in reply to Re^12: Comparing 2 different-sized strings
in thread Comparing 2 different-sized strings

What I want is the following in regular expression: $hay =~ /($nee1)T[ATGC]($nee2)/

Then use the regular expression. It is perfect for that usage.

fuzzyMatch() is not designed for that type of matching.

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Re^14: Comparing 2 different-sized strings
by AdrianJ217 (Novice) on Aug 18, 2013 at 17:11 UTC
    I would use the regular expression except the problem is that there may be up to 2 mismatches in $nee1 and/or $nee2. In that case I need to use the fuzzyMatch subroutine don't I? Is there a way to incorporate the fuzzyMatch subroutine, which is perfect for mismatches, into the regular expression?
[reply]

      Try:

      my $hay = ...;
my $nee = 'AGGATACGCCAC';
substr(  $hay, $_+4, 1 ) eq 'T' and print substr( $hay, $_, length( $n
+ee ) ) for fuzzyMatch( \$hay,  \$nee, 3 );

      [download]
      With the rise and rise of 'Social' network sites: 'Computers are making people easier to use everyday'
      Examine what is said, not who speaks -- Silence betokens consent -- Love the truth but pardon error.
      "Science is about questioning the status quo. Questioning authority".
      In the absence of evidence, opinion is indistinguishable from prejudice.
[reply]
[d/l]
        Thank you, but does this incorporate both $nee1 and $nee2 in this case where there are 2 sequences to search for?
[reply]

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