Drug1 | Resistance | Supporting Mutations (frequency) |
Isoniazid | R | katG p.Ser315Thr (1.00) |
Rifampicin | R | rpoB p.Ser450Leu (0.99) |
Ethambutol | R | embB p.Gly406Ala (1.00), embB p.Asp1024Asn (1.00) |
Pyrazinamide | R | pncA p.Val130Gly (1.00) |
Streptomycin | R | rpsL p.Lys88Thr (0.99) |
Ethionamide | R | ethA p.Met1Arg (1.00) |
Fluoroquinolones | ||
Amikacin | ||
Capreomycin | ||
Kanamycin |
Lineage2 | Family | Main Spoligotype | RDS |
lineage4 | Euro-American | LAM;T;S;X;H | None |
lineage4.2 | Euro-American | H;T;LAM | None |
lineage4.2.2 | Euro-American (Ural) | T;LAM7-TUR | None |
Gene | Chromosome Position | Mutation | Estimated fraction |
gyrA | 7362 | p.Glu21Gln | 1.000 |
gyrA | 7585 | p.Ser95Thr | 1.000 |
gyrA | 8688 | p.Ala463Ser | 1.000 |
gyrA | 9304 | p.Gly668Asp | 1.000 |
rpoB | 761489 | c.1683G>A | 1.000 |
rpsL | 781395 | c.-165T>C | 1.000 |
embR | 1416222 | p.Phe376Leu | 0.183 |
embR | 1416234 | p.Cys372Gly | 0.220 |
rrs | 1472137 | r.292g>a | 0.143 |
rrs | 1472150 | r.305t>a | 0.162 |
rrs | 1472151 | r.306c>t | 0.162 |
rrs | 1472172 | r.327t>c | 0.183 |
rrs | 1472203 | r.358g>a | 0.154 |
rrs | 1472259 | r.414c>a | 0.120 |
rrs | 1472379 | r.534t>c | 0.145 |
rrs | 1472400 | r.555c>t | 0.155 |
rrs | 1472530 | r.685g>a | 0.116 |
rrs | 1472537 | r.692c>t | 0.123 |
rrs | 1472566 | r.721g>a | 0.120 |
rrs | 1472571 | r.726g>c | 0.127 |
rrs | 1472655 | r.810g>a | 0.125 |
rrs | 1472660 | r.815t>c | 0.119 |
rrs | 1472714 | r.869a>g | 0.169 |
rrs | 1472790 | r.945t>c | 0.140 |
rrs | 1472895 | r.1050c>t | 0.237 |
rrs | 1472956 | r.1111t>c | 0.134 |
rrs | 1472990 | r.1145a>g | 0.208 |
rrs | 1473035 | r.1190g>a | 0.290 |
rrs | 1473055 | r.1210c>t | 0.190 |
rrs | 1473056 | r.1211a>t | 0.306 |
rrs | 1473066 | r.1221a>g | 0.194 |
rrs | 1473081 | r.1236c>t | 0.125 |
rrs | 1473177 | r.1332g>a | 0.143 |
rrs | 1473192 | r.1347a>g | 0.185 |
rrs | 1473205 | r.1360t>c | 0.186 |
rrs | 1473252 | r.1407t>c | 0.155 |
rrs | 1473259 | r.1414c>t | 0.158 |
rrs | 1473352 | r.1507c>t | 0.117 |
rrl | 1474249 | r.592g>t | 0.228 |
rrl | 1474310 | r.653t>g | 0.145 |
rrl | 1474348 | r.691c>t | 0.137 |
rrl | 1474351 | r.694g>t | 0.143 |
rrl | 1474362 | r.705a>g | 0.130 |
rrl | 1474387 | r.730c>t | 0.122 |
rrl | 1474626 | r.969t>c | 0.123 |
rrl | 1474634 | r.977t>c | 0.170 |
rrl | 1474636 | r.979a>c | 0.184 |
rrl | 1474637 | r.980c>t | 0.200 |
rrl | 1474638 | r.981c>g | 0.204 |
rrl | 1474640 | r.983c>t | 0.192 |
rrl | 1474675 | r.1018c>g | 0.148 |
rrl | 1474677 | r.1020a>g | 0.150 |
rrl | 1474709 | r.1052g>a | 0.138 |
rrl | 1474734 | r.1077g>t | 0.140 |
rrl | 1474779 | r.1122g>a | 0.123 |
rrl | 1474780 | r.1123c>t | 0.123 |
rrl | 1474782 | r.1125g>a | 0.123 |
rrl | 1474794 | r.1137c>t | 0.164 |
rrl | 1474802 | r.1145t>c | 0.154 |
rrl | 1474823 | r.1166c>g | 0.176 |
rrl | 1474830 | r.1173a>g | 0.161 |
rrl | 1474831 | r.1174a>g | 0.167 |
rrl | 1474832 | r.1175a>t | 0.164 |
rrl | 1474864 | r.1207c>t | 0.237 |
rrl | 1474901 | r.1244a>g | 0.194 |
rrl | 1474904 | r.1247g>c | 0.274 |
rrl | 1474913 | r.1256t>c | 0.203 |
rrl | 1474933 | r.1276a>g | 0.175 |
rrl | 1474934 | r.1277c>t | 0.161 |
rrl | 1475129 | r.1472g>t | 0.149 |
rrl | 1475499 | r.1842c>t | 0.135 |
rrl | 1475526 | r.1869c>t | 0.157 |
rrl | 1475539 | r.1882a>t | 0.163 |
rrl | 1475545 | r.1888t>g | 0.163 |
rrl | 1475548 | r.1891c>t | 0.125 |
rrl | 1475573 | r.1916g>t | 0.167 |
rrl | 1475777 | r.2120a>t | 0.133 |
rrl | 1475803 | r.2146t>c | 0.162 |
rrl | 1475804 | r.2147g>c | 0.149 |
rrl | 1475816 | r.2159c>g | 0.153 |
rrl | 1475817 | r.2160a>g | 0.172 |
rrl | 1475858 | r.2201t>c | 0.149 |
rrl | 1475866 | r.2209t>a | 0.141 |
rrl | 1475883 | r.2226a>c | 0.157 |
rrl | 1475884 | r.2227a>g | 0.138 |
rrl | 1475896 | r.2239a>g | 0.119 |
rrl | 1475898 | r.2241a>g | 0.200 |
rrl | 1475899 | r.2242g>a | 0.203 |
rrl | 1475916 | r.2259c>g | 0.170 |
rrl | 1475937 | r.2280a>t | 0.184 |
rrl | 1475943 | r.2286g>a | 0.243 |
rrl | 1475945 | r.2288c>a | 0.216 |
rrl | 1475952 | r.2295a>g | 0.200 |
rrl | 1475970 | r.2313c>t | 0.148 |
rrl | 1475975 | r.2318c>t | 0.148 |
rrl | 1476131 | r.2474c>t | 0.174 |
rrl | 1476179 | r.2522c>t | 0.222 |
rrl | 1476194 | r.2537a>g | 0.257 |
rrl | 1476200 | r.2543a>t | 0.289 |
rrl | 1476201 | r.2544c>t | 0.211 |
rrl | 1476204 | r.2547c>t | 0.222 |
rrl | 1476221 | r.2564t>c | 0.167 |
rrl | 1476224 | r.2567a>g | 0.250 |
rrl | 1476227 | r.2570c>t | 0.211 |
rrl | 1476245 | r.2588c>t | 0.175 |
rrl | 1476260 | r.2603a>g | 0.175 |
rrl | 1476359 | r.2702c>g | 0.262 |
rrl | 1476372 | r.2715t>c | 0.123 |
rrl | 1476381 | r.2724g>c | 0.302 |
rrl | 1476425 | r.2768g>t | 0.151 |
rrl | 1476428 | r.2771c>t | 0.306 |
rrl | 1476429 | r.2772a>t | 0.200 |
rrl | 1476466 | r.2809c>t | 0.234 |
rrl | 1476481 | r.2824t>c | 0.464 |
rrl | 1476506 | r.2849t>c | 0.500 |
rrl | 1476567 | r.2910c>t | 0.132 |
tlyA | 1917972 | c.33A>G | 1.000 |
ahpC | 2726146 | c.-47G>GT | 0.949 |
ald | 3086788 | c.-32T>C | 1.000 |
alr | 3841652 | c.-232A>T | 0.294 |
alr | 3841654 | c.-234A>C | 0.333 |
alr | 3841662 | c.-242A>G | 0.406 |
alr | 3841663 | c.-243G>A | 0.377 |
embC | 4242643 | c.2781C>T | 1.000 |
gid | 4407997 | p.Gly69Asp | 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 |