But IIUC, the pattern to be searched for may be broken across multiple lines. How would your code handle, e.g., the record: 

>AAF88103.1 zinc finger protein 226 [Homo sapiens]
AAAAAAAAAAAAAACDECGKEFSQ
GAHLQTHQKVHZZZZZZZZZZZ

[download]
(assuming we're now dealing with kosher FASTA files)?.

Give a man a fish:  <%-{-{-{-<

In reply to Re^2: Finding pattern in a file by AnomalousMonk
in thread Finding pattern in a file by shabird

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