TB Profiler
This tool processes raw sequence data to infer strain type and identify known drug resistance markers.
A stand alone version of this tool is now available and can now be run on linux or mac. Installation instructions can be found on GitHub and on the bioconda page.



This tool is for Research Use Only. Data and information provided through use of this tool are not intended for medical purpose or objective and should not be used for clinical diagnosis, patient management, or human clinical trials.
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Single nucleotide polymorphisms (SNPs) in coding regions are annotated using the reference amino acid, codon number and alternative amino acid (e.g. Ser315Thr in katG). SNPs in non-coding regions (i.e. RNA genes and intergenic regions) are annotated using the reference nucleotide, gene coordinate and alternative nucleotide (e.g. A1401G in rrs or C-37A in eis promoter). Indels are annotated using the reference VCF allele, gene coordinate and alternative VCF allele (e.g. T902TA insertion in katG).
Name: 5da714d409a75
Sample: 5da714d409a75

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Summary
ID: 5da714d409a75
Date: Wed Oct 16 14:04:09 2019
Strain: lineage4.3;lineage2
Drug-resistance: Sensitive

Drug1ResistanceSupporting Mutations (frequency)
Isoniazid
Rifampicin
Ethambutol
Pyrazinamide
Streptomycin
Ethionamide
Fluoroquinolones
Amikacin
Capreomycin
Kanamycin

Lineage2FamilyMain SpoligotypeRDS
lineage4Euro-AmericanLAM;T;S;X;HNone
lineage2East-AsianBeijingRD105
lineage4.3Euro-American (LAM)mainly-LAMNone

Mutations in candidate genes:
GeneChromosome PositionMutationEstimated fraction
gyrB5803c.564A>G0.133
gyrB5807p.Val190Ile0.138
gyrB5819c.580C>T0.153
gyrB5824c.585A>G0.151
gyrB5848c.609G>C0.156
gyrB5858p.Asn207Glu0.120
gyrB6086p.Thr283Pro0.128
gyrB6097c.858G>A0.134
gyrB6100c.861G>C0.136
gyrB6109c.870G>C0.140
gyrB6115c.876A>G0.132
gyrB6123p.Ala295Gly0.124
gyrB6127c.888G>T0.124
gyrB6130c.891T>C0.124
gyrB6133c.894G>C0.125
gyrB6286c.1047T>C0.132
gyrB6292c.1053G>C0.127
gyrB6295c.1056A>G0.129
gyrB6307c.1068T>G0.154
gyrB6727c.1488G>T0.115
gyrB6730c.1491A>G0.113
gyrB6745c.1506T>C0.141
gyrB6751c.1512G>C0.132
gyrB6760c.1521G>C0.151
gyrB6769c.1530C>T0.111
gyrB6793c.1554T>C0.146
gyrB6797p.Gly520Thr0.144
gyrB6808c.1569C>T0.116
gyrB6811c.1572C>T0.143
gyrB7078c.1839A>C0.152
gyrB7081c.1842T>C0.150
gyrB7084c.1845A>G0.146
gyrB7090c.1851C>T0.148
gyrB7093c.1854T>C0.148
gyrB7099c.1860G>A0.148
gyrB7100c.1861T>C0.148
gyrB7108c.1869G>A0.138
gyrB7123c.1884C>G0.131
gyrB7129c.1890T>G0.133
gyrB7153c.1914G>T0.151
gyrB7159c.1920C>T0.153
gyrB7162c.1923C>T0.143
gyrB7165c.1926C>T0.139
gyrB7168c.1929C>G0.167
gyrB7178c.1939T>C0.178
gyrB7210p.Asp657Glu0.169
gyrB7213c.1974G>C0.156
gyrB7216c.1977G>A0.147
gyrB7225c.1986T>C0.154
gyrB7234c.1995C>T0.128
gyrB7243c.2004G>A0.135
gyrB7246c.2007T>C0.139
gyrA7343c.42G>T0.146
gyrA7355c.54T>C0.151
gyrA7362p.Glu21Gln1.000
gyrA7391c.90C>T0.121
gyrA7394c.93T>C0.151
gyrA7397c.96G>C0.152
gyrA7406c.105G>C0.128
gyrA7412c.111C>G0.128
gyrA7433c.132G>A0.143
gyrA7442c.141G>C0.152
gyrA7457c.156T>C0.136
gyrA7463c.162G>C0.135
gyrA7475c.174A>G0.118
gyrA7480p.Phe60Tyr0.119
gyrA7484c.183T>C0.120
gyrA7499c.198G>C0.139
gyrA7526c.225G>C0.183
gyrA7532c.231T>G0.169
gyrA7541c.240C>G0.169
gyrA7547c.246C>T0.171
gyrA7565c.264C>T0.171
gyrA7569p.Ala90Ser0.171
gyrA7585p.Ser95Thr1.000
gyrA7592c.291G>C0.200
gyrA7595c.294C>G0.176
gyrA7607c.306C>G0.145
gyrA7613c.312G>A0.145
gyrA7622c.321C>T0.135
gyrA7631c.330G>C0.143
gyrA7637c.336C>A0.121
gyrA7652c.351C>T0.125
gyrA7658c.357A>G0.127
gyrA7661c.360C>T0.129
gyrA7664c.363T>C0.131
gyrA7667c.366C>T0.131
gyrA7670c.369A>G0.115
gyrA7673c.372G>A0.115
gyrA7679c.378G>C0.127
gyrA7683c.382A>C0.125
gyrA7694c.393A>G0.118
gyrA7710c.409T>C0.123
gyrA7728c.427A>C0.145
gyrA7784c.483A>G0.111
gyrA8156c.855T>C0.165
gyrA8168c.867A>G0.162
gyrA8177c.876A>C0.161
gyrA8191p.Ala297Gly0.154
gyrA8198c.897T>C0.160
gyrA8207c.906T>C0.157
gyrA8210c.909G>A0.148
gyrA8219c.918T>C0.158
gyrA8222c.921C>T0.148
gyrA8225c.924T>C0.162
gyrA8237c.936A>G0.113
gyrA8240c.939C>A0.123
gyrA8246c.945C>G0.114
gyrA8247p.Ile316Val0.115
gyrA8253p.Ile318Leu0.117
gyrA8267c.966G>C0.152
gyrA8283p.Ile328Leu0.152
gyrA8288c.987T>C0.160
gyrA8294c.993T>C0.170
gyrA8315c.1014G>A0.137
gyrA8324c.1023T>C0.168
gyrA8327c.1026C>G0.133
gyrA8339c.1038A>G0.147
gyrA8340p.Ala347Ser0.147
gyrA8354c.1053G>C0.110
gyrA8357c.1056G>A0.111
gyrA8390c.1089C>G0.136
gyrA8414c.1113C>T0.189
gyrA8420c.1119T>C0.187
gyrA8433p.Thr378Arg0.187
gyrA8442c.1141C>T0.184
gyrA8453c.1152A>C0.200
gyrA8456c.1155C>T0.120
gyrA8459c.1158G>A0.120
gyrA8462c.1161A>G0.134
gyrA8471c.1170T>C0.194
gyrA8477c.1176C>T0.141
gyrA8480c.1179C>T0.189
gyrA8486c.1185T>C0.189
gyrA8504c.1203G>C0.182
gyrA8513c.1212C>G0.167
gyrA8516c.1215T>C0.167
gyrA8519c.1218A>G0.127
gyrA8520c.1219C>T0.173
gyrA8535p.Glu412Gln0.200
gyrA8546p.Asp415Glu0.197
gyrA8561c.1260A>C0.113
gyrA8571c.1270C>T0.122
gyrA8603c.1302A>C0.189
gyrA8619c.1318T>C0.167
gyrA8627c.1326C>G0.147
gyrA8633c.1332C>T0.151
gyrA8636c.1335A>C0.135
gyrA8649p.Arg450Asn0.127
gyrA8655p.Ile452Val0.125
gyrA8672c.1371A>G0.181
gyrA8696c.1395G>C0.164
gyrA8699c.1398A>G0.164
gyrA8705c.1404C>T0.160
gyrA8711c.1410A>C0.158
gyrA8714c.1413A>G0.147
gyrA8731p.Gly477Ala0.133
gyrA8786c.1485T>G0.155
gyrA8796p.Ile499Val0.113
gyrA8799p.Ala500Pro0.191
gyrA8810c.1509A>T0.134
gyrA8813p.Asp504Glu0.192
gyrA8816c.1515C>G0.122
gyrA8828c.1527T>C0.130
gyrA8829c.1528T>C0.221
gyrA8837c.1536C>G0.130
gyrA8840c.1539C>T0.132
gyrA8852c.1551T>C0.224
gyrA8858c.1557T>G0.230
gyrA8867c.1566A>G0.227
gyrA8870c.1569G>C0.227
gyrA8873c.1572A>G0.227
gyrA8876c.1575C>T0.137
gyrA8897c.1596T>C0.231
gyrA8903c.1602T>C0.225
gyrA8915c.1614A>G0.240
gyrA8942c.1641G>C0.125
gyrA8946c.1645T>C0.125
gyrA8968p.Ala556Asp0.111
gyrA8981c.1680G>C0.135
gyrA8987c.1686C>G0.137
gyrA8996c.1695T>C0.127
gyrA8998p.Leu566Trp0.127
gyrA9017c.1716C>G0.125
gyrA9029c.1728T>G0.122
gyrA9032c.1731T>C0.140
gyrA9050p.Asp583Glu0.132
gyrA9293c.1992G>C0.127
gyrA9296c.1995T>C0.123
gyrA9304p.Gly668Asp1.000
gyrA9323c.2022C>G0.125
gyrA9325p.Ser675Cys0.114
gyrA9335c.2034G>C0.114
gyrA9353c.2052G>C0.114
gyrA9356c.2055G>A0.116
gyrA9374c.2073G>T0.127
gyrA9377c.2076A>G0.130
gyrA9383c.2082T>C0.130
gyrA9386c.2085T>G0.118
gyrA9407c.2106C>T0.130
gyrA9419c.2118T>C0.134
gyrA9420p.Ile707Glu0.132
gyrA9668c.2367C>T0.114
gyrA9683c.2382G>T0.108
gyrA9689c.2388G>T0.110
gyrA9701c.2400T>C0.110
gyrA9707c.2406G>C0.127
gyrA9716c.2415T>C0.130
gyrA9738p.Leu813Ile0.132
gyrA9743c.2442C>G0.130
gyrA9746c.2445C>T0.137
rpoB759788c.-19A>G0.169
rpoB760059p.Tyr85Glu0.125
rpoB760067c.261G>C0.132
rpoB760070c.264T>C0.132
rpoB760082c.276C>T0.135
rpoB760088c.282C>G0.127
rpoB760091c.285G>C0.116
rpoB760101c.295T>C0.118
rpoB760104c.298T>A0.123
rpoB760112c.306T>C0.139
rpoB760118c.312T>G0.141
rpoB760121c.315T>C0.148
rpoB760130p.Asp108Glu0.163
rpoB760136c.330G>A0.159
rpoB760139c.333A>T0.163
rpoB760142c.336C>G0.180
rpoB760181c.375T>C0.152
rpoB760184c.378A>G0.194
rpoB760196c.390C>G0.214
rpoB760235c.429T>C0.217
rpoB760244c.438G>C0.212
rpoB760283c.477G>C0.202
rpoB760298c.492G>C0.180
rpoB760310c.504G>C0.202
rpoB760316c.510C>G0.213
rpoB760325c.519G>C0.216
rpoB760331c.525G>C0.212
rpoB760334c.528G>T0.218
rpoB760340c.534G>T0.242
rpoB760357p.Thr184Ser0.244
rpoB760361c.555T>C0.239
rpoB760376p.Asp190Glu0.183
rpoB760406c.600G>C0.179
rpoB760407p.Ser201Gly0.274
rpoB760415c.609C>T0.259
rpoB760424c.618C>G0.238
rpoB760430c.624T>C0.250
rpoB760433c.627C>T0.167
rpoB760457c.651C>T0.172
rpoB760463c.657C>T0.191
rpoB760475c.669A>G0.242
rpoB760478c.672C>T0.242
rpoB760481c.675G>T0.239
rpoB760484c.678A>G0.242
rpoB760502c.696C>G0.221
rpoB760522p.Ser239Asn0.154
rpoB760532c.726T>C0.174
rpoB760533p.Val243Thr0.172
rpoB760541c.735G>C0.172
rpoB760547c.741G>C0.174
rpoB760670c.864G>C0.122
rpoB760674c.868T>C0.120
rpoB760679c.873A>G0.120
rpoB760683c.877T>C0.120
rpoB760721c.915C>G0.114
rpoB760724c.918T>C0.114
rpoB760730c.924T>C0.122
rpoB760748c.942C>G0.128
rpoB760751c.945G>C0.127
rpoB760755p.His317Asn0.115
rpoB760759p.Val318Ala0.117
rpoB760764p.Glu320Gln0.118
rpoB760769c.963C>G0.118
rpoB760793c.987A>G0.152
rpoB760805c.999G>C0.127
rpoB760817c.1011A>G0.158
rpoB760820c.1014T>C0.162
rpoB760826c.1020C>G0.167
rpoB760830c.1024T>C0.169
rpoB760841c.1035T>C0.208
rpoB760859c.1053T>C0.208
rpoB760862c.1056G>C0.211
rpoB760877c.1071G>T0.234
rpoB760883c.1077G>C0.219
rpoB760886c.1080A>G0.215
rpoB760887p.Thr361Val0.215
rpoB760910c.1104C>T0.162
rpoB760916c.1110C>T0.206
rpoB760919c.1113C>T0.206
rpoB760925c.1119T>C0.209
rpoB760928c.1122G>C0.209
rpoB760931c.1125C>G0.215
rpoB760946c.1140A>G0.217
rpoB760965p.Met387Leu0.224
rpoB760970c.1164G>C0.221
rpoB760973c.1167G>C0.212
rpoB760982c.1176G>C0.148
rpoB760985c.1179G>C0.182
rpoB760988c.1182C>G0.179
rpoB760991c.1185G>T0.182
rpoB760997c.1191G>C0.215
rpoB761015c.1209G>C0.206
rpoB761027c.1221A>C0.169
rpoB761036c.1230G>C0.215
rpoB761037c.1231T>C0.206
rpoB761051c.1245G>T0.180
rpoB761054c.1248G>C0.180
rpoB761057c.1251G>C0.177
rpoB761060c.1254C>G0.177
rpoB761063c.1257C>G0.180
rpoB761111c.1305C>T0.133
rpoB761180c.1374A>C0.148
rpoB761189c.1383T>C0.153
rpoB761195c.1389G>C0.150
rpoB761198c.1392G>T0.150
rpoB761213c.1407G>C0.119
rpoB761217p.Pro471Ser0.153
rpoB761234c.1428G>C0.145
rpoB761249c.1443A>G0.147
rpoB761261c.1455G>T0.141
rpoB761264c.1458C>G0.129
rpoB761327c.1521A>G0.138
rpoB761345c.1539G>C0.113
rpoB761354c.1548C>T0.113
rpoB761367p.Glu521Gln0.117
rpoB761537c.1731C>G0.164
rpoB761552c.1746G>C0.133
rpoB761555c.1749G>C0.148
rpoB761558c.1752C>G0.148
rpoB761570c.1764T>C0.145
rpoB761573c.1767C>G0.145
rpoB761579c.1773G>C0.145
rpoB761606c.1800C>G0.141
rpoB761612c.1806G>T0.130
rpoB761615c.1809A>C0.155
rpoB761636c.1830G>T0.186
rpoB761645c.1839C>G0.149
rpoB761648c.1842T>C0.191
rpoB761666c.1860G>C0.178
rpoB761669c.1863C>T0.178
rpoB761675c.1869G>T0.182
rpoB761682c.1876C>T0.128
rpoB761690c.1884G>C0.171
rpoB761708c.1902C>T0.118
rpoB761712p.Val636Ile0.158
rpoB761719p.Ala638Val0.133
rpoB761722p.Glu639Gly0.133
rpoB761727p.Ser641Gly0.132
rpoB761736p.Ile644Val0.118
rpoB761747c.1941G>C0.130
rpoB761765c.1959T>C0.122
rpoB761772p.His656Ala0.111
rpoB761778p.Asn658Asp0.115
rpoB761791p.Arg662His0.118
rpoB761813c.2007T>C0.132
rpoB761834c.2028T>C0.114
rpoB761849c.2043C>T0.127
rpoB761930c.2124G>C0.149
rpoB761948c.2142G>C0.147
rpoB761954c.2148C>G0.151
rpoB762008c.2202C>T0.149
rpoB762047c.2241G>A0.155
rpoB762053c.2247T>C0.153
rpoB762065c.2259T>C0.174
rpoB762083c.2277T>C0.167
rpoB762086c.2280G>C0.169
rpoB762101c.2295C>G0.182
rpoB762114p.Ile770Val0.189
rpoB762131c.2325C>G0.176
rpoB762137c.2331C>T0.149
rpoB762140c.2334G>C0.137
rpoB762143c.2337T>C0.123
rpoB762149c.2343G>C0.137
rpoB762158c.2352G>C0.135
rpoB762167c.2361T>C0.135
rpoB762176c.2370T>C0.143
rpoB762185c.2379G>C0.157
rpoB762233c.2427G>C0.129
rpoB762245c.2439G>C0.129
rpoB762284c.2478G>T0.138
rpoB762293c.2487T>C0.118
rpoB762308c.2502G>C0.139
rpoB762314c.2508C>T0.129
rpoB762317c.2511A>G0.129
rpoB762329c.2523G>C0.125
rpoB762338c.2532T>C0.130
rpoB762341c.2535G>C0.129
rpoB762350c.2544C>T0.125
rpoB762362p.Glu852Asp0.145
rpoB762369c.2563T>C0.148
rpoB762374c.2568G>C0.138
rpoB762395c.2589G>C0.125
rpoB762401c.2595G>C0.123
rpoB762410c.2604T>C0.138
rpoB762416c.2610A>G0.136
rpoB762434c.2628T>C0.143
rpoB762443c.2637G>C0.155
rpoB762449c.2643C>A0.158
rpoB762452c.2646G>C0.158
rpoB762470c.2664G>C0.167
rpoB762491c.2685T>C0.196
rpoB762509c.2703T>G0.212
rpoB762510p.Ala902Pro0.208
rpoB762515c.2709C>T0.208
rpoB762527c.2721G>C0.153
rpoB762533c.2727T>C0.155
rpoB762536c.2730T>C0.148
rpoB762537c.2731T>C0.145
rpoB762551c.2745C>T0.182
rpoB762560c.2754A>T0.190
rpoB762563c.2757G>T0.188
rpoB762833c.3027C>T0.164
rpoB762839c.3033G>A0.167
rpoB762857c.3051C>G0.150
rpoB762863c.3057T>C0.150
rpoB762879p.Met1025Leu0.169
rpoB762929c.3123G>C0.133
rpoB762959c.3153G>C0.123
rpoB762962c.3156C>T0.123
rpoB763022c.3216C>G0.115
rpoB763028c.3222T>C0.137
rpoB763031c.3225T>G0.113
rpoB763053c.3247T>C0.193
rpoB763070c.3264T>C0.177
rpoB763085c.3279C>G0.182
rpoB763103c.3297G>C0.206
rpoB763115c.3309T>C0.232
rpoB763127c.3321G>C0.197
rpoB763130c.3324G>A0.194
rpoB763133c.3327G>C0.200
rpoB763136c.3330C>T0.197
rpoB763142c.3336C>G0.194
rpoB763160c.3354G>T0.189
rpoB763169c.3363A>G0.192
rpoB763190c.3384C>T0.182
rpoB763199c.3393G>C0.160
rpoB763202c.3396A>G0.163
rpoB763205c.3399G>T0.160
rpoB763206c.3400A>T0.159
rpoB763217c.3411G>C0.160
rpoB763226c.3420A>G0.162
rpoB763227p.Leu1141Met0.178
rpoB763232c.3426C>T0.176
rpoB763235p.Glu1143Asp0.176
rpoB763241p.Glu1145Asp0.169
rpoB763259c.3453G>C0.151
rpoB763262c.3456C>T0.149
rpoB763265c.3459G>C0.151
rpoB763268c.3462C>G0.151
rpoB763271c.3465C>T0.147
rpoB763283c.3477T>C0.154
rpoB763289c.3483C>G0.128
rpoB763298c.3492A>G0.130
rpoC763423p.Glu18Asp0.111
rpoC763528c.159G>A0.122
rpoC763546c.177A>G0.156
rpoC763558c.189C>T0.143
rpoC763570c.201G>C0.151
rpoC763573c.204G>C0.153
rpoC763594c.225C>T0.211
rpoC763603c.234C>T0.187
rpoC763615c.246G>C0.195
rpoC763618c.249C>T0.195
rpoC763633c.264T>C0.198
rpoC763660c.291T>G0.253
rpoC763666c.297G>A0.253
rpoC763675c.306C>G0.250
rpoC763702c.333C>G0.289
rpoC763709c.340C>T0.289
rpoC763714c.345G>C0.276
rpoC763717c.348T>C0.280
rpoC763723c.354G>C0.288
rpoC763732c.363C>T0.239
rpoC763741c.372C>T0.284
rpoC763747c.378G>A0.280
rpoC763765c.396T>G0.323
rpoC763792p.Glu141Asp0.312
rpoC763807c.438T>C0.277
rpoC763813c.444C>G0.250
rpoC763831c.462A>G0.197
rpoC763837c.468G>C0.200
rpoC763840c.471G>C0.197
rpoC763858c.489A>G0.211
rpoC763861c.492C>T0.205
rpoC763872p.Gly168Ala0.182
rpoC763876p.Glu169Asp0.177
rpoC763879c.510A>G0.179
rpoC763882c.513G>A0.141
rpoC763891c.522G>C0.215
rpoC763894c.525A>G0.212
rpoC763900c.531G>C0.212
rpoC763921c.552G>C0.193
rpoC763924c.555G>A0.163
rpoC763930c.561G>A0.163
rpoC763933c.564C>T0.208
rpoC763940p.Ala191Ser0.189
rpoC763945c.576T>C0.178
rpoC763947p.Ala193Val0.178
rpoC763951c.582G>C0.178
rpoC763960c.591T>G0.200
rpoC763969c.600C>T0.143
rpoC763978c.609C>T0.200
rpoC763987c.618C>T0.179
rpoC763991p.Ile208Leu0.171
rpoC763996c.627T>C0.160
rpoC764005c.636G>C0.156
rpoC764024c.655T>C0.136
rpoC764029p.Glu220Asp0.139
rpoC764032p.Asp221Glu0.138
rpoC764040p.Ser224Thr0.150
rpoC764044c.675T>C0.149
rpoC764059c.690G>T0.132
rpoC764071c.702G>C0.129
rpoC764098c.729A>G0.113
rpoC764101c.732C>G0.114
rpoC764103p.Val245Glu0.115
rpoC764131c.762T>C0.163
rpoC764134c.765C>G0.167
rpoC764153p.Gln262Lys0.169
rpoC764161c.792G>C0.159
rpoC764182p.Asp271Glu0.159
rpoC764188c.819A>G0.159
rpoC764203c.834G>C0.125
rpoC764207p.Val280Thr0.129
rpoC764239c.870T>G0.167
rpoC764254c.885G>C0.150
rpoC764263c.894G>C0.114
rpoC764266c.897T>C0.114
rpoC764272c.903G>C0.117
rpoC764278c.909A>G0.128
rpoC764293c.924G>C0.141
rpoC764297p.Met310Leu0.129
rpoC764344c.975C>T0.167
rpoC764353c.984G>T0.167
rpoC764365c.996C>T0.172
rpoC764371c.1002G>C0.115
rpoC764380c.1011G>C0.220
rpoC764387c.1018T>C0.232
rpoC764405c.1036A>C0.209
rpoC764431c.1062G>C0.206
rpoC764434c.1065A>G0.194
rpoC764435c.1066A>C0.194
rpoC764446c.1077T>C0.188
rpoC764449c.1080G>C0.188
rpoC764458c.1089G>C0.203
rpoC764461c.1092A>G0.203
rpoC764485c.1116G>C0.221
rpoC764491c.1122G>T0.227
rpoC764497c.1128A>G0.246
rpoC764500c.1131C>G0.224
rpoC764521c.1152T>C0.231
rpoC764536c.1167G>T0.180
rpoC764539c.1170C>G0.231
rpoC764575c.1206T>G0.241
rpoC764605c.1236G>C0.238
rpoC764611c.1242G>T0.234
rpoC764623c.1254C>G0.176
rpoC764626c.1257C>T0.217
rpoC764632c.1263T>C0.181
rpoC764650c.1281G>T0.211
rpoC764701c.1332C>G0.189
rpoC764713c.1344G>T0.197
rpoC764716c.1347G>C0.192
rpoC764746c.1377G>T0.184
rpoC764752c.1383G>C0.173
rpoC764758c.1389C>G0.179
rpoC764764c.1395T>C0.178
rpoC764803c.1434C>T0.190
rpoC764809c.1440C>T0.182
rpoC764815c.1446A>G0.185
rpoC764824c.1455T>C0.127
rpoC764827c.1458G>C0.171
rpoC764858c.1489T>C0.143
rpoC764869c.1500C>T0.155
rpoC764875c.1506C>T0.157
rpoC764878c.1509C>G0.155
rpoC764887c.1518G>C0.167
rpoC764888c.1519T>C0.167
rpoC764911c.1542A>G0.163
rpoC764912p.Met515Gln0.163
rpoC764932c.1563C>A0.125
rpoC764935c.1566T>C0.163
rpoC764948c.1579T>C0.173
rpoC764968c.1599T>C0.162
rpoC764995c.1626C>G0.831
rpoC765103c.1734G>T0.123
rpoC765425p.Lys686Glu0.156
rpoC765445c.2076G>C0.149
rpoC765453p.Ala695Gly0.138
rpoC765466c.2097C>T0.141
rpoC765478c.2109T>C0.141
rpoC765480p.Tyr704Phe0.141
rpoC765496c.2127C>G0.135
rpoC765499c.2130C>G0.133
rpoC765772c.2403C>G0.195
rpoC765778c.2409C>G0.156
rpoC765779p.Asp804Lys0.156
rpoC765793c.2424C>G0.195
rpoC765796c.2427C>T0.197
rpoC765800p.Phe811Leu0.197
rpoC765811c.2442T>G0.162
rpoC765814c.2445A>C0.192
rpoC765817c.2448G>C0.205
rpoC765823c.2454C>A0.178
rpoC765826c.2457T>C0.213
rpoC765835c.2466C>T0.221
rpoC765871c.2502T>C0.228
rpoC765875p.Val836Ile0.237
rpoC765886c.2517C>G0.250
rpoC765904c.2535C>G0.253
rpoC765908c.2539C>T0.264
rpoC765934c.2565C>T0.292
rpoC765940c.2571A>T0.291
rpoC765946c.2577C>T0.280
rpoC765947c.2578T>C0.280
rpoC765952c.2583G>C0.293
rpoC765961c.2592G>T0.277
rpoC765962c.2593T>C0.277
rpoC765967c.2598C>T0.277
rpoC765979c.2610C>G0.261
rpoC765982c.2613C>T0.264
rpoC765994c.2625A>T0.244
rpoC766012c.2643C>G0.192
rpoC766021c.2652G>C0.196
rpoC766027c.2658G>T0.140
rpoC766034p.His889Thr0.167
rpoC766043p.Gln892Glu0.167
rpoC766067p.Glu900Thr0.156
rpoC766345c.2976T>C0.210
rpoC766348c.2979A>G0.213
rpoC766363c.2994G>C0.246
rpoC766381c.3012C>T0.189
rpoC766384c.3015A>G0.192
rpoC766390c.3021C>T0.197
rpoC766408c.3039C>T0.203
rpoC766442p.Thr1025Val0.118
rpoC766456c.3087C>T0.130
rpoC766528c.3159T>C0.122
rpoC766607p.Ile1080Leu0.130
rpoC766996c.3627C>T0.116
rpoC767002c.3633G>C0.153
rpoC767008c.3639G>A0.155
rpoC767023c.3654C>T0.160
rpoC767098c.3729T>C0.247
rpoC767104c.3735C>G0.243
rpoC767105p.Asn1246Gln0.243
rpoC767119c.3750A>G0.246
rpoC767134c.3765C>T0.261
rpoC767138c.3769C>T0.269
rpoC767158c.3789T>C0.145
rpoC767162p.Asn1265Ala0.224
rpoC767167c.3798C>T0.231
rpoC767174p.Asn1269Asp0.231
rpoC767180p.Ala1271Gln0.238
rpoC767191c.3822C>G0.234
rpoC767197c.3828G>A0.234
rpoC767221c.3852C>G0.239
rpoC767230c.3861G>C0.266
rpoC767233c.3864T>C0.242
rpoC767281c.3912C>G0.176
rpoC767284c.3915C>G0.176
rpsL781395c.-165T>C1.000
rpsL781559c.-1G>C0.266
rpsL781572p.Gln5Asn0.266
rpsL781595c.36T>C0.271
rpsL781598c.39G>C0.265
rpsL781605p.Ile16Val0.250
rpsL781608p.Ser17Ala0.250
rpsL781628c.69T>C0.275
rpsL781631c.72G>C0.279
rpsL781649c.90T>C0.246
rpsL781655c.96T>C0.172
rpsL781658c.99A>G0.209
rpsL781682c.123T>C0.173
rpsL781709c.150G>C0.136
rpsL781715c.156T>C0.136
rpsL781751c.192G>C0.121
rpsL781760c.201T>C0.113
rpsL781814c.255C>T0.133
rpsL781817c.258G>T0.131
rpsL781838c.279G>C0.137
rpsL781841c.282C>T0.143
rpsL781859c.300T>G0.152
rpsL781868c.309T>C0.157
rpsL781871c.312G>C0.158
rpsL781892c.333A>G0.194
rpsL781898c.339A>C0.198
rpsL781901c.342C>T0.198
rpsL781907c.348T>C0.198
rpsL781916c.357T>C0.192
rpsL781929p.Gly124Ser0.215
rplC800964c.156G>C0.143
rplC800985c.177A>G0.147
rplC801003c.195G>C0.123
rplC801004p.Leu66Val0.123
rplC801009c.201A>C0.125
rplC801012c.204T>C0.127
rplC801019p.Thr71Ala0.129
rplC801027c.219C>G0.131
rplC801039c.231A>G0.129
rplC801171c.363A>G0.173
rplC801174c.366T>C0.173
rplC801195c.387G>T0.203
rplC801205p.Arg133Ala0.200
rplC801210c.402T>C0.205
rplC801220p.Ser138Ala0.160
rplC801237c.429G>A0.198
rplC801252c.444G>C0.175
rplC801264c.456C>T0.171
rplC801267c.459A>C0.171
rplC801276c.468G>C0.165
rplC801281p.Ala158Gly0.163
rplC801285c.477G>C0.160
rplC801307p.Ala167Ser0.133
rplC801312c.504G>C0.141
rplC801324c.516T>C0.139
rplC801349p.Leu181Lys0.110
rplC801354c.546G>T0.111
rplC801357c.549T>C0.113
rplC801385c.577C>T0.205
embR1416222p.Phe376Leu0.151
embR1416234p.Cys372Gly0.146
rrs1471925r.80t>c0.187
rrs1471934r.89a>g0.192
rrs1471986r.141c>t0.266
rrs1472019r.174g>a0.222
rrs1472023r.178g>t0.213
rrs1472031r.186g>c0.174
rrs1472033r.188a>c0.174
rrs1472035r.190g>t0.174
rrs1472040r.195t>g0.170
rrs1472041r.196c>t0.172
rrs1472042r.197t>g0.193
rrs1472061r.216a>t0.263
rrs1472075r.230a>g0.294
rrs1472106r.261g>a0.327
rrs1472108r.263c>t0.327
rrs1472150r.305t>a0.337
rrs1472251r.406g>a0.274
rrs1472286r.441c>a0.206
rrs1472287r.442c>t0.204
rrs1472289r.444t>g0.204
rrs1472290r.445c>g0.202
rrs1472313r.468g>a0.202
rrs1472315r.470t>g0.204
rrs1472324r.479g>c0.202
rrs1472325r.480g>c0.200
rrs1472327r.482g>a0.202
rrs1472328r.483g>t0.200
rrs1472337r.492c>g0.331
rrs1472380r.535g>c0.359
rrs1472446r.601t>a0.362
rrs1472452r.607g>a0.354
rrs1472464r.619a>g0.385
rrs1472846r.1001c>a0.164
rrs1472847r.1002g>c0.206
rrs1472849r.1004c>g0.203
rrs1472850r.1005t>c0.164
rrs1472857r.1012a>g0.171
rrs1472858r.1013g>t0.210
rrs1472860r.1015c>g0.208
rrs1472861r.1016g>t0.168
rrs1472973r.1128a>t0.180
rrs1473104r.1259c>t0.273
rrs1473110r.1265t>g0.270
rrs1473111r.1266a>g0.273
rrs1473123r.1278a>c0.265
rrs1473276r.1431a>g0.224
rrs1473290r.1445c>t0.231
rrs1473301r.1456t>c0.228
rrl1473568c.-90G>T0.147
rrl1473569c.-89A>T0.152
rrl1473570c.-88A>T0.152
rrl1473571c.-87C>G0.152
rrl1473668r.11c>t0.286
rrl1473696r.39t>c0.343
rrl1473697r.40c>t0.348
rrl1473699r.42a>g0.348
rrl1473717r.60g>t0.344
rrl1473746r.89t>c0.375
rrl1473758r.101g>t0.393
rrl1473770r.113t>g0.345
rrl1473788r.131a>g0.322
rrl1473806r.149c>t0.231
rrl1473807r.150t>c0.192
rrl1473823r.166t>c0.172
rrl1473829r.172g>t0.172
rrl1473830r.173t>g0.167
rrl1473831r.174g>t0.161
rrl1473832r.175c>a0.164
rrl1473876r.219g>a0.172
rrl1473887r.230t>a0.148
rrl1473898r.241c>t0.150
rrl1473899r.242a>g0.150
rrl1474022r.365g>a0.208
rrl1474044r.387c>t0.237
rrl1474045r.388c>t0.237
rrl1474053r.396g>a0.246
rrl1474054r.397t>c0.246
rrl1474083r.426c>t0.275
rrl1474091r.434c>t0.265
rrl1474093r.436g>a0.265
rrl1474096r.439c>t0.269
rrl1474099r.442g>a0.243
rrl1474108r.451c>g0.250
rrl1474135r.478g>a0.301
rrl1474140r.483c>t0.301
rrl1474151r.494c>t0.300
rrl1474174r.517a>g0.287
rrl1474181r.524c>t0.276
rrl1474183r.526t>c0.276
rrl1474185r.528g>a0.273
rrl1474186r.529a>g0.273
rrl1474249r.592g>t0.280
rrl1474266r.609t>c0.209
rrl1474269r.612c>t0.209
rrl1474289r.632c>t0.161
rrl1474292r.635t>g0.161
rrl1474308r.651g>t0.169
rrl1474310r.653t>g0.164
rrl1474362r.705a>g0.230
rrl1474414r.757c>t0.164
rrl1474432r.775c>t0.159
rrl1474438r.781a>t0.157
rrl1474439r.782a>g0.157
rrl1474446r.789c>t0.281
rrl1474626r.969t>c0.250
rrl1474627r.970g>a0.250
rrl1474629r.972g>a0.247
rrl1474632r.975g>t0.234
rrl1474636r.979a>t0.231
rrl1474637r.980c>t0.228
rrl1474638r.981c>g0.228
rrl1474639r.982g>t0.231
rrl1474640r.983c>t0.231
rrl1474673r.1016t>c0.276
rrl1474676r.1019t>a0.276
rrl1474677r.1020a>g0.281
rrl1474710r.1053t>a0.292
rrl1474711r.1054g>c0.292
rrl1474712r.1055g>a0.289
rrl1474713r.1056t>a0.289
rrl1474717r.1060a>g0.286
rrl1474720r.1063c>t0.300
rrl1474753r.1096a>g0.326
rrl1474760r.1103a>g0.348
rrl1474794r.1137c>t0.374
rrl1474803r.1146g>a0.396
rrl1474812r.1155g>a0.389
rrl1474830r.1173a>g0.398
rrl1474932r.1275c>t0.450
rrl1474991r.1334t>g0.114
rrl1474997r.1340a>g0.122
rrl1474999r.1342c>t0.122
rrl1475005r.1348c>a0.122
rrl1475006r.1349a>g0.125
rrl1475008r.1351c>a0.125
rrl1475010r.1353g>a0.119
rrl1475015r.1358c>t0.114
rrl1475031r.1374g>t0.349
rrl1475061r.1404c>a0.371
rrl1475062r.1405a>t0.381
rrl1475120r.1463g>t0.370
rrl1475315r.1658a>t0.237
rrl1475353r.1696a>t0.236
rrl1475354r.1697a>g0.236
rrl1475355r.1698c>t0.236
rrl1475356r.1699a>g0.111
rrl1475363r.1706c>t0.239
rrl1475369r.1712g>t0.160
rrl1475379r.1722g>a0.225
rrl1475380r.1723c>a0.229
rrl1475381r.1724g>c0.229
rrl1475382r.1725a>g0.229
rrl1475395r.1738t>c0.179
rrl1475396r.1739c>g0.167
rrl1475397r.1740g>t0.167
rrl1475398r.1741c>t0.222
rrl1475403r.1746t>a0.167
rrl1475404r.1747a>t0.167
rrl1475419r.1762c>t0.296
rrl1475429r.1772g>t0.300
rrl1475452r.1795c>a0.337
rrl1475479r.1822c>g0.318
rrl1475483r.1826c>t0.315
rrl1475505r.1848g>a0.316
rrl1475526r.1869c>a0.293
rrl1475531r.1874c>t0.306
rrl1475544r.1887a>t0.300
rrl1475545r.1888t>g0.300
rrl1475602r.1945g>c0.216
rrl1475603r.1946g>c0.213
rrl1475604r.1947a>c0.213
rrl1475612r.1955g>c0.213
rrl1475615r.1958c>g0.211
rrl1475616r.1959a>g0.211
rrl1475618r.1961c>t0.200
rrl1475626r.1969t>c0.188
rrl1475629r.1972g>c0.188
rrl1475637r.1980t>g0.186
rrl1475638r.1981c>g0.186
rrl1475639r.1982c>g0.188
rrl1475643r.1986c>g0.184
rrl1475647r.1990g>c0.193
rrl1475659r.2002g>a0.263
rrl1475753r.2096c>t0.273
rrl1475762r.2105g>t0.264
rrl1475763r.2106c>t0.264
rrl1475764r.2107a>c0.264
rrl1475765r.2108a>g0.273
rrl1475775r.2118g>a0.319
rrl1475988r.2331a>g0.343
rrl1475991r.2334t>c0.343
rrl1475995r.2338g>a0.337
rrl1476030r.2373a>g0.244
rrl1476032r.2375c>a0.256
rrl1476033r.2376t>g0.256
rrl1476035r.2378g>c0.266
rrl1476044r.2387t>g0.284
rrl1476046r.2389g>t0.239
rrl1476047r.2390g>t0.239
rrl1476049r.2392c>t0.281
rrl1476088r.2431a>c0.317
rrl1476099r.2442a>g0.306
rrl1476103r.2446c>g0.299
rrl1476105r.2448g>a0.299
rrl1476106r.2449a>t0.299
rrl1476110r.2453g>c0.292
rrl1476115r.2458t>c0.309
rrl1476131r.2474c>t0.326
rrl1476160r.2503t>c0.311
rrl1476214r.2557g>t0.286
rrl1476215r.2558c>t0.289
rrl1476224r.2567a>g0.280
rrl1476251r.2594t>g0.309
rrl1476256r.2599a>t0.317
rrl1476260r.2603a>g0.308
rrl1476281r.2624t>c0.360
rrl1476297r.2640c>t0.400
rrl1476299r.2642c>t0.394
rrl1476529r.2872a>g0.386
rrl1476540r.2883c>t0.390
rrl1476583r.2926g>a0.253
rrl1476584r.2927c>t0.400
rrl1476594r.2937c>t0.378
rrl1476597r.2940g>a0.379
rrl1476603r.2946g>a0.407
rrl1476608r.2951c>g0.167
rrl1476628r.2971t>a0.413
rrl1476664r.3007t>c0.415
rrl1476665r.3008t>c0.415
rrl1476674r.3017t>c0.415
rrl1476679r.3022t>c0.400
rrl1476689r.3032a>t0.328
rrl1476690r.3033c>t0.328
rrl1476693r.3036g>a0.328
rrl1476695r.3038t>a0.328
rrl1476716r.3059a>c0.328
rrl1476723r.3066t>a0.295
rrl1476725r.3068c>t0.283
rrl1476726r.3069a>g0.283
rrl1476731r.3074g>a0.197
rrl1476732r.3075t>c0.311
rrl1476746r.3089t>c0.333
rrl1476747r.3090c>t0.222
rrl1476754r.3097g>a0.212
rrl1476759r.3102t>c0.246
rrl1476770r.3113t>c0.311
rrl1476771r.3114g>a0.311
fabG11673750p.Lys104Arg0.109
fabG11673802c.363A>G0.127
fabG11673905p.Ser156Ala0.134
fabG11674102c.663C>G0.120
fabG11674123c.684T>C0.120
fabG11674132c.693T>C0.148
fabG11674141c.702T>C0.113
inhA1674651c.450C>T0.151
inhA1674656p.Ser152Thr0.140
inhA1674660c.459G>C0.140
inhA1674690c.489C>G0.123
inhA1674858c.657G>A0.137
inhA1674876c.675C>T0.137
inhA1674904p.Ala235Pro0.118
rpsA1833829c.288A>G0.148
rpsA1833832c.291G>A0.165
rpsA1833838c.297G>C0.169
rpsA1833841c.300C>G0.167
rpsA1833847c.306C>G0.186
rpsA1833856c.315A>G0.186
rpsA1833862c.321G>T0.181
rpsA1833894p.Ala118Glu0.149
rpsA1833904c.363G>A0.151
rpsA1833928c.387G>C0.147
rpsA1833949c.408T>C0.151
rpsA1833970c.429G>T0.160
rpsA1833976c.435C>T0.151
rpsA1833979c.438T>C0.149
rpsA1833991c.450C>A0.146
rpsA1834000c.459G>C0.153
rpsA1834009c.468C>T0.134
rpsA1834012c.471G>T0.131
rpsA1834015c.474G>C0.135
rpsA1834021c.480C>T0.171
rpsA1834030c.489C>G0.181
rpsA1834097c.556T>A0.143
rpsA1834102c.561T>C0.147
rpsA1834156p.Asn205Lys0.117
rpsA1834157c.616T>C0.117
rpsA1834162c.621A>G0.124
rpsA1834165c.624A>G0.125
rpsA1834169p.Thr210Ala0.129
rpsA1834177c.636A>C0.167
rpsA1834189c.648G>C0.190
rpsA1834213c.672G>C0.191
rpsA1834234c.693G>C0.207
rpsA1834240c.699T>C0.195
rpsA1834246c.705G>C0.138
rpsA1834249c.708T>C0.198
rpsA1834252c.711C>G0.145
rpsA1834261c.720A>G0.198
rpsA1834264c.723G>C0.198
rpsA1834279c.738C>T0.221
rpsA1834297c.756C>T0.218
rpsA1834303c.762T>G0.216
rpsA1834306c.765T>C0.216
rpsA1834345c.804C>T0.162
rpsA1834348c.807T>C0.246
rpsA1834361c.820T>C0.236
rpsA1834366c.825A>G0.236
rpsA1834396c.855G>C0.236
rpsA1834411c.870T>C0.257
rpsA1834423c.882G>T0.224
rpsA1834451c.910T>C0.213
rpsA1834456c.915T>G0.213
rpsA1834468c.927A>G0.203
rpsA1834489c.948T>C0.188
rpsA1834498c.957C>T0.191
rpsA1834513c.972C>G0.179
rpsA1834520p.Ala327Ser0.179
rpsA1834528c.987T>C0.188
rpsA1834540c.999G>C0.164
rpsA1834543c.1002C>G0.160
rpsA1834546c.1005T>C0.154
rpsA1834606c.1065C>T0.143
rpsA1834609c.1068T>C0.138
rpsA1834619c.1078T>C0.118
rpsA1834622c.1081T>A0.120
rpsA1834633c.1092A>G0.145
rpsA1834639c.1098T>C0.145
rpsA1834667p.Ala376Ser0.143
rpsA1834690c.1149T>C0.146
rpsA1834732c.1191T>C0.117
rpsA1834738c.1197A>G0.115
rpsA1834759c.1218A>C0.119
rpsA1834765p.Glu408Asp0.121
rpsA1834792c.1251G>C0.118
rpsA1834829p.Ala430Thr0.151
rpsA1834852c.1311C>G0.151
tlyA1917972c.33A>G1.000
tlyA1918629c.690G>C0.111
katG2155284c.828A>G0.140
katG2155305c.807A>C0.122
katG2155661p.Val151Leu0.167
katG2155668c.444C>G0.136
katG2155674c.438C>G0.138
katG2155680c.432C>T0.138
katG2155691c.421A>G0.210
katG2155696p.Ala139Val0.226
katG2155716c.396A>C0.230
katG2155722c.390C>G0.237
katG2155728c.384C>G0.250
katG2155742p.Gly124Arg0.254
katG2155747p.Ala122Gly0.254
katG2155749c.363G>A0.186
katG2155752c.360G>A0.259
katG2155766p.His116Glu0.250
katG2155769p.Ile115Val0.250
katG2155770c.342G>C0.179
katG2155782c.330G>T0.196
katG2155785c.327A>G0.260
katG2155796p.Ala106Ser0.212
katG2155800c.312C>G0.212
katG2155805p.Ile103Val0.212
katG2155806c.306A>G0.212
katG2155815c.297C>G0.170
katG2155824c.288G>C0.173
katG2155828p.Tyr95Phe0.212
katG2155836c.276G>C0.176
kasA2518534c.420G>C0.273
kasA2518564c.450C>G0.236
kasA2518567c.453G>C0.222
kasA2518573c.459G>C0.218
kasA2518574p.Ile154Ala0.218
kasA2518582c.468G>T0.179
kasA2518583p.Gln157Glu0.218
kasA2518588c.474T>C0.192
kasA2518591c.477G>C0.222
kasA2518606c.492G>C0.286
kasA2518609p.Met165Ile0.286
kasA2518612c.498C>T0.218
kasA2518624c.510C>G0.300
kasA2518636c.522C>A0.241
kasA2518639c.525G>T0.310
kasA2518642c.528A>G0.310
kasA2518645c.531G>C0.310
kasA2518656p.Ala181Gly0.316
kasA2518663c.549T>C0.255
kasA2518672c.558G>C0.236
kasA2518678c.564C>T0.308
kasA2518684c.570C>G0.286
kasA2518688p.Val192Phe0.276
kasA2518697p.Cys195Val0.246
kasA2518708c.594C>G0.203
kasA2518714c.600A>C0.172
kasA2518715p.Pro201Gly0.172
kasA2518726c.612G>A0.118
kasA2518732c.618C>G0.172
kasA2518747c.633C>G0.164
kasA2518756c.642G>C0.176
kasA2518780p.Glu222Asp0.190
kasA2518783c.669T>C0.185
kasA2518785p.Glu224Ala0.185
kasA2518787p.Arg225Gly0.185
kasA2518792c.678C>G0.185
kasA2518795c.681C>T0.145
kasA2518813c.699C>T0.203
kasA2518816c.702C>T0.147
kasA2518825c.711T>C0.200
kasA2518843c.729T>C0.211
kasA2518847p.Leu245Met0.183
kasA2518853p.Leu247Ile0.174
kasA2518864c.750G>C0.176
kasA2518877p.Lys255Leu0.141
kasA2518898c.784T>C0.159
kasA2518903c.789C>T0.143
kasA2518906c.792A>G0.145
kasA2518907c.793T>C0.159
kasA2518910p.Leu266Met0.156
thyX3067376c.570C>G0.116
thyX3067457c.489G>A0.116
thyX3067463p.Ile161Met0.122
thyX3067765p.Leu61Ile0.143
thyX3067771p.Gly59Ser0.163
thyX3067772c.174G>C0.163
thyX3067781c.165G>C0.186
thyX3067788p.Lys53Arg0.222
thyX3067808c.138G>A0.205
thyX3067814c.132A>G0.205
thyX3067817c.129G>A0.205
thyX3067829c.117G>T0.116
thyX3067840p.Val36Thr0.150
thyX3067841c.105C>G0.150
thyX3067847c.99G>A0.150
thyX3067850c.96T>C0.140
thyX3067862c.84G>A0.136
thyX3067869p.Thr26Ser0.128
thyX3067874c.72G>C0.128
thyA3073776c.696T>C1.000
thyA3073868p.Thr202Ala0.890
thyA3073920c.552G>C0.158
thyA3073925c.547A>G0.154
thyA3073929c.543A>G0.156
thyA3073953c.519A>G0.156
thyA3073959c.513A>G0.139
thyA3073962c.510C>G0.139
thyA3073971c.501G>A0.151
thyA3073983c.489G>C0.123
thyA3073989c.483A>G0.130
thyA3073994c.478C>G0.127
thyA3074000p.Arg158Lys0.129
thyA3074004c.468A>G0.129
thyA3074013c.459G>A0.129
ald3086788c.-32T>C1.000
ald3087699p.Leu294Val0.227
ald3087704c.885T>C0.221
ald3087716c.897G>C0.197
ald3087727p.Ala303Gly0.207
ald3087738p.Lys307Arg0.207
ald3087751p.Tyr311Phe0.211
ald3087767c.948G>C0.211
ald3087770c.951G>C0.207
ald3087779c.960T>C0.179
alr3841652c.-232A>T0.280
alr3841654c.-234A>C0.271
alr3841662c.-242A>G1.000
alr3841663c.-243G>A0.965
panD4044195c.87A>G0.111
panD4044261c.21C>T0.131
embC4240106c.244T>C0.203
embC4240110p.Asn83Thr0.194
embC4240120c.258C>G0.205
embC4240141c.279A>G0.177
embC4240459c.597G>C0.134
embC4240717c.855T>C0.304
embC4240768c.906G>A0.211
embC4240777c.915G>A0.241
embC4240780c.918T>C0.220
embC4240783c.921G>C0.217
embC4240786c.924C>T0.169
embC4240789c.927T>C0.200
embC4240819c.957A>C0.194
embC4240828c.966G>A0.138
embC4240831c.969T>G0.167
embC4241038c.1176G>C0.131
embC4241039p.Asp393Asn0.131
embC4241047c.1185C>G0.123
embC4241050c.1188T>G0.133
embC4241053c.1191G>C0.133
embC4241059c.1197G>A0.138
embC4241074c.1212G>C0.138
embC4241095c.1233C>T0.172
embC4241104c.1242G>A0.161
embC4241107c.1245G>C0.179
embC4241109p.Ala416Gly0.172
embC4241560c.1698C>G0.136
embC4241584c.1722T>C0.154
embC4241587c.1725C>G0.154
embC4241593c.1731C>G0.128
embC4241611c.1749G>C0.128
embC4241614c.1752A>C0.140
embC4241626c.1764T>C0.136
embC4241635c.1773G>C0.130
embC4241644c.1782G>C0.136
embC4241647c.1785G>A0.114
embC4241648c.1786T>C0.133
embC4241656c.1794G>A0.133
embC4241665c.1803G>T0.116
embC4241668c.1806G>C0.125
embC4241671c.1809T>G0.146
embC4241691p.Gly610Ala0.122
embC4241750p.Leu630Met0.143
embC4241756c.1894C>T0.133
embC4241767c.1905C>G0.130
embC4241769p.Ser636Thr0.128
embC4241809c.1947A>C0.154
embC4242643c.2781C>T0.976
embC4242826c.2964G>C0.130
embC4242832c.2970A>G0.125
embC4242838c.2976C>G0.155
embC4242841c.2979C>T0.121
embC4242844c.2982A>G0.155
embC4242847c.2985C>G0.121
embC4242859c.2997C>T0.148
embC4242862c.3000A>G0.148
embC4242872p.Asp1004Thr0.153
embC4242878p.Thr1006Val0.153
embC4242907c.3045G>C0.154
embC4242919c.3057A>G0.152
embC4242928c.3066A>G0.154
embA4244378c.1146G>A0.196
embA4244645c.1413T>C0.167
embA4244648c.1416G>C0.161
embA4244665p.Thr478Ser0.167
embA4244669c.1437G>C0.167
embA4244681c.1449A>C0.167
embA4244684c.1452C>G0.172
embA4244695p.Lys488Thr0.179
embA4244712p.Ala494Ser0.176
embA4244726p.Asp498Glu0.129
embA4244747c.1515T>G0.161
embA4244878p.Ala549Val0.188
embA4244885c.1653A>G0.214
embA4244897c.1665T>C0.167
embA4244900c.1668G>C0.167
embA4244904p.Val558Ile0.158
embA4244957c.1725C>T0.136
embA4245042p.Thr604Ala0.273
embA4245053c.1821G>C0.179
embA4245060c.1828T>C0.250
embA4245071c.1839G>C0.295
embA4245083c.1851A>C0.286
embA4245092c.1860C>G0.211
embA4245094p.Ile621Thr0.268
embA4245101c.1869G>C0.275
embA4245125c.1893G>C0.268
embA4245431c.2199T>C0.145
embA4245454p.Ala741Val0.136
embA4245459p.Pro743Ala0.123
embA4245465p.Pro745Thr0.119
embA4245784p.Thr851Lys0.146
embB4246869p.Ser119Asn0.123
embB4246874p.Gln121Lys0.123
embB4246886p.Val125Ile0.127
embB4247389c.876C>G0.115
embB4247398c.885G>C0.125
embB4247401c.888T>C0.172
embB4247407c.894G>C0.172
embB4247426p.Gly305Gln0.130
embB4247434c.921C>G0.136
embB4247437c.924A>C0.136
embB4247440c.927C>G0.138
embB4247449c.936C>T0.167
embB4247464c.951C>G0.164
embB4247470c.957T>C0.200
embB4247491c.978G>C0.213
embB4247497c.984T>C0.224
embB4247511p.Tyr333Phe0.220
embB4247527c.1014G>C0.244
embB4247536c.1023C>G0.159
embB4247554c.1041T>C0.208
embB4247555p.Leu348Ile0.188
embB4247566c.1053C>A0.143
embB4247572c.1059A>C0.141
embB4247590c.1077A>G0.200
embB4247629c.1116C>G0.154
embB4247638c.1125G>C0.157
embB4248011p.Ser500Ala0.125
embB4248020c.1507T>C0.123
embB4248052c.1539G>C0.127
embB4248085c.1572T>C0.130
embB4248097c.1584C>G0.130
embB4248199c.1686A>G0.119
embB4248200p.Ile563Val0.119
embB4248206p.Ser565Gly0.119
embB4248220c.1707A>G0.138
embB4248225p.Ala571Val0.148
embB4248233c.1720C>T0.128
embB4248242p.Val577Ile0.151
embB4248252p.Gly580Ala0.148
embB4248264p.Phe584Cys0.134
embB4248277c.1764G>C0.130
embB4248304c.1791G>C0.125
embB4248319c.1806A>G0.137
embB4248322c.1809G>T0.129
embB4248457c.1944T>C0.150
ethA4327396c.78A>G0.119
ethA4327405c.69C>G0.119
ethA4327419p.Ala19Thr0.127
gid4408156p.Leu16Arg1.000

Analysis pipeline specifications

TBProfiler Version: 2.1.1

AnalysisProgram
Mappingbwa
Variant CallingBCFtools


Log

Drug Details
The estimated accuracy of drug resistance predictions is:

Drug1Sensitivity (%)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)
Pyrazinamide70.9 (62.4-79.4)93.9 (90.6-97.2)
Streptomycin87.1 (82.7-91.5)89.7 (86.0-93.4)
Ethionamide 73.6 (66.7-80.5)93.3 (89.6-97.0)
Moxifloxacin60.0 (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 acidNot determinedNot determined
Linezolid Not determinedNot determined
Clofazimine Not determinedNot determined
Bedaquiline Not determinedNot determined
Multi drug resistance91.2 (87.8-94.6)98.4 (97.2-99.6)
Extremely drug resistance75.9 (64.5-87.3)98.4 (97.3-99.5)

Lineages
Lineage2LocationStrainRD type
lineage1Indo-OceanicEAIRD239
lineage1.1Indo-OceanicEAI3;EAI4;EAI5;EAI6RD239
lineage1.1.1Indo-OceanicEAI4;EAI5RD239
lineage1.1.1.1Indo-OceanicEAI4;ZERORD239
lineage1.1.2Indo-OceanicEAI3;EAI5RD239
lineage1.1.3Indo-OceanicEAI6RD239
lineage1.2Indo-OceanicEAI1;EAI2RD239
lineage1.2.1Indo-OceanicEAI2RD239
lineage1.2.2Indo-OceanicEAI1RD239
lineage2East-AsianBeijingRD105
lineage2.1East-Asian (non-Beijing)NoneNone
lineage2.2East-Asian (Beijing)Beijing-RD207RD105;RD207
lineage2.2.2East-Asian (Beijing)Beijing-RD105/RD207RD105;RD207
lineage2.2.1East-Asian (Beijing)Beijing-RD181RD105;RD207;RD181
lineage2.2.1.2East-Asian (Beijing)Beijing-RD142RD105;RD207;RD181;RD142
lineage2.2.1.1East-Asian (Beijing)Beijing-RD150RD105;RD207;RD181;RD150
lineage3East-African-IndianCASRD750
lineage3.1East-African-IndianNon-CAS1-DelhiRD750
lineage3.1.1East-African-IndianCAS1-KiliRD750
lineage3.1.2East-African-IndianCAS;CAS2RD750
lineage3.1.2.1East-African-IndianCAS2RD750
lineage3.1.2.2East-African-IndianCASRD750
lineage4Euro-AmericanLAM;T;S;X;HNone
lineage4.1Euro-AmericanT;X;HNone
lineage4.1.2Euro-American (X-type)T;HNone
lineage4.1.2.1Euro-American (X-type)T1;H1RD182
lineage4.1.1Euro-American (X-type)X1;X2;X3None
lineage4.1.1.2Euro-American (X-type)X1None
lineage4.1.1.1Euro-American (X-type)X2RD183
lineage4.1.1.3Euro-American (Haarlem)X1;X3RD193
lineage4.2Euro-AmericanH;T;LAMNone
lineage4.2.2Euro-American (Ural)T;LAM7-TURNone
lineage4.2.2.1Euro-AmericanLAM7-TURNone
lineage4.2.1Euro-American (TUR)H3;H4None
lineage4.3Euro-American (LAM)mainly-LAMNone
lineage4.3.1Euro-American (LAM)LAM9None
lineage4.3.3Euro-American (LAM)LAM;TRD115
lineage4.3.4Euro-American (LAM)LAMRD174
lineage4.3.4.1Euro-American (LAM)LAM1;LAM2RD174
lineage4.3.4.2Euro-American (LAM)LAM1;LAM4;LAM11RD174
lineage4.3.4.2.1Euro-American (LAM)LAM11RD174
lineage4.3.2Euro-American (LAM)LAM3None
lineage4.3.2.1Euro-American (LAM)LAM3RD761
lineage4.4Euro-AmericanS;TNone
lineage4.4.2Euro-AmericanT1;T2None
lineage4.4.1Euro-American (S-type)S;TNone
lineage4.4.1.2Euro-AmericanT1None
lineage4.4.1.1Euro-AmericanS;OrphansNone
lineage4.5Euro-AmericanH;TRD122
lineage4.6Euro-AmericanT;LAMNone
lineage4.6.1Euro-American (Uganda)T2RD724
lineage4.6.1.1Euro-American T2-UgandaRD724
lineage4.6.1.2Euro-AmericanT2RD724
lineage4.6.2Euro-AmericanT;LAMRD726
lineage4.6.2.1Euro-AmericanT3RD726
lineage4.6.2.2Euro-American (Cameroon)LAM10-CAMRD726
lineage4.7Euro-American (mainly T)T1;T5None
lineage4.8Euro-American (mainly T)T1;T2;T3;T5RD219
lineage4.9Euro-American (H37Rv-like)T1None
lineage5West-Africa 1AFRI_2;AFRI_3RD711
lineage6West-Africa 2AFRI_1RD702
lineage7Lineage 7NoneNone
lineageBOVM. bovisBOV_1;BOV_2None

Citations
1. Coll F, et al. Rapid determination of anti-tuberculosis drug resistance from whole genome sequences. Genome Medicine (in press)
2. Coll F, et al. A robust SNP barcode for typing Mycobacterium tuberculosis complex strains. Nature Communications 2014.

Disclaimer
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