# Given a FASTA file with a set of genes, how do I determine that set's conservation among a genetic order?

Given a set of genes in a FASTA-formatted file, for example: exFasta.fa, what is the best way to determine how well conserved the genes in that file are among an order of organisms, for example: Orthoptera?

BLAST is an obvious option, but I am not sure that it is the most efficient way considering there are likely thousands of organisms in that order. OrthoFinder also comes across as a valid option, but I am not sure how to implement such a thing considering the required inputs.

Any advice would be greatly appreciated!

• Are these annotated, known genes? Or do you also need to detect/identify the potential homologs in the target species?
– terdon
Mar 16 at 12:43
• Orthoptera (grasshoppers, crickets, locust) will be annotated (mostly). What they want to do is skim the draft genomes of Orthoptera. I like @gringers answer, it's a good one. As a project it would work.
– M__
Mar 17 at 21:28