Anonymous Monk,
Unfortunately, the input record seperator $/ can not be a regex (at least not in Perl5). It appears that your records are two lines where the second line is what you actually care about. Try something like this: 
while ( <INFILE> ) {
    my $record = <INFILE>;
    # stuff goes here
}

[download]
This way, each time through the loop $_ contains your information line of the record and $record contains the DNA sequence.

Cheers - L~R

In reply to Re: input record separator help by Limbic~Region
in thread input record separator help by Anonymous Monk

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