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in reply to regular expression questions (from someone without experience)

I'm not a biology guy, but when I see strings like TGGACGGAGAACTGATAAGGGT in a file I think DNA/RNA. Have you looked in CPAN? There are lots of modules there specific to things biological. I.E. you may be re-inventing an existing wheel.
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Re^2: regular expression questions (from someone without experience)
by BioLion (Curate) on Sep 22, 2010 at 15:24 UTC

    This certianly looks like a standard output format - maybe OP should also check out BioPerl...

    Just a something something...