Table 3. Species and lineage assignments by phylogenetic placement and spoligotyping.
| Sample | Phylogenetic placement by pplacer | Spoligotyping | ||
|---|---|---|---|---|
| Species, lineage, clade | Posterior probability | Lineage | Spoligotype | |
| K1 |
M. tuberculosis Euro-American / Lineage 4 LAM clade |
1 | Euro-American | 1101111111110111111100001111111100001111011 |
| K2 |
M. tuberculosis Euro-American / Lineage 4 H clade |
1 | Euro-American | 1111111111111111111111111111110100001111111 |
| K3 |
M. africanum Lineage 6 M. africanum clade 2 |
1 | West African 2 | 1111110001111111111000001000011111111101111 |
| K4 |
M. tuberculosis Euro-American / Lineage 4 H clade |
0.99 | Euro-American | 1111111111111111111111111111110100001111111 |
| K5 |
M. africanum Lineage 6 M. africanum clade 2 |
1 | West African 2 | 1111110001111111111111111111111111111101111 |
| K6 | Not determined | West African 2 | 1111110001111111111111111111111111111101111 | |
| K7 |
M. tuberculosis Euro-American / Lineage 4 H clade |
0.97 | Euro-American | 1111111111111111111111111111110100001111111 |
| K8 |
M. tuberculosis Euro-American / Lineage 4 T clade |
1 | Euro-American | 1111110000000000000000000111111100001111111 |