Hi folks! I am still having difficulties with the basics: reading, matching and printing. I would appreciate if you could help me figure out the mistakes I have been making in the following code. Thanks! 
#!/usr/bin/perl
use strict;
use warnings;

my $cds = '';
my $version = '';
my $gi = '';
my @genbank = ();

my $data_file ="/DATA/GenBankFile.gb";
open(INFILE, $data_file) || die("Could not open file!");
@genbank=<INFILE>;
close(INFILE);

foreach my $line (@genbank) {
if( $line =~ /^\/\/\n/ ) { last;}
elsif($line =~ /^VERSION/) { $line =~ s/^VERSION\s*\w*\S\d*\s*\w*\S//;
+ $version = $line;}
elsif($line =~ /^\s*\Sdb_xref="GI/) { chomp($line); $line =~ s/^\s*\Sd
+b_xref="GI://; $gi = $line;}
elsif($line =~ /^\s*CDS/){ chomp($line); $line =~ s/^\s*CDS\s*//; $cds
+ = $line;}

print "$gi"."\t"."$version"."\t"."$cds\n" if (defined $cds and defined
+ $gi and defined $version);
}

[download]
and here is the data I have been reading: 
LOCUS       NC_0000230           600020 bp    DNA     linear   CON 21-
+APR-2007
VERSION     NC_000023.10  GI:123456789
     CDS             join(11111..222222,333333..444444)
                     /db_xref="GI:5555555"
     CDS             join(66666..7777777,888888..99999)
                     /db_xref="GI:10101010"
//

[download]
and here is the far-from-the-desired-output: 
        
    123456789
    
    123456789
    join(11111..222222,333333..444444)
5555555"    123456789
    join(11111..222222,333333..444444)
5555555"    123456789
    join(66666..7777777,888888..99999)
10101010"    123456789
    join(66666..7777777,888888..99999)
10101010"    123456789
    join(66666..7777777,888888..99999)

[download]
and here is what the output should look like: 
5555555 123456789 join(11111..222222,333333..444444)
10101010 123456789 join(66666..7777777,888888..99999)

[download]

In reply to Read, match string and print by sophix

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