GT:AD:DP:GL:GQ 1/1:0,67:66:-236.14,-19.88,-0.02:99
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chr1 5107713 . A C 103.40 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=1036.38;QD=12.79;SB=-351.52 GT:AD:DP:GL:GQ 0/1:44,37:81:-131.32,-24.40,-159.14:99
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chr1 5109104 rs12025231 C T 369.55 PASS AC=1;AF=0.50;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=60.00;MQ0=0;OQ=1428.81;QD=14.73;SB=-339.81 GT:AD:DP:GL:GQ 0/1:53,44:96:-175.10,-28.94,-171.50:99
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chr1 5109781 rs9439510 C G 474.11 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3322.39;QD=44.30;SB=-1477.33 GT:AD:DP:GL:GQ 1/1:0,75:75:-331.24,-22.59,-0.02:99
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chr1 5109984 rs12121369 C A 599.91 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=1366.71;QD=15.89;SB=-516.80 GT:AD:DP:GL:GQ 0/1:40,46:85:-165.55,-25.60,-144.36:99
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chr1 5110261 rs7538704 G C 501.84 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1089.65;QD=15.35;SB=-449.75 GT:AD:DP:GL:GQ 0/1:33,38:67:-132.47,-20.22,-140.33:99
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chr1 5110586 rs4462197 C T 256.57 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2327.86;QD=37.55;SB=-1085.00 GT:AD:DP:GL:GQ 1/1:0,62:59:-236.39,-17.78,-0.02:99
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chr1 5110994 rs10753353 T C 229.27 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=59.74;MQ0=0;OQ=2543.07;QD=35.32;SB=-1168.48 GT:AD:DP:GL:GQ 1/1:0,72:71:-257.91,-21.39,-0.02:99
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chr1 5111198 rs12027352 C T 56.90 PASS AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=2;HaplotypeScore=3.00;MQ=59.50;MQ0=0;OQ=1422.29;QD=15.29;SB=-680.29 GT:AD:DP:GL:GQ 0/1:47,46:88:-172.02,-26.51,-161.50:99
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chr1 5111405 rs4314925 G A 196.97 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.36;MQ0=0;OQ=2517.06;QD=38.72;SB=-1234.63 GT:AD:DP:GL:GQ 1/1:0,65:64:-255.31,-19.28,-0.02:99
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chr1 5112055 rs12145645 G A 578.52 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=1010.93;QD=13.66;SB=-362.83 GT:AD:DP:GL:GQ 0/1:42,32:72:-126.06,-21.69,-149.75:99
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chr1 5112088 rs61762208 G A 38.27 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=2;HaplotypeScore=1.85;MQ=59.44;MQ0=0;OQ=1643.08;QD=19.80;SB=-651.68 GT:AD:DP:GL:GQ 0/1:37,46:82:-192.29,-24.70,-131.13:99
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chr1 5112135 rs12741116 A G 713.71 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2397.16;QD=35.25;SB=-898.68 GT:AD:DP:GL:GQ 1/1:0,68:67:-243.32,-20.18,-0.02:99
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chr1 5113244 rs4600091 T C 489.07 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2494.81;QD=29.70;SB=-1138.12 GT:AD:DP:GL:GQ 1/1:0,84:79:-253.13,-23.82,-0.07:99
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chr1 5113507 rs10753354 C G 401.42 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=2295.20;QD=42.50;SB=-1097.09 GT:AD:DP:GL:GQ 1/1:0,54:54:-233.13,-16.28,-0.02:99
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chr1 5113815 rs6698288 G A 330.13 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2134.65;QD=39.53;SB=-887.16 GT:AD:DP:GL:GQ 1/1:0,54:54:-217.07,-16.27,-0.02:99
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chr1 5114383 rs7517431 C G 606.11 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=920.14;QD=14.61;SB=-463.75 GT:AD:DP:GL:GQ 0/1:36,27:62:-113.98,-18.68,-155.27:99
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chr1 5114445 rs7517449 C T 297.77 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.63;MQ0=0;OQ=2115.05;QD=38.46;SB=-1037.87 GT:AD:DP:GL:GQ 1/1:0,55:54:-215.11,-16.27,-0.02:99
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chr1 5114723 rs10915361 C T 120.85 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=3.02;MQ=58.20;MQ0=0;OQ=931.19;QD=19.81;SB=-478.50 GT:AD:DP:GL:GQ 0/1:19,28:46:-110.26,-13.86,-62.96:99
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chr1 5115596 rs9439538 T C 593.80 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1568.48;QD=30.16;SB=-606.93 GT:AD:DP:GL:GQ 1/1:0,52:50:-160.48,-15.08,-0.04:99
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chr1 5115679 rs12021698 A T 372.77 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.37;MQ0=0;OQ=887.17;QD=15.04;SB=-310.70 GT:AD:DP:GL:GQ 0/1:30,29:59:-109.77,-17.77,-114.78:99
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chr1 5115822 rs56173770 C G 132.01 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1600.81;QD=26.68;SB=-808.51 GT:AD:DP:GL:GQ 0/1:19,41:59:-181.14,-17.77,-78.42:99
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chr1 5115851 rs9439539 T A 636.93 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2566.28;QD=37.74;SB=-1304.50 GT:AD:DP:GL:GQ 1/1:0,68:67:-260.22,-20.18,-0.01:99
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chr1 5117179 rs5009987 A G 1517.20 Indel AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=20.42;MQ=58.93;MQ0=0;QD=27.59;SB=-603.23 GT:AD:DP:GL:GQ 1/1:2,53:53:-162.87,-15.98,-7.57:84.15
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chr1 5117504 rs10799174 G A 14.48 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=8.52;MQ=58.73;MQ0=0;OQ=1003.11;QD=18.24;SB=-483.50 GT:AD:DP:GL:GQ 0/1:24,31:52:-119.27,-15.67,-72.69:99
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chr1 5117533 rs6672724 C T 186.08 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.63;MQ0=0;OQ=1901.56;QD=37.29;SB=-943.75 GT:AD:DP:GL:GQ 1/1:0,51:50:-193.77,-15.07,-0.02:99
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chr1 5118461 rs9439511 C T 378.94 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=58.91;MQ0=0;OQ=1153.56;QD=14.98;SB=-536.73 GT:AD:DP:GL:GQ 0/1:42,35:77:-141.84,-23.20,-148.03:99
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chr1 5119340 rs12401983 G A 186.94 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=1;HaplotypeScore=2.35;MQ=52.79;MQ0=0;OQ=1320.64;QD=16.93;SB=-541.57 GT:AD:DP:GL:GQ 0/1:37,40:76:-158.24,-22.89,-135.98:99
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chr1 5119644 rs55835407 G A 140.46 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=42.95;MQ0=4;OQ=797.21;QD=12.86;SB=-199.88 GT:AD:DP:GL:GQ 0/1:35,27:56:-99.88,-16.88,-103.36:99
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chr1 5119704 rs56293801 T C 75.11 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=2.00;MQ=42.91;MQ0=1;OQ=434.63;QD=8.36;SB=-212.22 GT:AD:DP:GL:GQ 0/1:32,20:46:-60.61,-13.87,-109.45:99
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chr1 5119914 rs12097824 T C 114 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.43;MQ=39.01;MQ0=0;OQ=589.79;QD=9.51;SB=-187.41 GT:AD:DP:GL:GQ 0/1:33,29:57:-79.44,-17.18,-127.34:99
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chr1 5120013 rs56126017 C G 210.02 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=35.32;MQ0=0;OQ=1020.64;QD=14.38;SB=-272.51 GT:AD:DP:GL:GQ 0/1:43,28:70:-126.44,-21.09,-178.51:99
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chr1 5120085 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=101;Dels=0.01;HRun=0;HaplotypeScore=11.89;MQ=34.93;MQ0=0;OQ=541.17;QD=5.36;SB=13.62 GT:AD:DP:GL:GQ 0/1:77,23:97:-86.32,-28.91,-276.66:99
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chr1 5120089 . T A 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=10.97;MQ=34.87;MQ0=0;OQ=894.55;QD=8.77;SB=-13.59 GT:AD:DP:GL:GQ 0/1:68,34:99:-122.56,-29.82,-255.26:99
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chr1 5120116 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=117;Dels=0.02;HRun=0;HaplotypeScore=143.29;MQ=34.92;MQ0=0;OQ=962.81;QD=8.23;SB=-91.05 GT:AD:DP:GL:GQ 0/1:76,37:114:-138.10,-38.53,-297.11:99
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chr1 5120146 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=141;Dels=0.01;HRun=0;HaplotypeScore=240.33;MQ=33.11;MQ0=0;OQ=492.54;QD=3.49;SB=14.98 GT:AD:DP:GL:GQ 0/1:116,23:120:-88.08,-35.54,-336.13:99
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chr1 5120150 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=150;Dels=0.03;HRun=0;HaplotypeScore=253.70;MQ=32.31;MQ0=0;OQ=526.30;QD=3.51;SB=-209.96 GT:AD:DP:GL:GQ 0/1:122,23:125:-96.24,-40.33,-348.30:99
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chr1 5120166 rs61762214 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=169;Dels=0.02;HRun=0;HaplotypeScore=340.16;MQ=31.74;MQ0=0;OQ=707.91;QD=4.19;SB=-238.38 GT:AD:DP:GL:GQ 0/1:128,38:158:-120.76,-46.69,-441.60:99
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chr1 5120182 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=171;Dels=0.00;HRun=0;HaplotypeScore=247.34;MQ=30.32;MQ0=1;OQ=181.12;QD=1.06;SB=99.79 GT:AD:DP:GL:GQ 0/1:146,25:160:-69.62,-48.22,-544.70:99
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chr1 5120218 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=186;Dels=0.00;HRun=0;HaplotypeScore=296.87;MQ=30.08;MQ0=1;OQ=467.02;QD=2.51;SB=-243.49 GT:AD:DP:GL:GQ 0/1:160,26:175:-102.70,-52.71,-541.07:99
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chr1 5120238 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=187;Dels=0.01;HRun=0;HaplotypeScore=156.33;MQ=31.62;MQ0=1;OQ=98.86;QD=0.53;SB=35.37 GT:AD:DP:GL:GQ 0/1:164,15:172:-86.49,-73.32,-562.87:99
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chr1 5120240 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=184;Dels=0.01;HRun=0;HaplotypeScore=148.66;MQ=31.61;MQ0=1;OQ=319.23;QD=1.73;SB=30.34 GT:AD:DP:GL:GQ 0/1:160,22:170:-85.81,-50.61,-526.60:99
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chr1 5120250 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=164;Dels=0.00;HRun=0;HaplotypeScore=149.91;MQ=33.54;MQ0=1;OQ=262.42;QD=1.60;SB=170.48 GT:AD:DP:GL:GQ 0/1:144,20:159:-77.42,-47.90,-500.91:99
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chr1 5120252 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=152;Dels=0.00;HRun=0;HaplotypeScore=134.92;MQ=34.14;MQ0=1;OQ=1590.07;QD=10.46;SB=-170.99 GT:AD:DP:GL:GQ 0/1:98,53:143:-208.80,-46.51,-329.18:99
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chr1 5121185 . T C 32.44 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.07;MQ=59.52;MQ0=0;OQ=529.93;QD=11.04;SB=-169.50 GT:AD:DP:GL:GQ 0/1:26,22:46:-70.14,-13.86,-100.33:99
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chr1 5122129 rs10915363 G C 183.28 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=59.47;MQ0=0;OQ=1248.82;QD=17.84;SB=-543.72 GT:AD:DP:GL:GQ 0/1:31,39:66:-148.06,-19.89,-135.32:99
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chr1 5122156 rs10915364 G C 495.83 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=1017.04;QD=16.14;SB=-464.81 GT:AD:DP:GL:GQ 0/1:31,32:62:-123.68,-18.70,-134.13:99
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chr1 5122248 rs11804873 C T 62.77 PASS AC=1;AF=0.50;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=59.39;MQ0=0;OQ=700.13;QD=18.42;SB=-213.90 GT:AD:DP:GL:GQ 0/1:16,22:37:-84.44,-11.15,-55.54:99
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chr1 5122456 rs10915365 C T 167.44 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=2.45;MQ=59.52;MQ0=0;OQ=504.80;QD=12.94;SB=-201.18 GT:AD:DP:GL:GQ 0/1:22,17:38:-65.21,-11.45,-78.02:99
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chr1 5122978 rs12024162 T C 1.83 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=6.85;MQ=58.05;MQ0=0;OQ=2287.65;QD=35.19;SB=-898.04 GT:AD:DP:GL:GQ 1/1:1,64:63:-232.37,-18.97,-0.02:99
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chr1 5123042 rs12026730 G A 134.42 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=3.61;MQ=56.89;MQ0=0;OQ=1205.15;QD=19.76;SB=-414.94 GT:AD:DP:GL:GQ 0/1:25,36:58:-141.29,-17.49,-70.06:99
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chr1 5123330 rs9439540 C A 63.17 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.37;MQ0=0;OQ=975.37;QD=16.53;SB=-180.54 GT:AD:DP:GL:GQ 0/1:27,32:57:-117.99,-17.17,-89.17:99
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chr1 5124476 rs17366543 A G 248.41 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=1.31;MQ=60.00;MQ0=0;OQ=919.81;QD=12.26;SB=-428.10 GT:AD:DP:GL:GQ 0/1:42,33:74:-117.56,-22.29,-166.31:99
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chr1 5126548 rs6690311 A G 73.75 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=3.31;MQ=60.00;MQ0=0;OQ=1952.07;QD=34.25;SB=-789.11 GT:AD:DP:GL:GQ 1/1:0,56:56:-198.81,-16.87,-0.02:99
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chr1 5126612 rs6675995 G A 137.58 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=2.05;MQ=59.06;MQ0=0;OQ=2638.82;QD=38.24;SB=-1319.37 GT:AD:DP:GL:GQ 1/1:0,69:67:-267.49,-20.19,-0.02:99
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chr1 5126665 rs10799176 G A 160.71 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=59.11;MQ0=0;OQ=2842.19;QD=38.93;SB=-1393.38 GT:AD:DP:GL:GQ 1/1:0,73:72:-287.83,-21.69,-0.02:99
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chr1 5126844 rs6685929 C T 627.62 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2295.72;QD=37.63;SB=-1082.35 GT:AD:DP:GL:GQ 1/1:0,61:59:-233.18,-17.78,-0.02:99
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chr1 5126974 . G T 128.27 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.02;MQ0=0;OQ=1169.78;QD=18.87;SB=-560.81 GT:AD:DP:GL:GQ 0/1:24,38:60:-138.33,-18.07,-79.90:99
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chr1 5129269 rs11583683 C T 146.33 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2126.34;QD=37.30;SB=-795.34 GT:AD:DP:GL:GQ 1/1:0,57:56:-216.24,-16.88,-0.02:99
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chr1 5129679 rs6603817 A G 112.83 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=58.96;MQ0=0;OQ=1509.76;QD=32.82;SB=-474.53 GT:AD:DP:GL:GQ 1/1:0,46:43:-154.58,-12.95,-0.01:99
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chr1 5130606 rs4076635 G A 636.22 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2562.75;QD=38.25;SB=-1303.24 GT:AD:DP:GL:GQ 1/1:0,67:65:-259.88,-19.58,-0.02:99
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chr1 5131752 rs4394703 C A 307.05 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=58.90;MQ0=0;OQ=2017.11;QD=34.19;SB=-1012.79 GT:AD:DP:GL:GQ 1/1:0,58:57:-208.21,-19.84,-2.91:99
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chr1 5132477 rs6692740 A G 667.43 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2294.64;QD=31.43;SB=-1053.29 GT:AD:DP:GL:GQ 1/1:0,73:71:-233.10,-21.41,-0.05:99
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chr1 5133851 rs10492928 G T 624.11 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=2734.91;QD=36.47;SB=-1337.92 GT:AD:DP:GL:GQ 1/1:0,75:75:-277.10,-22.59,-0.02:99
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chr1 5134195 rs7545119 C A 288.26 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=2.20;MQ=59.11;MQ0=0;OQ=2691.33;QD=34.50;SB=-1000.80 GT:AD:DP:GL:GQ 1/1:0,78:75:-272.75,-22.59,-0.03:99
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chr1 5135504 rs10915369 C T 488.43 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.87;MQ0=0;OQ=1900.03;QD=39.58;SB=-759.52 GT:AD:DP:GL:GQ 1/1:0,48:48:-193.60,-14.46,-0.01:99
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chr1 5135682 rs11583044 G A 156.17 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=56.88;MQ0=0;OQ=1535.65;QD=34.90;SB=-689.33 GT:AD:DP:GL:GQ 1/1:0,44:41:-157.17,-12.36,-0.02:99
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chr1 5135692 rs10915370 C T 137.61 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.35;MQ0=0;OQ=2137.06;QD=38.16;SB=-962.28 GT:AD:DP:GL:GQ 1/1:0,56:55:-217.31,-16.57,-0.02:99
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chr1 5138733 rs10915371 G A 186.78 PASS AC=2;AF=1.00;AN=2;DB;DP=94;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=58.20;MQ0=0;OQ=3762.30;QD=40.02;SB=-1754.36 GT:AD:DP:GL:GQ 1/1:0,94:93:-375.23,-28.01,-0.02:99
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chr1 5139307 rs9439541 A T 634.34 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3003.64;QD=37.55;SB=-1255.20 GT:AD:DP:GL:GQ 1/1:0,80:79:-303.97,-23.79,-0.02:99
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chr1 5139791 rs6603818 C T 714.35 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2781.44;QD=39.73;SB=-1291.72 GT:AD:DP:GL:GQ 1/1:0,70:70:-281.75,-21.09,-0.02:99
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chr1 5140071 rs7547229 C T 724.83 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3128.00;QD=38.62;SB=-1344.39 GT:AD:DP:GL:GQ 1/1:0,81:78:-316.40,-23.49,-0.02:99
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chr1 5140234 . A C 162.19 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=858.81;QD=15.61;SB=-394.78 GT:AD:DP:GL:GQ 0/1:24,31:53:-105.13,-15.96,-88.06:99
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chr1 5141171 rs6688418 G A 695.26 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2832.24;QD=40.46;SB=-1208.37 GT:AD:DP:GL:GQ 1/1:0,70:70:-286.82,-21.08,-0.01:99
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chr1 5141665 . C T 43.31 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.98;MQ=59.95;MQ0=0;OQ=985.11;QD=18.24;SB=-409.92 GT:AD:DP:GL:GQ 0/1:25,29:53:-117.76,-15.96,-94.79:99
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chr1 5141935 rs6701052 C T 100.43 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.66;MQ=49.80;MQ0=8;OQ=1859.57;QD=32.06;SB=-869.02 GT:AD:DP:GL:GQ 1/1:8,50:47:-189.55,-14.16,-0.01:99
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chr1 5142041 rs12072516 A T 329.01 PASS AC=1;AF=0.50;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.00;MQ0=0;OQ=266.78;QD=9.53;SB=-152.82 GT:AD:DP:GL:GQ 0/1:16,12:25:-37.49,-7.53,-57.93:99
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chr1 5142287 rs9286978 G A 22.41 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=23.68;MQ0=8;OQ=873.11;QD=24.95;SB=-85.33 GT:AD:DP:GL:GQ 1/1:3,32:23:-90.90,-6.93,-0.01:69.22
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chr1 5143205 rs6664086 T C 86.23 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=3.60;MQ=58.49;MQ0=0;OQ=2734.43;QD=33.76;SB=-1255.67 GT:AD:DP:GL:GQ 1/1:1,80:78:-277.05,-23.49,-0.03:99
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chr1 5144621 rs6603819 C A 635.83 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2574.32;QD=36.78;SB=-1238.13 GT:AD:DP:GL:GQ 1/1:0,70:70:-261.03,-21.08,-0.02:99
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chr1 5146701 rs6669501 C T 700.51 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=3011.38;QD=38.61;SB=-1500.64 GT:AD:DP:GL:GQ 1/1:0,78:76:-304.75,-22.90,-0.03:99
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chr1 5146942 rs10492930 A G 610.29 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2413.30;QD=30.17;SB=-1138.47 GT:AD:DP:GL:GQ 1/1:0,79:77:-244.99,-23.23,-0.08:99
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chr1 5147215 rs10492931 G A 723.45 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=2807.87;QD=39.00;SB=-1216.01 GT:AD:DP:GL:GQ 1/1:0,72:71:-284.39,-21.39,-0.02:99
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chr1 5148161 . G A 24.17 PASS AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=1;HaplotypeScore=1.43;MQ=59.39;MQ0=0;OQ=1450.62;QD=19.09;SB=-417.73 GT:AD:DP:GL:GQ 0/1:33,43:74:-170.64,-22.29,-112.74:99
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chr1 5148401 rs6665697 T C 269.23 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.48;MQ0=0;OQ=2231.09;QD=30.99;SB=-952.42 GT:AD:DP:GL:GQ 1/1:0,72:70:-226.75,-21.11,-0.06:99
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chr1 5150357 rs10915375 A G 529.20 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.37;MQ0=0;OQ=1555.45;QD=31.74;SB=-790.64 GT:AD:DP:GL:GQ 1/1:0,49:49:-159.17,-14.78,-0.04:99
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chr1 5150590 . G T 11.56 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=69;Dels=0.01;HRun=20;HaplotypeScore=36.67;MQ=54.55;MQ0=0;QD=0.17;SB=69.39 GT:AD:DP:GL:GQ 0/1:49,15:42:-26.08,-21.67,-128.29:44.08
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chr1 5150765 rs9439543 T C 624.17 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.33;MQ0=0;OQ=2519.73;QD=35.49;SB=-971.41 GT:AD:DP:GL:GQ 1/1:0,71:70:-255.58,-21.09,-0.03:99
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chr1 5150768 rs9439544 C T 629.96 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.35;MQ0=0;OQ=2827.18;QD=38.21;SB=-1183.08 GT:AD:DP:GL:GQ 1/1:0,74:71:-286.33,-21.39,-0.02:99
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chr1 5150948 rs11583754 A G 125.55 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=56.88;MQ0=0;OQ=1724.72;QD=34.49;SB=-813.67 GT:AD:DP:GL:GQ 1/1:0,50:49:-176.07,-14.76,-0.02:99
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chr1 5153524 rs7536712 T C 117.29 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=1.92;MQ=59.77;MQ0=0;OQ=2818.40;QD=35.23;SB=-1399.67 GT:AD:DP:GL:GQ 1/1:1,78:79:-289.59,-27.33,-4.17:99
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chr1 5155164 rs2722780 G T 611.46 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2724.16;QD=35.38;SB=-1305.24 GT:AD:DP:GL:GQ 1/1:0,77:77:-276.03,-23.20,-0.03:99
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chr1 5155635 rs2018394 C G 496.66 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.82;MQ0=0;OQ=3565.75;QD=43.48;SB=-1230.53 GT:AD:DP:GL:GQ 1/1:0,82:80:-355.57,-24.10,-0.02:99
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chr1 5156126 rs2679215 G C 570.08 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2670.60;QD=41.73;SB=-1328.91 GT:AD:DP:GL:GQ 1/1:0,64:63:-270.67,-18.98,-0.02:99
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chr1 5156634 rs1320179 T A 161.58 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=59.60;MQ0=0;OQ=1611.01;QD=34.28;SB=-497.40 GT:AD:DP:GL:GQ 1/1:0,47:44:-164.71,-13.26,-0.02:99
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chr1 5157054 . G A 104.21 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=1;HaplotypeScore=1.46;MQ=58.03;MQ0=0;OQ=746.35;QD=13.09;SB=-370.87 GT:AD:DP:GL:GQ 0/1:33,24:57:-95.09,-17.17,-121.22:99
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chr1 5157089 rs2722781 C T 248.95 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.68;MQ0=0;OQ=2013.78;QD=38.00;SB=-852.01 GT:AD:DP:GL:GQ 1/1:0,53:51:-204.98,-15.36,-0.01:99
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chr1 5158014 rs2679216 A G 582.56 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.03;MQ0=0;OQ=2870.64;QD=35.01;SB=-1392.56 GT:AD:DP:GL:GQ 1/1:0,82:80:-290.67,-24.10,-0.03:99
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chr1 5158416 rs2722782 T C 292.12 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.91;MQ=59.74;MQ0=0;OQ=2481.35;QD=34.95;SB=-1226.71 GT:AD:DP:GL:GQ 1/1:0,71:71:-251.75,-21.39,-0.03:99
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chr1 5158842 rs2679217 A C 278.49 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=2099.17;QD=33.86;SB=-765.90 GT:AD:DP:GL:GQ 1/1:0,62:61:-213.53,-18.38,-0.03:99
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chr1 5160232 rs2722783 T C 124.50 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=2.20;MQ=59.02;MQ0=0;OQ=2420.10;QD=34.09;SB=-1200.16 GT:AD:DP:GL:GQ 1/1:1,69:68:-249.06,-23.31,-3.46:99
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chr1 5162761 rs2679218 T C 309.92 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.92;MQ=59.65;MQ0=0;OQ=2240.61;QD=34.47;SB=-957.91 GT:AD:DP:GL:GQ 1/1:0,65:65:-227.67,-19.58,-0.02:99
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chr1 5164088 rs2722786 A G 678.85 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=2134.58;QD=34.99;SB=-757.97 GT:AD:DP:GL:GQ 1/1:0,61:60:-217.06,-18.07,-0.02:99
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chr1 5164377 rs2722787 T C 664.30 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1994.32;QD=31.16;SB=-946.38 GT:AD:DP:GL:GQ 1/1:0,64:63:-203.07,-19.00,-0.06:99
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chr1 5164508 . G A 21.64 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=2;HaplotypeScore=1.05;MQ=60.00;MQ0=0;OQ=1023.93;QD=15.51;SB=-404.39 GT:AD:DP:GL:GQ 0/1:35,31:64:-124.97,-19.29,-108.14:99
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chr1 5165252 rs2679219 A G 545.13 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2430.87;QD=31.16;SB=-1145.16 GT:AD:DP:GL:GQ 1/1:0,78:76:-246.73,-22.91,-0.06:99
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chr1 5165298 rs2722788 C T 111.92 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.52;MQ0=0;OQ=3387.05;QD=38.93;SB=-1669.69 GT:AD:DP:GL:GQ 1/1:0,87:85:-337.71,-25.61,-0.03:99
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chr1 5166378 rs2722790 C T 150.34 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.57;MQ=59.01;MQ0=0;OQ=2739.21;QD=39.13;SB=-1381.68 GT:AD:DP:GL:GQ 1/1:0,70:69:-277.52,-20.79,-0.02:99
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chr1 5170379 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=20;HaplotypeScore=3.49;MQ=51.63;MQ0=1;OQ=52.88;QD=0.64;SB=122.38 GT:AD:DP:GL:GQ 0/1:61,22:64:-27.86,-19.28,-197.27:85.72
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chr1 5172063 rs56164612 G A 177.93 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=59.16;MQ0=0;OQ=776.89;QD=15.54;SB=-274.16 GT:AD:DP:GL:GQ 0/1:24,26:48:-95.43,-14.46,-86.73:99
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chr1 5191577 rs471824 A G 242.55 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.16;MQ0=0;OQ=1721.79;QD=27.77;SB=-749.45 GT:AD:DP:GL:GQ 1/1:1,61:57:-179.88,-17.20,-4.11:99
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chr1 5191739 rs632051 C A 18.10 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=2;HaplotypeScore=4.23;MQ=58.83;MQ0=0;OQ=3137.26;QD=37.35;SB=-891.27 GT:AD:DP:GL:GQ 1/1:0,84:83:-317.33,-25.00,-0.02:99
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chr1 5193545 rs566114 T G 200.45 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=2400.30;QD=34.29;SB=-1100.14 GT:AD:DP:GL:GQ 1/1:0,70:68:-243.64,-20.48,-0.02:99
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chr1 5194097 rs56295354 C T 367.36 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.98;MQ0=0;OQ=896.66;QD=14.01;SB=-471.46 GT:AD:DP:GL:GQ 0/1:34,30:62:-111.63,-18.68,-121.51:99
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chr1 5195036 rs677735 A G 310.10 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.68;MQ0=0;OQ=2493.12;QD=34.15;SB=-981.71 GT:AD:DP:GL:GQ 1/1:0,73:71:-252.92,-21.39,-0.03:99
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chr1 5195467 rs2986186 T A 311.13 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=2846.52;QD=37.45;SB=-1332.00 GT:AD:DP:GL:GQ 1/1:0,76:75:-288.25,-22.59,-0.02:99
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chr1 5196704 rs2353169 T C 724.90 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=2499.39;QD=34.71;SB=-983.95 GT:AD:DP:GL:GQ 1/1:0,72:72:-253.55,-21.69,-0.02:99
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chr1 5197705 rs473104 A G 598.18 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2654.56;QD=34.93;SB=-1319.89 GT:AD:DP:GL:GQ 1/1:0,76:74:-269.06,-22.29,-0.02:99
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chr1 5197747 rs586165 T C 721.60 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2710.69;QD=35.20;SB=-1278.13 GT:AD:DP:GL:GQ 1/1:0,77:76:-274.68,-22.89,-0.03:99
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chr1 5198145 rs584402 C T 717.83 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2714.09;QD=39.33;SB=-1353.02 GT:AD:DP:GL:GQ 1/1:0,69:69:-275.01,-20.79,-0.02:99
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chr1 5198627 rs679712 T A 207.32 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.59;MQ=59.36;MQ0=0;OQ=2332.10;QD=35.88;SB=-1044.59 GT:AD:DP:GL:GQ 1/1:0,65:63:-236.81,-18.97,-0.02:99
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chr1 5198919 rs551536 T C 66.98 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=2;HaplotypeScore=0.47;MQ=59.68;MQ0=0;OQ=2254.50;QD=31.75;SB=-1121.22 GT:AD:DP:GL:GQ 1/1:0,71:70:-229.09,-21.11,-0.06:99
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chr1 5198972 rs551376 G A 527.51 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2736.21;QD=38.54;SB=-1372.67 GT:AD:DP:GL:GQ 1/1:0,71:69:-277.22,-20.79,-0.02:99
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chr1 5199041 rs550558 G A 271.08 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.75;MQ0=0;OQ=2982.88;QD=39.25;SB=-1518.69 GT:AD:DP:GL:GQ 1/1:0,75:75:-301.89,-22.59,-0.02:99
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chr1 5199083 rs549773 C A 400.22 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2265.19;QD=35.39;SB=-1149.37 GT:AD:DP:GL:GQ 1/1:0,64:63:-230.13,-18.98,-0.02:99
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chr1 5199801 rs663998 C G 667.78 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.24;MQ0=1;OQ=2933.78;QD=41.91;SB=-1382.38 GT:AD:DP:GL:GQ 1/1:0,70:68:-296.98,-20.49,-0.02:99
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chr1 5199984 rs663142 G T 300.03 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=57.88;MQ0=0;OQ=2524.52;QD=34.58;SB=-1263.12 GT:AD:DP:GL:GQ 1/1:0,73:71:-256.06,-21.39,-0.02:99
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chr1 5200020 rs663106 T C 288.64 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.94;MQ0=0;OQ=2324.56;QD=29.06;SB=-1068.20 GT:AD:DP:GL:GQ 1/1:0,80:72:-236.10,-21.71,-0.06:99
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chr1 5201096 rs35339923 C T 25.91 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=0.74;MQ=59.27;MQ0=0;OQ=2513.57;QD=39.90;SB=-919.70 GT:AD:DP:GL:GQ 1/1:0,63:63:-254.96,-18.98,-0.02:99
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chr1 5201932 rs611422 T C 369.89 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=2205.79;QD=33.94;SB=-980.06 GT:AD:DP:GL:GQ 1/1:0,65:62:-224.19,-18.68,-0.02:99
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chr1 5201978 rs534321 A C 83.24 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.68;MQ0=0;OQ=2498.46;QD=34.23;SB=-901.19 GT:AD:DP:GL:GQ 1/1:0,73:73:-253.46,-21.99,-0.03:99
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chr1 5202029 rs534188 C T 644.23 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.84;MQ0=0;OQ=2223.00;QD=39.70;SB=-899.19 GT:AD:DP:GL:GQ 1/1:0,56:56:-225.90,-16.87,-0.02:99
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chr1 5202175 rs12125575 G A 578.75 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=51.13;MQ0=0;OQ=1740.25;QD=37.03;SB=-800.07 GT:AD:DP:GL:GQ 1/1:0,47:44:-177.62,-13.25,-0.01:99
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chr1 5202200 rs610133 T C 141.51 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=49.73;MQ0=0;OQ=1399.83;QD=30.43;SB=-711.63 GT:AD:DP:GL:GQ 1/1:0,46:41:-143.59,-12.36,-0.02:99
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chr1 5202222 rs511282 G T 609.56 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=50.02;MQ0=0;OQ=2299.71;QD=34.32;SB=-1138.31 GT:AD:DP:GL:GQ 1/1:0,67:64:-233.58,-19.28,-0.02:99
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chr1 5202265 rs599481 G T 595.11 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=49.58;MQ0=0;OQ=2113.87;QD=33.55;SB=-993.43 GT:AD:DP:GL:GQ 1/1:0,63:58:-214.99,-17.47,-0.02:99
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chr1 5202388 rs12066405 A G 127.75 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=51.98;MQ0=0;OQ=2322.85;QD=33.66;SB=-1080.10 GT:AD:DP:GL:GQ 1/1:0,69:65:-235.89,-19.58,-0.02:99
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chr1 5202422 . T G 419.39 Indel AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=66.39;MQ=43.53;MQ0=0;QD=7.23;SB=-202.77 GT:AD:DP:GL:GQ 0/1:38,20:51:-60.59,-15.36,-121.07:99
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chr1 5202441 rs12071111 G A 97.09 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=3.61;MQ=40.65;MQ0=0;OQ=1838.51;QD=34.69;SB=-927.74 GT:AD:DP:GL:GQ 1/1:1,52:48:-187.45,-14.46,-0.02:99
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chr1 5202467 rs12067585 T G 27.99 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=0.10;MQ=52.14;MQ0=0;OQ=1141.50;QD=32.61;SB=-417.26 GT:AD:DP:GL:GQ 1/1:0,35:33:-117.74,-9.94,-0.01:99
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chr1 5202510 rs10915390 T C 6.38 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=45.77;MQ0=0;OQ=1492.54;QD=28.70;SB=-582.99 GT:AD:DP:GL:GQ 1/1:0,52:46:-152.88,-13.87,-0.04:99
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chr1 5202536 rs10915391 A G 576.79 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=40.09;MQ0=0;OQ=1719.08;QD=33.06;SB=-769.98 GT:AD:DP:GL:GQ 1/1:0,52:48:-175.51,-14.46,-0.01:99
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chr1 5202563 . A G 1303.98 SnpCluster AC=2;AF=1.00;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=5.87;MQ=34.10;MQ0=0;QD=25.08;SB=-434.46 GT:AD:DP:GL:GQ 1/1:0,52:39:-134.00,-11.75,-0.02:99
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chr1 5202564 . T C 1560.70 SnpCluster AC=2;AF=1.00;AN=2;DP=52;Dels=0.00;HRun=2;HaplotypeScore=5.87;MQ=34.10;MQ0=0;QD=30.01;SB=-450.83 GT:AD:DP:GL:GQ 1/1:1,51:44:-159.67,-13.26,-0.02:99
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chr1 5202566 . C T 1713.62 SnpCluster AC=2;AF=1.00;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.22;MQ=34.87;MQ0=0;QD=32.95;SB=-454.10 GT:AD:DP:GL:GQ 1/1:0,51:43:-174.96,-12.95,-0.01:99
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chr1 5202576 rs12134110 C T 0.75 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=6.13;MQ=37.89;MQ0=0;OQ=1873.93;QD=33.46;SB=-544.73 GT:AD:DP:GL:GQ 1/1:1,55:47:-190.99,-14.16,-0.01:99
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chr1 5202767 rs2986185 A G 288.60 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=54.20;MQ0=0;OQ=2264.33;QD=34.84;SB=-1153.44 GT:AD:DP:GL:GQ 1/1:0,65:64:-230.04,-19.28,-0.02:99
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chr1 5202796 rs2945617 T C 352.06 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.10;MQ0=0;OQ=1791.40;QD=27.99;SB=-839.97 GT:AD:DP:GL:GQ 1/1:0,64:58:-182.79,-17.50,-0.06:99
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chr1 5202844 rs2986184 C G 260.78 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=52.86;MQ0=0;OQ=2380.85;QD=40.35;SB=-1080.09 GT:AD:DP:GL:GQ 1/1:0,59:56:-241.69,-16.88,-0.02:99
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chr1 5202908 . C T 49.09 PASS AC=2;AF=1.00;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=56.41;MQ0=0;OQ=1679.71;QD=37.33;SB=-834.36 GT:AD:DP:GL:GQ 1/1:0,45:42:-171.56,-12.65,-0.01:99
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chr1 5203231 rs480807 G A 112.83 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=1.65;MQ=59.13;MQ0=0;OQ=2991.96;QD=39.89;SB=-1079.44 GT:AD:DP:GL:GQ 1/1:0,75:75:-302.81,-22.60,-0.03:99
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chr1 5203306 rs6687834 C T 621.90 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3055.40;QD=39.68;SB=-1315.34 GT:AD:DP:GL:GQ 1/1:0,77:77:-309.15,-23.20,-0.02:99
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chr1 5203354 rs584498 C T 147.71 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.38;MQ0=0;OQ=2983.67;QD=38.25;SB=-1435.37 GT:AD:DP:GL:GQ 1/1:0,78:75:-301.97,-22.59,-0.02:99
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chr1 5203671 rs582779 C A 167.92 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=2146.95;QD=35.78;SB=-804.85 GT:AD:DP:GL:GQ 1/1:0,60:60:-218.30,-18.08,-0.02:99
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chr1 5203886 rs474456 G C 148.15 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.48;MQ=58.03;MQ0=0;OQ=2254.35;QD=39.55;SB=-1087.49 GT:AD:DP:GL:GQ 1/1:0,57:55:-229.05,-16.59,-0.04:99
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chr1 5203943 rs473685 T C 568.01 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.84;MQ0=0;OQ=1941.75;QD=35.30;SB=-734.93 GT:AD:DP:GL:GQ 1/1:0,55:55:-197.78,-16.57,-0.02:99
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chr1 5204037 rs472768 C A 257.84 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=53.49;MQ0=0;OQ=2116.13;QD=35.87;SB=-808.86 GT:AD:DP:GL:GQ 1/1:0,59:58:-215.21,-17.47,-0.01:99
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chr1 5204179 rs561169 C T 180.12 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.63;MQ0=0;OQ=1666.79;QD=32.68;SB=-839.97 GT:AD:DP:GL:GQ 1/1:0,51:44:-170.29,-13.26,-0.02:99
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chr1 5204268 rs677650 G C 32.68 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=41.36;MQ0=0;OQ=1911.63;QD=39.01;SB=-915.40 GT:AD:DP:GL:GQ 1/1:0,49:46:-194.77,-13.87,-0.02:99
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chr1 5204556 rs676589 T A 738.91 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.27;MQ0=0;OQ=2559.35;QD=36.56;SB=-1189.80 GT:AD:DP:GL:GQ 1/1:0,70:69:-259.54,-20.78,-0.02:99
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chr1 5204733 rs675738 T C 27.97 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=2.20;MQ=59.17;MQ0=0;OQ=1658.38;QD=29.61;SB=-662.81 GT:AD:DP:GL:GQ 1/1:0,56:52:-169.47,-15.68,-0.05:99
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chr1 5204883 rs9439546 G A 532.03 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2940.91;QD=38.70;SB=-1192.36 GT:AD:DP:GL:GQ 1/1:0,76:75:-297.70,-22.60,-0.03:99
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chr1 5204955 rs674820 A G 79.68 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.76;MQ=59.62;MQ0=0;OQ=2113.60;QD=34.65;SB=-990.71 GT:AD:DP:GL:GQ 1/1:0,61:60:-214.97,-18.07,-0.02:99
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chr1 5204998 rs674421 C T 11.79 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=4.18;MQ=59.19;MQ0=0;OQ=2200.64;QD=38.61;SB=-746.99 GT:AD:DP:GL:GQ 1/1:0,57:55:-223.66,-16.57,-0.01:99
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chr1 5205224 rs673451 T G 405.18 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.91;MQ0=0;OQ=1733.87;QD=28.90;SB=-756.83 GT:AD:DP:GL:GQ 1/1:0,60:55:-177.02,-16.58,-0.05:99
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chr1 5206120 rs56397638 C T 43.03 Indel;LowQual AC=1;AF=0.50;AN=2;DB;DP=18;Dels=0.00;HRun=1;HaplotypeScore=3.09;MQ=48.93;MQ0=0;QD=2.39;SB=-0.99 GT:AD:DP:GL:GQ 0/1:15,3:17:-12.71,-5.12,-48.36:75.87
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chr1 5206410 . T C 0.40 PASS AC=2;AF=1.00;AN=2;DP=39;Dels=0.00;HRun=2;HaplotypeScore=1.63;MQ=56.77;MQ0=0;OQ=1364.10;QD=34.98;SB=-316.12 GT:AD:DP:GL:GQ 1/1:0,39:38:-140.01,-11.45,-0.01:99
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chr1 5206681 rs12121640 A C 71.98 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.51;MQ0=0;OQ=1679.67;QD=32.93;SB=-387.04 GT:AD:DP:GL:GQ 1/1:0,51:47:-171.57,-14.16,-0.01:99
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chr1 5206700 rs12125074 G A 98.48 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=58.12;MQ0=0;OQ=2000.17;QD=37.74;SB=-489.65 GT:AD:DP:GL:GQ 1/1:0,53:50:-203.61,-15.06,-0.01:99
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chr1 5208394 rs7549686 T C 327.06 PASS AC=2;AF=1.00;AN=2;DB;DP=94;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3436.97;QD=36.56;SB=-1599.67 GT:AD:DP:GL:GQ 1/1:0,94:93:-342.70,-28.01,-0.02:99
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chr1 5209527 rs12135834 C T 124.99 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=2736.25;QD=39.66;SB=-1253.04 GT:AD:DP:GL:GQ 1/1:0,69:68:-277.22,-20.48,-0.01:99
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chr1 5209757 rs12128282 G A 708.74 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=2355.65;QD=38.62;SB=-1039.67 GT:AD:DP:GL:GQ 1/1:0,61:59:-239.17,-17.77,-0.02:99
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chr1 5210118 rs4465222 T C 132.90 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.97;MQ0=0;OQ=1268.12;QD=28.18;SB=-489.53 GT:AD:DP:GL:GQ 1/1:0,45:42:-130.45,-12.68,-0.06:99
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chr1 5210152 rs4465223 T C 176.23 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.16;MQ0=0;OQ=1621.75;QD=29.49;SB=-654.28 GT:AD:DP:GL:GQ 1/1:0,55:51:-165.81,-15.38,-0.05:99
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chr1 5210469 rs6686714 G T 712.77 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1971.04;QD=35.20;SB=-893.62 GT:AD:DP:GL:GQ 1/1:0,56:56:-200.71,-16.87,-0.02:99
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chr1 5211244 rs6603825 T C 594.56 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=2173.03;QD=35.62;SB=-828.31 GT:AD:DP:GL:GQ 1/1:0,61:60:-220.91,-18.07,-0.02:99
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chr1 5211435 . C T 25.65 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.22;MQ=59.65;MQ0=0;OQ=960.07;QD=17.78;SB=-418.78 GT:AD:DP:GL:GQ 0/1:25,29:53:-115.26,-15.97,-85.03:99
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chr1 5212025 rs4475768 T G 354.90 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=695.32;QD=14.19;SB=-234.36 GT:AD:DP:GL:GQ 0/1:24,25:49:-87.57,-14.76,-89.97:99
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chr1 5212226 rs494046 T C 148.80 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=2779.20;QD=29.88;SB=-1328.52 GT:AD:DP:GL:GQ 1/1:0,93:88:-281.58,-26.54,-0.08:99
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chr1 5213428 . A G 11.97 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.03;MQ=58.55;MQ0=0;OQ=408.80;QD=8.52;SB=-93.78 GT:AD:DP:GL:GQ 0/1:27,21:44:-57.43,-13.27,-96.36:99
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chr1 5213524 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=71.93;MQ=50.54;MQ0=0;OQ=502.87;QD=9.14;SB=-189.21 GT:AD:DP:GL:GQ 0/1:37,18:47:-67.73,-14.16,-102.82:99
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chr1 5213770 rs6658152 C T 45.87 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=60.00;MQ0=0;OQ=1572.39;QD=38.35;SB=-554.31 GT:AD:DP:GL:GQ 1/1:0,41:41:-160.84,-12.35,-0.02:99
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chr1 5215271 . A G 38.30 PASS AC=2;AF=1.00;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=1.20;MQ=59.60;MQ0=0;OQ=1692.08;QD=29.17;SB=-770.59 GT:AD:DP:GL:GQ 1/1:0,57:55:-172.85,-16.59,-0.06:99
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chr1 5217813 . G C 1.18 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=9.11;MQ=58.35;MQ0=1;OQ=1164.43;QD=14.38;SB=-426.29 GT:AD:DP:GL:GQ 0/1:49,32:77:-142.93,-23.20,-194.98:99
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chr1 5217931 rs4847582 C G 145.68 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.66;MQ0=0;OQ=1509.42;QD=22.20;SB=-480.86 GT:AD:DP:GL:GQ 0/1:26,42:66:-174.11,-19.89,-110.01:99
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chr1 5218042 rs4847581 A T 229.68 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.31;MQ0=0;OQ=560.70;QD=9.19;SB=-151.08 GT:AD:DP:GL:GQ 0/1:39,22:59:-77.12,-17.77,-150.88:99
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chr1 5218412 rs12089315 C T 695.85 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2655.40;QD=40.23;SB=-1167.53 GT:AD:DP:GL:GQ 1/1:0,66:65:-269.14,-19.58,-0.01:99
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chr1 5218922 rs55929300 C T 250.89 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=2.25;MQ=58.35;MQ0=0;OQ=749.84;QD=14.42;SB=-372.87 GT:AD:DP:GL:GQ 0/1:29,23:51:-93.64,-15.37,-91.04:99
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chr1 5218923 rs2945619 A G 55.86 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.25;MQ=58.42;MQ0=0;OQ=1817.82;QD=33.66;SB=-828.90 GT:AD:DP:GL:GQ 1/1:0,54:53:-185.39,-15.97,-0.03:99
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chr1 5219162 . C T 26.36 PASS AC=1;AF=0.50;AN=2;DP=84;Dels=0.00;HRun=2;HaplotypeScore=0.93;MQ=59.78;MQ0=0;OQ=1260.89;QD=15.01;SB=-475.42 GT:AD:DP:GL:GQ 0/1:46,38:84:-154.67,-25.30,-167.04:99
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chr1 5220394 rs632798 A G 319.28 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=1931.82;QD=32.74;SB=-775.98 GT:AD:DP:GL:GQ 1/1:0,59:54:-196.78,-16.27,-0.02:99
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chr1 5221239 rs11584035 A G 510.42 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2162.59;QD=34.33;SB=-1003.74 GT:AD:DP:GL:GQ 1/1:0,63:61:-219.86,-18.37,-0.02:99
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chr1 5221301 rs11585734 G C 28.93 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=58.47;MQ0=0;OQ=2416.76;QD=43.16;SB=-843.33 GT:AD:DP:GL:GQ 1/1:0,56:55:-245.27,-16.57,-0.01:99
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chr1 5221482 rs34835703 A T 2939.50 Indel AC=2;AF=1.00;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=3.98;MQ=58.65;MQ0=0;QD=31.95;SB=-1078.25 GT:AD:DP:GL:GQ 1/1:2,89:87:-306.96,-29.45,-9.42:99
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chr1 5221725 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=60;Dels=0.03;HRun=18;HaplotypeScore=39.80;MQ=52.31;MQ0=0;OQ=152.15;QD=2.54;SB=47.14 GT:AD:DP:GL:GQ 0/1:40,18:43:-30.85,-12.35,-114.35:99
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chr1 5222078 rs972257 T A 639.98 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.18;MQ0=0;OQ=3168.88;QD=37.28;SB=-1120.55 GT:AD:DP:GL:GQ 1/1:0,85:85:-320.49,-25.60,-0.02:99
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chr1 5222126 rs972256 A G 626.95 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=2639.54;QD=35.19;SB=-1126.78 GT:AD:DP:GL:GQ 1/1:0,75:75:-267.56,-22.59,-0.03:99
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chr1 5224091 rs499416 T C 297.77 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=59.44;MQ0=0;OQ=2957.76;QD=36.07;SB=-1259.50 GT:AD:DP:GL:GQ 1/1:0,82:82:-299.39,-24.70,-0.03:99
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chr1 5224457 rs681122 A G 116.50 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.67;MQ0=0;OQ=2663.18;QD=31.70;SB=-1024.35 GT:AD:DP:GL:GQ 1/1:0,84:81:-269.96,-24.42,-0.06:99
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chr1 5224547 rs503246 T C 2.42 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=6.13;MQ=59.67;MQ0=0;OQ=2425.86;QD=34.66;SB=-1136.77 GT:AD:DP:GL:GQ 1/1:0,69:69:-249.69,-23.90,-3.52:99
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chr1 5224600 rs504015 G A 107.71 PASS AC=2;AF=1.00;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=59.36;MQ0=0;OQ=3623.40;QD=38.14;SB=-1734.33 GT:AD:DP:GL:GQ 1/1:1,94:92:-361.34,-27.72,-0.04:99
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chr1 5225244 rs34916930 A G 210.97 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.75;MQ=59.23;MQ0=0;OQ=766.73;QD=12.78;SB=-281.64 GT:AD:DP:GL:GQ 0/1:31,29:57:-97.13,-17.17,-122.94:99
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chr1 5225286 rs1614164 A G 116.44 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=59.11;MQ0=0;OQ=1503.00;QD=28.90;SB=-584.52 GT:AD:DP:GL:GQ 1/1:0,52:49:-153.94,-14.79,-0.06:99
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chr1 5225305 rs531507 T C 127.86 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=59.05;MQ0=0;OQ=1485.28;QD=30.31;SB=-700.80 GT:AD:DP:GL:GQ 1/1:0,49:47:-152.15,-14.18,-0.04:99
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chr1 5225319 rs531541 G A 341.76 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.53;MQ0=0;OQ=776.62;QD=15.85;SB=-311.30 GT:AD:DP:GL:GQ 0/1:25,24:46:-94.81,-13.86,-73.71:99
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chr1 5225584 rs12139398 G T 64.15 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=3;HaplotypeScore=2.68;MQ=59.09;MQ0=0;OQ=1255.53;QD=16.52;SB=-636.75 GT:AD:DP:GL:GQ 0/1:35,41:76:-151.73,-22.89,-120.82:99
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chr1 5225784 rs648378 G A 217.93 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=3051.49;QD=38.63;SB=-1366.03 GT:AD:DP:GL:GQ 1/1:0,79:77:-308.76,-23.20,-0.02:99
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chr1 5225910 rs536995 T C 659.19 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2238.13;QD=31.52;SB=-1141.80 GT:AD:DP:GL:GQ 1/1:0,71:69:-227.45,-20.80,-0.05:99
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chr1 5226194 rs646542 C A 53.96 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=2.51;MQ=59.52;MQ0=0;OQ=616.21;QD=12.84;SB=-186.21 GT:AD:DP:GL:GQ 0/1:25,23:46:-78.77,-13.86,-80.93:99
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chr1 5227007 rs17422703 C T 447.59 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=653.00;QD=13.89;SB=-346.50 GT:AD:DP:GL:GQ 0/1:27,20:47:-82.75,-14.17,-88.07:99
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chr1 5227141 rs479689 T C 634.35 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2577.54;QD=35.80;SB=-1149.80 GT:AD:DP:GL:GQ 1/1:0,72:72:-261.36,-21.69,-0.02:99
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chr1 5227198 rs631837 T G 470.17 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=1038.21;QD=12.98;SB=-481.28 GT:AD:DP:GL:GQ 0/1:42,38:78:-130.60,-23.49,-142.85:99
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chr1 5227509 rs2945620 A G 463.41 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.71;MQ0=0;OQ=1887.53;QD=34.95;SB=-718.20 GT:AD:DP:GL:GQ 1/1:0,54:53:-192.35,-15.96,-0.02:99
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chr1 5227512 rs2986190 C G 581.25 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.76;MQ0=0;OQ=2178.35;QD=38.90;SB=-696.39 GT:AD:DP:GL:GQ 1/1:0,56:54:-221.45,-16.29,-0.03:99
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chr1 5227592 rs484203 C G 505.04 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.30;MQ0=0;OQ=1740.53;QD=36.26;SB=-435.04 GT:AD:DP:GL:GQ 1/1:0,48:44:-177.67,-13.27,-0.03:99
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chr1 5227620 rs2945621 C T 184.65 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=58.52;MQ0=0;OQ=2108.36;QD=38.33;SB=-729.97 GT:AD:DP:GL:GQ 1/1:0,54:54:-216.99,-18.70,-2.57:99
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chr1 5228455 rs605572 G A 158.70 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.08;MQ0=0;OQ=2364.59;QD=38.76;SB=-1049.40 GT:AD:DP:GL:GQ 1/1:0,61:59:-240.06,-17.77,-0.01:99
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chr1 5228485 rs547366 A G 151.91 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.43;MQ=59.32;MQ0=0;OQ=1644.48;QD=29.90;SB=-746.94 GT:AD:DP:GL:GQ 1/1:0,55:53:-168.09,-15.99,-0.05:99
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chr1 5228494 rs547375 T C 432.28 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.06;MQ0=0;OQ=1148.89;QD=28.72;SB=-518.83 GT:AD:DP:GL:GQ 1/1:0,40:38:-118.51,-11.46,-0.04:99
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chr1 5228675 rs549178 A C 608.96 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1844.59;QD=34.16;SB=-895.07 GT:AD:DP:GL:GQ 1/1:0,54:53:-188.06,-15.96,-0.02:99
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chr1 5229041 rs552154 A G 144.86 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=1.05;MQ=58.33;MQ0=0;OQ=2394.34;QD=35.74;SB=-1030.76 GT:AD:DP:GL:GQ 1/1:0,67:67:-243.04,-20.18,-0.02:99
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chr1 5229075 rs694316 A G 16.95 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=2;HaplotypeScore=2.71;MQ=58.29;MQ0=0;OQ=1696.38;QD=32.62;SB=-808.31 GT:AD:DP:GL:GQ 1/1:0,52:49:-173.25,-14.76,-0.02:99
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chr1 5229079 rs574063 A C 47.22 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=2.27;MQ=58.29;MQ0=0;OQ=1690.52;QD=32.51;SB=-775.03 GT:AD:DP:GL:GQ 1/1:0,52:50:-172.66,-15.06,-0.02:99
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chr1 5229195 rs2986189 T C 594.24 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1695.13;QD=33.24;SB=-849.99 GT:AD:DP:GL:GQ 1/1:0,50:49:-173.12,-14.76,-0.02:99
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chr1 5229410 rs590229 A G 533.32 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.69;MQ0=0;OQ=1626.39;QD=32.53;SB=-702.18 GT:AD:DP:GL:GQ 1/1:0,50:47:-166.24,-14.16,-0.02:99
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chr1 5229454 rs576935 T C 291.30 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=2227.88;QD=34.81;SB=-1091.09 GT:AD:DP:GL:GQ 1/1:0,64:63:-226.40,-18.98,-0.03:99
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chr1 5229643 rs589314 C T 702.68 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3349.31;QD=39.87;SB=-1157.05 GT:AD:DP:GL:GQ 1/1:0,84:83:-333.93,-25.00,-0.02:99
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chr1 5229725 rs579467 T C 242.79 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=1.46;MQ=59.13;MQ0=0;OQ=1575.01;QD=29.72;SB=-809.29 GT:AD:DP:GL:GQ 1/1:0,53:51:-161.14,-15.39,-0.05:99
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chr1 5229840 rs580404 G A 618.34 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=2841.67;QD=38.93;SB=-1151.68 GT:AD:DP:GL:GQ 1/1:0,73:73:-287.78,-22.00,-0.03:99
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chr1 5229963 rs587619 A G 627.90 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.05;MQ0=0;OQ=1527.65;QD=31.18;SB=-661.80 GT:AD:DP:GL:GQ 1/1:0,49:48:-156.40,-14.48,-0.05:99
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chr1 5230068 rs684796 A G 654.33 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1910.04;QD=31.31;SB=-776.75 GT:AD:DP:GL:GQ 1/1:0,61:59:-194.63,-17.79,-0.04:99
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chr1 5230099 rs493993 T C 52.25 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=2.40;MQ=60.00;MQ0=0;OQ=1531.39;QD=30.03;SB=-555.88 GT:AD:DP:GL:GQ 1/1:0,51:49:-156.77,-14.78,-0.05:99
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chr1 5230146 rs494138 C T 565.44 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1901.52;QD=38.03;SB=-812.08 GT:AD:DP:GL:GQ 1/1:0,50:49:-193.76,-14.77,-0.02:99
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chr1 5230400 rs683361 C T 576.16 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=2445.96;QD=38.22;SB=-885.63 GT:AD:DP:GL:GQ 1/1:0,64:64:-248.21,-19.29,-0.03:99
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chr1 5230419 rs683326 A C 444.54 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=2097.81;QD=32.78;SB=-733.04 GT:AD:DP:GL:GQ 1/1:0,64:59:-213.39,-17.77,-0.02:99
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chr1 5230522 rs497780 C T 280.11 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.26;MQ=59.44;MQ0=0;OQ=2456.36;QD=36.66;SB=-1135.53 GT:AD:DP:GL:GQ 1/1:0,66:64:-249.25,-19.29,-0.03:99
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chr1 5230617 rs682425 A C 128.19 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.82;MQ=60.00;MQ0=0;OQ=2329.64;QD=34.26;SB=-803.08 GT:AD:DP:GL:GQ 1/1:1,67:66:-236.57,-19.88,-0.02:99
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chr1 5230727 rs499639 G A 152.07 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=59.28;MQ0=0;OQ=1710.74;QD=26.73;SB=-582.87 GT:AD:DP:GL:GQ 1/1:0,37:64:-256.74,-99.73,-82.08:99
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chr1 5230993 rs17423021 C T 275.08 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=60.00;MQ0=0;OQ=870.39;QD=18.52;SB=-403.16 GT:AD:DP:GL:GQ 0/1:21,26:47:-104.48,-14.16,-73.19:99
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chr1 5231281 rs695100 T C 614.40 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1962.66;QD=33.84;SB=-961.65 GT:AD:DP:GL:GQ 1/1:0,58:57:-199.88,-17.17,-0.03:99
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chr1 5231434 rs2860250 T G 608.99 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1940.74;QD=34.66;SB=-919.09 GT:AD:DP:GL:GQ 1/1:0,56:55:-197.68,-16.57,-0.02:99
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chr1 5231440 rs2353173 G T 713.73 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2174.12;QD=33.45;SB=-1013.52 GT:AD:DP:GL:GQ 1/1:0,65:62:-221.02,-18.68,-0.02:99
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chr1 5231533 rs4290073 G A 106.58 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=59.20;MQ0=0;OQ=1041.27;QD=12.86;SB=-342.41 GT:AD:DP:GL:GQ 0/1:49,32:81:-131.81,-24.39,-179.39:99
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chr1 5231729 rs2945622 G A 619.13 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=2286.02;QD=38.75;SB=-1132.51 GT:AD:DP:GL:GQ 1/1:0,59:57:-232.20,-17.17,-0.01:99
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chr1 5231775 rs4633300 T C 80.14 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=2.27;MQ=58.86;MQ0=0;OQ=2147.74;QD=35.21;SB=-1067.79 GT:AD:DP:GL:GQ 1/1:0,61:61:-218.38,-18.38,-0.02:99
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chr1 5231808 rs10799186 T C 608.79 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.88;MQ0=0;OQ=2059.90;QD=33.22;SB=-1027.00 GT:AD:DP:GL:GQ 1/1:0,62:60:-209.61,-18.08,-0.04:99
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chr1 5231809 rs10799187 G C 596.93 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.91;MQ0=0;OQ=2598.74;QD=40.61;SB=-1318.71 GT:AD:DP:GL:GQ 1/1:0,64:61:-263.48,-18.38,-0.02:99
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chr1 5231833 rs530731 G C 494.40 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2447.16;QD=42.19;SB=-1018.28 GT:AD:DP:GL:GQ 1/1:0,58:58:-248.32,-17.48,-0.02:99
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chr1 5231988 rs614111 C A 590.46 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=1949.76;QD=35.45;SB=-809.87 GT:AD:DP:GL:GQ 1/1:0,55:54:-198.57,-16.26,-0.01:99
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chr1 5231995 rs614102 A G 590.99 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=2129.07;QD=36.09;SB=-828.32 GT:AD:DP:GL:GQ 1/1:0,59:59:-216.51,-17.77,-0.02:99
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chr1 5232537 rs558175 T A 537.54 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2470.42;QD=36.33;SB=-1158.53 GT:AD:DP:GL:GQ 1/1:0,68:67:-250.65,-20.18,-0.02:99
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chr1 5232779 rs560794 T A 637.12 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2459.58;QD=36.17;SB=-1165.07 GT:AD:DP:GL:GQ 1/1:0,68:66:-249.56,-19.88,-0.02:99
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chr1 5232782 rs600322 G A 160.84 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.65;MQ0=0;OQ=2495.29;QD=38.39;SB=-1228.15 GT:AD:DP:GL:GQ 1/1:0,65:64:-253.13,-19.28,-0.02:99
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chr1 5232864 rs599884 A G 212.34 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.42;MQ0=0;OQ=2139.99;QD=35.08;SB=-951.99 GT:AD:DP:GL:GQ 1/1:0,61:60:-217.60,-18.07,-0.02:99
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chr1 5233339 rs598031 G A 300.26 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.38;MQ0=0;OQ=2603.20;QD=38.85;SB=-1265.68 GT:AD:DP:GL:GQ 1/1:0,66:66:-263.92,-19.88,-0.02:99
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chr1 5233376 rs587228 C T 292.53 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.99;MQ0=0;OQ=2392.78;QD=39.88;SB=-1196.59 GT:AD:DP:GL:GQ 1/1:0,60:60:-242.88,-18.07,-0.02:99
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chr1 5233377 rs476866 A G 630.33 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.01;MQ0=0;OQ=2129.35;QD=34.91;SB=-1082.46 GT:AD:DP:GL:GQ 1/1:0,61:60:-216.54,-18.07,-0.02:99
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chr1 5233422 rs476993 T C 95.16 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=58.92;MQ0=0;OQ=1891.61;QD=33.78;SB=-702.84 GT:AD:DP:GL:GQ 1/1:1,55:55:-192.78,-16.58,-0.03:99
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chr1 5233779 rs56260836 C T 250.27 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=59.69;MQ0=0;OQ=907.86;QD=15.13;SB=-369.08 GT:AD:DP:GL:GQ 0/1:31,29:57:-111.25,-17.18,-100.79:99
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chr1 5234072 rs504647 G A 600.46 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2853.54;QD=40.19;SB=-1415.37 GT:AD:DP:GL:GQ 1/1:0,71:71:-288.96,-21.39,-0.02:99
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chr1 5234128 rs7551166 T C 37.81 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=4.51;MQ=60.00;MQ0=0;OQ=837.05;QD=13.29;SB=-326.85 GT:AD:DP:GL:GQ 0/1:34,29:63:-105.96,-18.97,-138.54:99
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chr1 5234274 rs583170 C A 510.70 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=1124.36;QD=17.57;SB=-381.75 GT:AD:DP:GL:GQ 0/1:28,36:64:-134.99,-19.28,-100.59:99
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chr1 5234483 rs12746195 G T 448 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=60.00;MQ0=0;OQ=907.18;QD=14.87;SB=-443.17 GT:AD:DP:GL:GQ 0/1:30,31:60:-112.07,-18.07,-106.20:99
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chr1 5234497 rs12732868 T G 365.79 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.80;MQ=60.00;MQ0=0;OQ=834.65;QD=13.04;SB=-431.76 GT:AD:DP:GL:GQ 0/1:33,31:62:-105.43,-18.68,-118.96:99
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chr1 5234595 rs12747559 C T 411.30 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=59.66;MQ0=0;OQ=1103.55;QD=16.23;SB=-461.98 GT:AD:DP:GL:GQ 0/1:32,36:64:-132.93,-19.29,-98.65:99
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chr1 5234628 rs12746515 G A 395.10 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.70;MQ0=0;OQ=1407.50;QD=18.04;SB=-722.08 GT:AD:DP:GL:GQ 0/1:37,41:75:-166.64,-22.60,-112.02:99
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chr1 5234751 rs12747870 C T 314.20 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=2.20;MQ=59.17;MQ0=0;OQ=991.08;QD=14.57;SB=-434.89 GT:AD:DP:GL:GQ 0/1:38,30:67:-122.57,-20.18,-136.08:99
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chr1 5234796 rs12729227 A T 285.02 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=58.68;MQ0=0;OQ=635.81;QD=9.49;SB=-240.21 GT:AD:DP:GL:GQ 0/1:44,23:66:-86.75,-19.88,-161.14:99
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chr1 5234855 rs12746867 G A 137.48 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=3;HaplotypeScore=0.48;MQ=58.86;MQ0=0;OQ=803.94;QD=13.18;SB=-392.38 GT:AD:DP:GL:GQ 0/1:35,26:59:-101.45,-17.77,-122.51:99
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chr1 5234867 rs12729373 A G 399.72 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.62;MQ0=0;OQ=739.47;QD=12.12;SB=-312.22 GT:AD:DP:GL:GQ 0/1:35,26:61:-95.60,-18.37,-142.14:99
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chr1 5235030 rs55729623 C G 87.40 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=4.84;MQ=59.98;MQ0=0;OQ=961.43;QD=16.30;SB=-383.64 GT:AD:DP:GL:GQ 0/1:26,33:53:-115.42,-16.00,-99.45:99
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chr1 5235034 . G A 5.72 PASS AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=5.25;MQ=59.98;MQ0=0;OQ=618.09;QD=9.97;SB=-190.00 GT:AD:DP:GL:GQ 0/1:34,27:51:-82.91,-17.82,-96.99:99
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chr1 5235136 rs17457156 T C 138.33 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=3.41;MQ=59.24;MQ0=0;OQ=556.94;QD=9.13;SB=-82.80 GT:AD:DP:GL:GQ 0/1:34,26:58:-79.46,-20.48,-139.05:99
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