my @data;
while (<>) {
   my @fields = split ' ';
   for my $row (0..$#fields) {
      push @{$data[$row]}, $fields[$row];
   }
}

use Data::Dumper;
print Dumper \@data;

##</code><code>##

17:12:41       0       0       0     100
17:12:42       0       1       0      99
17:12:43       0       0       0     100

##</code><code>##

>perl script.pl data
$VAR1 = [
          [
            '17:12:41',
            '17:12:42',
            '17:12:43'
          ],
          [
            '0',
            '0',
            '0'
          ],
          [
            '0',
            '1',
            '0'
          ],
          [
            '0',
            '0',
            '0'
          ],
          [
            '100',
            '99',
            '100'
          ]
        ];