Hello,

I am new to perl and to this forum...

I would hihly appreciate if anyone could help with the problem I encountered:

In the following script (matching a string +peptide sequence+ to a protein sequence), why at the end when I print the results I cannot see which string (peptide) matches which protein sequence. In practice, when I do: print "found '$peptide' in $test_prot_id\n"; it says : "found '' in blala" (so $peptide remain blank) in other words it reports the protein sequence ID but not the matching string. Thank you in advanvce for your help, 

while(<MYFILE2>) 

{    
    chomp ($_); 
    push(@peptide, $_); #adds each line to an array 
        print "peptides: @peptide\n";
                
                foreach my $test_prot_id (keys %proteins)
        {
               my $test_prot_seq = $proteins{$test_prot_id};
               
               if ($test_prot_seq =~/($peptide)/)
                         {
                        print "found $peptide in $test_prot_id\n";
                    
                          $results{$test_prot_id} ++;
            }       
               }
}

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In reply to matching &printing S variable of an array by Bijgom

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