#!usr/bin/perl -w open(IN,"/home/maize/sequence-ID.txt"); open(OUT,">abc.txt"); open(OUT1,">blastresults.txt"); while($id=) { $id=~s/\n|\r//g; open(BLAST,"output/$id"); while($file=) { if ($file=~ m/No hits found/) { print OUT "$id \n"; } } close(BLAST); } close(IN); close(OUT); close(OUT1);