while(<$IN>){ chomp; my ($id, $sum, $haploStr) = split ('\t',$_); push @{$data{$id}{$sum}}, \$haploStr; } my @keys = keys %data; my $j = 1; for my $i ( 0 .. $#keys ) { my $key1 = $keys[$i]; my $count = 1; for my $sum1 ( %{ $data{$key1} } ) { for my $str1 (@{$data{$key1}{$sum1}}){ for my $key2 ( @keys[ $i + 1 .. $#keys ] ) { for my $sum2 ( %{ $data{$key2} } ) { for my $str2(@{$data{$key2}{$sum2}}){ if ($$str1 eq $$str2){ #print "MATCH: $$str1 \t $$str2\n "; $count++; undef @{$data{$key2}{$sum2}}; } } } } } } print "H$j\tMatching Pattern as $key1\t $count\n"; $j++; }