250 lines
25 KiB
Plaintext
250 lines
25 KiB
Plaintext
##fileformat=VCFv4.1
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##FILTER=<ID=NC,Description="Inconsistent Genotype Submission For At Least One Sample">
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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=ASP,Number=0,Type=Flag,Description="Is Assembly specific. This is set if the variant only maps to one assembly">
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##INFO=<ID=ASS,Number=0,Type=Flag,Description="In acceptor splice site FxnCode = 73">
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##INFO=<ID=CDA,Number=0,Type=Flag,Description="Variation is interrogated in a clinical diagnostic assay">
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##INFO=<ID=CFL,Number=0,Type=Flag,Description="Has Assembly conflict. This is for weight 1 and 2 variant that maps to different chromosomes on different assemblies.">
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##INFO=<ID=CLN,Number=0,Type=Flag,Description="Variant is Clinical(LSDB,OMIM,TPA,Diagnostic)">
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##INFO=<ID=DSS,Number=0,Type=Flag,Description="In donor splice-site FxnCode = 75">
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##INFO=<ID=G5,Number=0,Type=Flag,Description=">5% minor allele frequency in 1+ populations">
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##INFO=<ID=G5A,Number=0,Type=Flag,Description=">5% minor allele frequency in each and all populations">
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##INFO=<ID=GCF,Number=0,Type=Flag,Description="Has Genotype Conflict Same (rs, ind), different genotype. N/N is not included.">
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##INFO=<ID=GENEINFO,Number=1,Type=String,Description="Pairs each of gene symbol:gene id. The gene symbol and id are delimited by a colon (:) and each pair is delimited by a vertical bar (|)">
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##INFO=<ID=GMAF,Number=1,Type=Float,Description="Global Minor Allele Frequency [0, 0.5]; global population is 1000GenomesProject phase 1 genotype data from 629 individuals, released in the 08-04-2010 dataset">
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##INFO=<ID=GNO,Number=0,Type=Flag,Description="Genotypes available. The variant has individual genotype (in SubInd table).">
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##INFO=<ID=HD,Number=0,Type=Flag,Description="Marker is on high density genotyping kit (50K density or greater). The variant may have phenotype associations present in dbGaP.">
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##INFO=<ID=INT,Number=0,Type=Flag,Description="In Intron FxnCode = 6">
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##INFO=<ID=KGPROD,Number=0,Type=Flag,Description="1000 Genome production phase">
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##INFO=<ID=KGPilot1,Number=0,Type=Flag,Description="1000 Genome discovery(pilot1) 2009">
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##INFO=<ID=KGPilot123,Number=0,Type=Flag,Description="1000 Genome discovery all pilots 2010(1,2,3)">
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##INFO=<ID=KGVAL,Number=0,Type=Flag,Description="1000 Genome validated by second method">
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##INFO=<ID=LSD,Number=0,Type=Flag,Description="Submitted from a locus-specific database">
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##INFO=<ID=MTP,Number=0,Type=Flag,Description="Microattribution/third-party annotation(TPA:GWAS,PAGE)">
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##INFO=<ID=MUT,Number=0,Type=Flag,Description="Is mutation (journal citation, explicit fact): a low frequency variation that is cited in journal and other reputable sources">
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##INFO=<ID=NOC,Number=0,Type=Flag,Description="Contig allele not present in variant allele list. The reference sequence allele at the mapped position is not present in the variant allele list, adjusted for orientation.">
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##INFO=<ID=NOV,Number=0,Type=Flag,Description="Rs cluster has non-overlapping allele sets. True when rs set has more than 2 alleles from different submissions and these sets share no alleles in common.">
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##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
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##INFO=<ID=NSF,Number=0,Type=Flag,Description="Has non-synonymous frameshift A coding region variation where one allele in the set changes all downstream amino acids. FxnClass = 44">
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##INFO=<ID=NSM,Number=0,Type=Flag,Description="Has non-synonymous missense A coding region variation where one allele in the set changes protein peptide. FxnClass = 42">
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##INFO=<ID=NSN,Number=0,Type=Flag,Description="Has non-synonymous nonsense A coding region variation where one allele in the set changes to STOP codon (TER). FxnClass = 41">
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##INFO=<ID=OM,Number=0,Type=Flag,Description="Has OMIM/OMIA">
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##INFO=<ID=OTH,Number=0,Type=Flag,Description="Has other variant with exactly the same set of mapped positions on NCBI refernce assembly.">
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##INFO=<ID=PH1,Number=0,Type=Flag,Description="Phase 1 genotyped: filtered, non-redundant">
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##INFO=<ID=PH2,Number=0,Type=Flag,Description="Phase 2 genotyped: filtered, non-redundant">
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##INFO=<ID=PH3,Number=0,Type=Flag,Description="Phase 3 genotyped: filtered, non-redundant">
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##INFO=<ID=PM,Number=0,Type=Flag,Description="Variant is Precious(Clinical,Pubmed Cited)">
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##INFO=<ID=PMC,Number=0,Type=Flag,Description="Links exist to PubMed Central article">
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##INFO=<ID=R3,Number=0,Type=Flag,Description="In 3' gene region FxnCode = 13">
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##INFO=<ID=R5,Number=0,Type=Flag,Description="In 5' gene region FxnCode = 15">
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##INFO=<ID=REF,Number=0,Type=Flag,Description="Has reference A coding region variation where one allele in the set is identical to the reference sequence. FxnCode = 8">
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##INFO=<ID=RSPOS,Number=1,Type=Integer,Description="Chr position reported in dbSNP">
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##INFO=<ID=RV,Number=0,Type=Flag,Description="RS orientation is reversed">
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##INFO=<ID=S3D,Number=0,Type=Flag,Description="Has 3D structure - SNP3D table">
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##INFO=<ID=SAO,Number=1,Type=Integer,Description="Variant Allele Origin: 0 - unspecified, 1 - Germline, 2 - Somatic, 3 - Both">
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##INFO=<ID=SCS,Number=1,Type=Integer,Description="Variant Clinical Significance, 0 - unknown, 1 - untested, 2 - non-pathogenic, 3 - probable-non-pathogenic, 4 - probable-pathogenic, 5 - pathogenic, 6 - drug-response, 7 - histocompatibility, 255 - other">
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##INFO=<ID=SLO,Number=0,Type=Flag,Description="Has SubmitterLinkOut - From SNP->SubSNP->Batch.link_out">
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##INFO=<ID=SSR,Number=1,Type=Integer,Description="Variant Suspect Reason Code, 0 - unspecified, 1 - Paralog, 2 - byEST, 3 - Para_EST, 4 - oldAlign, 5 - other">
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##INFO=<ID=SYN,Number=0,Type=Flag,Description="Has synonymous A coding region variation where one allele in the set does not change the encoded amino acid. FxnCode = 3">
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##INFO=<ID=TPA,Number=0,Type=Flag,Description="Provisional Third Party Annotation(TPA) (currently rs from PHARMGKB who will give phenotype data)">
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##INFO=<ID=U3,Number=0,Type=Flag,Description="In 3' UTR Location is in an untranslated region (UTR). FxnCode = 53">
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##INFO=<ID=U5,Number=0,Type=Flag,Description="In 5' UTR Location is in an untranslated region (UTR). FxnCode = 55">
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##INFO=<ID=VC,Number=1,Type=String,Description="Variation Class">
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##INFO=<ID=VLD,Number=0,Type=Flag,Description="Is Validated. This bit is set if the variant has 2+ minor allele count based on frequency or genotype data.">
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##INFO=<ID=VP,Number=1,Type=String,Description="Variation Property">
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##INFO=<ID=WGT,Number=1,Type=Integer,Description="Weight, 00 - unmapped, 1 - weight 1, 2 - weight 2, 3 - weight 3 or more">
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##INFO=<ID=WTD,Number=0,Type=Flag,Description="Is Withdrawn by submitter If one member ss is withdrawn by submitter, then this bit is set. If all member ss' are withdrawn, then the rs is deleted to SNPHistory">
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##INFO=<ID=dbSNPBuildID,Number=1,Type=Integer,Description="First dbSNP Build for RS">
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##LeftAlignVariants="analysis_type=LeftAlignVariants input_file=[] read_buffer_size=null phone_home=STANDARD read_filter=[] intervals=null excludeIntervals=null interval_set_rule=UNION interval_merging=ALL reference_sequence=/humgen/gsa-hpprojects/GATK/bundle/current/b37/human_g1k_v37.fasta rodBind=[] nonDeterministicRandomSeed=false downsampling_type=BY_SAMPLE downsample_to_fraction=null downsample_to_coverage=1000 baq=OFF baqGapOpenPenalty=40.0 performanceLog=null useOriginalQualities=false defaultBaseQualities=-1 validation_strictness=SILENT unsafe=null num_threads=1 read_group_black_list=null pedigree=[] pedigreeString=[] pedigreeValidationType=STRICT allow_intervals_with_unindexed_bam=false disable_experimental_low_memory_sharding=false logging_level=INFO log_to_file=null help=false variant=(RodBinding name=variant source=00-All.vcf) out=org.broadinstitute.sting.gatk.io.stubs.VCFWriterStub NO_HEADER=org.broadinstitute.sting.gatk.io.stubs.VCFWriterStub sites_only=org.broadinstitute.sting.gatk.io.stubs.VCFWriterStub filter_mismatching_base_and_quals=false"
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##contig=<ID=1,length=249250621,assembly=b37>
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##contig=<ID=10,length=135534747,assembly=b37>
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##contig=<ID=11,length=135006516,assembly=b37>
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##contig=<ID=12,length=133851895,assembly=b37>
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##contig=<ID=13,length=115169878,assembly=b37>
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##contig=<ID=14,length=107349540,assembly=b37>
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##contig=<ID=15,length=102531392,assembly=b37>
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##contig=<ID=16,length=90354753,assembly=b37>
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##contig=<ID=17,length=81195210,assembly=b37>
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##contig=<ID=18,length=78077248,assembly=b37>
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##contig=<ID=19,length=59128983,assembly=b37>
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##contig=<ID=2,length=243199373,assembly=b37>
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##contig=<ID=20,length=63025520,assembly=b37>
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##contig=<ID=21,length=48129895,assembly=b37>
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##contig=<ID=22,length=51304566,assembly=b37>
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##contig=<ID=3,length=198022430,assembly=b37>
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##contig=<ID=4,length=191154276,assembly=b37>
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##contig=<ID=5,length=180915260,assembly=b37>
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##contig=<ID=6,length=171115067,assembly=b37>
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##contig=<ID=7,length=159138663,assembly=b37>
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##contig=<ID=8,length=146364022,assembly=b37>
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##contig=<ID=9,length=141213431,assembly=b37>
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##contig=<ID=GL000191.1,length=106433,assembly=b37>
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##contig=<ID=GL000192.1,length=547496,assembly=b37>
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##contig=<ID=GL000193.1,length=189789,assembly=b37>
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##contig=<ID=GL000194.1,length=191469,assembly=b37>
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##contig=<ID=GL000195.1,length=182896,assembly=b37>
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##contig=<ID=GL000196.1,length=38914,assembly=b37>
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##contig=<ID=GL000197.1,length=37175,assembly=b37>
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##contig=<ID=GL000198.1,length=90085,assembly=b37>
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##contig=<ID=GL000199.1,length=169874,assembly=b37>
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##contig=<ID=GL000200.1,length=187035,assembly=b37>
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##contig=<ID=GL000201.1,length=36148,assembly=b37>
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##contig=<ID=GL000202.1,length=40103,assembly=b37>
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##contig=<ID=GL000203.1,length=37498,assembly=b37>
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##contig=<ID=GL000204.1,length=81310,assembly=b37>
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##contig=<ID=GL000205.1,length=174588,assembly=b37>
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##contig=<ID=GL000206.1,length=41001,assembly=b37>
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##contig=<ID=GL000207.1,length=4262,assembly=b37>
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##contig=<ID=GL000208.1,length=92689,assembly=b37>
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##contig=<ID=GL000209.1,length=159169,assembly=b37>
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##contig=<ID=GL000210.1,length=27682,assembly=b37>
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##contig=<ID=GL000211.1,length=166566,assembly=b37>
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##contig=<ID=GL000212.1,length=186858,assembly=b37>
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##contig=<ID=GL000213.1,length=164239,assembly=b37>
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##contig=<ID=GL000214.1,length=137718,assembly=b37>
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##contig=<ID=GL000215.1,length=172545,assembly=b37>
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##contig=<ID=GL000216.1,length=172294,assembly=b37>
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##contig=<ID=GL000217.1,length=172149,assembly=b37>
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##contig=<ID=GL000218.1,length=161147,assembly=b37>
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##contig=<ID=GL000219.1,length=179198,assembly=b37>
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##contig=<ID=GL000220.1,length=161802,assembly=b37>
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##contig=<ID=GL000221.1,length=155397,assembly=b37>
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##contig=<ID=GL000222.1,length=186861,assembly=b37>
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##contig=<ID=GL000223.1,length=180455,assembly=b37>
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##contig=<ID=GL000224.1,length=179693,assembly=b37>
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##contig=<ID=GL000225.1,length=211173,assembly=b37>
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##contig=<ID=GL000226.1,length=15008,assembly=b37>
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##contig=<ID=GL000227.1,length=128374,assembly=b37>
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##contig=<ID=GL000228.1,length=129120,assembly=b37>
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##contig=<ID=GL000229.1,length=19913,assembly=b37>
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##contig=<ID=GL000230.1,length=43691,assembly=b37>
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##contig=<ID=GL000231.1,length=27386,assembly=b37>
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##contig=<ID=GL000232.1,length=40652,assembly=b37>
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##contig=<ID=GL000233.1,length=45941,assembly=b37>
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##contig=<ID=GL000234.1,length=40531,assembly=b37>
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##contig=<ID=GL000235.1,length=34474,assembly=b37>
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##contig=<ID=GL000236.1,length=41934,assembly=b37>
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##contig=<ID=GL000237.1,length=45867,assembly=b37>
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##contig=<ID=GL000238.1,length=39939,assembly=b37>
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##contig=<ID=GL000239.1,length=33824,assembly=b37>
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##contig=<ID=GL000240.1,length=41933,assembly=b37>
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##contig=<ID=GL000241.1,length=42152,assembly=b37>
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##contig=<ID=GL000242.1,length=43523,assembly=b37>
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##contig=<ID=GL000243.1,length=43341,assembly=b37>
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##contig=<ID=GL000244.1,length=39929,assembly=b37>
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##contig=<ID=GL000245.1,length=36651,assembly=b37>
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##contig=<ID=GL000246.1,length=38154,assembly=b37>
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##contig=<ID=GL000247.1,length=36422,assembly=b37>
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##contig=<ID=GL000248.1,length=39786,assembly=b37>
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##contig=<ID=GL000249.1,length=38502,assembly=b37>
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##contig=<ID=MT,length=16569,assembly=b37>
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##contig=<ID=X,length=155270560,assembly=b37>
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##contig=<ID=Y,length=59373566,assembly=b37>
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##dbSNP_BUILD_ID=135
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##fileDate=20111104
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##phasing=partial
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##reference=GRCh37.3
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##reference=file:///humgen/gsa-hpprojects/GATK/bundle/current/b37/human_g1k_v37.fasta
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##source=dbSNP
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##variationPropertyDocumentationUrl=ftp://ftp.ncbi.nlm.nih.gov/snp/specs/dbSNP_BitField_latest.pdf
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#CHROM POS ID REF ALT QUAL FILTER INFO
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1 10144 rs144773400 TA T . PASS ASP;RSPOS=10145;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=134
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1 10228 rs143255646 TA T . PASS ASP;RSPOS=10229;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=134
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1 10234 rs145599635 C T . PASS ASP;RSPOS=10234;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 10248 rs148908337 A T . PASS ASP;RSPOS=10248;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 10254 rs140194106 TA T . PASS ASP;RSPOS=10255;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=134
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1 10291 rs145427775 C T . PASS ASP;RSPOS=10291;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 10327 rs112750067 T C . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=10327;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=132
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1 10329 rs150969722 AC A . PASS ASP;RSPOS=10330;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=134
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1 10351 rs145072688 CTA C,CA . PASS ASP;RSPOS=10352;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=134
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1 10382 rs147093981 AAC A,AC . PASS ASP;RSPOS=10383;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=134
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1 10433 rs56289060 A AC . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=10433;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=129
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1 10439 rs112766696 AC A . PASS ASP;GENEINFO=LOC100652771:100652771;GNO;RSPOS=10440;SAO=0;SLO;SSR=0;VC=DIV;VP=050100000004000100000200;WGT=0;dbSNPBuildID=132
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1 10439 rs138941843 AC A . PASS ASP;RSPOS=10440;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=134
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1 10440 rs112155239 C A . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=10440;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=132
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1 10492 rs55998931 C T . PASS ASP;GENEINFO=LOC100652771:100652771;GMAF=0.0617001828153565;RSPOS=10492;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004040000000100;WGT=0;dbSNPBuildID=129
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1 10519 rs62636508 G C . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=10519;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=129
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1 10583 rs58108140 G A . PASS ASP;GENEINFO=LOC100652771:100652771;GMAF=0.270566727605119;KGPilot123;RSPOS=10583;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004040010000100;WGT=0;dbSNPBuildID=129
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1 10611 rs189107123 C G . PASS KGPilot123;RSPOS=10611;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 10828 rs10218492 G A . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=10828;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=119
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1 10904 rs10218493 G A . PASS ASP;GENEINFO=LOC100652771:100652771;GNO;RSPOS=10904;SAO=0;SSR=0;VC=SNV;VP=050000000004000100000100;WGT=0;dbSNPBuildID=119
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1 10927 rs10218527 A G . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=10927;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=119
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1 10938 rs28853987 G A . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=10938;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=125
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1 11014 rs28484712 G A . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=11014;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=125
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1 11022 rs28775022 G A . PASS ASP;GENEINFO=LOC100652771:100652771;RSPOS=11022;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=125
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1 11081 rs10218495 G T . PASS CFL;GENEINFO=LOC100652771:100652771;GNO;RSPOS=11081;SAO=0;SSR=0;VC=SNV;VP=050000000008000100000100;WGT=0;dbSNPBuildID=119
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1 11863 rs187669455 C A . PASS RSPOS=11863;SAO=0;SSR=0;VC=SNV;VP=050000000000000000000100;WGT=0;dbSNPBuildID=135
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1 13302 rs180734498 C T . PASS KGPilot123;RSPOS=13302;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 13327 rs144762171 G C . PASS ASP;KGPilot123;RSPOS=13327;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 13684 rs71260404 C T . PASS GENEINFO=LOC100652771:100652771;GNO;RSPOS=13684;RV;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000000000100000100;WGT=0;dbSNPBuildID=130
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1 13980 rs151276478 T C . PASS ASP;KGPilot123;RSPOS=13980;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 14889 rs142444908 G A . PASS ASP;RSPOS=14889;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 14907 rs79585140 A G . PASS GNO;RSPOS=14907;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000000040100000100;WGT=0;dbSNPBuildID=131
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1 14930 rs75454623 A G . PASS GNO;RSPOS=14930;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000000040100000100;WGT=0;dbSNPBuildID=131
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1 14976 rs71252251 G A . PASS ASP;GNO;RSPOS=14976;RV;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000004000100000100;WGT=0;dbSNPBuildID=130
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1 15061 rs71268703 T TG . PASS ASP;GNO;RSPOS=15061;RV;SAO=0;SLO;SSR=0;VC=DIV;VP=050100000004000100000200;WGT=0;dbSNPBuildID=130
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1 15118 rs71252250 A G . PASS ASP;GNO;RSPOS=15118;RV;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000004000100000100;WGT=0;dbSNPBuildID=130
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1 15211 rs144718396 T G . PASS ASP;RSPOS=15211;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 15211 rs78601809 T G . PASS ASP;GNO;RSPOS=15211;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004040100000100;WGT=0;dbSNPBuildID=131
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1 16257 rs78588380 G C . PASS ASP;GNO;RSPOS=16257;SAO=0;SSR=0;VC=SNV;VP=050000000004000100000100;WGT=0;dbSNPBuildID=131
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1 16378 rs148220436 T C . PASS ASP;RSPOS=16378;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 16495 rs141130360 G C . PASS ASP;RSPOS=16495;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 16497 rs150723783 A G . PASS ASP;RSPOS=16497;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 17519 rs192890528 G T . PASS RSPOS=17519;SAO=0;SSR=0;VC=SNV;VP=050000000000000000000100;WGT=0;dbSNPBuildID=135
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1 19226 rs138930629 T A . PASS ASP;RSPOS=19226;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 20141 rs56336884 G A . PASS HD;RSPOS=20141;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000000000400000100;WGT=0;dbSNPBuildID=129
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1 20144 rs143346096 G A . PASS ASP;RSPOS=20144;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 20206 rs71262675 C T . PASS GNO;RSPOS=20206;RV;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000000000100000100;WGT=0;dbSNPBuildID=130
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1 20245 rs71262674 G A . PASS GMAF=0.256398537477148;GNO;RSPOS=20245;RV;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000000000100000100;WGT=0;dbSNPBuildID=130
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1 20304 rs71262673 G C . PASS GMAF=0.338208409506399;GNO;RSPOS=20304;RV;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000000000100000100;WGT=0;dbSNPBuildID=130
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1 26999 rs147506580 A G . PASS ASP;RSPOS=26999;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 29436 rs2462493 G A . PASS GNO;RSPOS=29436;SAO=0;SSR=0;VC=SNV;VP=050000000000000100000100;WGT=0;dbSNPBuildID=100
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1 30923 rs140337953 G T . PASS ASP;KGPilot123;RSPOS=30923;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 33487 rs77459554 C T . PASS ASP;GNO;RSPOS=33487;SAO=0;SSR=0;VC=SNV;VP=050000000004000100000100;WGT=0;dbSNPBuildID=131
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1 33495 rs75468675 C T . PASS ASP;GNO;RSPOS=33495;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004040100000100;WGT=0;dbSNPBuildID=131
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1 33505 rs75627161 T C . PASS ASP;GNO;RSPOS=33505;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004040100000100;WGT=0;dbSNPBuildID=131
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1 33508 rs75609629 A T . PASS ASP;GNO;RSPOS=33508;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004040100000100;WGT=0;dbSNPBuildID=131
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1 33521 rs76098219 T A . PASS GNO;RSPOS=33521;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000000040100000100;WGT=0;dbSNPBuildID=131
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1 33593 rs557585 G A . PASS RSPOS=33593;SAO=0;SSR=0;VC=SNV;VP=050000000000000000000100;WGT=0;dbSNPBuildID=83
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1 33648 rs62028204 G T . PASS RSPOS=33648;RV;SAO=0;SSR=0;VC=SNV;VP=050000000000000000000100;WGT=0;dbSNPBuildID=129
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1 33656 rs113821789 T C . PASS RSPOS=33656;RV;SAO=0;SSR=0;VC=SNV;VP=050000000000000000000100;WGT=0;dbSNPBuildID=132
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1 51476 rs187298206 T C . PASS KGPilot123;RSPOS=51476;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 51479 rs116400033 T A . PASS ASP;G5;G5A;GMAF=0.113802559414991;KGPilot123;RSPOS=51479;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004070010000100;WGT=0;dbSNPBuildID=132
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1 51803 rs62637812 T C . PASS GMAF=0.468921389396709;RSPOS=51803;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000000040000000100;WGT=0;dbSNPBuildID=129
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1 51898 rs76402894 C A . PASS GMAF=0.0731261425959781;GNO;RSPOS=51898;SAO=0;SSR=0;VC=SNV;VP=050000000000000100000100;WGT=0;dbSNPBuildID=131
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1 51914 rs190452223 T G . PASS KGPilot123;RSPOS=51914;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 51928 rs78732933 G A . PASS GNO;RSPOS=51928;SAO=0;SSR=0;VC=SNV;VP=050000000000000100000100;WGT=0;dbSNPBuildID=131
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1 51935 rs181754315 C T . PASS KGPilot123;RSPOS=51935;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 51954 rs185832753 G C . PASS KGPilot123;RSPOS=51954;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 52058 rs62637813 G C . PASS GMAF=0.0342778793418647;KGPilot123;RSPOS=52058;SAO=0;SSR=1;VC=SNV;VLD;VP=050000000000040010000140;WGT=0;dbSNPBuildID=129
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1 52144 rs190291950 T A . PASS KGPilot123;RSPOS=52144;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 52238 rs150021059 T G . PASS ASP;KGPilot123;RSPOS=52238;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 54353 rs140052487 C A . PASS ASP;KGPilot123;RSPOS=54353;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 54421 rs146477069 A G . PASS ASP;KGPilot123;RSPOS=54421;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 54490 rs141149254 G A . PASS ASP;KGPilot123;RSPOS=54490;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 54676 rs2462492 C T . PASS ASP;GMAF=0.191956124314442;GNO;HD;KGPilot123;RSPOS=54676;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004040510000100;WGT=0;dbSNPBuildID=100
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1 54753 rs143174675 T G . PASS ASP;KGPilot123;RSPOS=54753;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 54788 rs59861892 CC C,CCT . PASS ASP;RSPOS=54789;SAO=0;SSR=0;VC=DIV;VP=050000000004000000000200;WGT=0;dbSNPBuildID=129
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1 54795 rs58014817 T A . PASS ASP;RSPOS=54795;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=129
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1 55164 rs3091274 C A . PASS G5;G5A;GMAF=0.145338208409506;GNO;KGPilot123;RSPOS=55164;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000000030110000100;WGT=0;dbSNPBuildID=103
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1 55299 rs10399749 C T . PASS G5;G5A;GMAF=0.278793418647166;GNO;KGPilot123;PH2;RSPOS=55299;SAO=0;SLO;SSR=0;VC=SNV;VP=050100000000030112000100;WGT=0;dbSNPBuildID=119
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1 55302 rs3091273 C T . PASS RSPOS=55302;SAO=0;SSR=0;VC=SNV;VP=050000000000000000000100;WGT=0;dbSNPBuildID=103
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1 55313 rs182462964 A T . PASS KGPilot123;RSPOS=55313;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55322 rs3107974 C T . PASS RSPOS=55322;SAO=0;SSR=0;VC=SNV;VP=050000000000000000000100;WGT=0;dbSNPBuildID=103
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1 55326 rs3107975 T C . PASS GNO;HD;KGPilot123;RSPOS=55326;SAO=0;SSR=0;VC=SNV;VP=050000000000000510000100;WGT=0;dbSNPBuildID=103
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1 55330 rs185215913 G A . PASS KGPilot123;RSPOS=55330;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55367 rs190850374 G A . PASS KGPilot123;RSPOS=55367;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55388 rs182711216 C T . PASS KGPilot123;RSPOS=55388;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55394 rs2949420 T A . PASS GNO;KGPilot123;PH2;RSPOS=55394;SAO=0;SSR=0;VC=SNV;VP=050000000000000112000100;WGT=0;dbSNPBuildID=101
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1 55416 rs193242050 G A . PASS KGPilot123;RSPOS=55416;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55427 rs183189405 T C . PASS KGPilot123;RSPOS=55427;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55545 rs28396308 C T . PASS GNO;RSPOS=55545;SAO=0;SSR=0;VC=SNV;VP=050000000000000100000100;WGT=0;dbSNPBuildID=125
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1 55816 rs187434873 G A . PASS KGPilot123;RSPOS=55816;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55850 rs191890754 C G . PASS KGPilot123;RSPOS=55850;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 55852 rs184233019 G C . PASS KGPilot123;RSPOS=55852;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 56644 rs143342222 A C . PASS ASP;KGPilot123;RSPOS=56644;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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1 57952 rs189727433 A C . PASS KGPilot123;RSPOS=57952;SAO=0;SSR=0;VC=SNV;VP=050000000000000010000100;WGT=0;dbSNPBuildID=135
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1 58771 rs140128481 T C . PASS ASP;RSPOS=58771;SAO=0;SSR=0;VC=SNV;VP=050000000004000000000100;WGT=0;dbSNPBuildID=134
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1 58814 rs114420996 G A . PASS ASP;G5;GMAF=0.0982632541133455;KGPilot123;RSPOS=58814;SAO=0;SSR=0;VC=SNV;VLD;VP=050000000004050010000100;WGT=0;dbSNPBuildID=132
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1 59040 rs149755937 T C . PASS ASP;KGPilot123;RSPOS=59040;SAO=0;SSR=0;VC=SNV;VP=050000000004000010000100;WGT=0;dbSNPBuildID=134
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