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MLST_critical_points_to_remember.md

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Main finding

If two schemes have same similarity score (0-100), MLST tool will choose one with smaller ST number F. ex: ecoli (ST 25) and ecoli_4 (ST 45) has idential score of 100 against the input sequences, MLST will choose ecoli (ST 25) as the final result.

Test data and results from

Sample_ID Scheme ST
2025-01-7255-1-1-2-1 ecoli 74

Full results:

$VAR1 = [
          'ecoli',
          74,
          '6/5/4/2/6/7/2/4',
          100
        ];

$VAR2 = [
          'ecoli_4',
          88,
          '6/4/12/1/20/12/7',
          100
        ];
Sample_ID Scheme ST
2025-01-7364-1-1-2-1 ecoli 2

Full results:

$VAR1 = [
          'ecoli',
          2,
          '8/2/7/3/7/1/4/2',
          100
        ];
$VAR2 = [
          'ecoli_4',
          10,
          '10/11/4/8/8/8/2',
          100
        ];
Sample_ID Scheme ST
2025-01-8368-2-1-1-1 ecoli 3

Full results

$VAR1 = [
          'ecoli',
          3,
          '3/8/5/11/8/3/5/3',
          100
        ];
$VAR2 = [
          'ecoli_4',
          69,
          '21/35/27/6/5/5/4',
          100
        ];
Sample_ID Scheme ST
2025-04-19620-4-2-1-1 ecoli_4 117 
$VAR1 = [
          'ecoli_4',
          '117',
          '20/45/41/43/5/32/2',
          100
        ];
$VAR2 = [
          'ecoli',
          '-',
          '2/11/23/136/10/15/10/~12',
          86
        ];