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Table 3 Genotype data for 21 loci and 92 strains (including CDC1551 and AF2122/97)
| strain id. | species | 24 | 79 | 154 | 577 | 580 | 802 | 959 | 1121 | 1644 | 1955 | 2163 | 2165 | 2347 | 2401 | 2461 | 2531 | 3006 | 3192 | 3663 | 3690 | 4348 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| percy196 | bcg | 9 | 11 | 2 | 5 | 3.3 | 2 | 2 | 4 | 3 | 1 | 9 | 5 | 2 | 2 | 5 | 4 | 3 | 3 | 1.7 | 2 | 2 |
| percy197 | bcg | 9 | 11 | 2 | 5 | 3.3 | 2 | 2 | 4 | 3 | 1 | 6 | 5 | 2 | 2 | 5 | 4 | 3 | 3 | 1.7 | 2 | 2 |
| percy142 | bcg | 9 | 11 | 2 | 5 | 3.3 | 2 | 2 | 4 | 3 | 1 | 11 | 5 | 2 | 2 | 5 | 4 | 3 | 3 | 1.7 | 2 | 2 |
| percy62 | bcg | 9 | 11 | 2 | 5 | 3.3 | 2 | 2 | 4 | 3 | 1 | 11 | 5 | 2 | 2 | 5 | 4 | 3 | 3 | 1.7 | 2 | 2 |
| percy43a | bovis | 9 | 10 | 2 | 5 | 4 | 2 | 2 | 4 | 3 | 1 | 10 | 5 | 3 | 4 | 5 | 4 | 1 | 3 | 1.7 | 2 | 2 |
| percy53 | bovis | 9 | 9 | 2 | 5 | 4 | 2 | 2 | 4 | 3 | 1 | 11 | 5 | 3 | 4 | 2 | 4 | 2 | 5 | 1.7 | 2 | 2 |
| percy184 | bovis | 9 | 8 | 2 | 3 | 4 | 2 | 2 | 4 | 2 | 3 | 6 | 6 | 3 | 4 | 4 | 4 | 3 | 1 | 1.7 | 3 | 2 |
| percy55 | bovis | 9 | 8 | 2 | 5 | 4 | 2 | 2 | 4 | 3 | 3 | 6 | 6 | 3 | 4 | 4 | 4 | 3 | 3 | 1.7 | 3 | 2 |
| AF2122 | bovis | 9 | 7 | 2 | 5 | 5 | 2 | 2 | 4 | 2 | 3 | 10 | 8 | 3 | 4 | 5 | 4 | 3 | 3 | 1.7 | 2 | |
| percy54 | bovis | 9 | 8 | 2 | 5 | 4 | 1 | 2 | 4 | 2 | 3 | 10 | 9 | 3 | 4 | 5 | 4 | 3 | 3 | 1.7 | 2 | 2 |
| percy61 | africanum | 9 | 7 | 2 | 5 | 4 | 2 | 5 | 4 | 2 | 3 | 10 | 4 | 3 | 4 | 4 | 4 | 3 | 5 | 1.7 | 4 | 2 |
| percy119 | africanum | 9 | 8 | 2 | 5 | 3 | 1 | 7 | 4 | 4 | 3 | 10 | 2 | 3 | 4 | 5 | 4 | 3 | 6 | 1.7 | 1 | 2 |
| percy57 | africanum | 9 | 6 | 2 | 5 | 3 | 1 | 10 | 4 | 2 | 4 | 10 | 7 | 3 | 4 | 5 | 4 | 3 | 5 | 1.1 | 5 | 2 |
| cipt950052 | africanum | 9 | 7 | 2 | 5 | 3 | 2 | 4 | 4 | 4 | 4 | 10 | 6 | 2 | 4 | 4 | 4 | 3 | 5 | 1.7 | 3 | 2 |
| percy18 | africanum | 9 | 8 | 2 | 5 | 3 | 2 | 5 | 4 | 4 | 4 | 10 | 6 | 3 | 4 | 4 | 4 | 3 | 5 | 1.7 | 6 | 2 |
| cipt960340 | africanum | 9 | 5 | 2 | 4 | 3 | 1 | 4 | 4 | 4 | 2 | 9 | 2 | 3 | 4 | 2 | 4 | 4 | 2 | 1.7 | 4 | 2 |
| percy59 | africanum | 9 | 6 | 2 | 4 | 3 | 1 | 4 | 4 | 4 | 2 | 9 | 3 | 3 | 4 | 2 | 4 | 4 | 2 | 1.7 | 3 | 2 |
| percy16 | africanum | 9 | 5 | 2 | 4 | 3 | 1 | 4 | 4 | 3 | 2 | 9 | 4 | 3 | 4 | 2 | 4 | 4 | 2 | 1.7 | 3 | 2 |
| percy17 | africanum | 9 | 5 | 2 | 4 | 3 | 1 | 4 | 4 | 4 | 2 | 8 | 4 | 3 | 4 | 2 | 4 | 4 | 2 | 1.7 | 3 | 2 |
| percy99a | africanum | 9 | 6 | 2 | 2 | 3 | 1 | 4 | 4 | 4 | 2 | 9 | 4 | 3 | 2 | 2 | 4 | 4 | 2 | 1.7 | 1 | 2 |
| percy13 | africanum | 9 | 5 | 2 | 4 | 3 | 1 | 4 | 4 | 3 | 2 | 9 | 4 | 3 | 4 | 4 | 4 | 3 | 2 | 1.7 | 2 | 2 |
| percy58 | africanum | 9 | 5 | 2 | 4 | 3 | 1 | 4 | 4 | 4 | 2 | 9 | 4 | 3 | 2 | 2 | 4 | 3 | 2 | 1.7 | 4 | 2 |
| percy56 | africanum | 9 | 5 | 2 | 4 | 3 | 1 | 4 | 3 | 4 | 2 | 9 | 4 | 3 | 4 | 2 | 2 | 4 | 2 | 1.7 | 3 | 2 |
| percy60 | africanum | 9 | 5 | 2 | 4 | 3 | 1 | 4 | 3 | 4 | 2 | 9 | 4 | 3 | 4 | 2 | 2 | 4 | 2 | 1.7 | 3 | 2 |
| percy27 | africanum | 9 | 9 | 2 | 2 | 3 | 3 | 4 | 3 | 1 | 4 | 10 | 4 | 4 | 2 | 2 | 5 | 3 | 5 | 1.7 | 3 | 3 |
| percy7 | africanum | 9 | 9 | 2 | 2 | 3 | 3 | 4 | 3 | 3 | 4 | 10 | 4 | 4 | 2 | 2 | 5 | 3 | 5 | 1.7 | 3 | 3 |
| percy91 | africanum | 9 | 9 | 2 | 2 | 3 | 3 | 4 | 3 | 3 | 4 | 10 | 4 | 4 | 2 | 2 | 5 | 3 | 4 | 1.7 | 3 | 3 |
| percy122 | beijing tuberculosis | 9 | 6 | 2 | 4 | 3 | 1 | 3 | 4 | 3 | 6 | 11 | 4 | 4 | 4 | 2 | 5 | 1 | 3 | 0.7 | 3 | 2 |
| cipt20001272 | beijing tuberculosis | 9 | 11 | 2 | 4 | 3 | 3 | 3 | 4 | 4 | 5 | 6 | 4 | 4 | 4 | 2 | 5 | 3 | 5 | 0.7 | 3 | 2 |
| cipt991053 | beijing tuberculosis | 9 | 11 | 2 | 4 | 3 | 3 | 2 | 4 | 3 | 5 | 9 | 4 | 4 | 4 | 2 | 5 | 3 | 5 | 0.7 | 3 | 2 |
| cipt990590 | beijing tuberculosis | 9 | 11 | 2 | 4 | 2 | 3 | 2 | 4 | 3 | 5 | 9 | 4 | 4 | 4 | 2 | 3 | 3 | 5 | 0.7 | 3 | 3 |
| cipt971135 | beijing tuberculosis | 9 | 11 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 4 | 9 | 4 | 4 | 4 | 2 | 5 | 3 | 2 | 0.7 | 3 | 3 |
| percy248 | tuberculosis | 9 | 11 | 2 | 4 | 3 | 3 | 3 | 3 | 3 | 1 | 14 | 4 | 4 | 4 | 2 | 5 | 3 | 5 | 0.7 | 3 | 3 |
| percy164 | tuberculosis | 9 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 5 | 10 | 4 | 4 | 4 | 2 | 5 | 3 | 5 | 0.7 | 3 | 3 |
| percy170 | tuberculosis | 9 | 8 | 2 | 4 | 8 | 2 | 6 | 3 | 2 | 5 | 10 | 7 | 3 | 2 | 4 | 5 | 3 | 5 | 1.7 | 4 | 3 |
| percy211 | tuberculosis | 9 | 8 | 2 | 4 | 3 | 3 | 3 | 4 | 2 | 5 | 11 | 7 | 3 | 2 | 4 | 5 | 3 | 5 | 1.7 | 4 | 3 |
| percy189a | tuberculosis | 9 | 9 | 2 | 4 | 4 | 3 | 4 | 4 | 3 | 6 | 5 | 3 | 3 | 2 | 4 | 4 | 3 | 5 | 1.7 | 7 | 3 |
| percy128 | tuberculosis | 9 | 8 | 2 | 4 | 4 | 4 | 3 | 4 | 3 | 6 | 6 | 6 | 3 | 1 | 1 | 8 | 3 | 6 | 1.7 | 4 | 3 |
| percy210 | tuberculosis | 9 | 8 | 2 | 4 | 6 | 4 | 4 | 4 | 3 | 7 | 24 | 7 | 3 | 1 | 1 | 6 | 3 | 4 | 1.7 | 4 | 3 |
| percy172 | tuberculosis | 9 | 10 | 2 | 3 | 3 | 3 | 4 | 5 | 3 | 3 | 10 | 3 | 4 | 4 | 2 | 5 | 3 | 4 | 1.7 | 3 | 2 |
| percy231 | tuberculosis | 9 | 10 | 2 | 3 | 3 | 2 | 4 | 4 | 3 | 3 | 11 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| CDC1551 | tuberculosis | 9 | 7 | 2 | 3 | 3 | 5 | 5 | 5 | 3 | 3 | 7 | 2 | 3 | 4 | 2 | 5 | 3 | 3 | 1.7 | 2 | |
| percy155 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 2 | 10 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy44 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 2 | 8 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy216 | tuberculosis | 8 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 2 | 7 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy6b | tuberculosis | 9 | 8 | 2 | 3 | 3 | 4 | 5 | 4 | 3 | 4 | 7 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy239 | tuberculosis | 9 | 8 | 2 | 4 | 3 | 2 | 5 | 5 | 3 | 2 | 24 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy208 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 3 | 11 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 5 | 2 |
| percy232 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 3 | 11 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy222 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 2 | 3 | 10 | 3 | 4 | 4 | 2 | 5 | 4 | 3 | 1.7 | 3 | 2 |
| percy237 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 3 | 6 | 2 | 2 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy42 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 2 | 5 | 4 | 3 | 3 | 4 | 3 | 3 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy27b | tuberculosis | 9 | 8 | 2 | 3 | 3 | 6 | 3 | 4 | 3 | 4 | 7 | 3 | 4 | 4 | 2 | 5 | 3 | 3 | 1.7 | 3 | 3 |
| percy28b | tuberculosis | 9 | 8 | 2 | 3 | 3 | 6 | 3 | 4 | 3 | 4 | 7 | 3 | 4 | 4 | 2 | 5 | 3 | 4 | 1.7 | 3 | 3 |
| percy169 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 2 | 5 | 3 | 2 | 2 | 2 | 3 | 3 | 3 | 1.7 | 3 | 2 |
| percy228 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 3 | 24 | 3 | 2 | 4 | 2 | 3 | 3 | 3 | 1.7 | 3 | 2 |
| percy219 | tuberculosis | 9 | 9 | 2 | 3 | 3 | 3 | 5 | 4 | 3 | 2 | 9 | 3 | 2 | 4 | 2 | 3 | 3 | 3 | 1.7 | 6 | 2 |
| percy84 | tuberculosis | 9 | 8 | 2 | 3 | 3 | 3 | 4 | 4 | 2 | 2 | 11 | 3 | 2 | 4 | 2 | 3 | 3 | 3 | 1.7 | 3 | 2 |
| percy256 | tuberculosis | 9 | 6 | 1 | 4 | 5 | 3 | 7 | 4 | 4 | 4 | 12 | 3 | 4 | 2 | 3 | 4 | 3 | 3 | 1.7 | 1 | 2 |
| percy259 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 2 | 1 | 5 | 3 | 1 | 26 | 3 | 2 | 2 | 3 | 5 | 1 | 2 | 1.7 | 3 | 1 |
| percy11 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 3 | 6 | 4 | 4 | 2 | 4 | 5 | 3 | 3 | 1.7 | 2 | 2 |
| percy43b | tuberculosis | 10 | 6 | 2 | 4 | 3 | 1 | 3 | 4 | 3 | 3 | 6 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 20 | 2 |
| percy31 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 2 | 3 | 6 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 17 | 2 |
| percy18b | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 3 | 6 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy201 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 3 | 6 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy35 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 3 | 6 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy39 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 3 | 6 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy250 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 3 | 6 | 4 | 2 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy40 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 3 | 6 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 2 | |
| percy33 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 3 | 2 | 25 | 4 | 4 | 2 | 2 | 5 | 3 | 5 | 1.7 | 4 | 2 |
| percy20 | tuberculosis | 10 | 6 | 3 | 4 | 4 | 2 | 3 | 4 | 3 | 1 | 4 | 4 | 4 | 2 | 2 | 5 | 3 | 2 | 1.7 | 3 | 2 |
| percy16b | tuberculosis | 10 | 6 | 2 | 3 | 3 | 3 | 3 | 4 | 3 | 3 | 24 | 3 | 4 | 2 | 1.7 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy234 | tuberculosis | 10 | 6 | 2 | 3 | 3 | 3 | 3 | 4 | 3 | 3 | 25 | 3 | 4 | 2 | 1.7 | 5 | 3 | 3 | 1.7 | 2 | 2 |
| percy37 | tuberculosis | 10 | 6 | 2 | 5 | 3 | 3 | 3 | 4 | 4 | 3 | 24 | 3 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 4 | 2 |
| percy249 | tuberculosis | 10 | 6 | 4 | 3 | 3 | 3 | 4 | 2 | 3 | 25 | 4 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 2 | 2 | |
| percy7b | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 2 | 3 | 25 | 3 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 9 | 2 |
| percy41 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 4 | 3 | 4 | 2 | 3 | 25 | 3 | 4 | 2 | 3 | 5 | 3 | 3 | 1.7 | 10 | 2 |
| percy165 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 3 | 3 | 4 | 2 | 2 | 10 | 3 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy230 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 4 | 2 | 4 | 2 | 2 | 6 | 3 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy245 | tuberculosis | 10 | 6 | 2 | 2 | 3 | 2 | 2 | 4 | 2 | 2 | 11 | 3 | 4 | 2 | 2 | 5 | 3 | 3 | 1.7 | 3 | 2 |
| percy220 | tuberculosis | 8 | 5 | 2 | 4 | 3 | 2 | 2 | 4 | 2 | 2 | 24 | 2 | 4 | 2 | 2 | 5 | 3 | 3 | 2.7 | 3 | 2 |
| percy215 | tuberculosis | 10 | 6 | 2 | 3 | 3 | 2 | 3 | 4 | 2 | 2 | 5 | 2 | 4 | 2 | 2 | 5 | 3 | 3 | 2.7 | 3 | 2 |
| percy33b | tuberculosis | 10 | 6 | 2 | 3 | 3 | 2 | 3 | 4 | 2 | 3 | 6 | 3 | 4 | 2 | 2 | 5 | 3 | 2 | 1.7 | 3 | 2 |
| percy238 | tuberculosis | 10 | 6 | 2 | 3 | 3 | 2 | 3 | 4 | 1 | 2 | 6 | 3 | 4 | 2 | 2 | 1 | 3 | 4 | 3.1 | 3 | 2 |
| percy217 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 4 | 3 | 4 | 3 | 2 | 24 | 3 | 4 | 2 | 2 | 6 | 3 | 4 | 2.7 | 3 | 2 |
| percy29b | tuberculosis | 10 | 6 | 2 | 4 | 3 | 4 | 3 | 4 | 3 | 1 | 25 | 3 | 4 | 2 | 2 | 5 | 3 | 1 | 2.7 | 3 | 2 |
| percy240 | tuberculosis | 10 | 6 | 2 | 4 | 3 | 4 | 3 | 4 | 1 | 2 | 4 | 2 | 4 | 2 | 2 | 5 | 3 | 3 | 2.7 | 5 | 2 |
| H37Rv | tuberculosis | 10 | 6 | 2 | 4 | 3.3 | 1 | 3 | 4 | 2 | 2 | 3 | 3 | 4 | 2 | 3 | 6 | 3 | 3 | 2.7 | 5 | 2 |
| percy221 | tuberculosis | 10 | 5 | 2 | 4 | 3 | 1 | 4 | 4 | 2 | 3 | 8 | 2 | 4 | 1 | 1 | 6 | 1 | 4 | 1.1 | 2 | 2 |
| percy241 | tuberculosis | 10 | 5 | 2 | 4 | 3 | 3 | 4 | 4 | 2 | 3 | 6 | 2 | 4 | 2 | 2 | 6 | 3 | 3 | 1.7 | 1 | 2 |
| percy236 | tuberculosis | 7 | 5 | 1 | 4 | 3 | 6 | 3 | 4 | 3 | 3 | 23 | 2 | 4 | 1 | 2 | 6 | 3 | 2 | 1.7 | 1 | 2 |
| percy244 | tuberculosis | 10 | 5 | 1 | 4 | 3 | 4 | 2 | 4 | 3 | 3 | 8 | 2 | 4 | 1 | 2 | 6 | 3 | 2 | 1.7 | 3 | 2 |
