Your code is not clear at all.

This looks like complete nonsense:

while(<FH>){
   $data .= $_;
}
[download]

There is no need to concatenate all of the lines into a single string. Process each line of the input file separately because each line of the input file will presumably become a new record in the DB. Please review what substr does. From your substr expressions, I don't see anything changing about version or jobnumber.

#!/usr/bin/perl
use strict;
use warnings;

my $data=<<EOF;
00032463000000001000000010000010014110662004071664629003128182      O#
00032463000000002000000010000010014110662004071664729003070909      O#
00032463000000003000000010000010014110662004071664829003861044      O#
00032463000000004000000010000010014110662004071664929003005555      O#
EOF


open (my $IN, '<', \$data) or die "unable to open input file";

while (my $line = <$IN>)
{
   next if $line =~ /^s*$/;  #skip blank lines, common infile fault
                             #usually at the beginning or at the end
   
   my $version   = substr($line,0,3); #substr() from your code...
   my $jobnumber = substr($line,4,5);
   print "version=$version  jobnumber=$jobnumber\n";

   #once the above works, DBI insert code goes here...
} 

__END__
Code above prints:
version=000  jobnumber=24630
version=000  jobnumber=24630
version=000  jobnumber=24630
version=000  jobnumber=24630
[download]

As a first step, I would recommend that you write some code that correctly parses your input file and just prints the jobnumber and version for each line. If you cannot extract the version and jobnumber for each line in the file, you are doomed - no amount of DBI help will matter.