#!/usr/bin/perl use strict; my $data_1 = <) { next if ( /^ID/ ); s/(\d+)\s//; $record{$1} = [ split ]; } while () { next if ( /^Catg/ ); my @cols = split; for my $i ( keys %record ) { print "$i $cols[0] $record{$i}->[1] $cols[3]\n" if (( $record{$i}->[0] eq $cols[0] ) && ( $record{$i}->[1] > $cols[1] ) && ( $record{$i}->[1] < $cols[2] )) } } __DATA__ Catg_Name Start Stop Name A 8 19 jamm A 110 112 bbc E 170 256 vadd A 14 18 cip