Question: one variant's AD tag in VCF file shows 0,0
gravatar for sxzhuxu
21 months ago by
sxzhuxu40 wrote:

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
snp • 770 views
ADD COMMENTlink modified 3 months ago by finswimmer9.8k • written 21 months ago by sxzhuxu40
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 905 users visited in the last hour