#!/usr/bin/perl
use strict;
use warnings;
use Bio::SeqIO;

my $in  = Bio::SeqIO->new( -file   => "933212.txt" ,
                           -format => 'fasta');

my $out_seq = Bio::SeqIO->new( -file   => '>sequence.dat',
                               -format => 'fasta');

my $out_secstr = Bio::SeqIO->new( -file   => '>secstr.dat',
                                  -format => 'fasta');

while ( my $seq = $in->next_seq() ) {
	if ($seq->id =~ /sequence$/) {
		$out_seq->write_seq($seq);
	}
	elsif ($seq->id =~ /secstr$/) {
		$out_secstr->write_seq($seq);	
	}
}