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use 5.010;                                                            
+          

my $str1 = 'MALSSTAATTSSKLKLSNPPSLSHTFTASASASVSNSTSFR';

my $a_count = $str1 =~ tr/A/A/; # 6

#!/usr/bin/env perl

use 5.010;
...
        say "A: $a, length: " . length;
    }
}

open my $fh, '<', $filename
    or die "Couldn't open $filename: $!";

for (<$fh>) {