Drug1 | Resistance | Supporting Mutations (frequency) |
Isoniazid | ||
Rifampicin | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | ||
Ethionamide | ||
Fluoroquinolones | ||
Amikacin | ||
Capreomycin | ||
Kanamycin |
Lineage2 | Family | Main Spoligotype | RDS |
lineage4 | Euro-American | LAM;T;S;X;H | None |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None |
lineage4.3.1 | Euro-American (LAM) | LAM9 | None |
Gene | Chromosome Position | Mutation | Estimated fraction |
gyrB | 6082 | c.843G>A | 0.304 |
gyrA | 7362 | p.Glu21Gln | 1.000 |
gyrA | 7585 | p.Ser95Thr | 0.533 |
rpoC | 764995 | c.1626C>G | 0.714 |
rpsL | 781395 | c.-165T>C | 1.000 |
embR | 1416222 | p.Phe376Leu | 0.231 |
embR | 1416234 | p.Cys372Gly | 0.231 |
rrs | 1472193 | r.348a>c | 0.235 |
rrs | 1472215 | r.370a>g | 0.263 |
rrs | 1472223 | r.378c>g | 0.263 |
rrs | 1472225 | r.380c>a | 0.368 |
rrs | 1472228 | r.383g>c | 0.263 |
rrs | 1472234 | r.389t>c | 0.263 |
rrs | 1472240 | r.395g>a | 0.250 |
rrs | 1472251 | r.406g>c | 0.278 |
rrs | 1472279 | r.434t>g | 0.267 |
rrs | 1472286 | r.441c>g | 0.214 |
rrs | 1472289 | r.444t>g | 0.214 |
rrs | 1472290 | r.445c>g | 0.214 |
rrs | 1472293 | r.448c>a | 0.214 |
rrs | 1472297 | r.452g>c | 0.214 |
rrs | 1472298 | r.453g>c | 0.214 |
rrs | 1472324 | r.479g>c | 0.214 |
rrs | 1472325 | r.480g>c | 0.214 |
rrs | 1472328 | r.483g>c | 0.150 |
rrs | 1472333 | r.488g>a | 0.214 |
rrs | 1472339 | r.494c>t | 0.465 |
rrs | 1472344 | r.499c>t | 0.744 |
rrs | 1472349 | r.504a>c | 0.284 |
rrs | 1472374 | r.529t>g | 0.276 |
rrs | 1472378 | r.533g>t | 0.527 |
rrs | 1472379 | r.534t>g | 0.485 |
rrs | 1472382 | r.537g>a | 0.408 |
rrs | 1472389 | r.544g>a | 0.667 |
rrs | 1472396 | r.551a>t | 0.603 |
rrs | 1472400 | r.555c>t | 0.627 |
rrs | 1472517 | r.672t>c | 0.368 |
rrs | 1472518 | r.673g>a | 0.208 |
rrs | 1472530 | r.685g>a | 0.317 |
rrs | 1472537 | r.692c>t | 0.780 |
rrs | 1472544 | r.699c>a | 0.636 |
rrs | 1472545 | r.700a>t | 0.708 |
rrs | 1472549 | r.704g>a | 0.667 |
rrs | 1472557 | r.712g>a | 0.759 |
rrs | 1472571 | r.726g>c | 0.763 |
rrs | 1472573 | r.728c>t | 0.306 |
rrs | 1472579 | r.734g>t | 0.660 |
rrs | 1472581 | r.736a>t | 0.700 |
rrs | 1472583 | r.738t>c | 0.446 |
rrs | 1472598 | r.753a>c | 0.899 |
rrs | 1472599 | r.754g>a | 0.667 |
rrs | 1472607 | r.762g>a | 0.345 |
rrs | 1472612 | r.767g>t | 0.551 |
rrs | 1472614 | r.769g>t | 0.258 |
rrs | 1472616 | r.771g>a | 0.245 |
rrs | 1472634 | r.789t>c | 0.468 |
rrs | 1472635 | r.790g>a | 0.405 |
rrl | 1474001 | r.344c>t | 0.364 |
thyA | 3073868 | p.Thr202Ala | 0.900 |
alr | 3841652 | c.-232A>T | 0.263 |
alr | 3841654 | c.-234A>C | 0.333 |
alr | 3841662 | c.-242A>G | 0.556 |
alr | 3841663 | c.-243G>A | 0.556 |
embC | 4242643 | c.2781C>T | 1.000 |
embA | 4246161 | p.Val977Leu | 0.364 |
gid | 4408156 | p.Leu16Arg | 0.750 |
TBProfiler Version: 2.1.1
Analysis | Program |
Mapping | bwa |
Variant Calling | BCFtools |
Drug1 | Sensitivity (%) | Specificity (%) |
Isoniazid | 92.8 (89.9-95.7) | 100 (100-100) |
Rifampicin | 96.2 (93.9-98.5) | 98.1 (96.8-99.4) |
Ethambutal | 88.7 (83.6-93.8) | 81.7 (77.6-85.8) |
Pyrazinamide | 70.9 (62.4-79.4) | 93.9 (90.6-97.2) |
Streptomycin | 87.1 (82.7-91.5) | 89.7 (86.0-93.4) |
Ethionamide | 73.6 (66.7-80.5) | 93.3 (89.6-97.0) |
Moxifloxacin | 60.0 (29.6-90.4) | 68.7 (52.6-84.8) |
Ofloxacin | 85.5 (79.1-91.9) | 94.9 (91.8-98.0) |
Amikacin | 82.9 (74.4-91.4) | 98.3 (96.0-100) |
Capreomycin | 60.7 (50.6-70.8) | 90.7 (87.2-94.2) |
Kanamycin | 87.3 (81.3-93.3) | 93.4 (89.9-96.9) |
Para-aminosalisylic acid | Not determined | Not determined |
Linezolid | Not determined | Not determined |
Clofazimine | Not determined | Not determined |
Bedaquiline | Not determined | Not determined |
Multi drug resistance | 91.2 (87.8-94.6) | 98.4 (97.2-99.6) |
Extremely drug resistance | 75.9 (64.5-87.3) | 98.4 (97.3-99.5) |
Lineage2 | Location | Strain | RD type |
lineage1 | Indo-Oceanic | EAI | RD239 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 |
lineage1.1.1 | Indo-Oceanic | EAI4;EAI5 | RD239 |
lineage1.1.1.1 | Indo-Oceanic | EAI4;ZERO | RD239 |
lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | RD239 |
lineage1.1.3 | Indo-Oceanic | EAI6 | RD239 |
lineage1.2 | Indo-Oceanic | EAI1;EAI2 | RD239 |
lineage1.2.1 | Indo-Oceanic | EAI2 | RD239 |
lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 |
lineage2 | East-Asian | Beijing | RD105 |
lineage2.1 | East-Asian (non-Beijing) | None | None |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 |
lineage2.2.2 | East-Asian (Beijing) | Beijing-RD105/RD207 | RD105;RD207 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 |
lineage2.2.1.2 | East-Asian (Beijing) | Beijing-RD142 | RD105;RD207;RD181;RD142 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 |
lineage3 | East-African-Indian | CAS | RD750 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 |
lineage3.1.1 | East-African-Indian | CAS1-Kili | RD750 |
lineage3.1.2 | East-African-Indian | CAS;CAS2 | RD750 |
lineage3.1.2.1 | East-African-Indian | CAS2 | RD750 |
lineage3.1.2.2 | East-African-Indian | CAS | RD750 |
lineage4 | Euro-American | LAM;T;S;X;H | None |
lineage4.1 | Euro-American | T;X;H | None |
lineage4.1.2 | Euro-American (X-type) | T;H | None |
lineage4.1.2.1 | Euro-American (X-type) | T1;H1 | RD182 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None |
lineage4.1.1.2 | Euro-American (X-type) | X1 | None |
lineage4.1.1.1 | Euro-American (X-type) | X2 | RD183 |
lineage4.1.1.3 | Euro-American (Haarlem) | X1;X3 | RD193 |
lineage4.2 | Euro-American | H;T;LAM | None |
lineage4.2.2 | Euro-American (Ural) | T;LAM7-TUR | None |
lineage4.2.2.1 | Euro-American | LAM7-TUR | None |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None |
lineage4.3.1 | Euro-American (LAM) | LAM9 | None |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 |
lineage4.3.4.1 | Euro-American (LAM) | LAM1;LAM2 | RD174 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 |
lineage4.4 | Euro-American | S;T | None |
lineage4.4.2 | Euro-American | T1;T2 | None |
lineage4.4.1 | Euro-American (S-type) | S;T | None |
lineage4.4.1.2 | Euro-American | T1 | None |
lineage4.4.1.1 | Euro-American | S;Orphans | None |
lineage4.5 | Euro-American | H;T | RD122 |
lineage4.6 | Euro-American | T;LAM | None |
lineage4.6.1 | Euro-American (Uganda) | T2 | RD724 |
lineage4.6.1.1 | Euro-American | T2-Uganda | RD724 |
lineage4.6.1.2 | Euro-American | T2 | RD724 |
lineage4.6.2 | Euro-American | T;LAM | RD726 |
lineage4.6.2.1 | Euro-American | T3 | RD726 |
lineage4.6.2.2 | Euro-American (Cameroon) | LAM10-CAM | RD726 |
lineage4.7 | Euro-American (mainly T) | T1;T5 | None |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | None |
lineage5 | West-Africa 1 | AFRI_2;AFRI_3 | RD711 |
lineage6 | West-Africa 2 | AFRI_1 | RD702 |
lineage7 | Lineage 7 | None | None |
lineageBOV | M. bovis | BOV_1;BOV_2 | None |