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: 5d80963c02607
Sample: 5d80963c02607

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Summary
ID: 5d80963c02607
Date: Tue Sep 17 10:03:49 2019
Strain: lineage2.2.1
Drug-resistance: Sensitive

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

Lineage2FamilyMain SpoligotypeRDS
lineage2.2.1East-Asian (Beijing)Beijing-RD181RD105;RD207;RD181

Mutations in candidate genes:
GeneChromosome PositionMutationEstimated fraction
gyrB6086p.Thr283Pro1.000
gyrB6097c.858G>A1.000
gyrB6100c.861G>C1.000
gyrB6109c.870G>C1.000
gyrB6115c.876A>G1.000
gyrB6123p.Ala295Gly1.000
gyrB6130c.891T>C1.000
gyrB6133c.894G>C1.000
gyrB6175c.936G>A0.962
gyrB6181c.942C>A0.960
gyrB6184c.945C>T0.960
gyrB6196c.957C>T0.944
gyrB6727c.1488G>T0.941
gyrB6728c.1489C>T0.941
gyrB6745c.1506T>C0.957
gyrB6751c.1512G>C0.957
gyrB6760c.1521G>C0.957
gyrB6769c.1530C>T1.000
gyrB6775c.1536G>C1.000
gyrB6793c.1554T>C1.000
gyrB6797p.Gly520Thr1.000
gyrB6808c.1569C>T1.000
gyrB6811c.1572C>T1.000
gyrB6838c.1599C>G1.000
gyrB6841c.1602T>C1.000
gyrB6844c.1605T>G1.000
gyrB6853c.1614A>G1.000
gyrB6856c.1617T>C1.000
gyrB6859c.1620T>C1.000
gyrB6955c.1716G>A1.000
gyrB6963575RS>575RQ1.000
gyrB6970p.Asp577Glu1.000
gyrB6982c.1743A>C1.000
gyrB7012c.1773G>C1.000
gyrB7108c.1869G>A0.929
gyrB7123c.1884C>G0.933
gyrB7126c.1887G>A0.933
gyrB7129c.1890T>G0.933
gyrB7132c.1893T>G0.947
gyrB7153c.1914G>T0.957
gyrB7156c.1917C>T0.957
gyrB7159c.1920C>T0.957
gyrB7162c.1923C>T0.957
gyrB7165c.1926C>T0.958
gyrB7168c.1929C>G0.962
gyrB7178c.1939T>C0.976
gyrB7210p.Asp657Glu0.953
gyrB7213c.1974G>A0.953
gyrB7225c.1986T>C0.975
gyrB7234c.1995C>T0.971
gyrB7243c.2004G>A0.971
gyrB7246c.2007T>C0.968
gyrA7343c.42G>T0.938
gyrA7355c.54T>C0.842
gyrA7362p.Glu21Gln1.000
gyrA7391c.90C>T0.897
gyrA7394c.93T>C0.897
gyrA7397c.96G>C0.906
gyrA7406c.105G>C0.912
gyrA7412c.111C>G0.943
gyrA7418c.117C>T0.947
gyrA7433c.132G>A0.933
gyrA7442c.141G>C0.935
gyrA7457c.156T>C0.943
gyrA7463c.162G>C0.942
gyrA7472c.171T>C0.940
gyrA7475c.174A>G0.940
gyrA7480p.Phe60Tyr0.940
gyrA7484c.183T>C0.942
gyrA7499c.198G>C0.981
gyrA7526c.225G>C0.978
gyrA7532c.231T>G0.978
gyrA7541c.240C>G1.000
gyrA7547c.246C>T1.000
gyrA7565c.264C>T1.000
gyrA7569p.Ala90Ser1.000
gyrA7585p.Ser95Thr1.000
gyrA7592c.291G>C0.960
gyrA7595c.294C>G0.960
gyrA7601c.300C>T0.955
gyrA7607c.306C>G0.944
gyrA7613c.312G>A0.938
gyrA7622c.321C>T0.929
gyrA7631c.330G>C0.833
gyrA7637c.336C>T0.800
gyrA7728c.427A>C0.972
gyrA7763c.462T>G0.982
gyrA7775c.474C>T1.000
gyrA7784c.483A>G1.000
gyrA7790c.489G>C1.000
gyrA7796c.495G>T1.000
gyrA7799c.498A>G1.000
gyrA7802c.501C>G1.000
gyrA7832c.531G>T1.000
gyrA7835c.534A>G1.000
gyrA7841c.540C>T1.000
gyrA7847c.546G>C1.000
gyrA7859c.558A>C1.000
gyrA7865c.564T>C1.000
gyrA7886c.585T>G1.000
gyrA7898p.Asp199Glu0.909
gyrA8156c.855T>C0.923
gyrA8168c.867A>G1.000
gyrA8174c.873C>G1.000
gyrA8177c.876A>C1.000
gyrA8191p.Ala297Gly1.000
gyrA8198c.897T>C1.000
gyrA8207c.906T>C1.000
gyrA8210c.909G>A1.000
gyrA8219c.918T>C1.000
gyrA8222c.921C>T1.000
gyrA8225c.924T>C1.000
gyrA8267c.966G>C1.000
gyrA8283p.Ile328Leu1.000
gyrA8288c.987T>C0.972
gyrA8294c.993T>C1.000
gyrA8324c.1023T>C1.000
gyrA8327c.1026C>G1.000
gyrA8339c.1038A>G1.000
gyrA8340p.Ala347Ser1.000
gyrA8354c.1053G>C1.000
gyrA8366c.1065G>C1.000
gyrA8372c.1071G>T1.000
gyrA8390c.1089C>G0.941
gyrA8391p.Tyr364Leu0.941
gyrA8399c.1098T>G0.941
gyrA8408c.1107A>G0.941
gyrA8414c.1113C>T0.941
gyrA8420c.1119T>C0.941
gyrA8480c.1179C>T0.818
gyrA8486c.1185T>C0.867
gyrA8504c.1203G>C0.895
gyrA8510c.1209G>A0.895
gyrA8513c.1212C>G0.895
gyrA8516c.1215T>C0.895
gyrA8519c.1218A>G0.895
gyrA8520c.1219C>T0.895
gyrA8535p.Glu412Gln0.974
gyrA8540c.1239C>T0.975
gyrA8546p.Asp415Glu0.977
gyrA8561c.1260A>C0.978
gyrA8571c.1270C>T0.979
gyrA8603c.1302A>C1.000
gyrA8619c.1318T>C1.000
gyrA8624c.1323G>C1.000
gyrA8627c.1326C>G1.000
gyrA8628c.1327C>T1.000
gyrA8633c.1332C>T1.000
gyrA8636c.1335A>C1.000
gyrA8828c.1527T>C0.900
gyrA8829c.1528T>C0.900
gyrA8837c.1536C>G0.909
gyrA8840c.1539C>T0.917
gyrA8852c.1551T>C0.933
gyrA8858c.1557T>G0.875
gyrA8867c.1566A>G0.875
gyrA8870c.1569G>C0.875
gyrA8873c.1572A>G0.875
gyrA8876c.1575C>T0.875
gyrA8897c.1596T>C0.889
gyrA8903c.1602T>C0.889
gyrA8915c.1614A>G0.889
gyrA9275c.1974G>A1.000
gyrA9293c.1992G>C1.000
gyrA9296c.1995T>C1.000
gyrA9304p.Gly668Asp1.000
gyrA9323c.2022C>G1.000
gyrA9324c.2023T>A1.000
gyrA9335c.2034G>T1.000
gyrA9341c.2040C>G1.000
gyrA9345c.2044A>C1.000
gyrA9353c.2052G>C1.000
gyrA9356c.2055G>A1.000
gyrA9374c.2073G>T1.000
gyrA9377c.2076A>G1.000
gyrA9383c.2082T>C1.000
gyrA9626c.2325T>C0.667
gyrA9630p.Val777Ile0.733
gyrA9635c.2334T>C0.733
gyrA9641c.2340C>T0.750
gyrA9644c.2343T>C0.765
gyrA9650c.2349G>C0.778
gyrA9656c.2355C>G0.833
gyrA9662c.2361G>C0.833
gyrA9668c.2367C>T0.833
gyrA9683c.2382G>T0.833
gyrA9689c.2388G>T0.833
gyrA9701c.2400T>C0.882
gyrA9707c.2406G>C0.882
gyrA9716c.2415T>C0.882
gyrA9738p.Leu813Ile0.875
gyrA9743c.2442C>G0.867
gyrA9746c.2445C>T0.867
rpoB760130p.Asp108Glu1.000
rpoB760136c.330G>A1.000
rpoB760139c.333A>T1.000
rpoB760142c.336C>G1.000
rpoB760181c.375T>C0.963
rpoB760184c.378A>G0.963
rpoB760196c.390C>G0.968
rpoB760235c.429T>C0.914
rpoB760244c.438G>C0.921
rpoB760283c.477G>C0.936
rpoB760298c.492G>C0.959
rpoB760310c.504G>C0.980
rpoB760316c.510C>G0.981
rpoB760325c.519G>C0.980
rpoB760331c.525G>C0.979
rpoB760334c.528G>T0.979
rpoB760340c.534G>T0.981
rpoB760357p.Thr184Ser0.981
rpoB760361c.555T>C0.981
rpoB760376p.Asp190Glu1.000
rpoB760406c.600G>C0.979
rpoB760407p.Ser201Gly1.000
rpoB760415c.609C>T1.000
rpoB760424c.618C>G1.000
rpoB760430c.624T>C1.000
rpoB760433c.627C>T1.000
rpoB760457c.651C>T1.000
rpoB760463c.657C>T1.000
rpoB760475c.669A>G1.000
rpoB760478c.672C>T1.000
rpoB760481c.675G>T1.000
rpoB760484c.678A>G1.000
rpoB760502c.696C>G1.000
rpoB760522p.Ser239Asn1.000
rpoB760532c.726T>C1.000
rpoB760533p.Val243Thr1.000
rpoB760541c.735G>C1.000
rpoB760547c.741G>C1.000
rpoB760561252MRS>252MMG1.000
rpoB760571c.765G>C1.000
rpoB760574c.768G>C1.000
rpoB760585p.Asn260Ser1.000
rpoB760591p.Val262Ala1.000
rpoB760595c.789C>T1.000
rpoB760596p.Thr264Pro1.000
rpoB760611c.805T>C1.000
rpoB760646c.840C>G1.000
rpoB760655c.849A>G1.000
rpoB760661c.855A>C1.000
rpoB760670c.864G>C1.000
rpoB760674c.868T>C1.000
rpoB760679c.873A>G1.000
rpoB760683c.877T>C0.976
rpoB760703c.897C>T0.974
rpoB760721c.915C>G0.972
rpoB760724c.918T>C0.971
rpoB760730c.924T>C0.971
rpoB760748c.942C>G0.958
rpoB760751c.945G>C0.958
rpoB760755p.His317Asn0.958
rpoB760759p.Val318Ala0.958
rpoB760764p.Glu320Gln0.960
rpoB760769c.963C>G0.962
rpoB760778c.972G>T0.966
rpoB760784c.978G>T0.966
rpoB760793c.987A>G0.926
rpoB760805c.999G>C0.917
rpoB760817c.1011A>G0.895
rpoB760820c.1014T>C0.895
rpoB760826c.1020C>G0.882
rpoB760830c.1024T>C0.882
rpoB760841c.1035T>C0.952
rpoB760859c.1053T>C0.952
rpoB760862c.1056G>C0.952
rpoB760877c.1071G>T0.952
rpoB760883c.1077G>C0.952
rpoB760886c.1080A>G0.952
rpoB760887p.Thr361Val0.952
rpoB760910c.1104C>T0.939
rpoB760916c.1110C>T0.935
rpoB760919c.1113C>T0.935
rpoB760925c.1119T>C0.935
rpoB760928c.1122G>C0.929
rpoB760931c.1125C>G0.929
rpoB760946c.1140A>G0.906
rpoB760965p.Met387Leu0.923
rpoB760970c.1164G>C0.923
rpoB760973c.1167G>C0.923
rpoB760982c.1176G>C0.917
rpoB760985c.1179G>C0.900
rpoB760988c.1182C>G0.900
rpoB760991c.1185G>T0.900
rpoB760997c.1191G>C0.900
rpoB761015c.1209G>C0.900
rpoB761027c.1221A>C0.818
rpoB761111c.1305C>T1.000
rpoB761132c.1326G>T1.000
rpoB761133c.1327T>C1.000
rpoB761147c.1341C>T1.000
rpoB761150c.1344A>T1.000
rpoB761165c.1359G>C1.000
rpoB761180c.1374A>C1.000
rpoB761189c.1383T>C1.000
rpoB761195c.1389G>C1.000
rpoB761198c.1392G>T0.947
rpoB761213c.1407G>C1.000
rpoB761217p.Pro471Ser0.944
rpoB761234c.1428G>C0.952
rpoB761249c.1443A>G0.964
rpoB761261c.1455G>T0.957
rpoB761264c.1458C>G0.917
rpoB761282c.1476C>T0.938
rpoB761288c.1482G>T0.943
rpoB761312c.1506G>T0.955
rpoB761318c.1512G>T0.955
rpoB761327c.1521A>G0.977
rpoB761330c.1524G>C0.977
rpoB761345c.1539G>C0.977
rpoB761354c.1548C>T0.975
rpoB761360c.1554T>C0.946
rpoB761362p.Ser519Thr0.946
rpoB761367p.Glu521Gln0.944
rpoB761374p.Val523Asp0.944
rpoB761408c.1602G>C0.964
rpoB761414c.1608A>G0.962
rpoB761423c.1617T>C0.955
rpoB761537c.1731C>G0.960
rpoB761552c.1746G>C0.968
rpoB761555c.1749G>C0.970
rpoB761558c.1752C>G0.970
rpoB761570c.1764T>C0.973
rpoB761573c.1767C>G0.907
rpoB761579c.1773G>C0.979
rpoB761606c.1800C>G0.984
rpoB761612c.1806G>T0.984
rpoB761615c.1809A>C0.984
rpoB761636c.1830G>T1.000
rpoB761645c.1839C>G1.000
rpoB761648c.1842T>C1.000
rpoB761666c.1860G>C0.980
rpoB761669c.1863C>T0.980
rpoB761675c.1869G>T0.955
rpoB761690c.1884G>C0.976
rpoB761708c.1902C>T0.833
rpoB761712p.Val636Ile0.818
rpoB761747c.1941G>C0.909
rpoB761765c.1959T>C0.913
rpoB761772p.His656Ala0.913
rpoB761778p.Asn658Asp0.875
rpoB761785p.Thr660Ser0.875
rpoB761791p.Arg662His0.913
rpoB761813c.2007T>C0.917
rpoB761834c.2028T>C0.947
rpoB761847p.Cys681Arg0.875
rpoB761852c.2046C>G0.875
rpoB761885c.2079T>C0.889
rpoB761891c.2085G>C0.889
rpoB761892p.Ile696Val0.889
rpoB761906c.2100C>G0.824
rpoB761909c.2103T>C0.824
rpoB761912c.2106T>C0.824
rpoB761915p.Asp703Glu0.824
rpoB761916p.Asp704Asn0.824
rpoB761921c.2115C>T0.833
rpoB761930c.2124G>C0.926
rpoB761948c.2142G>C0.933
rpoB761954c.2148C>G0.939
rpoB761969c.2163G>A0.921
rpoB762008c.2202C>T0.976
rpoB762014c.2208C>T0.979
rpoB762047c.2241G>A1.000
rpoB762053c.2247T>C1.000
rpoB762065c.2259T>C1.000
rpoB762083c.2277T>C1.000
rpoB762086c.2280G>C1.000
rpoB762101c.2295C>G1.000
rpoB762114p.Ile770Val0.978
rpoB762131c.2325C>G0.971
rpoB762134c.2328C>A0.969
rpoB762137c.2331C>T0.969
rpoB762140c.2334G>C0.969
rpoB762143c.2337T>C0.971
rpoB762149c.2343G>C0.980
rpoB762158c.2352G>C0.982
rpoB762167c.2361T>C0.963
rpoB762176c.2370T>C0.963
rpoB762185c.2379G>C0.966
rpoB762224c.2418C>G0.957
rpoB762233c.2427G>C0.959
rpoB762245c.2439G>C0.971
rpoB762284c.2478G>T0.943
rpoB762293c.2487T>C0.933
rpoB762308c.2502G>C0.921
rpoB762314c.2508C>T0.943
rpoB762317c.2511A>G0.943
rpoB762329c.2523G>C0.914
rpoB762338c.2532T>C0.926
rpoB762341c.2535G>C0.889
rpoB762347c.2541T>C0.931
rpoB762350c.2544C>T0.900
rpoB762362p.Glu852Asp0.943
rpoB762369c.2563T>C1.000
rpoB762374c.2568G>C0.935
rpoB762380c.2574T>C0.933
rpoB762395c.2589G>C0.952
rpoB762398c.2592T>C0.952
rpoB762401c.2595G>C0.952
rpoB762404c.2598T>C0.952
rpoB762410c.2604T>C0.962
rpoB762416c.2610A>G0.964
rpoB762434c.2628T>C0.943
rpoB762443c.2637G>C0.919
rpoB762449c.2643C>A0.946
rpoB762452c.2646G>C0.921
rpoB762470c.2664G>C0.932
rpoB762491c.2685T>C0.976
rpoB762509c.2703T>G0.963
rpoB762510p.Ala902Pro0.962
rpoB762515c.2709C>T0.962
rpoB762533c.2727T>C0.957
rpoB762536c.2730T>C0.955
rpoB762537c.2731T>C0.955
rpoB762551c.2745C>T0.905
rpoB762560c.2754A>T0.889
rpoB762563c.2757G>T0.882
rpoB762812c.3006C>G0.882
rpoB762814p.Met1003Thr0.824
rpoB762816c.3010C>T0.824
rpoB762827c.3021G>T0.913
rpoB762833c.3027C>T0.929
rpoB762839c.3033G>A0.966
rpoB762857c.3051C>G1.000
rpoB762863c.3057T>C1.000
rpoB762879p.Met1025Leu0.975
rpoB762917c.3111C>G1.000
rpoB762920c.3114C>T1.000
rpoB762929c.3123G>C1.000
rpoB762959c.3153G>C1.000
rpoB762962c.3156C>T1.000
rpoB762995c.3189G>T1.000
rpoB763004c.3198G>A1.000
rpoB763007c.3201C>T1.000
rpoB763022c.3216C>G1.000
rpoB763028c.3222T>C1.000
rpoB763031c.3225T>G1.000
rpoB763053c.3247T>C1.000
rpoB763070c.3264T>C1.000
rpoB763085c.3279C>G1.000
rpoB763103c.3297G>C1.000
rpoB763115c.3309T>C0.969
rpoB763127c.3321G>C0.958
rpoB763130c.3324G>A0.958
rpoB763133c.3327G>C0.957
rpoB763136c.3330C>T0.957
rpoB763142c.3336C>G0.957
rpoB763160c.3354G>T0.947
rpoB763166c.3360A>G0.941
rpoB763169c.3363A>G0.941
rpoB763190c.3384C>T1.000
rpoC763375c.6C>A1.000
rpoC763408c.39T>C1.000
rpoC763411c.42T>C1.000
rpoC763414c.45T>C1.000
rpoC763423p.Glu18Asp1.000
rpoC763430c.61A>C1.000
rpoC763433p.Gln22Asn1.000
rpoC763443p.Tyr25Phe1.000
rpoC763456c.87A>G1.000
rpoC763468c.99G>C1.000
rpoC763486c.117T>C1.000
rpoC763492c.123G>T1.000
rpoC763528c.159G>A1.000
rpoC763546c.177A>G1.000
rpoC763558c.189C>T1.000
rpoC763570c.201G>C1.000
rpoC763573c.204G>C1.000
rpoC763594c.225C>T1.000
rpoC763603c.234C>T1.000
rpoC763615c.246G>C1.000
rpoC763618c.249C>T1.000
rpoC763633c.264T>C1.000
rpoC763660c.291T>G1.000
rpoC763666c.297G>A1.000
rpoC763675c.306C>G1.000
rpoC763702c.333C>G1.000
rpoC763709c.340C>T1.000
rpoC763714c.345G>C1.000
rpoC763717c.348T>C1.000
rpoC763723c.354G>C1.000
rpoC763732c.363C>T1.000
rpoC763741c.372C>T0.982
rpoC763747c.378G>A0.963
rpoC763765c.396T>G0.979
rpoC763792p.Glu141Asp0.965
rpoC763807c.438T>C0.980
rpoC763813c.444C>G0.957
rpoC763831c.462A>G0.953
rpoC763837c.468G>C0.949
rpoC763840c.471G>C0.973
rpoC763858c.489A>G1.000
rpoC763861c.492C>T0.967
rpoC763872p.Gly168Ala1.000
rpoC763876p.Glu169Asp1.000
rpoC763879c.510A>G1.000
rpoC763882c.513G>A0.962
rpoC763891c.522G>C1.000
rpoC763894c.525A>G1.000
rpoC763900c.531G>C1.000
rpoC763921c.552G>C1.000
rpoC763924c.555G>A1.000
rpoC764131c.762T>C0.950
rpoC764134c.765C>G0.949
rpoC764153p.Gln262Lys0.953
rpoC764161c.792G>C0.932
rpoC764182p.Asp271Glu0.953
rpoC764188c.819A>G0.949
rpoC764195c.826T>A0.923
rpoC764203c.834G>C0.923
rpoC764206p.Asp279Glu0.923
rpoC764207p.Val280Thr0.923
rpoC764215c.846A>C0.923
rpoC764217p.Asn283Ser0.962
rpoC764239c.870T>G0.981
rpoC764254c.885G>C0.956
rpoC764257c.888G>C0.956
rpoC764263c.894G>C0.958
rpoC764266c.897T>C0.958
rpoC764272c.903G>C0.957
rpoC764278c.909A>G0.958
rpoC764293c.924G>C0.958
rpoC764297p.Met310Leu0.959
rpoC764344c.975C>T0.979
rpoC764353c.984G>T0.980
rpoC764365c.996C>T0.978
rpoC764371c.1002G>C0.976
rpoC764380c.1011G>C0.975
rpoC764387c.1018T>C0.978
rpoC764405c.1036A>C1.000
rpoC764431c.1062G>C1.000
rpoC764434c.1065A>G1.000
rpoC764435c.1066A>C1.000
rpoC764446c.1077T>C1.000
rpoC764449c.1080G>C1.000
rpoC764458c.1089G>C1.000
rpoC764461c.1092A>G1.000
rpoC764485c.1116G>C1.000
rpoC764491c.1122G>T1.000
rpoC764497c.1128A>G1.000
rpoC764500c.1131C>G1.000
rpoC764521c.1152T>C1.000
rpoC764536c.1167G>T1.000
rpoC764539c.1170C>G1.000
rpoC764575c.1206T>G0.960
rpoC764605c.1236G>C0.936
rpoC764611c.1242G>T0.979
rpoC764623c.1254C>G0.956
rpoC764626c.1257C>T0.953
rpoC764632c.1263T>C0.953
rpoC764650c.1281G>T0.956
rpoC764701c.1332C>G0.925
rpoC764713c.1344G>T0.938
rpoC764716c.1347G>C0.938
rpoC764746c.1377G>T0.953
rpoC764752c.1383G>C0.976
rpoC764758c.1389C>G0.953
rpoC764764c.1395T>C0.975
rpoC764803c.1434C>T1.000
rpoC764809c.1440C>T1.000
rpoC764815c.1446A>G1.000
rpoC764824c.1455T>C1.000
rpoC764827c.1458G>C1.000
rpoC764851c.1482C>T1.000
rpoC764858c.1489T>C1.000
rpoC764869c.1500C>T1.000
rpoC764875c.1506C>T1.000
rpoC764878c.1509C>G1.000
rpoC764887c.1518G>C1.000
rpoC764888c.1519T>C1.000
rpoC764911c.1542A>G1.000
rpoC764912p.Met515Gln1.000
rpoC764932c.1563C>A1.000
rpoC764935c.1566T>C1.000
rpoC764948c.1579T>C0.979
rpoC764968c.1599T>C0.976
rpoC765007c.1638T>G0.857
rpoC765008c.1639T>C0.857
rpoC765011c.1642A>T0.857
rpoC765016c.1647C>A0.857
rpoC765022c.1653G>T0.857
rpoC765034c.1665T>C0.857
rpoC765040c.1671T>C0.800
rpoC765041c.1672T>C0.800
rpoC765047c.1678T>C0.800
rpoC765055c.1686C>G0.800
rpoC765338p.Gln657Lys0.923
rpoC765352c.1983G>C1.000
rpoC765357p.Met663Thr1.000
rpoC765361c.1992C>G1.000
rpoC765383p.Met672Leu1.000
rpoC765400c.2031G>C1.000
rpoC765403c.2034G>C1.000
rpoC765404p.Leu679Lys1.000
rpoC765409c.2040T>C1.000
rpoC765412c.2043T>C1.000
rpoC765425p.Lys686Glu0.975
rpoC765445c.2076G>C0.977
rpoC765452p.Ala695Arg0.973
rpoC765466c.2097C>T0.979
rpoC765478c.2109T>C0.980
rpoC765480p.Tyr704Phe0.980
rpoC765496c.2127C>G0.964
rpoC765499c.2130C>G0.963
rpoC765529c.2160C>T0.936
rpoC765533p.Tyr722His0.935
rpoC765548c.2179A>T0.912
rpoC765553c.2184C>T0.912
rpoC765556c.2187G>C0.912
rpoC765562c.2193G>C0.912
rpoC765577c.2208G>T0.935
rpoC765591p.Arg741Gln0.895
rpoC765596p.Lys743Gln0.850
rpoC765772c.2403C>G0.950
rpoC765778c.2409C>G0.950
rpoC765779p.Asp804Lys0.950
rpoC765793c.2424C>G0.967
rpoC765796c.2427C>T0.969
rpoC765800p.Phe811Leu0.969
rpoC765811c.2442T>G0.943
rpoC765814c.2445A>C0.943
rpoC765817c.2448G>C0.917
rpoC765823c.2454C>A0.919
rpoC765826c.2457T>C0.946
rpoC765835c.2466C>T0.976
rpoC765871c.2502T>C0.957
rpoC765875p.Val836Ile0.957
rpoC765886c.2517C>G0.978
rpoC765904c.2535C>G0.952
rpoC765908c.2539C>T0.958
rpoC765934c.2565C>T0.943
rpoC765940c.2571A>T0.938
rpoC765946c.2577C>T0.929
rpoC765947c.2578T>C0.964
rpoC765952c.2583G>C0.929
rpoC765961c.2592G>T1.000
rpoC765962c.2593T>C0.962
rpoC765967c.2598C>T0.962
rpoC765979c.2610C>G0.960
rpoC765982c.2613C>T0.957
rpoC765994c.2625A>T0.952
rpoC766012c.2643C>G0.944
rpoC766021c.2652G>C0.875
rpoC766027c.2658G>T0.833
rpoC766345c.2976T>C0.935
rpoC766348c.2979A>G0.935
rpoC766363c.2994G>C0.935
rpoC766381c.3012C>T0.927
rpoC766384c.3015A>G0.927
rpoC766390c.3021C>T0.925
rpoC766408c.3039C>T0.912
rpoC766690c.3321G>C0.778
rpoC766694p.Gln1109Asp0.789
rpoC766714c.3345G>C0.840
rpoC766717c.3348C>G0.846
rpoC766720c.3351C>T0.846
rpoC766726c.3357T>C0.914
rpoC766738c.3369G>T0.919
rpoC766741c.3372G>C0.897
rpoC766765c.3396A>C0.929
rpoC766771c.3402G>C0.929
rpoC766774c.3405T>C0.929
rpoC766775p.Arg1136Lys0.929
rpoC766798c.3429C>G0.963
rpoC766804c.3435A>G0.963
rpoC766837c.3468G>C0.972
rpoC766843c.3474T>C0.971
rpoC766846c.3477C>G0.968
rpoC766931p.Ala1188Thr0.867
rpoC766942c.3573C>T0.875
rpoC766945c.3576A>C0.882
rpoC766948c.3579G>C0.882
rpoC766963c.3594T>C0.920
rpoC766978c.3609C>T0.929
rpoC766981c.3612T>C0.929
rpoC766996c.3627C>T0.944
rpoC767002c.3633G>C0.947
rpoC767008c.3639G>A0.949
rpoC767023c.3654C>T0.977
rpoC767098c.3729T>C1.000
rpoC767104c.3735C>G1.000
rpoC767105p.Asn1246Gln1.000
rpoC767119c.3750A>G1.000
rpoC767134c.3765C>T0.980
rpoC767138c.3769C>T0.981
rpoC767158c.3789T>C0.973
rpoC767162p.Asn1265Ala0.971
rpoC767167c.3798C>T0.972
rpoC767174p.Asn1269Asp0.972
rpoC767180p.Ala1271Gln0.972
rpoC767191c.3822C>G0.978
rpoC767197c.3828G>A0.978
rpoC767221c.3852C>G0.974
rpoC767230c.3861G>C0.943
rpoC767233c.3864T>C0.941
rpoC767263c.3894T>C0.850
rpoC767264p.Ala1299Gln0.850
rpoC767278c.3909T>C0.833
rpoC767281c.3912C>G0.882
rpoC767284c.3915C>G0.882
rpoC767296c.3927C>T0.882
rpsL781559c.-1G>C0.917
rpsL781572p.Gln5Asn0.933
rpsL781595c.36T>C0.952
rpsL781598c.39G>C0.952
rpsL781605p.Ile16Val0.952
rpsL781608p.Ser17Ala0.952
rpsL781628c.69T>C0.969
rpsL781631c.72G>C0.969
rpsL781649c.90T>C1.000
rpsL781655c.96T>C1.000
rpsL781658c.99A>G1.000
rpsL781682c.123T>C1.000
rpsL781709c.150G>C1.000
rpsL781715c.156T>C1.000
rpsL781728c.169T>C1.000
rpsL781742c.183C>T0.960
rpsL781751c.192G>C0.976
rpsL781760c.201T>C0.978
rpsL781772c.213C>T0.980
rpsL781808c.249C>T0.978
rpsL781814c.255C>T0.956
rpsL781817c.258G>T0.957
rpsL781829c.270G>C0.959
rpsL781832c.273T>C0.979
rpsL781838c.279G>C1.000
rpsL781841c.282C>T1.000
rpsL781859c.300T>G0.978
rpsL781865c.306G>C1.000
rpsL781868c.309T>C1.000
rpsL781871c.312G>C1.000
rpsL781892c.333A>G1.000
rpsL781898c.339A>C1.000
rpsL781901c.342C>T0.978
rpsL781907c.348T>C0.978
rpsL781916c.357T>C0.979
rpsL781929p.Gly124Ser0.979
rplC800895c.87C>G0.700
rplC800904c.96G>C0.850
rplC800916c.108A>G0.857
rplC800921p.Arg38Leu0.857
rplC800928c.120C>T0.900
rplC800931c.123G>C0.857
rplC800937c.129A>G0.857
rplC800946c.138T>C0.857
rplC800949c.141T>C0.900
rplC800964c.156G>C0.900
rplC800985c.177A>G0.947
rplC801003c.195G>C0.909
rplC801004p.Leu66Val0.909
rplC801009c.201A>C0.909
rplC801012c.204T>C0.909
rplC801019p.Thr71Ala0.909
rplC801027c.219C>G0.833
rplC801039c.231A>G0.833
rplC801195c.387G>T0.941
rplC801205p.Arg133Ala0.889
rplC801210c.402T>C0.889
rplC801220p.Ser138Ala0.889
rplC801237c.429G>A0.889
rplC801252c.444G>C0.842
rplC801264c.456C>T0.842
rplC801267c.459A>C0.842
rplC801276c.468G>C0.842
rplC801281p.Ala158Gly0.842
rplC801285c.477G>C0.842
rrs1471922r.77gt>g1.000
rrs1471925r.80t>c1.000
rrs1471931r.86ga>g1.000
rrs1471934r.89a>g1.000
rrs1471986r.141c>t1.000
rrs1472019r.174g>a1.000
rrs1472023r.178g>t1.000
rrs1472031r.186g>c1.000
rrs1472033r.188a>c1.000
rrs1472035r.190g>t1.000
rrs1472040r.195t>g1.000
rrs1472041r.196c>t1.000
rrs1472042r.197t>g1.000
rrs1472053r.208agc>a1.000
rrs1472061r.216a>t1.000
rrs1472075r.230a>g1.000
rrs1472106r.261g>a1.000
rrs1472108r.263c>t1.000
rrs1472150r.305t>a1.000
rrs1472251r.406g>a1.000
rrs1472313r.468g>a0.800
rrs1472315r.470t>g0.800
rrs1472324r.479g>c0.800
rrs1472325r.480g>c0.800
rrs1472327r.482g>a0.800
rrs1472328r.483g>t0.818
rrs1472337r.492c>g0.955
rrs1472380r.535g>c0.971
rrs1472446r.601t>a1.000
rrs1472452r.607g>a1.000
rrs1472464r.619a>g1.000
rrs1472846r.1001c>a0.981
rrs1472847r.1002g>c0.981
rrs1472849r.1004c>g0.981
rrs1472850r.1005t>c0.981
rrs1472857r.1012a>g0.980
rrs1472858r.1013g>t0.981
rrs1472860r.1015c>g0.981
rrs1472861r.1016g>t0.981
rrs1472973r.1128a>t0.987
rrs1473104r.1259c>t0.976
rrs1473110r.1265t>g0.974
rrs1473111r.1266a>g0.974
rrs1473120r.1275c>ct0.895
rrs1473123r.1278a>c0.971
rrs1473276r.1431a>g0.989
rrs1473290r.1445c>t1.000
rrs1473291r.1446g>gt0.959
rrs1473301r.1456t>c1.000
rrl1473668r.11c>t0.953
rrl1473696r.39t>c0.981
rrl1473697r.40c>t0.981
rrl1473699r.42a>g0.982
rrl1473717r.60g>t0.987
rrl1473746r.89t>c0.988
rrl1473758r.101g>t0.988
rrl1473770r.113t>g0.989
rrl1473788r.131a>g1.000
rrl1473806r.149c>t1.000
rrl1473807r.150t>c1.000
rrl1473823r.166t>c1.000
rrl1473829r.172g>t1.000
rrl1473830r.173t>g1.000
rrl1473831r.174g>t1.000
rrl1473832r.175c>a1.000
rrl1473876r.219g>a1.000
rrl1473887r.230t>a1.000
rrl1473898r.241c>t1.000
rrl1473899r.242a>g1.000
rrl1473916r.259c>a1.000
rrl1473922r.265a>g1.000
rrl1473923r.266c>g1.000
rrl1473935r.278c>t1.000
rrl1473937r.280c>t1.000
rrl1473943r.286g>t1.000
rrl1473945r.288t>a1.000
rrl1473946r.289a>t1.000
rrl1474044r.387c>t1.000
rrl1474045r.388c>t1.000
rrl1474053r.396g>a1.000
rrl1474054r.397t>c1.000
rrl1474083r.426c>t1.000
rrl1474091r.434c>t1.000
rrl1474093r.436g>a1.000
rrl1474096r.439c>t1.000
rrl1474099r.442g>a1.000
rrl1474108r.451c>g1.000
rrl1474135r.478g>a0.985
rrl1474140r.483c>t0.986
rrl1474151r.494c>t0.988
rrl1474174r.517a>g0.952
rrl1474181r.524c>t0.974
rrl1474183r.526t>c0.946
rrl1474185r.528g>a0.946
rrl1474186r.529a>g0.947
rrl1474249r.592g>t0.976
rrl1474266r.609t>c0.944
rrl1474269r.612c>t0.941
rrl1474289r.632c>t0.875
rrl1474292r.635t>g0.966
rrl1474308r.651g>t0.966
rrl1474310r.653t>g0.968
rrl1474362r.705a>g1.000
rrl1474414r.757c>t1.000
rrl1474417r.760acacgcgc>a1.000
rrl1474427r.770a>c1.000
rrl1474430r.773c>g1.000
rrl1474432r.775c>g1.000
rrl1474434r.777t>ttg1.000
rrl1474446r.789c>t0.978
rrl1474626r.969t>c1.000
rrl1474627r.970g>a0.977
rrl1474629r.972g>a0.977
rrl1474632r.975g>t1.000
rrl1474636r.979a>t1.000
rrl1474637r.980c>t1.000
rrl1474638r.981c>g1.000
rrl1474639r.982g>t1.000
rrl1474640r.983c>t1.000
rrl1474673r.1016t>c0.986
rrl1474676r.1019t>a0.986
rrl1474677r.1020a>g0.986
rrl1474710r.1053t>a1.000
rrl1474711r.1054g>c1.000
rrl1474712r.1055g>a1.000
rrl1474713r.1056t>a1.000
rrl1474715r.1058t>tcca1.000
rrl1474717r.1060a>g1.000
rrl1474720r.1063c>t1.000
rrl1474753r.1096a>g1.000
rrl1474760r.1103a>g1.000
rrl1474794r.1137c>t0.987
rrl1474803r.1146g>a0.987
rrl1474812r.1155g>a0.987
rrl1474830r.1173a>g0.987
rrl1474932r.1275c>t0.980
rrl1475031r.1374g>t1.000
rrl1475061r.1404c>a1.000
rrl1475062r.1405a>t1.000
rrl1475120r.1463g>t1.000
rrl1475315r.1658a>t1.000
rrl1475353r.1696a>t0.974
rrl1475354r.1697a>g0.974
rrl1475355r.1698c>t0.974
rrl1475363r.1706c>t0.974
rrl1475369r.1712g>t0.974
rrl1475379r.1722g>a0.929
rrl1475380r.1723c>a0.929
rrl1475381r.1724g>c0.929
rrl1475382r.1725a>g0.929
rrl1475395r.1738t>c0.929
rrl1475396r.1739c>g0.929
rrl1475397r.1740g>t0.929
rrl1475398r.1741c>t0.929
rrl1475403r.1746t>a0.929
rrl1475404r.1747a>t0.933
rrl1475419r.1762c>t0.980
rrl1475429r.1772g>t1.000
rrl1475452r.1795c>a1.000
rrl1475479r.1822c>g1.000
rrl1475483r.1826c>t1.000
rrl1475505r.1848g>a1.000
rrl1475526r.1869c>a1.000
rrl1475531r.1874c>t1.000
rrl1475544r.1887a>t1.000
rrl1475545r.1888t>g1.000
rrl1475602r.1945g>c1.000
rrl1475603r.1946g>c1.000
rrl1475604r.1947a>c1.000
rrl1475612r.1955g>c1.000
rrl1475615r.1958c>g1.000
rrl1475616r.1959a>g1.000
rrl1475618r.1961c>t1.000
rrl1475626r.1969t>c1.000
rrl1475629r.1972g>c1.000
rrl1475637r.1980t>g1.000
rrl1475638r.1981c>g1.000
rrl1475639r.1982c>g1.000
rrl1475643r.1986c>g1.000
rrl1475647r.1990g>c1.000
rrl1475659r.2002g>a1.000
rrl1475753r.2096c>t0.984
rrl1475762r.2105g>t0.980
rrl1475763r.2106c>t0.979
rrl1475764r.2107a>c0.979
rrl1475765r.2108a>g0.980
rrl1475775r.2118g>a0.982
rrl1475988r.2331a>g1.000
rrl1475991r.2334t>c1.000
rrl1475995r.2338g>a0.987
rrl1476030r.2373a>g0.958
rrl1476032r.2375c>a0.957
rrl1476033r.2376t>g0.957
rrl1476035r.2378g>c0.957
rrl1476044r.2387t>g0.957
rrl1476046r.2389g>t0.957
rrl1476047r.2390g>t0.957
rrl1476049r.2392c>t0.957
rrl1476088r.2431a>c0.967
rrl1476099r.2442a>g0.957
rrl1476103r.2446c>g0.951
rrl1476105r.2448g>a0.951
rrl1476106r.2449a>t0.951
rrl1476110r.2453g>c0.952
rrl1476115r.2458t>c0.955
rrl1476131r.2474c>t0.963
rrl1476160r.2503t>c0.983
rrl1476214r.2557g>t0.981
rrl1476215r.2558c>t1.000
rrl1476224r.2567a>g1.000
rrl1476251r.2594t>g0.984
rrl1476256r.2599a>t0.985
rrl1476260r.2603a>g0.985
rrl1476281r.2624t>c0.986
rrl1476297r.2640c>t0.984
rrl1476299r.2642c>t0.984
rrl1476529r.2872a>g0.988
rrl1476540r.2883c>t0.988
rrl1476583r.2926g>a1.000
rrl1476584r.2927c>t1.000
rrl1476594r.2937c>t1.000
rrl1476597r.2940g>a1.000
rrl1476603r.2946g>a1.000
rrl1476628r.2971t>a1.000
rrl1476664r.3007t>c0.982
rrl1476665r.3008t>c0.982
rrl1476674r.3017t>c0.982
rrl1476679r.3022t>c0.980
rrl1476689r.3032a>t0.977
rrl1476690r.3033c>t0.977
rrl1476693r.3036g>a0.977
rrl1476695r.3038t>a0.977
rrl1476716r.3059a>c0.975
rrl1476723r.3066t>a0.929
rrl1476725r.3068c>t0.929
rrl1476726r.3069a>g0.929
rrl1476731r.3074g>a0.929
rrl1476732r.3075t>c0.929
rrl1476746r.3089t>c0.923
rrl1476747r.3090c>t0.923
rrl1476754r.3097g>a0.923
rrl1476759r.3102t>c0.923
rrl1476770r.3113t>c0.909
rrl1476771r.3114g>a0.909
fabG11673703c.264C>T0.923
fabG11673724c.285A>G0.923
fabG11673730c.291C>G0.923
fabG11673745c.306G>A0.923
fabG11673748c.309A>G0.923
fabG11673749p.Lys104Arg0.923
fabG11673760p.Lys107Asn0.857
fabG11673778c.339C>G0.857
fabG11673784c.345G>C0.923
fabG11673787c.348G>C0.923
fabG11673886c.447C>T0.833
fabG11673901c.462A>G0.783
fabG11673905p.Ser156Ala0.826
fabG11673916c.477A>C0.840
fabG11673917p.Val160Leu0.840
fabG11673922c.483T>C0.840
fabG11673931c.492C>G0.846
fabG11673941p.Ala168Ser0.846
fabG11673955c.516G>C0.846
fabG11673961c.522A>C0.815
fabG11673962p.Asn175Gly0.815
fabG11673967c.528G>C0.815
fabG11673973c.534G>C0.821
fabG11673976c.537T>C0.828
fabG11674006p.Asp189Glu0.900
fabG11674024c.585T>C0.929
fabG11674037p.Gln200Ala0.895
fabG11674042c.603G>C0.882
fabG11674045c.606G>C0.882
fabG11674049p.Gln204Asp0.882
fabG11674054c.615T>C0.938
fabG11674060c.621A>C0.938
fabG11674079p.Pro214Ala0.923
fabG11674083p.Ala215Glu0.815
fabG11674096c.657G>C0.895
fabG11674098p.Val220Ala0.895
fabG11674102c.663C>G0.895
fabG11674114c.675T>A1.000
inhA1674651c.450C>T1.000
inhA1674656p.Ser152Thr1.000
inhA1674660c.459G>C1.000
inhA1674663c.462G>C1.000
inhA1674672c.471C>A1.000
inhA1674690c.489C>G1.000
inhA1674702c.501G>T1.000
inhA1674703c.502T>C1.000
inhA1674718c.517A>C1.000
inhA1674729c.528G>T1.000
inhA1674742p.Lys181Ala1.000
inhA1674745p.Tyr182Ala1.000
inhA1674753c.552G>C1.000
inhA1674876c.675C>T1.000
inhA1674879c.678T>G1.000
inhA1674904p.Ala235Pro0.952
inhA1674924c.723G>T0.952
inhA1674930c.729C>T0.947
inhA1674934c.733C>T0.941
inhA1674942c.741T>C0.941
inhA1674949p.Leu250Met0.923
inhA1674954c.753G>C0.909
inhA1674957c.756G>C0.909
inhA1674963c.762G>A0.909
inhA1674966c.765T>C0.909
inhA1674967p.Asp256Thr0.909
rpsA1833547c.6G>A0.938
rpsA1833554p.Thr5Ser0.941
rpsA1833589c.48A>C0.955
rpsA1833595c.54T>G0.955
rpsA1833596p.Ser19Ala0.955
rpsA1833616c.75A>C0.966
rpsA1833619c.78A>C0.968
rpsA1833628c.87G>C0.970
rpsA1833634c.93G>A1.000
rpsA1833661c.120A>G1.000
rpsA1833664c.123C>A1.000
rpsA1833676c.135A>G1.000
rpsA1833679c.138G>T1.000
rpsA1833685c.144G>T1.000
rpsA1833694c.153G>C0.946
rpsA1833697c.156C>G0.944
rpsA1833703c.162C>T0.946
rpsA1833724c.183C>T0.939
rpsA1833727c.186G>C0.938
rpsA1833730c.189C>T0.938
rpsA1833733c.192C>T0.938
rpsA1833734p.Ala65Ser0.938
rpsA1833745c.204G>C0.952
rpsA1833760c.219C>T0.956
rpsA1833787c.246C>G0.957
rpsA1833790c.249T>C0.939
rpsA1833793c.252C>T0.939
rpsA1833802c.261A>G0.943
rpsA1833811c.270G>T0.941
rpsA1833829c.288A>G0.941
rpsA1833832c.291G>A0.940
rpsA1833838c.297G>C0.939
rpsA1833841c.300C>G0.939
rpsA1833847c.306C>G0.981
rpsA1833856c.315A>G0.981
rpsA1833862c.321G>T0.982
rpsA1833894p.Ala118Glu0.984
rpsA1833904c.363G>A0.983
rpsA1833928c.387G>C0.983
rpsA1833949c.408T>C0.982
rpsA1833970c.429G>T0.980
rpsA1833976c.435C>T0.980
rpsA1833979c.438T>C0.979
rpsA1833991c.450C>A0.960
rpsA1834000c.459G>C0.979
rpsA1834009c.468C>T0.977
rpsA1834012c.471G>T0.976
rpsA1834015c.474G>C0.977
rpsA1834021c.480C>T0.978
rpsA1834030c.489C>G0.974
rpsA1834097c.556T>A1.000
rpsA1834102c.561T>C1.000
rpsA1834150c.609G>C0.963
rpsA1834153c.612T>C0.962
rpsA1834154p.Asn205Gln0.962
rpsA1834157c.616T>C0.962
rpsA1834162c.621A>G0.962
rpsA1834165c.624A>G0.962
rpsA1834169p.Thr210Ala0.962
rpsA1834177c.636A>C1.000
rpsA1834189c.648G>C0.977
rpsA1834213c.672G>C0.978
rpsA1834234c.693G>C0.978
rpsA1834240c.699T>C0.976
rpsA1834246c.705G>C0.950
rpsA1834249c.708T>C0.947
rpsA1834252c.711C>G0.925
rpsA1834261c.720A>G0.938
rpsA1834264c.723G>C0.939
rpsA1834279c.738C>T0.940
rpsA1834297c.756C>T0.942
rpsA1834303c.762T>G0.938
rpsA1834306c.765T>C0.939
rpsA1834345c.804C>T0.918
rpsA1834348c.807T>C0.923
rpsA1834361c.820T>C0.923
rpsA1834366c.825A>G0.938
rpsA1834396c.855G>C0.959
rpsA1834411c.870T>C0.980
rpsA1834423c.882G>T0.980
rpsA1834451c.910T>C0.980
rpsA1834456c.915T>G0.979
rpsA1834468c.927A>G0.980
rpsA1834489c.948T>C0.981
rpsA1834498c.957C>T0.961
rpsA1834513c.972C>G0.959
rpsA1834520p.Ala327Ser0.962
rpsA1834528c.987T>C0.960
rpsA1834540c.999G>C0.968
rpsA1834543c.1002C>G0.968
rpsA1834546c.1005T>C0.968
rpsA1834606c.1065C>T0.972
rpsA1834609c.1068T>C0.971
rpsA1834619c.1078T>C0.962
rpsA1834622c.1081T>A0.962
rpsA1834633c.1092A>G0.976
rpsA1834639c.1098T>C0.977
rpsA1834666c.1125G>C0.933
rpsA1834667p.Ala376Ser0.933
rpsA1834690c.1149T>C0.942
rpsA1834732c.1191T>C0.922
rpsA1834738c.1197A>G0.941
rpsA1834753c.1212T>C0.930
rpsA1834756c.1215G>A0.930
rpsA1834759c.1218A>C0.930
rpsA1834765p.Glu408Asp0.909
rpsA1834774c.1233C>G0.846
rpsA1834776p.Ala412Glu0.846
rpsA1834780c.1239A>G0.846
rpsA1834786c.1245A>G0.852
rpsA1834789c.1248T>C0.862
rpsA1834792c.1251G>C0.862
rpsA1834829p.Ala430Thr0.893
rpsA1834852c.1311C>G0.818
katG2155661p.Val151Leu0.958
katG2155668c.444C>G0.958
katG2155674c.438C>G0.958
katG2155680c.432C>T0.958
katG2155691c.421A>G0.958
katG2155696p.Ala139Val0.958
katG2155716c.396A>C0.958
katG2155722c.390C>G0.958
katG2155728c.384C>G0.958
katG2155742p.Gly124Arg0.933
katG2155747p.Ala122Gly0.923
katG2155749c.363G>A0.900
katG2155752c.360G>A0.900
kasA2518726c.612G>A1.000
kasA2518732c.618C>G1.000
kasA2518747c.633C>G1.000
kasA2518756c.642G>C0.964
kasA2518780p.Glu222Asp0.967
kasA2518783c.669T>C0.967
kasA2518785p.Glu224Ala0.967
kasA2518787p.Arg225Gly0.967
kasA2518792c.678C>G0.967
kasA2518795c.681C>T0.967
kasA2518813c.699C>T0.975
kasA2518816c.702C>T0.976
kasA2518825c.711T>C0.957
kasA2518843c.729T>C0.911
kasA2518847p.Leu245Met0.923
kasA2518853p.Leu247Ile0.919
kasA2518864c.750G>C0.882
kasA2518877p.Lys255Leu0.833
kasA2518898c.784T>C0.818
kasA2518903c.789C>T0.833
kasA2518906c.792A>G0.833
kasA2518907c.793T>C0.833
kasA2518910p.Leu266Met0.833
thyX3067305p.Glu214Ala0.400
thyX3067310c.636G>T0.500
thyX3067319c.627C>G0.760
thyX3067325c.621T>C0.786
thyX3067331c.615G>A0.793
thyX3067334c.612G>T0.800
thyX3067340c.606C>T0.829
thyX3067346c.600G>C0.806
thyX3067349c.597C>G0.838
thyX3067355c.591T>C0.857
thyX3067376c.570C>G0.933
thyX3067406c.540T>C0.932
thyX3067415c.531G>A0.932
thyX3067423c.523G>A0.909
thyX3067424c.522C>T0.909
thyX3067427c.519C>G0.909
thyX3067430c.516G>C0.909
thyX3067436c.510G>C0.968
thyX3067442c.504G>C1.000
thyX3067457c.489G>A1.000
thyX3067465p.Ile161Val1.000
thyX3067466c.480C>G1.000
thyX3067475c.471T>C1.000
embC4240717c.855T>C0.956
embC4240777c.915G>A0.983
embC4240780c.918T>C0.982
embC4240783c.921G>C0.982
embC4240789c.927T>C0.982
embC4240819c.957A>C0.957
embC4240828c.966G>A0.955
embC4240831c.969T>G0.976
embC4241533c.1671T>C0.545
embC4241536c.1674A>C0.600
embC4241539c.1677T>C0.636
embC4241545c.1683T>G0.600
embC4241548c.1686T>A0.636
embC4241551c.1689A>C0.692
embC4241560c.1698C>G0.886
embC4241584c.1722T>C0.919
embC4241587c.1725C>G0.919
embC4241593c.1731C>G0.944
embC4241611c.1749G>C0.944
embC4241614c.1752A>C0.944
embC4241626c.1764T>C0.944
embC4241635c.1773G>C0.971
embC4241644c.1782G>C0.938
embC4241647c.1785G>A0.929
embC4241648c.1786T>C0.929
embC4241656c.1794G>A0.929
embC4241659c.1797G>C0.929
embC4241665c.1803G>T0.917
embC4241668c.1806G>C0.917
embC4241671c.1809T>G0.917
embC4241750p.Leu630Met0.958
embC4241756c.1894C>T0.958
embC4241767c.1905C>G0.958
embC4241769p.Ser636Thr0.958
embC4241809c.1947A>C0.920
embC4242826c.2964G>C0.923
embC4242832c.2970A>G0.923
embC4242838c.2976C>G0.857
embC4242841c.2979C>T0.857
embC4242844c.2982A>G0.857
embC4242847c.2985C>G0.857
embC4242859c.2997C>T0.857
embC4242862c.3000A>G0.857
embC4242872p.Asp1004Thr0.857
embC4242878p.Thr1006Val0.857
embC4242907c.3045G>C0.800
embC4242919c.3057A>G0.800
embC4242928c.3066A>G0.800
embA4244645c.1413T>C0.957
embA4244648c.1416G>C0.957
embA4244665p.Thr478Ser0.958
embA4244669c.1437G>C0.958
embA4244681c.1449A>C0.958
embA4244684c.1452C>G1.000
embA4244695p.Lys488Thr1.000
embA4244712p.Ala494Ser1.000
embA4244726p.Asp498Glu1.000
embA4244747c.1515T>G1.000
embA4245042p.Thr604Ala0.968
embA4245053c.1821G>C0.968
embA4245060c.1828T>C0.968
embA4245071c.1839G>C0.938
embA4245077c.1845G>T0.938
embA4245083c.1851A>C0.938
embA4245092c.1860C>G0.938
embA4245094p.Ile621Thr0.938
embA4245101c.1869G>C0.938
embA4245125c.1893G>C0.938
embA4245431c.2199T>C1.000
embA4245454p.Ala741Val1.000
embA4245459p.Pro743Ala1.000
embA4245465p.Pro745Thr1.000
embB4247389c.876C>G0.867
embB4247398c.885G>C0.875
embB4247401c.888T>C0.875
embB4247407c.894G>C0.875
embB4247426p.Gly305Gln0.889
embB4247434c.921C>G0.889
embB4247437c.924A>C0.889
embB4247440c.927C>G0.900
embB4247449c.936C>T0.935
embB4247464c.951C>G0.944
embB4247470c.957T>C0.946
embB4247491c.978G>C1.000
embB4247497c.984T>C1.000
embB4247511p.Tyr333Phe1.000
embB4247527c.1014G>C1.000
embB4247536c.1023C>G0.977
embB4247554c.1041T>C0.967
embB4247555p.Leu348Ile0.967
embB4247566c.1053C>A0.967
embB4247572c.1059A>C0.967
embB4247590c.1077A>G0.962
embB4247629c.1116C>G0.955
embB4247638c.1125G>C0.944
embB4248199c.1686A>G1.000
embB4248200p.Ile563Val1.000
embB4248206p.Ser565Gly1.000
embB4248220c.1707A>G1.000
embB4248225p.Ala571Val1.000
embB4248233c.1720C>T1.000
embB4248242p.Val577Ile1.000
embB4248252p.Gly580Ala1.000
embB4248264p.Phe584Cys0.980
embB4248277c.1764G>C0.981
embB4248304c.1791G>C1.000
embB4248319c.1806A>G1.000
embB4248322c.1809G>T0.969

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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