If your ignore set are too complicated for character classes, you can OR them together into a regex. I doubt it would be necessary here, more likely for sets fo words.

my $ignoreStrings =  join "|", @ignore;
my $deleteThese = qr/$ignoreStrings/g;
$strting =~ s/$deleteThese//;

[download]

By the way, you're using $_ to represent the various elements of @ignore, but also to denote the default object of s///. That's why I tend to avoid defaults .... better to be explicit, self-documenting, and avoid irritating errors.

--
TTTATCGGTCGTTATATAGATGTTTGCA

In reply to Re: Re: Finding a _Similar_ Substring? (Fuzzy Searching?) by TomDLux
in thread Finding a _Similar_ Substring? (Fuzzy Searching?) by rjahrman

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