Table 3.
Evaluation of the improved cgMLST scheme with 52 isolates clustered by traditional genotyping.
| Cluster ID | Number of strains | Subgroup | Genotype (Coll 2014) | Discerning SNPs | Discerning alleles | Perc. Min1 | Perc. Max1 |
|---|---|---|---|---|---|---|---|
| Cluster 48 | 9 | LAM | 4.3.4.2 | 8 | 8 | 99.4 | 99.5 |
| Cluster 56 | 5 | Beijing | 2.2.1 | 57 | 41 | 98.6 | 98.7 |
| Cluster 61 | 5 | Euro-American | 4.1.2 | 4 | 4 | 99.7 | 99.7 |
| Cluster 80 | 26 | Haarlem | 4.1.2.1 | 322 | 206 | 99.7 | 99.7 |
| Cluster 188 | 2 | Beijing | 2.2.1 | 0 | 0 | 98.6 | 98.7 |
| Cluster 189 | 2 | LAM | 4.3.3 | 15 | 11 | 99.9 | 99.9 |
| Cluster 199 | 3 | Euro-American | 4.8 | 5 | 3 | 99.5 | 99.6 |
| Total: | 52 | – | – | 411 | 273 | 98.6 | 98.9 |
1
Percentage of cgMLST genes fulfilling quality criteria, given as minimum and maximum value.