Protein selection from BLASTp result.

Question

[hasanahfaizatul]

hi. i want to ask, if i want to select protein from a blastp result , which parameter should i look closely before i select a protein. evalue, percent identity or score? and if there is E-Value = 0, is it okay to choose that e-value or i have to take a look at the e-value that is near 0?

thank you.

Answer 1

[Joe]

I'm not sure what the question is exactly, but it sounds like you're asking what the best result is?

Your best match from BLAST will have an E-Value as close to 0 as possible (0 is as good as it gets), and ideally will have a large Bitscore. You may need to look at the query coverage etc however if you're just interested in a particular sub-region of the protein etc.

[hasanahfaizatul]

okay thank you so much.