hello all and thanks for the help,so far. I have made sure that a query sequence is being provided. By running the debug statement suggested above I have found that I have undef max values. How can I get around this? Thank you very much everyone!

$VAR1 = [
          {
            'bar' => 'TATCCTCT',
            'max' => undef
          },
          {
            'bar' => 'CTCTCTAT',
            'max' => undef
          },
          {
            'bar' => 'AGCGTAGC',
            'max' => undef
          },
          {
            'bar' => 'AGAGTAGA',
            'max' => undef
          },
          {
            'max' => undef,
            'bar' => 'CTAAGCCT'
          },
          {
            'bar' => 'CATGCCTA',
            'max' => undef
          },
          {
            'bar' => 'TTCTGCCT',
            'max' => undef
          },
          {
            'max' => undef,
            'bar' => 'GCTCAGGA'
          },
          {
            'max' => undef,
            'bar' => 'TCGCCTTA'
          },
          {
            'max' => undef,
            'bar' => 'CCTCTCTG'
          },
          {
            'bar' => 'TAGATCGC',
            'max' => undef
          },
          {
            'max' => undef,
            'bar' => 'ACTGCATA'
          },
          {
            'bar' => 'GCGTAAGA',
            'max' => undef
          },
          {
            'bar' => 'CTAGTACG',
            'max' => undef
          },
          {
            'bar' => 'AAGGAGTA',
            'max' => undef
          },
          {
            'max' => undef,
            'bar' => 'GTAGAGAG'
          }
        ];
DEBUG: [TATCCTCT]=>[11]
DEBUG: [CTCTCTAT]=>[10]
DEBUG: [AGCGTAGC]=>[5]
DEBUG: [AGAGTAGA]=>[12]
DEBUG: [CTAAGCCT]=>[16]
DEBUG: [CATGCCTA]=>[6]
DEBUG: [TTCTGCCT]=>[3]
DEBUG: [GCTCAGGA]=>[4]
DEBUG: [TCGCCTTA]=>[1]
DEBUG: [CCTCTCTG]=>[8]
DEBUG: [TAGATCGC]=>[9]
DEBUG: [ACTGCATA]=>[14]
DEBUG: [GCGTAAGA]=>[13]
DEBUG: [CTAGTACG]=>[2]
DEBUG: [AAGGAGTA]=>[15]
DEBUG: [GTAGAGAG]=>[7]

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In reply to Re^2: Help with function, count matches and store in hash & retrieve sorted by Pathogenomix
in thread Help with function, count matches and store in hash & retrieve sorted by Pathogenomix

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