#!/usr/bin/perl use strict; use warnings; use Text::CSV; my @result; my $csv = Text::CSV->new ( { sep_char => '\t ' } ) # should set binary +attribute. or die "Cannot use CSV: ".Text::CSV->error_diag (); open my $fh, "<", "result.txt" or die "result.txt: $!"; while ( my $row = $csv->getline( $fh ) ) { if ($row->[0] =~ m{\QHWUSI-EAS95L_0025_FC:3:1:5232:1082#0//E}) { if (@result) { $result[1] = $row->[3]; } else { $result[0] = $row->[2]; } } } #printf "%s\t%s\n", @result; printf @result; $csv->eof or $csv->error_diag(); close $fh;