I assume those numbers are unqiue identifiers NOT ranges? Bio::SeqIO from Bioperl is going to be helpful if you are ever going to have sequences in different file formats. 
use Bio::SeqIO;

my $in = new Bio::SeqIO(-file   => 'filename',
                        -format => 'fasta');
my %seqs;
my @idlist = qw(456-3210 4670-5490);
while( my $seq = $in->next_seq ) {
  my $id = $seq->display_id;
  $id =~ s/gb\|//;
  $seqs{$id} = $seq;
}

my @seqlist = grep { defined } map { $seqs{$_} } @idlist;

[download]
If there are a LOT of sequences and you will be doing this repeatedly for different ID sets you can do this more efficiently with Bio::Index::Fasta. 
use Bio::Index::Fasta;

my $idx = new Bio::Index::Fasta(-filename => 'seqs.idx',
                                -write_flag => 1);
$idx->id_parser(\&myidparser);

$idx->make_index($seqfile);
my @idlist = qw(456-3210 4670-5490);

my @seqlist;
for my $id ( @idlist ) {
 if( my $seq = $idx->get_Seq_by_acc($id) ) {
    push @seqlist, $seq;
  }
}


# define your own ID parser if you wanted to strip out
# the gb| part of the id
# alternatively don't do this and make sure the IDs
# you input exactly match the IDs of the sequences
sub myidparser {
 if( $_[0] =~ /^>\s*gb\|(\S+)/ ) {
  return $1;
 } elsif ($_[0] =~ /^>\s*(\S+)/) {
        return $1;
 } else {
     return;
 }
}

[download]

In reply to Re: Iterating through files and arrays simultaneously by stajich
in thread Iterating through files and arrays simultaneously by Anonymous Monk

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