Have you used strict at the beginning of the program? I would suggest that. If you already have used strict at the beginning of the program, then I do not see you having 'declared' the variable $FastaSeqOfDataBase with my.

If this doesn't help, I'd suggest the classic 'Static Verification' technique to dry-run the code with sample data and determine what might cause the error.

Hope this helps!

In reply to Re^2: Use of uninitialized value error by sumeetgrover
in thread Use of uninitialized value error by birdy

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