my main problem is the part where it automatically counts which column to take for the next file/person:

Think about it, how would you as a person do the counting?

Now write down the description and post it here.

Over and out

#!/usr/bin/perl --
## tinking.pl
## 2015-08-20-02:28:04
## 
## 
## 
## 
## perltidy -olq  -csc -csci=10 -cscl="sub : BEGIN END if while for " 
+-otr -opr -ce -nibc -i=4 -pt=0   "-nsak=*"
## perltidy -olq  -csc -csci=3 -cscl="sub : BEGIN END " -otr -opr -ce 
+-nibc -i=4 -pt=0   "-nsak=*"
#!/usr/bin/perl --
use strict;
use warnings;
use autodie qw/ open close /;
use Data::Dump qw/ dd /;

my $infile = \q{
abcdefghijklmnopqrstuvwxyzabcdefghijklmnopqrstuvwxyz
bcdefghijklmnopqrstuvwxyzabcdefghijklmnopqrstuvwxyza
cdefghijklmnopqrstuvwxyzabcdefghijklmnopqrstuvwxyzab
};

Roger( $infile );
exit( 0 );

sub Roger {
    my( $infile ) = @_;
    open my( $infh ), '<', $infile; ## "or die..." by autodie 
    my $count = 5;
    while( <$infh> ) {
        next if !/\S/;
        my @what = split //, $_;
        
#~         dd( \@what );
        my $right = $count + 8;
        @what = grep defined, @what[ 0 .. 4, $count .. $right ];
        
#~         dd( \@what );
        Dodger( \@what );
        $count = $right;
    } ## end while( <$infh> )
} ## end sub Roger

sub Dodger {
    my( $arref ) = @_;
    print join ',', @$arref, "\n";
} ## end sub Dodger
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