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Old 04-23-2020, 06:19 AM   #1
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Default Default Blasting an unknown protein with a predicted pattern


I want to blast a certain pattern that I think exist in my protein. I know the organism where the protein is expressed, but I don't know the identity or the sequence of the protein. I also have an idea about the total length of the protein and where my pattern of interest might lie.

I looked into phi-blast but it requires that I provide a sequence! myloweslife Can I provide a sequence made up of wild cards corresponding to the length of my protein? How to restrict the pattern searching to a certain location in the sequence?

Last edited by jekslein; 04-24-2020 at 09:28 AM. Reason: spelling
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Old 08-23-2021, 01:20 AM   #2
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how to set the input sequence?
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