#!/usr/bin/perl -w use strict; open DATA , "; my $count_A = 0 ; close DATA ; foreach my $line (@output) { my $length = length ($line); if (substr($line, 0,$length) eq 'A') { $count_A++; } print $count_A++; #### >2 AAAAAAAAACAAAAGAACGAAGAAGT >3 AAAAAAAAACAACCGAAAAATAGAAAC >4 AAAAAAAAACAAGAAGGACTAGACC >7 AAAAAAAAACAAGGACTGGTTTATCAG >8 AAAAAAAAACAAGTTTCTCTGTGACT >12 AAAAAAAAACACAGACGTAGAATTGT >14 AAAAAAAAACACGACCGTTCGCTTTGA >15 AAAAAAAAACACGACTGTTCGCTTT >16 AAAAAAAAACACTATGAGCCAGAAC