I got this result from VEP, I have some SNPs in the forward strand (1), reverse strand (-1) and no strand indication. I have these questions that I did not find the answers: 1. Which of the REF or ALT allele is the minor or major allele? 2. What is the CSQ? 3.Why I have SNPs that have not been assigned to a strand and how can I fix it? Thank you.
Chr Position ID REF ALT info Strand
1 864627 rs6681049 T A,C CSQ=A -1
9 138172039 rs9314655 G A CSQ=A 1
1 989518 rs6665000 C A CSQ=A