VARIANT VARIANT VARIANT VARIANT VARIANT VARIANT VARIANT VARIANT VARIANT S1 S1 S2 S2 S3 S3 CHROM POS REF ALT QUAL FILTER T X SOMATIC GT S GT S GT S 1 100 A T 2 true 1/1 a ./1 bbbbbbb . ccccccccc 1 200 A T PASS 2 true 1/1 a ./1 bbbbbbb . ccccccccc 1 300 A T IL 2 true 1/1 a ./1 bbbbbbb . ccccccccc 1 400 A T FA;IL 2 true 1/1 a ./1 bbbbbbb . ccccccccc