if ($_ =~ /sequence/){ @headerseq = split('\n',$_); print OFILE1 "@headerseq\n"; } elsif ($_ =~ /^(\w*)$/){ @sequence = $_; print OFILE1 "@sequence\n"; } elsif ($_ =~ /secstr/) { @headersec = split('\n',$_); print OFILE2 "@headersec\n"; } else { @secseq = $_; print OFILE2 "@secseq\n"; }