Entering edit mode
5.4 years ago
Alec Watanabe
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60
Hi, if I were to run BLAST pairwise alignments to find sequence similarities as the initial step for protein clustering, just like other softwares employ for pan genomic analyses, would a 75% coverage provide me with significant matches given that I'm working with genomes with 92%+ similarity? Is this coverage value too stringent, ok or too loose in this case and why? Thank you
This is quite relative scenario, changing from case to case. You havent mentioned anything about e-value. Go through this paper once
Thank you, I will give it a read today. By the way, E-value should be 1e-05.