my $combinations2;
# ...
sub create_motif2 { #creates every possible 6-mer
my $base2 = join ",", qw/a t c g/;
my $L2 = 6;
my $string2 = "{$base2}" x $L2;
my $combinations2 = glob $string2;
#print join ":", $combinations2;
return join ":", $combinations2;
}
####
my $combinations2 = create_motif2();
Then pass