Mercurial > repos > devteam > vcfdistance
diff test-data/vcfdistance-test1.vcf @ 0:6e0fc18309f4 draft
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| author | devteam |
|---|---|
| date | Thu, 19 Mar 2015 14:26:53 -0400 |
| parents | |
| children | 48e458c721b3 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/vcfdistance-test1.vcf Thu Mar 19 14:26:53 2015 -0400 @@ -0,0 +1,29 @@ +##fileformat=VCFv4.0 +##fileDate=20090805 +##source=myImputationProgramV3.1 +##reference=1000GenomesPilot-NCBI36 +##phasing=partial +##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data"> +##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> +##INFO=<ID=AC,Number=.,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed"> +##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth"> +##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency"> +##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele"> +##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129"> +##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership"> +##FILTER=<ID=q10,Description="Quality below 10"> +##FILTER=<ID=s50,Description="Less than 50% of samples have data"> +##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> +##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> +##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> +##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality"> +##ALT=<ID=DEL:ME:ALU,Description="Deletion of ALU element"> +##ALT=<ID=CNV,Description="Copy number variable region"> +##INFO=<ID=BasesToClosestVariant,Number=1,Type=Integer,Description="Number of bases to the closest variant in the file."> +#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA00001 NA00002 NA00003 +19 111 . A C 9.6 . BasesToClosestVariant=1 GT:HQ 0|0:10,10 0|0:10,10 0/1:3,3 +19 112 . A G 10 . BasesToClosestVariant=1 GT:HQ 0|0:10,10 0|0:10,10 0/1:3,3 +20 17330 . T A 3 q10 AF=0.017;BasesToClosestVariant=1093366;DP=11;NS=3 GT:GQ:DP:HQ 0|0:49:3:58,50 0|1:3:5:65,3 0/0:41:3:.,. +20 1110696 rs6040355 A G,T 67 PASS AA=T;AF=0.333,0.667;BasesToClosestVariant=119541;DP=10;NS=2;DB GT:GQ:DP:HQ 1|2:21:6:23,27 2|1:2:0:18,2 2/2:35:4:.,. +20 1230237 . T . 47 PASS AA=T;BasesToClosestVariant=4330;DP=13;NS=3 GT:GQ:DP:HQ 0|0:54:.:56,60 0|0:48:4:51,51 0/0:61:2:.,. +20 1234567 microsat1 G GA,GAC 50 PASS AA=G;AC=3,1;AN=6;BasesToClosestVariant=670;DP=9;NS=3 GT:GQ:DP 0/1:.:4 0/2:17:2 1/1:40:3