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test.vcf
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test.vcf
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##fileformat=VCFv4.1
##FILTER=<ID=PASS,Description="Accept as a confident somatic mutation">
##FILTER=<ID=REJECT,Description="Rejected as a confident somatic mutation">
##FORMAT=<ID=AD,Number=.,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
##INFO=<ID=SOMATIC,Number=0,Type=Flag,Description="Somatic event">
##contig=<ID=1,length=249250621>
##contig=<ID=2,length=243199373>
##contig=<ID=3,length=198022430>
##contig=<ID=4,length=191154276>
##contig=<ID=5,length=180915260>
##contig=<ID=6,length=171115067>
##contig=<ID=7,length=159138663>
##contig=<ID=8,length=146364022>
##contig=<ID=9,length=141213431>
##contig=<ID=10,length=135534747>
##contig=<ID=11,length=135006516>
##contig=<ID=12,length=133851895>
##contig=<ID=13,length=115169878>
##contig=<ID=14,length=107349540>
##contig=<ID=15,length=102531392>
##contig=<ID=16,length=90354753>
##contig=<ID=17,length=81195210>
##contig=<ID=18,length=78077248>
##contig=<ID=19,length=59128983>
##contig=<ID=20,length=63025520>
##contig=<ID=21,length=48129895>
##contig=<ID=22,length=51304566>
##contig=<ID=X,length=155270560>
##contig=<ID=Y,length=59373566>
##contig=<ID=MT,length=16569>
##contig=<ID=GL000207.1,length=4262>
##contig=<ID=GL000226.1,length=15008>
##contig=<ID=GL000229.1,length=19913>
##contig=<ID=GL000231.1,length=27386>
##contig=<ID=GL000210.1,length=27682>
##contig=<ID=GL000239.1,length=33824>
##contig=<ID=GL000235.1,length=34474>
##contig=<ID=GL000201.1,length=36148>
##contig=<ID=GL000247.1,length=36422>
##contig=<ID=GL000245.1,length=36651>
##contig=<ID=GL000197.1,length=37175>
##contig=<ID=GL000203.1,length=37498>
##contig=<ID=GL000246.1,length=38154>
##contig=<ID=GL000249.1,length=38502>
##contig=<ID=GL000196.1,length=38914>
##contig=<ID=GL000248.1,length=39786>
##contig=<ID=GL000244.1,length=39929>
##contig=<ID=GL000238.1,length=39939>
##contig=<ID=GL000202.1,length=40103>
##contig=<ID=GL000234.1,length=40531>
##contig=<ID=GL000232.1,length=40652>
##contig=<ID=GL000206.1,length=41001>
##contig=<ID=GL000240.1,length=41933>
##contig=<ID=GL000236.1,length=41934>
##contig=<ID=GL000241.1,length=42152>
##contig=<ID=GL000243.1,length=43341>
##contig=<ID=GL000242.1,length=43523>
##contig=<ID=GL000230.1,length=43691>
##contig=<ID=GL000237.1,length=45867>
##contig=<ID=GL000233.1,length=45941>
##contig=<ID=GL000204.1,length=81310>
##contig=<ID=GL000198.1,length=90085>
##contig=<ID=GL000208.1,length=92689>
##contig=<ID=GL000191.1,length=106433>
##contig=<ID=GL000227.1,length=128374>
##contig=<ID=GL000228.1,length=129120>
##contig=<ID=GL000214.1,length=137718>
##contig=<ID=GL000221.1,length=155397>
##contig=<ID=GL000209.1,length=159169>
##contig=<ID=GL000218.1,length=161147>
##contig=<ID=GL000220.1,length=161802>
##contig=<ID=GL000213.1,length=164239>
##contig=<ID=GL000211.1,length=166566>
##contig=<ID=GL000199.1,length=169874>
##contig=<ID=GL000217.1,length=172149>
##contig=<ID=GL000216.1,length=172294>
##contig=<ID=GL000215.1,length=172545>
##contig=<ID=GL000205.1,length=174588>
##contig=<ID=GL000219.1,length=179198>
##contig=<ID=GL000224.1,length=179693>
##contig=<ID=GL000223.1,length=180455>
##contig=<ID=GL000195.1,length=182896>
##contig=<ID=GL000212.1,length=186858>
##contig=<ID=GL000222.1,length=186861>
##contig=<ID=GL000200.1,length=187035>
##contig=<ID=GL000193.1,length=189789>
##contig=<ID=GL000194.1,length=191469>
##contig=<ID=GL000225.1,length=211173>
##contig=<ID=GL000192.1,length=547496>
##contig=<ID=NC_007605,length=171823>
##reference=./ref_data/Homo_sapiens_assembly19.fasta
##normal_sample=p1_n
##tumor_sample=p1_t1
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT p1_n p1_t1
1 94643578 . C G . PASS SOMATIC AD 78.0,0 63.0,15.0
2 10559912 . C A . PASS SOMATIC AD 120.0,0 120.0,0.0
2 43926799 . A C . PASS SOMATIC AD 120.0,0 120.0,0.0
2 50758522 . C T . PASS SOMATIC AD 119.0,0 115.0,4.0
2 68873019 . G C . PASS SOMATIC AD 121.0,0 121.0,0.0
2 108488574 . G A . PASS SOMATIC AD 120.0,0 79.0,41.0
2 120439138 . T C . PASS SOMATIC AD 246.0,0 213.0,33.0
2 166781156 . A T . PASS SOMATIC AD 121.0,0 83.0,38.0
2 198570328 . C A . PASS SOMATIC AD 120.0,0 91.0,29.0
2 228553014 . A T . PASS SOMATIC AD 121.0,0 78.0,43.0
2 232665866 . G T . PASS SOMATIC AD 120.0,0 77.0,43.0
2 238726137 . A T . PASS SOMATIC AD 120.0,0 104.0,16.0
3 51429118 . C T . PASS SOMATIC AD 78.0,0 39.0,39.0
3 170879068 . C T . PASS SOMATIC AD 79.0,0 75.0,4.0
4 39409046 . C T . PASS SOMATIC AD 120.0,0 105.0,15.0
4 68784828 . T C . PASS SOMATIC AD 121.0,0 121.0,0.0
4 155510039 . A T . PASS SOMATIC AD 119.0,0 119.0,0.0
5 110710552 . A G . PASS SOMATIC AD 78.0,0 78.0,0.0
5 137593361 . A C . PASS SOMATIC AD 78.0,0 54.0,24.0
6 15501539 . A G . PASS SOMATIC AD 98.0,0 88.0,10.0
6 33288996 . G A . PASS SOMATIC AD 99.0,0 99.0,0.0
6 35995649 . T G . PASS SOMATIC AD 99.0,0 83.0,16.0
6 42790543 . A C . PASS SOMATIC AD 100.0,0 98.0,2.0
6 45405754 . T A . PASS SOMATIC AD 100.0,0 78.0,22.0
6 106968795 . G T . PASS SOMATIC AD 99.0,0 99.0,0.0
6 121631932 . G C . PASS SOMATIC AD 100.0,0 64.0,36.0
7 76891605 . A G . PASS SOMATIC AD 120.0,0 80.0,40.0
7 104783665 . T A . PASS SOMATIC AD 120.0,0 120.0,0.0
7 133894394 . A T . PASS SOMATIC AD 120.0,0 83.0,37.0
8 28929319 . G A . PASS SOMATIC AD 120.0,0 79.0,41.0
8 128748354 . C A . PASS SOMATIC AD 119.0,0 83.0,36.0
8 131136317 . C A . PASS SOMATIC AD 120.0,0 83.0,37.0
9 88270097 . T C . PASS SOMATIC AD 162.0,0 162.0,0.0
10 102789787 . T G . PASS SOMATIC AD 120.0,0 120.0,0.0
10 115986937 . T C . PASS SOMATIC AD 121.0,0 121.0,0.0
10 127344743 . G C . PASS SOMATIC AD 119.0,0 119.0,0.0
11 726966 . G T . PASS SOMATIC AD 79.0,0 42.0,37.0
11 2662123 . T C . PASS SOMATIC AD 77.0,0 73.0,4.0
11 89662570 . G T . PASS SOMATIC AD 78.0,0 78.0,0.0
11 104970126 . A C . PASS SOMATIC AD 80.0,0 78.0,2.0
12 43944947 . G C . PASS SOMATIC AD 120.0,0 76.0,44.0
12 102558318 . G T . PASS SOMATIC AD 114.0,0 69.0,45.0
13 29600796 . C A . PASS SOMATIC AD 120.0,0 120.0,0.0
13 46559625 . G C . PASS SOMATIC AD 120.0,0 120.0,0.0
14 23901852 . C A . PASS SOMATIC AD 119.0,0 119.0,0.0
14 47504335 . A G . PASS SOMATIC AD 120.0,0 83.0,37.0
14 94708175 . C A . PASS SOMATIC AD 163.0,0 128.0,35.0
14 105413346 . T C . PASS SOMATIC AD 162.0,0 162.0,0.0
15 40866427 . T A . PASS SOMATIC AD 120.0,0 120.0,0.0
16 15826483 . T A . PASS SOMATIC AD 78.0,0 35.0,43.0
16 88501135 . G C . PASS SOMATIC AD 78.0,0 78.0,0.0
17 7578190 . T C . PASS SOMATIC AD 120.0,0 120.0,0.0
17 16330180 . A G . PASS SOMATIC AD 119.0,0 91.0,28.0
17 19186693 . A G . PASS SOMATIC AD 120.0,0 87.0,33.0
17 33446595 . G T . PASS SOMATIC AD 122.0,0 86.0,36.0
17 40178932 . C T . PASS SOMATIC AD 120.0,0 95.0,25.0
17 48733319 . C A . PASS SOMATIC AD 121.0,0 121.0,0.0
17 53345186 . T C . PASS SOMATIC AD 120.0,0 96.0,24.0
18 50994320 . G T . PASS SOMATIC AD 165.0,0 165.0,0.0
18 55996233 . G C . PASS SOMATIC AD 161.0,0 117.0,44.0
18 60562326 . G A . PASS SOMATIC AD 165.0,0 165.0,0.0
19 5077447 . T G . PASS SOMATIC AD 142.0,0 97.0,45.0
19 12126516 . G C . PASS SOMATIC AD 141.0,0 117.0,24.0
19 12825685 . C A . PASS SOMATIC AD 141.0,0 134.0,7.0
19 40580964 . T G . PASS SOMATIC AD 141.0,0 121.0,20.0
19 50383580 . C A . PASS SOMATIC AD 139.0,0 139.0,0.0
19 56002372 . C G . PASS SOMATIC AD 141.0,0 103.0,38.0
19 59080741 . C G . PASS SOMATIC AD 142.0,0 111.0,31.0
20 9353000 . G A . PASS SOMATIC AD 120.0,0 120.0,0.0
20 14306763 . A T . PASS SOMATIC AD 120.0,0 120.0,0.0
20 18122921 . G T . PASS SOMATIC AD 121.0,0 100.0,21.0
21 45546844 . C G . PASS SOMATIC AD 122.0,0 122.0,0.0
22 40061600 . T C . PASS SOMATIC AD 77.0,0 70.0,7.0
22 44178067 . A T . PASS SOMATIC AD 78.0,0 75.0,3.0
23 34148437 . C T . PASS SOMATIC AD 151.0,0 80.0,71.0
23 69639919 . A C . PASS SOMATIC AD 152.0,0 113.0,39.0
23 70775900 . G C . PASS SOMATIC AD 152.0,0 116.0,36.0
23 135594048 . A G . PASS SOMATIC AD 151.0,0 151.0,0.0
23 152225539 . T A . PASS SOMATIC AD 152.0,0 152.0,0.0