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looking for a way to identify a specific gene, and in varying numbers across multiple genomes.

I am looking for a way to identify a gene (or more specifically a sequence), and the number of those sequences across a number of bacterial isolates. Assuming I have the sequence. What is the best way to do that? Are there any tools specifically built for finding a user-supplied sequence across a large number of genomes? Note this sequence is not highly studied so there is no tool already available.

gene
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updated by oakhamwolf • oakhamwolf • written by goatsrunfaster • goatsrunfaster

1 answer

If you have access to the genomic sequences of the isolate, could you just make a BLAST database out of them and search for your sequence that way?

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written by oakhamwolf • oakhamwolf

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