Homoplastic mutations identified in the dataset
| Reference position | Gene | Mutation | Homoplasies (n) | No. (Prevalence) | Reference base | Mutant base |
| 761160 | rpoB | Ser450Leu | 13 | 54 (52%) | C | T |
| 2155176 | katG | Ser315Thr Ser315Asn | 10 | 71 (69%) | C | G/T |
| 4247436 | embB | Met306Val | 9 | 13 (13%) | A | G |
| 1473254 | rrs | A1401G rRNA gene | 5 | 5 (5%) | A | G |
| 3135920 | Rv2828c | Thr141Arg | 4 | 34 (33%) | G | C |
| 4247438 | embB | Met306Ile | 4 | 16 (16%) | G | A/C/T |
| 766493 | rpoC | Pro1040Arg Pro1040Leu | 3 | 3 (3%) | C | G/T |
| 761114 | rpoB | Asp435Tyr | 3 | 3 (3%) | G | T |
| 761144 | rpoB | His445Asp His445Tyr | 3 | 9 (9%) | C | G/T |
| 2123153 | lldD2 | Val3Ile | 3 | 13 (13%) | C | T |