How do I check the major allele in a batch by UCSC Genome Browser?

Question

[clyumath]

I have a list of genomic positions such as:

chr position

10 97471746

10 97515523

10 97583001

10 97583002

10 97599537

10 97599544

....

I want to check the major allele of each position at the UCSC Genome Browser. I can do that one by one, like, input "10:97471746", then I know this point is "G". BUT my list is too long, I cannot do this one by one manually. Is there a tool or method to do this for a large group of positions simultaneously? Thank you!!!

Answer 1

[WouterDeCoster]

The easiest is probably:

• make a bed file from your positions
• use bedtools getfasta or pyfaidx