I realize one could probably do this by blasting the GOI against the bacteria genome and look for homologs, but I'm wondering if there is a tool that can do that at scale. I have the fasta sequences of genes I am interested in and can find a way to obtain the genomes too. I just need to be able to go through hundreds of genes and see if there are duplications / homologs around.

I feel like I've seen something like this done in the workflow of roary / prokka (either one of them).

I am familiar-ish with command line.