t/data/example.vcf

   1 ##fileformat=VCFv4.0
   2 ##fileDate=20090805
   3 ##source=myImputationProgramV3.1
   4 ##reference=1000GenomesPilot-NCBI36
   5 ##phasing=partial
   6 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
   7 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
   8 ##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency">
   9 ##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele">
  10 ##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129">
  11 ##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership">
  12 ##FILTER=<ID=q10,Description="Quality below 10">
  13 ##FILTER=<ID=s50,Description="Less than 50% of samples have data">
  14 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
  15 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
  16 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
  17 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
  18 #CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    FORMAT  NA00001 NA00002 NA00003
  19 20      14370   rs6054257       G       A       29      PASS    NS=3;DP=14;AF=0.5;DB;H2 GT:GQ:DP:HQ     0|0:48:1:51,51  1|0:48:8:51,51  1/1:43:5:.,.
  20 20      17330   .       T       A       3       q10     NS=3;DP=11;AF=0.017     GT:GQ:DP:HQ     0|0:49:3:58,50  0|1:3:5:65,3    0/0:41:3
  21 20      1110696 rs6040355       A       G,T     67      PASS    NS=2;DP=10;AF=0.333,0.667;AA=T;DB       GT:GQ:DP:HQ     1|2:21:6:23,27  2|1:2:0:18,2    2/2:35:4
  22 20      1230237 .       T       .       47      PASS    NS=3;DP=13;AA=T GT:GQ:DP:HQ     0|0:54:7:56,60  0|0:48:4:51,51  0/0:61:2
  23 20      1234567 microsat1       GTCT    G,GTACT 50      PASS    NS=3;DP=9;AA=G  GT:GQ:DP        0/1:35:4        0/2:17:2        1/1:40:3
  24