Entering edit mode
5.2 years ago
Makplus T
▴
100
Here is part of my VCF file with two samples:
GT:AD:AF:DP:F1R2:F2R1:SB
0/1:73,4:0.061:77:27,1:46,3:31,42,2,2
0/0:333,23:0.065:356:160,8:166,15:155
I understand that GT stands for genotype, so, 0/1 means heterozygote and 73 reads support ref allele and 4 reads support alt allele
What puzzles me is : when turn to the other sample, '0/0' seems it is homozygous genotype. but the AD info is '333,23', Does it mean 333 reads for ref and 23 reads for alt allele?
yes
Thank you. And this is my puzzle, if the genotype is '0/0' , Why there are 23 reads for alt allele?