31 lines
3.6 KiB
Plaintext
31 lines
3.6 KiB
Plaintext
##fileformat=VCFv4.1
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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=RD,Number=1,Type=Integer,Description="Read Depth (only filtered reads used for calling)">
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##source=UnifiedGenotyper
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##reference=human_b36_both.fasta
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##INFO=<ID=AlleleBalance,Number=A,Type=Float,Description="Allele balance">
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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=AFrange,Number=2,Type=String,Description="Allele Frequency, for each ALT allele, in the same order as listed">
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##INFO=<ID=DoC,Number=1,Type=Integer,Description="Filtered Depth">
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##INFO=<ID=FisherStrand,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias">
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##INFO=<ID=HomopolymerRun,Number=1,Type=Integer,Description="Largest Contiguous Homopolymer Run of Variant Allele In Either Direction">
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##INFO=<ID=OnOffGenotype,Number=1,Type=Float,Description="No idea">
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##INFO=<ID=NS,Number=1,Type=Float,Description="Number of samples">
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##INFO=<ID=RMSMAPQ,Number=1,Type=Float,Description="RMS Mapping Quality">
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##INFO=<ID=MAPQ0,Number=1,Type=Integer,Description="Total Mapping Quality Zero Reads">
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##INFO=<ID=SB,Number=1,Type=Float,Description="Strand bias">
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##INFO=<ID=SpanningDeletions,Number=1,Type=Integer,Description="No spanning deletions">
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#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA12878
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1 10001292 . G A 42.22 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.57;DoC=23;FisherStrand=3.8;HomopolymerRun=0;MAPQ0=8;NS=1;OnOffGenotype=1.00;RMSMAPQ=46.31;SB=-24.92;SpanningDeletions=0 GT:RD:GQ 1/0:23:19.28
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1 10002963 . C G 42.22 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.47;DoC=30;FisherStrand=24.1;HomopolymerRun=0;MAPQ0=0;NS=1;OnOffGenotype=1.00;RMSMAPQ=81.91;SB=-41.73;SpanningDeletions=0 GT:RD:GQ 0/1:30:33.07
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1 10005008 . A T 123.78 . AF=1.00;AFrange=0.50-1.00,95%;DoC=30;HomopolymerRun=6;MAPQ0=2;NS=1;OnOffGenotype=1.00;RMSMAPQ=61.05;SB=-75.45;SpanningDeletions=1 GT:RD:GQ 1/1:30:8.26
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1 10006296 . C T 42.23 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.33;DoC=7;FisherStrand=-0.0;HomopolymerRun=0;MAPQ0=11;NS=1;OnOffGenotype=0.86;RMSMAPQ=46.62;SB=-0.04;SpanningDeletions=0 GT:RD:GQ 0/1:7:2.91
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1 10023478 . G C 84.23 . AF=1.00;AFrange=0.50-1.00,95%;DoC=27;HomopolymerRun=1;MAPQ0=10;NS=1;OnOffGenotype=0.85;RMSMAPQ=42.16;SB=-48.38;SpanningDeletions=0 GT:RD:GQ 1/1:27:4.03
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1 10029362 . T C 42.22 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.52;DoC=44;FisherStrand=4.5;HomopolymerRun=0;MAPQ0=0;NS=1;OnOffGenotype=0.95;RMSMAPQ=81.28;SB=-42.22;SpanningDeletions=0 GT:RD:GQ 1/0:44:36.62
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1 10042312 . G C 31.81 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.70;DoC=24;FisherStrand=28.7;HomopolymerRun=1;MAPQ0=0;NS=1;OnOffGenotype=0.96;RMSMAPQ=85.07;SB=0.00;SpanningDeletions=0 GT:RD:GQ 1/0:24:5.85
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1 10044557 . C T 42.22 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.68;DoC=31;FisherStrand=11.8;HomopolymerRun=16;MAPQ0=0;NS=1;OnOffGenotype=1.00;RMSMAPQ=85.34;SB=-0.00;SpanningDeletions=0 GT:RD:GQ 0/1:31:15.01
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1 10045603 . A G 40.26 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.64;DoC=15;FisherStrand=5.8;HomopolymerRun=0;MAPQ0=19;NS=1;OnOffGenotype=0.93;RMSMAPQ=40.53;SB=-0.00;SpanningDeletions=0 GT:RD:GQ 0/1:15:7.94
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1 10048142 . A G 126.81 . AF=1.00;AFrange=0.50-1.00,95%;DoC=36;HomopolymerRun=4;MAPQ0=0;NS=1;OnOffGenotype=0.94;RMSMAPQ=82.11;SB=-85.45;SpanningDeletions=0 GT:RD:GQ 1/1:36:9.14
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1 10048580 . T A 42.22 . AF=0.50;AFrange=0.50-0.50,95%;AlleleBalance=0.69;DoC=33;FisherStrand=3.3;HomopolymerRun=6;MAPQ0=0;NS=1;OnOffGenotype=0.97;RMSMAPQ=84.45;SB=-27.41;SpanningDeletions=0 GT:RD:GQ 1/0:33:23.49
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