30 lines
3.5 KiB
Plaintext
30 lines
3.5 KiB
Plaintext
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##fileformat=VCFv4.1
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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=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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##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
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##INFO=<ID=AC,Number=A,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=A,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=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt Vs. Ref base qualities">
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##INFO=<ID=DP,Number=1,Type=Integer,Description="Filtered Depth">
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##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?">
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##INFO=<ID=Dels,Number=1,Type=Float,Description="Fraction of Reads Containing Spanning Deletions">
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##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias">
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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 at most two segregating haplotypes">
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##INFO=<ID=InbreedingCoeff,Number=1,Type=Float,Description="Inbreeding coefficient as estimated from the genotype likelihoods per-sample when compared against the Hardy-Weinberg expectation">
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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=MQRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref read mapping qualities">
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##INFO=<ID=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth">
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##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias">
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##INFO=<ID=SB,Number=1,Type=Float,Description="Strand Bias">
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#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA12878
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1 10001292 . G A 232.46 . AC=1;AF=0.50;AN=2;BaseQRankSum=1.161;DP=42;Dels=0.00;FS=2.473;HRun=0;HaplotypeScore=13.4505;MQ=146.79;MQ0=7;MQRankSum=0.203;QD=5.53;ReadPosRankSum=0.755;SB=-71.63 AD:DP:GQ:PL 26,15:42:99:262,0,342
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1 10002963 . C G 353.51 . AC=1;AF=0.50;AN=2;BaseQRankSum=0.482;DP=39;Dels=0.00;FS=14.955;HRun=0;HaplotypeScore=7.6316;MQ=141.59;MQ0=0;MQRankSum=-0.570;QD=9.06;ReadPosRankSum=-0.102;SB=-77.88 GT:AD:DP:GQ:PL 0/1:20,19:39:99:384,0,431
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1 10006296 . C T 211.09 . AC=1;AF=0.50;AN=2;BaseQRankSum=1.943;DP=30;Dels=0.00;FS=2.447;HRun=0;HaplotypeScore=2.0641;MQ=157.99;MQ0=11;MQRankSum=-0.088;QD=7.04;ReadPosRankSum=-0.265;SB=-26.24 GT:AD:DP:GQ:PL 0/1:20,9:30:99:241,0,168
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1 10010283 . G T 33.53 . AC=1;AF=0.50;AN=2;BaseQRankSum=1.799;DP=30;Dels=0.03;FS=0.000;HRun=12;HaplotypeScore=11.2879;MQ=130.30;MQ0=6;MQRankSum=1.694;QD=1.12;ReadPosRankSum=1.694;SB=3.00 GT:AD:DP:GQ:PL 0/1:23,6:29:63.52:64,0,308
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1 10012424 . A G 54.59 . AC=1;AF=0.50;AN=2;BaseQRankSum=-2.172;DP=64;Dels=0.03;FS=9.275;HRun=1;HaplotypeScore=27.5831;MQ=122.43;MQ0=9;MQRankSum=3.753;QD=0.85;ReadPosRankSum=2.547;SB=17.94 AD:DP:GQ:PL 53,7:62:84.59:85,0,1105
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