Table 3.
Nucleotide polymorphism and allelic diversity among the loci of MLST
| Locus | Length (bp) | No. alleles present | No. Polymorphic sites (%) | No. Synonymous mutations | No. Non-synonymous mutations | # SNPs | Ts | Tv | Ks | Ka | Ka/Ks | Diversity Index (π) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| gapA | 450 | 4 | 4 (0.89) | 4 | 0 | 32 | 26 | 6 | 0.0060 | NANa | – | 0.00161126 |
| InfB | 318 | 5 | 4 (1.25) | 4 | 0 | 69 | 69 | 0 | 0.0160 | NAN | – | 0.00393538 |
| mdh | 477 | 5 | 7 (1.47) | 6 | 1 | 35 | 33 | 2 | 0.0050 | 0.0000 | 0.0000 | 0.0014328 |
| pgi | 432 | 3 | 2 (0.46) | 2 | 0 | 9 | 0 | 9 | 0.0020 | NAN | – | 0.00055167 |
| phoE | 420 | 8 | 8 (1.90) | 8 | 0 | 77 | 73 | 4 | 0.0230 | NAN | – | 0.00533477 |
| rpoB | 501 | 2 | 1 (0.20) | 0 | 1 | 22 | 22 | 0 | NAN | 0.0010 | – | 0.00083368 |
| tonB | 414 | 10 | 13 (3.14) | 7 | 6 | 192 | 103 | 89 | 0.0160 | 0.0060 | 0.3750 | 0.0089006 |
| Concatenated | 3012 | 0 | 39 (1.29) | 31 | 8 | 436 | 326 | 110 | 0.0090 | 0.0010 | 0.1100 | 0.00304244 |
aNot a number; SNP single nucleotide polymorphism, Ts Transitions, Tv Transversions, Ks Average number of nucleotide substitution per aynonymous site, Ka Average number of nucleotide substitution per non-synonymous site