I find a variant in my vcf file. This variant's DPis 232, however the AD is '0,0'. I can't understand why REF and ALT allele depth is zero. What does this mean?
I use GATK-Lite as my SNP caller.
chr21 44476000 . C CT 595.73 PASS AC=1;AF=0.500;AN=2;DP=232;FS=0.852;HaplotypeScore=77.9709;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=2.57;RPA=11,12;RU=T;STR;set=variant2 GT:AD:DP:GQ:PL 0/1:0,0:232:99:731,0,5227