Re: string match using with an N in any position

in reply to string match using with an N in any position

Regexes aren't always the best solution to fuzzy matching:

#! perl -slw
use strict;

my @queries = qw[ GCGAT CACGT ];

chomp( my @targets = <DATA> );

for my $q ( @queries ) {
    for my $t ( @targets ) {
        my $matched = ( $q ^ substr( $t, 0, length( $q ) ) ) =~ tr[\0]
+[\0];
        if(  $matched >= ( length( $q ) -1 ) ) {
            print "$q matched $t";
        }
    }
}

__DATA__
GNGATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
GCGANBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
CNCGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
[download]

Gives:

[ 2:16:30.49] c:\test>junk77
GCGAT matched GNGATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
GCGAT matched GCGANBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
+BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
CACGT matched CNCGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
[download]

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