Drug1 | Resistance | Supporting Mutations (frequency) |
Isoniazid | ||
Rifampicin | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs r.888g>a (1.00) |
Ethionamide | ||
Fluoroquinolones | ||
Amikacin | ||
Capreomycin | ||
Kanamycin |
Lineage2 | Family | Main Spoligotype | RDS |
Gene | Chromosome Position | Mutation | Estimated fraction |
rrs | 1471896 | r.51t>c | 1.000 |
rrs | 1471900 | r.55c>t | 1.000 |
rrs | 1471911 | r.66c>a | 1.000 |
rrs | 1472089 | r.244c>t | 0.846 |
rrs | 1472094 | r.249t>a | 1.000 |
rrs | 1472106 | r.261g>a | 0.995 |
rrs | 1472112 | r.267c>t | 1.000 |
rrs | 1472113 | r.268t>c | 1.000 |
rrs | 1472127 | r.282c>t | 0.995 |
rrs | 1472127 | r.282cgg>c | 0.981 |
rrs | 1472128 | r.283g>a | 1.000 |
rrs | 1472129 | r.284g>c | 1.000 |
rrs | 1472130 | r.285g>a | 1.000 |
rrs | 1472137 | r.292g>a | 1.000 |
rrs | 1472150 | r.305t>a | 1.000 |
rrs | 1472151 | r.306c>t | 1.000 |
rrs | 1472172 | r.327t>c | 1.000 |
rrs | 1472203 | r.358g>a | 1.000 |
rrs | 1472344 | r.499c>t | 1.000 |
rrs | 1472378 | r.533g>t | 0.995 |
rrs | 1472379 | r.534t>c | 1.000 |
rrs | 1472380 | r.535g>c | 1.000 |
rrs | 1472396 | r.551a>t | 1.000 |
rrs | 1472400 | r.555c>t | 1.000 |
rrs | 1472507 | r.662c>g | 1.000 |
rrs | 1472517 | r.672t>a | 1.000 |
rrs | 1472518 | r.673g>t | 1.000 |
rrs | 1472530 | r.685g>a | 1.000 |
rrs | 1472537 | r.692c>t | 1.000 |
rrs | 1472544 | r.699c>a | 1.000 |
rrs | 1472545 | r.700a>t | 1.000 |
rrs | 1472557 | r.712g>a | 0.988 |
rrs | 1472566 | r.721g>a | 1.000 |
rrs | 1472571 | r.726g>c | 1.000 |
rrs | 1472579 | r.734g>c | 1.000 |
rrs | 1472580 | r.735c>t | 1.000 |
rrs | 1472581 | r.736a>t | 0.994 |
rrs | 1472598 | r.753a>c | 1.000 |
rrs | 1472599 | r.754g>t | 0.996 |
rrs | 1472616 | r.771g>a | 1.000 |
rrs | 1472647 | r.802c>t | 1.000 |
rrs | 1472655 | r.810g>a | 1.000 |
rrs | 1472658 | r.813g>a | 1.000 |
rrs | 1472661 | r.816a>g | 1.000 |
rrs | 1472680 | r.835c>t | 1.000 |
rrs | 1472682 | r.837t>c | 1.000 |
rrs | 1472683 | r.838t>g | 1.000 |
rrs | 1472687 | r.842a>t | 1.000 |
rrs | 1472689 | r.844c>t | 1.000 |
rrs | 1472690 | r.845c>a | 1.000 |
rrs | 1472713 | r.868t>c | 1.000 |
rrs | 1472716 | r.871c>t | 1.000 |
rrs | 1472742 | r.897c>t | 1.000 |
rrs | 1472744 | r.899a>g | 1.000 |
rrs | 1472781 | r.936c>t | 0.987 |
rrs | 1472793 | r.948a>t | 1.000 |
rrs | 1472803 | r.958t>a | 1.000 |
rrs | 1472895 | r.1050c>t | 1.000 |
rrs | 1473035 | r.1190g>a | 1.000 |
rrs | 1473053 | r.1208t>a | 1.000 |
rrs | 1473056 | r.1211a>t | 1.000 |
rrs | 1473062 | r.1217t>a | 1.000 |
rrs | 1473068 | r.1223a>g | 1.000 |
rrs | 1473081 | r.1236c>t | 1.000 |
rrs | 1473166 | r.1321g>a | 1.000 |
rrs | 1473177 | r.1332g>a | 0.996 |
rrs | 1473192 | r.1347a>g | 0.996 |
rrs | 1473205 | r.1360t>c | 1.000 |
rrs | 1473316 | r.1471c>a | 1.000 |
rrs | 1473318 | r.1473g>a | 1.000 |
rrs | 1473319 | r.1474c>t | 1.000 |
rrs | 1473327 | r.1482a>g | 1.000 |
rrs | 1473328 | r.1483c>t | 1.000 |
rrs | 1473352 | r.1507c>t | 1.000 |
rrl | 1473679 | r.22t>c | 1.000 |
rrl | 1474218 | r.561t>a | 1.000 |
rrl | 1474228 | r.571t>c | 1.000 |
rrl | 1474249 | r.592g>t | 1.000 |
rrl | 1474252 | r.595t>a | 1.000 |
rrl | 1474753 | r.1096ac>a | 1.000 |
rrl | 1474869 | r.1212g>c | 1.000 |
rrl | 1474892 | r.1235g>a | 1.000 |
rrl | 1474896 | r.1239a>g | 1.000 |
rrl | 1474902 | r.1245t>c | 1.000 |
rrl | 1474903 | r.1246t>c | 1.000 |
rrl | 1474904 | r.1247g>c | 1.000 |
rrl | 1474913 | r.1256t>a | 1.000 |
rrl | 1474920 | r.1263g>c | 1.000 |
rrl | 1475124 | r.1467a>t | 1.000 |
rrl | 1475129 | r.1472g>t | 1.000 |
rrl | 1475145 | r.1488c>a | 1.000 |
rrl | 1475149 | r.1492g>a | 1.000 |
rrl | 1475154 | r.1497c>a | 1.000 |
rrl | 1475158 | r.1501c>t | 1.000 |
rrl | 1475162 | r.1505g>t | 0.995 |
rrl | 1475163 | r.1506t>c | 0.995 |
rrl | 1475175 | r.1518g>a | 1.000 |
rrl | 1475498 | r.1841c>g | 1.000 |
rrl | 1475574 | r.1917c>a | 0.992 |
rrl | 1475783 | r.2126t>g | 1.000 |
rrl | 1475803 | r.2146t>c | 1.000 |
rrl | 1475804 | r.2147g>c | 1.000 |
rrl | 1475816 | r.2159c>g | 1.000 |
rrl | 1475817 | r.2160a>g | 1.000 |
rrl | 1475858 | r.2201t>c | 1.000 |
rrl | 1475866 | r.2209t>a | 1.000 |
rrl | 1475874 | r.2217c>t | 1.000 |
rrl | 1476126 | r.2469c>t | 1.000 |
rrl | 1476130 | r.2473g>a | 1.000 |
rrl | 1476135 | r.2478t>c | 1.000 |
rrl | 1476141 | r.2484a>g | 0.996 |
rrl | 1476153 | r.2496t>c | 1.000 |
rrl | 1476165 | r.2508t>g | 1.000 |
rrl | 1476194 | r.2537a>g | 1.000 |
rrl | 1476195 | r.2538c>a | 0.944 |
rrl | 1476196 | r.2539c>a | 1.000 |
rrl | 1476200 | r.2543a>t | 1.000 |
rrl | 1476201 | r.2544c>t | 1.000 |
rrl | 1476204 | r.2547c>a | 1.000 |
rrl | 1476210 | r.2553g>t | 1.000 |
rrl | 1476211 | r.2554g>t | 1.000 |
rrl | 1476212 | r.2555t>c | 1.000 |
rrl | 1476214 | r.2557g>c | 1.000 |
rrl | 1476215 | r.2558c>a | 1.000 |
rrl | 1476225 | r.2568t>g | 1.000 |
rrl | 1476227 | r.2570c>t | 1.000 |
rrl | 1476229 | r.2572c>t | 1.000 |
rrl | 1476250 | r.2593c>g | 1.000 |
rrl | 1476251 | r.2594t>c | 1.000 |
rrl | 1476257 | r.2600g>c | 0.995 |
rrl | 1476260 | r.2603a>g | 1.000 |
rrl | 1476280 | r.2623a>c | 1.000 |
rrl | 1476293 | r.2636c>t | 1.000 |
rrl | 1476294 | r.2637a>g | 1.000 |
rrl | 1476295 | r.2638c>g | 1.000 |
rrl | 1476296 | r.2639c>t | 1.000 |
rrl | 1476297 | r.2640c>t | 1.000 |
rrl | 1476301 | r.2644a>t | 1.000 |
rrl | 1476302 | r.2645g>a | 1.000 |
rrl | 1476311 | r.2654g>c | 1.000 |
rrl | 1476312 | r.2655t>c | 1.000 |
rrl | 1476313 | r.2656g>a | 1.000 |
rrl | 1476332 | r.2675g>c | 1.000 |
rrl | 1476338 | r.2681c>t | 1.000 |
rrl | 1476353 | r.2696g>t | 1.000 |
rrl | 1476358 | r.2701t>c | 1.000 |
rrl | 1476369 | r.2712c>t | 1.000 |
rrl | 1476372 | r.2715t>c | 1.000 |
rrl | 1476382 | r.2725a>g | 0.992 |
rrl | 1476383 | r.2726t>a | 1.000 |
rrl | 1476425 | r.2768g>t | 1.000 |
rrl | 1476428 | r.2771c>t | 1.000 |
rrl | 1476429 | r.2772a>c | 1.000 |
rrl | 1476481 | r.2824t>c | 1.000 |
rrl | 1476506 | r.2849t>c | 1.000 |
rrl | 1476514 | r.2857c>t | 1.000 |
rrl | 1476637 | r.2980c>a | 1.000 |
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 |