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.
Back to results page.
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: 5d2c512af219f
Sample: 5d2c512af219f

Download results

Summary
ID: 5d2c512af219f
Date: Mon Jul 15 11:13:46 2019
Strain: lineage4.5
Drug-resistance: Sensitive

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

Lineage2FamilyMain SpoligotypeRDS
lineage4Euro-AmericanLAM;T;S;X;HNone
lineage4.5Euro-AmericanH;TRD122

Mutations in candidate genes:
GeneChromosome PositionMutationEstimated fraction
gyrB6100c.861G>A1.000
gyrB6115c.876A>G1.000
gyrB6121c.882C>T0.964
gyrB6127c.888G>C1.000
gyrB6133c.894G>C0.964
gyrB6136c.897G>A1.000
gyrB6151c.912C>T0.964
gyrB6172c.933C>T0.964
gyrB6184c.945C>T0.964
gyrB6193c.954G>A0.933
gyrB6196c.957C>T0.929
gyrB6202c.963C>T0.909
gyrB6203p.Ser322Ala0.909
gyrB6214c.975G>C1.000
gyrB6223c.984G>C1.000
gyrB6634c.1395T>C0.941
gyrB6637c.1398T>G0.941
gyrB6640c.1401A>C0.941
gyrB6643c.1404A>G0.941
gyrB6646c.1407C>T0.941
gyrB6655c.1416T>C1.000
gyrB6673c.1434A>C0.981
gyrB6676c.1437T>G0.982
gyrB6703c.1464G>C0.984
gyrB6706c.1467G>A0.984
gyrB6709c.1470A>G0.984
gyrB6712c.1473G>C0.985
gyrB6727c.1488G>T0.985
gyrB6728c.1489C>T0.985
gyrB6739c.1500C>T0.987
gyrB6745c.1506T>C0.987
gyrB6754c.1515C>T0.989
gyrB6763c.1524G>C0.989
gyrB6772c.1533C>G0.988
gyrB6775c.1536G>C0.986
gyrB6793c.1554T>C1.000
gyrB6798p.Gly520Ala1.000
gyrB6808c.1569C>G1.000
gyrB6824c.1585C>T1.000
gyrB6841c.1602T>C1.000
gyrB6862c.1623C>G1.000
gyrB6869c.1630T>C1.000
gyrB6872c.1633T>C1.000
gyrB6878c.1639T>C1.000
gyrB6889c.1650G>A1.000
gyrB6898c.1659G>T1.000
gyrB7006c.1767T>G1.000
gyrB7010p.Leu591Met1.000
gyrB7015c.1776G>A1.000
gyrB7018c.1779G>C1.000
gyrB7024c.1785G>C1.000
gyrB7033c.1794G>C1.000
gyrB7051p.Glu604Asp1.000
gyrB7060c.1821T>C1.000
gyrB7066c.1827G>T1.000
gyrB7078c.1839A>G1.000
gyrB7081c.1842T>C1.000
gyrB7084c.1845A>G1.000
gyrB7090c.1851C>T1.000
gyrB7093c.1854T>C1.000
gyrB7100c.1861T>C1.000
gyrA7499c.198G>C0.982
gyrA7511c.210C>T0.985
gyrA7523c.222C>G1.000
gyrA7526c.225G>A1.000
gyrA7547c.246C>T1.000
gyrA7553c.252C>T1.000
gyrA7559c.258G>C1.000
gyrA7565c.264C>T1.000
gyrA7574c.273G>C1.000
gyrA7585p.Ser95Thr1.000
gyrA7589c.288G>C1.000
gyrA7595c.294C>T1.000
gyrA7607c.306C>T1.000
gyrA7637c.336C>A1.000
gyrA8121c.820T>C1.000
gyrA8129c.828T>C1.000
gyrA8156c.855T>C1.000
gyrA8159c.858G>C1.000
gyrA8168c.867A>G1.000
gyrA8174c.873C>G1.000
gyrA8177c.876A>C1.000
gyrA8187p.Leu296Ile0.929
gyrA8192c.891C>G1.000
gyrA8198c.897T>C1.000
gyrA8207c.906T>C0.933
gyrA8267c.966G>C0.973
gyrA8283p.Ile328Leu0.977
gyrA8288c.987T>C0.979
gyrA8294c.993T>C1.000
gyrA8330c.1029C>G0.983
gyrA8339c.1038A>G1.000
gyrA8340p.Ala347Ser0.980
gyrA8354c.1053G>C0.978
gyrA8372c.1071G>T0.929
gyrA8382c.1081C>T0.944
gyrA8786c.1485T>G0.917
gyrA8792c.1491G>C0.929
gyrA8799p.Ala500Ser0.933
gyrA8810c.1509A>G0.941
gyrA8817p.Ser506Ala0.941
gyrA8828c.1527T>C0.947
gyrA8829c.1528T>C0.947
gyrA8837c.1536C>G0.969
gyrA8846c.1545C>T1.000
gyrA8852c.1551T>C1.000
gyrA8858c.1557T>C1.000
gyrA8870c.1569G>C1.000
gyrA8873c.1572A>G1.000
gyrA8897c.1596T>C1.000
gyrA8903c.1602T>C1.000
gyrA8915c.1614A>G1.000
gyrA8942c.1641G>C1.000
gyrA8945c.1644G>C1.000
gyrA8946c.1645T>C1.000
gyrA8967p.Ala556Lys1.000
gyrA8978c.1677C>T1.000
gyrA8987c.1686C>G1.000
gyrA8990c.1689C>G1.000
gyrA8993c.1692C>T1.000
gyrA8996c.1695T>C1.000
gyrA8998p.Leu566Trp1.000
gyrA9018p.Gln573Lys1.000
gyrA9023c.1722A>C0.917
rpoB760079c.273G>A0.962
rpoB760091c.285G>C0.971
rpoB760101c.295T>C0.971
rpoB760110c.304T>A0.971
rpoB760118c.312T>G0.974
rpoB760121c.315T>C0.974
rpoB760130p.Asp108Glu0.964
rpoB760139c.333A>G0.968
rpoB760181c.375T>C0.972
rpoB760184c.378A>G0.971
rpoB760196c.390C>G0.985
rpoB760235c.429T>C0.984
rpoB760244c.438G>C0.983
rpoB760256c.450C>T0.982
rpoB760274p.Glu156Asp1.000
rpoB760276p.Lys157Met1.000
rpoB760283c.477G>C1.000
rpoB760298c.492G>C1.000
rpoB760307c.501T>C1.000
rpoB760357p.Thr184Ser1.000
rpoB760361c.555T>C1.000
rpoB760370c.564C>G0.968
rpoB760376p.Asp190Glu0.969
rpoB760382c.576G>C0.970
rpoB760388c.582C>T0.972
rpoB760400c.594G>C0.977
rpoB760406c.600G>C0.913
rpoB760407p.Ser201Gly0.977
rpoB760415c.609C>T0.981
rpoB760418c.612G>C0.981
rpoB760430c.624T>C0.984
rpoB760460c.654G>C0.973
rpoB760475c.669A>G0.986
rpoB760481c.675G>C0.986
rpoB760484c.678A>G0.973
rpoB760502c.696C>G0.986
rpoB760522p.Ser239Asn0.986
rpoB760532c.726T>C0.986
rpoB760541c.735G>C0.985
rpoB760567p.Ser254Trp0.962
rpoB760571c.765G>C0.966
rpoB760588p.Thr261Ile0.977
rpoB760591p.Val262Ala0.977
rpoB760595c.789C>T1.000
rpoB760596p.Thr264Pro1.000
rpoB760608c.802C>T1.000
rpoB760611c.805T>C1.000
rpoB760634c.828T>C1.000
rpoB760646c.840C>G1.000
rpoB760655c.849A>G1.000
rpoB760661c.855A>G1.000
rpoB760668p.Thr288Ala1.000
rpoB760674c.868T>C1.000
rpoB760679c.873A>G1.000
rpoB760683c.877T>C1.000
rpoB760703c.897C>T1.000
rpoB760721c.915C>G1.000
rpoB760727c.921C>G1.000
rpoB760730c.924T>C1.000
rpoB760736c.930C>G1.000
rpoB760805c.999G>C1.000
rpoB760817c.1011A>G1.000
rpoB760820c.1014T>C1.000
rpoB760826c.1020C>G1.000
rpoB760830c.1024T>C1.000
rpoB760841c.1035T>C1.000
rpoB760858p.Val351Ala1.000
rpoB760862c.1056G>C1.000
rpoB760865c.1059C>T1.000
rpoB760886p.Glu360Asp1.000
rpoB760887p.Thr361Val1.000
rpoB760907c.1101C>T1.000
rpoB760910c.1104C>T1.000
rpoB760916c.1110C>T1.000
rpoB760928c.1122G>C1.000
rpoB760943c.1137C>T0.971
rpoB760946c.1140A>G1.000
rpoB760965p.Met387Leu0.962
rpoB760970c.1164G>C0.962
rpoB760973c.1167G>T0.960
rpoB760982c.1176G>C0.944
rpoB760985c.1179G>C0.938
rpoB760988c.1182C>G0.938
rpoB760991c.1185G>T0.938
rpoB760997c.1191G>C0.962
rpoB761006c.1200C>G1.000
rpoB761015c.1209G>C1.000
rpoB761027c.1221A>C1.000
rpoB761036c.1230G>C1.000
rpoB761037c.1231T>C1.000
rpoB761051c.1245G>T1.000
rpoB761054c.1248G>C0.977
rpoB761057c.1251G>C0.977
rpoB761060c.1254C>G0.977
rpoB761063c.1257C>G0.978
rpoB761084c.1278C>A1.000
rpoB761097c.1291A>T1.000
rpoB761102c.1296A>G1.000
rpoB761132c.1326G>C1.000
rpoB761133c.1327T>C1.000
rpoB761147c.1341C>T1.000
rpoB761150c.1344A>T1.000
rpoB761165c.1359G>C1.000
rpoB761171c.1365C>T1.000
rpoB761178p.Ser458Thr1.000
rpoB761186p.Glu460Asp1.000
rpoB761189c.1383T>C1.000
rpoB761195c.1389G>C1.000
rpoB761198c.1392G>C1.000
rpoB761219c.1413G>C1.000
rpoB761234c.1428G>C1.000
rpoB761246c.1440C>T0.986
rpoB761249c.1443A>G1.000
rpoB761255c.1449T>G1.000
rpoB761258c.1452G>A0.984
rpoB761261c.1455G>C0.954
rpoB761264c.1458C>G0.955
rpoB761273c.1467T>C1.000
rpoB761303c.1497G>C0.986
rpoB761318c.1512G>T1.000
rpoB761327c.1521A>G1.000
rpoB761333c.1527G>T0.980
rpoB761339c.1533C>G0.980
rpoB761345c.1539G>C1.000
rpoB761346p.Val514Ser1.000
rpoB761354c.1548C>A1.000
rpoB761357c.1551G>T1.000
rpoB761360c.1554T>C1.000
rpoB761362p.Ser519Thr1.000
rpoB761373p.Val523His1.000
rpoB761384c.1578C>G1.000
rpoB761393c.1587G>A0.917
rpoB761516c.1710G>C0.971
rpoB761528c.1722C>T0.976
rpoB761531c.1725C>T0.951
rpoB761537c.1731C>G1.000
rpoB761555c.1749G>C1.000
rpoB761558c.1752C>G1.000
rpoB761564c.1758G>C1.000
rpoB761570c.1764T>C0.982
rpoB761573c.1767C>G0.966
rpoB761579c.1773G>C1.000
rpoB761612c.1806G>T1.000
rpoB761615c.1809A>C1.000
rpoB761636c.1830G>T1.000
rpoB761645c.1839C>G1.000
rpoB761657c.1851C>T1.000
rpoB761666c.1860G>C0.973
rpoB761669c.1863C>T1.000
rpoB761675c.1869G>T1.000
rpoB761681c.1875G>A0.967
rpoB761682c.1876C>T0.967
rpoB761687c.1881C>T1.000
rpoB761690c.1884G>C1.000
rpoB761693c.1887G>C1.000
rpoB761705c.1899C>A1.000
rpoB761891c.2085G>C1.000
rpoB761909c.2103T>C1.000
rpoB761912c.2106T>C1.000
rpoB761915p.Asp703Glu1.000
rpoB761916p.Asp704Asn1.000
rpoB761924c.2118G>A1.000
rpoB761930c.2124G>C1.000
rpoB761933c.2127G>C1.000
rpoB761936c.2130C>T1.000
rpoB761948c.2142G>C1.000
rpoB761954c.2148C>A1.000
rpoB761955p.Ile717Val1.000
rpoB761969c.2163G>A1.000
rpoB761990c.2184G>C1.000
rpoB762008c.2202C>T1.000
rpoB762014c.2208C>G1.000
rpoB762038c.2232C>T1.000
rpoB762047c.2241G>A1.000
rpoB762053c.2247T>C1.000
rpoB762056c.2250G>A1.000
rpoB762065c.2259T>G0.980
rpoB762083c.2277T>C1.000
rpoB762086c.2280G>C1.000
rpoB762101c.2295C>G1.000
rpoB762114p.Ile770Val1.000
rpoB762122c.2316C>T1.000
rpoB762131c.2325C>G1.000
rpoB762134c.2328C>A1.000
rpoB762137c.2331C>T1.000
rpoB762140c.2334G>C1.000
rpoB762143c.2337T>C1.000
rpoB762149c.2343G>T0.979
rpoB762158c.2352G>C0.980
rpoB762167c.2361T>C0.981
rpoB762176c.2370T>C0.982
rpoB762185c.2379G>C0.984
rpoB762194c.2388G>C0.985
rpoB762233c.2427G>C1.000
rpoB762236c.2430G>C1.000
rpoB762245c.2439G>C1.000
rpoB762275c.2469C>T1.000
rpoB762284c.2478G>C1.000
rpoB762293c.2487T>C1.000
rpoB762296c.2490G>C1.000
rpoB762317c.2511A>G1.000
rpoB762323c.2517C>A1.000
rpoB762329c.2523G>C1.000
rpoB762404c.2598T>C1.000
rpoB762410c.2604T>G1.000
rpoB762416c.2610A>G1.000
rpoB762449c.2643C>A1.000
rpoB762452c.2646G>C1.000
rpoB762470c.2664G>C1.000
rpoB762488c.2682G>C1.000
rpoB762491c.2685T>C1.000
rpoB762509c.2703T>G1.000
rpoB762510p.Ala902Pro1.000
rpoB762515c.2709C>T1.000
rpoB762827c.3021G>C0.967
rpoB762830c.3024C>T0.970
rpoB762857c.3051C>G1.000
rpoB762860c.3054G>C1.000
rpoB762863c.3057T>C1.000
rpoB762866c.3060C>T1.000
rpoB762879p.Met1025Leu1.000
rpoB762894c.3088C>T1.000
rpoB762899c.3093G>C1.000
rpoB762917c.3111C>G1.000
rpoB762920c.3114C>T1.000
rpoB762923c.3117C>G1.000
rpoB762929c.3123G>C1.000
rpoB762959c.3153G>C1.000
rpoB762962c.3156C>T1.000
rpoB762995c.3189G>T0.985
rpoB763031c.3225T>G1.000
rpoB763034c.3228C>G1.000
rpoB763040c.3234C>G1.000
rpoB763070c.3264T>C1.000
rpoB763082c.3276C>T1.000
rpoB763088c.3282C>G1.000
rpoB763094c.3288G>C1.000
rpoB763115c.3309T>C1.000
rpoB763127c.3321G>C1.000
rpoB763136c.3330C>T1.000
rpoB763145c.3339G>A1.000
rpoB763157c.3351G>T1.000
rpoB763166c.3360A>G1.000
rpoB763172c.3366G>C1.000
rpoB763193c.3387C>G1.000
rpoC763450c.81G>A0.978
rpoC763456c.87A>G1.000
rpoC763468c.99G>C1.000
rpoC763486c.117T>C0.985
rpoC763492c.123G>C0.986
rpoC763528c.159G>A0.987
rpoC763531c.162G>T0.987
rpoC763546c.177A>G0.988
rpoC763570c.201G>C0.986
rpoC763594c.225C>T0.986
rpoC763633c.264T>C1.000
rpoC763657c.288G>A1.000
rpoC763660c.291T>G1.000
rpoC763666c.297G>C0.964
rpoC763669c.300C>G0.982
rpoC763675c.306C>G0.981
rpoC763699c.330G>T0.971
rpoC763702c.333C>G0.971
rpoC763708c.339G>C0.968
rpoC763711c.342G>C0.968
rpoC763714c.345G>C0.968
rpoC763717c.348T>C0.968
rpoC763723c.354G>C0.968
rpoC763732c.363C>A0.931
rpoC763741c.372C>T0.955
rpoC763744c.375G>C0.955
rpoC763747c.378G>A0.955
rpoC763765c.396T>C0.923
rpoC763891c.522G>C0.818
rpoC763894c.525A>G0.818
rpoC763900c.531G>C0.944
rpoC763933c.564C>T0.973
rpoC763940p.Ala191Ser0.947
rpoC763945c.576T>C0.947
rpoC763947p.Ala193Val0.947
rpoC763951c.582G>C0.923
rpoC763960c.591T>G0.947
rpoC763969c.600C>T0.923
rpoC763987c.618C>T0.917
rpoC763991p.Ile208Leu0.913
rpoC763996c.627T>C0.864
rpoC763999c.630C>T0.864
rpoC764002c.633C>G0.864
rpoC764003p.Ala212Ser0.864
rpoC764024c.655T>C0.939
rpoC764029p.Glu220Asp0.880
rpoC764032p.Asp221Glu0.880
rpoC764040p.Ser224Thr0.906
rpoC764044c.675T>C0.970
rpoC764054c.685C>T0.939
rpoC764059c.690G>T0.971
rpoC764083c.714A>G0.972
rpoC764084p.Asn239Val0.972
rpoC764095c.726C>T1.000
rpoC764098c.729A>G1.000
rpoC764143c.774G>C1.000
rpoC764147p.Ser260Ala1.000
rpoC764150p.Ile261Val1.000
rpoC764165p.Glu266Gln1.000
rpoC764176c.807C>T1.000
rpoC764177p.Ile270Leu0.909
rpoC764182c.813C>T1.000
rpoC764311c.942C>G1.000
rpoC764317c.948C>G1.000
rpoC764320c.951C>G1.000
rpoC764338c.969G>A1.000
rpoC764353c.984G>T1.000
rpoC764365c.996C>T1.000
rpoC764371c.1002G>C1.000
rpoC764377c.1008C>G1.000
rpoC764380c.1011G>C1.000
rpoC764387c.1018T>C1.000
rpoC764405c.1036A>C1.000
rpoC764428c.1059G>C1.000
rpoC764431c.1062G>C1.000
rpoC764434c.1065A>G1.000
rpoC764435c.1066A>C1.000
rpoC764458c.1089G>C1.000
rpoC764461c.1092A>G1.000
rpoC764497c.1128A>G1.000
rpoC764510c.1141C>T1.000
rpoC764524c.1155C>G1.000
rpoC764530c.1161C>G1.000
rpoC764534c.1165C>A1.000
rpoC764539c.1170C>T1.000
rpoC764542c.1173C>T1.000
rpoC764545c.1176C>A1.000
rpoC764560c.1191T>C1.000
rpoC764575c.1206T>G1.000
rpoC764611c.1242G>T1.000
rpoC764626c.1257C>T1.000
rpoC764632c.1263T>C1.000
rpoC764650c.1281G>T1.000
rpoC764668c.1299C>T0.984
rpoC764692c.1323C>T0.984
rpoC764713c.1344G>T1.000
rpoC764716c.1347G>C1.000
rpoC764746c.1377G>T1.000
rpoC764752c.1383G>C1.000
rpoC764758c.1389C>G1.000
rpoC764764c.1395T>C1.000
rpoC764791c.1422C>G0.980
rpoC764803c.1434C>T1.000
rpoC764809c.1440C>T1.000
rpoC764810p.Pro481Ala1.000
rpoC764815c.1446A>G1.000
rpoC764824c.1455T>C1.000
rpoC764827c.1458G>C1.000
rpoC764858c.1489T>C1.000
rpoC764869c.1500C>T1.000
rpoC764875c.1506C>A1.000
rpoC764887c.1518G>C1.000
rpoC764888c.1519T>C1.000
rpoC764896c.1527C>T1.000
rpoC764911c.1542A>G1.000
rpoC764912p.Met515Gln1.000
rpoC764932c.1563C>A1.000
rpoC764948c.1579T>C1.000
rpoC764968c.1599T>C1.000
rpoC765004c.1635G>C1.000
rpoC765007c.1638T>G1.000
rpoC765008c.1639T>C1.000
rpoC765011c.1642A>T1.000
rpoC765016c.1647C>G0.947
rpoC765019c.1650A>G0.947
rpoC765040c.1671T>C0.968
rpoC765041c.1672T>C0.968
rpoC765047c.1678T>C0.968
rpoC765055c.1686C>G0.967
rpoC765073c.1704G>C0.944
rpoC765076c.1707A>G0.944
rpoC765079c.1710T>G0.944
rpoC765082c.1713G>C0.944
rpoC765085c.1716T>C0.944
rpoC765089c.1720T>C0.944
rpoC765100c.1731G>C0.938
rpoC765103c.1734G>T0.938
rpoC765121c.1752G>T0.857
rpoC765129p.Tyr587Phe0.929
rpoC765143p.Val592Ile1.000
rpoC765352c.1983G>C1.000
rpoC765356p.Met663Val1.000
rpoC765370c.2001G>C1.000
rpoC765379c.2010G>C1.000
rpoC765382c.2013G>T1.000
rpoC765383p.Met672Leu1.000
rpoC765403c.2034G>C1.000
rpoC765405p.Leu679His1.000
rpoC765409c.2040T>G1.000
rpoC765421c.2052C>G1.000
rpoC765449p.Ala694Ser1.000
rpoC765454c.2085C>G1.000
rpoC765469c.2100G>C1.000
rpoC765478c.2109T>G0.984
rpoC765480p.Tyr704Phe1.000
rpoC765499c.2130C>G1.000
rpoC765517c.2148C>G1.000
rpoC765533p.Tyr722His1.000
rpoC765544c.2175C>G1.000
rpoC765547c.2178C>T1.000
rpoC765548c.2179A>T1.000
rpoC765553c.2184C>T1.000
rpoC765556c.2187G>C1.000
rpoC765562c.2193G>T1.000
rpoC765826c.2457T>C1.000
rpoC765835c.2466C>T0.978
rpoC765841c.2472G>T0.980
rpoC765861p.Phe831Tyr0.982
rpoC765875p.Val836Ile0.983
rpoC765907c.2538G>T0.984
rpoC765910c.2541G>C0.984
rpoC765928c.2559C>G0.982
rpoC765940c.2571A>T0.980
rpoC765947c.2578T>C0.980
rpoC765962c.2593T>C0.962
rpoC765967c.2598C>T0.958
rpoC765973c.2604C>G0.955
rpoC765979c.2610C>G0.952
rpoC765982c.2613C>T0.952
rpoC765994c.2625A>T1.000
rpoC766003c.2634G>C1.000
rpoC766009c.2640G>C1.000
rpoC766012c.2643C>G1.000
rpoC766321c.2952C>G1.000
rpoC766333c.2964G>C1.000
rpoC766345c.2976T>C1.000
rpoC766348c.2979A>G1.000
rpoC766351c.2982C>G1.000
rpoC766353p.Val995Ala1.000
rpoC766369c.3000C>G1.000
rpoC766375c.3006C>G1.000
rpoC766381c.3012C>T1.000
rpoC766384c.3015A>G1.000
rpoC766390c.3021C>T1.000
rpoC766393c.3024C>T1.000
rpoC766408c.3039C>T0.983
rpoC766435p.Glu1022Asp0.966
rpoC766501c.3132G>C0.917
rpoC766507c.3138C>T0.920
rpoC766513c.3144C>T0.926
rpoC766522c.3153C>A0.926
rpoC766528c.3159T>G0.926
rpoC766531c.3162G>C0.926
rpoC766534c.3165C>G0.926
rpoC766537c.3168G>A0.923
rpoC766540p.Asp1057Glu0.926
rpoC766549c.3180G>C0.957
rpoC766570c.3201T>C0.980
rpoC766573c.3204T>G0.980
rpoC766594c.3225G>T1.000
rpoC766607p.Ile1080Leu1.000
rpoC766618c.3249G>T1.000
rpoC766624c.3255G>C1.000
rpoC766630c.3261G>C1.000
rpoC766633c.3264G>C1.000
rpoC766645c.3276A>G1.000
rpoC766651c.3282T>C1.000
rpoC766792c.3423C>G0.903
rpoC766799p.Ala1144Ser0.903
rpoC766804c.3435A>G0.903
rpoC766837c.3468G>C0.903
rpoC766843c.3474T>G0.903
rpoC766846c.3477C>A0.903
rpoC766858c.3489C>T0.903
rpoC766861c.3492G>C0.903
rpoC766867c.3498C>G0.966
rpoC766876c.3507C>T0.966
rpoC766931p.Ala1188Ser0.977
rpoC766942c.3573C>T1.000
rpoC766945c.3576A>C1.000
rpoC766963c.3594T>C1.000
rpoC766996c.3627C>T0.986
rpoC767002c.3633G>C0.987
rpoC767008c.3639G>A0.987
rpoC767023c.3654C>T0.986
rpoC767044c.3675G>C0.985
rpoC767080c.3711G>C0.985
rpoC767098c.3729T>C0.981
rpoC767100p.Lys1244Arg0.980
rpoC767104c.3735C>G0.980
rpoC767107c.3738C>T0.980
rpoC767119c.3750A>G0.981
rpoC767125c.3756G>C0.980
rpoC767134c.3765C>T1.000
rpoC767138c.3769C>T1.000
rpoC767149c.3780C>T1.000
rpoC767158c.3789T>C1.000
rpoC767179c.3810C>T1.000
rpoC767180p.Ala1271Ser1.000
rpoC767191c.3822C>G1.000
rpoC767197c.3828G>A0.980
rpoC767203c.3834C>G0.976
rpoC767206c.3837C>G0.976
rpoC767209c.3840T>C0.977
rpoC767212c.3843G>C0.978
rpoC767221c.3852C>G0.984
rpoC767230c.3861G>C0.984
rpoC767233c.3864T>C0.984
rpoC767254c.3885G>C0.985
rpoC767264p.Ala1299Ser0.982
rpoC767267p.Ala1300Asn0.982
rpoC767281c.3912C>G0.981
rpoC767284c.3915C>G0.981
rpsL781559c.-1G>C0.971
rpsL781572p.Gln5Asn0.974
rpsL781586c.27C>T0.978
rpsL781595c.36T>C0.980
rpsL781608p.Ser17Ala0.980
rpsL781616c.57C>G0.983
rpsL781628c.69T>C0.985
rpsL781649c.90T>C0.986
rpsL781655c.96T>C0.985
rpsL781658c.99A>C0.985
rpsL781670c.111G>C0.983
rpsL781706c.147T>C1.000
rpsL781715c.156T>G1.000
rpsL781772c.213C>T1.000
rpsL781802c.243G>C0.962
rpsL781805c.246G>A0.931
rpsL781814c.255C>T0.971
rpsL781817c.258G>T0.972
rpsL781829c.270G>C0.975
rpsL781832c.273T>C0.976
rpsL781859c.300T>C0.930
rpsL781868c.309T>C0.923
rpsL781871c.312G>C0.923
rpsL781877c.318T>A0.921
rpsL781892c.333A>G0.919
rpsL781898c.339A>T0.914
rpsL781907c.348T>C0.912
rpsL781916c.357T>C0.879
rpsL781929p.Gly124Ser0.852
rpsL781933374G>A0.840
rplC800796c.-13ATTGG>A1.000
rrs1471922r.77gt>g0.965
rrs1471925r.80t>c0.979
rrs1471931r.86ga>g0.980
rrs1471934r.89a>g0.980
rrs1471985r.140t>c0.982
rrs1471986r.141c>t0.982
rrs1472030r.185g>a1.000
rrs1472031r.186g>c1.000
rrs1472032r.187g>a1.000
rrs1472033r.188a>c1.000
rrs1472035r.190g>t1.000
rrs1472040r.195t>g1.000
rrs1472041r.196c>t1.000
rrs1472042r.197t>g1.000
rrs1472043r.198t>a1.000
rrs1472050r.205g>c1.000
rrs1472061r.216a>t1.000
rrs1472106r.261g>a1.000
rrs1472108r.263c>t1.000
rrs1472113r.268t>c0.980
rrs1472150r.305t>a1.000
rrs1472251r.406g>a1.000
rrs1472337r.492c>g1.000
rrs1472380r.535g>c1.000
rrs1472446r.601t>a0.986
rrs1472452r.607g>a0.986
rrs1472464r.619a>g0.986
rrs1472612r.767g>t0.985
rrs1472734r.889c>t0.985
rrs1472741r.896g>a0.983
rrs1472846r.1001c>t1.000
rrs1472847r.1002g>a1.000
rrs1472848r.1003t>c1.000
rrs1472860r.1015c>t1.000
rrs1472861r.1016g>a1.000
rrs1472956r.1111t>c1.000
rrs1472957r.1112c>t0.970
rrs1472969r.1124a>g1.000
rrs1472970r.1125c>g1.000
rrs1472977r.1132g>c1.000
rrs1472978r.1133t>c1.000
rrs1472989r.1144g>a1.000
rrs1472990r.1145a>g1.000
rrs1473082r.1237g>a0.977
rrs1473088r.1243a>g0.976
rrs1473099r.1254t>a0.970
rrs1473104r.1259c>t0.968
rrs1473105r.1260g>a0.968
rrs1473110r.1265t>g0.967
rrs1473111r.1266a>g0.967
rrs1473121r.1276t>c0.947
rrs1473123r.1278a>t0.973
rrs1473129r.1284c>t0.975
rrs1473145r.1300c>t0.978
rrs1473166r.1321g>a0.981
rrs1473288r.1443c>t1.000
rrs1473290r.1445c>t1.000
rrs1473291r.1446g>t1.000
rrl1473684r.27g>a1.000
rrl1473695r.38a>ac1.000
rrl1473697r.40c>a1.000
rrl1473699r.42ag>a1.000
rrl1473707r.50t>a1.000
rrl1473717r.60g>a1.000
rrl1473731r.74t>a1.000
rrl1473746r.89t>c1.000
rrl1473756r.99g>t1.000
rrl1473758r.101g>t1.000
rrl1473770r.113t>c1.000
rrl1473806r.149c>t1.000
rrl1473812r.155g>a0.980
rrl1473814r.157a>t1.000
rrl1473815r.158t>g1.000
rrl1473829r.172g>c1.000
rrl1473831r.174g>t1.000
rrl1473832r.175c>t1.000
rrl1473839r.182g>a1.000
rrl1473876r.219g>a1.000
rrl1473887r.230t>c1.000
rrl1473888r.231t>c1.000
rrl1473898r.241c>t1.000
rrl1473899r.242a>g1.000
rrl1473916r.259c>a1.000
rrl1473923r.266c>g1.000
rrl1473924r.267a>at1.000
rrl1473937r.280c>t1.000
rrl1473943r.286g>t1.000
rrl1473945r.288t>a0.955
rrl1473946r.289a>t0.955
rrl1473950r.293g>t0.955
rrl1474074r.417c>t0.944
rrl1474089r.432c>t0.944
rrl1474093r.436g>a0.944
rrl1474100r.443c>t1.000
rrl1474103r.446a>c1.000
rrl1474130r.473c>t1.000
rrl1474140r.483c>t1.000
rrl1474151r.494c>t1.000
rrl1474181r.524c>ct0.880
rrl1474184r.527c>a1.000
rrl1474185r.528ga>g1.000
rrl1474249r.592g>t1.000
rrl1474263r.606g>a1.000
rrl1474282r.625g>a1.000
rrl1474306r.649a>c1.000
rrl1474308r.651g>t1.000
rrl1474310r.653t>g1.000
rrl1474356r.699t>c1.000
rrl1474362r.705a>g1.000
rrl1474387r.730c>t1.000
rrl1474413r.756a>c1.000
rrl1474415r.758ccacacgcgcatacgcgcgtgtga>c1.000
rrl1474496r.839c>g0.981
rrl1474497r.840g>c0.981
rrl1474506r.849c>g0.981
rrl1474507r.850g>c0.981
rrl1474626r.969t>c1.000
rrl1474632r.975g>t1.000
rrl1474636r.979a>t1.000
rrl1474637r.980c>t1.000
rrl1474638r.981c>g1.000
rrl1474639r.982g>t1.000
rrl1474640r.983c>t1.000
rrl1474710r.1053tggtg>t1.000
rrl1474717r.1060a>g0.971
rrl1474722r.1065t>c0.971
rrl1474743r.1086t>g0.980
rrl1474760r.1103a>g0.980
rrl1474794r.1137c>t0.982
rrl1474803r.1146g>a0.983
rrl1474812r.1155g>a0.983
rrl1474830r.1173a>g0.984
rrl1474913r.1256t>c1.000
rrl1474932r.1275c>t1.000
rrl1475031r.1374g>c0.964
rrl1475061r.1404ca>c0.975
rrl1475076r.1419c>a0.976
rrl1475090r.1433a>t0.979
rrl1475114r.1457c>t0.981
rrl1475120r.1463g>t0.981
rrl1475129r.1472g>a0.982
rrl1475202r.1545g>c1.000
rrl1475209r.1552g>a1.000
rrl1475213r.1556c>t1.000
rrl1475220r.1563g>t1.000
rrl1475429r.1772g>a1.000
rrl1475443r.1786g>a1.000
rrl1475452r.1795c>a1.000
rrl1475475r.1818c>t1.000
rrl1475479r.1822c>t1.000
rrl1475480r.1823a>t1.000
rrl1475505r.1848g>a1.000
rrl1475526r.1869c>a1.000
rrl1475531r.1874c>t1.000
rrl1475573r.1916g>a1.000
rrl1475649r.1992a>g1.000
rrl1475659r.2002g>a1.000
rrl1475760r.2103ccg>c1.000
rrl1475764r.2107a>t1.000
rrl1475765r.2108a>t1.000
rrl1475975r.2318c>t0.978
rrl1475977r.2320a>g0.978
rrl1475988r.2331a>g0.971
rrl1475989r.2332t>c0.971
rrl1475993r.2336c>t0.971
rrl1475997r.2340a>t0.971
rrl1476085r.2428g>a1.000
rrl1476086r.2429g>a1.000
rrl1476088r.2431a>c1.000
rrl1476099r.2442a>g1.000
rrl1476103r.2446c>g0.944
rrl1476105r.2448g>a0.944
rrl1476106r.2449a>t0.944
rrl1476110r.2453g>c0.944
rrl1476114r.2457t>c0.944
rrl1476115r.2458t>c0.947
rrl1476131r.2474c>t0.973
rrl1476160r.2503t>c0.979
rrl1476214r.2557g>t1.000
rrl1476215r.2558c>t1.000
rrl1476221r.2564t>c1.000
rrl1476224r.2567a>g1.000
rrl1476251r.2594t>c0.978
rrl1476281r.2624t>c0.982
rrl1476297r.2640c>t0.981
rrl1476299r.2642c>t0.981
rrl1476584r.2927c>t1.000
rrl1476594r.2937c>t1.000
rrl1476597r.2940g>a1.000
rrl1476603r.2946g>a1.000
rrl1476608r.2951c>g1.000
rrl1476619r.2962c>t1.000
rrl1476628r.2971t>a1.000
rrl1476665r.3008t>a1.000
rrl1476666r.3009c>t1.000
rrl1476674r.3017t>c1.000
rpsA1833536c.-6A>C1.000
rpsA1833538c.-4CA>C1.000
rpsA1833541c.-1T>C1.000
rpsA1833547c.6G>A1.000
rpsA1833589c.48A>C1.000
rpsA1833595c.54T>G1.000
rpsA1833596p.Ser19Ala1.000
rpsA1833604c.63C>T1.000
rpsA1833616c.75A>T1.000
rpsA1833619c.78A>C1.000
rpsA1833625c.84A>G1.000
rpsA1833664c.123C>G1.000
rpsA1833676c.135A>G1.000
rpsA1833679c.138G>T1.000
rpsA1833685c.144G>C1.000
rpsA1833691c.150G>A1.000
rpsA1833694c.153G>T1.000
rpsA1833697c.156C>T1.000
rpsA1833700c.159C>T1.000
rpsA1833709c.168C>T1.000
rpsA1833724c.183C>T1.000
rpsA1833727c.186G>C1.000
rpsA1833733c.192C>G1.000
rpsA1833734p.Ala65Ser1.000
rpsA1833742c.201A>G1.000
rpsA1833745c.204G>C1.000
rpsA1833748c.207C>G1.000
rpsA1833760c.219C>T1.000
rpsA1833787c.246C>G0.983
rpsA1833790c.249T>C0.983
rpsA1833802c.261A>G0.984
rpsA1833811c.270G>T0.985
rpsA1833823c.282G>A0.984
rpsA1833832c.291G>A0.984
rpsA1833838c.297G>C0.984
rpsA1833841c.300C>G0.984
rpsA1833847c.306C>G0.984
rpsA1833856c.315A>G0.984
rpsA1833862c.321G>T0.985
rpsA1833874c.333T>G0.985
rpsA1833886c.345C>G0.968
rpsA1833894p.Ala118Glu0.984
rpsA1833928c.387G>C1.000
rpsA1833949c.408T>C1.000
rpsA1833961c.420C>G0.987
rpsA1833970c.429G>T0.987
rpsA1833979c.438T>C0.987
rpsA1833991c.450C>G0.987
rpsA1834000c.459G>C0.976
rpsA1834009c.468C>T0.986
rpsA1834012c.471G>C0.986
rpsA1834015c.474G>C0.986
rpsA1834021c.480C>T0.988
rpsA1834030c.489C>G0.988
rpsA1834033c.492C>T0.987
rpsA1834073p.Lys178Arg1.000
rpsA1834096c.555G>C0.981
rpsA1834099c.558C>G1.000
rpsA1834108c.567C>G1.000
rpsA1834114c.573G>C1.000
rpsA1834177c.636A>C1.000
rpsA1834228c.687C>A1.000
rpsA1834231c.690T>G1.000
rpsA1834234c.693G>T1.000
rpsA1834240c.699T>C1.000
rpsA1834246c.705G>T1.000
rpsA1834249c.708T>C1.000
rpsA1834252c.711C>G1.000
rpsA1834261c.720A>G1.000
rpsA1834264c.723G>C1.000
rpsA1834279c.738C>T1.000
rpsA1834294c.753G>T1.000
rpsA1834297c.756C>T1.000
rpsA1834303c.762T>G1.000
rpsA1834306c.765T>C1.000
rpsA1834327c.786G>T1.000
rpsA1834357c.816T>C1.000
rpsA1834366c.825A>G1.000
rpsA1834375c.834G>C1.000
rpsA1834396c.855G>C1.000
rpsA1834411c.870T>G1.000
rpsA1834414c.873C>T1.000
rpsA1834417c.876G>C1.000
rpsA1834420c.879C>T1.000
rpsA1834423c.882G>C1.000
rpsA1834429c.888C>T1.000
rpsA1834438c.897C>T1.000
rpsA1834451c.910T>C1.000
rpsA1834456c.915T>G1.000
rpsA1834468c.927A>G1.000
rpsA1834477c.936C>T1.000
rpsA1834489c.948T>C1.000
rpsA1834519c.978G>C1.000
rpsA1834520p.Ala327Ser1.000
rpsA1834528c.987T>C0.982
rpsA1834534c.993C>T1.000
rpsA1834543c.1002C>G1.000
rpsA1834546c.1005T>C1.000
rpsA1834552c.1011G>T1.000
rpsA1834555c.1014T>G1.000
rpsA1834557p.Ala339Gly1.000
rpsA1834606c.1065C>T1.000
rpsA1834609c.1068T>C1.000
rpsA1834619c.1078T>C1.000
rpsA1834622c.1081T>A0.978
rpsA1834633c.1092A>G1.000
rpsA1834639c.1098T>C1.000
rpsA1834645c.1104C>T1.000
rpsA1834666c.1125G>C1.000
rpsA1834667p.Ala376Ser1.000
rpsA1834690c.1149T>C1.000
rpsA1834700p.Gln387Ala1.000
rpsA1834705c.1164C>G1.000
rpsA1834720c.1179C>G1.000
rpsA1834732c.1191T>C0.984
rpsA1834738c.1197A>G1.000
rpsA1834753c.1212T>C1.000
rpsA1834759c.1218A>C1.000
rpsA1834765p.Glu408Asp1.000
rpsA1834774c.1233C>T0.978
rpsA1834776p.Ala412Glu0.978
rpsA1834780c.1239A>G0.978
rpsA1834789c.1248T>C0.978
rpsA1834813c.1272G>T0.974
rpsA1834830p.Ala430Val0.966
kasA2518738c.624G>C1.000
kasA2518756c.642G>C1.000
kasA2518768c.654C>G1.000
kasA2518771c.657C>A1.000
kasA2518774c.660C>T1.000
kasA2518783c.669T>G1.000
kasA2518787p.Arg225Lys0.968
kasA2518792c.678C>T0.968
kasA2518795c.681C>T0.968
kasA2518798c.684G>C0.969
kasA2518822c.708C>A0.982
kasA2518825c.711T>C0.982
kasA2518846c.732G>T0.962
kasA2518849c.735G>C0.961
kasA2518853p.Leu247Val0.960
kasA2518864c.750G>C0.952
panD4044138c.144A>G0.923
panD4044150c.132T>G1.000
panD4044156c.126T>C1.000
panD4044167c.115G>A1.000
panD4044171c.111G>A1.000
panD4044174c.108G>A1.000
panD4044180p.Asp34Glu1.000
panD4044188c.94C>G1.000
panD4044189c.93G>A1.000
panD4044194p.Ala30Pro1.000
panD4044195c.87A>G1.000
panD4044233p.Cys17His1.000
panD4044234c.48G>C1.000
panD4044249c.33G>A1.000
panD4044266p.Leu6Met1.000
panD4044273c.9C>G1.000
panD4044276p.Leu2Phe1.000
embC4240729c.867C>G1.000
embC4240735c.873C>G1.000
embC4240741c.879C>T1.000
embC4240756c.894G>C0.988
embC4240771c.909G>C0.982
embC4240772p.Ser304Ala0.981
embC4240778p.His306Gly0.981
embC4240781p.Ala307Ser0.981
embC4240789c.927T>C0.986
embC4240819c.957A>C0.984
embC4240826p.Ala322Ser0.983
embC4240831c.969T>G0.983
embC4240856p.Ala332Thr0.973
embC4240859p.Leu333Ile0.973
embC4240876c.1014C>T0.970
embC4240879c.1017G>T0.967
embC4240885c.1023T>C0.964
embC4240886p.Ile342Val0.964
embC4240897c.1035C>G0.958
embC4240900c.1038A>G0.955
embC4240909c.1047G>C1.000
embB4248220c.1707A>G0.939
embB4248226c.1713G>C0.969
embB4248232c.1719G>T0.969
embB4248233p.Leu574Val0.969
embB4248236p.Met575Leu0.972
embB4248245p.Ile578Val0.980
embB4248250c.1737C>T0.981
embB4248259p.Met582Ile0.981
embB4248275p.Thr588Ala0.981
embB4248292c.1779G>A0.981

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
This tool is for Research Use Only and is offered free for use. The London School of Hygiene and Tropical Medicine shall have no liability for any loss or damages of any kind, however sustained relating to the use of this tool.
© 2019 London School of Hygiene and Tropical Medicine;