By base i assume you mean each occurence of the four letters representing
A is for adenine,
G is for guanine,
C is for cytosine,
T is for thymine,
and so you would want to count each of those occurences?
so you could
$sequence = $_;
if ($count >= $ideal)
print "$sequence\n"; # or whatever you want here
Hope this is what you had in mind and that it helps
"when a new client is created, we have to kill all the children..." --Sams Teach yourself Perl 5
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