Table 3.
Nestedness of clusters and associated cases identified using 0-, 5- and 10-SNP threshold clustering
| SNP levels | S. Enteritidis (%) | S. Typhimurium (%) | ||
|---|---|---|---|---|
| Clustersa | Casesb | Clustersa | Casesb | |
| In 0-SNP and 5-SNP outputs | 52/121 (43) | 325/522 (62) | 13/60 (22) | 94/207 (45) |
| In 0-SNP and 10-SNP outputs | 42/121 (35) | 274/522 (52) | 6/60 (10) | 60/207 (29) |
| In 5-SNP and 10-SNP outputs | 10/19 (53) | 453/602 (75) | 3/11 (27) | 67/117 (57) |
| In 0-SNP and 5-SNP or 10-SNP outputs | 59/121 (49) | 342/522 (66) | 13/60 (25) | 96/207 (46) |
a
Denominator is the total number of unique clusters at SNP level with least genetic diversity.
b
Denominator is the total number of cases in all clusters at SNP level with least genetic diversity.