Another way is to use map on the original array and set all the entries which you don't want to '', and filter those out lateron..
my @set = qw (AAAAAT ATCGAT TTTTTG GCCCCC GTGGGG);
my $lim = 0.75;
my $len = length $set[0];
print "BEFORE:",scalar(@set),"\n";
map { ( ((tr/A//)/$len < $lim) &&
((tr/T//)/$len < $lim) &&
((tr/C//)/$len < $lim) &&
((tr/G//)/$len < $lim) ) or $_ = '' } @set;
print "AFTER:",scalar(@set),"\n";
Now the @set contains:
$VAR1 = '';
$VAR2 = 'ATCGAT';
$VAR3 = '';
$VAR4 = '';
$VAR5 = '';
.:| If it can't be fixed .. Don't break it |:.
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