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).

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Drug1	Resistance	Supporting Mutations (frequency)
Isoniazid
Rifampicin
Ethambutol
Pyrazinamide
Streptomycin
Ethionamide
Fluoroquinolones
Amikacin
Capreomycin
Kanamycin

Lineage2

Family

Main Spoligotype

RDS

Gene	Chromosome Position	Mutation	Estimated fraction
gyrB	6100	c.861G>A	1.000
gyrB	6115	c.876A>G	1.000
gyrB	6121	c.882C>T	1.000
gyrB	6127	c.888G>C	1.000
gyrB	6133	c.894G>C	1.000
gyrB	6136	c.897G>A	1.000
gyrB	6151	c.912C>T	1.000
gyrB	6172	c.933C>T	1.000
gyrB	6184	c.945C>T	1.000
gyrB	6703	c.1464G>C	1.000
gyrB	6706	c.1467G>A	1.000
gyrB	6709	c.1470A>G	1.000
gyrB	6712	c.1473G>C	1.000
gyrB	6727	c.1488G>T	1.000
gyrB	6728	c.1489C>T	1.000
gyrB	6739	c.1500C>T	1.000
gyrB	6745	c.1506T>C	1.000
gyrB	6754	c.1515C>T	1.000
gyrB	6763	c.1524G>C	1.000
gyrB	6772	c.1533C>G	1.000
gyrB	6775	c.1536G>C	1.000
gyrB	6793	c.1554T>C	0.963
gyrB	6798	p.Gly520Ala	0.963
gyrB	6808	c.1569C>G	0.957
gyrB	6824	c.1585C>T	0.957
gyrB	6841	c.1602T>C	0.952
gyrB	6862	c.1623C>G	0.952
gyrB	6869	c.1630T>C	0.944
gyrB	6872	c.1633T>C	0.941
gyrB	6878	c.1639T>C	0.941
gyrB	6889	c.1650G>A	0.929
gyrB	6898	c.1659G>T	0.929
gyrA	7499	c.198G>C	1.000
gyrA	7511	c.210C>T	1.000
gyrA	7523	c.222C>G	1.000
gyrA	7526	c.225G>A	1.000
gyrA	7547	c.246C>T	1.000
gyrA	7553	c.252C>T	1.000
gyrA	7559	c.258G>C	1.000
gyrA	7565	c.264C>T	1.000
gyrA	7574	c.273G>C	1.000
gyrA	7585	p.Ser95Thr	1.000
gyrA	7589	c.288G>C	1.000
gyrA	7595	c.294C>T	1.000
gyrA	7607	c.306C>T	1.000
gyrA	7637	c.336C>A	1.000
gyrA	8121	c.820T>C	1.000
gyrA	8129	c.828T>C	1.000
gyrA	8156	c.855T>C	1.000
gyrA	8159	c.858G>C	1.000
gyrA	8168	c.867A>G	1.000
gyrA	8174	c.873C>G	1.000
gyrA	8177	c.876A>C	1.000
gyrA	8187	p.Leu296Ile	1.000
gyrA	8192	c.891C>G	1.000
gyrA	8198	c.897T>C	1.000
gyrA	8207	c.906T>C	1.000
gyrA	8267	c.966G>C	0.923
gyrA	8283	p.Ile328Leu	0.938
gyrA	8288	c.987T>C	0.941
gyrA	8294	c.993T>C	0.957
gyrA	8327	c.1026C>T	1.000
gyrA	8330	c.1029C>G	1.000
gyrA	8339	c.1038A>G	1.000
gyrA	8340	p.Ala347Ser	1.000
gyrA	8354	c.1053G>C	1.000
gyrA	8382	c.1081C>T	1.000
gyrA	8580	p.Ile427Val	1.000
gyrA	8603	c.1302A>C	1.000
gyrA	8609	c.1308G>C	1.000
gyrA	8619	c.1318T>C	1.000
gyrA	8624	c.1323G>T	1.000
gyrA	8633	c.1332C>G	1.000
gyrA	8636	c.1335A>C	1.000
gyrA	8642	c.1341A>G	1.000
gyrA	8645	c.1344C>G	1.000
gyrA	8649	p.Arg450Lys	1.000
gyrA	8666	c.1365G>C	0.917
gyrA	8672	c.1371A>G	0.917
gyrA	8693	c.1392T>C	0.917
gyrA	8696	c.1395G>C	0.917
gyrA	8699	c.1398A>G	0.917
gyrA	8810	c.1509A>G	0.917
gyrA	8817	p.Ser506Ala	0.917
gyrA	8828	c.1527T>C	0.933
gyrA	8829	c.1528T>C	0.933
gyrA	8837	c.1536C>G	0.958
gyrA	8846	c.1545C>T	0.964
gyrA	8852	c.1551T>C	0.966
gyrA	8858	c.1557T>C	0.971
gyrA	8870	c.1569G>C	0.944
gyrA	8873	c.1572A>G	0.974
gyrA	8897	c.1596T>C	0.980
gyrA	8903	c.1602T>C	0.981
gyrA	8915	c.1614A>G	0.982
gyrA	8942	c.1641G>T	0.980
gyrA	8945	c.1644G>C	0.980
gyrA	8946	c.1645T>C	0.980
gyrA	8957	c.1656C>T	1.000
gyrA	8967	p.Ala556Lys	1.000
gyrA	8978	c.1677C>T	1.000
gyrA	8987	c.1686C>G	1.000
gyrA	8990	c.1689C>G	1.000
gyrA	8993	c.1692C>T	1.000
gyrA	8996	c.1695T>C	1.000
gyrA	8998	p.Leu566Trp	1.000
gyrA	9018	p.Gln573Lys	1.000
gyrA	9023	c.1722A>C	1.000
gyrA	9026	c.1725G>C	1.000
gyrA	9029	c.1728T>C	1.000
gyrA	9035	c.1734G>C	1.000
rpoB	760079	c.273G>A	1.000
rpoB	760091	c.285G>C	1.000
rpoB	760101	c.295T>C	1.000
rpoB	760110	c.304T>A	1.000
rpoB	760118	c.312T>G	1.000
rpoB	760121	c.315T>C	1.000
rpoB	760130	p.Asp108Glu	1.000
rpoB	760139	c.333A>G	1.000
rpoB	760181	c.375T>C	1.000
rpoB	760184	c.378A>G	1.000
rpoB	760196	c.390C>G	1.000
rpoB	760235	c.429T>C	1.000
rpoB	760244	c.438G>C	1.000
rpoB	760256	c.450C>T	1.000
rpoB	760274	p.Glu156Asp	1.000
rpoB	760276	p.Lys157Met	1.000
rpoB	760283	c.477G>C	1.000
rpoB	760298	c.492G>C	1.000
rpoB	760307	c.501T>C	1.000
rpoB	760361	c.555T>C	1.000
rpoB	760370	c.564C>G	1.000
rpoB	760376	p.Asp190Glu	1.000
rpoB	760382	c.576G>C	1.000
rpoB	760388	c.582C>T	1.000
rpoB	760400	c.594G>C	1.000
rpoB	760406	c.600G>C	0.840
rpoB	760406	r.600ga>g	1.000
rpoB	760407	p.Ser201Gly	1.000
rpoB	760415	c.609C>T	1.000
rpoB	760418	c.612G>C	1.000
rpoB	760430	c.624T>C	1.000
rpoB	760460	c.654G>C	0.978
rpoB	760475	c.669A>G	0.980
rpoB	760481	c.675G>C	0.980
rpoB	760484	c.678A>G	0.981
rpoB	760502	c.696C>G	0.982
rpoB	760522	p.Ser239Asn	0.982
rpoB	760532	c.726T>C	0.981
rpoB	760541	c.735G>C	0.980
rpoB	760567	p.Ser254Trp	0.955
rpoB	760571	c.765G>C	0.957
rpoB	760588	p.Thr261Ile	1.000
rpoB	760591	p.Val262Ala	1.000
rpoB	760595	c.789C>T	1.000
rpoB	760596	p.Thr264Pro	1.000
rpoB	760608	c.802C>T	1.000
rpoB	760611	c.805T>C	1.000
rpoB	760634	c.828T>C	1.000
rpoB	760646	c.840C>G	1.000
rpoB	760655	c.849A>G	1.000
rpoB	760661	c.855A>G	1.000
rpoB	760668	p.Thr288Ala	1.000
rpoB	760674	c.868T>C	1.000
rpoB	760679	c.873A>G	1.000
rpoB	760683	c.877T>C	1.000
rpoB	760703	c.897C>T	1.000
rpoB	760721	c.915C>G	1.000
rpoB	760727	c.921C>G	1.000
rpoB	760730	c.924T>C	1.000
rpoB	760736	c.930C>G	1.000
rpoB	760817	c.1011A>G	1.000
rpoB	760820	c.1014T>C	1.000
rpoB	760826	c.1020C>G	1.000
rpoB	760830	c.1024T>C	1.000
rpoB	760841	c.1035T>C	1.000
rpoB	760858	p.Val351Ala	1.000
rpoB	760862	c.1056G>C	1.000
rpoB	760865	c.1059C>T	1.000
rpoB	760886	p.Glu360Asp	1.000
rpoB	760887	p.Thr361Val	1.000
rpoB	760910	c.1104C>T	1.000
rpoB	760916	c.1110C>T	1.000
rpoB	760928	c.1122G>C	1.000
rpoB	760943	c.1137C>T	1.000
rpoB	760946	c.1140A>G	1.000
rpoB	760965	p.Met387Leu	1.000
rpoB	760970	c.1164G>C	1.000
rpoB	760973	c.1167G>T	1.000
rpoB	760982	c.1176G>C	1.000
rpoB	760985	c.1179G>C	1.000
rpoB	760988	c.1182C>G	1.000
rpoB	760991	c.1185G>T	1.000
rpoB	760997	c.1191G>C	1.000
rpoB	761006	c.1200C>G	1.000
rpoB	761015	c.1209G>C	1.000
rpoB	761027	c.1221A>C	1.000
rpoB	761036	c.1230G>C	1.000
rpoB	761037	c.1231T>C	1.000
rpoB	761051	c.1245G>T	1.000
rpoB	761054	c.1248G>C	1.000
rpoB	761057	c.1251G>C	1.000
rpoB	761060	c.1254C>G	1.000
rpoB	761063	c.1257C>G	1.000
rpoB	761084	c.1278C>A	1.000
rpoB	761097	c.1291A>T	1.000
rpoB	761102	c.1296A>G	1.000
rpoB	761132	c.1326G>C	1.000
rpoB	761133	c.1327T>C	1.000
rpoB	761147	c.1341C>T	1.000
rpoB	761150	c.1344A>T	1.000
rpoB	761165	c.1359G>C	1.000
rpoB	761171	c.1365C>T	1.000
rpoB	761178	p.Ser458Thr	1.000
rpoB	761186	p.Glu460Asp	1.000
rpoB	761189	c.1383T>C	1.000
rpoB	761195	c.1389G>C	1.000
rpoB	761198	c.1392G>C	1.000
rpoB	761219	c.1413G>C	1.000
rpoB	761234	c.1428G>C	1.000
rpoB	761246	c.1440C>T	1.000
rpoB	761249	c.1443A>G	1.000
rpoB	761255	c.1449T>G	1.000
rpoB	761258	c.1452G>A	1.000
rpoB	761261	c.1455G>C	1.000
rpoB	761264	c.1458C>G	1.000
rpoB	761273	c.1467T>C	1.000
rpoB	761303	c.1497G>C	1.000
rpoB	761318	c.1512G>T	1.000
rpoB	761327	c.1521A>G	1.000
rpoB	761333	c.1527G>T	1.000
rpoB	761339	c.1533C>G	1.000
rpoB	761516	c.1710G>C	1.000
rpoB	761528	c.1722C>T	1.000
rpoB	761531	c.1725C>T	1.000
rpoB	761537	c.1731C>G	1.000
rpoB	761555	c.1749G>C	1.000
rpoB	761558	c.1752C>G	1.000
rpoB	761564	c.1758G>C	1.000
rpoB	761570	c.1764T>C	1.000
rpoB	761573	c.1767C>G	0.974
rpoB	761573	r.1767c>cg	1.000
rpoB	761579	c.1773G>C	1.000
rpoB	761612	c.1806G>T	1.000
rpoB	761615	c.1809A>C	1.000
rpoB	761636	c.1830G>T	1.000
rpoB	761645	c.1839C>G	1.000
rpoB	761657	c.1851C>T	1.000
rpoB	761666	c.1860G>C	1.000
rpoB	761669	c.1863C>T	1.000
rpoB	761675	c.1869G>T	1.000
rpoB	761681	c.1875G>A	1.000
rpoB	761682	c.1876C>T	1.000
rpoB	761687	c.1881C>T	1.000
rpoB	761690	c.1884G>C	1.000
rpoB	761693	c.1887G>C	1.000
rpoB	761705	c.1899C>A	1.000
rpoB	761891	c.2085G>C	1.000
rpoB	761909	c.2103T>C	1.000
rpoB	761912	c.2106T>C	1.000
rpoB	761915	p.Asp703Glu	1.000
rpoB	761916	p.Asp704Asn	1.000
rpoB	761924	c.2118G>A	1.000
rpoB	761930	c.2124G>C	1.000
rpoB	761933	c.2127G>C	1.000
rpoB	761936	c.2130C>T	1.000
rpoB	761948	c.2142G>C	1.000
rpoB	761954	c.2148C>A	1.000
rpoB	761955	p.Ile717Val	1.000
rpoB	761969	c.2163G>A	1.000
rpoB	761990	c.2184G>C	0.981
rpoB	762008	c.2202C>T	1.000
rpoB	762014	c.2208C>G	1.000
rpoB	762038	c.2232C>T	0.977
rpoB	762047	c.2241G>A	0.977
rpoB	762053	c.2247T>C	1.000
rpoB	762056	c.2250G>A	0.975
rpoB	762065	c.2259T>G	1.000
rpoB	762083	c.2277T>C	0.971
rpoB	762086	c.2280G>C	1.000
rpoB	762101	c.2295C>G	1.000
rpoB	762114	p.Ile770Val	1.000
rpoB	762122	c.2316C>T	0.957
rpoB	762131	c.2325C>G	1.000
rpoB	762134	c.2328C>A	0.933
rpoB	762137	c.2331C>T	1.000
rpoB	762140	c.2334G>C	1.000
rpoB	762143	c.2337T>C	1.000
rpoB	762149	c.2343G>T	1.000
rpoB	762158	c.2352G>C	1.000
rpoB	762167	c.2361T>C	1.000
rpoB	762176	c.2370T>C	1.000
rpoB	762185	c.2379G>C	1.000
rpoB	762194	c.2388G>C	1.000
rpoB	762233	c.2427G>C	1.000
rpoB	762236	c.2430G>C	1.000
rpoB	762245	c.2439G>C	1.000
rpoB	762275	c.2469C>T	1.000
rpoB	762284	c.2478G>C	1.000
rpoB	762293	c.2487T>C	1.000
rpoB	762296	c.2490G>C	0.980
rpoB	762317	c.2511A>G	1.000
rpoB	762323	c.2517C>A	0.971
rpoB	762329	c.2523G>C	1.000
rpoB	762404	c.2598T>C	1.000
rpoB	762410	c.2604T>G	1.000
rpoB	762416	c.2610A>G	1.000
rpoB	762449	c.2643C>A	1.000
rpoB	762452	c.2646G>C	1.000
rpoB	762470	c.2664G>C	1.000
rpoB	762488	c.2682G>C	1.000
rpoB	762491	c.2685T>C	1.000
rpoB	762507	c.2702 2702del	1.000
rpoC	763450	c.81G>A	0.958
rpoC	763456	c.87A>G	0.964
rpoC	763468	c.99G>C	0.963
rpoC	763486	c.117T>C	0.969
rpoC	763492	c.123G>C	0.970
rpoC	763528	c.159G>A	0.969
rpoC	763531	c.162G>T	0.969
rpoC	763546	c.177A>G	1.000
rpoC	763570	c.201G>C	1.000
rpoC	763594	c.225C>T	1.000
rpoC	763633	c.264T>C	1.000
rpoC	763657	c.288G>A	1.000
rpoC	763660	c.291T>G	1.000
rpoC	763666	c.297G>C	1.000
rpoC	763669	c.300C>G	1.000
rpoC	763675	c.306C>G	1.000
rpoC	763696	c.327T>C	1.000
rpoC	763699	c.330G>T	1.000
rpoC	763702	c.333C>G	1.000
rpoC	763708	c.339G>C	1.000
rpoC	763711	c.342G>C	1.000
rpoC	763714	c.345G>C	1.000
rpoC	763717	c.348T>C	1.000
rpoC	763723	c.354G>C	1.000
rpoC	763732	c.363C>A	1.000
rpoC	763741	c.372C>T	1.000
rpoC	763744	c.375G>C	1.000
rpoC	763747	c.378G>A	1.000
rpoC	763900	c.531G>C	1.000
rpoC	763933	c.564C>T	1.000
rpoC	763940	p.Ala191Ser	1.000
rpoC	763945	c.576T>C	1.000
rpoC	763947	p.Ala193Val	1.000
rpoC	763951	c.582G>C	1.000
rpoC	763960	c.591T>G	1.000
rpoC	763969	c.600C>T	1.000
rpoC	763987	c.618C>T	1.000
rpoC	763991	p.Ile208Leu	1.000
rpoC	763996	c.627T>C	1.000
rpoC	763999	c.630C>T	1.000
rpoC	764002	c.633C>G	1.000
rpoC	764003	p.Ala212Ser	1.000
rpoC	764024	c.655T>C	1.000
rpoC	764029	p.Glu220Asp	1.000
rpoC	764032	p.Asp221Glu	1.000
rpoC	764040	p.Ser224Thr	1.000
rpoC	764044	c.675T>C	1.000
rpoC	764054	c.685C>T	1.000
rpoC	764059	c.690G>T	1.000
rpoC	764083	c.714A>G	1.000
rpoC	764084	p.Asn239Val	1.000
rpoC	764095	c.726C>T	0.955
rpoC	764098	c.729A>G	1.000
rpoC	764311	c.942C>G	1.000
rpoC	764317	c.948C>G	1.000
rpoC	764320	c.951C>G	1.000
rpoC	764332	c.963G>A	1.000
rpoC	764338	c.969G>A	1.000
rpoC	764353	c.984G>T	1.000
rpoC	764365	c.996C>T	1.000
rpoC	764371	c.1002G>C	1.000
rpoC	764377	c.1008C>G	1.000
rpoC	764380	c.1011G>C	0.974
rpoC	764387	c.1018T>C	0.952
rpoC	764405	c.1036A>C	0.981
rpoC	764428	c.1059G>C	0.980
rpoC	764431	c.1062G>C	0.978
rpoC	764434	c.1065A>G	0.978
rpoC	764435	c.1066A>C	0.978
rpoC	764458	c.1089G>C	0.980
rpoC	764461	c.1092A>G	0.980
rpoC	764497	c.1128A>G	0.982
rpoC	764510	c.1141C>T	0.980
rpoC	764524	c.1155C>G	0.979
rpoC	764530	c.1161C>G	1.000
rpoC	764534	c.1165C>A	1.000
rpoC	764539	c.1170C>T	1.000
rpoC	764542	c.1173C>T	1.000
rpoC	764545	c.1176C>A	1.000
rpoC	764560	c.1191T>C	1.000
rpoC	764575	c.1206T>G	1.000
rpoC	764611	c.1242G>T	1.000
rpoC	764626	c.1257C>T	1.000
rpoC	764632	c.1263T>C	1.000
rpoC	764650	c.1281G>T	1.000
rpoC	764668	c.1299C>T	0.980
rpoC	764692	c.1323C>T	0.979
rpoC	764713	c.1344G>T	0.974
rpoC	764716	c.1347G>C	0.975
rpoC	764746	c.1377G>T	0.979
rpoC	764752	c.1383G>C	0.980
rpoC	764758	c.1389C>G	0.980
rpoC	764764	c.1395T>C	0.979
rpoC	764791	c.1422C>G	0.981
rpoC	764803	c.1434C>T	1.000
rpoC	764809	c.1440C>T	1.000
rpoC	764810	p.Pro481Ala	1.000
rpoC	764815	c.1446A>G	1.000
rpoC	764824	c.1455T>C	0.979
rpoC	764827	c.1458G>C	1.000
rpoC	764858	c.1489T>C	1.000
rpoC	764869	c.1500C>T	1.000
rpoC	764875	c.1506C>A	1.000
rpoC	764887	c.1518G>C	1.000
rpoC	764888	c.1519T>C	1.000
rpoC	764911	c.1542A>G	1.000
rpoC	764912	p.Met515Gln	1.000
rpoC	764932	c.1563C>A	1.000
rpoC	764948	c.1579T>C	1.000
rpoC	764968	c.1599T>C	1.000
rpoC	765004	c.1635G>C	1.000
rpoC	765007	c.1638T>G	1.000
rpoC	765008	c.1639T>C	1.000
rpoC	765011	c.1642A>T	1.000
rpoC	765016	c.1647C>G	1.000
rpoC	765019	c.1650A>G	1.000
rpoC	765040	c.1671T>C	1.000
rpoC	765041	c.1672T>C	1.000
rpoC	765047	c.1678T>C	1.000
rpoC	765055	c.1686C>G	1.000
rpoC	765073	c.1704G>C	1.000
rpoC	765076	c.1707A>G	1.000
rpoC	765079	c.1710T>G	1.000
rpoC	765082	c.1713G>C	1.000
rpoC	765085	c.1716T>C	1.000
rpoC	765089	c.1720T>C	1.000
rpoC	765100	c.1731G>C	1.000
rpoC	765103	c.1734G>T	1.000
rpoC	765121	c.1752G>T	1.000
rpoC	765129	p.Tyr587Phe	1.000
rpoC	765352	c.1983G>C	0.800
rpoC	765356	p.Met663Val	0.800
rpoC	765370	c.2001G>C	0.944
rpoC	765379	c.2010G>C	0.947
rpoC	765382	c.2013G>T	0.947
rpoC	765383	p.Met672Leu	0.947
rpoC	765403	c.2034G>C	0.958
rpoC	765405	p.Leu679His	0.958
rpoC	765409	c.2040T>G	0.958
rpoC	765421	c.2052C>G	0.968
rpoC	765449	p.Ala694Ser	0.970
rpoC	765454	c.2085C>G	0.944
rpoC	765469	c.2100G>C	0.957
rpoC	765478	c.2109T>G	0.974
rpoC	765480	p.Tyr704Phe	0.950
rpoC	765499	c.2130C>G	1.000
rpoC	765517	c.2148C>G	0.968
rpoC	765533	p.Tyr722His	0.963
rpoC	765544	c.2175C>G	0.944
rpoC	765547	c.2178C>T	0.941
rpoC	765548	c.2179A>T	0.941
rpoC	765553	c.2184C>T	1.000
rpoC	765556	c.2187G>C	1.000
rpoC	765562	c.2193G>T	0.941
rpoC	765826	c.2457T>C	1.000
rpoC	765835	c.2466C>T	1.000
rpoC	765841	c.2472G>T	1.000
rpoC	765861	p.Phe831Tyr	1.000
rpoC	765875	p.Val836Ile	1.000
rpoC	765907	c.2538G>T	1.000
rpoC	765910	c.2541G>C	1.000
rpoC	765928	c.2559C>G	1.000
rpoC	765940	c.2571A>T	1.000
rpoC	765947	c.2578T>C	1.000
rpoC	765962	c.2593T>C	1.000
rpoC	765967	c.2598C>T	1.000
rpoC	765973	c.2604C>G	1.000
rpoC	765979	c.2610C>G	1.000
rpoC	765982	c.2613C>T	1.000
rpoC	765994	c.2625A>T	1.000
rpoC	766003	c.2634G>C	1.000
rpoC	766321	c.2952C>G	0.882
rpoC	766333	c.2964G>T	0.889
rpoC	766345	c.2976T>C	0.889
rpoC	766348	c.2979A>G	0.889
rpoC	766351	c.2982C>G	0.889
rpoC	766353	p.Val995Ala	0.889
rpoC	766369	c.3000C>G	0.943
rpoC	766375	c.3006C>G	0.944
rpoC	766381	c.3012C>T	0.946
rpoC	766384	c.3015A>G	0.946
rpoC	766390	c.3021C>T	0.946
rpoC	766393	c.3024C>T	0.946
rpoC	766408	c.3039C>T	0.950
rpoC	766435	p.Glu1022Asp	0.927
rpoC	766501	c.3132G>C	0.941
rpoC	766507	c.3138C>T	0.941
rpoC	766513	c.3144C>T	0.947
rpoC	766522	c.3153C>A	0.947
rpoC	766528	c.3159T>G	0.947
rpoC	766531	c.3162G>C	0.947
rpoC	766534	c.3165C>G	0.947
rpoC	766537	c.3168G>A	0.947
rpoC	766540	p.Asp1057Glu	0.947
rpoC	766549	c.3180G>C	0.977
rpoC	766570	c.3201T>C	0.978
rpoC	766573	c.3204T>G	0.978
rpoC	766594	c.3225G>T	1.000
rpoC	766607	p.Ile1080Leu	1.000
rpoC	766618	c.3249G>T	1.000
rpoC	766624	c.3255G>C	1.000
rpoC	766630	c.3261G>C	1.000
rpoC	766633	c.3264G>C	1.000
rpoC	766931	p.Ala1188Ser	0.970
rpoC	766942	c.3573C>T	0.974
rpoC	766945	c.3576A>C	1.000
rpoC	766963	c.3594T>C	1.000
rpoC	766996	c.3627C>T	1.000
rpoC	767002	c.3633G>C	0.967
rpoC	767008	c.3639G>A	0.968
rpoC	767023	c.3654C>T	0.962
rpoC	767044	c.3675G>C	0.980
rpoC	767080	c.3711G>C	0.981
rpoC	767095	c.3726C>T	0.932
rpoC	767098	c.3729T>C	0.977
rpoC	767104	c.3735C>G	0.977
rpoC	767107	c.3738C>T	0.977
rpoC	767119	c.3750A>G	0.976
rpoC	767125	c.3756G>C	0.976
rpoC	767134	c.3765C>T	0.978
rpoC	767138	c.3769C>T	0.978
rpoC	767149	c.3780C>T	0.976
rpoC	767158	c.3789T>C	0.977
rpoC	767179	c.3810C>T	0.947
rpoC	767180	p.Ala1271Ser	0.973
rpoC	767191	c.3822C>G	0.972
rpoC	767197	c.3828G>A	0.972
rpoC	767203	c.3834C>G	0.970
rpoC	767206	c.3837C>G	0.969
rpoC	767209	c.3840T>C	0.966
rpoC	767212	c.3843G>C	0.969
rpoC	767221	c.3852C>G	0.976
rpoC	767230	c.3861G>C	0.973
rpoC	767233	c.3864T>C	1.000
rpoC	767254	c.3885G>C	1.000
rpoC	767264	p.Ala1299Ser	1.000
rpoC	767267	p.Ala1300Asn	1.000
rpoC	767281	c.3912C>G	1.000
rpoC	767284	c.3915C>G	1.000
rpsL	781559	c.-1G>C	0.950
rpsL	781572	p.Gln5Asn	0.957
rpsL	781586	c.27C>T	0.967
rpsL	781595	c.36T>C	0.972
rpsL	781608	p.Ser17Ala	0.974
rpsL	781616	c.57C>G	1.000
rpsL	781628	c.69T>C	1.000
rpsL	781649	c.90T>C	1.000
rpsL	781655	c.96T>C	1.000
rpsL	781658	c.99A>C	1.000
rpsL	781670	c.111G>C	1.000
rpsL	781706	c.147T>C	1.000
rpsL	781715	c.156T>G	1.000
rpsL	781772	c.213C>T	1.000
rpsL	781802	c.243G>C	0.971
rpsL	781814	c.255C>T	1.000
rpsL	781817	c.258G>T	1.000
rpsL	781829	c.270G>C	0.971
rpsL	781832	c.273T>C	1.000
rpsL	781859	c.300T>C	1.000
rpsL	781868	c.309T>C	1.000
rpsL	781871	c.312G>C	1.000
rpsL	781877	c.318T>A	1.000
rpsL	781892	c.333A>G	1.000
rpsL	781898	c.339A>T	1.000
rpsL	781907	c.348T>C	1.000
rpsL	781916	c.357T>C	1.000
rpsL	781929	p.Gly124Ser	1.000
rpsL	781933	374G>A	1.000
rrs	1472150	r.305t>a	1.000
rrs	1472251	r.406g>a	1.000
rrs	1472380	r.535g>c	1.000
rrl	1474263	r.606g>a	0.900
rrl	1474356	r.699t>c	0.900
rrl	1474760	r.1103a>g	0.800
rrl	1474794	r.1137c>t	0.917
rrl	1474803	r.1146g>a	0.900
rrl	1474812	r.1155g>a	0.900
rrl	1474830	r.1173a>g	0.917
rrl	1474864	r.1207c>a	0.200
rrl	1476584	r.2927c>t	1.000
rrl	1476594	r.2937c>t	1.000
rrl	1476597	r.2940g>a	1.000
rrl	1476603	r.2946g>a	1.000
rrl	1476608	r.2951c>g	1.000
rrl	1476619	r.2962c>t	1.000
rrl	1476628	r.2971t>a	0.923
inhA	1674876	c.675C>T	1.000
inhA	1674879	c.678T>C	1.000
inhA	1674892	p.Asn231Asp	1.000
inhA	1674903	c.702T>C	1.000
inhA	1674904	p.Ala235Pro	1.000
inhA	1674909	c.708G>A	1.000
inhA	1674912	c.711G>C	1.000
inhA	1674915	c.714C>G	1.000
inhA	1674942	c.741T>C	1.000
inhA	1674949	c.748C>T	1.000
inhA	1674954	c.753G>C	1.000
inhA	1674957	c.756G>C	1.000
inhA	1674963	c.762G>C	1.000
inhA	1674966	c.765T>C	1.000
inhA	1674975	c.774C>T	1.000
inhA	1674977	p.Tyr259Phe	1.000
rpsA	1833536	c.-6A>C	0.909
rpsA	1833538	c.-4CA>C	0.909
rpsA	1833541	c.-1T>C	0.909
rpsA	1833547	c.6G>A	0.923
rpsA	1833589	c.48A>C	1.000
rpsA	1833595	c.54T>G	1.000
rpsA	1833596	p.Ser19Ala	1.000
rpsA	1833604	c.63C>T	1.000
rpsA	1833616	c.75A>T	1.000
rpsA	1833619	c.78A>C	1.000
rpsA	1833625	c.84A>G	1.000
rpsA	1833664	c.123C>G	1.000
rpsA	1833676	c.135A>G	1.000
rpsA	1833679	c.138G>T	1.000
rpsA	1833685	c.144G>C	1.000
rpsA	1833691	c.150G>A	1.000
rpsA	1833694	c.153G>T	1.000
rpsA	1833697	c.156C>T	1.000
rpsA	1833700	c.159C>T	1.000
rpsA	1833709	c.168C>T	0.957
rpsA	1833724	c.183C>T	1.000
rpsA	1833727	c.186G>C	1.000
rpsA	1833733	c.192C>G	0.944
rpsA	1833734	p.Ala65Ser	0.944
rpsA	1833734	r.193g>gt	1.000
rpsA	1833742	c.201A>G	1.000
rpsA	1833745	c.204G>C	1.000
rpsA	1833748	c.207C>G	1.000
rpsA	1833760	c.219C>T	1.000
rpsA	1833787	c.246C>G	0.962
rpsA	1833790	c.249T>C	0.962
rpsA	1833802	c.261A>G	0.958
rpsA	1833811	c.270G>T	0.958
rpsA	1833823	c.282G>A	0.967
rpsA	1833832	c.291G>A	0.971
rpsA	1833838	c.297G>C	0.971
rpsA	1833841	c.300C>G	0.972
rpsA	1833847	c.306C>G	0.971
rpsA	1833856	c.315A>G	0.941
rpsA	1833862	c.321G>T	0.971
rpsA	1833874	c.333T>G	0.972
rpsA	1833886	c.345C>G	0.974
rpsA	1833894	p.Ala118Glu	0.974
rpsA	1833928	c.387G>C	1.000
rpsA	1833949	c.408T>C	1.000
rpsA	1833961	c.420C>G	1.000
rpsA	1833970	c.429G>T	1.000
rpsA	1833979	c.438T>C	1.000
rpsA	1833991	c.450C>G	1.000
rpsA	1834000	c.459G>C	1.000
rpsA	1834009	c.468C>T	1.000
rpsA	1834012	c.471G>C	1.000
rpsA	1834015	c.474G>C	1.000
rpsA	1834021	c.480C>T	1.000
rpsA	1834030	c.489C>G	1.000
rpsA	1834033	c.492C>T	1.000
rpsA	1834073	p.Lys178Arg	1.000
rpsA	1834096	c.555G>C	1.000
rpsA	1834099	c.558C>G	1.000
rpsA	1834108	c.567C>G	1.000
rpsA	1834114	c.573G>C	1.000
rpsA	1834177	c.636A>C	1.000
rpsA	1834228	c.687C>A	1.000
rpsA	1834231	c.690T>G	1.000
rpsA	1834234	c.693G>T	1.000
rpsA	1834240	c.699T>C	0.970
rpsA	1834246	c.705G>T	0.970
rpsA	1834249	c.708T>C	0.970
rpsA	1834252	c.711C>G	0.970
rpsA	1834261	c.720A>G	0.975
rpsA	1834264	c.723G>C	0.975
rpsA	1834279	c.738C>T	0.976
rpsA	1834294	c.753G>T	0.973
rpsA	1834297	c.756C>T	0.972
rpsA	1834303	c.762T>G	0.973
rpsA	1834306	c.765T>C	0.974
rpsA	1834327	c.786G>T	0.976
rpsA	1834357	c.816T>C	0.971
rpsA	1834366	c.825A>G	1.000
rpsA	1834375	c.834G>C	1.000
rpsA	1834396	c.855G>C	1.000
rpsA	1834411	c.870T>G	1.000
rpsA	1834414	c.873C>T	1.000
rpsA	1834417	c.876G>C	1.000
rpsA	1834420	c.879C>T	1.000
rpsA	1834423	c.882G>C	1.000
rpsA	1834429	c.888C>T	1.000
rpsA	1834438	c.897C>T	1.000
rpsA	1834451	c.910T>C	1.000
rpsA	1834456	c.915T>G	1.000
rpsA	1834468	c.927A>G	1.000
rpsA	1834477	c.936C>T	1.000
rpsA	1834489	c.948T>C	1.000
rpsA	1834519	c.978G>C	1.000
rpsA	1834520	p.Ala327Ser	1.000
rpsA	1834528	c.987T>C	1.000
rpsA	1834534	c.993C>T	1.000
rpsA	1834543	c.1002C>G	1.000
rpsA	1834546	c.1005T>C	1.000
rpsA	1834552	c.1011G>T	1.000
rpsA	1834555	c.1014T>G	1.000
rpsA	1834557	p.Ala339Gly	1.000
rpsA	1834606	c.1065C>T	1.000
rpsA	1834609	c.1068T>C	1.000
rpsA	1834619	c.1078T>C	1.000
rpsA	1834622	c.1081T>A	1.000
rpsA	1834633	c.1092A>G	0.966
rpsA	1834639	c.1098T>C	1.000
rpsA	1834645	c.1104C>T	1.000
rpsA	1834666	c.1125G>C	1.000
rpsA	1834667	p.Ala376Ser	1.000
rpsA	1834690	c.1149T>C	1.000
rpsA	1834700	p.Gln387Ala	1.000
rpsA	1834705	c.1164C>G	1.000
rpsA	1834720	c.1179C>G	1.000
rpsA	1834732	c.1191T>C	1.000
rpsA	1834738	c.1197A>G	1.000
rpsA	1834753	c.1212T>C	1.000
rpsA	1834759	c.1218A>C	1.000
rpsA	1834765	p.Glu408Asp	1.000
rpsA	1834774	c.1233C>T	1.000
rpsA	1834776	p.Ala412Glu	1.000
rpsA	1834780	c.1239A>G	1.000
rpsA	1834789	c.1248T>C	1.000
rpsA	1834813	c.1272G>T	1.000
rpsA	1834830	p.Ala430Val	1.000
kasA	2518738	c.624G>C	0.962
kasA	2518756	c.642G>C	0.971
kasA	2518768	c.654C>G	0.971
kasA	2518771	c.657C>G	0.971
kasA	2518774	c.660C>T	0.971
kasA	2518783	c.669T>G	0.971
kasA	2518787	p.Arg225Lys	0.971
kasA	2518792	c.678C>T	0.971
kasA	2518795	c.681C>T	0.971
kasA	2518798	c.684G>C	0.971
kasA	2518822	c.708C>A	0.982
kasA	2518825	c.711T>C	0.982
kasA	2518846	c.732G>T	0.980
kasA	2518849	c.735G>C	0.979
kasA	2518853	p.Leu247Val	0.979
kasA	2518864	c.750G>C	1.000
panD	4044138	c.144A>G	1.000
panD	4044150	c.132T>G	1.000
panD	4044156	c.126T>C	1.000
panD	4044167	c.115G>A	1.000
panD	4044171	c.111G>A	1.000
panD	4044174	c.108G>A	1.000
panD	4044180	p.Asp34Glu	1.000
panD	4044188	c.94C>G	1.000
panD	4044189	c.93G>A	1.000
panD	4044194	p.Ala30Pro	1.000
panD	4044195	c.87A>G	1.000
panD	4044219	c.63G>A	1.000
panD	4044233	p.Cys17His	1.000
panD	4044234	c.48G>C	1.000
panD	4044249	c.33G>A	1.000
panD	4044266	p.Leu6Met	1.000
embC	4240729	c.867C>G	1.000
embC	4240735	c.873C>G	1.000
embC	4240741	c.879C>T	1.000
embC	4240756	c.894G>C	1.000
embC	4240771	c.909G>C	1.000
embC	4240772	p.Ser304Ala	1.000
embC	4240778	p.His306Gly	1.000
embC	4240781	p.Ala307Ser	1.000
embC	4240789	c.927T>C	1.000
embC	4240819	c.957A>C	1.000
embC	4240826	p.Ala322Ser	1.000
embC	4240831	c.969T>G	1.000
embC	4240856	p.Ala332Thr	1.000
embC	4240859	p.Leu333Ile	1.000
embC	4240876	c.1014C>T	1.000
embC	4240879	c.1017G>T	1.000
embC	4240885	c.1023T>C	0.964
embC	4240886	p.Ile342Val	0.964
embC	4240897	c.1035C>G	0.960
embC	4240900	c.1038A>G	0.960
embB	4248220	c.1707A>G	1.000
embB	4248226	c.1713G>C	1.000
embB	4248232	c.1719G>T	1.000
embB	4248233	p.Leu574Val	1.000
embB	4248236	p.Met575Leu	1.000
embB	4248245	p.Ile578Val	1.000
embB	4248250	c.1737C>T	1.000
embB	4248259	p.Met582Ile	1.000
embB	4248275	p.Thr588Ala	1.000
embB	4248292	c.1779G>A	1.000