Hi I am confused about interpreting mixed VCF record. I am having 2 nucleotides in the ALT field of the VCF which are separated by comma. The GT field shows that it is homozygous. How should I interpret this? I am pasting the row in the file just as example. Thanks in advance.
chrI 509 . G A,T 119 . DP=60;VDB=8.840780e-04;AF1=1;AC1=2;DP4=0,0,54,3;MQ=20;FQ=-178 GT:PL:GQ 1/1:152,151,0,172,87,151:99