lineage	coordinate_NC_000962.3	gene_coordinate	allele_change	codon_number	codon_change	amino_acid_change	locus_Id	gene_name	mutation_type	essential	diagnostic_snp
lineage1	6112	873	G/C	291	ATG/ATC	M/I	Rv0005	gyrB	nonsyn	essential	no
lineage1	8452	1151	C/T	384	GCA/GTA	A/V	Rv0006	gyrA	nonsyn	nonessential	no
lineage1	13298	261	G/C	87	ATC/ATG	I/M	Rv0010c	.	nonsyn	nonessential	no
lineage1	22961	221	T/G	74	GAT/GCT	D/A	Rv0018c	pstP	nonsyn	nonessential	no
lineage1	26347	535	C/G	179	GAC/CAC	D/H	Rv0021c	.	nonsyn	nonessential	no
lineage1	27996	402	T/C	134	TAT/TAC	Y/Y	Rv0023	.	syn	nonessential	no
lineage1	64028	120	C/T	40	CCC/CCT	P/P	Rv0060	.	syn	essential	no
lineage1	65159	192	G/A	64	GGC/GGT	G/G	Rv0061c	.	syn	nonessential	no
lineage1	65663	112	C/G	38	CAT/GAT	H/D	Rv0062	celA1	nonsyn	nonessential	no
lineage1	66892	.	C/G	.	./.	./.	.	.	inter	.	no
lineage1	68174	1252	T/C	418	TCG/CCG	S/P	Rv0063	.	nonsyn	nonessential	no
lineage1	74737	462	T/G	154	GAA/GAC	E/D	Rv0067c	.	nonsyn	nonessential	no
lineage1	79479	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1	89871	297	C/T	99	GAC/GAT	D/D	Rv0081	.	syn	nonessential	no
lineage1	98966	487	G/C	163	GCA/CCA	A/P	Rv0090	.	nonsyn	nonessential	no
lineage1	115499	5499	T/G	1833	CGT/CGG	R/R	Rv0101	nrp	syn	essential	no
lineage1	132646	1265	G/T	422	GGT/GTT	G/V	Rv0109	PE_PGRS1	nonsyn	ND	no
lineage1	137233	945	C/T	315	GCC/GCT	A/A	Rv0112	gca	syn	essential	yes
lineage1	139954	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1	144564	516	C/T	172	ATC/ATT	I/I	Rv0119	fadD7	syn	nonessential	no
lineage1	146788	984	G/A	328	GTC/GTT	V/V	Rv0120c	fusA2	syn	nonessential	no
lineage1	146872	900	C/T	300	CAG/CAA	Q/Q	Rv0120c	fusA2	syn	nonessential	no
lineage1	160976	108	C/G	36	AAC/AAG	N/K	Rv0133	.	nonsyn	nonessential	no
lineage1	162226	456	G/A	152	TGG/TGA	W/*	Rv0134	ephF	nonsyn	nonessential	no
lineage1	167986	276	C/T	92	GAC/GAT	D/D	Rv0142	.	syn	nonessential	no
lineage1	168787	1396	C/T	466	GTC/ATC	V/I	Rv0143c	.	nonsyn	nonessential	no
lineage1	189948	492	C/G	164	AAG/AAC	K/N	Rv0160c	PE4	nonsyn	ND	no
lineage1	196874	14	C/T	5	ACA/ATA	T/I	Rv0167	yrbE1A	nonsyn	nonessential	no
lineage1	211993	258	C/A	86	AAG/AAT	K/N	Rv0180c	.	nonsyn	nonessential	no
lineage1	215238	270	C/T	90	GAC/GAT	D/D	Rv0184	.	syn	nonessential	no
lineage1	226676	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	254903	1048	C/A	350	GGC/TGC	G/C	Rv0213c	.	nonsyn	nonessential	no
lineage1	263149	338	A/C	113	GAG/GCG	E/A	Rv0220	lipC	nonsyn	nonessential	no
lineage1	264298	232	C/A	78	CAG/AAG	Q/K	Rv0221	.	nonsyn	nonessential	no
lineage1	264984	918	C/G	306	ACC/ACG	T/T	Rv0221	.	syn	nonessential	no
lineage1	272678	162	C/T	54	GCG/GCA	A/A	Rv0227c	.	syn	essential	no
lineage1	290374	281	T/C	94	CAC/CGC	H/R	Rv0241c	htdX	nonsyn	nonessential	no
lineage1	308312	1236	G/A	412	ACC/ACT	T/T	Rv0256c	PPE2	syn	ND	no
lineage1	326002	1436	A/G	479	GAT/GGT	D/G	Rv0270	fadD2	nonsyn	nonessential	no
lineage1	339508	145	C/T	49	CTG/TTG	L/L	Rv0280	PPE3	syn	ND	no
lineage1	344288	267	C/G	89	TCC/TCG	S/S	Rv0283	eccB3	syn	essential	no
lineage1	357582	483	G/A	161	CAC/CAT	H/H	Rv0293c	.	syn	nonessential	no
lineage1	368948	3817	T/C	1273	ATC/GTC	I/V	Rv0304c	PPE5	nonsyn	ND	no
lineage1	378357	427	T/G	143	TCC/GCC	S/A	Rv0309	.	nonsyn	ND	no
lineage1	378939	210	G/C	70	CGC/CGG	R/R	Rv0310c	.	syn	nonessential	no
lineage1	393941	105	C/T	35	ATG/ATA	M/I	Rv0327c	cyp135A1	nonsyn	nonessential	no
lineage1	396750	550	G/A	184	GTA/ATA	V/I	Rv0331	.	nonsyn	nonessential	no
lineage1	406274	2175	T/C	725	GCA/GCG	A/A	Rv0339c	.	syn	nonessential	no
lineage1	420405	571	C/T	191	CGT/TGT	R/C	Rv0350	dnaK	nonsyn	essential	no
lineage1	424250	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1	426768	7912	C/T	2638	GGC/AGC	G/S	Rv0355c	PPE8	nonsyn	ND	no
lineage1	434327	353	A/G	118	GTG/GCG	V/A	Rv0355c	PPE8	nonsyn	ND	no
lineage1	439711	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1	447525	519	G/C	173	ATC/ATG	I/M	Rv0370c	.	nonsyn	nonessential	no
lineage1	452288	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	456511	309	G/A	103	ACC/ACT	T/T	Rv0380c	.	syn	nonessential	no
lineage1	469042	708	C/T	236	AAC/AAT	N/N	Rv0389	purT	syn	nonessential	no
lineage1	471666	974	A/G	325	ATG/ACG	M/T	Rv0392c	ndhA	nonsyn	nonessential	no
lineage1	485230	1254	C/T	418	CAC/CAT	H/H	Rv0404	fadD30	syn	essential	yes
lineage1	485785	55	T/G	19	TTG/GTG	L/V	Rv0405	pks6	nonsyn	nonessential	no
lineage1	492655	870	G/A	290	GCG/GCA	A/A	Rv0408	pta	syn	nonessential	no
lineage1	495473	1842	C/T	614	TCG/TCA	S/S	Rv0410c	pknG	syn	essential	no
lineage1	549251	357	C/T	119	TGG/TGA	W/*	Rv0457c	.	nonsyn	nonessential	no
lineage1	555945	362	T/C	121	CAG/CGG	Q/R	Rv0465c	.	nonsyn	nonessential	no
lineage1	556035	272	G/T	91	CCG/CAG	P/Q	Rv0465c	.	nonsyn	nonessential	no
lineage1	560664	777	C/T	259	AAC/AAT	N/N	Rv0469	umaA	syn	nonessential	no
lineage1	560666	779	A/G	260	AAA/AGA	K/R	Rv0469	umaA	nonsyn	nonessential	no
lineage1	564723	1160	C/T	387	ACG/ATG	T/M	Rv0473	.	nonsyn	nonessential	no
lineage1	568693	275	G/T	92	GCG/GAG	A/E	Rv0479c	.	nonsyn	essential	no
lineage1	580336	988	C/A	330	CGG/AGG	R/R	Rv0490	senX3	syn	essential	no
lineage1	591965	312	G/A	104	GCG/GCA	A/A	Rv0501	galE2	syn	nonessential	no
lineage1	595501	1085	G/A	362	GCG/GTG	A/V	Rv0505c	serB1	nonsyn	nonessential	no
lineage1	615938	1104	G/A	368	GAG/GAA	E/E	Rv0524	hemL	syn	essential	yes
lineage1	621390	484	G/A	162	GTC/ATC	V/I	Rv0530	.	nonsyn	nonessential	no
lineage1	627350	103	C/G	35	CCC/GCC	P/A	Rv0536	galE3	nonsyn	nonessential	no
lineage1	643483	595	G/A	199	GGT/AGT	G/S	Rv0552	.	nonsyn	nonessential	no
lineage1	646531	234	A/T	78	ACA/ACT	T/T	Rv0555	menD	syn	essential	no
lineage1	649345	810	C/T	270	GCC/GCT	A/A	Rv0557	mgtA	syn	essential	yes
lineage1	655707	243	G/A	81	GTC/GTT	V/V	Rv0564c	gpdA1	syn	nonessential	no
lineage1	678440	636	C/T	212	ACG/ACA	T/T	Rv0583c	lpqN	syn	nonessential	no
lineage1	685955	28	G/A	10	GCA/ACA	A/T	Rv0588	yrbE2B	nonsyn	essential	no
lineage1	704997	913	G/A	305	CAA/TAA	Q/*	Rv0610c	.	nonsyn	nonessential	no
lineage1	720863	870	G/T	290	GCC/GCA	A/A	Rv0629c	recD	syn	nonessential	no
lineage1	722852	2162	G/A	721	CCA/CTA	P/L	Rv0630c	recB	nonsyn	nonessential	no
lineage1	726498	1809	C/A	603	CTG/CTT	L/L	Rv0631c	recC	syn	nonessential	no
lineage1	730087	80	G/A	27	GCC/GTC	A/V	Rv0633c	.	nonsyn	nonessential	no
lineage1	734116	380	T/C	127	ATG/ACG	M/T	Rv0638	secE1	nonsyn	essential	no
lineage1	749968	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1	752046	530	C/T	177	GCC/GTC	A/V	Rv0655	mkl	nonsyn	essential	no
lineage1	753668	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	754387	23	G/A	8	ACC/ATC	T/I	Rv0658c	.	nonsyn	nonessential	no
lineage1	763884	515	C/T	172	GCC/GTC	A/V	Rv0668	rpoC	nonsyn	essential	no
lineage1	763886	517	C/A	173	CGG/AGG	R/R	Rv0668	rpoC	syn	essential	no
lineage1	767609	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1	786137	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1	797597	665	C/T	222	ACG/ATG	T/M	Rv0697	.	nonsyn	essential	no
lineage1	800357	.	C/A	.	./.	./.	.	.	inter	.	no
lineage1	810287	342	C/G	114	ACC/ACG	T/T	Rv0713	.	syn	nonessential	no
lineage1	811492	120	C/G	40	GTC/GTG	V/V	Rv0714	rplN	syn	essential	yes
lineage1	812502	444	C/T	148	GTC/GTT	V/V	Rv0716	rplE	syn	essential	no
lineage1	817696	171	G/A	57	TCC/TCT	S/S	Rv0724A	.	syn	nonessential	no
lineage1	819213	428	T/C	143	GAG/GGG	E/G	Rv0726c	.	nonsyn	nonessential	no
lineage1	829719	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	846996	838	G/A	280	GGG/AGG	G/R	Rv0754	PE_PGRS11	nonsyn	ND	no
lineage1	850985	482	A/G	161	ATA/ACA	I/T	Rv0756c	.	nonsyn	nonessential	no
lineage1	865761	1176	C/T	392	CAC/CAT	H/H	Rv0772	purD	syn	essential	yes
lineage1	885689	152	G/T	51	ACG/AAG	T/K	Rv0791c	.	nonsyn	nonessential	no
lineage1	895082	547	A/G	183	TTC/CTC	F/L	Rv0802c	.	nonsyn	nonessential	no
lineage1	895120	509	C/T	170	CGC/CAC	R/H	Rv0802c	.	nonsyn	nonessential	no
lineage1	910015	19	C/A	7	GCT/TCT	A/S	Rv0816c	thiX	nonsyn	nonessential	no
lineage1	952597	966	C/T	322	ATC/ATT	I/I	Rv0855	far	syn	nonessential	no
lineage1	976043	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1	977196	1008	G/A	336	GGC/GGT	G/G	Rv0878c	PPE13	syn	ND	no
lineage1	987601	369	C/T	123	GGC/GGT	G/G	Rv0888	.	syn	nonessential	no
lineage1	996219	77	G/A	26	GCA/GTA	A/V	Rv0893c	.	nonsyn	nonessential	no
lineage1	1002342	74	T/C	25	TAC/TGC	Y/C	Rv0897c	.	nonsyn	nonessential	no
lineage1	1009490	547	C/A	183	CAA/AAA	Q/K	Rv0906	.	nonsyn	nonessential	no
lineage1	1022613	527	G/A	176	CGG/CAG	R/Q	Rv0917	betP	nonsyn	nonessential	no
lineage1	1027727	43	G/C	15	GCC/CCC	A/P	Rv0922	.	nonsyn	ND	no
lineage1	1029997	581	A/G	194	GTG/GCG	V/A	Rv0923c	.	nonsyn	nonessential	no
lineage1	1032524	110	T/C	37	GAC/GGC	D/G	Rv0925c	.	nonsyn	nonessential	no
lineage1	1043136	1022	C/T	341	ACC/ATC	T/I	Rv0934	pstS1	nonsyn	ND	no
lineage1	1048102	1967	G/A	656	CGC/CAC	R/H	Rv0938	ligD	nonsyn	nonessential	no
lineage1	1061386	269	T/C	90	GAG/GGG	E/G	Rv0950c	.	nonsyn	essential	no
lineage1	1063922	783	C/A	261	GGC/GGA	G/G	Rv0952	sucD	syn	essential	no
lineage1	1066038	912	A/G	304	TAA/TAG	*/*	Rv0954	.	syn	nonessential	no
lineage1	1072342	1088	A/G	363	GAC/GGC	D/G	Rv0959	.	nonsyn	nonessential	no
lineage1	1077754	82	C/T	28	GCG/ACG	A/T	Rv0966c	.	nonsyn	nonessential	no
lineage1	1083755	1996	A/G	666	TCA/CCA	S/P	Rv0973c	accA2	nonsyn	essential	no
lineage1	1086648	698	C/A	233	CGC/CTC	R/L	Rv0974c	accD2	nonsyn	nonessential	no
lineage1	1111518	1250	T/C	417	GTG/GCG	V/A	Rv0994	moeA1	nonsyn	nonessential	no
lineage1	1117405	221	C/T	74	ACT/ATT	T/I	Rv1001	arcA	nonsyn	nonessential	no
lineage1	1119739	201	C/T	67	CTG/CTA	L/L	Rv1002c	.	syn	essential	yes
lineage1	1139222	256	G/A	86	GCG/ACG	A/T	Rv1020	mfd	nonsyn	nonessential	no
lineage1	1155700	1977	C/T	659	ATC/ATT	I/I	Rv1030	kdpB	syn	nonessential	no
lineage1	1157771	185	G/C	62	TCC/TGC	S/C	Rv1032c	trcS	nonsyn	nonessential	no
lineage1	1184826	812	G/T	271	CGC/CTC	R/L	Rv1061	.	nonsyn	nonessential	no
lineage1	1192830	1444	G/A	482	CGG/TGG	R/W	Rv1069c	.	nonsyn	nonessential	no
lineage1	1199019	355	T/C	119	ACC/GCC	T/A	Rv1074c	fadA3	nonsyn	nonessential	no
lineage1	1228116	569	A/G	190	ATC/ACC	I/T	Rv1099c	glpX	nonsyn	essential	no
lineage1	1237403	790	G/A	264	CCC/TCC	P/S	Rv1111c	.	nonsyn	essential	no
lineage1	1262230	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	1287160	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1	1314617	893	C/T	298	GCT/GTT	A/V	Rv1180	pks3	nonsyn	nonessential	no
lineage1	1320508	474	G/A	158	GTG/GTA	V/V	Rv1182	papA3	syn	essential	yes
lineage1	1320614	580	C/G	194	CTG/GTG	L/V	Rv1182	papA3	nonsyn	essential	no
lineage1	1344857	313	C/T	105	GGC/AGC	G/S	Rv1201c	dapD	nonsyn	essential	no
lineage1	1356648	813	C/T	271	GAC/GAT	D/D	Rv1213	glgC	syn	nonessential	no
lineage1	1369389	907	C/T	303	GGC/AGC	G/S	Rv1226c	.	nonsyn	nonessential	no
lineage1	1369735	561	G/A	187	TAC/TAT	Y/Y	Rv1226c	.	syn	nonessential	no
lineage1	1374578	287	C/T	96	CGT/CAT	R/H	Rv1231c	.	nonsyn	nonessential	no
lineage1	1374639	226	T/A	76	AAT/TAT	N/Y	Rv1231c	.	nonsyn	nonessential	no
lineage1	1387211	355	G/A	119	GCA/ACA	A/T	Rv1244	lpqZ	nonsyn	essential	no
lineage1	1389866	3187	C/T	1063	GGC/AGC	G/S	Rv1248c	.	nonsyn	essential	no
lineage1	1397215	2026	C/G	676	GGC/CGC	G/R	Rv1251c	.	nonsyn	nonessential	no
lineage1	1417019	329	C/T	110	TGC/TAC	C/Y	Rv1267c	embR	nonsyn	nonessential	no
lineage1	1417793	564	G/A	188	ACC/ACT	T/T	Rv1268c	.	syn	nonessential	no
lineage1	1426928	765	C/T	255	TTC/TTT	F/F	Rv1277	.	syn	nonessential	no
lineage1	1443354	588	C/T	196	GCC/GCT	A/A	Rv1289	.	syn	nonessential	no
lineage1	1445977	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	1481602	900	T/G	300	CGA/CGC	R/R	Rv1319c	.	syn	nonessential	no
lineage1	1514010	964	G/T	322	GTC/TTC	V/F	Rv1348	irtA	nonsyn	essential	no
lineage1	1521526	351	T/C	117	GAA/GAG	E/E	Rv1354c	.	syn	nonessential	no
lineage1	1522862	1171	C/T	391	GTT/ATT	V/I	Rv1355c	moeY	nonsyn	nonessential	no
lineage1	1525160	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	1534548	63	G/A	21	ATC/ATT	I/I	Rv1362c	.	syn	nonessential	no
lineage1	1535643	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	1560912	468	G/A	156	GAG/GAA	E/E	Rv1385	pyrF	syn	nonessential	no
lineage1	1563686	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1	1568178	1410	C/T	470	CCG/CCA	P/P	Rv1393c	.	syn	nonessential	no
lineage1	1575793	17	A/G	6	GTC/GCC	V/A	Rv1399c	nlhH	nonsyn	nonessential	no
lineage1	1580181	242	G/A	81	CCC/CTC	P/L	Rv1403c	.	nonsyn	nonessential	no
lineage1	1581377	593	C/T	198	GGC/GAC	G/D	Rv1405c	.	nonsyn	essential	no
lineage1	1589739	354	C/T	118	GGC/GGT	G/G	Rv1413	.	syn	nonessential	no
lineage1	1590555	159	C/T	53	ACC/ACT	T/T	Rv1415	ribA2	syn	essential	yes
lineage1	1601528	794	C/T	265	TGC/TAC	C/Y	Rv1426c	lipO	nonsyn	nonessential	no
lineage1	1604290	470	A/T	157	GTC/GAC	V/D	Rv1428c	.	nonsyn	nonessential	no
lineage1	1616831	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1	1617833	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	1625259	107	A/C	36	ATC/AGC	I/S	Rv1446c	opcA	nonsyn	essential	no
lineage1	1647830	842	G/A	281	GGC/GAC	G/D	Rv1461	.	nonsyn	ND	no
lineage1	1658535	1573	G/T	525	GTT/TTT	V/F	Rv1469	ctpD	nonsyn	essential	no
lineage1	1659902	140	T/C	47	GTC/GCC	V/A	Rv1472	echA12	nonsyn	nonessential	no
lineage1	1691520	671	T/G	224	CTA/CGA	L/R	Rv1500	.	nonsyn	nonessential	no
lineage1	1718444	792	T/C	264	CGT/CGC	R/R	Rv1523	.	syn	nonessential	no
lineage1	1721490	571	C/G	191	GCG/CCG	A/P	Rv1526c	.	nonsyn	nonessential	no
lineage1	1728615	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1	1731563	191	A/T	64	CAC/CTC	H/L	Rv1530	adh	nonsyn	nonessential	no
lineage1	1735903	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1	1739390	2872	A/G	958	ACT/GCT	T/A	Rv1536	ileS	nonsyn	nonessential	no
lineage1	1745446	383	T/A	128	CTC/CAC	L/H	Rv1543	.	nonsyn	nonessential	no
lineage1	1754299	584	A/C	195	GAG/GCG	E/A	Rv1550	fadD11	nonsyn	nonessential	no
lineage1	1754983	1268	C/T	423	GCG/GTG	A/V	Rv1550	fadD11	nonsyn	nonessential	no
lineage1	1758790	1110	C/T	370	CCC/CCT	P/P	Rv1552	frdA	syn	nonessential	no
lineage1	1791823	254	T/C	85	TTG/TCG	L/S	Rv1591	.	nonsyn	nonessential	no
lineage1	1826343	243	C/T	81	CGG/CGA	R/R	Rv1624c	.	syn	nonessential	no
lineage1	1826624	1322	G/A	441	GCA/GTA	A/V	Rv1625c	cya	nonsyn	nonessential	no
lineage1	1827553	393	C/G	131	TTG/TTC	L/F	Rv1625c	cya	nonsyn	nonessential	no
lineage1	1829576	498	C/T	166	GAG/GAA	E/E	Rv1627c	.	syn	nonessential	no
lineage1	1832642	1978	G/T	660	GGC/TGC	G/C	Rv1629	polA	nonsyn	essential	no
lineage1	1832643	1979	G/C	660	GGC/GCC	G/A	Rv1629	polA	nonsyn	essential	no
lineage1	1839329	162	G/A	54	CGG/CGA	R/R	Rv1634	.	syn	nonessential	no
lineage1	1848147	312	C/A	104	GTG/GTT	V/V	Rv1639c	.	syn	nonessential	no
lineage1	1849191	2845	T/C	949	ATT/GTT	I/V	Rv1640c	lysX	nonsyn	essential	no
lineage1	1853974	369	C/T	123	GGC/GGT	G/G	Rv1644	tsnR	syn	nonessential	no
lineage1	1859989	232	C/T	78	CGG/TGG	R/W	Rv1650	pheT	nonsyn	essential	no
lineage1	1863660	1723	C/T	575	GGC/AGC	G/S	Rv1651c	PE_PGRS30	nonsyn	ND	no
lineage1	1873954	1316	G/T	439	CGC/CTC	R/L	Rv1659	argH	nonsyn	essential	no
lineage1	1876739	1436	T/G	479	GTG/GGG	V/G	Rv1661	pks7	nonsyn	essential	no
lineage1	1886263	4560	C/G	1520	CAC/CAG	H/Q	Rv1662	pks8	nonsyn	essential	no
lineage1	1887284	773	G/A	258	CGG/CAG	R/Q	Rv1663	pks17	nonsyn	essential	no
lineage1	1897646	562	G/C	188	CCT/GCT	P/A	Rv1672c	.	nonsyn	nonessential	no
lineage1	1902156	409	G/A	137	GGG/AGG	G/R	Rv1677	dsbF	nonsyn	nonessential	no
lineage1	1907177	775	C/T	259	CGG/TGG	R/W	Rv1682	.	nonsyn	nonessential	no
lineage1	1923985	157	G/A	53	GTC/ATC	V/I	Rv1699	pyrG	nonsyn	essential	no
lineage1	1940307	20	G/T	7	TGG/TTG	W/L	Rv1713	engA	nonsyn	essential	no
lineage1	1956930	316	T/G	106	ACT/CCT	T/P	Rv1730c	.	nonsyn	essential	no
lineage1	1963383	804	G/A	268	TAC/TAT	Y/Y	Rv1736c	narX	syn	nonessential	no
lineage1	1978807	761	G/T	254	GCC/GAC	A/D	Rv1750c	fadD1	nonsyn	nonessential	no
lineage1	1979026	542	C/T	181	AGC/AAC	S/N	Rv1750c	fadD1	nonsyn	nonessential	no
lineage1	1989370	329	C/T	110	CCC/CTC	P/L	Rv1758	cut1	nonsyn	nonessential	no
lineage1	2013943	537	G/C	179	GAC/GAG	D/E	Rv1779c	.	nonsyn	nonessential	no
lineage1	2017560	.	A/T	.	./.	./.	.	.	inter	.	no
lineage1	2023211	3955	G/T	1319	GTC/TTC	V/F	Rv1783	eccC5	nonsyn	nonessential	no
lineage1	2028967	543	A/C	181	GCA/GCC	A/A	Rv1790	PPE27	syn	ND	no
lineage1	2035937	455	G/A	152	CGC/CAC	R/H	Rv1797	eccE5	nonsyn	nonessential	no
lineage1	2045849	994	C/T	332	GCG/ACG	A/T	Rv1803c	PE_PGRS32	nonsyn	ND	no
lineage1	2066471	15	T/C	5	GGT/GGC	G/G	Rv1821	secA2	syn	essential	no
lineage1	2083124	1513	T/C	505	AGC/GGC	S/G	Rv1836c	.	nonsyn	nonessential	no
lineage1	2090306	413	G/A	138	CCG/CTG	P/L	Rv1841c	.	nonsyn	nonessential	no
lineage1	2092391	1308	G/T	436	ATC/ATA	I/I	Rv1843c	guaB1	syn	nonessential	no
lineage1	2092970	729	C/T	243	CTG/CTA	L/L	Rv1843c	guaB1	syn	nonessential	no
lineage1	2096094	75	C/T	25	ACG/ACA	T/T	Rv1845c	blaR	syn	nonessential	no
lineage1	2096430	170	A/C	57	CTC/CGC	L/R	Rv1846c	blaI	nonsyn	nonessential	no
lineage1	2104779	45	C/T	15	GGG/GGA	G/G	Rv1856c	.	syn	nonessential	no
lineage1	2132062	268	C/A	90	GGG/TGG	G/W	Rv1881c	lppE	nonsyn	nonessential	no
lineage1	2138767	251	G/C	84	GCC/GGC	A/G	Rv1889c	.	nonsyn	nonessential	no
lineage1	2165256	2056	T/G	686	AGC/CGC	S/R	Rv1917c	PPE34	nonsyn	ND	no
lineage1	2177968	882	G/T	294	GCG/GCT	A/A	Rv1925	fadD31	syn	nonessential	no
lineage1	2185358	831	G/A	277	ACC/ACT	T/T	Rv1934c	fadE17	syn	nonessential	no
lineage1	2216370	1114	G/C	372	GGC/CGC	G/R	Rv1971	mce3F	nonsyn	nonessential	no
lineage1	2218488	437	G/C	146	AGC/ACC	S/T	Rv1975	.	nonsyn	nonessential	no
lineage1	2237497	79	G/C	27	CTG/GTG	L/V	Rv1993c	.	nonsyn	nonessential	no
lineage1	2238930	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1	2239055	52	C/T	18	CCC/TCC	P/S	Rv1996	.	nonsyn	nonessential	no
lineage1	2240062	.	C/G	.	./.	./.	.	.	inter	.	no
lineage1	2241646	1488	C/T	496	GCC/GCT	A/A	Rv1997	ctpF	syn	nonessential	no
lineage1	2242808	2650	G/A	884	GCG/ACG	A/T	Rv1997	ctpF	nonsyn	nonessential	no
lineage1	2249035	386	A/G	129	ATG/ACG	M/T	Rv2003c	.	nonsyn	nonessential	no
lineage1	2255942	3941	G/T	1314	CGG/CTG	R/L	Rv2006	otsB1	nonsyn	nonessential	no
lineage1	2297766	9221	G/A	3074	GCC/GTC	A/V	Rv2048c	pks12	nonsyn	essential	no
lineage1	2309356	1400	G/A	467	ACT/ATT	T/I	Rv2051c	ppm1	nonsyn	nonessential	no
lineage1	2321358	302	G/C	101	CGC/CCC	R/P	Rv2063A	mazF7	nonsyn	nonessential	no
lineage1	2331255	263	C/T	88	GCG/GTG	A/V	Rv2074	.	nonsyn	nonessential	no
lineage1	2335500	146	C/G	49	GCC/GGC	A/G	Rv2079	.	nonsyn	nonessential	no
lineage1	2348482	1110	G/T	370	GAG/GAT	E/D	Rv2090	.	nonsyn	nonessential	no
lineage1	2374442	609	G/A	203	TCG/TCA	S/S	Rv2114	.	syn	nonessential	no
lineage1	2397760	431	C/G	144	GCA/GGA	A/G	Rv2138	lppL	nonsyn	essential	no
lineage1	2400031	298	G/A	100	CGC/TGC	R/C	Rv2140c	TB18.6	nonsyn	nonessential	no
lineage1	2425097	1991	A/C	664	GTC/GGC	V/G	Rv2163c	pbpB	nonsyn	essential	no
lineage1	2448288	129	G/A	43	TGG/TGA	W/*	Rv2187	fadD15	nonsyn	nonessential	no
lineage1	2450045	1106	G/A	369	ACG/ATG	T/M	Rv2188c	pimB	nonsyn	essential	no
lineage1	2451081	70	C/G	24	GAG/CAG	E/Q	Rv2188c	pimB	nonsyn	essential	no
lineage1	2470485	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1	2500892	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	2503549	1060	C/A	354	GCG/TCG	A/S	Rv2230c	.	nonsyn	nonessential	no
lineage1	2508395	759	G/A	253	CCG/CCA	P/P	Rv2235	.	syn	essential	no
lineage1	2509181	195	C/G	65	GTG/GTC	V/V	Rv2236c	cobD	syn	nonessential	no
lineage1	2528931	45	G/A	15	AAC/AAT	N/N	Rv2254c	.	syn	nonessential	no
lineage1	2530434	389	G/T	130	CCC/CAC	P/H	Rv2257c	.	nonsyn	nonessential	no
lineage1	2538793	94	G/A	32	GGC/AGC	G/S	Rv2265	.	nonsyn	nonessential	no
lineage1	2544979	282	T/A	94	CAT/CAA	H/Q	Rv2270	lppN	nonsyn	nonessential	no
lineage1	2547274	392	A/G	131	GAT/GGT	D/G	Rv2275	.	nonsyn	essential	no
lineage1	2553682	510	C/T	170	TAC/TAT	Y/Y	Rv2281	pitB	syn	nonessential	no
lineage1	2569593	512	A/G	171	CAT/CGT	H/R	Rv2298	.	nonsyn	nonessential	no
lineage1	2573434	420	G/T	140	TGG/TGT	W/C	Rv2301	cut2	nonsyn	nonessential	no
lineage1	2574598	422	C/T	141	AGC/AAC	S/N	Rv2303c	.	nonsyn	nonessential	no
lineage1	2582324	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	2602575	887	G/A	296	CCG/CTG	P/L	Rv2329c	narK1	nonsyn	nonessential	no
lineage1	2611704	868	A/C	290	AGA/CGA	R/R	Rv2336	.	syn	nonessential	no
lineage1	2622508	1245	C/T	415	TTG/TTA	L/L	Rv2344c	dgt	syn	nonessential	no
lineage1	2637088	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	2643653	606	G/A	202	GGC/GGT	G/G	Rv2362c	recO	syn	nonessential	no
lineage1	2652908	1080	C/G	360	GAG/GAC	E/D	Rv2373c	dnaJ2	nonsyn	essential	no
lineage1	2663210	3906	G/A	1302	GCC/GCT	A/A	Rv2380c	mbtE	syn	nonessential	no
lineage1	2688225	216	G/C	72	ATG/ATC	M/I	Rv2394	ggtB	nonsyn	nonessential	no
lineage1	2696977	738	G/C	246	GCC/GCG	A/A	Rv2400c	subI	syn	essential	yes
lineage1	2704291	147	G/A	49	ATC/ATT	I/I	Rv2406c	.	syn	nonessential	no
lineage1	2726051	37	G/A	13	CTT/TTT	L/F	Rv2427A	oxyR'	nonsyn	nonessential	no
lineage1	2727037	232	A/T	78	ATG/TTG	M/L	Rv2429	ahpD	nonsyn	nonessential	no
lineage1	2731741	1009	G/A	337	CTG/TTG	L/L	Rv2435c	.	syn	nonessential	no
lineage1	2745739	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	2745839	300	G/A	100	GCC/GCT	A/A	Rv2446c	.	syn	nonessential	no
lineage1	2755112	1593	G/A	531	ATC/ATT	I/I	Rv2455c	.	syn	nonessential	no
lineage1	2759534	.	C/G	.	./.	./.	.	.	inter	.	no
lineage1	2764206	1086	A/G	362	GAT/GAC	D/D	Rv2462c	tig	syn	nonessential	no
lineage1	2773955	392	G/C	131	AGT/ACT	S/T	Rv2471	aglA	nonsyn	nonessential	no
lineage1	2791257	1238	A/T	413	ATT/AAT	I/N	Rv2484c	.	nonsyn	nonessential	no
lineage1	2809895	45	G/A	15	CTC/CTT	L/L	Rv2495c	bkdC	syn	nonessential	no
lineage1	2817158	1317	C/A	439	ATG/ATT	M/I	Rv2502c	accD1	nonsyn	essential	no
lineage1	2824432	162	G/A	54	ACC/ACT	T/T	Rv2508c	.	syn	nonessential	no
lineage1	2828104	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	2869242	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1	2881244	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1	2894594	83	G/A	28	GGC/GAC	G/D	Rv2570	.	nonsyn	nonessential	no
lineage1	2894642	131	A/G	44	GAA/GGA	E/G	Rv2570	.	nonsyn	nonessential	no
lineage1	2897528	276	G/A	92	GCC/GCT	A/A	Rv2572c	aspS	syn	nonessential	no
lineage1	2899890	552	G/T	184	CAG/CAT	Q/H	Rv2575	.	nonsyn	nonessential	no
lineage1	2925683	192	G/A	64	CTG/CTA	L/L	Rv2595	vapB40	syn	nonessential	no
lineage1	2926882	528	C/T	176	CGC/CGT	R/R	Rv2597	.	syn	nonessential	no
lineage1	2940608	5	C/T	2	AGC/AAC	S/N	Rv2612c	pgsA1	nonsyn	essential	no
lineage1	2948650	15	T/C	5	CGT/CGC	R/R	Rv2622	.	syn	nonessential	no
lineage1	2961099	1343	G/A	448	GCC/GTC	A/V	Rv2634c	PE_PGRS46	nonsyn	ND	no
lineage1	2987918	237	G/A	79	CGG/CGA	R/R	Rv2672	.	syn	nonessential	no
lineage1	2992564	65	G/A	22	TCG/TTG	S/L	Rv2676c	.	nonsyn	nonessential	no
lineage1	2993523	470	T/C	157	CAA/CGA	Q/R	Rv2677c	hemY	nonsyn	nonessential	no
lineage1	3015379	177	G/A	59	CCG/CCA	P/P	Rv2700	.	syn	essential	no
lineage1	3025431	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	3031285	253	A/T	85	TTG/ATG	L/M	Rv2719c	.	nonsyn	nonessential	no
lineage1	3053973	60	C/T	20	AGC/AGT	S/S	Rv2741	PE_PGRS47	syn	ND	no
lineage1	3074830	195	C/T	65	TAC/TAT	Y/Y	Rv2765	.	syn	nonessential	no
lineage1	3080282	176	C/A	59	GGT/GTT	G/V	Rv2770c	PPE44	nonsyn	ND	no
lineage1	3086261	494	T/C	165	CAG/CGG	Q/R	Rv2779c	.	nonsyn	nonessential	no
lineage1	3097349	391	C/T	131	CAG/TAG	Q/*	Rv2788	sirR	nonsyn	nonessential	no
lineage1	3114814	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	3137681	411	G/A	137	GTG/GTA	V/V	Rv2831	echA16	syn	nonessential	no
lineage1	3169993	731	A/G	244	CTG/CCG	L/P	Rv2858c	aldC	nonsyn	nonessential	no
lineage1	3188428	444	C/T	148	CCG/CCA	P/P	Rv2877c	.	syn	nonessential	no
lineage1	3190342	337	G/A	113	CCG/TCG	P/S	Rv2880c	.	nonsyn	nonessential	no
lineage1	3197917	369	G/A	123	GGC/GGT	G/G	Rv2888c	amiC	syn	nonessential	no
lineage1	3202629	210	C/T	70	CAC/CAT	H/H	Rv2893	.	syn	nonessential	no
lineage1	3214481	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1	3229692	989	G/A	330	GCC/GTC	A/V	Rv2918c	glnD	nonsyn	nonessential	no
lineage1	3233605	535	G/A	179	CTG/TTG	L/L	Rv2921c	ftsY	syn	essential	no
lineage1	3241244	716	G/A	239	ACT/ATT	T/I	Rv2927c	.	nonsyn	essential	no
lineage1	3247089	1645	G/A	549	GGC/AGC	G/S	Rv2931	ppsA	nonsyn	nonessential	no
lineage1	3254758	3687	A/C	1229	CCA/CCC	P/P	Rv2932	ppsB	syn	nonessential	no
lineage1	3274545	474	G/A	158	CTG/CTA	L/L	Rv2938	drrC	syn	essential	yes
lineage1	3280132	2584	G/A	862	CGG/TGG	R/W	Rv2940c	mas	nonsyn	nonessential	no
lineage1	3293423	2931	A/G	977	GAT/GAC	D/D	Rv2946c	pks1	syn	nonessential	no
lineage1	3293601	2753	T/C	918	CAG/CGG	Q/R	Rv2946c	pks1	nonsyn	nonessential	no
lineage1	3295124	1230	C/T	410	CGG/CGA	R/R	Rv2946c	pks1	syn	nonessential	no
lineage1	3299413	542	G/A	181	GCC/GTC	A/V	Rv2948c	fadD22	nonsyn	nonessential	no
lineage1	3306594	.	T/G	.	./.	./.	.	.	inter	.	no
lineage1	3308446	100	T/C	34	ACT/GCT	T/A	Rv2955c	.	nonsyn	nonessential	no
lineage1	3312942	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	3326150	50	A/G	17	GAC/GGC	D/G	Rv2971	.	nonsyn	essential	no
lineage1	3351472	204	G/A	68	TGG/TGA	W/*	Rv2994	.	nonsyn	nonessential	no
lineage1	3365841	610	G/A	204	CCC/TCC	P/S	Rv3007c	.	nonsyn	nonessential	no
lineage1	3378828	174	C/A	58	TGG/TGT	W/C	Rv3019c	esxR	nonsyn	ND	no
lineage1	3401850	69	G/A	23	GAC/GAT	D/D	Rv3041c	.	syn	nonessential	no
lineage1	3406798	514	G/A	172	GCC/ACC	A/T	Rv3045	adhC	nonsyn	nonessential	no
lineage1	3407028	744	C/T	248	AAC/AAT	N/N	Rv3045	adhC	syn	nonessential	no
lineage1	3424462	966	C/T	322	CTG/CTA	L/L	Rv3061c	fadE22	syn	essential	yes
lineage1	3427632	390	C/T	130	GCC/GCT	A/A	Rv3063	cstA	syn	nonessential	no
lineage1	3431407	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1	3442240	358	C/A	120	GAA/TAA	E/*	Rv3079c	.	nonsyn	nonessential	no
lineage1	3447480	947	A/C	316	CTC/CGC	L/R	Rv3082c	virS	nonsyn	nonessential	no
lineage1	3448714	211	G/C	71	GAC/CAC	D/H	Rv3083	.	nonsyn	nonessential	no
lineage1	3453382	458	C/T	153	GCG/GTG	A/V	Rv3087	.	nonsyn	essential	no
lineage1	3460765	1650	G/C	550	CCG/CCC	P/P	Rv3091	.	syn	nonessential	no
lineage1	3474597	591	C/A	197	GTC/GTA	V/V	Rv3106	fprA	syn	ND	no
lineage1	3479561	391	G/A	131	GAC/AAC	D/N	Rv3111	moaC1	nonsyn	essential	no
lineage1	3497586	1680	C/G	560	GCG/GCC	A/A	Rv3132c	devS	syn	essential	no
lineage1	3526986	1197	A/T	399	GCA/GCT	A/A	Rv3158	nuoN	syn	nonessential	no
lineage1	3530145	994	C/A	332	GAC/TAC	D/Y	Rv3161c	.	nonsyn	nonessential	no
lineage1	3533759	147	G/A	49	CCC/CCT	P/P	Rv3164c	moxR3	syn	nonessential	no
lineage1	3536008	50	G/T	17	CCG/CAG	P/Q	Rv3167c	.	nonsyn	nonessential	no
lineage1	3557634	712	G/A	238	CCG/TCG	P/S	Rv3191c	.	nonsyn	ND	no
lineage1	3597682	85	C/T	29	GTC/ATC	V/I	Rv3221c	TB7.3	nonsyn	nonessential	no
lineage1	3647591	219	A/G	73	AAT/AAC	N/N	Rv3266c	rmlD	syn	nonessential	no
lineage1	3661802	211	C/T	71	GGC/AGC	G/S	Rv3279c	birA	nonsyn	nonessential	no
lineage1	3670118	294	G/T	98	GGC/GGA	G/G	Rv3289c	.	syn	nonessential	no
lineage1	3671532	263	G/C	88	GCC/GGC	A/G	Rv3290c	lat	nonsyn	nonessential	no
lineage1	3671843	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1	3672105	193	G/C	65	CAT/GAT	H/D	Rv3291c	lrpA	nonsyn	nonessential	no
lineage1	3678091	1317	G/A	439	CCG/CCA	P/P	Rv3296	lhr	syn	ND	no
lineage1	3683237	2727	G/T	909	GCC/GCA	A/A	Rv3299c	atsB	syn	nonessential	no
lineage1	3683715	2249	T/G	750	CAG/CCG	Q/P	Rv3299c	atsB	nonsyn	nonessential	no
lineage1	3687372	206	A/G	69	TTG/TCG	L/S	Rv3301c	phoY1	nonsyn	nonessential	no
lineage1	3704261	160	C/A	54	CTA/ATA	L/I	Rv3316	sdhC	nonsyn	nonessential	no
lineage1	3745483	7702	C/A	2568	GTG/TTG	V/L	Rv3347c	PPE55	nonsyn	ND	no
lineage1	3746845	6340	T/C	2114	ATC/GTC	I/V	Rv3347c	PPE55	nonsyn	ND	no
lineage1	3746854	6331	T/C	2111	ACC/GCC	T/A	Rv3347c	PPE55	nonsyn	ND	no
lineage1	3763539	3564	C/T	1188	GAG/GAA	E/E	Rv3350c	PPE56	syn	ND	no
lineage1	3770325	325	C/T	109	GCG/ACG	A/T	Rv3356c	folD	nonsyn	essential	no
lineage1	3774506	369	G/A	123	GGC/GGT	G/G	Rv3364c	.	syn	nonessential	no
lineage1	3793634	1234	A/G	412	TGC/CGC	C/R	Rv3379c	dxs2	nonsyn	nonessential	no
lineage1	3830566	954	G/A	318	TCC/TCT	S/S	Rv3411c	guaB2	syn	essential	no
lineage1	3847351	187	A/T	63	ATG/TTG	M/L	Rv3429	PPE59	nonsyn	ND	no
lineage1	3847562	398	G/A	133	GGA/GAA	G/E	Rv3429	PPE59	nonsyn	ND	no
lineage1	3847563	399	A/C	133	GGA/GGC	G/G	Rv3429	PPE59	syn	ND	no
lineage1	3847578	414	T/C	138	TAT/TAC	Y/Y	Rv3429	PPE59	syn	ND	no
lineage1	3847581	417	G/C	139	CAG/CAC	Q/H	Rv3429	PPE59	nonsyn	ND	no
lineage1	3851084	671	A/G	224	ATC/ACC	I/T	Rv3432c	gadB	nonsyn	nonessential	no
lineage1	3854899	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1	3861914	37	C/T	13	GCC/ACC	A/T	Rv3442c	rpsI	nonsyn	nonessential	no
lineage1	3864041	491	G/A	164	GCG/GTG	A/V	Rv3446c	.	nonsyn	nonessential	no
lineage1	3868738	387	C/A	129	ATC/ATA	I/I	Rv3448	eccD4	syn	nonessential	no
lineage1	3876953	480	G/A	160	GTC/GTT	V/V	Rv3456c	rplQ	syn	nonessential	no
lineage1	3883467	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1	3899654	749	C/A	250	CGC/CTC	R/L	Rv3480c	.	nonsyn	nonessential	no
lineage1	3913737	798	G/A	266	GCC/GCT	A/A	Rv3495c	lprN	syn	essential	yes
lineage1	3920109	753	G/T	251	ATC/ATA	I/I	Rv3501c	yrbE4A	syn	essential	yes
lineage1	3921094	947	C/T	316	CGT/CAT	R/H	Rv3502c	.	nonsyn	essential	no
lineage1	3958007	487	C/T	163	CAC/TAC	H/Y	Rv3521	.	nonsyn	nonessential	no
lineage1	3970112	770	C/T	257	ACG/ATG	T/M	Rv3532	PPE61	nonsyn	ND	no
lineage1	3974142	359	G/A	120	CCG/CTG	P/L	Rv3535c	hsaG	nonsyn	nonessential	no
lineage1	3979151	1093	T/A	365	TAT/AAT	Y/N	Rv3539	PPE63	nonsyn	ND	no
lineage1	3984926	520	G/A	174	CTG/TTG	L/L	Rv3545c	cyp125	syn	essential	yes
lineage1	3989107	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	3998895	916	G/A	306	GGC/AGC	G/S	Rv3558	PPE64	nonsyn	ND	no
lineage1	4003645	485	C/T	162	GCG/GTG	A/V	Rv3562	fadE31	nonsyn	nonessential	no
lineage1	4013076	660	G/A	220	GGG/GGA	G/G	Rv3571	kshB	syn	nonessential	no
lineage1	4014431	1782	C/T	594	CCG/CCA	P/P	Rv3573c	fadE34	syn	nonessential	no
lineage1	4019103	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1	4022652	1152	G/A	384	AGC/AGT	S/S	Rv3580c	cysS1	syn	essential	no
lineage1	4024079	269	T/C	90	CAG/CGG	Q/R	Rv3581c	ispF	nonsyn	essential	no
lineage1	4026800	357	G/C	119	GCG/GCC	A/A	Rv3585	radA	syn	nonessential	no
lineage1	4040517	188	A/G	63	GTC/GCC	V/A	Rv3596c	clpC1	nonsyn	essential	no
lineage1	4057081	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1	4058711	14	T/C	5	TTG/TCG	L/S	Rv3618	.	nonsyn	nonessential	no
lineage1	4069797	623	C/T	208	TCG/TTG	S/L	Rv3630	.	nonsyn	nonessential	no
lineage1	4077177	194	G/A	65	GGC/GAC	G/D	Rv3638	.	nonsyn	ND	no
lineage1	4081987	735	G/C	245	GCC/GCG	A/A	Rv3644c	.	syn	nonessential	no
lineage1	4081996	726	G/C	242	CCC/CCG	P/P	Rv3644c	.	syn	nonessential	no
lineage1	4083360	554	T/G	185	ATC/AGC	I/S	Rv3645	.	nonsyn	nonessential	no
lineage1	4085200	2058	G/C	686	GAC/GAG	D/E	Rv3646c	topA	nonsyn	essential	no
lineage1	4093719	88	G/A	30	GCG/ACG	A/T	Rv3652	PE_PGRS60	nonsyn	ND	no
lineage1	4096190	750	G/A	250	GCC/GCT	A/A	Rv3658c	.	syn	essential	no
lineage1	4101018	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1	4106154	931	C/T	311	GAG/AAG	E/K	Rv3666c	dppA	nonsyn	essential	no
lineage1	4115029	129	G/A	43	GAC/GAT	D/D	Rv3673c	.	syn	nonessential	no
lineage1	4126087	649	T/G	217	TCC/GCC	S/A	Rv3684	.	nonsyn	nonessential	no
lineage1	4133907	392	G/A	131	CGC/CAC	R/H	Rv3692	moxR2	nonsyn	nonessential	no
lineage1	4137190	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1	4142689	646	G/A	216	GAG/AAG	E/K	Rv3699	.	nonsyn	nonessential	no
lineage1	4155266	1527	C/G	509	GGC/GGG	G/G	Rv3710	leuA	syn	essential	no
lineage1	4163558	1253	G/C	418	AGT/ACT	S/T	Rv3719	.	nonsyn	nonessential	no
lineage1	4169719	114	C/T	38	GCC/GCT	A/A	Rv3724B	cut5b	syn	nonessential	no
lineage1	4187063	430	G/A	144	GGG/AGG	G/R	Rv3736	.	nonsyn	nonessential	no
lineage1	4189721	512	G/T	171	ACC/AAC	T/N	Rv3738c	PPE66	nonsyn	ND	no
lineage1	4190596	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1	4201105	685	G/A	229	GAC/AAC	D/N	Rv3754	tyrA	nonsyn	nonessential	no
lineage1	4241042	1180	A/G	394	AAC/GAC	N/D	Rv3793	embC	nonsyn	essential	no
lineage1	4245969	2737	C/T	913	CCG/TCG	P/S	Rv3794	embA	nonsyn	essential	no
lineage1	4254347	.	T/A	.	./.	./.	.	.	inter	.	no
lineage1	4275935	1138	A/G	380	ATG/GTG	M/V	Rv3811	.	nonsyn	nonessential	no
lineage1	4276306	1509	C/T	503	GGC/GGT	G/G	Rv3811	.	syn	nonessential	no
lineage1	4277032	462	G/C	154	CAG/CAC	Q/H	Rv3812	PE_PGRS62	nonsyn	ND	no
lineage1	4280441	348	C/A	116	CCG/CCT	P/P	Rv3815c	.	syn	nonessential	no
lineage1	4281143	429	C/G	143	GTG/GTC	V/V	Rv3816c	.	syn	nonessential	no
lineage1	4281272	300	G/A	100	TAC/TAT	Y/Y	Rv3816c	.	syn	nonessential	no
lineage1	4296381	3225	G/T	1075	ACC/ACA	T/T	Rv3825c	pks2	syn	nonessential	no
lineage1	4303407	1602	A/C	534	AGT/AGG	S/R	Rv3829c	.	nonsyn	nonessential	no
lineage1	4306339	473	G/T	158	GCG/GAG	A/E	Rv3832c	.	nonsyn	nonessential	no
lineage1	4307344	478	C/G	160	CTG/GTG	L/V	Rv3833	.	nonsyn	nonessential	no
lineage1	4314843	720	G/A	240	GAC/GAT	D/D	Rv3842c	glpQ1	syn	nonessential	no
lineage1	4337574	798	A/G	266	GAA/GAG	E/E	Rv3860	.	syn	nonessential	no
lineage1	4338603	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1	4344058	745	T/C	249	TCC/CCC	S/P	Rv3868	eccA1	nonsyn	essential	no
lineage1	4351759	685	G/C	229	GTG/CTG	V/L	Rv3873	PPE68	nonsyn	ND	no
lineage1	4357773	2010	G/A	670	ACC/ACT	T/T	Rv3879c	espK	syn	ND	no
lineage1	4357946	1837	C/T	613	GGC/AGC	G/S	Rv3879c	espK	nonsyn	ND	no
lineage1	4369499	672	G/A	224	CCC/CCT	P/P	Rv3886c	mycP2	syn	nonessential	no
lineage1	4375318	366	G/A	122	GAC/GAT	D/D	Rv3892c	PPE69	syn	ND	no
lineage1	4383442	199	T/C	67	ATC/GTC	I/V	Rv3897c	.	nonsyn	nonessential	no
lineage1	4390380	53	A/G	18	GTG/GCG	V/A	Rv3903c	.	nonsyn	nonessential	no
lineage1	4398732	2136	G/A	712	CTG/CTA	L/L	Rv3910	.	syn	essential	no
lineage1	4401400	531	A/G	177	CCA/CCG	P/P	Rv3912	.	syn	nonessential	no
lineage1	4407873	330	C/A	110	GTG/GTT	V/V	Rv3919c	gid	syn	nonessential	no
lineage1	4410386	30	G/T	10	CGC/CGA	R/R	Rv3922c	.	syn	nonessential	no
lineage1	4411016	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1	84528	533	T/G	178	TTC/TGC	F/C	Rv0075	.	nonsyn	nonessential	no
lineage1.1	117295	7295	G/A	2432	AGC/AAC	S/N	Rv0101	nrp	nonsyn	essential	no
lineage1.1	177150	.	G/C	.	./.	./.	.	.	inter	.	no
lineage1.1	281208	1407	C/T	469	CCG/CCA	P/P	Rv0235c	.	syn	nonessential	no
lineage1.1	406389	2060	G/A	687	GCG/GTG	A/V	Rv0339c	.	nonsyn	nonessential	no
lineage1.1	423334	883	G/A	295	GAC/AAC	D/N	Rv0352	dnaJ1	nonsyn	essential	no
lineage1.1	705570	340	C/T	114	GTT/ATT	V/I	Rv0610c	.	nonsyn	nonessential	no
lineage1.1	765171	1802	C/T	601	CCG/CTG	P/L	Rv0668	rpoC	nonsyn	essential	no
lineage1.1	1545119	295	C/T	99	CCT/TCT	P/S	Rv1372	.	nonsyn	nonessential	no
lineage1.1	1619317	368	C/G	123	GGC/GCC	G/A	Rv1441c	PE_PGRS26	nonsyn	ND	no
lineage1.1	1814135	965	A/G	322	GAA/GGA	E/G	Rv1614	lgt	nonsyn	essential	no
lineage1.1	1839306	139	A/G	47	ATC/GTC	I/V	Rv1634	.	nonsyn	nonessential	no
lineage1.1	1854045	440	A/G	147	TAC/TGC	Y/C	Rv1644	tsnR	nonsyn	nonessential	no
lineage1.1	1943723	148	C/T	50	CTG/TTG	L/L	Rv1716	.	syn	nonessential	no
lineage1.1	2083610	1027	G/C	343	CTC/GTC	L/V	Rv1836c	.	nonsyn	nonessential	no
lineage1.1	2120953	478	C/G	160	GAG/CAG	E/Q	Rv1870c	.	nonsyn	nonessential	no
lineage1.1	2122826	326	G/A	109	ACC/ATC	T/I	Rv1872c	lldD2	nonsyn	nonessential	no
lineage1.1	2167983	2630	C/T	877	GGC/GAC	G/D	Rv1918c	PPE35	nonsyn	ND	no
lineage1.1	2342403	596	C/G	199	GCG/GGG	A/G	Rv2084	.	nonsyn	nonessential	no
lineage1.1	2349634	2421	C/T	807	ACG/ACA	T/T	Rv2092c	helY	syn	nonessential	no
lineage1.1	2517610	824	G/A	275	AGC/AAC	S/N	Rv2243	fabD	nonsyn	nonessential	no
lineage1.1	2705561	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1.1	2989683	393	C/T	131	GCC/GCT	A/A	Rv2673	aftC	syn	essential	yes
lineage1.1	3064632	1560	G/A	520	GCC/GCT	A/A	Rv2752c	.	syn	nonessential	no
lineage1.1	3314243	880	G/A	294	CAA/TAA	Q/*	Rv2962c	.	nonsyn	nonessential	no
lineage1.1	3393361	.	C/G	.	./.	./.	.	.	inter	.	no
lineage1.1	3527483	1681	T/C	561	ACC/GCC	T/A	Rv3159c	PPE53	nonsyn	ND	no
lineage1.1	3815268	839	G/A	280	TCG/TTG	S/L	Rv3398c	idsA1	nonsyn	essential	no
lineage1.1	3961802	523	A/G	175	TAG/CAG	*/Q	Rv3525c	.	nonsyn	nonessential	no
lineage1.1	3967223	598	G/A	200	CAT/TAT	H/Y	Rv3530c	.	nonsyn	nonessential	no
lineage1.1	4024967	73	C/G	25	GTG/CTG	V/L	Rv3582c	ispD	nonsyn	essential	no
lineage1.1	4054364	333	C/T	111	CTG/CTA	L/L	Rv3614c	espD	syn	essential	yes
lineage1.1	4243848	616	G/A	206	GTG/ATG	V/M	Rv3794	embA	nonsyn	essential	no
lineage1.1	4286156	184	T/C	62	TTG/CTG	L/L	Rv3821	.	syn	nonessential	no
lineage1.1	4323302	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1.1	4369848	323	G/A	108	CCC/CTC	P/L	Rv3886c	mycP2	nonsyn	nonessential	no
lineage1.1	4385937	372	C/T	124	AAG/AAA	K/K	Rv3900c	.	syn	nonessential	no
lineage1.1	4404247	1056	G/A	352	CTG/CTA	L/L	Rv3915	.	syn	essential	yes
lineage1.1.1	55069	1407	G/C	469	TTG/TTC	L/F	Rv0050	ponA1	nonsyn	nonessential	no
lineage1.1.1	192924	212	C/A	71	CGG/CTG	R/L	Rv0162c	adhE1	nonsyn	nonessential	no
lineage1.1.1	226929	52	C/T	18	CGC/TGC	R/C	Rv0194	.	nonsyn	nonessential	no
lineage1.1.1	278189	291	T/C	97	GAT/GAC	D/D	Rv0232	.	syn	nonessential	no
lineage1.1.1	289300	197	C/T	66	TCC/TTC	S/F	Rv0239	vapB24	nonsyn	nonessential	no
lineage1.1.1	313425	744	G/T	248	ATC/ATA	I/I	Rv0261c	narK3	syn	nonessential	no
lineage1.1.1	485631	1655	C/T	552	CCG/CTG	P/L	Rv0404	fadD30	nonsyn	essential	no
lineage1.1.1	529363	756	C/T	252	GTC/GTT	V/V	Rv0440	groEL2	syn	ND	no
lineage1.1.1	701867	462	C/T	154	GAC/GAT	D/D	Rv0605	.	syn	nonessential	no
lineage1.1.1	869893	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1	870112	105	C/T	35	GCC/GCT	A/A	Rv0777	purB	syn	nonessential	no
lineage1.1.1	972653	1054	G/A	352	CCG/TCG	P/S	Rv0874c	.	nonsyn	nonessential	no
lineage1.1.1	1016131	734	C/A	245	CCG/CAG	P/Q	Rv0911	.	nonsyn	nonessential	no
lineage1.1.1	1023884	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1	1039981	1068	T/C	356	AAA/AAG	K/K	Rv0932c	pstS2	syn	nonessential	no
lineage1.1.1	1131565	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1	1254543	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1.1.1	1261056	291	C/T	97	GGG/GGA	G/G	Rv1133c	metE	syn	essential	yes
lineage1.1.1	1399129	112	C/T	38	GCC/ACC	A/T	Rv1251c	.	nonsyn	nonessential	no
lineage1.1.1	1412686	793	G/A	265	GAC/AAC	D/N	Rv1264	.	nonsyn	nonessential	no
lineage1.1.1	1499293	1267	C/T	423	GGG/AGG	G/R	Rv1330c	pncB1	nonsyn	nonessential	no
lineage1.1.1	1550719	499	C/T	167	GAG/AAG	E/K	Rv1377c	.	nonsyn	nonessential	no
lineage1.1.1	1769780	1822	C/T	608	GAC/AAC	D/N	Rv1564c	treX	nonsyn	nonessential	no
lineage1.1.1	1887313	802	C/T	268	CAG/TAG	Q/*	Rv1663	pks17	nonsyn	essential	no
lineage1.1.1	1924765	937	T/C	313	TTA/CTA	L/L	Rv1699	pyrG	syn	essential	yes
lineage1.1.1	2063106	1623	C/T	541	CTG/CTA	L/L	Rv1819c	bacA	syn	nonessential	no
lineage1.1.1	2078024	2148	G/A	716	CCG/CCA	P/P	Rv1832	gcvB	syn	essential	yes
lineage1.1.1	2118897	1551	C/T	517	GCC/GCT	A/A	Rv1868	.	syn	nonessential	no
lineage1.1.1	2379732	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1.1.1	2468471	241	G/T	81	GTA/TTA	V/L	Rv2203	.	nonsyn	nonessential	no
lineage1.1.1	2677910	182	G/A	61	GGA/GAA	G/E	Rv2385	mbtJ	nonsyn	nonessential	no
lineage1.1.1	2772960	76	G/A	26	CTG/TTG	L/L	Rv2469c	.	syn	nonessential	no
lineage1.1.1	2804817	1420	C/T	474	GGC/AGC	G/S	Rv2490c	PE_PGRS43	nonsyn	ND	no
lineage1.1.1	2907840	2359	T/G	787	ACC/CCC	T/P	Rv2583c	relA	nonsyn	nonessential	no
lineage1.1.1	2960857	1585	C/A	529	GGT/TGT	G/C	Rv2634c	PE_PGRS46	nonsyn	ND	no
lineage1.1.1	3021283	711	G/A	237	CGG/CGA	R/R	Rv2707	.	syn	essential	yes
lineage1.1.1	3030382	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1	3120278	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1	3220545	1154	C/T	385	TGG/TAG	W/*	Rv2913c	.	nonsyn	nonessential	no
lineage1.1.1	3221093	606	C/T	202	GAG/GAA	E/E	Rv2913c	.	syn	nonessential	no
lineage1.1.1	3260430	4746	C/T	1582	ACC/ACT	T/T	Rv2933	ppsC	syn	nonessential	no
lineage1.1.1	3330725	637	C/T	213	GCC/ACC	A/T	Rv2974c	.	nonsyn	nonessential	no
lineage1.1.1	3330952	410	T/G	137	CAG/CCG	Q/P	Rv2974c	.	nonsyn	nonessential	no
lineage1.1.1	3451002	83	A/G	28	GAG/GGG	E/G	Rv3085	.	nonsyn	nonessential	no
lineage1.1.1	3629776	612	A/G	204	CGT/CGC	R/R	Rv3249c	.	syn	nonessential	no
lineage1.1.1	3657710	380	C/G	127	GGG/GCG	G/A	Rv3274c	fadE25	nonsyn	nonessential	no
lineage1.1.1	3683282	2682	C/T	894	GAG/GAA	E/E	Rv3299c	atsB	syn	nonessential	no
lineage1.1.1	3774077	79	T/A	27	ACC/TCC	T/S	Rv3362c	.	nonsyn	nonessential	no
lineage1.1.1	3813364	715	C/T	239	GCG/ACG	A/T	Rv3396c	guaA	nonsyn	essential	no
lineage1.1.1	3883444	.	T/G	.	./.	./.	.	.	inter	.	no
lineage1.1.1	3938875	383	T/C	128	TAC/TGC	Y/C	Rv3510c	.	nonsyn	nonessential	no
lineage1.1.1	4177882	3010	C/A	1004	CTG/ATG	L/M	Rv3728	.	nonsyn	nonessential	no
lineage1.1.1	4182492	735	G/A	245	GCG/GCA	A/A	Rv3731	ligC	syn	nonessential	no
lineage1.1.1	4218940	92	G/T	31	GGG/GTG	G/V	Rv3774	echA21	nonsyn	nonessential	no
lineage1.1.1	4222852	159	G/C	53	CCG/CCC	P/P	Rv3777	.	syn	nonessential	no
lineage1.1.1	4314216	39	G/A	13	GCG/GCA	A/A	Rv3841	bfrB	syn	nonessential	no
lineage1.1.1	4338242	297	G/C	99	CTG/CTC	L/L	Rv3861	.	syn	nonessential	no
lineage1.1.1.1	10986	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	15787	1684	C/G	562	GTC/CTC	V/L	Rv0014c	pknB	nonsyn	essential	no
lineage1.1.1.1	15900	1571	G/A	524	TCG/TTG	S/L	Rv0014c	pknB	nonsyn	essential	no
lineage1.1.1.1	33267	44	G/A	15	AGC/AAC	S/N	Rv0030	.	nonsyn	nonessential	no
lineage1.1.1.1	71203	2584	C/T	862	CAA/TAA	Q/*	Rv0064	.	nonsyn	nonessential	no
lineage1.1.1.1	101179	597	G/A	199	CTG/CTA	L/L	Rv0092	ctpA	syn	nonessential	no
lineage1.1.1.1	120522	1652	C/T	551	GGC/GAC	G/D	Rv0103c	ctpB	nonsyn	nonessential	no
lineage1.1.1.1	171129	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	190207	233	C/G	78	CGG/CCG	R/P	Rv0160c	PE4	nonsyn	ND	no
lineage1.1.1.1	196353	1361	C/T	454	CCC/CTC	P/L	Rv0166	fadD5	nonsyn	nonessential	no
lineage1.1.1.1	259689	777	G/A	259	GCG/GCA	A/A	Rv0216	.	syn	essential	yes
lineage1.1.1.1	308121	1427	C/T	476	CGG/CAG	R/Q	Rv0256c	PPE2	nonsyn	ND	no
lineage1.1.1.1	363883	58	A/G	20	ATC/GTC	I/V	Rv0300	vapB2	nonsyn	nonessential	no
lineage1.1.1.1	370782	1983	G/T	661	GGC/GGA	G/G	Rv0304c	PPE5	syn	ND	no
lineage1.1.1.1	408178	271	C/T	91	GAC/AAC	D/N	Rv0339c	.	nonsyn	nonessential	no
lineage1.1.1.1	432195	2485	T/C	829	ATA/GTA	I/V	Rv0355c	PPE8	nonsyn	ND	no
lineage1.1.1.1	471469	1171	C/T	391	GGG/AGG	G/R	Rv0392c	ndhA	nonsyn	nonessential	no
lineage1.1.1.1	472471	169	G/A	57	CAA/TAA	Q/*	Rv0392c	ndhA	nonsyn	nonessential	no
lineage1.1.1.1	477214	107	G/T	36	CCG/CAG	P/Q	Rv0398c	.	nonsyn	nonessential	no
lineage1.1.1.1	490972	190	C/A	64	CGT/AGT	R/S	Rv0407	fgd1	nonsyn	nonessential	no
lineage1.1.1.1	542977	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	614989	155	A/G	52	GAA/GGA	E/G	Rv0524	hemL	nonsyn	essential	no
lineage1.1.1.1	614990	156	A/C	52	GAA/GAC	E/D	Rv0524	hemL	nonsyn	essential	no
lineage1.1.1.1	634586	919	C/T	307	GGA/AGA	G/R	Rv0542c	menE	nonsyn	essential	no
lineage1.1.1.1	647833	1536	T/G	512	TCT/TCG	S/S	Rv0555	menD	syn	essential	yes
lineage1.1.1.1	685712	584	C/A	195	ACC/AAC	T/N	Rv0587	yrbE2A	nonsyn	nonessential	no
lineage1.1.1.1	719545	368	A/G	123	TTG/TCG	L/S	Rv0628c	.	nonsyn	essential	no
lineage1.1.1.1	728897	382	C/T	128	GCC/ACC	A/T	Rv0632c	echA3	nonsyn	nonessential	no
lineage1.1.1.1	777581	900	G/T	300	TAC/TAA	Y/*	Rv0676c	mmpL5	nonsyn	nonessential	no
lineage1.1.1.1	789485	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	793897	563	C/T	188	GCG/GTG	A/V	Rv0694	lldD1	nonsyn	nonessential	no
lineage1.1.1.1	842050	18	C/T	6	GGC/GGT	G/G	Rv0750	.	syn	nonessential	no
lineage1.1.1.1	851797	190	C/A	64	CGG/AGG	R/R	Rv0757	phoP	syn	nonessential	no
lineage1.1.1.1	854832	995	T/G	332	AAG/ACG	K/T	Rv0761c	adhB	nonsyn	nonessential	no
lineage1.1.1.1	856034	437	T/G	146	AAG/ACG	K/T	Rv0762c	.	nonsyn	nonessential	no
lineage1.1.1.1	896629	810	C/T	270	TAC/TAT	Y/Y	Rv0803	purL	syn	essential	yes
lineage1.1.1.1	940455	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	992206	391	C/T	131	GTA/ATA	V/I	Rv0890c	.	nonsyn	nonessential	no
lineage1.1.1.1	1030965	900	C/A	300	TTG/TTT	L/F	Rv0924c	mntH	nonsyn	nonessential	no
lineage1.1.1.1	1095644	808	C/T	270	GCG/ACG	A/T	Rv0980c	PE_PGRS18	nonsyn	ND	no
lineage1.1.1.1	1103487	946	G/A	316	GGG/AGG	G/R	Rv0987	.	nonsyn	nonessential	no
lineage1.1.1.1	1111469	1201	C/T	401	CTG/TTG	L/L	Rv0994	moeA1	syn	nonessential	no
lineage1.1.1.1	1113403	1020	G/A	340	GCG/GCA	A/A	Rv0996	.	syn	nonessential	no
lineage1.1.1.1	1166482	325	G/A	109	CTC/TTC	L/F	Rv1043c	.	nonsyn	nonessential	no
lineage1.1.1.1	1173612	732	G/A	244	ATG/ATA	M/I	Rv1050	.	nonsyn	nonessential	no
lineage1.1.1.1	1182192	1509	G/A	503	TGG/TGA	W/*	Rv1058	fadD14	nonsyn	nonessential	no
lineage1.1.1.1	1192128	21	C/T	7	GTG/GTA	V/V	Rv1068c	PE_PGRS20	syn	ND	no
lineage1.1.1.1	1280806	41	G/A	14	ACC/ATC	T/I	Rv1153c	omt	nonsyn	nonessential	no
lineage1.1.1.1	1284754	109	G/T	37	CCT/ACT	P/T	Rv1158c	.	nonsyn	ND	no
lineage1.1.1.1	1287068	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	1300786	483	G/T	161	GCG/GCT	A/A	Rv1170	mshB	syn	nonessential	no
lineage1.1.1.1	1324847	765	T/C	255	GGA/GGG	G/G	Rv1184c	.	syn	ND	no
lineage1.1.1.1	1337545	969	A/G	323	GCT/GCC	A/A	Rv1194c	.	syn	essential	yes
lineage1.1.1.1	1338105	409	C/T	137	GCC/ACC	A/T	Rv1194c	.	nonsyn	essential	no
lineage1.1.1.1	1369927	369	C/T	123	GAG/GAA	E/E	Rv1226c	.	syn	nonessential	no
lineage1.1.1.1	1509540	260	C/A	87	CCG/CAG	P/Q	Rv1345	mbtM	nonsyn	nonessential	no
lineage1.1.1.1	1517912	422	C/T	141	TCT/TTT	S/F	Rv1350	fabG2	nonsyn	essential	no
lineage1.1.1.1	1526100	117	A/G	39	AAT/AAC	N/N	Rv1357c	.	syn	nonessential	no
lineage1.1.1.1	1563431	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	1594513	472	G/A	158	GCG/ACG	A/T	Rv1420	uvrC	nonsyn	essential	no
lineage1.1.1.1	1616572	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	1635527	499	G/A	167	GGC/AGC	G/S	Rv1451	ctaB	nonsyn	nonessential	no
lineage1.1.1.1	1662424	44	T/A	15	TTG/TAG	L/*	Rv1473A	.	nonsyn	nonessential	no
lineage1.1.1.1	1694277	268	A/G	90	TCT/CCT	S/P	Rv1503c	.	nonsyn	nonessential	no
lineage1.1.1.1	1750465	2772	T/C	924	CTT/CTC	L/L	Rv1547	dnaE1	syn	essential	yes
lineage1.1.1.1	1870983	142	G/A	48	GGC/AGC	G/S	Rv1657	argR	nonsyn	nonessential	no
lineage1.1.1.1	1883443	1740	C/T	580	GCC/GCT	A/A	Rv1662	pks8	syn	essential	yes
lineage1.1.1.1	1894765	578	G/A	193	ACA/ATA	T/I	Rv1668c	.	nonsyn	nonessential	no
lineage1.1.1.1	1957607	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	1980325	705	G/A	235	TGG/TGA	W/*	Rv1751	.	nonsyn	nonessential	no
lineage1.1.1.1	2061191	1484	T/C	495	AAC/AGC	N/S	Rv1818c	PE_PGRS33	nonsyn	ND	no
lineage1.1.1.1	2073614	534	C/T	178	TAC/TAT	Y/Y	Rv1828	.	syn	essential	yes
lineage1.1.1.1	2091967	119	G/T	40	GCC/GAC	A/D	Rv1842c	.	nonsyn	nonessential	no
lineage1.1.1.1	2103540	568	C/A	190	GCG/TCG	A/S	Rv1855c	.	nonsyn	nonessential	no
lineage1.1.1.1	2104019	89	C/G	30	CGT/CCT	R/P	Rv1855c	.	nonsyn	nonessential	no
lineage1.1.1.1	2118434	1088	A/G	363	CAC/CGC	H/R	Rv1868	.	nonsyn	nonessential	no
lineage1.1.1.1	2163087	4225	C/T	1409	GGG/AGG	G/R	Rv1917c	PPE34	nonsyn	ND	no
lineage1.1.1.1	2163493	3819	A/G	1273	GCT/GCC	A/A	Rv1917c	PPE34	syn	ND	no
lineage1.1.1.1	2163494	3818	G/C	1273	GCT/GGT	A/G	Rv1917c	PPE34	nonsyn	ND	no
lineage1.1.1.1	2163496	3816	A/C	1272	GGT/GGG	G/G	Rv1917c	PPE34	syn	ND	no
lineage1.1.1.1	2163504	3808	G/A	1270	CTG/TTG	L/L	Rv1917c	PPE34	syn	ND	no
lineage1.1.1.1	2183792	421	G/A	141	GTC/ATC	V/I	Rv1932	tpx	nonsyn	nonessential	no
lineage1.1.1.1	2228967	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	2269179	1062	C/G	354	CGG/CGC	R/R	Rv2024c	.	syn	nonessential	no
lineage1.1.1.1	2281917	304	A/C	102	AGT/CGT	S/R	Rv2035	.	nonsyn	nonessential	no
lineage1.1.1.1	2311357	1161	G/A	387	GGC/GGT	G/G	Rv2052c	.	syn	nonessential	no
lineage1.1.1.1	2326192	618	C/T	206	TTG/TTA	L/L	Rv2068c	blaC	syn	nonessential	no
lineage1.1.1.1	2330237	727	C/T	243	GTC/ATC	V/I	Rv2073c	.	nonsyn	nonessential	no
lineage1.1.1.1	2358245	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	2381034	.	C/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	2412584	768	G/A	256	GCC/GCT	A/A	Rv2153c	murG	syn	essential	yes
lineage1.1.1.1	2422687	451	C/G	151	GTC/CTC	V/L	Rv2161c	.	nonsyn	nonessential	no
lineage1.1.1.1	2464860	.	C/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	2470934	313	C/A	105	CGG/AGG	R/R	Rv2206	.	syn	nonessential	no
lineage1.1.1.1	2473139	647	G/A	216	TGC/TAC	C/Y	Rv2208	cobS	nonsyn	nonessential	no
lineage1.1.1.1	2478541	204	C/T	68	GAC/GAT	D/D	Rv2213	pepB	syn	nonessential	no
lineage1.1.1.1	2533237	993	G/A	331	CGG/CGA	R/R	Rv2259	mscR	syn	nonessential	no
lineage1.1.1.1	2663319	3797	C/A	1266	GGT/GTT	G/V	Rv2380c	mbtE	nonsyn	nonessential	no
lineage1.1.1.1	2694026	939	C/T	313	CTG/CTA	L/L	Rv2397c	cysA1	syn	essential	yes
lineage1.1.1.1	2773181	4	C/T	2	CCG/TCG	P/S	Rv2470	glbO	nonsyn	nonessential	no
lineage1.1.1.1	2791079	1416	C/T	472	CTG/CTA	L/L	Rv2484c	.	syn	nonessential	no
lineage1.1.1.1	2880431	357	G/C	119	GGG/GGC	G/G	Rv2560	.	syn	nonessential	no
lineage1.1.1.1	2949025	390	A/G	130	CAA/CAG	Q/Q	Rv2622	.	syn	nonessential	no
lineage1.1.1.1	2954859	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	2957546	.	T/G	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	2994964	99	C/T	33	GGG/GGA	G/G	Rv2678c	hemE	syn	nonessential	no
lineage1.1.1.1	3022811	351	G/A	117	CAG/CAA	Q/Q	Rv2710	sigB	syn	essential	yes
lineage1.1.1.1	3037367	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	3079685	773	G/T	258	GCC/GAC	A/D	Rv2770c	PPE44	nonsyn	ND	no
lineage1.1.1.1	3081353	240	T/G	80	GGA/GGC	G/G	Rv2772c	.	syn	nonessential	no
lineage1.1.1.1	3084944	612	C/G	204	GCG/GCC	A/A	Rv2777c	.	syn	nonessential	no
lineage1.1.1.1	3099657	513	G/A	171	ACC/ACT	T/T	Rv2790c	ltp1	syn	nonessential	no
lineage1.1.1.1	3216553	339	G/A	113	GTC/GTT	V/V	Rv2907c	rimM	syn	essential	yes
lineage1.1.1.1	3227768	1406	C/A	469	ACC/AAC	T/N	Rv2917	.	nonsyn	nonessential	no
lineage1.1.1.1	3243197	228	G/A	76	GTG/GTA	V/V	Rv2929	.	syn	nonessential	no
lineage1.1.1.1	3315154	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	3364142	391	G/A	131	CTG/TTG	L/L	Rv3005c	.	syn	nonessential	no
lineage1.1.1.1	3435307	844	A/C	282	ACC/CCC	T/P	Rv3071	.	nonsyn	nonessential	no
lineage1.1.1.1	3462178	587	G/A	196	GCA/GTA	A/V	Rv3093c	.	nonsyn	nonessential	no
lineage1.1.1.1	3479373	203	C/T	68	GCG/GTG	A/V	Rv3111	moaC1	nonsyn	essential	no
lineage1.1.1.1	3568359	1336	G/C	446	GTC/CTC	V/L	Rv3197	.	nonsyn	nonessential	no
lineage1.1.1.1	3574258	2779	G/A	927	CCA/TCA	P/S	Rv3201c	.	nonsyn	ND	no
lineage1.1.1.1	3606394	641	T/C	214	AAG/AGG	K/R	Rv3229c	desA3	nonsyn	essential	no
lineage1.1.1.1	3715840	64	G/A	22	GGT/AGT	G/S	Rv3330	dacB1	nonsyn	nonessential	no
lineage1.1.1.1	3722271	330	C/T	110	CTG/CTA	L/L	Rv3335c	.	syn	essential	yes
lineage1.1.1.1	3762346	4757	G/A	1586	TCG/TTG	S/L	Rv3350c	PPE56	nonsyn	ND	no
lineage1.1.1.1	3762556	4547	G/A	1516	ACC/ATC	T/I	Rv3350c	PPE56	nonsyn	ND	no
lineage1.1.1.1	3793428	1440	G/T	480	ACC/ACA	T/T	Rv3379c	dxs2	syn	nonessential	no
lineage1.1.1.1	3952518	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	3961373	619	T/G	207	TAT/GAT	Y/D	Rv3524	.	nonsyn	nonessential	no
lineage1.1.1.1	3969907	565	A/G	189	AGC/GGC	S/G	Rv3532	PPE61	nonsyn	ND	no
lineage1.1.1.1	4020786	645	G/A	215	CTG/CTA	L/L	Rv3578	arsB2	syn	nonessential	no
lineage1.1.1.1	4102929	750	G/A	250	ACC/ACT	T/T	Rv3663c	dppD	syn	essential	yes
lineage1.1.1.1	4106239	846	G/A	282	GAC/GAT	D/D	Rv3666c	dppA	syn	essential	yes
lineage1.1.1.1	4139074	682	G/C	228	CTG/GTG	L/V	Rv3696c	glpK	nonsyn	nonessential	no
lineage1.1.1.1	4216742	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.1.1	4277541	971	A/G	324	AAC/AGC	N/S	Rv3812	PE_PGRS62	nonsyn	ND	no
lineage1.1.1.1	4395468	1277	C/T	426	GCT/GTT	A/V	Rv3909	.	nonsyn	nonessential	no
lineage1.1.2	6124	885	C/T	295	GCC/GCT	A/A	Rv0005	gyrB	syn	essential	yes
lineage1.1.2	12234	78	C/G	26	CCG/CCC	P/P	Rv0008c	.	syn	nonessential	no
lineage1.1.2	20544	1097	G/C	366	ACC/AGC	T/S	Rv0017c	rodA	nonsyn	nonessential	no
lineage1.1.2	55418	1756	A/G	586	ATT/GTT	I/V	Rv0050	ponA1	nonsyn	nonessential	no
lineage1.1.2	97952	195	C/T	65	GCC/GCT	A/A	Rv0089	.	syn	nonessential	no
lineage1.1.2	108184	29	C/T	10	CCT/CTT	P/L	Rv0099	fadD10	nonsyn	essential	no
lineage1.1.2	156304	638	G/A	213	GGC/GAC	G/D	Rv0128	.	nonsyn	nonessential	no
lineage1.1.2	170755	472	G/T	158	GAG/TAG	E/*	Rv0144	.	nonsyn	nonessential	no
lineage1.1.2	199857	1324	G/A	442	GTC/ATC	V/I	Rv0169	mce1A	nonsyn	essential	no
lineage1.1.2	199859	1326	C/A	442	GTC/GTA	V/V	Rv0169	mce1A	syn	essential	yes
lineage1.1.2	219722	237	G/T	79	TCG/TCT	S/S	Rv0188	.	syn	nonessential	no
lineage1.1.2	225039	1533	G/A	511	ATC/ATT	I/I	Rv0193c	.	syn	nonessential	no
lineage1.1.2	234268	2038	G/T	680	GTC/TTC	V/F	Rv0197	.	nonsyn	nonessential	no
lineage1.1.2	358926	756	A/C	252	GAA/GAC	E/D	Rv0294	tam	nonsyn	nonessential	no
lineage1.1.2	370056	2709	G/A	903	GGC/GGT	G/G	Rv0304c	PPE5	syn	ND	no
lineage1.1.2	380772	217	G/A	73	GAC/AAC	D/N	Rv0312	.	nonsyn	essential	no
lineage1.1.2	406992	1457	G/T	486	CCG/CAG	P/Q	Rv0339c	.	nonsyn	nonessential	no
lineage1.1.2	415061	12	G/A	4	TCG/TCA	S/S	Rv0345	.	syn	nonessential	no
lineage1.1.2	431102	3578	G/C	1193	GCG/GGG	A/G	Rv0355c	PPE8	nonsyn	ND	no
lineage1.1.2	445668	858	C/T	286	ATG/ATA	M/I	Rv0368c	.	nonsyn	nonessential	no
lineage1.1.2	465697	2287	G/C	763	GTG/CTG	V/L	Rv0386	.	nonsyn	nonessential	no
lineage1.1.2	498010	291	T/C	97	GGA/GGG	G/G	Rv0411c	glnH	syn	essential	no
lineage1.1.2	499196	424	C/T	142	GCC/ACC	A/T	Rv0412c	.	nonsyn	essential	no
lineage1.1.2	503647	152	G/A	51	CGG/CAG	R/Q	Rv0418	lpqL	nonsyn	nonessential	no
lineage1.1.2	559350	456	G/A	152	CCG/CCA	P/P	Rv0468	fadB2	syn	nonessential	no
lineage1.1.2	565415	395	C/T	132	CCG/CTG	P/L	Rv0474	.	nonsyn	nonessential	no
lineage1.1.2	567446	225	G/A	75	TCG/TCA	S/S	Rv0478	deoC	syn	nonessential	no
lineage1.1.2	569045	762	C/T	254	GTG/GTA	V/V	Rv0480c	.	syn	nonessential	no
lineage1.1.2	653287	517	G/A	173	GAG/AAG	E/K	Rv0562	grcC1	nonsyn	essential	no
lineage1.1.2	683910	363	C/T	121	GCG/GCA	A/A	Rv0585c	.	syn	nonessential	no
lineage1.1.2	685153	25	A/G	9	ACC/GCC	T/A	Rv0587	yrbE2A	nonsyn	nonessential	no
lineage1.1.2	699693	107	G/A	36	GCG/GTG	A/V	Rv0602c	tcrA	nonsyn	nonessential	no
lineage1.1.2	711155	150	G/A	50	GTG/GTA	V/V	Rv0617	vapC29	syn	nonessential	no
lineage1.1.2	767516	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1.1.2	794482	1148	G/C	383	GGG/GCG	G/A	Rv0694	lldD1	nonsyn	nonessential	no
lineage1.1.2	852361	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	856563	117	G/T	39	CCC/CCA	P/P	Rv0763c	.	syn	nonessential	no
lineage1.1.2	899389	559	G/A	187	GAC/AAC	D/N	Rv0805	.	nonsyn	nonessential	no
lineage1.1.2	949087	529	C/T	177	CGG/TGG	R/W	Rv0852	fadD16	nonsyn	nonessential	no
lineage1.1.2	1027455	352	G/A	118	GAG/AAG	E/K	Rv0921	.	nonsyn	nonessential	no
lineage1.1.2	1050367	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.2	1073716	172	C/T	58	CGG/TGG	R/W	Rv0960	vapC9	nonsyn	nonessential	no
lineage1.1.2	1175537	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1.1.2	1194475	569	C/A	190	AGG/ATG	R/M	Rv1070c	echA8	nonsyn	nonessential	no
lineage1.1.2	1195358	735	T/G	245	AAA/AAC	K/N	Rv1071c	echA9	nonsyn	nonessential	no
lineage1.1.2	1281307	178	C/T	60	GTG/ATG	V/M	Rv1154c	.	nonsyn	nonessential	no
lineage1.1.2	1306444	1783	T/C	595	AAC/GAC	N/D	Rv1175c	fadH	nonsyn	nonessential	no
lineage1.1.2	1361350	452	A/C	151	CTG/CGG	L/R	Rv1217c	.	nonsyn	nonessential	no
lineage1.1.2	1397199	2042	G/A	681	ACA/ATA	T/I	Rv1251c	.	nonsyn	nonessential	no
lineage1.1.2	1426589	426	C/T	142	AAC/AAT	N/N	Rv1277	.	syn	nonessential	no
lineage1.1.2	1470261	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	1509067	100	C/T	34	CTG/TTG	L/L	Rv1344	mbtL	syn	nonessential	no
lineage1.1.2	1537947	223	C/T	75	GCA/ACA	A/T	Rv1365c	rsfA	nonsyn	nonessential	no
lineage1.1.2	1575275	535	C/A	179	GGC/TGC	G/C	Rv1399c	nlhH	nonsyn	nonessential	no
lineage1.1.2	1596515	537	C/T	179	AGC/AGT	S/S	Rv1421	.	syn	nonessential	no
lineage1.1.2	1697267	156	T/C	52	TTA/TTG	L/L	Rv1507c	.	syn	nonessential	no
lineage1.1.2	1831531	867	G/A	289	CTG/CTA	L/L	Rv1629	polA	syn	essential	yes
lineage1.1.2	1841115	1128	C/T	376	CTG/CTA	L/L	Rv1635c	.	syn	nonessential	no
lineage1.1.2	1876393	1090	C/T	364	CCG/TCG	P/S	Rv1661	pks7	nonsyn	essential	no
lineage1.1.2	1901623	577	G/T	193	GCC/TCC	A/S	Rv1676	.	nonsyn	nonessential	no
lineage1.1.2	1948644	784	G/A	262	GCC/ACC	A/T	Rv1722	.	nonsyn	nonessential	no
lineage1.1.2	1967783	79	A/G	27	ACC/GCC	T/A	Rv1740	vapB34	nonsyn	nonessential	no
lineage1.1.2	2008669	838	T/A	280	TGC/AGC	C/S	Rv1774	.	nonsyn	nonessential	no
lineage1.1.2	2022643	3387	G/T	1129	CGG/CGT	R/R	Rv1783	eccC5	syn	nonessential	no
lineage1.1.2	2053320	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2057593	66	G/A	22	CCG/CCA	P/P	Rv1815	.	syn	nonessential	no
lineage1.1.2	2068353	1897	G/A	633	GGC/AGC	G/S	Rv1821	secA2	nonsyn	essential	no
lineage1.1.2	2110812	550	G/T	184	CTC/ATC	L/I	Rv1863c	.	nonsyn	nonessential	no
lineage1.1.2	2131540	318	C/T	106	CTG/CTA	L/L	Rv1880c	cyp140	syn	nonessential	no
lineage1.1.2	2143973	474	A/T	158	GAT/GAA	D/E	Rv1896c	.	nonsyn	nonessential	no
lineage1.1.2	2147429	205	G/C	69	CAT/GAT	H/D	Rv1900c	lipJ	nonsyn	nonessential	no
lineage1.1.2	2218051	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2227790	1547	A/G	516	AAC/AGC	N/S	Rv1983	PE_PGRS35	nonsyn	ND	no
lineage1.1.2	2245149	.	G/T	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2249789	1186	G/A	396	CTG/TTG	L/L	Rv2004c	.	syn	essential	no
lineage1.1.2	2263156	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2368647	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2399887	442	C/T	148	GAG/AAG	E/K	Rv2140c	TB18.6	nonsyn	nonessential	no
lineage1.1.2	2531081	817	T/A	273	ATG/TTG	M/L	Rv2258c	.	nonsyn	nonessential	no
lineage1.1.2	2552592	1033	A/C	345	ACC/CCC	T/P	Rv2280	.	nonsyn	nonessential	no
lineage1.1.2	2579856	80	A/G	27	ATG/ACG	M/T	Rv2307B	.	nonsyn	nonessential	no
lineage1.1.2	2608256	66	G/A	22	GAC/GAT	D/D	Rv2333c	stp	syn	nonessential	no
lineage1.1.2	2622402	51	G/A	17	GCC/GCT	A/A	Rv2343c	dnaG	syn	essential	yes
lineage1.1.2	2704588	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2719850	254	G/A	85	CGT/CAT	R/H	Rv2423	.	nonsyn	nonessential	no
lineage1.1.2	2725472	6	G/A	2	ACC/ACT	T/T	Rv2427c	proA	syn	nonessential	no
lineage1.1.2	2729772	789	G/C	263	CCC/CCG	P/P	Rv2434c	.	syn	nonessential	no
lineage1.1.2	2739385	302	T/C	101	AAC/AGC	N/S	Rv2440c	obg	nonsyn	essential	no
lineage1.1.2	2753041	583	C/T	195	GCA/ACA	A/T	Rv2453c	mobA	nonsyn	nonessential	no
lineage1.1.2	2787989	1295	C/T	432	CGC/CAC	R/H	Rv2482c	plsB2	nonsyn	nonessential	no
lineage1.1.2	2788966	318	G/T	106	GCC/GCA	A/A	Rv2482c	plsB2	syn	nonessential	no
lineage1.1.2	2789661	1362	C/A	454	CCG/CCT	P/P	Rv2483c	plsC	syn	essential	yes
lineage1.1.2	2815277	1604	C/T	535	CGA/CAA	R/Q	Rv2501c	accA1	nonsyn	nonessential	no
lineage1.1.2	2828058	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2830126	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1.1.2	2893883	526	A/G	176	TCG/CCG	S/P	Rv2569c	.	nonsyn	nonessential	no
lineage1.1.2	2906008	85	C/T	29	GAC/AAC	D/N	Rv2580c	hisS	nonsyn	essential	no
lineage1.1.2	2915482	255	C/A	85	GGG/GGT	G/G	Rv2587c	secD	syn	nonessential	no
lineage1.1.2	2963892	307	G/A	103	GCT/ACT	A/T	Rv2637	dedA	nonsyn	nonessential	no
lineage1.1.2	2990752	47	A/C	16	AAG/ACG	K/T	Rv2674	msrB	nonsyn	nonessential	no
lineage1.1.2	2992374	255	G/T	85	GCC/GCA	A/A	Rv2676c	.	syn	nonessential	no
lineage1.1.2	2996912	174	C/T	58	GCC/GCT	A/A	Rv2681	.	syn	nonessential	no
lineage1.1.2	3011102	267	C/T	89	AAG/AAA	K/K	Rv2693c	.	syn	nonessential	no
lineage1.1.2	3011506	262	T/C	88	ATA/GTA	I/V	Rv2694c	.	nonsyn	nonessential	no
lineage1.1.2	3032887	1733	G/A	578	CCG/CTG	P/L	Rv2721c	.	nonsyn	nonessential	no
lineage1.1.2	3036413	879	G/A	293	GCC/GCT	A/A	Rv2724c	fadE20	syn	nonessential	no
lineage1.1.2	3070311	276	C/A	92	TCG/TCT	S/S	Rv2757c	vapC21	syn	nonessential	no
lineage1.1.2	3092402	196	A/C	66	TTC/GTC	F/V	Rv2783c	gpsI	nonsyn	nonessential	no
lineage1.1.2	3164730	579	G/A	193	AAG/AAA	K/K	Rv2854	.	syn	nonessential	no
lineage1.1.2	3202130	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	3205565	870	G/A	290	GAC/GAT	D/D	Rv2896c	.	syn	nonessential	no
lineage1.1.2	3208394	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	3242138	.	A/C	.	./.	./.	.	.	inter	.	no
lineage1.1.2	3309009	342	C/A	114	AGC/AGA	S/R	Rv2956	.	nonsyn	nonessential	no
lineage1.1.2	3338834	166	C/A	56	GGT/TGT	G/C	Rv2982c	gpdA2	nonsyn	nonessential	no
lineage1.1.2	3363222	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	3394177	745	C/T	249	GCG/ACG	A/T	Rv3034c	.	nonsyn	nonessential	no
lineage1.1.2	3493873	309	G/A	103	GTC/GTT	V/V	Rv3128c	.	syn	ND	no
lineage1.1.2	3525374	1243	A/G	415	ACG/GCG	T/A	Rv3157	nuoM	nonsyn	nonessential	no
lineage1.1.2	3527974	1190	G/A	397	ACC/ATC	T/I	Rv3159c	PPE53	nonsyn	ND	no
lineage1.1.2	3528151	1013	C/A	338	GGC/GTC	G/V	Rv3159c	PPE53	nonsyn	ND	no
lineage1.1.2	3531656	1258	C/T	420	GCG/ACG	A/T	Rv3163c	.	nonsyn	nonessential	no
lineage1.1.2	3531706	1208	A/G	403	ATG/ACG	M/T	Rv3163c	.	nonsyn	nonessential	no
lineage1.1.2	3538128	891	G/A	297	TCG/TCA	S/S	Rv3169	.	syn	nonessential	no
lineage1.1.2	3547956	339	G/A	113	TCG/TCA	S/S	Rv3179	.	syn	nonessential	no
lineage1.1.2	3554354	57	A/G	19	AAA/AAG	K/K	Rv3188	.	syn	nonessential	no
lineage1.1.2	3571262	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.2	3608865	9	C/T	3	CAG/CAA	Q/Q	Rv3231c	.	syn	nonessential	no
lineage1.1.2	3629203	445	G/A	149	CCG/TCG	P/S	Rv3248c	sahH	nonsyn	essential	no
lineage1.1.2	3664603	385	A/T	129	ACC/TCC	T/S	Rv3282	.	nonsyn	nonessential	no
lineage1.1.2	3762173	4930	C/A	1644	GGC/TGC	G/C	Rv3350c	PPE56	nonsyn	ND	no
lineage1.1.2	3764166	2937	G/A	979	ACC/ACT	T/T	Rv3350c	PPE56	syn	ND	no
lineage1.1.2	3764167	2936	G/A	979	ACC/ATC	T/I	Rv3350c	PPE56	nonsyn	ND	no
lineage1.1.2	3784975	44	G/A	15	CGC/CAC	R/H	Rv3371	.	nonsyn	essential	no
lineage1.1.2	3820722	1170	G/A	390	GAC/GAT	D/D	Rv3402c	.	syn	nonessential	no
lineage1.1.2	3879882	189	G/A	63	AAC/AAT	N/N	Rv3460c	rpsM	syn	nonessential	no
lineage1.1.2	3897374	1555	G/A	519	GCT/ACT	A/T	Rv3479	.	nonsyn	nonessential	no
lineage1.1.2	3988745	354	C/G	118	CTG/CTC	L/L	Rv3549c	.	syn	nonessential	no
lineage1.1.2	4020756	615	C/G	205	GAC/GAG	D/E	Rv3578	arsB2	nonsyn	nonessential	no
lineage1.1.2	4047879	303	C/T	101	GTG/GTA	V/V	Rv3605c	.	syn	nonessential	no
lineage1.1.2	4064270	603	G/T	201	GAC/GAA	D/E	Rv3625c	mesJ	nonsyn	essential	no
lineage1.1.2	4141864	1372	C/A	458	CGC/AGC	R/S	Rv3698	.	nonsyn	nonessential	no
lineage1.1.2	4157259	279	G/A	93	GTG/GTA	V/V	Rv3712	.	syn	essential	yes
lineage1.1.2	4167642	487	G/T	163	CCC/ACC	P/T	Rv3722c	.	nonsyn	essential	no
lineage1.1.2	4176559	1687	G/A	563	GAT/AAT	D/N	Rv3728	.	nonsyn	nonessential	no
lineage1.1.2	4189527	706	C/A	236	GTG/TTG	V/L	Rv3738c	PPE66	nonsyn	ND	no
lineage1.1.2	4190962	1218	G/A	406	ACC/ACT	T/T	Rv3740c	.	syn	nonessential	no
lineage1.1.2	4283016	568	G/C	190	GCG/CCG	A/P	Rv3818	.	nonsyn	nonessential	no
lineage1.1.2	4298896	710	G/A	237	GCT/GTT	A/V	Rv3825c	pks2	nonsyn	nonessential	no
lineage1.1.2	4325923	429	G/A	143	CCG/CCA	P/P	Rv3853	rraA	syn	nonessential	no
lineage1.1.2	4349129	303	C/T	101	GCC/GCT	A/A	Rv3871	eccCb1	syn	ND	no
lineage1.1.2	4391076	.	C/G	.	./.	./.	.	.	inter	.	no
lineage1.1.2	4399888	3292	A/G	1098	ACG/GCG	T/A	Rv3910	.	nonsyn	essential	no
lineage1.1.2	4411400	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.3	15177	264	C/G	88	GCC/GCG	A/A	Rv0013	trpG	syn	nonessential	no
lineage1.1.3	66313	762	G/A	254	GAG/GAA	E/E	Rv0062	celA1	syn	nonessential	no
lineage1.1.3	145189	1141	G/A	381	GTG/ATG	V/M	Rv0119	fadD7	nonsyn	nonessential	no
lineage1.1.3	212674	338	T/G	113	GAG/GCG	E/A	Rv0181c	.	nonsyn	nonessential	no
lineage1.1.3	280294	847	C/T	283	GTG/ATG	V/M	Rv0234c	gabD1	nonsyn	nonessential	no
lineage1.1.3	286580	272	A/T	91	CTG/CAG	L/Q	Rv0236c	aftD	nonsyn	essential	no
lineage1.1.3	317045	459	G/A	153	GGC/GGT	G/G	Rv0265c	.	syn	nonessential	no
lineage1.1.3	321403	73	G/A	25	GAC/AAC	D/N	Rv0267	narU	nonsyn	nonessential	no
lineage1.1.3	486546	816	G/A	272	CTG/CTA	L/L	Rv0405	pks6	syn	nonessential	no
lineage1.1.3	496840	475	G/A	159	CAC/TAC	H/Y	Rv0410c	pknG	nonsyn	essential	no
lineage1.1.3	565451	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.3	765230	1861	G/A	621	GCG/ACG	A/T	Rv0668	rpoC	nonsyn	essential	no
lineage1.1.3	832072	297	G/C	99	GTG/GTC	V/V	Rv0740	.	syn	nonessential	no
lineage1.1.3	852641	246	C/T	82	TAC/TAT	Y/Y	Rv0758	phoR	syn	nonessential	no
lineage1.1.3	877055	1386	A/C	462	GCT/GCG	A/A	Rv0783c	emrB	syn	nonessential	no
lineage1.1.3	909623	411	T/C	137	CCA/CCG	P/P	Rv0816c	thiX	syn	nonessential	no
lineage1.1.3	1079457	715	C/T	239	CGC/TGC	R/C	Rv0969	ctpV	nonsyn	nonessential	no
lineage1.1.3	1136958	1103	G/A	368	ACC/ATC	T/I	Rv1018c	glmU	nonsyn	essential	no
lineage1.1.3	1144221	486	G/A	162	GGG/GGA	G/G	Rv1022	lpqU	syn	nonessential	no
lineage1.1.3	1184798	784	C/T	262	CTA/TTA	L/L	Rv1061	.	syn	nonessential	no
lineage1.1.3	1212613	1054	C/T	352	CTT/TTT	L/F	Rv1087	PE_PGRS21	nonsyn	ND	no
lineage1.1.3	1293121	324	C/T	108	TAC/TAT	Y/Y	Rv1163	narJ	syn	nonessential	no
lineage1.1.3	1468150	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.3	1491275	1038	G/A	346	CAC/CAT	H/H	Rv1326c	glgB	syn	essential	yes
lineage1.1.3	1697460	105	C/T	35	CGC/CGT	R/R	Rv1507A	.	syn	nonessential	no
lineage1.1.3	1721745	316	C/T	106	GCC/ACC	A/T	Rv1526c	.	nonsyn	nonessential	no
lineage1.1.3	1789860	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1.1.3	1826264	322	A/G	108	TTG/CTG	L/L	Rv1624c	.	syn	nonessential	no
lineage1.1.3	1855625	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.3	1932791	1088	C/T	363	CGG/CAG	R/Q	Rv1706c	PPE23	nonsyn	ND	no
lineage1.1.3	1941823	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.3	1967975	59	G/A	20	CGG/CAG	R/Q	Rv1741	vapC34	nonsyn	nonessential	no
lineage1.1.3	2123145	7	C/T	3	GTC/ATC	V/I	Rv1872c	lldD2	nonsyn	nonessential	no
lineage1.1.3	2214069	1215	C/G	405	ACC/ACG	T/T	Rv1969	mce3D	syn	nonessential	no
lineage1.1.3	2580759	341	G/A	114	CGG/CAG	R/Q	Rv2308	.	nonsyn	nonessential	no
lineage1.1.3	2581460	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.3	2581971	328	G/A	110	CAC/TAC	H/Y	Rv2309c	.	nonsyn	nonessential	no
lineage1.1.3	2688891	882	G/A	294	TCG/TCA	S/S	Rv2394	ggtB	syn	nonessential	no
lineage1.1.3	2799034	1847	G/A	616	ACC/ATC	T/I	Rv2488c	.	nonsyn	nonessential	no
lineage1.1.3	2824023	571	C/T	191	GTC/ATC	V/I	Rv2508c	.	nonsyn	nonessential	no
lineage1.1.3	2842441	6892	T/C	2298	AGC/GGC	S/G	Rv2524c	fas	nonsyn	essential	no
lineage1.1.3	2890112	318	G/A	106	CCG/CCA	P/P	Rv2567	.	syn	nonessential	no
lineage1.1.3	2944122	864	G/A	288	AAC/AAT	N/N	Rv2615c	PE_PGRS45	syn	ND	no
lineage1.1.3	2965900	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.1.3	3002595	613	C/T	205	CGA/TGA	R/*	Rv2685	arsB1	nonsyn	nonessential	no
lineage1.1.3	3132289	426	A/G	142	TTT/TTC	F/F	Rv2824c	.	syn	nonessential	no
lineage1.1.3	3246955	1511	A/G	504	CAT/CGT	H/R	Rv2931	ppsA	nonsyn	nonessential	no
lineage1.1.3	3248276	2832	G/A	944	AAG/AAA	K/K	Rv2931	ppsA	syn	nonessential	no
lineage1.1.3	3468392	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.3	3549346	343	G/A	115	CCC/TCC	P/S	Rv3180c	.	nonsyn	nonessential	no
lineage1.1.3	3561987	1186	G/A	396	CTG/TTG	L/L	Rv3193c	.	syn	nonessential	no
lineage1.1.3	3662543	482	T/C	161	GTC/GCC	V/A	Rv3280	accD5	nonsyn	nonessential	no
lineage1.1.3	3707884	187	G/A	63	CAT/TAT	H/Y	Rv3320c	vapC44	nonsyn	nonessential	no
lineage1.1.3	3715012	621	G/T	207	CAG/CAT	Q/H	Rv3329	.	nonsyn	nonessential	no
lineage1.1.3	3733795	3141	C/T	1047	GTG/GTA	V/V	Rv3343c	PPE54	syn	ND	no
lineage1.1.3	3771123	79	C/T	27	CGG/TGG	R/W	Rv3358	relK	nonsyn	nonessential	no
lineage1.1.3	3870870	1119	C/T	373	GTC/GTT	V/V	Rv3449	mycP4	syn	nonessential	no
lineage1.1.3	4036056	200	C/T	67	CCG/CTG	P/L	Rv3594	.	nonsyn	nonessential	no
lineage1.1.3	4077455	472	G/A	158	GTC/ATC	V/I	Rv3638	.	nonsyn	ND	no
lineage1.1.3	4093111	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.1.3	4096875	65	G/A	22	CCG/CTG	P/L	Rv3658c	.	nonsyn	essential	no
lineage1.1.3	4117564	489	G/A	163	GTC/GTT	V/V	Rv3677c	.	syn	nonessential	no
lineage1.1.3	4131655	1299	C/T	433	GCC/GCT	A/A	Rv3689	.	syn	ND	no
lineage1.1.3	4156672	58	C/T	20	GAC/AAC	D/N	Rv3711c	dnaQ	nonsyn	nonessential	no
lineage1.1.3	4397577	981	G/T	327	CCG/CCT	P/P	Rv3910	.	syn	essential	no
lineage1.1.3	4407780	423	C/T	141	GCG/GCA	A/A	Rv3919c	gid	syn	nonessential	no
lineage1.2	2971122	572	T/C	191	ATC/ACC	I/T	Rv2646	.	nonsyn	ND	no
lineage1.2	2976616	294	G/C	98	CAC/CAG	H/Q	Rv2653c	.	nonsyn	ND	no
lineage1.2	2976638	272	T/A	91	AAG/ATG	K/M	Rv2653c	.	nonsyn	ND	no
lineage1.2	2976799	111	G/A	37	GCC/GCT	A/A	Rv2653c	.	syn	ND	no
lineage1.2	2977410	1249	C/G	417	GAG/CAG	E/Q	Rv2655c	.	nonsyn	ND	no
lineage1.2.1	9260	1959	G/C	653	CTG/CTC	L/L	Rv0006	gyrA	syn	nonessential	no
lineage1.2.1	27473	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.2.1	41151	52	C/A	18	GCA/TCA	A/S	Rv0037c	.	nonsyn	nonessential	no
lineage1.2.1	49976	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.2.1	137673	355	G/A	119	GCG/ACG	A/T	Rv0113	gmhA	nonsyn	nonessential	no
lineage1.2.1	177175	.	G/C	.	./.	./.	.	.	inter	.	no
lineage1.2.1	194040	415	C/A	139	CTG/ATG	L/M	Rv0164	TB18.5	nonsyn	nonessential	no
lineage1.2.1	236512	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.2.1	303414	549	C/T	183	TTC/TTT	F/F	Rv0252	nirB	syn	nonessential	no
lineage1.2.1	445400	1126	C/T	376	GCG/ACG	A/T	Rv0368c	.	nonsyn	nonessential	no
lineage1.2.1	495198	2117	A/G	706	TTC/TCC	F/S	Rv0410c	pknG	nonsyn	essential	no
lineage1.2.1	638558	359	A/C	120	ATC/AGC	I/S	Rv0547c	.	nonsyn	nonessential	no
lineage1.2.1	639835	122	C/T	41	CGC/CAC	R/H	Rv0548c	menB	nonsyn	nonessential	no
lineage1.2.1	646163	697	C/A	233	CAG/AAG	Q/K	Rv0554	bpoC	nonsyn	nonessential	no
lineage1.2.1	654996	954	C/T	318	TCG/TCA	S/S	Rv0564c	gpdA1	syn	nonessential	no
lineage1.2.1	686066	139	A/G	47	ATC/GTC	I/V	Rv0588	yrbE2B	nonsyn	essential	no
lineage1.2.1	753392	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1.2.1	835526	373	G/A	125	GCC/ACC	A/T	Rv0745	.	nonsyn	nonessential	no
lineage1.2.1	864166	27	C/T	9	GGC/GGT	G/G	Rv0771	.	syn	nonessential	no
lineage1.2.1	947176	1121	C/G	374	GCG/GGG	A/G	Rv0849	.	nonsyn	nonessential	no
lineage1.2.1	977915	289	C/A	97	GCC/TCC	A/S	Rv0878c	PPE13	nonsyn	ND	no
lineage1.2.1	990383	2214	G/A	738	GGC/GGT	G/G	Rv0890c	.	syn	nonessential	no
lineage1.2.1	1065742	616	G/A	206	GGC/AGC	G/S	Rv0954	.	nonsyn	nonessential	no
lineage1.2.1	1070381	499	A/G	167	ACC/GCC	T/A	Rv0958	.	nonsyn	nonessential	no
lineage1.2.1	1094538	.	T/G	.	./.	./.	.	.	inter	.	no
lineage1.2.1	1099212	147	C/T	49	TTC/TTT	F/F	Rv0983	pepD	syn	nonessential	no
lineage1.2.1	1136017	465	A/G	155	GGT/GGC	G/G	Rv1017c	prsA	syn	essential	yes
lineage1.2.1	1258324	1000	A/G	334	ATC/GTC	I/V	Rv1132	.	nonsyn	nonessential	no
lineage1.2.1	1315746	513	G/A	171	GTG/GTA	V/V	Rv1181	pks4	syn	nonessential	no
lineage1.2.1	1363194	168	G/A	56	GCC/GCT	A/A	Rv1219c	.	syn	nonessential	no
lineage1.2.1	1419602	147	T/C	49	CTA/CTG	L/L	Rv1270c	lprA	syn	nonessential	no
lineage1.2.1	1453165	.	C/G	.	./.	./.	.	.	inter	.	no
lineage1.2.1	1453996	793	C/G	265	CGT/GGT	R/G	Rv1297	rho	nonsyn	essential	no
lineage1.2.1	1478222	897	C/G	299	CTG/CTC	L/L	Rv1317c	alkA	syn	nonessential	no
lineage1.2.1	1553855	624	C/T	208	ACC/ACT	T/T	Rv1380	pyrB	syn	essential	no
lineage1.2.1	1578829	1217	T/G	406	CTG/CGG	L/R	Rv1402	priA	nonsyn	nonessential	no
lineage1.2.1	1668914	496	C/G	166	CTG/GTG	L/V	Rv1478	.	nonsyn	nonessential	no
lineage1.2.1	1676308	576	T/C	192	GGA/GGG	G/G	Rv1486c	.	syn	nonessential	no
lineage1.2.1	1679833	512	C/A	171	ACC/AAC	T/N	Rv1490	.	nonsyn	essential	no
lineage1.2.1	1712671	370	G/A	124	GTC/ATC	V/I	Rv1521	fadD25	nonsyn	nonessential	no
lineage1.2.1	1964913	458	C/T	153	CGG/CAG	R/Q	Rv1737c	narK2	nonsyn	nonessential	no
lineage1.2.1	1998701	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1.2.1	2011542	887	T/C	296	ATC/ACC	I/T	Rv1777	cyp144	nonsyn	nonessential	no
lineage1.2.1	2115746	.	C/G	.	./.	./.	.	.	inter	.	no
lineage1.2.1	2123987	304	G/A	102	GAG/AAG	E/K	Rv1874	.	nonsyn	nonessential	no
lineage1.2.1	2239160	157	G/C	53	GGG/CGG	G/R	Rv1996	.	nonsyn	nonessential	no
lineage1.2.1	2278507	426	G/A	142	TCC/TCT	S/S	Rv2031c	hspX	syn	ND	no
lineage1.2.1	2282130	32	C/A	11	TCC/TAC	S/Y	Rv2036	.	nonsyn	nonessential	no
lineage1.2.1	2324087	913	C/A	305	CGG/AGG	R/R	Rv2066	cobI	syn	nonessential	no
lineage1.2.1	2433579	629	T/C	210	ATC/ACC	I/T	Rv2171	lppM	nonsyn	nonessential	no
lineage1.2.1	2462700	348	C/A	116	TCG/TCT	S/S	Rv2198c	mmpS3	syn	nonessential	no
lineage1.2.1	2580310	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.2.1	2672514	3324	C/G	1108	CTG/CTC	L/L	Rv2383c	mbtB	syn	nonessential	no
lineage1.2.1	2732591	159	C/G	53	GCG/GCC	A/A	Rv2435c	.	syn	nonessential	no
lineage1.2.1	2844546	4787	C/A	1596	GGG/GTG	G/V	Rv2524c	fas	nonsyn	essential	no
lineage1.2.1	2867547	424	G/A	142	GTG/ATG	V/M	Rv2544	lppB	nonsyn	nonessential	no
lineage1.2.1	2912061	617	G/A	206	GCG/GTG	A/V	Rv2585c	.	nonsyn	nonessential	no
lineage1.2.1	3141349	874	A/G	292	TAC/CAC	Y/H	Rv2835c	ugpA	nonsyn	nonessential	no
lineage1.2.1	3170496	228	A/T	76	CAT/CAA	H/Q	Rv2858c	aldC	nonsyn	nonessential	no
lineage1.2.1	3285318	249	C/T	83	GCC/GCT	A/A	Rv2942	mmpL7	syn	essential	no
lineage1.2.1	3339417	300	A/G	100	GAA/GAG	E/E	Rv2983	.	syn	nonessential	no
lineage1.2.1	3352933	536	G/A	179	ACG/ATG	T/M	Rv2995c	leuB	nonsyn	essential	no
lineage1.2.1	3359584	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.2.1	3398940	469	T/C	157	ATT/GTT	I/V	Rv3038c	.	nonsyn	nonessential	no
lineage1.2.1	3400230	829	C/T	277	GCC/ACC	A/T	Rv3040c	.	nonsyn	nonessential	no
lineage1.2.1	3479545	375	C/A	125	GCC/GCA	A/A	Rv3111	moaC1	syn	essential	yes
lineage1.2.1	3504418	224	C/T	75	CCA/CTA	P/L	Rv3138	pflA	nonsyn	nonessential	no
lineage1.2.1	3561229	1944	C/A	648	GTG/GTT	V/V	Rv3193c	.	syn	nonessential	no
lineage1.2.1	3640557	15	T/C	5	GTT/GTC	V/V	Rv3261	fbiA	syn	nonessential	no
lineage1.2.1	3720792	.	T/G	.	./.	./.	.	.	inter	.	no
lineage1.2.1	3746702	6483	C/G	2161	TCG/TCC	S/S	Rv3347c	PPE55	syn	ND	no
lineage1.2.1	3746703	6482	G/C	2161	TCG/TGG	S/W	Rv3347c	PPE55	nonsyn	ND	no
lineage1.2.1	3746704	6481	A/T	2161	TCG/ACG	S/T	Rv3347c	PPE55	nonsyn	ND	no
lineage1.2.1	3765678	1425	C/T	475	CCG/CCA	P/P	Rv3350c	PPE56	syn	ND	no
lineage1.2.1	3930807	.	A/T	.	./.	./.	.	.	inter	.	no
lineage1.2.1	3974868	429	G/A	143	ACC/ACT	T/T	Rv3536c	hsaE	syn	nonessential	no
lineage1.2.1	4014376	1837	C/A	613	GAT/TAT	D/Y	Rv3573c	fadE34	nonsyn	nonessential	no
lineage1.2.1	4049254	727	G/A	243	CTG/TTG	L/L	Rv3608c	folP1	syn	essential	yes
lineage1.2.1	4113833	510	C/T	170	CCG/CCA	P/P	Rv3672c	.	syn	nonessential	no
lineage1.2.1	4123325	1410	C/T	470	GCC/GCT	A/A	Rv3682	ponA2	syn	nonessential	no
lineage1.2.1	4155903	827	G/T	276	GCG/GAG	A/E	Rv3711c	dnaQ	nonsyn	nonessential	no
lineage1.2.1	4163954	219	T/C	73	GAT/GAC	D/D	Rv3720	.	syn	nonessential	no
lineage1.2.1	4195938	161	G/A	54	TCG/TTG	S/L	Rv3745c	.	nonsyn	nonessential	no
lineage1.2.1	4244420	1188	G/C	396	GTG/GTC	V/V	Rv3794	embA	syn	essential	no
lineage1.2.1	4301972	818	C/T	273	CGC/CAC	R/H	Rv3827c	.	nonsyn	ND	no
lineage1.2.1	4338361	161	C/T	54	CGG/CAG	R/Q	Rv3862c	whiB6	nonsyn	nonessential	no
lineage1.2.1	4348418	1938	G/A	646	CTG/CTA	L/L	Rv3870	eccCa1	syn	essential	no
lineage1.2.2	5075	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.2.2	10174	261	C/T	87	TCC/TCT	S/S	Rv0007	.	syn	nonessential	no
lineage1.2.2	20407	1234	G/A	412	CTG/TTG	L/L	Rv0017c	rodA	syn	nonessential	no
lineage1.2.2	32773	717	G/A	239	AAG/AAA	K/K	Rv0029	.	syn	nonessential	no
lineage1.2.2	77469	154	C/T	52	GGC/AGC	G/S	Rv0069c	sdaA	nonsyn	nonessential	no
lineage1.2.2	154051	1728	A/G	576	GGA/GGG	G/G	Rv0126	treS	syn	nonessential	no
lineage1.2.2	227386	509	G/T	170	GGC/GTC	G/V	Rv0194	.	nonsyn	nonessential	no
lineage1.2.2	483489	168	G/A	56	CTC/CTT	L/L	Rv0403c	mmpS1	syn	nonessential	no
lineage1.2.2	486511	781	T/C	261	TCC/CCC	S/P	Rv0405	pks6	nonsyn	nonessential	no
lineage1.2.2	540126	1366	C/T	456	GAT/AAT	D/N	Rv0450c	mmpL4	nonsyn	essential	no
lineage1.2.2	549875	201	C/T	67	CAC/CAT	H/H	Rv0458	.	syn	nonessential	no
lineage1.2.2	552361	336	G/A	112	CTG/CTA	L/L	Rv0461	.	syn	nonessential	no
lineage1.2.2	553220	607	C/T	203	CTT/TTT	L/F	Rv0462	lpdC	nonsyn	essential	no
lineage1.2.2	617729	237	G/A	79	GGG/GGA	G/G	Rv0527	ccdA	syn	essential	yes
lineage1.2.2	727440	867	C/T	289	CTG/CTA	L/L	Rv0631c	recC	syn	nonessential	no
lineage1.2.2	828422	283	T/C	95	TCG/CCG	S/P	Rv0736	rslA	nonsyn	essential	no
lineage1.2.2	866827	563	T/C	188	AAC/AGC	N/S	Rv0773c	ggtA	nonsyn	nonessential	no
lineage1.2.2	886348	299	A/G	100	ATC/ACC	I/T	Rv0792c	.	nonsyn	nonessential	no
lineage1.2.2	933126	906	G/A	302	GAC/GAT	D/D	Rv0837c	.	syn	nonessential	no
lineage1.2.2	942811	1384	C/A	462	GTG/TTG	V/L	Rv0846c	.	nonsyn	nonessential	no
lineage1.2.2	952984	160	G/A	54	GGC/AGC	G/S	Rv0856	.	nonsyn	nonessential	no
lineage1.2.2	1018811	1155	G/A	385	AAC/AAT	N/N	Rv0914c	.	syn	nonessential	no
lineage1.2.2	1020615	715	C/G	239	GGA/CGA	G/R	Rv0915c	PPE14	nonsyn	ND	no
lineage1.2.2	1033573	214	A/G	72	TGC/CGC	C/R	Rv0926c	.	nonsyn	nonessential	no
lineage1.2.2	1072628	1374	G/A	458	GCG/GCA	A/A	Rv0959	.	syn	nonessential	no
lineage1.2.2	1188232	235	G/A	79	GTC/ATC	V/I	Rv1066	.	nonsyn	nonessential	no
lineage1.2.2	1212753	1194	C/G	398	GGC/GGG	G/G	Rv1087	PE_PGRS21	syn	ND	no
lineage1.2.2	1214118	79	A/G	27	ACC/GCC	T/A	Rv1087A	.	nonsyn	nonessential	no
lineage1.2.2	1287639	312	C/T	104	CCC/CCT	P/P	Rv1161	narG	syn	nonessential	no
lineage1.2.2	1365430	87	G/C	29	CCG/CCC	P/P	Rv1222	rseA	syn	nonessential	no
lineage1.2.2	1370066	230	C/T	77	CGT/CAT	R/H	Rv1226c	.	nonsyn	nonessential	no
lineage1.2.2	1440771	.	T/G	.	./.	./.	.	.	inter	.	no
lineage1.2.2	1556886	916	G/A	306	GCC/ACC	A/T	Rv1383	carA	nonsyn	essential	no
lineage1.2.2	1677267	327	G/A	109	CAG/CAA	Q/Q	Rv1487	.	syn	nonessential	no
lineage1.2.2	1699088	807	C/T	269	TCG/TCA	S/S	Rv1508c	.	syn	nonessential	no
lineage1.2.2	1751918	1416	A/G	472	AAT/AAC	N/N	Rv1548c	PPE21	syn	ND	no
lineage1.2.2	1751919	1415	T/C	472	AAT/AGT	N/S	Rv1548c	PPE21	nonsyn	ND	no
lineage1.2.2	1751958	1376	G/C	459	GCC/GGC	A/G	Rv1548c	PPE21	nonsyn	ND	no
lineage1.2.2	1751960	1374	C/G	458	TCG/TCC	S/S	Rv1548c	PPE21	syn	ND	no
lineage1.2.2	1805690	38	G/A	13	CGT/CAT	R/H	Rv1606	hisI	nonsyn	essential	no
lineage1.2.2	1971673	319	G/A	107	CTG/TTG	L/L	Rv1745c	idi	syn	nonessential	no
lineage1.2.2	1980556	936	C/T	312	GAC/GAT	D/D	Rv1751	.	syn	nonessential	no
lineage1.2.2	1987206	491	A/G	164	GTC/GCC	V/A	Rv1755c	plcD	nonsyn	nonessential	no
lineage1.2.2	2047874	161	G/A	54	ACG/ATG	T/M	Rv1805c	.	nonsyn	nonessential	no
lineage1.2.2	2050382	462	T/C	154	TAT/TAC	Y/Y	Rv1808	PPE32	syn	ND	no
lineage1.2.2	2119694	1002	C/T	334	ATG/ATA	M/I	Rv1869c	.	nonsyn	nonessential	no
lineage1.2.2	2127504	1601	T/C	534	ATC/ACC	I/T	Rv1877	.	nonsyn	nonessential	no
lineage1.2.2	2181410	497	A/G	166	GTC/GCC	V/A	Rv1929c	.	nonsyn	nonessential	no
lineage1.2.2	2191428	402	C/T	134	CGC/CGT	R/R	Rv1938	ephB	syn	nonessential	no
lineage1.2.2	2245117	22	G/A	8	CGC/TGC	R/C	Rv1999c	.	nonsyn	nonessential	no
lineage1.2.2	2284848	794	G/A	265	GCA/GTA	A/V	Rv2039c	.	nonsyn	nonessential	no
lineage1.2.2	2330343	621	C/A	207	CGG/CGT	R/R	Rv2073c	.	syn	nonessential	no
lineage1.2.2	2332153	727	G/A	243	CGG/TGG	R/W	Rv2075c	.	nonsyn	nonessential	no
lineage1.2.2	2355363	1315	G/T	439	CGG/AGG	R/R	Rv2097c	pafA	syn	nonessential	no
lineage1.2.2	2420173	436	A/C	146	TTG/GTG	L/V	Rv2158c	murE	nonsyn	nonessential	no
lineage1.2.2	2432170	.	A/G	.	./.	./.	.	.	inter	.	no
lineage1.2.2	2501007	77	C/T	26	ACC/ATC	T/I	Rv2227	.	nonsyn	nonessential	no
lineage1.2.2	2512478	.	T/C	.	./.	./.	.	.	inter	.	no
lineage1.2.2	2565061	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.2.2	2577881	394	G/C	132	GAA/CAA	E/Q	Rv2306B	.	nonsyn	nonessential	no
lineage1.2.2	2583803	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.2.2	2751502	71	G/T	24	GCC/GAC	A/D	Rv2449c	.	nonsyn	nonessential	no
lineage1.2.2	2763624	151	G/A	51	CTG/TTG	L/L	Rv2461c	clpP1	syn	nonessential	no
lineage1.2.2	2801147	.	C/T	.	./.	./.	.	.	inter	.	no
lineage1.2.2	2821709	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.2.2	3001053	440	T/C	147	ATT/ACT	I/T	Rv2684	arsA	nonsyn	nonessential	no
lineage1.2.2	3016943	86	G/C	29	GGC/GCC	G/A	Rv2702	ppgK	nonsyn	essential	no
lineage1.2.2	3049806	1619	C/T	540	CGG/CAG	R/Q	Rv2737c	recA	nonsyn	nonessential	no
lineage1.2.2	3052353	837	G/A	279	GCC/GCT	A/A	Rv2739c	.	syn	essential	yes
lineage1.2.2	3061362	1145	T/C	382	GAT/GGT	D/G	Rv2748c	ftsK	nonsyn	essential	no
lineage1.2.2	3183210	73	A/G	25	ACC/GCC	T/A	Rv2871	vapB43	nonsyn	nonessential	no
lineage1.2.2	3189154	244	T/C	82	AGC/GGC	S/G	Rv2878c	mpt53	nonsyn	ND	no
lineage1.2.2	3429876	375	G/C	125	TTC/TTG	F/L	Rv3064c	.	nonsyn	nonessential	no
lineage1.2.2	3458422	212	C/A	71	CCC/CAC	P/H	Rv3090	.	nonsyn	nonessential	no
lineage1.2.2	3470324	356	T/C	119	AAG/AGG	K/R	Rv3101c	ftsX	nonsyn	essential	no
lineage1.2.2	3470377	303	C/T	101	CAG/CAA	Q/Q	Rv3101c	ftsX	syn	essential	yes
lineage1.2.2	3517413	668	C/T	223	GCC/GTC	A/V	Rv3151	nuoG	nonsyn	nonessential	no
lineage1.2.2	3534263	133	G/C	45	CGG/GGG	R/G	Rv3165c	.	nonsyn	nonessential	no
lineage1.2.2	3677203	429	G/A	143	GTG/GTA	V/V	Rv3296	lhr	syn	ND	no
lineage1.2.2	3691767	1042	G/T	348	CTG/ATG	L/M	Rv3305c	amiA1	nonsyn	nonessential	no
lineage1.2.2	3740168	2607	G/A	869	GGC/GGT	G/G	Rv3345c	PE_PGRS50	syn	ND	no
lineage1.2.2	3771585	242	G/A	81	CGC/CAC	R/H	Rv3359	.	nonsyn	nonessential	no
lineage1.2.2	3824167	418	G/C	140	CGG/GGG	R/G	Rv3404c	.	nonsyn	nonessential	no
lineage1.2.2	3967966	979	C/T	327	GAG/AAG	E/K	Rv3531c	.	nonsyn	nonessential	no
lineage1.2.2	4096967	1028	T/G	343	CAC/CCC	H/P	Rv3659c	.	nonsyn	nonessential	no
lineage1.2.2	4121388	167	G/A	56	GCG/GTG	A/V	Rv3681c	whiB4	nonsyn	nonessential	no
lineage1.2.2	4176694	1822	G/A	608	GCG/ACG	A/T	Rv3728	.	nonsyn	nonessential	no
lineage1.2.2	4238120	189	G/A	63	CAG/CAA	Q/Q	Rv3792	aftA	syn	essential	yes
lineage1.2.2	4277450	880	G/A	294	GAT/AAT	D/N	Rv3812	PE_PGRS62	nonsyn	ND	no
lineage1.2.2	4285318	508	C/T	170	GAT/AAT	D/N	Rv3820c	papA2	nonsyn	nonessential	no
lineage1.2.2	4299514	92	C/T	31	GGC/GAC	G/D	Rv3825c	pks2	nonsyn	nonessential	no
lineage1.2.2	4326439	1035	G/T	345	AAC/AAA	N/K	Rv3854c	ethA	nonsyn	nonessential	no
lineage1.2.2	4356477	1471	G/A	491	GCC/ACC	A/T	Rv3877	eccD1	nonsyn	essential	no
lineage1.2.2	4356690	.	G/A	.	./.	./.	.	.	inter	.	no
lineage1.2.2	4360524	23	G/C	8	CCG/CGG	P/R	Rv3880c	espL	nonsyn	nonessential	no
lineage2	11820	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2	14861	773	G/T	258	GGC/GTC	G/V	Rv0012	.	nonsyn	nonessential	no
lineage2	36008	1714	G/C	572	GAC/CAC	D/H	Rv0032	bioF2	nonsyn	nonessential	no
lineage2	37305	47	C/G	16	TCG/TGG	S/W	Rv0035	fadD34	nonsyn	nonessential	no
lineage2	63146	.	G/T	.	./.	./.	.	.	inter	.	no
lineage2	87468	334	C/T	112	GAG/AAG	E/K	Rv0078A	.	nonsyn	nonessential	no
lineage2	147262	510	G/T	170	GAC/GAA	D/E	Rv0120c	fusA2	nonsyn	nonessential	no
lineage2	230170	3293	C/T	1098	CCC/CTC	P/L	Rv0194	.	nonsyn	nonessential	no
lineage2	264129	63	G/A	21	ATG/ATA	M/I	Rv0221	.	nonsyn	nonessential	no
lineage2	282892	3960	C/T	1320	ACG/ACA	T/T	Rv0236c	aftD	syn	essential	no
lineage2	353309	227	G/A	76	AGC/AAC	S/N	Rv0290	eccD3	nonsyn	essential	no
lineage2	353365	283	G/A	95	GCC/ACC	A/T	Rv0290	eccD3	nonsyn	essential	no
lineage2	484596	620	C/T	207	CCG/CTG	P/L	Rv0404	fadD30	nonsyn	essential	no
lineage2	497491	810	G/A	270	GAC/GAT	D/D	Rv0411c	glnH	syn	essential	yes
lineage2	542014	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2	628864	868	T/C	290	ACC/GCC	T/A	Rv0537c	.	nonsyn	nonessential	no
lineage2	640954	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2	657142	329	C/T	110	CGC/CAC	R/H	Rv0565c	.	nonsyn	nonessential	no
lineage2	696917	.	G/T	.	./.	./.	.	.	inter	.	no
lineage2	707334	2182	T/C	728	ACC/GCC	T/A	Rv0613c	.	nonsyn	nonessential	no
lineage2	757139	1003	C/A	335	CGC/AGC	R/S	Rv0663	atsD	nonsyn	nonessential	no
lineage2	798355	1423	G/C	475	GCC/CCC	A/P	Rv0697	.	nonsyn	essential	no
lineage2	811753	12	C/T	4	CAC/CAT	H/H	Rv0715	rplX	syn	essential	yes
lineage2	940602	505	C/G	169	GGT/CGT	G/R	Rv0844c	narL	nonsyn	nonessential	no
lineage2	972980	727	C/T	243	GGC/AGC	G/S	Rv0874c	.	nonsyn	nonessential	no
lineage2	1022003	.	A/C	.	./.	./.	.	.	inter	.	no
lineage2	1102468	666	C/A	222	GGC/GGA	G/G	Rv0986	.	syn	nonessential	no
lineage2	1168776	453	T/G	151	AGA/AGC	R/S	Rv1046c	.	nonsyn	nonessential	no
lineage2	1175343	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2	1201581	815	A/C	272	CAG/CCG	Q/P	Rv1076	lipU	nonsyn	nonessential	no
lineage2	1317655	2422	C/T	808	CTG/TTG	L/L	Rv1181	pks4	syn	nonessential	no
lineage2	1329234	72	G/A	24	GAC/GAT	D/D	Rv1186c	.	syn	essential	no
lineage2	1556787	817	T/C	273	TCG/CCG	S/P	Rv1383	carA	nonsyn	essential	no
lineage2	1577241	312	G/A	104	CCG/CCA	P/P	Rv1401	.	syn	nonessential	no
lineage2	1606673	288	G/T	96	GCG/GCT	A/A	Rv1430	PE16	syn	ND	no
lineage2	1643864	397	T/C	133	ACC/GCC	T/A	Rv1458c	.	nonsyn	nonessential	no
lineage2	1651308	593	A/G	198	GAA/GGA	E/G	Rv1463	.	nonsyn	essential	no
lineage2	1678706	155	A/C	52	AAG/ACG	K/T	Rv1489	.	nonsyn	nonessential	no
lineage2	1695796	151	C/T	51	GCC/ACC	A/T	Rv1505c	.	nonsyn	nonessential	no
lineage2	1711670	643	C/T	215	CGC/TGC	R/C	Rv1520	.	nonsyn	nonessential	no
lineage2	1722228	6182	A/T	2061	CTG/CAG	L/Q	Rv1527c	pks5	nonsyn	nonessential	no
lineage2	1831220	556	A/C	186	ACC/CCC	T/P	Rv1629	polA	nonsyn	essential	no
lineage2	1831226	562	A/G	188	AGG/GGG	R/G	Rv1629	polA	nonsyn	essential	no
lineage2	1831288	624	C/T	208	CCC/CCT	P/P	Rv1629	polA	syn	essential	no
lineage2	1834177	636	A/C	212	CGA/CGC	R/R	Rv1630	rpsA	syn	essential	yes
lineage2	1877744	2441	A/C	814	GAA/GCA	E/A	Rv1661	pks7	nonsyn	essential	no
lineage2	1967543	95	C/G	32	GGC/GCC	G/A	Rv1739c	.	nonsyn	nonessential	no
lineage2	1980652	1032	G/T	344	CCG/CCT	P/P	Rv1751	.	syn	nonessential	no
lineage2	2072313	362	C/A	121	ACA/AAA	T/K	Rv1826	gcvH	nonsyn	nonessential	no
lineage2	2172380	758	A/C	253	GAG/GCG	E/A	Rv1920	.	nonsyn	nonessential	no
lineage2	2185674	515	A/G	172	ATC/ACC	I/T	Rv1934c	fadE17	nonsyn	nonessential	no
lineage2	2267015	96	T/C	32	GCA/GCG	A/A	Rv2021c	.	syn	nonessential	no
lineage2	2268627	100	G/C	34	CAA/GAA	Q/E	Rv2023A	.	nonsyn	nonessential	no
lineage2	2288085	597	G/C	199	GCC/GCG	A/A	Rv2042c	.	syn	nonessential	no
lineage2	2294007	520	T/C	174	ACG/GCG	T/A	Rv2047c	.	nonsyn	nonessential	no
lineage2	2337179	1825	C/T	609	CAA/TAA	Q/*	Rv2079	.	nonsyn	nonessential	no
lineage2	2399734	1015	G/A	339	GGC/AGC	G/S	Rv2139	pyrD	nonsyn	nonessential	no
lineage2	2510350	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2	2521428	686	A/G	229	GAC/GGC	D/G	Rv2247	accD6	nonsyn	essential	no
lineage2	2543395	882	T/C	294	GAA/GAG	E/E	Rv2268c	cyp128	syn	essential	yes
lineage2	2548700	952	C/T	318	CAC/TAC	H/Y	Rv2276	cyp121	nonsyn	nonessential	no
lineage2	2586076	1215	C/G	405	CGG/CGC	R/R	Rv2314c	.	syn	nonessential	no
lineage2	2673818	2020	C/G	674	GTG/CTG	V/L	Rv2383c	mbtB	nonsyn	nonessential	no
lineage2	2741209	501	G/A	167	CTG/CTA	L/L	Rv2443	dctA	syn	nonessential	no
lineage2	2789798	1225	G/T	409	CGG/AGG	R/R	Rv2483c	plsC	syn	essential	yes
lineage2	2833329	185	G/A	62	GCT/GTT	A/V	Rv2516c	.	nonsyn	essential	no
lineage2	2948230	329	G/A	110	GCC/GTC	A/V	Rv2621c	.	nonsyn	nonessential	no
lineage2	2969197	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2	3010993	376	C/T	126	GGG/AGG	G/R	Rv2693c	.	nonsyn	nonessential	no
lineage2	3024021	457	C/A	153	CGG/AGG	R/R	Rv2711	ideR	syn	nonessential	no
lineage2	3033189	1431	G/A	477	CCC/CCT	P/P	Rv2721c	.	syn	nonessential	no
lineage2	3036826	466	C/T	156	GTG/ATG	V/M	Rv2724c	fadE20	nonsyn	nonessential	no
lineage2	3111476	348	C/T	116	TCG/TCA	S/S	Rv2802c	.	syn	nonessential	no
lineage2	3276703	6013	T/G	2005	ACT/CCT	T/P	Rv2940c	mas	nonsyn	nonessential	no
lineage2	3284855	1521	C/T	507	ATC/ATT	I/I	Rv2941	fadD28	syn	nonessential	no
lineage2	3304966	526	G/A	176	GGG/AGG	G/R	Rv2952	.	nonsyn	nonessential	no
lineage2	3487108	600	C/T	200	GCC/GCT	A/A	Rv3121	cyp141	syn	nonessential	no
lineage2	3542049	.	G/A	.	./.	./.	.	.	inter	.	no
lineage2	3577497	2704	C/T	902	GAA/AAA	E/K	Rv3202c	.	nonsyn	nonessential	no
lineage2	3597249	286	C/G	96	GGC/CGC	G/R	Rv3220c	.	nonsyn	nonessential	no
lineage2	3678249	1475	A/C	492	AAG/ACG	K/T	Rv3296	lhr	nonsyn	ND	no
lineage2	3743899	9286	G/A	3096	CTG/TTG	L/L	Rv3347c	PPE55	syn	ND	no
lineage2	3762013	5090	A/C	1697	CTC/CGC	L/R	Rv3350c	PPE56	nonsyn	ND	no
lineage2	3778396	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2	3811672	.	G/T	.	./.	./.	.	.	inter	.	no
lineage2	3830349	1171	C/T	391	GCG/ACG	A/T	Rv3411c	guaB2	nonsyn	essential	no
lineage2	3970594	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2	3979990	670	C/G	224	GTG/CTG	V/L	Rv3540c	ltp2	nonsyn	essential	no
lineage2	3993058	374	G/A	125	GGG/GAG	G/E	Rv3554	fdxB	nonsyn	nonessential	no
lineage2	4041581	1360	C/T	454	GCG/ACG	A/T	Rv3598c	lysS	nonsyn	essential	no
lineage2	4056693	.	G/T	.	./.	./.	.	.	inter	.	no
lineage2	4133316	799	A/T	267	ACG/TCG	T/S	Rv3691	.	nonsyn	nonessential	no
lineage2	4167656	473	A/G	158	ATG/ACG	M/T	Rv3722c	.	nonsyn	essential	no
lineage2	4174131	1177	G/C	393	GGA/CGA	G/R	Rv3727	.	nonsyn	nonessential	no
lineage2	4179832	1548	G/C	516	CAG/CAC	Q/H	Rv3729	.	nonsyn	nonessential	no
lineage2	4182387	630	G/C	210	GTG/GTC	V/V	Rv3731	ligC	syn	nonessential	no
lineage2	4205325	49	A/G	17	TGG/CGG	W/R	Rv3759c	proX	nonsyn	nonessential	no
lineage2	4254431	1518	G/A	506	GAC/GAT	D/D	Rv3799c	accD4	syn	essential	yes
lineage2	4284429	1397	G/A	466	CCA/CTA	P/L	Rv3820c	papA2	nonsyn	nonessential	no
lineage2	4290135	1395	C/T	465	CTG/CTA	L/L	Rv3823c	mmpL8	syn	nonessential	no
lineage2	4301075	1264	G/C	422	GAA/CAA	E/Q	Rv3826	fadD23	nonsyn	nonessential	no
lineage2	4308395	520	G/A	174	CTG/TTG	L/L	Rv3834c	serS	syn	essential	no
lineage2	4319985	.	G/C	.	./.	./.	.	.	inter	.	no
lineage2	4357804	1979	T/G	660	GAG/GCG	E/A	Rv3879c	espK	nonsyn	ND	no
lineage2	4362568	853	T/G	285	AGA/CGA	R/R	Rv3882c	eccE1	syn	essential	no
lineage2	4378504	1949	T/C	650	GAT/GGT	D/G	Rv3894c	eccC2	nonsyn	nonessential	no
lineage2.1	10972	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.1	32804	748	G/A	250	GCG/ACG	A/T	Rv0029	.	nonsyn	nonessential	no
lineage2.1	56738	1043	C/T	348	ACC/ATC	T/I	Rv0051	.	nonsyn	nonessential	no
lineage2.1	75247	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.1	90111	188	A/G	63	GAG/GGG	E/G	Rv0082	.	nonsyn	nonessential	no
lineage2.1	91649	1250	C/T	417	GCC/GTC	A/V	Rv0083	.	nonsyn	nonessential	no
lineage2.1	117726	13	G/A	5	GGG/AGG	G/R	Rv0102	.	nonsyn	essential	no
lineage2.1	141889	690	A/G	230	GCA/GCG	A/A	Rv0117	oxyS	syn	nonessential	no
lineage2.1	175994	295	G/A	99	GTA/ATA	V/I	Rv0149	.	nonsyn	nonessential	no
lineage2.1	200697	803	T/G	268	GTC/GGC	V/G	Rv0170	mce1B	nonsyn	essential	no
lineage2.1	203826	1351	G/A	451	GAG/AAG	E/K	Rv0172	mce1D	nonsyn	nonessential	no
lineage2.1	208782	366	A/C	122	ACA/ACC	T/T	Rv0177	.	syn	nonessential	no
lineage2.1	216469	201	C/T	67	GAC/GAT	D/D	Rv0186	bglS	syn	nonessential	no
lineage2.1	300111	693	C/G	231	GCG/GCC	A/A	Rv0248c	.	syn	nonessential	no
lineage2.1	308061	1487	C/T	496	GGC/GAC	G/D	Rv0256c	PPE2	nonsyn	ND	no
lineage2.1	309847	149	A/G	50	AAT/AGT	N/S	Rv0257	.	nonsyn	nonessential	no
lineage2.1	321558	228	C/T	76	CCC/CCT	P/P	Rv0267	narU	syn	nonessential	no
lineage2.1	324809	243	C/G	81	ATC/ATG	I/M	Rv0270	fadD2	nonsyn	nonessential	no
lineage2.1	340343	980	C/T	327	CCG/CTG	P/L	Rv0280	PPE3	nonsyn	ND	no
lineage2.1	344952	931	A/G	311	ACC/GCC	T/A	Rv0283	eccB3	nonsyn	essential	no
lineage2.1	360809	347	G/A	116	CCA/CTA	P/L	Rv0296c	.	nonsyn	nonessential	no
lineage2.1	367492	5273	C/G	1758	GGC/GCC	G/A	Rv0304c	PPE5	nonsyn	ND	no
lineage2.1	372987	2725	T/C	909	ACG/GCG	T/A	Rv0305c	PPE6	nonsyn	ND	no
lineage2.1	401678	1487	C/A	496	CCC/CAC	P/H	Rv0336	.	nonsyn	nonessential	no
lineage2.1	415129	80	A/G	27	GAC/GGC	D/G	Rv0345	.	nonsyn	nonessential	no
lineage2.1	434023	657	C/T	219	TCG/TCA	S/S	Rv0355c	PPE8	syn	ND	no
lineage2.1	475651	302	C/T	101	CCG/CTG	P/L	Rv0396	.	nonsyn	nonessential	no
lineage2.1	477737	820	C/T	274	GCC/ACC	A/T	Rv0399c	lpqK	nonsyn	essential	no
lineage2.1	489240	3510	A/G	1170	CCA/CCG	P/P	Rv0405	pks6	syn	nonessential	no
lineage2.1	506125	1040	C/T	347	GCC/GTC	A/V	Rv0419	lpqM	nonsyn	nonessential	no
lineage2.1	522053	540	C/A	180	GGC/GGA	G/G	Rv0434	.	syn	nonessential	no
lineage2.1	549671	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.1	550941	1267	A/G	423	ATC/GTC	I/V	Rv0458	.	nonsyn	nonessential	no
lineage2.1	565745	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.1	570641	103	C/A	35	CGT/AGT	R/S	Rv0482	murB	nonsyn	nonessential	no
lineage2.1	574139	156	C/T	52	GTC/GTT	V/V	Rv0485	.	syn	nonessential	no
lineage2.1	623842	1050	C/T	350	GGC/GGT	G/G	Rv0532	PE_PGRS6	syn	ND	no
lineage2.1	623851	1059	C/T	353	GGC/GGT	G/G	Rv0532	PE_PGRS6	syn	ND	no
lineage2.1	638899	18	C/A	6	CTG/CTT	L/L	Rv0547c	.	syn	nonessential	no
lineage2.1	643813	925	C/T	309	CCC/TCC	P/S	Rv0552	.	nonsyn	nonessential	no
lineage2.1	648465	507	A/G	169	GCA/GCG	A/A	Rv0556	.	syn	essential	yes
lineage2.1	662624	1330	A/G	444	ATC/GTC	I/V	Rv0570	nrdZ	nonsyn	nonessential	no
lineage2.1	669565	181	T/G	61	ATC/CTC	I/L	Rv0575c	.	nonsyn	nonessential	no
lineage2.1	709200	316	C/A	106	GGC/TGC	G/C	Rv0613c	.	nonsyn	nonessential	no
lineage2.1	717730	164	G/A	55	GCG/GTG	A/V	Rv0625c	.	nonsyn	nonessential	no
lineage2.1	724288	726	C/G	242	GAG/GAC	E/D	Rv0630c	recB	nonsyn	nonessential	no
lineage2.1	726857	1450	G/T	484	CGC/AGC	R/S	Rv0631c	recC	nonsyn	nonessential	no
lineage2.1	741458	1160	C/T	387	GGC/GAC	G/D	Rv0647c	.	nonsyn	nonessential	no
lineage2.1	749176	328	A/G	110	AAG/GAG	K/E	Rv0652	rplL	nonsyn	essential	no
lineage2.1	793696	362	C/G	121	GCC/GGC	A/G	Rv0694	lldD1	nonsyn	nonessential	no
lineage2.1	798769	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2.1	799115	283	C/T	95	CCC/TCC	P/S	Rv0698	.	nonsyn	nonessential	no
lineage2.1	808434	2100	T/G	700	AGT/AGG	S/R	Rv0711	atsA	nonsyn	nonessential	no
lineage2.1	809958	13	G/T	5	GAC/TAC	D/Y	Rv0713	.	nonsyn	nonessential	no
lineage2.1	875561	830	A/G	277	GAC/GGC	D/G	Rv0782	ptrBb	nonsyn	nonessential	no
lineage2.1	911655	684	G/A	228	CCG/CCA	P/P	Rv0818	.	syn	nonessential	no
lineage2.1	945915	978	C/T	326	AAC/AAT	N/N	Rv0848	cysK2	syn	nonessential	no
lineage2.1	967387	347	A/G	116	CTG/CCG	L/P	Rv0870c	.	nonsyn	nonessential	no
lineage2.1	989418	444	T/C	148	GCA/GCG	A/A	Rv0889c	citA	syn	nonessential	no
lineage2.1	1023277	1191	G/A	397	GCG/GCA	A/A	Rv0917	betP	syn	nonessential	no
lineage2.1	1054007	243	G/C	81	ATG/ATC	M/I	Rv0944	.	nonsyn	nonessential	no
lineage2.1	1070687	805	C/G	269	CTG/GTG	L/V	Rv0958	.	nonsyn	nonessential	no
lineage2.1	1073309	.	A/C	.	./.	./.	.	.	inter	.	no
lineage2.1	1075904	194	T/C	65	GAC/GGC	D/G	Rv0963c	.	nonsyn	nonessential	no
lineage2.1	1080013	1271	C/T	424	ACC/ATC	T/I	Rv0969	ctpV	nonsyn	nonessential	no
lineage2.1	1094567	.	C/A	.	./.	./.	.	.	inter	.	no
lineage2.1	1099797	732	C/A	244	GGC/GGA	G/G	Rv0983	pepD	syn	nonessential	no
lineage2.1	1103046	505	G/C	169	GTG/CTG	V/L	Rv0987	.	nonsyn	nonessential	no
lineage2.1	1104944	2403	C/T	801	CGC/CGT	R/R	Rv0987	.	syn	nonessential	no
lineage2.1	1106464	919	G/A	307	CGC/TGC	R/C	Rv0989c	grcC2	nonsyn	nonessential	no
lineage2.1	1111448	1180	A/G	394	ACG/GCG	T/A	Rv0994	moeA1	nonsyn	nonessential	no
lineage2.1	1127469	381	C/T	127	ACC/ACT	T/T	Rv1008	tatD	syn	nonessential	no
lineage2.1	1135498	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.1	1135798	684	C/T	228	CTG/CTA	L/L	Rv1017c	prsA	syn	essential	yes
lineage2.1	1146909	349	C/G	117	CTG/GTG	L/V	Rv1025	.	nonsyn	essential	no
lineage2.1	1171107	1047	G/C	349	GCC/GCG	A/A	Rv1048c	.	syn	nonessential	no
lineage2.1	1181132	449	A/G	150	GAA/GGA	E/G	Rv1058	fadD14	nonsyn	nonessential	no
lineage2.1	1216555	87	C/T	29	AAC/AAT	N/N	Rv1091	PE_PGRS22	syn	ND	no
lineage2.1	1220034	153	C/T	51	GAG/GAA	E/E	Rv1092c	coaA	syn	essential	yes
lineage2.1	1268653	357	G/A	119	GTC/GTT	V/V	Rv1141c	echA11	syn	nonessential	no
lineage2.1	1304443	1513	G/A	505	GCG/ACG	A/T	Rv1173	fbiC	nonsyn	nonessential	no
lineage2.1	1310756	2544	G/C	848	ATC/ATG	I/M	Rv1179c	.	nonsyn	nonessential	no
lineage2.1	1315359	126	C/A	42	GGC/GGA	G/G	Rv1181	pks4	syn	nonessential	no
lineage2.1	1325886	1627	G/T	543	CTC/ATC	L/I	Rv1185c	fadD21	nonsyn	essential	no
lineage2.1	1386936	80	C/G	27	ACC/AGC	T/S	Rv1244	lpqZ	nonsyn	essential	no
lineage2.1	1388682	.	G/A	.	./.	./.	.	.	inter	.	no
lineage2.1	1393812	171	C/T	57	GCG/GCA	A/A	Rv1249c	.	syn	nonessential	no
lineage2.1	1462787	945	C/A	315	GAC/GAA	D/E	Rv1307	atpH	nonsyn	essential	no
lineage2.1	1521997	2036	T/G	679	AAG/ACG	K/T	Rv1355c	moeY	nonsyn	nonessential	no
lineage2.1	1527844	1233	G/A	411	CCG/CCA	P/P	Rv1358	.	syn	nonessential	no
lineage2.1	1533466	168	T/C	56	GGA/GGG	G/G	Rv1361c	PPE19	syn	ND	no
lineage2.1	1570771	199	G/A	67	CAT/TAT	H/Y	Rv1394c	cyp132	nonsyn	nonessential	no
lineage2.1	1589948	58	C/T	20	CTG/TTG	L/L	Rv1414	.	syn	nonessential	no
lineage2.1	1640695	16	C/T	6	CCG/TCG	P/S	Rv1455	.	nonsyn	nonessential	no
lineage2.1	1646283	98	C/T	33	ACT/ATT	T/I	Rv1460	.	nonsyn	essential	no
lineage2.1	1650786	71	C/T	24	CCG/CTG	P/L	Rv1463	.	nonsyn	essential	no
lineage2.1	1655560	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2.1	1679097	156	T/G	52	TGT/TGG	C/W	Rv1489A	.	nonsyn	nonessential	no
lineage2.1	1793561	180	T/G	60	GAA/GAC	E/D	Rv1592c	.	nonsyn	nonessential	no
lineage2.1	1846439	2699	T/C	900	GTC/GCC	V/A	Rv1638	uvrA	nonsyn	nonessential	no
lineage2.1	1878221	2918	T/C	973	CTG/CCG	L/P	Rv1661	pks7	nonsyn	essential	no
lineage2.1	1878222	2919	G/C	973	CTG/CTC	L/L	Rv1661	pks7	syn	essential	yes
lineage2.1	1881090	5787	C/T	1929	GGC/GGT	G/G	Rv1661	pks7	syn	essential	yes
lineage2.1	1901171	125	T/C	42	ATT/ACT	I/T	Rv1676	.	nonsyn	nonessential	no
lineage2.1	2047343	7	C/G	3	GTT/CTT	V/L	Rv1804c	.	nonsyn	nonessential	no
lineage2.1	2069002	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.1	2117686	340	G/A	114	GAG/AAG	E/K	Rv1868	.	nonsyn	nonessential	no
lineage2.1	2119323	1977	C/T	659	GAC/GAT	D/D	Rv1868	.	syn	nonessential	no
lineage2.1	2123850	167	C/T	56	GCG/GTG	A/V	Rv1874	.	nonsyn	nonessential	no
lineage2.1	2131184	674	C/T	225	GGG/GAG	G/E	Rv1880c	cyp140	nonsyn	nonessential	no
lineage2.1	2144094	353	T/C	118	GAC/GGC	D/G	Rv1896c	.	nonsyn	nonessential	no
lineage2.1	2146523	1111	C/T	371	GCG/ACG	A/T	Rv1900c	lipJ	nonsyn	nonessential	no
lineage2.1	2200042	148	C/T	50	GGC/AGC	G/S	Rv1950c	.	nonsyn	nonessential	no
lineage2.1	2239156	153	G/T	51	CCG/CCT	P/P	Rv1996	.	syn	nonessential	no
lineage2.1	2241449	1291	C/T	431	CTG/TTG	L/L	Rv1997	ctpF	syn	nonessential	no
lineage2.1	2258019	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.1	2267535	190	C/T	64	GTG/ATG	V/M	Rv2022c	.	nonsyn	nonessential	no
lineage2.1	2268536	191	G/T	64	GCG/GAG	A/E	Rv2023A	.	nonsyn	nonessential	no
lineage2.1	2310843	.	T/G	.	./.	./.	.	.	inter	.	no
lineage2.1	2317969	2785	G/A	929	CTC/TTC	L/F	Rv2062c	cobN	nonsyn	nonessential	no
lineage2.1	2319843	911	A/G	304	GTG/GCG	V/A	Rv2062c	cobN	nonsyn	nonessential	no
lineage2.1	2321583	133	G/A	45	GTC/ATC	V/I	Rv2064	cobG	nonsyn	nonessential	no
lineage2.1	2344134	141	T/G	47	GCT/GCG	A/A	Rv2087	.	syn	nonessential	no
lineage2.1	2346763	562	C/A	188	GAA/TAA	E/*	Rv2089c	pepE	nonsyn	nonessential	no
lineage2.1	2381021	.	A/C	.	./.	./.	.	.	inter	.	no
lineage2.1	2397228	88	G/A	30	CAG/TAG	Q/*	Rv2137c	.	nonsyn	nonessential	no
lineage2.1	2401841	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2.1	2411810	313	G/A	105	CCG/TCG	P/S	Rv2152c	murC	nonsyn	essential	no
lineage2.1	2423375	1464	G/A	488	GGC/GGT	G/G	Rv2162c	PE_PGRS38	syn	ND	no
lineage2.1	2442398	817	C/T	273	GAC/AAC	D/N	Rv2180c	.	nonsyn	nonessential	no
lineage2.1	2451030	121	C/A	41	GCA/TCA	A/S	Rv2188c	pimB	nonsyn	essential	no
lineage2.1	2459699	22	C/T	8	CCG/TCG	P/S	Rv2196	qcrB	nonsyn	essential	no
lineage2.1	2484526	901	G/C	301	GGC/CGC	G/R	Rv2216	.	nonsyn	nonessential	no
lineage2.1	2545013	316	G/A	106	GTC/ATC	V/I	Rv2270	lppN	nonsyn	nonessential	no
lineage2.1	2573553	539	G/A	180	CGG/CAG	R/Q	Rv2301	cut2	nonsyn	nonessential	no
lineage2.1	2582198	101	T/G	34	GAG/GCG	E/A	Rv2309c	.	nonsyn	nonessential	no
lineage2.1	2603736	487	C/T	163	GAT/AAT	D/N	Rv2330c	lppP	nonsyn	nonessential	no
lineage2.1	2605187	80	C/T	27	GCG/GTG	A/V	Rv2332	mez	nonsyn	nonessential	no
lineage2.1	2606782	1540	G/C	514	CCT/GCT	P/A	Rv2333c	stp	nonsyn	nonessential	no
lineage2.1	2610122	391	A/G	131	AAG/GAG	K/E	Rv2335	cysE	nonsyn	essential	no
lineage2.1	2620214	.	G/C	.	./.	./.	.	.	inter	.	no
lineage2.1	2623273	480	G/A	160	CGC/CGT	R/R	Rv2344c	dgt	syn	nonessential	no
lineage2.1	2648929	1046	C/T	349	CGC/CAC	R/H	Rv2368c	phoH1	nonsyn	nonessential	no
lineage2.1	2672607	3231	G/A	1077	GCC/GCT	A/A	Rv2383c	mbtB	syn	nonessential	no
lineage2.1	2724004	180	C/G	60	GCG/GCC	A/A	Rv2426c	.	syn	nonessential	no
lineage2.1	2730205	356	C/A	119	CGC/CTC	R/L	Rv2434c	.	nonsyn	nonessential	no
lineage2.1	2737453	795	A/C	265	CGT/CGG	R/R	Rv2439c	proB	syn	essential	no
lineage2.1	2778196	4067	G/A	1356	ACC/ATC	T/I	Rv2476c	gdh	nonsyn	ND	no
lineage2.1	2782240	23	T/C	8	AAG/AGG	K/R	Rv2476c	gdh	nonsyn	ND	no
lineage2.1	2783790	253	C/T	85	GTT/ATT	V/I	Rv2477c	.	nonsyn	essential	no
lineage2.1	2796232	1154	G/A	385	GCT/GTT	A/V	Rv2487c	PE_PGRS42	nonsyn	ND	no
lineage2.1	2815465	1416	G/T	472	GCC/GCA	A/A	Rv2501c	accA1	syn	nonessential	no
lineage2.1	2828055	.	G/A	.	./.	./.	.	.	inter	.	no
lineage2.1	2867552	429	A/C	143	CGA/CGC	R/R	Rv2544	lppB	syn	nonessential	no
lineage2.1	2880615	541	G/A	181	GCC/ACC	A/T	Rv2560	.	nonsyn	nonessential	no
lineage2.1	2880668	594	C/T	198	GGC/GGT	G/G	Rv2560	.	syn	nonessential	no
lineage2.1	2887475	1103	G/T	368	GGC/GTC	G/V	Rv2566	.	nonsyn	nonessential	no
lineage2.1	2917291	932	T/C	311	ATC/ACC	I/T	Rv2589	gabT	nonsyn	nonessential	no
lineage2.1	2932819	324	G/T	108	ACC/ACA	T/T	Rv2605c	tesB2	syn	nonessential	no
lineage2.1	2978583	76	C/G	26	GTC/CTC	V/L	Rv2655c	.	nonsyn	ND	no
lineage2.1	3032240	453	G/T	151	CTG/CTT	L/L	Rv2720	lexA	syn	nonessential	no
lineage2.1	3044763	227	A/G	76	CTG/CCG	L/P	Rv2732c	.	nonsyn	nonessential	no
lineage2.1	3063565	750	G/A	250	GCG/GCA	A/A	Rv2750	.	syn	nonessential	no
lineage2.1	3127274	94	G/T	32	CAC/AAC	H/N	Rv2819c	.	nonsyn	nonessential	no
lineage2.1	3136335	265	G/A	89	CGG/TGG	R/W	Rv2828A	.	nonsyn	essential	no
lineage2.1	3139686	799	C/T	267	GCC/ACC	A/T	Rv2833c	ugpB	nonsyn	essential	no
lineage2.1	3223856	825	A/C	275	GCT/GCG	A/A	Rv2915c	.	syn	nonessential	no
lineage2.1	3240567	605	G/A	202	ACA/ATA	T/I	Rv2926c	.	nonsyn	essential	no
lineage2.1	3242930	733	G/C	245	GAG/CAG	E/Q	Rv2928	tesA	nonsyn	nonessential	no
lineage2.1	3247730	2286	A/C	762	GAA/GAC	E/D	Rv2931	ppsA	nonsyn	nonessential	no
lineage2.1	3256848	1164	G/A	388	GCG/GCA	A/A	Rv2933	ppsC	syn	nonessential	no
lineage2.1	3302400	56	C/A	19	TGG/TTG	W/L	Rv2950c	fadD29	nonsyn	nonessential	no
lineage2.1	3309880	411	G/A	137	CTG/CTA	L/L	Rv2957	.	syn	nonessential	no
lineage2.1	3320975	2072	T/C	691	CAG/CGG	Q/R	Rv2967c	pca	nonsyn	essential	no
lineage2.1	3346511	365	A/C	122	GAT/GCT	D/A	Rv2989	.	nonsyn	nonessential	no
lineage2.1	3382910	979	G/A	327	CGC/TGC	R/C	Rv3024c	trmU	nonsyn	nonessential	no
lineage2.1	3405675	540	C/G	180	ACC/ACG	T/T	Rv3044	fecB	syn	nonessential	no
lineage2.1	3421951	1263	A/G	421	AAT/AAC	N/N	Rv3060c	.	syn	nonessential	no
lineage2.1	3424878	550	C/T	184	GGC/AGC	G/S	Rv3061c	fadE22	nonsyn	essential	no
lineage2.1	3436300	23	C/T	8	TGC/TAC	C/Y	Rv3072c	.	nonsyn	nonessential	no
lineage2.1	3444109	1880	G/A	627	GCG/GTG	A/V	Rv3080c	pknK	nonsyn	nonessential	no
lineage2.1	3447102	1063	G/T	355	GCG/TCG	A/S	Rv3081	.	nonsyn	nonessential	no
lineage2.1	3456397	637	A/G	213	ACG/GCG	T/A	Rv3089	fadD13	nonsyn	nonessential	no
lineage2.1	3478092	444	C/G	148	TTC/TTG	F/L	Rv3109	moaA1	nonsyn	essential	no
lineage2.1	3480383	310	A/G	104	AGC/GGC	S/G	Rv3113	.	nonsyn	essential	no
lineage2.1	3483703	928	G/A	310	GCC/ACC	A/T	Rv3116	moeB2	nonsyn	nonessential	no
lineage2.1	3489490	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2.1	3513538	201	A/T	67	GAA/GAT	E/D	Rv3148	nuoD	nonsyn	nonessential	no
lineage2.1	3527396	1768	G/A	590	CCC/TCC	P/S	Rv3159c	PPE53	nonsyn	ND	no
lineage2.1	3534662	690	T/C	230	CCA/CCG	P/P	Rv3166c	.	syn	nonessential	no
lineage2.1	3537016	915	G/A	305	GTG/GTA	V/V	Rv3168	.	syn	essential	yes
lineage2.1	3559689	127	G/T	43	GGC/TGC	G/C	Rv3192	.	nonsyn	nonessential	no
lineage2.1	3572804	866	T/C	289	GAG/GGG	E/G	Rv3200c	.	nonsyn	nonessential	no
lineage2.1	3576359	678	G/A	226	ACC/ACT	T/T	Rv3201c	.	syn	ND	no
lineage2.1	3578190	2011	G/A	671	CTG/TTG	L/L	Rv3202c	.	syn	nonessential	no
lineage2.1	3686038	863	G/T	288	ACG/AAG	T/K	Rv3300c	.	nonsyn	nonessential	no
lineage2.1	3697978	781	A/G	261	ACT/GCT	T/A	Rv3310	sapM	nonsyn	nonessential	no
lineage2.1	3725630	215	A/C	72	GTG/GGG	V/G	Rv3339c	icd1	nonsyn	nonessential	no
lineage2.1	3750177	3008	A/T	1003	TTC/TAC	F/Y	Rv3347c	PPE55	nonsyn	ND	no
lineage2.1	3750178	3007	A/C	1003	TTC/GTC	F/V	Rv3347c	PPE55	nonsyn	ND	no
lineage2.1	3750205	2980	C/T	994	GAC/AAC	D/N	Rv3347c	PPE55	nonsyn	ND	no
lineage2.1	3784492	249	G/A	83	GAC/GAT	D/D	Rv3370c	dnaE2	syn	nonessential	no
lineage2.1	3788150	425	G/A	142	CGG/CAG	R/Q	Rv3373	echA18	nonsyn	nonessential	no
lineage2.1	3798081	409	C/T	137	GGA/AGA	G/R	Rv3383c	idsB	nonsyn	nonessential	no
lineage2.1	3844726	.	G/C	.	./.	./.	.	.	inter	.	no
lineage2.1	3845761	210	G/C	70	GTC/GTG	V/V	Rv3428c	.	syn	ND	no
lineage2.1	3847364	200	C/T	67	GCT/GTT	A/V	Rv3429	PPE59	nonsyn	ND	no
lineage2.1	3847367	203	G/A	68	GGG/GAG	G/E	Rv3429	PPE59	nonsyn	ND	no
lineage2.1	3848451	355	G/A	119	CGC/TGC	R/C	Rv3430c	.	nonsyn	ND	no
lineage2.1	3862009	382	G/C	128	CCG/GCG	P/A	Rv3443c	rplM	nonsyn	essential	no
lineage2.1	3882338	502	C/G	168	CGC/GGC	R/G	Rv3464	rmlB	nonsyn	essential	no
lineage2.1	3907592	.	G/C	.	./.	./.	.	.	inter	.	no
lineage2.1	3920949	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.1	3960940	186	G/A	62	GTG/GTA	V/V	Rv3524	.	syn	nonessential	no
lineage2.1	3961552	798	C/T	266	CAC/CAT	H/H	Rv3524	.	syn	nonessential	no
lineage2.1	3964031	427	G/A	143	GAG/AAG	E/K	Rv3527	.	nonsyn	nonessential	no
lineage2.1	4004893	603	G/A	201	GGG/GGA	G/G	Rv3563	fadE32	syn	essential	yes
lineage2.1	4019099	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2.1	4020620	479	T/C	160	CTG/CCG	L/P	Rv3578	arsB2	nonsyn	nonessential	no
lineage2.1	4074482	849	C/T	283	CCC/CCT	P/P	Rv3635	.	syn	essential	yes
lineage2.1	4090667	1887	G/A	629	TTG/TTA	L/L	Rv3649	.	syn	essential	yes
lineage2.1	4096171	769	A/G	257	TCG/CCG	S/P	Rv3658c	.	nonsyn	essential	no
lineage2.1	4099304	.	G/T	.	./.	./.	.	.	inter	.	no
lineage2.1	4128254	472	G/A	158	CCG/TCG	P/S	Rv3685c	cyp137	nonsyn	nonessential	no
lineage2.1	4137950	745	C/T	249	CCT/TCT	P/S	Rv3695	.	nonsyn	nonessential	no
lineage2.1	4141505	1013	G/C	338	CGG/CCG	R/P	Rv3698	.	nonsyn	nonessential	no
lineage2.1	4143738	183	C/T	61	GCG/GCA	A/A	Rv3700c	.	syn	nonessential	no
lineage2.1	4165481	1251	G/C	417	CCC/CCG	P/P	Rv3721c	dnaZX	syn	essential	yes
lineage2.1	4168959	424	C/G	142	CCG/GCG	P/A	Rv3723	.	nonsyn	essential	no
lineage2.1	4232049	730	G/C	244	GAG/CAG	E/Q	Rv3785	.	nonsyn	nonessential	no
lineage2.1	4233767	770	G/C	257	CCC/CGC	P/R	Rv3787c	.	nonsyn	nonessential	no
lineage2.1	4234805	26	G/A	9	GGG/GAG	G/E	Rv3788	.	nonsyn	nonessential	no
lineage2.1	4246088	2856	A/G	952	CAA/CAG	Q/Q	Rv3794	embA	syn	essential	yes
lineage2.1	4250812	935	C/G	312	CCG/CGG	P/R	Rv3796	.	nonsyn	nonessential	no
lineage2.1	4264825	638	C/G	213	TGG/TCG	W/S	Rv3803c	fbpD	nonsyn	ND	no
lineage2.1	4275985	1188	G/C	396	GAG/GAC	E/D	Rv3811	.	nonsyn	nonessential	no
lineage2.1	4287178	458	C/T	153	GCC/GTC	A/V	Rv3822	.	nonsyn	nonessential	no
lineage2.1	4306758	54	T/A	18	AAA/AAT	K/N	Rv3832c	.	nonsyn	nonessential	no
lineage2.1	4306822	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2.1	4330337	1169	T/C	390	GAC/GGC	D/G	Rv3858c	gltD	nonsyn	essential	no
lineage2.1	4342484	605	T/C	202	ATC/ACC	I/T	Rv3866	espG1	nonsyn	nonessential	no
lineage2.1	4345707	669	C/T	223	GCC/GCT	A/A	Rv3869	eccB1	syn	essential	yes
lineage2.1	4363544	1214	A/G	405	CTT/CCT	L/P	Rv3883c	mycP1	nonsyn	nonessential	no
lineage2.1	4369381	790	C/T	264	GCG/ACG	A/T	Rv3886c	mycP2	nonsyn	nonessential	no
lineage2.1	4395083	892	G/C	298	GAC/CAC	D/H	Rv3909	.	nonsyn	nonessential	no
lineage2.2	16119	1352	C/A	451	CGC/CTC	R/L	Rv0014c	pknB	nonsyn	essential	no
lineage2.2	25610	.	G/C	.	./.	./.	.	.	inter	.	no
lineage2.2	44768	1207	A/G	403	AGG/GGG	R/G	Rv0041	leuS	nonsyn	essential	no
lineage2.2	65150	201	C/T	67	TGG/TGA	W/*	Rv0061c	.	nonsyn	nonessential	no
lineage2.2	94388	438	G/A	146	GGG/GGA	G/G	Rv0086	hycQ	syn	essential	no
lineage2.2	105139	77	C/A	26	GGG/GTG	G/V	Rv0095c	.	nonsyn	nonessential	no
lineage2.2	123454	1138	C/T	380	CAA/TAA	Q/*	Rv0104	.	nonsyn	nonessential	no
lineage2.2	139297	785	G/T	262	GGC/GTC	G/V	Rv0115	hddA	nonsyn	nonessential	no
lineage2.2	195682	690	C/G	230	GTC/GTG	V/V	Rv0166	fadD5	syn	nonessential	no
lineage2.2	213147	994	C/A	332	GAC/TAC	D/Y	Rv0182c	sigG	nonsyn	nonessential	no
lineage2.2	213281	860	C/T	287	GGC/GAC	G/D	Rv0182c	sigG	nonsyn	nonessential	no
lineage2.2	222925	637	G/A	213	GCT/ACT	A/T	Rv0191	.	nonsyn	nonessential	no
lineage2.2	267751	14	G/C	5	GCC/GGC	A/G	Rv0223c	.	nonsyn	nonessential	no
lineage2.2	270430	1135	G/C	379	CCT/GCT	P/A	Rv0226c	.	nonsyn	essential	no
lineage2.2	278021	123	T/C	41	CGT/CGC	R/R	Rv0232	.	syn	nonessential	no
lineage2.2	305188	2323	G/T	775	GTG/TTG	V/L	Rv0252	nirB	nonsyn	nonessential	no
lineage2.2	363464	213	G/A	71	CGG/CGA	R/R	Rv0298	.	syn	nonessential	no
lineage2.2	379528	357	G/T	119	GAG/GAT	E/D	Rv0311	.	nonsyn	essential	no
lineage2.2	456594	226	T/C	76	ATG/GTG	M/V	Rv0380c	.	nonsyn	nonessential	no
lineage2.2	465300	1890	C/T	630	TTC/TTT	F/F	Rv0386	.	syn	nonessential	no
lineage2.2	721373	360	T/G	120	GAA/GAC	E/D	Rv0629c	recD	nonsyn	nonessential	no
lineage2.2	738522	639	T/G	213	GAA/GAC	E/D	Rv0644c	mmaA2	nonsyn	nonessential	no
lineage2.2	779615	426	G/C	142	AAC/AAG	N/K	Rv0679c	.	nonsyn	nonessential	no
lineage2.2	799666	38	A/G	13	GAC/GGC	D/G	Rv0699	.	nonsyn	nonessential	no
lineage2.2	861216	305	T/G	102	CTC/CGC	L/R	Rv0768	aldA	nonsyn	nonessential	no
lineage2.2	866051	1339	G/A	447	CGC/TGC	R/C	Rv0773c	ggtA	nonsyn	nonessential	no
lineage2.2	892416	858	C/T	286	GTG/GTA	V/V	Rv0799c	.	syn	nonessential	no
lineage2.2	919351	203	A/C	68	TTC/TGC	F/C	Rv0825c	.	nonsyn	nonessential	no
lineage2.2	996205	91	T/C	31	AAG/GAG	K/E	Rv0893c	.	nonsyn	nonessential	no
lineage2.2	1028217	533	G/A	178	GGC/GAC	G/D	Rv0922	.	nonsyn	ND	no
lineage2.2	1034758	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2	1071966	712	A/G	238	AAC/GAC	N/D	Rv0959	.	nonsyn	nonessential	no
lineage2.2	1076880	318	C/A	106	GCG/GCT	A/A	Rv0965c	.	syn	nonessential	no
lineage2.2	1097442	621	C/T	207	GAC/GAT	D/D	Rv0981	mprA	syn	nonessential	no
lineage2.2	1102117	315	G/A	105	GTG/GTA	V/V	Rv0986	.	syn	nonessential	no
lineage2.2	1102646	105	G/A	35	GCG/GCA	A/A	Rv0987	.	syn	nonessential	no
lineage2.2	1145848	1285	A/C	429	AAA/CAA	K/Q	Rv1023	eno	nonsyn	essential	no
lineage2.2	1172085	69	C/A	23	GAG/GAT	E/D	Rv1048c	.	nonsyn	nonessential	no
lineage2.2	1197157	.	T/G	.	./.	./.	.	.	inter	.	no
lineage2.2	1285001	10	A/C	4	ACC/CCC	T/P	Rv1159	pimE	nonsyn	nonessential	no
lineage2.2	1288698	1371	G/A	457	GGG/GGA	G/G	Rv1161	narG	syn	nonessential	no
lineage2.2	1299305	500	G/A	167	CCG/CTG	P/L	Rv1168c	PPE17	nonsyn	ND	no
lineage2.2	1322741	1222	A/G	408	ACT/GCT	T/A	Rv1183	mmpL10	nonsyn	essential	no
lineage2.2	1361285	517	C/T	173	GCT/ACT	A/T	Rv1217c	.	nonsyn	nonessential	no
lineage2.2	1370852	.	T/G	.	./.	./.	.	.	inter	.	no
lineage2.2	1594906	865	G/A	289	GTC/ATC	V/I	Rv1420	uvrC	nonsyn	essential	no
lineage2.2	1617302	85	G/T	29	CTT/ATT	L/I	Rv1439c	.	nonsyn	nonessential	no
lineage2.2	1620181	391	C/G	131	CTC/GTC	L/V	Rv1442	bisC	nonsyn	nonessential	no
lineage2.2	1647436	448	G/A	150	GTA/ATA	V/I	Rv1461	.	nonsyn	ND	no
lineage2.2	1688064	124	A/G	42	ATG/GTG	M/V	Rv1497	lipL	nonsyn	nonessential	no
lineage2.2	1695037	108	G/A	36	TTC/TTT	F/F	Rv1504c	.	syn	nonessential	no
lineage2.2	1701215	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2	1733325	226	C/G	76	GCT/CCT	A/P	Rv1532c	.	nonsyn	nonessential	no
lineage2.2	1849051	2985	C/T	995	CCG/CCA	P/P	Rv1640c	lysX	syn	essential	yes
lineage2.2	1885385	3682	T/G	1228	TTG/GTG	L/V	Rv1662	pks8	nonsyn	essential	no
lineage2.2	1902337	.	A/C	.	./.	./.	.	.	inter	.	no
lineage2.2	1967026	612	C/T	204	GCG/GCA	A/A	Rv1739c	.	syn	nonessential	no
lineage2.2	2097270	394	C/T	132	CGG/TGG	R/W	Rv1847	.	nonsyn	nonessential	no
lineage2.2	2112832	135	A/C	45	GCT/GCG	A/A	Rv1865c	.	syn	nonessential	no
lineage2.2	2142266	.	C/A	.	./.	./.	.	.	inter	.	no
lineage2.2	2177366	280	C/T	94	CGC/TGC	R/C	Rv1925	fadD31	nonsyn	nonessential	no
lineage2.2	2202500	363	C/T	121	CAC/CAT	H/H	Rv1956	higA	syn	nonessential	no
lineage2.2	2245864	656	C/A	219	CCG/CAG	P/Q	Rv2000	.	nonsyn	nonessential	no
lineage2.2	2315386	213	C/A	71	CAC/CAA	H/Q	Rv2059	.	nonsyn	nonessential	no
lineage2.2	2354791	520	A/G	174	TCG/CCG	S/P	Rv2096c	pafB	nonsyn	nonessential	no
lineage2.2	2505085	615	G/A	205	GCC/GCT	A/A	Rv2231c	cobC	syn	essential	yes
lineage2.2	2546684	122	C/A	41	GGT/GTT	G/V	Rv2274c	mazF8	nonsyn	nonessential	no
lineage2.2	2551576	17	C/G	6	GCT/GGT	A/G	Rv2280	.	nonsyn	nonessential	no
lineage2.2	2551577	18	T/C	6	GCT/GCC	A/A	Rv2280	.	syn	nonessential	no
lineage2.2	2581052	634	G/A	212	GAC/AAC	D/N	Rv2308	.	nonsyn	nonessential	no
lineage2.2	2601760	1030	G/A	344	GCC/ACC	A/T	Rv2328	PE23	nonsyn	ND	no
lineage2.2	2612256	732	G/T	244	CTC/CTA	L/L	Rv2337c	.	syn	nonessential	no
lineage2.2	2692100	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2	2706663	671	G/T	224	ACC/AAC	T/N	Rv2409c	.	nonsyn	nonessential	no
lineage2.2	2738274	1413	A/C	471	AGT/AGG	S/R	Rv2440c	obg	nonsyn	essential	no
lineage2.2	2775361	90	C/T	30	CGC/CGT	R/R	Rv2472	.	syn	essential	yes
lineage2.2	2793810	179	C/T	60	CGC/CAC	R/H	Rv2485c	lipQ	nonsyn	nonessential	no
lineage2.2	2850631	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.2	2881974	217	G/C	73	GCC/CCC	A/P	Rv2562	.	nonsyn	nonessential	no
lineage2.2	2903439	93	G/A	31	AGC/AGT	S/S	Rv2578c	.	syn	nonessential	no
lineage2.2	2955957	191	A/C	64	GAT/GCT	D/A	Rv2629	.	nonsyn	nonessential	no
lineage2.2	2980861	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2.2	3009834	491	A/G	164	GAT/GGT	D/G	Rv2691	ceoB	nonsyn	nonessential	no
lineage2.2	3135606	.	A/T	.	./.	./.	.	.	inter	.	no
lineage2.2	3137736	466	G/T	156	GAC/TAC	D/Y	Rv2831	echA16	nonsyn	nonessential	no
lineage2.2	3144623	549	C/T	183	GAG/GAA	E/E	Rv2838c	rbfA	syn	nonessential	no
lineage2.2	3177452	.	C/A	.	./.	./.	.	.	inter	.	no
lineage2.2	3200282	17	C/T	6	GCG/GTG	A/V	Rv2891	.	nonsyn	nonessential	no
lineage2.2	3249025	3581	T/G	1194	CTA/CGA	L/R	Rv2931	ppsA	nonsyn	nonessential	no
lineage2.2	3310626	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.2	3408150	157	T/C	53	ACA/GCA	T/A	Rv3047c	.	nonsyn	nonessential	no
lineage2.2	3477942	294	A/G	98	ACA/ACG	T/T	Rv3109	moaA1	syn	essential	yes
lineage2.2	3500149	601	G/A	201	CTG/TTG	L/L	Rv3134c	.	syn	nonessential	no
lineage2.2	3509626	.	C/A	.	./.	./.	.	.	inter	.	no
lineage2.2	3550347	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2	3550789	75	C/G	25	GCC/GCG	A/A	Rv3183	.	syn	nonessential	no
lineage2.2	3587446	94	G/A	32	CTG/TTG	L/L	Rv3210c	.	syn	essential	yes
lineage2.2	3612813	304	T/C	102	ACG/GCG	T/A	Rv3236c	.	nonsyn	essential	no
lineage2.2	3628520	1128	G/A	376	TCC/TCT	S/S	Rv3248c	sahH	syn	essential	no
lineage2.2	3643985	809	A/C	270	GAG/GCG	E/A	Rv3263	.	nonsyn	nonessential	no
lineage2.2	3680932	4158	G/A	1386	CCG/CCA	P/P	Rv3296	lhr	syn	ND	no
lineage2.2	3704770	334	A/G	112	ACC/GCC	T/A	Rv3317	sdhD	nonsyn	nonessential	no
lineage2.2	3743656	.	G/A	.	./.	./.	.	.	inter	.	no
lineage2.2	3754508	526	G/C	176	CTC/GTC	L/V	Rv3349c	.	nonsyn	ND	no
lineage2.2	3798596	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2.2	3811675	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2.2	3895585	1160	C/T	387	CCC/CTC	P/L	Rv3478	PPE60	nonsyn	ND	no
lineage2.2	3906311	697	G/A	233	CGT/TGT	R/C	Rv3487c	lipF	nonsyn	nonessential	no
lineage2.2	3962187	138	G/A	46	GAC/GAT	D/D	Rv3525c	.	syn	nonessential	no
lineage2.2	3964518	675	G/A	225	CCC/CCT	P/P	Rv3528c	.	syn	nonessential	no
lineage2.2	4022388	6	G/A	2	CCC/CCT	P/P	Rv3579c	.	syn	essential	no
lineage2.2	4060588	4	T/C	2	ACC/GCC	T/A	Rv3620c	esxW	nonsyn	nonessential	no
lineage2.2	4115890	5	G/C	2	CCC/CGC	P/R	Rv3674c	nth	nonsyn	nonessential	no
lineage2.2	4120390	596	G/C	199	GGA/GCA	G/A	Rv3680	.	nonsyn	nonessential	no
lineage2.2	4186678	45	G/A	15	CTG/CTA	L/L	Rv3736	.	syn	nonessential	no
lineage2.2	4243460	228	C/T	76	TGC/TGT	C/C	Rv3794	embA	syn	essential	no
lineage2.2	4252066	982	T/C	328	TCG/CCG	S/P	Rv3797	fadE35	nonsyn	nonessential	no
lineage2.2	4280708	81	G/A	27	GTC/GTT	V/V	Rv3815c	.	syn	nonessential	no
lineage2.2	4340028	.	G/C	.	./.	./.	.	.	inter	.	no
lineage2.2	4359653	130	C/T	44	GAT/AAT	D/N	Rv3879c	espK	nonsyn	ND	no
lineage2.2	4359828	.	G/A	.	./.	./.	.	.	inter	.	no
lineage2.2	4368084	438	G/C	146	GTC/GTG	V/V	Rv3885c	eccE2	syn	nonessential	no
lineage2.2	4407927	276	T/G	92	GAA/GAC	E/D	Rv3919c	gid	nonsyn	nonessential	no
lineage2.2.1	35608	1314	C/T	438	GCC/GCT	A/A	Rv0032	bioF2	syn	nonessential	no
lineage2.2.1	135329	1380	C/T	460	CCC/CCT	P/P	Rv0111	.	syn	nonessential	no
lineage2.2.1	163705	340	C/T	114	CCT/TCT	P/S	Rv0136	cyp138	nonsyn	nonessential	no
lineage2.2.1	163706	341	C/T	114	CCT/CTT	P/L	Rv0136	cyp138	nonsyn	nonessential	no
lineage2.2.1	215977	263	C/T	88	GCG/GTG	A/V	Rv0185	.	nonsyn	nonessential	no
lineage2.2.1	533547	243	C/G	81	GAG/GAC	E/D	Rv0444c	rskA	nonsyn	nonessential	no
lineage2.2.1	561776	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.1	561777	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.1	797736	804	C/T	268	CTC/CTT	L/L	Rv0697	.	syn	essential	yes
lineage2.2.1	1215742	144	G/A	48	CAG/CAA	Q/Q	Rv1090	celA2b	syn	nonessential	no
lineage2.2.1	1215743	145	C/A	49	CAG/AAG	Q/K	Rv1090	celA2b	nonsyn	nonessential	no
lineage2.2.1	1576527	270	G/C	90	TTC/TTG	F/L	Rv1400c	lipI	nonsyn	nonessential	no
lineage2.2.1	1669158	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.2.1	1888373	348	T/C	116	GCT/GCC	A/A	Rv1664	pks9	syn	nonessential	no
lineage2.2.1	1906078	829	A/G	277	ACC/GCC	T/A	Rv1681	moeX	nonsyn	nonessential	no
lineage2.2.1	2078246	2370	C/G	790	GGC/GGG	G/G	Rv1832	gcvB	syn	essential	no
lineage2.2.1	2251605	279	G/A	93	AGC/AGT	S/S	Rv2005c	.	syn	nonessential	no
lineage2.2.1	2314689	137	C/A	46	CGT/CTT	R/L	Rv2057c	rpmG1	nonsyn	nonessential	no
lineage2.2.1	2344499	89	T/G	30	CTG/CGG	L/R	Rv2088	pknJ	nonsyn	nonessential	no
lineage2.2.1	2536599	1752	C/T	584	GGG/GGA	G/G	Rv2264c	.	syn	nonessential	no
lineage2.2.1	2627618	1081	C/A	361	GGC/TGC	G/C	Rv2349c	plcC	nonsyn	nonessential	no
lineage2.2.1	2794071	.	G/A	.	./.	./.	.	.	inter	.	no
lineage2.2.1	2825581	1509	T/G	503	ATA/ATC	I/I	Rv2510c	.	syn	essential	no
lineage2.2.1	3412611	1556	T/C	519	CAG/CGG	Q/R	Rv3051c	nrdE	nonsyn	essential	no
lineage2.2.1	3498198	1068	C/T	356	GAG/GAA	E/E	Rv3132c	devS	syn	essential	yes
lineage2.2.1	3626562	52	G/A	18	CCG/TCG	P/S	Rv3245c	mtrB	nonsyn	essential	no
lineage2.2.1	3883178	345	A/C	115	GAA/GAC	E/D	Rv3465	rmlC	nonsyn	essential	no
lineage2.2.1	3976595	1227	G/T	409	AGG/AGT	R/S	Rv3537	kstD	nonsyn	nonessential	no
lineage2.2.1	4158493	267	C/T	89	ATC/ATT	I/I	Rv3713	cobQ2	syn	essential	no
lineage2.2.1	4160371	130	C/T	44	GGT/AGT	G/S	Rv3715c	recR	nonsyn	nonessential	no
lineage2.2.1	4218416	410	C/A	137	GGG/GTG	G/V	Rv3773c	.	nonsyn	nonessential	no
lineage2.2.1	4236237	459	C/T	153	ACC/ACT	T/T	Rv3790	dprE1	syn	essential	no
lineage2.2.1	4311664	44	C/T	15	GGC/GAC	G/D	Rv3837c	.	nonsyn	nonessential	no
lineage2.2.1.1	57298	1603	C/G	535	CGG/GGG	R/G	Rv0051	.	nonsyn	nonessential	no
lineage2.2.1.1	515527	290	G/A	97	CCC/CTC	P/L	Rv0426c	.	nonsyn	nonessential	no
lineage2.2.1.1	671385	220	C/G	74	CCG/GCG	P/A	Rv0577	TB27.3	nonsyn	nonessential	no
lineage2.2.1.1	731015	19	A/G	7	TAC/CAC	Y/H	Rv0634c	.	nonsyn	nonessential	no
lineage2.2.1.1	1128883	793	G/A	265	GTG/ATG	V/M	Rv1009	rpfB	nonsyn	nonessential	no
lineage2.2.1.1	1267597	251	G/A	84	GGC/GAC	G/D	Rv1140	.	nonsyn	nonessential	no
lineage2.2.1.1	1351407	217	C/G	73	CGG/GGG	R/G	Rv1207	folP2	nonsyn	nonessential	no
lineage2.2.1.1	1701684	390	G/A	130	CTG/CTA	L/L	Rv1510	.	syn	nonessential	no
lineage2.2.1.1	1770945	657	C/T	219	GAG/GAA	E/E	Rv1564c	treX	syn	nonessential	no
lineage2.2.1.1	1844339	599	A/G	200	GAC/GGC	D/G	Rv1638	uvrA	nonsyn	nonessential	no
lineage2.2.1.1	1891388	163	C/G	55	CCG/GCG	P/A	Rv1665	pks11	nonsyn	nonessential	no
lineage2.2.1.1	1947282	138	A/G	46	CGT/CGC	R/R	Rv1720c	vapC12	syn	nonessential	no
lineage2.2.1.1	2161902	337	G/A	113	GAC/AAC	D/N	Rv1916	aceAb	nonsyn	nonessential	no
lineage2.2.1.1	2336125	771	T/G	257	AAT/AAG	N/K	Rv2079	.	nonsyn	nonessential	no
lineage2.2.1.1	2336129	775	A/G	259	AAC/GAC	N/D	Rv2079	.	nonsyn	nonessential	no
lineage2.2.1.1	2336130	776	A/G	259	AAC/AGC	N/S	Rv2079	.	nonsyn	nonessential	no
lineage2.2.1.1	2714846	487	C/T	163	GTC/ATC	V/I	Rv2416c	eis	nonsyn	nonessential	no
lineage2.2.1.1	2780415	1848	G/A	616	GCC/GCT	A/A	Rv2476c	gdh	syn	ND	no
lineage2.2.1.1	2891379	1585	A/C	529	ACC/CCC	T/P	Rv2567	.	nonsyn	nonessential	no
lineage2.2.1.1	3028884	787	C/T	263	CCG/TCG	P/S	Rv2715	.	nonsyn	ND	no
lineage2.2.1.1	3535572	486	C/A	162	TTG/TTT	L/F	Rv3167c	.	nonsyn	nonessential	no
lineage2.2.1.1	4080525	36	C/T	12	CGG/CGA	R/R	Rv3641c	fic	syn	nonessential	no
lineage2.2.1.1	4109342	1551	G/A	517	GCG/GCA	A/A	Rv3667	acs	syn	nonessential	no
lineage2.2.1.1	4248115	1602	C/T	534	GAC/GAT	D/D	Rv3795	embB	syn	essential	yes
lineage2.2.1.1	4370038	133	G/T	45	CCT/ACT	P/T	Rv3886c	mycP2	nonsyn	nonessential	no
lineage2.2.1.2	27577	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	28278	684	C/T	228	GGC/GGT	G/G	Rv0023	.	syn	nonessential	no
lineage2.2.1.2	324806	240	C/T	80	GTC/GTT	V/V	Rv0270	fadD2	syn	nonessential	no
lineage2.2.1.2	482801	431	C/T	144	GGT/GAT	G/D	Rv0402c	mmpL1	nonsyn	nonessential	no
lineage2.2.1.2	638440	477	G/A	159	CGC/CGT	R/R	Rv0547c	.	syn	nonessential	no
lineage2.2.1.2	738837	324	G/T	108	GAC/GAA	D/E	Rv0644c	mmaA2	nonsyn	nonessential	no
lineage2.2.1.2	794668	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	828812	673	T/G	225	TCG/GCG	S/A	Rv0736	rslA	nonsyn	essential	no
lineage2.2.1.2	836658	958	A/G	320	ACC/GCC	T/A	Rv0746	PE_PGRS9	nonsyn	ND	no
lineage2.2.1.2	919869	236	A/G	79	AAT/AGT	N/S	Rv0826	.	nonsyn	nonessential	no
lineage2.2.1.2	988604	1372	G/C	458	GAG/CAG	E/Q	Rv0888	.	nonsyn	nonessential	no
lineage2.2.1.2	1042114	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	1067644	84	T/G	28	TCT/TCG	S/S	Rv0956	purN	syn	nonessential	no
lineage2.2.1.2	1096205	247	T/C	83	AGC/GGC	S/G	Rv0980c	PE_PGRS18	nonsyn	ND	no
lineage2.2.1.2	1106838	545	G/C	182	GCA/GGA	A/G	Rv0989c	grcC2	nonsyn	nonessential	no
lineage2.2.1.2	1440195	1289	A/C	430	CAC/CCC	H/P	Rv1286	cysN	nonsyn	essential	no
lineage2.2.1.2	1479088	31	C/T	11	GCG/ACG	A/T	Rv1317c	alkA	nonsyn	nonessential	no
lineage2.2.1.2	1497353	1837	C/T	613	GAT/AAT	D/N	Rv1329c	dinG	nonsyn	nonessential	no
lineage2.2.1.2	1501733	135	C/T	45	GTC/GTT	V/V	Rv1333	.	syn	essential	no
lineage2.2.1.2	1535129	264	T/G	88	GCA/GCC	A/A	Rv1363c	.	syn	nonessential	no
lineage2.2.1.2	1682828	672	C/T	224	GCC/GCT	A/A	Rv1492	mutA	syn	nonessential	no
lineage2.2.1.2	1692069	180	A/G	60	GCA/GCG	A/A	Rv1501	.	syn	nonessential	no
lineage2.2.1.2	1693509	586	C/T	196	CGC/TGC	R/C	Rv1502	.	nonsyn	nonessential	no
lineage2.2.1.2	2053560	118	G/A	40	GCT/ACT	A/T	Rv1811	mgtC	nonsyn	nonessential	no
lineage2.2.1.2	2053561	119	C/T	40	GCT/GTT	A/V	Rv1811	mgtC	nonsyn	nonessential	no
lineage2.2.1.2	2132334	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	2259579	254	T/G	85	CTG/CGG	L/R	Rv2012	.	nonsyn	nonessential	no
lineage2.2.1.2	2330097	50	T/C	17	GAG/GGG	E/G	Rv2072c	cobL	nonsyn	essential	no
lineage2.2.1.2	2352064	.	G/T	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	2352065	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	2415656	739	G/C	247	CGG/GGG	R/G	Rv2155c	murD	nonsyn	essential	no
lineage2.2.1.2	2462934	114	G/C	38	GGC/GGG	G/G	Rv2198c	mmpS3	syn	nonessential	no
lineage2.2.1.2	2498921	90	G/C	30	GAG/GAC	E/D	Rv2226	.	nonsyn	nonessential	no
lineage2.2.1.2	2557987	515	A/C	172	GAC/GCC	D/A	Rv2285	.	nonsyn	nonessential	no
lineage2.2.1.2	2559155	415	C/T	139	GCG/ACG	A/T	Rv2286c	.	nonsyn	nonessential	no
lineage2.2.1.2	2689642	1633	G/T	545	GTC/TTC	V/F	Rv2394	ggtB	nonsyn	nonessential	no
lineage2.2.1.2	2797353	33	C/T	11	CTG/CTA	L/L	Rv2487c	PE_PGRS42	syn	ND	no
lineage2.2.1.2	2807724	447	G/A	149	TTG/TTA	L/L	Rv2492	.	syn	nonessential	no
lineage2.2.1.2	2826039	1051	G/C	351	CAG/GAG	Q/E	Rv2510c	.	nonsyn	essential	no
lineage2.2.1.2	3022215	377	G/C	126	CGG/CCG	R/P	Rv2709	.	nonsyn	nonessential	no
lineage2.2.1.2	3030956	.	T/G	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	3162805	538	C/G	180	CGC/GGC	R/G	Rv2853	PE_PGRS48	nonsyn	ND	no
lineage2.2.1.2	3544319	1460	T/C	487	CTA/CCA	L/P	Rv3175	.	nonsyn	nonessential	no
lineage2.2.1.2	3778753	186	C/G	62	TAC/TAG	Y/*	Rv3367	PE_PGRS51	nonsyn	ND	no
lineage2.2.1.2	3781103	126	G/A	42	CTG/CTA	L/L	Rv3369	.	syn	nonessential	no
lineage2.2.1.2	3836274	618	G/A	206	TTC/TTT	F/F	Rv3417c	groEL1	syn	essential	yes
lineage2.2.1.2	3942640	917	T/C	306	ATT/ACT	I/T	Rv3512	PE_PGRS56	nonsyn	ND	no
lineage2.2.1.2	3952509	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.1.2	3967398	423	G/A	141	GTC/GTT	V/V	Rv3530c	.	syn	nonessential	no
lineage2.2.1.2	4037283	768	T/G	256	GGA/GGC	G/G	Rv3595c	PE_PGRS59	syn	ND	no
lineage2.2.1.2	4107921	130	G/A	44	GCC/ACC	A/T	Rv3667	acs	nonsyn	nonessential	no
lineage2.2.1.2	4114749	409	C/A	137	GCC/TCC	A/S	Rv3673c	.	nonsyn	nonessential	no
lineage2.2.1.2	4384120	.	G/A	.	./.	./.	.	.	inter	.	no
lineage2.2.2	15890	1581	G/A	527	AGC/AGT	S/S	Rv0014c	pknB	syn	essential	yes
lineage2.2.2	27455	.	T/C	.	./.	./.	.	.	inter	.	no
lineage2.2.2	65246	105	C/T	35	CAG/CAA	Q/Q	Rv0061c	.	syn	nonessential	no
lineage2.2.2	71914	94	T/C	32	TCG/CCG	S/P	Rv0065	vapC1	nonsyn	nonessential	no
lineage2.2.2	105007	209	C/G	70	AGC/ACC	S/T	Rv0095c	.	nonsyn	nonessential	no
lineage2.2.2	154990	759	G/T	253	CGG/CGT	R/R	Rv0127	mak	syn	essential	yes
lineage2.2.2	163940	575	A/G	192	AAA/AGA	K/R	Rv0136	cyp138	nonsyn	nonessential	no
lineage2.2.2	239733	1560	G/T	520	TTC/TTA	F/L	Rv0202c	mmpL11	nonsyn	nonessential	no
lineage2.2.2	252900	1119	C/T	373	GAC/GAT	D/D	Rv0211	pckA	syn	nonessential	no
lineage2.2.2	287747	562	A/C	188	ACG/CCG	T/P	Rv0237	lpqI	nonsyn	nonessential	no
lineage2.2.2	294596	1038	T/G	346	ACA/ACC	T/T	Rv0244c	fadE5	syn	nonessential	no
lineage2.2.2	346693	1059	G/T	353	TCG/TCT	S/S	Rv0284	eccC3	syn	essential	yes
lineage2.2.2	369593	3172	C/T	1058	GAC/AAC	D/N	Rv0304c	PPE5	nonsyn	ND	no
lineage2.2.2	370257	2508	G/C	836	ACC/ACG	T/T	Rv0304c	PPE5	syn	ND	no
lineage2.2.2	393387	659	C/T	220	CGC/CAC	R/H	Rv0327c	cyp135A1	nonsyn	nonessential	no
lineage2.2.2	449194	192	G/A	64	GGC/GGT	G/G	Rv0372c	.	syn	essential	yes
lineage2.2.2	456299	521	C/G	174	CGG/CCG	R/P	Rv0380c	.	nonsyn	nonessential	no
lineage2.2.2	505843	758	A/G	253	GAA/GGA	E/G	Rv0419	lpqM	nonsyn	nonessential	no
lineage2.2.2	716025	656	C/T	219	CCA/CTA	P/L	Rv0622	.	nonsyn	nonessential	no
lineage2.2.2	825655	856	C/A	286	CAC/AAC	H/N	Rv0732	secY	nonsyn	essential	no
lineage2.2.2	846704	546	C/T	182	ACC/ACT	T/T	Rv0754	PE_PGRS11	syn	ND	no
lineage2.2.2	917596	51	C/A	17	CCG/CCT	P/P	Rv0823c	.	syn	nonessential	no
lineage2.2.2	938240	129	G/C	43	CCG/CCC	P/P	Rv0842	.	syn	nonessential	no
lineage2.2.2	955127	51	A/C	17	AAA/AAC	K/N	Rv0859	fadA	nonsyn	nonessential	no
lineage2.2.2	994382	530	C/T	177	ACC/ATC	T/I	Rv0892	.	nonsyn	nonessential	no
lineage2.2.2	1021776	.	A/G	.	./.	./.	.	.	inter	.	no
lineage2.2.2	1047873	1738	C/T	580	CTG/TTG	L/L	Rv0938	ligD	syn	nonessential	no
lineage2.2.2	1053912	148	T/C	50	TAT/CAT	Y/H	Rv0944	.	nonsyn	nonessential	no
lineage2.2.2	1065793	667	T/G	223	TAT/GAT	Y/D	Rv0954	.	nonsyn	nonessential	no
lineage2.2.2	1106614	769	G/T	257	CTG/ATG	L/M	Rv0989c	grcC2	nonsyn	nonessential	no
lineage2.2.2	1174655	46	C/T	16	GAC/AAC	D/N	Rv1051c	.	nonsyn	nonessential	no
lineage2.2.2	1190472	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.2	1197567	337	G/C	113	GTG/CTG	V/L	Rv1073	.	nonsyn	nonessential	no
lineage2.2.2	1246500	553	C/T	185	GAG/AAG	E/K	Rv1123c	bpoB	nonsyn	nonessential	no
lineage2.2.2	1276232	.	C/A	.	./.	./.	.	.	inter	.	no
lineage2.2.2	1302482	200	C/T	67	CGG/CAG	R/Q	Rv1172c	PE12	nonsyn	ND	no
lineage2.2.2	1511460	615	C/T	205	ACC/ACT	T/T	Rv1346	mbtN	syn	nonessential	no
lineage2.2.2	1565566	126	C/T	42	CCC/CCT	P/P	Rv1391	dfp	syn	essential	yes
lineage2.2.2	1718152	500	T/C	167	GTC/GCC	V/A	Rv1523	.	nonsyn	nonessential	no
lineage2.2.2	1731293	.	C/G	.	./.	./.	.	.	inter	.	no
lineage2.2.2	1750386	2693	C/T	898	TCG/TTG	S/L	Rv1547	dnaE1	nonsyn	essential	no
lineage2.2.2	1758588	908	A/G	303	GAC/GGC	D/G	Rv1552	frdA	nonsyn	nonessential	no
lineage2.2.2	1762216	473	C/G	158	GCC/GGC	A/G	Rv1557	mmpL6	nonsyn	nonessential	no
lineage2.2.2	1790479	196	C/G	66	CGC/GGC	R/G	Rv1589	bioB	nonsyn	essential	no
lineage2.2.2	1935437	556	C/T	186	CCG/TCG	P/S	Rv1707	.	nonsyn	nonessential	no
lineage2.2.2	2027030	241	G/A	81	GCG/ACG	A/T	Rv1789	PPE26	nonsyn	ND	no
lineage2.2.2	2128870	849	A/G	283	CTA/CTG	L/L	Rv1878	glnA3	syn	nonessential	no
lineage2.2.2	2140076	336	G/A	112	ATG/ATA	M/I	Rv1891	.	nonsyn	nonessential	no
lineage2.2.2	2141368	502	C/T	168	GTG/ATG	V/M	Rv1894c	.	nonsyn	nonessential	no
lineage2.2.2	2185009	1180	C/T	394	GAG/AAG	E/K	Rv1934c	fadE17	nonsyn	nonessential	no
lineage2.2.2	2602454	1008	T/G	336	ATA/ATC	I/I	Rv2329c	narK1	syn	nonessential	no
lineage2.2.2	2619799	203	A/C	68	GAG/GCG	E/A	Rv2341	lppQ	nonsyn	nonessential	no
lineage2.2.2	2640807	258	G/A	86	GTC/GTT	V/V	Rv2357c	glyS	syn	essential	yes
lineage2.2.2	2852598	74	G/C	25	GCC/GGC	A/G	Rv2528c	mrr	nonsyn	nonessential	no
lineage2.2.2	2881542	134	C/G	45	GCC/GGC	A/G	Rv2561	.	nonsyn	nonessential	no
lineage2.2.2	2883217	928	G/C	310	GTA/CTA	V/L	Rv2563	.	nonsyn	nonessential	no
lineage2.2.2	2903643	5	C/A	2	ACA/AAA	T/K	Rv2579	dhaA	nonsyn	nonessential	no
lineage2.2.2	3005014	637	A/G	213	TGC/CGC	C/R	Rv2688c	.	nonsyn	nonessential	no
lineage2.2.2	3057256	808	G/A	270	CAG/TAG	Q/*	Rv2744c	35kd_ag	nonsyn	nonessential	no
lineage2.2.2	3128345	619	C/G	207	GTC/CTC	V/L	Rv2821c	.	nonsyn	nonessential	no
lineage2.2.2	3134017	577	G/T	193	CGA/AGA	R/R	Rv2826c	.	syn	nonessential	no
lineage2.2.2	3147511	363	T/G	121	GCA/GCC	A/A	Rv2839c	infB	syn	essential	no
lineage2.2.2	3150049	.	G/T	.	./.	./.	.	.	inter	.	no
lineage2.2.2	3162021	41	G/C	14	GCG/GGG	A/G	Rv2852c	mqo	nonsyn	nonessential	no
lineage2.2.2	3187987	.	C/T	.	./.	./.	.	.	inter	.	no
lineage2.2.2	3312401	438	A/C	146	ATT/ATG	I/M	Rv2959c	.	nonsyn	nonessential	no
lineage2.2.2	3375807	50	T/C	17	ATT/ACT	I/T	Rv3016	lpqA	nonsyn	nonessential	no
lineage2.2.2	3418386	277	C/T	93	GTG/ATG	V/M	Rv3057c	.	nonsyn	nonessential	no
lineage2.2.2	3438664	310	G/C	104	CCC/GCC	P/A	Rv3075c	.	nonsyn	nonessential	no
lineage2.2.2	3526873	1084	G/A	362	GCC/ACC	A/T	Rv3158	nuoN	nonsyn	nonessential	no
lineage2.2.2	3581476	162	C/T	54	CCC/CCT	P/P	Rv3204	.	syn	nonessential	no
lineage2.2.2	3581967	539	G/C	180	GCC/GGC	A/G	Rv3205c	.	nonsyn	nonessential	no
lineage2.2.2	3734189	2747	A/T	916	CTC/CAC	L/H	Rv3343c	PPE54	nonsyn	ND	no
lineage2.2.2	3736276	660	G/A	220	GGC/GGT	G/G	Rv3343c	PPE54	syn	ND	no
lineage2.2.2	3792765	484	C/A	162	GGC/TGC	G/C	Rv3378c	.	nonsyn	ND	no
lineage2.2.2	3823194	670	T/C	224	AAC/GAC	N/D	Rv3403c	.	nonsyn	nonessential	no
lineage2.2.2	4302926	472	C/G	158	GCT/CCT	A/P	Rv3828c	.	nonsyn	nonessential	no
lineage2.2.2	4370678	1007	T/C	336	GAC/GGC	D/G	Rv3887c	eccD2	nonsyn	nonessential	no
lineage2.2.2	4377999	2454	C/A	818	CCG/CCT	P/P	Rv3894c	eccC2	syn	nonessential	no
lineage2.2.2	4400839	654	T/C	218	TAT/TAC	Y/Y	Rv3911	sigM	syn	nonessential	no
lineage3	12204	108	G/A	36	CTC/CTT	L/L	Rv0008c	.	syn	nonessential	no
lineage3	26957	.	C/G	.	./.	./.	.	.	inter	.	no
lineage3	27487	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3	54842	1180	G/T	394	GCG/TCG	A/S	Rv0050	ponA1	nonsyn	nonessential	no
lineage3	56001	306	G/A	102	CAG/CAA	Q/Q	Rv0051	.	syn	nonessential	no
lineage3	67012	90	C/T	30	ACC/ACT	T/T	Rv0063	.	syn	nonessential	no
lineage3	69984	1365	C/A	455	GCC/GCA	A/A	Rv0064	.	syn	nonessential	no
lineage3	72549	1963	C/T	655	GGT/AGT	G/S	Rv0066c	icd2	nonsyn	nonessential	no
lineage3	123198	882	T/C	294	CCT/CCC	P/P	Rv0104	.	syn	nonessential	no
lineage3	129576	966	A/C	322	GCT/GCG	A/A	Rv0107c	ctpI	syn	nonessential	no
lineage3	157129	472	C/T	158	GGC/AGC	G/S	Rv0129c	fbpC	nonsyn	ND	no
lineage3	170671	388	G/A	130	GCC/ACC	A/T	Rv0144	.	nonsyn	nonessential	no
lineage3	172492	282	C/G	94	TAC/TAG	Y/*	Rv0146	.	nonsyn	nonessential	no
lineage3	178205	1105	C/G	369	GGC/CGC	G/R	Rv0151c	PE1	nonsyn	ND	no
lineage3	178453	857	C/G	286	GGG/GCG	G/A	Rv0151c	PE1	nonsyn	ND	no
lineage3	181090	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	188317	523	A/G	175	TCC/CCC	S/P	Rv0159c	PE3	nonsyn	ND	no
lineage3	189850	590	A/G	197	TTC/TCC	F/S	Rv0160c	PE4	nonsyn	ND	no
lineage3	207079	266	G/C	89	CGC/CCC	R/P	Rv0175	.	nonsyn	essential	no
lineage3	210624	189	C/T	63	CTG/CTA	L/L	Rv0179c	lprO	syn	nonessential	no
lineage3	218599	.	T/C	.	./.	./.	.	.	inter	.	no
lineage3	224338	775	C/T	259	CCG/TCG	P/S	Rv0192	.	nonsyn	nonessential	no
lineage3	255373	578	T/C	193	GAC/GGC	D/G	Rv0213c	.	nonsyn	nonessential	no
lineage3	264992	926	T/C	309	CTG/CCG	L/P	Rv0221	.	nonsyn	nonessential	no
lineage3	266405	1360	C/T	454	GGC/AGC	G/S	Rv0223c	.	nonsyn	nonessential	no
lineage3	274463	524	C/A	175	CGT/CTT	R/L	Rv0229c	.	nonsyn	nonessential	no
lineage3	276539	482	G/C	161	GGC/GCC	G/A	Rv0231	fadE4	nonsyn	nonessential	no
lineage3	289253	150	C/T	50	GAC/GAT	D/D	Rv0239	vapB24	syn	nonessential	no
lineage3	301341	315	C/A	105	CCG/CCT	P/P	Rv0249c	.	syn	essential	yes
lineage3	308661	887	A/G	296	CTG/CCG	L/P	Rv0256c	PPE2	nonsyn	ND	no
lineage3	324812	246	C/T	82	GAC/GAT	D/D	Rv0270	fadD2	syn	nonessential	no
lineage3	328569	.	G/C	.	./.	./.	.	.	inter	.	no
lineage3	342873	744	C/T	248	GTC/GTT	V/V	Rv0282	eccA3	syn	essential	yes
lineage3	358473	303	G/C	101	TGG/TGC	W/C	Rv0294	tam	nonsyn	nonessential	no
lineage3	363563	88	G/A	30	GCG/ACG	A/T	Rv0299	.	nonsyn	nonessential	no
lineage3	366917	5848	T/C	1950	ACC/GCC	T/A	Rv0304c	PPE5	nonsyn	ND	no
lineage3	367718	5047	G/T	1683	CTT/ATT	L/I	Rv0304c	PPE5	nonsyn	ND	no
lineage3	406251	2198	T/G	733	GAT/GCT	D/A	Rv0339c	.	nonsyn	nonessential	no
lineage3	438470	270	C/T	90	AAG/AAA	K/K	Rv0360c	.	syn	nonessential	no
lineage3	440365	495	G/A	165	TCG/TCA	S/S	Rv0362	mgtE	syn	nonessential	no
lineage3	440878	1008	C/T	336	ACC/ACT	T/T	Rv0362	mgtE	syn	nonessential	no
lineage3	447642	402	G/C	134	CTC/CTG	L/L	Rv0370c	.	syn	nonessential	no
lineage3	484504	528	C/G	176	GCC/GCG	A/A	Rv0404	fadD30	syn	essential	no
lineage3	485561	1585	A/C	529	ATC/CTC	I/L	Rv0404	fadD30	nonsyn	essential	no
lineage3	517389	415	C/A	139	GTC/TTC	V/F	Rv0428c	.	nonsyn	nonessential	no
lineage3	523654	880	C/T	294	GCC/ACC	A/T	Rv0435c	.	nonsyn	nonessential	no
lineage3	531775	440	C/G	147	TGG/TCG	W/S	Rv0442c	PPE10	nonsyn	ND	no
lineage3	548326	1282	T/C	428	ACA/GCA	T/A	Rv0457c	.	nonsyn	nonessential	no
lineage3	579284	.	T/C	.	./.	./.	.	.	inter	.	no
lineage3	611977	98	C/T	33	GGC/GAC	G/D	Rv0519c	.	nonsyn	nonessential	no
lineage3	623163	371	C/T	124	GCC/GTC	A/V	Rv0532	PE_PGRS6	nonsyn	ND	no
lineage3	629714	18	G/A	6	GAC/GAT	D/D	Rv0537c	.	syn	nonessential	no
lineage3	652950	180	T/C	60	CGT/CGC	R/R	Rv0562	grcC1	syn	essential	yes
lineage3	684376	.	T/G	.	./.	./.	.	.	inter	.	no
lineage3	686123	196	C/A	66	CTG/ATG	L/M	Rv0588	yrbE2B	nonsyn	essential	no
lineage3	753174	194	C/A	65	TGG/TTG	W/L	Rv0656c	vapC6	nonsyn	nonessential	no
lineage3	762434	2628	T/G	876	GGT/GGG	G/G	Rv0667	rpoB	syn	ND	no
lineage3	767339	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3	788615	676	G/C	226	GGG/CGG	G/R	Rv0688	.	nonsyn	nonessential	no
lineage3	798779	.	T/C	.	./.	./.	.	.	inter	.	no
lineage3	798934	102	C/A	34	CGC/CGA	R/R	Rv0698	.	syn	nonessential	no
lineage3	807405	1071	C/T	357	TCC/TCT	S/S	Rv0711	atsA	syn	nonessential	no
lineage3	820734	743	A/G	248	GTC/GCC	V/A	Rv0728c	serA2	nonsyn	nonessential	no
lineage3	906742	320	T/C	107	GTC/GCC	V/A	Rv0812	.	nonsyn	nonessential	no
lineage3	919551	3	C/T	1	GTG/GTA	V/V	Rv0825c	.	syn	nonessential	no
lineage3	945238	301	G/A	101	GCC/ACC	A/T	Rv0848	cysK2	nonsyn	nonessential	no
lineage3	950116	1003	C/G	335	GCG/CCG	A/P	Rv0853c	pdc	nonsyn	nonessential	no
lineage3	957306	1014	C/T	338	GCC/GCT	A/A	Rv0860	fadB	syn	nonessential	no
lineage3	991939	658	G/A	220	CGC/TGC	R/C	Rv0890c	.	nonsyn	nonessential	no
lineage3	996263	33	G/A	11	ACC/ACT	T/T	Rv0893c	.	syn	nonessential	no
lineage3	1002172	244	G/A	82	CGG/TGG	R/W	Rv0897c	.	nonsyn	nonessential	no
lineage3	1007198	983	A/G	328	CTG/CCG	L/P	Rv0904c	accD3	nonsyn	nonessential	no
lineage3	1008460	254	C/T	85	TCC/TTC	S/F	Rv0905	echA6	nonsyn	nonessential	no
lineage3	1009500	557	C/T	186	CCG/CTG	P/L	Rv0906	.	nonsyn	nonessential	no
lineage3	1012815	1085	C/G	362	GCC/GGC	A/G	Rv0908	ctpE	nonsyn	nonessential	no
lineage3	1023911	.	C/G	.	./.	./.	.	.	inter	.	no
lineage3	1029586	992	G/A	331	CCC/CTC	P/L	Rv0923c	.	nonsyn	nonessential	no
lineage3	1071349	95	G/C	32	GGC/GCC	G/A	Rv0959	.	nonsyn	nonessential	no
lineage3	1106099	984	C/T	328	ATC/ATT	I/I	Rv0988	.	syn	nonessential	no
lineage3	1111852	241	G/T	81	GAT/TAT	D/Y	Rv0995	rimJ	nonsyn	nonessential	no
lineage3	1139089	123	G/C	41	ACG/ACC	T/T	Rv1020	mfd	syn	nonessential	no
lineage3	1144409	674	T/G	225	ATC/AGC	I/S	Rv1022	lpqU	nonsyn	nonessential	no
lineage3	1152805	794	T/A	265	CTG/CAG	L/Q	Rv1029	kdpA	nonsyn	nonessential	no
lineage3	1152863	852	A/G	284	CAA/CAG	Q/Q	Rv1029	kdpA	syn	nonessential	no
lineage3	1153388	1377	C/T	459	AAC/AAT	N/N	Rv1029	kdpA	syn	nonessential	no
lineage3	1177184	257	C/A	86	GCG/GAG	A/E	Rv1054	.	nonsyn	ND	no
lineage3	1240744	558	C/A	186	AAC/AAA	N/K	Rv1115	.	nonsyn	nonessential	no
lineage3	1247391	265	A/C	89	AGC/CGC	S/R	Rv1124	ephC	nonsyn	nonessential	no
lineage3	1265828	661	G/A	221	CTG/TTG	L/L	Rv1138c	.	syn	nonessential	no
lineage3	1271187	32	C/G	11	ACC/AGC	T/S	Rv1144	.	nonsyn	essential	no
lineage3	1281984	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3	1308317	476	T/C	159	CAT/CGT	H/R	Rv1176c	.	nonsyn	nonessential	no
lineage3	1325650	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3	1371470	551	G/A	184	CGT/CAT	R/H	Rv1228	lpqX	nonsyn	nonessential	no
lineage3	1377568	45	A/G	15	GTA/GTG	V/V	Rv1235	lpqY	syn	essential	no
lineage3	1396618	2623	C/A	875	GAG/TAG	E/*	Rv1251c	.	nonsyn	nonessential	no
lineage3	1401033	1064	C/T	355	TCG/TTG	S/L	Rv1253	deaD	nonsyn	nonessential	no
lineage3	1440090	1184	C/T	395	ACC/ATC	T/I	Rv1286	cysN	nonsyn	essential	no
lineage3	1450316	942	C/T	314	GCC/GCT	A/A	Rv1294	thrA	syn	essential	no
lineage3	1478357	762	G/T	254	CCC/CCA	P/P	Rv1317c	alkA	syn	nonessential	no
lineage3	1495836	1273	G/A	425	GTG/ATG	V/M	Rv1328	glgP	nonsyn	nonessential	no
lineage3	1513189	143	C/T	48	GCT/GTT	A/V	Rv1348	irtA	nonsyn	essential	no
lineage3	1533624	10	A/C	4	TTC/GTC	F/V	Rv1361c	PPE19	nonsyn	ND	no
lineage3	1614143	837	G/A	279	CTG/CTA	L/L	Rv1436	gap	syn	essential	no
lineage3	1650406	881	C/A	294	ACC/AAC	T/N	Rv1462	.	nonsyn	essential	no
lineage3	1676880	4	A/G	2	TGG/CGG	W/R	Rv1486c	.	nonsyn	nonessential	no
lineage3	1681147	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3	1713923	1622	A/G	541	CAC/CGC	H/R	Rv1521	fadD25	nonsyn	nonessential	no
lineage3	1748439	746	C/T	249	ACC/ATC	T/I	Rv1547	dnaE1	nonsyn	essential	no
lineage3	1764225	798	C/T	266	GCC/GCT	A/A	Rv1559	ilvA	syn	nonessential	no
lineage3	1781251	814	C/T	272	GAG/AAG	E/K	Rv1576c	.	nonsyn	ND	no
lineage3	1802047	13	C/G	5	CAG/GAG	Q/E	Rv1601	hisB	nonsyn	essential	no
lineage3	1812448	90	C/T	30	TAC/TAT	Y/Y	Rv1613	trpA	syn	essential	yes
lineage3	1818286	672	C/T	224	GGC/GGT	G/G	Rv1618	tesB1	syn	nonessential	no
lineage3	1827468	478	C/A	160	GTG/TTG	V/L	Rv1625c	cya	nonsyn	nonessential	no
lineage3	1833025	2361	C/T	787	GAC/GAT	D/D	Rv1629	polA	syn	essential	no
lineage3	1856617	854	C/T	285	ACA/ATA	T/I	Rv1646	PE17	nonsyn	ND	no
lineage3	1863584	1799	G/T	600	ACC/AAC	T/N	Rv1651c	PE_PGRS30	nonsyn	ND	no
lineage3	1908598	1005	G/A	335	CGG/CGA	R/R	Rv1683	.	syn	essential	no
lineage3	1925136	1308	G/A	436	GTG/GTA	V/V	Rv1699	pyrG	syn	essential	no
lineage3	1926029	448	T/C	150	TAT/CAT	Y/H	Rv1700	.	nonsyn	nonessential	no
lineage3	1952743	892	G/A	298	GTG/ATG	V/M	Rv1726	.	nonsyn	nonessential	no
lineage3	1972901	764	C/T	255	GCG/GTG	A/V	Rv1746	pknF	nonsyn	nonessential	no
lineage3	1977646	240	G/A	80	GCC/GCT	A/A	Rv1749c	.	syn	nonessential	no
lineage3	2003252	627	C/T	209	GCC/GCT	A/A	Rv1769	.	syn	nonessential	no
lineage3	2011568	913	G/C	305	GAG/CAG	E/Q	Rv1777	cyp144	nonsyn	nonessential	no
lineage3	2025977	677	C/G	226	ACG/AGG	T/R	Rv1787	PPE25	nonsyn	ND	no
lineage3	2034676	948	C/T	316	ATC/ATT	I/I	Rv1796	mycP5	syn	nonessential	no
lineage3	2056184	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	2087652	1	C/T	1	GTG/ATG	V/M	Rv1838c	vapC13	nonsyn	nonessential	no
lineage3	2142250	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	2143328	808	G/C	270	GTG/CTG	V/L	Rv1895	.	nonsyn	nonessential	no
lineage3	2153184	.	T/G	.	./.	./.	.	.	inter	.	no
lineage3	2158905	187	C/A	63	GGA/TGA	G/*	Rv1912c	fadB5	nonsyn	nonessential	no
lineage3	2172526	1270	A/C	424	TGA/GGA	*/G	Rv1921c	lppF	nonsyn	nonessential	no
lineage3	2186236	924	C/T	308	CCG/CCA	P/P	Rv1935c	echA13	syn	nonessential	no
lineage3	2216345	1089	C/A	363	CCC/CCA	P/P	Rv1971	mce3F	syn	nonessential	no
lineage3	2245916	708	T/C	236	GCT/GCC	A/A	Rv2000	.	syn	nonessential	no
lineage3	2275764	661	G/A	221	CTC/TTC	L/F	Rv2029c	pfkB	nonsyn	nonessential	no
lineage3	2284456	341	T/G	114	GAG/GCG	E/A	Rv2038c	.	nonsyn	essential	no
lineage3	2285558	84	G/A	28	TGC/TGT	C/C	Rv2039c	.	syn	nonessential	no
lineage3	2296876	10111	C/G	3371	GGT/CGT	G/R	Rv2048c	pks12	nonsyn	essential	no
lineage3	2309203	1553	G/A	518	GCA/GTA	A/V	Rv2051c	ppm1	nonsyn	nonessential	no
lineage3	2325320	551	T/C	184	GAT/GGT	D/G	Rv2067c	.	nonsyn	nonessential	no
lineage3	2333215	74	C/T	25	TGC/TAC	C/Y	Rv2076c	.	nonsyn	nonessential	no
lineage3	2335080	22	T/C	8	TTG/CTG	L/L	Rv2078	.	syn	nonessential	no
lineage3	2339240	532	G/A	178	GGT/AGT	G/S	Rv2082	.	nonsyn	nonessential	no
lineage3	2345085	675	A/C	225	GCA/GCC	A/A	Rv2088	pknJ	syn	nonessential	no
lineage3	2346929	396	C/T	132	CTG/CTA	L/L	Rv2089c	pepE	syn	nonessential	no
lineage3	2348708	585	G/A	195	GTC/GTT	V/V	Rv2091c	.	syn	nonessential	no
lineage3	2353385	931	G/C	311	CAG/GAG	Q/E	Rv2095c	pafC	nonsyn	nonessential	no
lineage3	2402765	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3	2449826	1667	C/G	556	TCG/TGG	S/W	Rv2187	fadD15	nonsyn	nonessential	no
lineage3	2452452	821	G/A	274	ACG/ATG	T/M	Rv2190c	.	nonsyn	ND	no
lineage3	2472029	619	T/G	207	TGG/GGG	W/G	Rv2207	cobT	nonsyn	nonessential	no
lineage3	2504177	432	C/T	144	GAG/GAA	E/E	Rv2230c	.	syn	nonessential	no
lineage3	2516271	968	T/C	323	ATG/ACG	M/T	Rv2242	.	nonsyn	essential	no
lineage3	2536312	672	C/T	224	CGC/CGT	R/R	Rv2263	.	syn	nonessential	no
lineage3	2591172	655	G/A	219	GCC/ACC	A/T	Rv2318	uspC	nonsyn	nonessential	no
lineage3	2615413	721	A/G	241	ACC/GCC	T/A	Rv2339	mmpL9	nonsyn	nonessential	no
lineage3	2656635	1069	G/A	357	CCG/TCG	P/S	Rv2378c	mbtG	nonsyn	essential	no
lineage3	2661039	1047	G/A	349	ATC/ATT	I/I	Rv2379c	mbtF	syn	nonessential	no
lineage3	2688700	691	C/T	231	CCG/TCG	P/S	Rv2394	ggtB	nonsyn	nonessential	no
lineage3	2690160	89	A/G	30	AAC/AGC	N/S	Rv2395	.	nonsyn	nonessential	no
lineage3	2700222	1694	T/C	565	CTG/CCG	L/P	Rv2402	.	nonsyn	nonessential	no
lineage3	2712328	549	C/T	183	CCG/CCA	P/P	Rv2414c	.	syn	nonessential	no
lineage3	2720069	473	G/A	158	GGG/GAG	G/E	Rv2423	.	nonsyn	nonessential	no
lineage3	2720444	848	C/T	283	TCT/TTT	S/F	Rv2423	.	nonsyn	nonessential	no
lineage3	2726105	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3	2738221	27	G/A	9	ATC/ATT	I/I	Rv2439c	proB	syn	essential	no
lineage3	2753869	878	A/G	293	GTG/GCG	V/A	Rv2454c	.	nonsyn	nonessential	no
lineage3	2782498	1545	G/A	515	GAC/GAT	D/D	Rv2477c	.	syn	essential	yes
lineage3	2798595	2286	C/T	762	GCG/GCA	A/A	Rv2488c	.	syn	nonessential	no
lineage3	2817747	728	G/A	243	GCT/GTT	A/V	Rv2502c	accD1	nonsyn	essential	no
lineage3	2881337	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	2881569	161	A/G	54	GAG/GGG	E/G	Rv2561	.	nonsyn	nonessential	no
lineage3	2895473	488	A/G	163	TTC/TCC	F/S	Rv2571c	.	nonsyn	nonessential	no
lineage3	2897660	144	T/C	48	GCA/GCG	A/A	Rv2572c	aspS	syn	nonessential	no
lineage3	2903050	482	G/A	161	ACC/ATC	T/I	Rv2578c	.	nonsyn	nonessential	no
lineage3	2910852	49	C/G	17	GCG/CCG	A/P	Rv2584c	apt	nonsyn	nonessential	no
lineage3	2925462	.	T/A	.	./.	./.	.	.	inter	.	no
lineage3	2941179	18	G/A	6	CGC/CGT	R/R	Rv2613c	.	syn	essential	yes
lineage3	2943675	1311	G/A	437	GGC/GGT	G/G	Rv2615c	PE_PGRS45	syn	ND	no
lineage3	2949251	616	G/A	206	GTT/ATT	V/I	Rv2622	.	nonsyn	nonessential	no
lineage3	2958693	1122	G/A	374	GCG/GCA	A/A	Rv2631	.	syn	nonessential	no
lineage3	2964594	190	G/A	64	GCC/ACC	A/T	Rv2638	.	nonsyn	nonessential	no
lineage3	3010014	671	G/A	224	GGG/GAG	G/E	Rv2691	ceoB	nonsyn	nonessential	no
lineage3	3011837	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3	3027548	484	C/T	162	CCG/TCG	P/S	Rv2714	.	nonsyn	nonessential	no
lineage3	3040344	426	C/T	142	GAG/GAA	E/E	Rv2727c	miaA	syn	essential	no
lineage3	3043700	675	C/T	225	GCC/GCT	A/A	Rv2731	.	syn	nonessential	no
lineage3	3059791	.	G/C	.	./.	./.	.	.	inter	.	no
lineage3	3069566	518	C/T	173	GGC/GAC	G/D	Rv2756c	hsdM	nonsyn	nonessential	no
lineage3	3072285	356	A/C	119	CTG/CGG	L/R	Rv2761c	hsdS	nonsyn	nonessential	no
lineage3	3076172	199	C/T	67	GAT/AAT	D/N	Rv2766c	.	nonsyn	nonessential	no
lineage3	3111280	544	G/A	182	CTT/TTT	L/F	Rv2802c	.	nonsyn	nonessential	no
lineage3	3165807	603	G/A	201	GTG/GTA	V/V	Rv2855	mtr	syn	essential	yes
lineage3	3174013	5	G/A	2	CCT/CTT	P/L	Rv2861c	mapB	nonsyn	nonessential	no
lineage3	3202731	312	A/C	104	GGA/GGC	G/G	Rv2893	.	syn	nonessential	no
lineage3	3208600	807	G/A	269	TAC/TAT	Y/Y	Rv2899c	fdhD	syn	nonessential	no
lineage3	3212723	234	C/A	78	GCG/GCT	A/A	Rv2902c	rnhB	syn	nonessential	no
lineage3	3236442	1365	G/A	455	CAC/CAT	H/H	Rv2922c	smc	syn	nonessential	no
lineage3	3236497	1310	A/T	437	GTG/GAG	V/E	Rv2922c	smc	nonsyn	nonessential	no
lineage3	3244113	417	T/C	139	CCT/CCC	P/P	Rv2930	fadD26	syn	nonessential	no
lineage3	3247340	1896	G/A	632	GTG/GTA	V/V	Rv2931	ppsA	syn	nonessential	no
lineage3	3273107	894	C/A	298	GCC/GCA	A/A	Rv2936	drrA	syn	essential	yes
lineage3	3306441	1163	G/A	388	CGG/CAG	R/Q	Rv2953	.	nonsyn	nonessential	no
lineage3	3312620	219	C/A	73	GAG/GAT	E/D	Rv2959c	.	nonsyn	nonessential	no
lineage3	3348536	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	3355949	851	A/C	284	GAC/GCC	D/A	Rv2997	.	nonsyn	nonessential	no
lineage3	3357464	.	C/G	.	./.	./.	.	.	inter	.	no
lineage3	3380804	190	T/G	64	ATC/CTC	I/L	Rv3022A	PE29	nonsyn	ND	no
lineage3	3385218	860	C/T	287	GGA/GAA	G/E	Rv3026c	.	nonsyn	nonessential	no
lineage3	3393640	261	C/T	87	AAC/AAT	N/N	Rv3033	.	syn	nonessential	no
lineage3	3395654	276	G/A	92	CTG/CTA	L/L	Rv3035	.	syn	nonessential	no
lineage3	3428897	1655	G/C	552	CGT/CCT	R/P	Rv3063	cstA	nonsyn	nonessential	no
lineage3	3437007	229	G/C	77	GCC/CCC	A/P	Rv3074	.	nonsyn	nonessential	no
lineage3	3459081	871	G/C	291	GCA/CCA	A/P	Rv3090	.	nonsyn	nonessential	no
lineage3	3489665	160	C/T	54	CCA/TCA	P/S	Rv3124	moaR1	nonsyn	nonessential	no
lineage3	3515467	56	C/T	19	CCG/CTG	P/L	Rv3150	nuoF	nonsyn	nonessential	no
lineage3	3539353	849	G/A	283	CAG/CAA	Q/Q	Rv3170	aofH	syn	nonessential	no
lineage3	3557253	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	3562338	835	G/T	279	CTG/ATG	L/M	Rv3193c	.	nonsyn	nonessential	no
lineage3	3645524	454	C/T	152	GAC/AAC	D/N	Rv3264c	manB	nonsyn	essential	no
lineage3	3656206	1570	C/A	524	CGC/AGC	R/S	Rv3273	.	nonsyn	nonessential	no
lineage3	3679764	2990	G/A	997	AGC/AAC	S/N	Rv3296	lhr	nonsyn	ND	no
lineage3	3685510	454	T/C	152	AGT/GGT	S/G	Rv3299c	atsB	nonsyn	nonessential	no
lineage3	3714639	248	G/A	83	CGC/CAC	R/H	Rv3329	.	nonsyn	nonessential	no
lineage3	3715775	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	3729342	719	C/T	240	GCG/GTG	A/V	Rv3342	.	nonsyn	nonessential	no
lineage3	3749653	3532	G/A	1178	CAA/TAA	Q/*	Rv3347c	PPE55	nonsyn	ND	no
lineage3	3821503	389	A/C	130	CTA/CGA	L/R	Rv3402c	.	nonsyn	nonessential	no
lineage3	3860216	1155	G/A	385	GCC/GCT	A/A	Rv3441c	mrsA	syn	essential	no
lineage3	3869355	1004	T/C	335	ATC/ACC	I/T	Rv3448	eccD4	nonsyn	nonessential	no
lineage3	3874745	.	G/C	.	./.	./.	.	.	inter	.	no
lineage3	3908062	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	3918649	552	T/C	184	GGA/GGG	G/G	Rv3499c	mce4A	syn	essential	yes
lineage3	3994101	1417	A/G	473	ATC/GTC	I/V	Rv3554	fdxB	nonsyn	nonessential	no
lineage3	4033711	332	A/G	111	GTG/GCG	V/A	Rv3591c	.	nonsyn	nonessential	no
lineage3	4052349	535	T/G	179	AAG/CAG	K/Q	Rv3610c	ftsH	nonsyn	essential	no
lineage3	4057036	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3	4059186	489	G/T	163	GCG/GCT	A/A	Rv3618	.	syn	nonessential	no
lineage3	4092376	536	T/C	179	ATC/ACC	I/T	Rv3651	.	nonsyn	essential	no
lineage3	4096636	304	C/T	102	GGT/AGT	G/S	Rv3658c	.	nonsyn	essential	no
lineage3	4115952	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3	4142192	149	G/A	50	GGA/GAA	G/E	Rv3699	.	nonsyn	nonessential	no
lineage3	4195390	.	A/T	.	./.	./.	.	.	inter	.	no
lineage3	4195799	360	C/A	120	GGC/GGA	G/G	Rv3744	nmtR	syn	nonessential	no
lineage3	4222131	1043	C/T	348	GCC/GTC	A/V	Rv3776	.	nonsyn	nonessential	no
lineage3	4226275	1291	C/T	431	CCG/TCG	P/S	Rv3779	.	nonsyn	nonessential	no
lineage3	4242075	2213	G/A	738	CGG/CAG	R/Q	Rv3793	embC	nonsyn	essential	no
lineage3	4258447	2700	G/A	900	CGC/CGT	R/R	Rv3800c	pks13	syn	essential	no
lineage3	4266647	12	A/G	4	GTT/GTC	V/V	Rv3804c	fbpA	syn	ND	no
lineage3	4286826	106	A/G	36	AAA/GAA	K/E	Rv3822	.	nonsyn	nonessential	no
lineage3	4292941	234	G/A	78	CAC/CAT	H/H	Rv3824c	papA1	syn	nonessential	no
lineage3	4301870	920	T/C	307	CAC/CGC	H/R	Rv3827c	.	nonsyn	ND	no
lineage3	4305243	443	G/A	148	CCC/CTC	P/L	Rv3830c	.	nonsyn	nonessential	no
lineage3	4328492	917	G/A	306	GCC/GTC	A/V	Rv3856c	.	nonsyn	nonessential	no
lineage3	4336991	215	C/T	72	GCC/GTC	A/V	Rv3860	.	nonsyn	nonessential	no
lineage3	4372540	167	A/C	56	GTC/GGC	V/G	Rv3888c	.	nonsyn	nonessential	no
lineage3	4375452	232	G/A	78	CTG/TTG	L/L	Rv3892c	PPE69	syn	ND	no
lineage3	4396495	2304	C/A	768	GGC/GGA	G/G	Rv3909	.	syn	nonessential	no
lineage3.1	958362	2070	C/G	690	GCC/GCG	A/A	Rv0860	fadB	syn	nonessential	no
lineage3.1.1	32103	47	C/T	16	GCG/GTG	A/V	Rv0029	.	nonsyn	nonessential	no
lineage3.1.1	85985	482	T/C	161	AAC/AGC	N/S	Rv0077c	.	nonsyn	nonessential	no
lineage3.1.1	88176	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3.1.1	196841	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3.1.1	225274	1298	T/C	433	TAC/TGC	Y/C	Rv0193c	.	nonsyn	nonessential	no
lineage3.1.1	278755	171	C/T	57	GCC/GCT	A/A	Rv0233	nrdB	syn	nonessential	no
lineage3.1.1	294514	1120	T/C	374	ACT/GCT	T/A	Rv0244c	fadE5	nonsyn	nonessential	no
lineage3.1.1	296717	.	C/G	.	./.	./.	.	.	inter	.	no
lineage3.1.1	363467	216	G/A	72	GCG/GCA	A/A	Rv0298	.	syn	nonessential	no
lineage3.1.1	417404	101	G/T	34	CGT/CTT	R/L	Rv0347	.	nonsyn	essential	no
lineage3.1.1	534664	552	G/T	184	TTC/TTA	F/L	Rv0446c	.	nonsyn	nonessential	no
lineage3.1.1	586477	84	C/G	28	AGC/AGG	S/R	Rv0496	.	nonsyn	nonessential	no
lineage3.1.1	610105	.	T/G	.	./.	./.	.	.	inter	.	no
lineage3.1.1	629433	299	C/T	100	GGC/GAC	G/D	Rv0537c	.	nonsyn	nonessential	no
lineage3.1.1	647627	1330	G/A	444	GTG/ATG	V/M	Rv0555	menD	nonsyn	essential	no
lineage3.1.1	709481	126	G/T	42	TCG/TCT	S/S	Rv0614	.	syn	nonessential	no
lineage3.1.1	771094	513	C/A	171	GGC/GGA	G/G	Rv0671	lpqP	syn	nonessential	no
lineage3.1.1	856308	163	C/T	55	GTC/ATC	V/I	Rv0762c	.	nonsyn	nonessential	no
lineage3.1.1	931240	288	G/T	96	TGG/TGT	W/C	Rv0835	lpqQ	nonsyn	nonessential	no
lineage3.1.1	1048225	2090	C/T	697	CCG/CTG	P/L	Rv0938	ligD	nonsyn	nonessential	no
lineage3.1.1	1072867	1613	C/T	538	GCC/GTC	A/V	Rv0959	.	nonsyn	nonessential	no
lineage3.1.1	1084911	840	G/A	280	TAC/TAT	Y/Y	Rv0973c	accA2	syn	essential	yes
lineage3.1.1	1157010	946	A/G	316	TAC/CAC	Y/H	Rv1032c	trcS	nonsyn	nonessential	no
lineage3.1.1	1160270	164	A/G	55	GTG/GCG	V/A	Rv1036c	.	nonsyn	ND	no
lineage3.1.1	1251384	21	G/A	7	GCC/GCT	A/A	Rv1127c	ppdK	syn	nonessential	no
lineage3.1.1	1334340	410	G/A	137	CGC/CAC	R/H	Rv1191	.	nonsyn	nonessential	no
lineage3.1.1	1378725	1202	T/C	401	TTC/TCC	F/S	Rv1235	lpqY	nonsyn	essential	no
lineage3.1.1	1430132	71	G/A	24	AGC/AAC	S/N	Rv1279	.	nonsyn	nonessential	no
lineage3.1.1	1523575	458	A/G	153	GTC/GCC	V/A	Rv1355c	moeY	nonsyn	nonessential	no
lineage3.1.1	1556430	460	T/G	154	TCG/GCG	S/A	Rv1383	carA	nonsyn	essential	no
lineage3.1.1	1591545	1149	G/T	383	CCG/CCT	P/P	Rv1415	ribA2	syn	essential	yes
lineage3.1.1	1592322	173	C/T	58	GCC/GTC	A/V	Rv1417	.	nonsyn	nonessential	no
lineage3.1.1	1639226	846	C/T	282	TTC/TTT	F/F	Rv1453	.	syn	nonessential	no
lineage3.1.1	1653374	144	G/C	48	GGG/GGC	G/G	Rv1466	.	syn	essential	yes
lineage3.1.1	1760407	233	T/G	78	CTG/CGG	L/R	Rv1554	frdC	nonsyn	nonessential	no
lineage3.1.1	1846020	2280	C/G	760	GGC/GGG	G/G	Rv1638	uvrA	syn	nonessential	no
lineage3.1.1	1882348	645	G/T	215	CAG/CAT	Q/H	Rv1662	pks8	nonsyn	essential	no
lineage3.1.1	1915963	15	G/A	5	AGG/AGA	R/R	Rv1691	.	syn	nonessential	no
lineage3.1.1	1941617	1330	G/C	444	GAC/CAC	D/H	Rv1713	engA	nonsyn	essential	no
lineage3.1.1	2001811	1198	G/C	400	GGA/CGA	G/R	Rv1768	PE_PGRS31	nonsyn	ND	no
lineage3.1.1	2017026	451	G/A	151	CAG/TAG	Q/*	Rv1781c	malQ	nonsyn	nonessential	no
lineage3.1.1	2035040	1312	G/A	438	GTC/ATC	V/I	Rv1796	mycP5	nonsyn	nonessential	no
lineage3.1.1	2055746	367	C/T	123	GCG/ACG	A/T	Rv1813c	.	nonsyn	nonessential	no
lineage3.1.1	2059654	60	C/T	20	GAC/GAT	D/D	Rv1817	.	syn	nonessential	no
lineage3.1.1	2062440	235	C/T	79	GCG/ACG	A/T	Rv1818c	PE_PGRS33	nonsyn	ND	no
lineage3.1.1	2110074	531	C/T	177	ACC/ACT	T/T	Rv1862	adhA	syn	nonessential	no
lineage3.1.1	2118846	1500	C/T	500	GGC/GGT	G/G	Rv1868	.	syn	nonessential	no
lineage3.1.1	2164095	3217	T/C	1073	AAT/GAT	N/D	Rv1917c	PPE34	nonsyn	ND	no
lineage3.1.1	2170461	152	C/T	51	GGG/GAG	G/E	Rv1918c	PPE35	nonsyn	ND	no
lineage3.1.1	2205371	179	A/C	60	GTG/GGG	V/G	Rv1962A	vapB35	nonsyn	nonessential	no
lineage3.1.1	2319244	1510	C/T	504	GAT/AAT	D/N	Rv2062c	cobN	nonsyn	nonessential	no
lineage3.1.1	2418560	445	C/T	149	GCC/ACC	A/T	Rv2157c	murF	nonsyn	essential	no
lineage3.1.1	2467098	930	A/C	310	GCT/GCG	A/A	Rv2202c	adoK	syn	nonessential	no
lineage3.1.1	2506183	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3.1.1	2566783	12	G/A	4	TCG/TCA	S/S	Rv2295	.	syn	nonessential	no
lineage3.1.1	2587852	953	C/T	318	GGC/GAC	G/D	Rv2315c	.	nonsyn	nonessential	no
lineage3.1.1	2721746	32	C/G	11	GGC/GCC	G/A	Rv2424c	.	nonsyn	ND	no
lineage3.1.1	2744388	597	G/A	199	GCC/GCT	A/A	Rv2444c	rne	syn	essential	no
lineage3.1.1	2758009	184	C/A	62	GTG/TTG	V/L	Rv2456c	.	nonsyn	nonessential	no
lineage3.1.1	2797726	3155	T/C	1052	TAC/TGC	Y/C	Rv2488c	.	nonsyn	nonessential	no
lineage3.1.1	2800282	599	A/C	200	CTG/CGG	L/R	Rv2488c	.	nonsyn	nonessential	no
lineage3.1.1	2825431	754	G/A	252	GCC/ACC	A/T	Rv2509	.	nonsyn	nonessential	no
lineage3.1.1	2926153	.	T/C	.	./.	./.	.	.	inter	.	no
lineage3.1.1	3017599	742	A/C	248	AAC/CAC	N/H	Rv2702	ppgK	nonsyn	essential	no
lineage3.1.1	3023684	120	G/A	40	ACG/ACA	T/T	Rv2711	ideR	syn	nonessential	no
lineage3.1.1	3041032	430	G/A	144	CTA/TTA	L/L	Rv2728c	.	syn	nonessential	no
lineage3.1.1	3207373	570	G/T	190	GAC/GAA	D/E	Rv2897c	.	nonsyn	essential	no
lineage3.1.1	3221361	338	G/C	113	GCC/GGC	A/G	Rv2913c	.	nonsyn	nonessential	no
lineage3.1.1	3287998	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.1	3338194	806	C/A	269	CGG/CTG	R/L	Rv2982c	gpdA2	nonsyn	nonessential	no
lineage3.1.1	3451405	486	G/C	162	GTG/GTC	V/V	Rv3085	.	syn	nonessential	no
lineage3.1.1	3485117	.	A/C	.	./.	./.	.	.	inter	.	no
lineage3.1.1	3568199	1176	G/A	392	CAG/CAA	Q/Q	Rv3197	.	syn	nonessential	no
lineage3.1.1	3630122	266	G/T	89	TCG/TAG	S/*	Rv3249c	.	nonsyn	nonessential	no
lineage3.1.1	3636991	325	G/A	109	CCC/TCC	P/S	Rv3256c	.	nonsyn	nonessential	no
lineage3.1.1	3706260	1261	G/C	421	GGT/CGT	G/R	Rv3318	sdhA	nonsyn	nonessential	no
lineage3.1.1	3749763	3422	G/T	1141	TCG/TAG	S/*	Rv3347c	PPE55	nonsyn	ND	no
lineage3.1.1	3762496	4607	G/A	1536	ACC/ATC	T/I	Rv3350c	PPE56	nonsyn	ND	no
lineage3.1.1	3767962	179	A/G	60	GTC/GCC	V/A	Rv3351c	.	nonsyn	nonessential	no
lineage3.1.1	3799116	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3.1.1	3835223	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.1	3896031	212	C/G	71	GCG/GGG	A/G	Rv3479	.	nonsyn	nonessential	no
lineage3.1.1	3954846	676	G/A	226	CTG/TTG	L/L	Rv3518c	cyp142	syn	nonessential	no
lineage3.1.1	3994305	1621	C/T	541	CTG/TTG	L/L	Rv3554	fdxB	syn	nonessential	no
lineage3.1.1	4005335	89	C/T	30	GCG/GTG	A/V	Rv3564	fadE33	nonsyn	essential	no
lineage3.1.1	4007004	805	G/A	269	GTC/ATC	V/I	Rv3565	aspB	nonsyn	nonessential	no
lineage3.1.1	4035033	682	G/A	228	GCC/ACC	A/T	Rv3593	lpqF	nonsyn	essential	no
lineage3.1.1	4052966	17	C/T	6	CCG/CTG	P/L	Rv3611	.	nonsyn	essential	no
lineage3.1.1	4061892	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3.1.1	4065300	604	G/T	202	CGG/AGG	R/R	Rv3626c	.	syn	nonessential	no
lineage3.1.1	4082100	622	C/T	208	GTC/ATC	V/I	Rv3644c	.	nonsyn	nonessential	no
lineage3.1.1	4098522	627	C/G	209	GGG/GGC	G/G	Rv3660c	.	syn	essential	no
lineage3.1.1	4145150	465	G/C	155	GTC/GTG	V/V	Rv3702c	.	syn	nonessential	no
lineage3.1.1	4171479	59	C/G	20	GCG/GGG	A/G	Rv3726	.	nonsyn	nonessential	no
lineage3.1.1	4199024	151	C/G	51	CTC/GTC	L/V	Rv3751	.	nonsyn	ND	no
lineage3.1.1	4241562	1700	G/A	567	CGC/CAC	R/H	Rv3793	embC	nonsyn	essential	no
lineage3.1.1	4272744	732	G/A	244	ACC/ACT	T/T	Rv3809c	glf	syn	nonessential	no
lineage3.1.1	4321515	.	C/A	.	./.	./.	.	.	inter	.	no
lineage3.1.1	4373259	372	G/A	124	GCC/GCT	A/A	Rv3889c	espG2	syn	nonessential	no
lineage3.1.1	4380158	295	C/T	99	GAG/AAG	E/K	Rv3894c	eccC2	nonsyn	nonessential	no
lineage3.1.1	4380159	294	C/A	98	TTG/TTT	L/F	Rv3894c	eccC2	nonsyn	nonessential	no
lineage3.1.2	34605	311	C/A	104	GCC/GAC	A/D	Rv0032	bioF2	nonsyn	nonessential	no
lineage3.1.2	976938	1266	C/A	422	CGG/CGT	R/R	Rv0878c	PPE13	syn	ND	no
lineage3.1.2	993016	440	G/A	147	GCT/GTT	A/V	Rv0891c	.	nonsyn	nonessential	no
lineage3.1.2	1388627	2	A/G	1	ATG/ACG	M/T	Rv1245c	.	nonsyn	nonessential	no
lineage3.1.2	1914217	616	C/A	206	CGG/AGG	R/R	Rv1689	tyrS	syn	essential	yes
lineage3.1.2	2168604	2009	G/A	670	CCC/CTC	P/L	Rv1918c	PPE35	nonsyn	ND	no
lineage3.1.2	2381912	842	G/T	281	GGG/GTG	G/V	Rv2123	PPE37	nonsyn	ND	no
lineage3.1.2	2382260	1190	T/G	397	CTC/CGC	L/R	Rv2123	PPE37	nonsyn	ND	no
lineage3.1.2	2729454	1107	C/T	369	ATG/ATA	M/I	Rv2434c	.	nonsyn	nonessential	no
lineage3.1.2	2965811	27	G/A	9	GAC/GAT	D/D	Rv2640c	.	syn	nonessential	no
lineage3.1.2	3168309	.	T/C	.	./.	./.	.	.	inter	.	no
lineage3.1.2	3450065	69	G/C	23	CGG/CGC	R/R	Rv3084	lipR	syn	nonessential	no
lineage3.1.2	3722702	930	G/C	310	CTC/CTG	L/L	Rv3336c	trpS	syn	essential	yes
lineage3.1.2	4132949	432	C/T	144	ATC/ATT	I/I	Rv3691	.	syn	nonessential	no
lineage3.1.2.1	194030	405	G/A	135	ATG/ATA	M/I	Rv0164	TB18.5	nonsyn	nonessential	no
lineage3.1.2.1	791671	14	T/C	5	ATT/ACT	I/T	Rv0691A	.	nonsyn	nonessential	no
lineage3.1.2.1	875363	632	C/G	211	TCG/TGG	S/W	Rv0782	ptrBb	nonsyn	nonessential	no
lineage3.1.2.1	961598	1015	C/G	339	GAG/CAG	E/Q	Rv0862c	.	nonsyn	nonessential	no
lineage3.1.2.1	1038108	1807	C/G	603	GAA/CAA	E/Q	Rv0931c	pknD	nonsyn	nonessential	no
lineage3.1.2.1	1132890	1266	C/T	422	GGC/GGT	G/G	Rv1013	pks16	syn	essential	yes
lineage3.1.2.1	1237818	375	C/G	125	CTG/CTC	L/L	Rv1111c	.	syn	essential	yes
lineage3.1.2.1	1443441	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.2.1	1462845	1003	G/A	335	GAC/AAC	D/N	Rv1307	atpH	nonsyn	essential	no
lineage3.1.2.1	1752076	1258	C/T	420	GCG/ACG	A/T	Rv1548c	PPE21	nonsyn	ND	no
lineage3.1.2.1	2020120	864	C/T	288	ACC/ACT	T/T	Rv1783	eccC5	syn	nonessential	no
lineage3.1.2.1	2185538	651	G/A	217	GTC/GTT	V/V	Rv1934c	fadE17	syn	nonessential	no
lineage3.1.2.1	2245499	291	C/T	97	TCC/TCT	S/S	Rv2000	.	syn	nonessential	no
lineage3.1.2.1	2271143	606	G/A	202	GTC/GTT	V/V	Rv2025c	.	syn	nonessential	no
lineage3.1.2.1	2282190	92	C/T	31	ACA/ATA	T/I	Rv2036	.	nonsyn	nonessential	no
lineage3.1.2.1	2378572	187	G/A	63	GCG/ACG	A/T	Rv2119	.	nonsyn	nonessential	no
lineage3.1.2.1	2619964	368	C/T	123	GCG/GTG	A/V	Rv2341	lppQ	nonsyn	nonessential	no
lineage3.1.2.1	2718032	145	C/T	49	GAG/AAG	E/K	Rv2420c	.	nonsyn	nonessential	no
lineage3.1.2.1	3156715	807	G/A	269	GCC/GCT	A/A	Rv2848c	cobB	syn	nonessential	no
lineage3.1.2.1	3557911	435	C/T	145	CTG/CTA	L/L	Rv3191c	.	syn	ND	no
lineage3.1.2.1	3589711	318	C/A	106	GAC/GAA	D/E	Rv3212	.	nonsyn	nonessential	no
lineage3.1.2.1	3731461	5475	C/G	1825	ACG/ACC	T/T	Rv3343c	PPE54	syn	ND	no
lineage3.1.2.1	3759020	8083	C/G	2695	GGG/CGG	G/R	Rv3350c	PPE56	nonsyn	ND	no
lineage3.1.2.1	4053713	135	C/G	45	CGG/CGC	R/R	Rv3612c	.	syn	nonessential	no
lineage3.1.2.2	9611	2310	C/T	770	GAC/GAT	D/D	Rv0006	gyrA	syn	nonessential	no
lineage3.1.2.2	10265	352	C/G	118	CCC/GCC	P/A	Rv0007	.	nonsyn	nonessential	no
lineage3.1.2.2	21490	151	C/T	51	GAC/AAC	D/N	Rv0017c	rodA	nonsyn	nonessential	no
lineage3.1.2.2	44689	1128	C/T	376	GGC/GGT	G/G	Rv0041	leuS	syn	essential	yes
lineage3.1.2.2	60838	443	A/G	148	GAA/GGA	E/G	Rv0058	dnaB	nonsyn	essential	no
lineage3.1.2.2	67634	712	G/T	238	GCG/TCG	A/S	Rv0063	.	nonsyn	nonessential	no
lineage3.1.2.2	90729	330	G/A	110	GCG/GCA	A/A	Rv0083	.	syn	nonessential	no
lineage3.1.2.2	91191	792	C/T	264	GCC/GCT	A/A	Rv0083	.	syn	nonessential	no
lineage3.1.2.2	104767	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	104838	378	T/G	126	GAA/GAC	E/D	Rv0095c	.	nonsyn	nonessential	no
lineage3.1.2.2	104941	275	T/C	92	CAG/CGG	Q/R	Rv0095c	.	nonsyn	nonessential	no
lineage3.1.2.2	104942	274	G/C	92	CAG/GAG	Q/E	Rv0095c	.	nonsyn	nonessential	no
lineage3.1.2.2	105021	195	G/A	65	TCC/TCT	S/S	Rv0095c	.	syn	nonessential	no
lineage3.1.2.2	106628	1305	G/A	435	GCG/GCA	A/A	Rv0096	PPE1	syn	ND	no
lineage3.1.2.2	120388	1786	T/G	596	ATT/CTT	I/L	Rv0103c	ctpB	nonsyn	nonessential	no
lineage3.1.2.2	137418	100	A/T	34	ATT/TTT	I/F	Rv0113	gmhA	nonsyn	nonessential	no
lineage3.1.2.2	171255	41	G/A	14	CGA/CAA	R/Q	Rv0145	.	nonsyn	nonessential	no
lineage3.1.2.2	187342	558	G/C	186	GCG/GCC	A/A	Rv0158	.	syn	nonessential	no
lineage3.1.2.2	205928	698	A/C	233	GAT/GCT	D/A	Rv0174	mce1F	nonsyn	nonessential	no
lineage3.1.2.2	217686	1418	G/A	473	GGC/GAC	G/D	Rv0186	bglS	nonsyn	nonessential	no
lineage3.1.2.2	226756	.	G/C	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	288173	988	T/C	330	TTG/CTG	L/L	Rv0237	lpqI	syn	nonessential	no
lineage3.1.2.2	333569	2742	G/C	914	GGC/GGG	G/G	Rv0278c	PE_PGRS3	syn	ND	no
lineage3.1.2.2	343092	963	C/T	321	TTC/TTT	F/F	Rv0282	eccA3	syn	essential	yes
lineage3.1.2.2	346898	1264	C/T	422	CTG/TTG	L/L	Rv0284	eccC3	syn	essential	yes
lineage3.1.2.2	376950	106	C/A	36	GTC/TTC	V/F	Rv0307c	.	nonsyn	nonessential	no
lineage3.1.2.2	430117	4563	G/A	1521	AAC/AAT	N/N	Rv0355c	PPE8	syn	ND	no
lineage3.1.2.2	450153	1651	C/G	551	GGG/CGG	G/R	Rv0373c	.	nonsyn	nonessential	no
lineage3.1.2.2	452961	194	C/T	65	GGT/GAT	G/D	Rv0375c	.	nonsyn	nonessential	no
lineage3.1.2.2	569953	.	T/C	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	581170	362	A/C	121	GAC/GCC	D/A	Rv0491	regX3	nonsyn	nonessential	no
lineage3.1.2.2	598594	1396	G/A	466	GGT/AGT	G/S	Rv0507	mmpL2	nonsyn	nonessential	no
lineage3.1.2.2	643904	1016	A/G	339	CAC/CGC	H/R	Rv0552	.	nonsyn	nonessential	no
lineage3.1.2.2	653527	757	C/T	253	CTC/TTC	L/F	Rv0562	grcC1	nonsyn	essential	no
lineage3.1.2.2	684941	532	T/C	178	TAC/CAC	Y/H	Rv0586	mce2R	nonsyn	nonessential	no
lineage3.1.2.2	689180	122	C/T	41	ACC/ATC	T/I	Rv0591	mce2C	nonsyn	nonessential	no
lineage3.1.2.2	709060	456	C/T	152	TTG/TTA	L/L	Rv0613c	.	syn	nonessential	no
lineage3.1.2.2	780652	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	782365	432	G/C	144	ATG/ATC	M/I	Rv0683	rpsG	nonsyn	essential	no
lineage3.1.2.2	831009	155	A/C	52	GAG/GCG	E/A	Rv0739	.	nonsyn	nonessential	no
lineage3.1.2.2	838105	.	T/G	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	875034	303	G/A	101	GCG/GCA	A/A	Rv0782	ptrBb	syn	nonessential	no
lineage3.1.2.2	898570	490	G/A	164	GCC/ACC	A/T	Rv0804	.	nonsyn	nonessential	no
lineage3.1.2.2	903849	125	A/C	42	AAG/ACG	K/T	Rv0809	purM	nonsyn	nonessential	no
lineage3.1.2.2	909501	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	909679	355	G/A	119	CGC/TGC	R/C	Rv0816c	thiX	nonsyn	nonessential	no
lineage3.1.2.2	927553	2193	C/T	731	GCC/GCT	A/A	Rv0833	PE_PGRS13	syn	ND	no
lineage3.1.2.2	931268	316	G/A	106	GGC/AGC	G/S	Rv0835	lpqQ	nonsyn	nonessential	no
lineage3.1.2.2	932004	.	C/G	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	949780	1339	C/G	447	GGG/CGG	G/R	Rv0853c	pdc	nonsyn	nonessential	no
lineage3.1.2.2	1064048	909	C/A	303	CTC/CTA	L/L	Rv0952	sucD	syn	essential	no
lineage3.1.2.2	1070058	176	C/T	59	GCC/GTC	A/V	Rv0958	.	nonsyn	nonessential	no
lineage3.1.2.2	1093409	948	C/T	316	GAG/GAA	E/E	Rv0978c	PE_PGRS17	syn	ND	no
lineage3.1.2.2	1229180	498	G/A	166	CCG/CCA	P/P	Rv1100	.	syn	nonessential	no
lineage3.1.2.2	1240513	327	T/C	109	GAT/GAC	D/D	Rv1115	.	syn	nonessential	no
lineage3.1.2.2	1255618	1064	G/A	355	GGC/GAC	G/D	Rv1130	prpD	nonsyn	nonessential	no
lineage3.1.2.2	1299661	144	G/T	48	AAC/AAA	N/K	Rv1168c	PPE17	nonsyn	ND	no
lineage3.1.2.2	1321604	85	G/C	29	GCG/CCG	A/P	Rv1183	mmpL10	nonsyn	essential	no
lineage3.1.2.2	1323386	1867	C/T	623	CCG/TCG	P/S	Rv1183	mmpL10	nonsyn	essential	no
lineage3.1.2.2	1349335	4	T/G	2	TCC/GCC	S/A	Rv1206	fadD6	nonsyn	nonessential	no
lineage3.1.2.2	1396281	2960	T/C	987	CAC/CGC	H/R	Rv1251c	.	nonsyn	nonessential	no
lineage3.1.2.2	1400102	133	C/T	45	CCG/TCG	P/S	Rv1253	deaD	nonsyn	nonessential	no
lineage3.1.2.2	1400209	240	G/C	80	AAG/AAC	K/N	Rv1253	deaD	nonsyn	nonessential	no
lineage3.1.2.2	1409825	109	C/T	37	GCG/ACG	A/T	Rv1261c	.	nonsyn	nonessential	no
lineage3.1.2.2	1475526	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	1523478	555	C/A	185	TCG/TCT	S/S	Rv1355c	moeY	syn	nonessential	no
lineage3.1.2.2	1559002	1902	G/C	634	GAG/GAC	E/D	Rv1384	carB	nonsyn	nonessential	no
lineage3.1.2.2	1576142	655	T/G	219	ATT/CTT	I/L	Rv1400c	lipI	nonsyn	nonessential	no
lineage3.1.2.2	1635893	865	C/T	289	CTG/TTG	L/L	Rv1451	ctaB	syn	nonessential	no
lineage3.1.2.2	1648096	1108	C/T	370	CCC/TCC	P/S	Rv1461	.	nonsyn	ND	no
lineage3.1.2.2	1691034	185	G/A	62	CGG/CAG	R/Q	Rv1500	.	nonsyn	nonessential	no
lineage3.1.2.2	1721806	255	C/T	85	AAG/AAA	K/K	Rv1526c	.	syn	nonessential	no
lineage3.1.2.2	1768269	1164	C/T	388	TTG/TTA	L/L	Rv1563c	treY	syn	nonessential	no
lineage3.1.2.2	1779078	.	G/T	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	1837815	741	T/G	247	GCT/GCG	A/A	Rv1633	uvrB	syn	nonessential	no
lineage3.1.2.2	1838753	1679	A/C	560	GAC/GCC	D/A	Rv1633	uvrB	nonsyn	nonessential	no
lineage3.1.2.2	1852289	17	G/A	6	CGC/CAC	R/H	Rv1641	infC	nonsyn	ND	no
lineage3.1.2.2	1855540	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	1862121	2364	C/T	788	CAC/CAT	H/H	Rv1650	pheT	syn	essential	yes
lineage3.1.2.2	1879450	4147	G/T	1383	GTG/TTG	V/L	Rv1661	pks7	nonsyn	essential	no
lineage3.1.2.2	1887720	1209	C/T	403	GCC/GCT	A/A	Rv1663	pks17	syn	essential	yes
lineage3.1.2.2	1914610	1009	A/G	337	ACA/GCA	T/A	Rv1689	tyrS	nonsyn	essential	no
lineage3.1.2.2	1940120	522	C/T	174	GAC/GAT	D/D	Rv1712	cmk	syn	essential	no
lineage3.1.2.2	1942808	150	C/T	50	GCC/GCT	A/A	Rv1715	fadB3	syn	essential	yes
lineage3.1.2.2	1956700	546	C/T	182	GTG/GTA	V/V	Rv1730c	.	syn	essential	yes
lineage3.1.2.2	1969545	542	A/T	181	TAC/TTC	Y/F	Rv1743	pknE	nonsyn	nonessential	no
lineage3.1.2.2	1973998	369	C/G	123	AAC/AAG	N/K	Rv1747	.	nonsyn	nonessential	no
lineage3.1.2.2	1973999	370	C/A	124	CTG/ATG	L/M	Rv1747	.	nonsyn	nonessential	no
lineage3.1.2.2	1990992	1586	C/T	529	CGC/CAC	R/H	Rv1759c	wag22	nonsyn	nonessential	no
lineage3.1.2.2	2036095	613	C/G	205	CGC/GGC	R/G	Rv1797	eccE5	nonsyn	nonessential	no
lineage3.1.2.2	2054898	462	C/T	154	GTG/GTA	V/V	Rv1812c	.	syn	nonessential	no
lineage3.1.2.2	2081538	1050	G/A	350	CAC/CAT	H/H	Rv1835c	.	syn	nonessential	no
lineage3.1.2.2	2167556	.	A/C	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	2174286	220	T/G	74	TGG/GGG	W/G	Rv1922	.	nonsyn	nonessential	no
lineage3.1.2.2	2196964	976	A/C	326	AAC/CAC	N/H	Rv1945	.	nonsyn	ND	no
lineage3.1.2.2	2201223	286	C/A	96	CTA/ATA	L/I	Rv1953	vapC14	nonsyn	nonessential	no
lineage3.1.2.2	2248739	682	C/T	228	GAC/AAC	D/N	Rv2003c	.	nonsyn	nonessential	no
lineage3.1.2.2	2269825	416	T/G	139	GAG/GCG	E/A	Rv2024c	.	nonsyn	nonessential	no
lineage3.1.2.2	2281989	376	G/A	126	GAC/AAC	D/N	Rv2035	.	nonsyn	nonessential	no
lineage3.1.2.2	2342425	618	G/C	206	GCG/GCC	A/A	Rv2084	.	syn	nonessential	no
lineage3.1.2.2	2374007	174	C/T	58	CAC/CAT	H/H	Rv2114	.	syn	nonessential	no
lineage3.1.2.2	2386793	501	C/T	167	CCC/CCT	P/P	Rv2125	.	syn	nonessential	no
lineage3.1.2.2	2415042	1353	G/T	451	CCC/CCA	P/P	Rv2155c	murD	syn	essential	yes
lineage3.1.2.2	2448800	641	G/A	214	AGG/AAG	R/K	Rv2187	fadD15	nonsyn	nonessential	no
lineage3.1.2.2	2470679	58	G/A	20	GAT/AAT	D/N	Rv2206	.	nonsyn	nonessential	no
lineage3.1.2.2	2484329	704	C/T	235	ACC/ATC	T/I	Rv2216	.	nonsyn	nonessential	no
lineage3.1.2.2	2522376	17	T/C	6	CTC/CCC	L/P	Rv2248	.	nonsyn	nonessential	no
lineage3.1.2.2	2541893	918	A/C	306	GAT/GAG	D/E	Rv2267c	.	nonsyn	nonessential	no
lineage3.1.2.2	2552436	877	C/T	293	CTG/TTG	L/L	Rv2280	.	syn	nonessential	no
lineage3.1.2.2	2603062	400	T/C	134	ACA/GCA	T/A	Rv2329c	narK1	nonsyn	nonessential	no
lineage3.1.2.2	2607391	931	T/C	311	ATC/GTC	I/V	Rv2333c	stp	nonsyn	nonessential	no
lineage3.1.2.2	2615670	978	G/A	326	CTG/CTA	L/L	Rv2339	mmpL9	syn	nonessential	no
lineage3.1.2.2	2683101	42	G/C	14	TTC/TTG	F/L	Rv2388c	hemN	nonsyn	essential	no
lineage3.1.2.2	2733816	587	A/C	196	GAG/GCG	E/A	Rv2436	rbsK	nonsyn	nonessential	no
lineage3.1.2.2	2777397	4866	G/C	1622	ATC/ATG	I/M	Rv2476c	gdh	nonsyn	ND	no
lineage3.1.2.2	2797245	141	C/A	47	GTG/GTT	V/V	Rv2487c	PE_PGRS42	syn	ND	no
lineage3.1.2.2	2815641	1240	C/G	414	GTG/CTG	V/L	Rv2501c	accA1	nonsyn	nonessential	no
lineage3.1.2.2	2831091	248	C/G	83	CGG/CCG	R/P	Rv2514c	.	nonsyn	nonessential	no
lineage3.1.2.2	2864476	50	G/A	17	CGC/CAC	R/H	Rv2541	.	nonsyn	nonessential	no
lineage3.1.2.2	2868019	237	G/C	79	CTG/CTC	L/L	Rv2545	vapB18	syn	nonessential	no
lineage3.1.2.2	2874344	2142	G/A	714	CGC/CGT	R/R	Rv2555c	alaS	syn	essential	yes
lineage3.1.2.2	2881898	141	G/C	47	TCG/TCC	S/S	Rv2562	.	syn	nonessential	no
lineage3.1.2.2	2895891	70	G/T	24	CTG/ATG	L/M	Rv2571c	.	nonsyn	nonessential	no
lineage3.1.2.2	2906135	629	C/T	210	GGG/GAG	G/E	Rv2581c	.	nonsyn	nonessential	no
lineage3.1.2.2	2935079	34	T/G	12	TCG/GCG	S/A	Rv2608	PPE42	nonsyn	ND	no
lineage3.1.2.2	2948360	199	G/T	67	CGC/AGC	R/S	Rv2621c	.	nonsyn	nonessential	no
lineage3.1.2.2	2994842	221	G/A	74	GCC/GTC	A/V	Rv2678c	hemE	nonsyn	nonessential	no
lineage3.1.2.2	3013911	237	C/T	79	CCG/CCA	P/P	Rv2697c	dut	syn	essential	yes
lineage3.1.2.2	3020100	104	G/T	35	ACG/AAG	T/K	Rv2705c	.	nonsyn	nonessential	no
lineage3.1.2.2	3035518	610	G/A	204	GCC/ACC	A/T	Rv2723	.	nonsyn	nonessential	no
lineage3.1.2.2	3068286	179	C/T	60	GGT/GAT	G/D	Rv2755c	hsdS.1	nonsyn	nonessential	no
lineage3.1.2.2	3071147	124	A/C	42	TGC/GGC	C/G	Rv2759c	vapC42	nonsyn	nonessential	no
lineage3.1.2.2	3079065	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	3087476	657	C/T	219	TAC/TAT	Y/Y	Rv2780	ald	syn	ND	no
lineage3.1.2.2	3102214	.	A/G	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	3119018	795	C/G	265	GCC/GCG	A/A	Rv2813	.	syn	essential	yes
lineage3.1.2.2	3136335	265	G/A	89	CGG/TGG	R/W	Rv2828A	.	nonsyn	essential	no
lineage3.1.2.2	3170270	454	G/A	152	CTG/TTG	L/L	Rv2858c	aldC	syn	nonessential	no
lineage3.1.2.2	3188662	210	G/A	70	TTC/TTT	F/F	Rv2877c	.	syn	nonessential	no
lineage3.1.2.2	3249788	4344	A/G	1448	GCA/GCG	A/A	Rv2931	ppsA	syn	nonessential	no
lineage3.1.2.2	3259987	4303	A/C	1435	AGT/CGT	S/R	Rv2933	ppsC	nonsyn	nonessential	no
lineage3.1.2.2	3262043	6359	G/T	2120	GGC/GTC	G/V	Rv2933	ppsC	nonsyn	nonessential	no
lineage3.1.2.2	3266987	4740	C/T	1580	CCC/CCT	P/P	Rv2934	ppsD	syn	nonessential	no
lineage3.1.2.2	3271084	3348	C/T	1116	GGC/GGT	G/G	Rv2935	ppsE	syn	nonessential	no
lineage3.1.2.2	3274540	469	G/A	157	GGC/AGC	G/S	Rv2938	drrC	nonsyn	essential	no
lineage3.1.2.2	3288944	481	C/T	161	CTG/TTG	L/L	Rv2943	.	syn	ND	no
lineage3.1.2.2	3307453	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	3360521	66	G/A	22	TAC/TAT	Y/Y	Rv3001c	ilvC	syn	essential	yes
lineage3.1.2.2	3381081	.	C/T	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	3385238	840	G/C	280	TGC/TGG	C/W	Rv3026c	.	nonsyn	nonessential	no
lineage3.1.2.2	3429113	1871	T/G	624	CTG/CGG	L/R	Rv3063	cstA	nonsyn	nonessential	no
lineage3.1.2.2	3440508	968	T/G	323	CTG/CGG	L/R	Rv3077	.	nonsyn	nonessential	no
lineage3.1.2.2	3442401	197	G/T	66	GCG/GAG	A/E	Rv3079c	.	nonsyn	nonessential	no
lineage3.1.2.2	3521109	603	G/A	201	GTG/GTA	V/V	Rv3153	nuoI	syn	nonessential	no
lineage3.1.2.2	3561514	1659	T/C	553	CGA/CGG	R/R	Rv3193c	.	syn	nonessential	no
lineage3.1.2.2	3579236	965	C/T	322	CGG/CAG	R/Q	Rv3202c	.	nonsyn	nonessential	no
lineage3.1.2.2	3629291	357	A/G	119	GGT/GGC	G/G	Rv3248c	sahH	syn	essential	yes
lineage3.1.2.2	3669012	377	T/C	126	GAT/GGT	D/G	Rv3287c	rsbW	nonsyn	nonessential	no
lineage3.1.2.2	3689435	8	T/A	3	AAC/ATC	N/I	Rv3302c	glpD2	nonsyn	nonessential	no
lineage3.1.2.2	3714595	204	G/A	68	GGG/GGA	G/G	Rv3329	.	syn	nonessential	no
lineage3.1.2.2	3786474	161	C/T	54	GCC/GTC	A/V	Rv3372	otsB2	nonsyn	essential	no
lineage3.1.2.2	3798095	395	A/C	132	GTC/GGC	V/G	Rv3383c	idsB	nonsyn	nonessential	no
lineage3.1.2.2	3805025	161	A/G	54	GAC/GGC	D/G	Rv3390	lpqD	nonsyn	nonessential	no
lineage3.1.2.2	3813838	241	C/T	81	GCG/ACG	A/T	Rv3396c	guaA	nonsyn	essential	no
lineage3.1.2.2	3873066	450	G/A	150	GCG/GCA	A/A	Rv3451	cut3	syn	nonessential	no
lineage3.1.2.2	3893839	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	3903429	352	G/A	118	GTC/ATC	V/I	Rv3484	cpsA	nonsyn	essential	no
lineage3.1.2.2	3903683	606	C/G	202	GCC/GCG	A/A	Rv3484	cpsA	syn	essential	yes
lineage3.1.2.2	3911986	1384	G/C	462	CCG/GCG	P/A	Rv3494c	mce4F	nonsyn	nonessential	no
lineage3.1.2.2	3921027	.	C/G	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	3922086	171	C/T	57	GCG/GCA	A/A	Rv3503c	fdxD	syn	nonessential	no
lineage3.1.2.2	3978182	124	G/A	42	GCG/ACG	A/T	Rv3539	PPE63	nonsyn	ND	no
lineage3.1.2.2	3988586	513	C/T	171	GTG/GTA	V/V	Rv3549c	.	syn	nonessential	no
lineage3.1.2.2	3989368	216	T/C	72	GGT/GGC	G/G	Rv3550	echA20	syn	nonessential	no
lineage3.1.2.2	4012457	41	T/C	14	GTC/GCC	V/A	Rv3571	kshB	nonsyn	nonessential	no
lineage3.1.2.2	4016543	60	C/A	20	CGC/CGA	R/R	Rv3574	kstR	syn	essential	yes
lineage3.1.2.2	4028452	562	A/C	188	ACG/CCG	T/P	Rv3586	.	nonsyn	nonessential	no
lineage3.1.2.2	4103960	516	C/T	172	CGG/CGA	R/R	Rv3664c	dppC	syn	nonessential	no
lineage3.1.2.2	4165272	1460	G/A	487	GCC/GTC	A/V	Rv3721c	dnaZX	nonsyn	essential	no
lineage3.1.2.2	4192083	97	C/G	33	GGA/CGA	G/R	Rv3740c	.	nonsyn	nonessential	no
lineage3.1.2.2	4212935	643	G/C	215	GCG/CCG	A/P	Rv3766	.	nonsyn	nonessential	no
lineage3.1.2.2	4229363	106	C/A	36	CAC/AAC	H/N	Rv3783	rfbD	nonsyn	nonessential	no
lineage3.1.2.2	4254465	1484	A/C	495	CTG/CGG	L/R	Rv3799c	accD4	nonsyn	essential	no
lineage3.1.2.2	4320269	.	T/G	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	4320444	.	G/A	.	./.	./.	.	.	inter	.	no
lineage3.1.2.2	4326176	1298	T/G	433	GAG/GCG	E/A	Rv3854c	ethA	nonsyn	nonessential	no
lineage3.1.2.2	4384570	810	G/C	270	GTC/GTG	V/V	Rv3899c	.	syn	nonessential	no
lineage3.1.2.2	4406399	93	C/T	31	CCG/CCA	P/P	Rv3917c	parB	syn	essential	yes
lineage4	15117	204	C/G	68	ATC/ATG	I/M	Rv0013	trpG	nonsyn	nonessential	no
lineage4	70267	1648	G/T	550	GTC/TTC	V/F	Rv0064	.	nonsyn	nonessential	no
lineage4	123520	1204	T/C	402	TAT/CAT	Y/H	Rv0104	.	nonsyn	nonessential	no
lineage4	143207	670	T/C	224	AGC/GGC	S/G	Rv0118c	oxcA	nonsyn	essential	no
lineage4	251575	1456	G/A	486	GCG/ACG	A/T	Rv0210	.	nonsyn	nonessential	no
lineage4	325505	939	T/C	313	GTT/GTC	V/V	Rv0270	fadD2	syn	nonessential	yes
lineage4	342146	17	A/C	6	GAA/GCA	E/A	Rv0282	eccA3	nonsyn	essential	no
lineage4	392261	223	T/C	75	TAG/CAG	*/Q	Rv0325	.	nonsyn	nonessential	no
lineage4	445780	746	C/T	249	CGT/CAT	R/H	Rv0368c	.	nonsyn	nonessential	no
lineage4	491742	960	T/C	320	TTT/TTC	F/F	Rv0407	fgd1	syn	nonessential	no
lineage4	492150	365	G/C	122	GGC/GCC	G/A	Rv0408	pta	nonsyn	nonessential	no
lineage4	498531	1089	A/G	363	GCT/GCC	A/A	Rv0412c	.	syn	essential	no
lineage4	505974	889	G/A	297	GCG/ACG	A/T	Rv0419	lpqM	nonsyn	nonessential	no
lineage4	546357	447	A/G	149	ACT/ACC	T/T	Rv0456c	echA2	syn	nonessential	no
lineage4	584171	520	T/C	174	AGT/GGT	S/G	Rv0493c	.	nonsyn	nonessential	no
lineage4	599868	2670	A/G	890	CGA/CGG	R/R	Rv0507	mmpL2	syn	nonessential	yes
lineage4	648856	321	T/C	107	GGT/GGC	G/G	Rv0557	mgtA	syn	essential	no
lineage4	655986	.	T/A	.	./.	./.	.	.	inter	.	no
lineage4	662911	1617	T/C	539	GCT/GCC	A/A	Rv0570	nrdZ	syn	nonessential	no
lineage4	757182	1046	A/G	349	GAC/GGC	D/G	Rv0663	atsD	nonsyn	nonessential	no
lineage4	763031	3225	T/C	1075	GCT/GCC	A/A	Rv0667	rpoB	syn	ND	no
lineage4	776100	2381	G/A	794	ACC/ATC	T/I	Rv0676c	mmpL5	nonsyn	nonessential	no
lineage4	820752	725	C/T	242	CGC/CAC	R/H	Rv0728c	serA2	nonsyn	nonessential	no
lineage4	931123	171	T/C	57	TAT/TAC	Y/Y	Rv0835	lpqQ	syn	nonessential	yes
lineage4	934230	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4	934611	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4	941845	656	C/A	219	GCG/GAG	A/E	Rv0845	.	nonsyn	nonessential	no
lineage4	960367	2246	A/G	749	TTG/TCG	L/S	Rv0862c	.	nonsyn	nonessential	no
lineage4	1054784	538	C/G	180	CGC/GGC	R/G	Rv0945	.	nonsyn	nonessential	no
lineage4	1098523	1016	T/A	339	CTT/CAT	L/H	Rv0982	mprB	nonsyn	essential	no
lineage4	1104690	2149	T/G	717	TTC/GTC	F/V	Rv0987	.	nonsyn	nonessential	no
lineage4	1107940	160	A/C	54	TCC/GCC	S/A	Rv0990c	.	nonsyn	nonessential	no
lineage4	1144585	22	A/G	8	AGG/GGG	R/G	Rv1023	eno	nonsyn	essential	no
lineage4	1148259	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4	1211369	775	A/C	259	AGC/CGC	S/R	Rv1086	.	nonsyn	nonessential	no
lineage4	1230778	194	G/A	65	ACC/ATC	T/I	Rv1102c	mazF3	nonsyn	nonessential	no
lineage4	1248382	301	A/G	101	AGC/GGC	S/G	Rv1125	.	nonsyn	nonessential	no
lineage4	1250340	1065	A/G	355	GCT/GCC	A/A	Rv1127c	ppdK	syn	nonessential	no
lineage4	1254562	8	A/G	3	GAT/GGT	D/G	Rv1130	prpD	nonsyn	nonessential	no
lineage4	1281771	343	T/C	115	TCG/CCG	S/P	Rv1155	.	nonsyn	nonessential	no
lineage4	1351172	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4	1367484	22	T/G	8	TGG/GGG	W/G	Rv1224	tatB	nonsyn	essential	no
lineage4	1390763	2290	C/T	764	GTG/ATG	V/M	Rv1248c	.	nonsyn	essential	no
lineage4	1479085	34	T/C	12	ATC/GTC	I/V	Rv1317c	alkA	nonsyn	nonessential	no
lineage4	1490905	1408	A/G	470	TCT/CCT	S/P	Rv1326c	glgB	nonsyn	essential	no
lineage4	1540141	505	T/C	169	ATC/GTC	I/V	Rv1367c	.	nonsyn	nonessential	no
lineage4	1544255	897	C/T	299	CGC/CGT	R/R	Rv1371	.	syn	essential	no
lineage4	1608276	194	A/C	65	AAC/ACC	N/T	Rv1431	.	nonsyn	nonessential	no
lineage4	1688300	360	T/C	120	TTT/TTC	F/F	Rv1497	lipL	syn	nonessential	no
lineage4	1849609	2427	T/C	809	CGA/CGG	R/R	Rv1640c	lysX	syn	essential	no
lineage4	1859559	827	C/A	276	GCC/GAC	A/D	Rv1649	pheS	nonsyn	essential	no
lineage4	2010614	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4	2050822	902	G/C	301	GGA/GCA	G/A	Rv1808	PPE32	nonsyn	ND	no
lineage4	2122976	176	C/G	59	GGT/GCT	G/A	Rv1872c	lldD2	nonsyn	nonessential	no
lineage4	2154724	1388	C/A	463	CGG/CTG	R/L	Rv1908c	katG	nonsyn	nonessential	no
lineage4	2158109	983	T/C	328	GAC/GGC	D/G	Rv1912c	fadB5	nonsyn	nonessential	no
lineage4	2167926	2687	A/G	896	TTG/TCG	L/S	Rv1918c	PPE35	nonsyn	ND	no
lineage4	2199052	13	C/G	5	GGT/CGT	G/R	Rv1948c	.	nonsyn	nonessential	no
lineage4	2260100	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4	2328543	435	T/C	145	ATA/ATG	I/M	Rv2071c	cobM	nonsyn	nonessential	no
lineage4	2369186	544	G/C	182	CGT/GGT	R/G	Rv2109c	prcA	nonsyn	essential	no
lineage4	2425471	1617	T/C	539	CGA/CGG	R/R	Rv2163c	pbpB	syn	essential	no
lineage4	2448458	299	C/T	100	ACC/ATC	T/I	Rv2187	fadD15	nonsyn	nonessential	no
lineage4	2470591	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4	2619271	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4	2723506	678	T/C	226	TTA/TTG	L/L	Rv2426c	.	syn	nonessential	no
lineage4	2791098	1397	C/T	466	GGT/GAT	G/D	Rv2484c	.	nonsyn	nonessential	no
lineage4	2807486	209	C/A	70	GCC/GAC	A/D	Rv2492	.	nonsyn	nonessential	no
lineage4	2825466	789	G/A	263	AAG/AAA	K/K	Rv2509	.	syn	nonessential	no
lineage4	2847281	2052	A/G	684	GAT/GAC	D/D	Rv2524c	fas	syn	essential	no
lineage4	2886570	198	A/G	66	GAA/GAG	E/E	Rv2566	.	syn	nonessential	no
lineage4	2925962	229	T/C	77	TGC/CGC	C/R	Rv2596	vapC40	nonsyn	nonessential	no
lineage4	3003115	1133	C/G	378	GCA/GGA	A/G	Rv2685	arsB1	nonsyn	nonessential	no
lineage4	3010420	397	A/G	133	ATC/GTC	I/V	Rv2692	ceoC	nonsyn	essential	no
lineage4	3079877	581	A/G	194	TTC/TCC	F/S	Rv2770c	PPE44	nonsyn	ND	no
lineage4	3104189	723	A/G	241	TGT/TGC	C/C	Rv2795c	.	syn	nonessential	no
lineage4	3174496	148	A/G	50	TGT/CGT	C/R	Rv2862c	.	nonsyn	nonessential	no
lineage4	3180988	775	C/A	259	GTC/TTC	V/F	Rv2869c	rip	nonsyn	essential	no
lineage4	3189242	156	A/G	52	GCT/GCC	A/A	Rv2878c	mpt53	syn	ND	no
lineage4	3314412	711	A/G	237	GCT/GCC	A/A	Rv2962c	.	syn	nonessential	no
lineage4	3326554	454	A/C	152	AAC/CAC	N/H	Rv2971	.	nonsyn	essential	no
lineage4	3335708	41	G/C	14	CCG/CGG	P/R	Rv2979c	.	nonsyn	nonessential	no
lineage4	3420825	1334	A/G	445	GAC/GGC	D/G	Rv3059	cyp136	nonsyn	nonessential	no
lineage4	3454263	1339	C/G	447	CTC/GTC	L/V	Rv3087	.	nonsyn	essential	no
lineage4	3466919	173	C/G	58	GGC/GCC	G/A	Rv3097c	lipY	nonsyn	nonessential	no
lineage4	3467465	198	C/G	66	GCG/GCC	A/A	Rv3098c	.	syn	nonessential	no
lineage4	3510120	1198	T/G	400	AAG/CAG	K/Q	Rv3144c	PPE52	nonsyn	ND	no
lineage4	3530955	184	C/G	62	GTC/CTC	V/L	Rv3161c	.	nonsyn	nonessential	no
lineage4	3638093	617	G/A	206	TCG/TTG	S/L	Rv3257c	pmmA	nonsyn	essential	no
lineage4	3670040	372	C/T	124	GCG/GCA	A/A	Rv3289c	.	syn	nonessential	no
lineage4	3681548	229	A/C	77	AGG/CGG	R/R	Rv3297	nei	syn	nonessential	no
lineage4	3693681	309	A/C	103	GCT/GCG	A/A	Rv3306c	amiB1	syn	nonessential	no
lineage4	3750417	2768	A/T	923	TTC/TAC	F/Y	Rv3347c	PPE55	nonsyn	ND	no
lineage4	3750421	2764	T/C	922	AGC/GGC	S/G	Rv3347c	PPE55	nonsyn	ND	no
lineage4	3830695	825	A/G	275	GCT/GCC	A/A	Rv3411c	guaB2	syn	essential	no
lineage4	3895727	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4	3909235	1000	G/C	334	GTG/CTG	V/L	Rv3490	otsA	nonsyn	essential	no
lineage4	3984321	1125	G/A	375	CAC/CAT	H/H	Rv3545c	cyp125	syn	essential	no
lineage4	4028752	862	A/G	288	ACG/GCG	T/A	Rv3586	.	nonsyn	nonessential	no
lineage4	4056416	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4	4107074	11	T/C	4	CAG/CGG	Q/R	Rv3666c	dppA	nonsyn	essential	no
lineage4	4112429	1087	T/C	363	ATC/GTC	I/V	Rv3671c	.	nonsyn	nonessential	no
lineage4	4145737	1155	A/G	385	TAT/TAC	Y/Y	Rv3703c	.	syn	nonessential	no
lineage4	4179089	805	C/T	269	CCG/TCG	P/S	Rv3729	.	nonsyn	nonessential	no
lineage4	4215484	292	G/C	98	CCC/GCC	P/A	Rv3770c	.	nonsyn	nonessential	no
lineage4	4217557	424	A/G	142	ACG/GCG	T/A	Rv3772	hisC2	nonsyn	nonessential	no
lineage4	4251297	213	G/C	71	GGG/GGC	G/G	Rv3797	fadE35	syn	nonessential	no
lineage4	4287164	444	A/G	148	GGA/GGG	G/G	Rv3822	.	syn	nonessential	no
lineage4	4313128	364	C/T	122	CCC/TCC	P/S	Rv3839	.	nonsyn	nonessential	no
lineage4	4329782	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4	4383655	331	A/G	111	TAG/CAG	*/Q	Rv3898c	.	nonsyn	nonessential	no
lineage4	4384007	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4	4407588	615	T/C	205	GCA/GCG	A/A	Rv3919c	gid	syn	nonessential	no
lineage4	4408923	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1	11370	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1	30943	1222	C/T	408	CCC/TCC	P/S	Rv0026	.	nonsyn	nonessential	no
lineage4.1	31077	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1	51954	744	T/A	248	GAA/GAT	E/D	Rv0048c	.	nonsyn	nonessential	no
lineage4.1	57393	.	A/T	.	./.	./.	.	.	inter	.	no
lineage4.1	62657	2262	G/A	754	CCG/CCA	P/P	Rv0058	dnaB	syn	essential	yes
lineage4.1	83982	1235	A/G	412	TAA/TGA	*/*	Rv0074	.	syn	nonessential	no
lineage4.1	177596	1714	T/C	572	ATT/GTT	I/V	Rv0151c	PE1	nonsyn	ND	no
lineage4.1	178946	364	C/T	122	GCA/ACA	A/T	Rv0151c	PE1	nonsyn	ND	no
lineage4.1	220050	1674	C/T	558	CTG/CTA	L/L	Rv0189c	ilvD	syn	essential	no
lineage4.1	397275	1075	G/C	359	GCG/CCG	A/P	Rv0331	.	nonsyn	nonessential	no
lineage4.1	489073	3343	C/G	1115	CTT/GTT	L/V	Rv0405	pks6	nonsyn	nonessential	no
lineage4.1	546914	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1	628895	837	G/A	279	TTC/TTT	F/F	Rv0537c	.	syn	nonessential	no
lineage4.1	657269	202	A/G	68	TCG/CCG	S/P	Rv0565c	.	nonsyn	nonessential	no
lineage4.1	686655	728	C/T	243	ACC/ATC	T/I	Rv0588	yrbE2B	nonsyn	essential	no
lineage4.1	765150	1781	G/A	594	GGG/GAG	G/E	Rv0668	rpoC	nonsyn	essential	no
lineage4.1	788259	320	G/T	107	GGT/GTT	G/V	Rv0688	.	nonsyn	nonessential	no
lineage4.1	850591	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1	897209	1390	G/C	464	GAG/CAG	E/Q	Rv0803	purL	nonsyn	essential	no
lineage4.1	902413	303	C/T	101	GTC/GTT	V/V	Rv0808	purF	syn	essential	no
lineage4.1	919574	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1	923065	645	T/A	215	GGA/GGT	G/G	Rv0831c	.	syn	nonessential	no
lineage4.1	983485	724	T/G	242	TCG/GCG	S/A	Rv0885	.	nonsyn	nonessential	no
lineage4.1	1148255	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1	1292464	1400	C/T	467	GCG/GTG	A/V	Rv1162	narH	nonsyn	nonessential	no
lineage4.1	1393994	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1	1444202	846	C/G	282	TTG/TTC	L/F	Rv1290c	.	nonsyn	nonessential	no
lineage4.1	1495326	763	A/G	255	AAA/GAA	K/E	Rv1328	glgP	nonsyn	nonessential	no
lineage4.1	1589383	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.1	1875207	1048	C/T	350	CTG/TTG	L/L	Rv1660	pks10	syn	nonessential	no
lineage4.1	2007502	265	G/A	89	CAC/TAC	H/Y	Rv1773c	.	nonsyn	nonessential	no
lineage4.1	2020144	888	G/A	296	GAG/GAA	E/E	Rv1783	eccC5	syn	nonessential	no
lineage4.1	2026148	848	C/T	283	GCG/GTG	A/V	Rv1787	PPE25	nonsyn	ND	no
lineage4.1	2039901	449	C/T	150	GCA/GTA	A/V	Rv1800	PPE28	nonsyn	ND	no
lineage4.1	2202833	250	G/A	84	GAC/AAC	D/N	Rv1957	.	nonsyn	nonessential	no
lineage4.1	2225456	377	A/T	126	CTT/CAT	L/H	Rv1982c	vapC36	nonsyn	nonessential	no
lineage4.1	2248179	520	A/G	174	AGC/GGC	S/G	Rv2002	fabG3	nonsyn	nonessential	no
lineage4.1	2253453	1452	T/C	484	CGT/CGC	R/R	Rv2006	otsB1	syn	nonessential	no
lineage4.1	2263760	335	C/T	112	CCC/CTC	P/L	Rv2016	.	nonsyn	nonessential	no
lineage4.1	2307701	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1	2325009	862	C/T	288	GAG/AAG	E/K	Rv2067c	.	nonsyn	nonessential	no
lineage4.1	2574022	210	C/T	70	CGC/CGT	R/R	Rv2302	.	syn	nonessential	no
lineage4.1	2610702	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1	2617673	1236	G/A	412	CAC/CAT	H/H	Rv2340c	PE_PGRS39	syn	ND	no
lineage4.1	2671061	543	C/A	181	GCG/GCT	A/A	Rv2382c	mbtC	syn	essential	no
lineage4.1	2700239	1711	G/A	571	GTG/ATG	V/M	Rv2402	.	nonsyn	nonessential	no
lineage4.1	2739174	513	T/G	171	GGA/GGC	G/G	Rv2440c	obg	syn	essential	no
lineage4.1	2760241	463	G/A	155	GAA/AAA	E/K	Rv2458	mmuM	nonsyn	nonessential	no
lineage4.1	2788745	539	C/T	180	CGG/CAG	R/Q	Rv2482c	plsB2	nonsyn	nonessential	no
lineage4.1	2808506	197	G/A	66	CGG/CAG	R/Q	Rv2494	vapC38	nonsyn	nonessential	no
lineage4.1	2906978	165	C/T	55	CTC/CTT	L/L	Rv2582	ppiB	syn	essential	no
lineage4.1	2953367	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1	2958749	1178	G/A	393	GGT/GAT	G/D	Rv2631	.	nonsyn	nonessential	no
lineage4.1	3005618	33	C/T	11	GCG/GCA	A/A	Rv2688c	.	syn	nonessential	no
lineage4.1	3086208	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.1	3289923	134	C/A	45	CCC/CAC	P/H	Rv2944	.	nonsyn	ND	no
lineage4.1	3355161	63	C/T	21	CGC/CGT	R/R	Rv2997	.	syn	nonessential	no
lineage4.1	3440895	1355	G/A	452	CGT/CAT	R/H	Rv3077	.	nonsyn	nonessential	no
lineage4.1	3465812	1280	G/A	427	CCG/CTG	P/L	Rv3097c	lipY	nonsyn	nonessential	no
lineage4.1	3556607	81	G/T	27	AGC/AGA	S/R	Rv3190c	.	nonsyn	nonessential	no
lineage4.1	3603355	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1	3783058	1683	G/A	561	AGC/AGT	S/S	Rv3370c	dnaE2	syn	nonessential	no
lineage4.1	3812821	1258	A/C	420	TTG/GTG	L/V	Rv3396c	guaA	nonsyn	essential	no
lineage4.1	3854174	620	G/A	207	GCG/GTG	A/V	Rv3435c	.	nonsyn	nonessential	no
lineage4.1	3866350	1889	C/T	630	GGA/GAA	G/E	Rv3447c	eccC4	nonsyn	nonessential	no
lineage4.1	3873242	626	G/A	209	GGC/GAC	G/D	Rv3451	cut3	nonsyn	nonessential	no
lineage4.1	3887921	882	A/G	294	TTT/TTC	F/F	Rv3470c	ilvB2	syn	nonessential	no
lineage4.1	3922380	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1	3925733	844	T/G	282	TTC/GTC	F/V	Rv3506	fadD17	nonsyn	nonessential	no
lineage4.1	4063682	223	G/T	75	CTG/ATG	L/M	Rv3624c	hpt	nonsyn	nonessential	no
lineage4.1	4086802	456	G/A	152	CAC/CAT	H/H	Rv3646c	topA	syn	essential	no
lineage4.1	4146314	578	G/T	193	CCG/CAG	P/Q	Rv3703c	.	nonsyn	nonessential	no
lineage4.1	4242803	2941	G/C	981	GTG/CTG	V/L	Rv3793	embC	nonsyn	essential	no
lineage4.1	4306929	63	G/T	21	CGG/CGT	R/R	Rv3833	.	syn	nonessential	no
lineage4.1	4323355	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.1	4340006	1158	A/C	386	GCA/GCC	A/A	Rv3863	.	syn	nonessential	no
lineage4.1	4357123	431	C/A	144	ACG/AAG	T/K	Rv3878	espJ	nonsyn	ND	no
lineage4.1	4384417	963	C/T	321	CTG/CTA	L/L	Rv3899c	.	syn	nonessential	no
lineage4.1	4386709	106	C/T	36	GCG/ACG	A/T	Rv3901c	.	nonsyn	nonessential	no
lineage4.1	4400246	61	G/A	21	GAC/AAC	D/N	Rv3911	sigM	nonsyn	nonessential	no
lineage4.1.1	75264	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1	95591	178	G/T	60	GAA/TAA	E/*	Rv0087	hycE	nonsyn	nonessential	no
lineage4.1.1	265968	462	C/G	154	CGC/CGG	R/R	Rv0222	echA1	syn	ND	no
lineage4.1.1	514245	1077	C/T	359	GTG/GTA	V/V	Rv0425c	ctpH	syn	essential	yes
lineage4.1.1	599165	1967	A/C	656	GAG/GCG	E/A	Rv0507	mmpL2	nonsyn	nonessential	no
lineage4.1.1	869440	324	C/T	108	CTG/CTA	L/L	Rv0776c	.	syn	nonessential	no
lineage4.1.1	877224	1217	C/A	406	GGC/GTC	G/V	Rv0783c	emrB	nonsyn	nonessential	no
lineage4.1.1	1256806	675	C/T	225	GAC/GAT	D/D	Rv1131	prpC	syn	nonessential	no
lineage4.1.1	1538659	270	T/G	90	CGT/CGG	R/R	Rv1366	.	syn	nonessential	no
lineage4.1.1	1553633	402	T/C	134	GGT/GGC	G/G	Rv1380	pyrB	syn	essential	yes
lineage4.1.1	1896387	268	T/C	90	TGG/CGG	W/R	Rv1670	.	nonsyn	nonessential	no
lineage4.1.1	1952601	750	C/T	250	CAC/CAT	H/H	Rv1726	.	syn	nonessential	no
lineage4.1.1	1960391	97	G/A	33	CCG/TCG	P/S	Rv1733c	.	nonsyn	nonessential	no
lineage4.1.1	2132152	178	T/C	60	ATC/GTC	I/V	Rv1881c	lppE	nonsyn	nonessential	no
lineage4.1.1	2158582	510	G/A	170	GGC/GGT	G/G	Rv1912c	fadB5	syn	nonessential	no
lineage4.1.1	2162803	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1.1	2527120	132	C/T	44	GAC/GAT	D/D	Rv2252	.	syn	nonessential	no
lineage4.1.1	2580954	536	G/C	179	CGA/CCA	R/P	Rv2308	.	nonsyn	nonessential	no
lineage4.1.1	2582348	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1	2603797	426	G/A	142	ATC/ATT	I/I	Rv2330c	lppP	syn	nonessential	no
lineage4.1.1	2752854	141	G/A	47	GAC/GAT	D/D	Rv2452c	.	syn	nonessential	no
lineage4.1.1	2946570	137	G/A	46	GGC/GAC	G/D	Rv2618	.	nonsyn	nonessential	no
lineage4.1.1	3001395	782	T/C	261	GTG/GCG	V/A	Rv2684	arsA	nonsyn	nonessential	no
lineage4.1.1	3017276	419	A/G	140	AAC/AGC	N/S	Rv2702	ppgK	nonsyn	essential	no
lineage4.1.1	3129359	2415	C/T	805	AAG/AAA	K/K	Rv2823c	.	syn	ND	no
lineage4.1.1	3170663	61	T/C	21	ACC/GCC	T/A	Rv2858c	aldC	nonsyn	nonessential	no
lineage4.1.1	3231091	1416	C/A	472	GTG/GTT	V/V	Rv2920c	amt	syn	nonessential	no
lineage4.1.1	3352244	976	A/G	326	ACC/GCC	T/A	Rv2994	.	nonsyn	nonessential	no
lineage4.1.1	3597737	30	C/T	10	GTG/GTA	V/V	Rv3221c	TB7.3	syn	nonessential	no
lineage4.1.1	3683037	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1	4003130	1494	G/A	498	GTG/GTA	V/V	Rv3561	fadD3	syn	nonessential	no
lineage4.1.1	4192588	266	G/A	89	GCG/GTG	A/V	Rv3741c	.	nonsyn	nonessential	no
lineage4.1.1	4232863	735	G/C	245	GAC/GAG	D/E	Rv3786c	.	nonsyn	nonessential	no
lineage4.1.1	4306767	45	G/A	15	GGC/GGT	G/G	Rv3832c	.	syn	nonessential	no
lineage4.1.1	4375480	204	C/T	68	GCG/GCA	A/A	Rv3892c	PPE69	syn	ND	no
lineage4.1.1.1	17609	1154	C/G	385	AGC/ACC	S/T	Rv0015c	pknA	nonsyn	essential	no
lineage4.1.1.1	43191	175	C/A	59	GCG/TCG	A/S	Rv0040c	mtc28	nonsyn	nonessential	no
lineage4.1.1.1	69873	1254	C/A	418	CTC/CTA	L/L	Rv0064	.	syn	nonessential	no
lineage4.1.1.1	163670	305	A/G	102	GAC/GGC	D/G	Rv0136	cyp138	nonsyn	nonessential	no
lineage4.1.1.1	165941	115	C/T	39	CCC/TCC	P/S	Rv0139	.	nonsyn	nonessential	no
lineage4.1.1.1	167577	105	G/A	35	GAC/GAT	D/D	Rv0141c	.	syn	nonessential	no
lineage4.1.1.1	201123	192	A/C	64	GGA/GGC	G/G	Rv0171	mce1C	syn	essential	yes
lineage4.1.1.1	253969	672	G/A	224	ATC/ATT	I/I	Rv0212c	nadR	syn	nonessential	no
lineage4.1.1.1	418998	50	G/A	17	CGC/CAC	R/H	Rv0349	.	nonsyn	nonessential	no
lineage4.1.1.1	545911	893	A/G	298	ATC/ACC	I/T	Rv0456c	echA2	nonsyn	nonessential	no
lineage4.1.1.1	583979	712	G/T	238	CTG/ATG	L/M	Rv0493c	.	nonsyn	nonessential	no
lineage4.1.1.1	586644	251	C/T	84	ACC/ATC	T/I	Rv0496	.	nonsyn	nonessential	no
lineage4.1.1.1	894079	762	C/T	254	TTC/TTT	F/F	Rv0800	pepC	syn	nonessential	no
lineage4.1.1.1	1006080	483	G/A	161	GTC/GTT	V/V	Rv0903c	prrA	syn	nonessential	no
lineage4.1.1.1	1078777	35	C/A	12	GCG/GAG	A/E	Rv0969	ctpV	nonsyn	nonessential	no
lineage4.1.1.1	1139102	136	G/A	46	GCC/ACC	A/T	Rv1020	mfd	nonsyn	nonessential	no
lineage4.1.1.1	1190137	288	C/T	96	GAG/GAA	E/E	Rv1067c	PE_PGRS19	syn	ND	no
lineage4.1.1.1	1190143	282	A/G	94	AAT/AAC	N/N	Rv1067c	PE_PGRS19	syn	ND	no
lineage4.1.1.1	1326796	717	T/G	239	GAA/GAC	E/D	Rv1185c	fadD21	nonsyn	essential	no
lineage4.1.1.1	1357605	21	C/T	7	ACG/ACA	T/T	Rv1214c	PE14	syn	ND	no
lineage4.1.1.1	1430989	928	T/G	310	TTG/GTG	L/V	Rv1279	.	nonsyn	nonessential	no
lineage4.1.1.1	1626022	941	T/C	314	CAG/CGG	Q/R	Rv1447c	zwf2	nonsyn	nonessential	no
lineage4.1.1.1	1719679	954	T/C	318	CAT/CAC	H/H	Rv1524	.	syn	essential	yes
lineage4.1.1.1	1850119	1917	C/T	639	ACG/ACA	T/T	Rv1640c	lysX	syn	essential	yes
lineage4.1.1.1	1989235	194	G/A	65	GGA/GAA	G/E	Rv1758	cut1	nonsyn	nonessential	no
lineage4.1.1.1	2053091	159	C/G	53	ATC/ATG	I/M	Rv1810	.	nonsyn	nonessential	no
lineage4.1.1.1	2080941	1647	G/A	549	GTC/GTT	V/V	Rv1835c	.	syn	nonessential	no
lineage4.1.1.1	2278376	111	G/A	37	GAC/GAT	D/D	Rv2030c	.	syn	nonessential	no
lineage4.1.1.1	2308431	2325	T/C	775	GAA/GAG	E/E	Rv2051c	ppm1	syn	nonessential	no
lineage4.1.1.1	2369664	66	C/T	22	AAG/AAA	K/K	Rv2109c	prcA	syn	essential	yes
lineage4.1.1.1	2586127	1164	A/G	388	GGT/GGC	G/G	Rv2314c	.	syn	nonessential	no
lineage4.1.1.1	2751838	343	T/C	115	ATC/GTC	I/V	Rv2450c	rpfE	nonsyn	nonessential	no
lineage4.1.1.1	2754749	1956	G/T	652	AAC/AAA	N/K	Rv2455c	.	nonsyn	nonessential	no
lineage4.1.1.1	2773673	110	T/G	37	TTC/TGC	F/C	Rv2471	aglA	nonsyn	nonessential	no
lineage4.1.1.1	2818541	587	C/T	196	GGC/GAC	G/D	Rv2503c	scoB	nonsyn	nonessential	no
lineage4.1.1.1	2824839	162	C/T	54	GCC/GCT	A/A	Rv2509	.	syn	nonessential	no
lineage4.1.1.1	2866569	102	C/A	34	ACC/ACA	T/T	Rv2543	lppA	syn	nonessential	no
lineage4.1.1.1	2866863	396	C/G	132	GCC/GCG	A/A	Rv2543	lppA	syn	nonessential	no
lineage4.1.1.1	2897760	44	C/T	15	GGC/GAC	G/D	Rv2572c	aspS	nonsyn	nonessential	no
lineage4.1.1.1	3062908	93	C/A	31	GAC/GAA	D/E	Rv2750	.	nonsyn	nonessential	no
lineage4.1.1.1	3101005	577	T/G	193	AAC/CAC	N/H	Rv2791c	.	nonsyn	ND	no
lineage4.1.1.1	3371370	65	G/A	22	TCG/TTG	S/L	Rv3011c	gatA	nonsyn	essential	no
lineage4.1.1.1	3402067	1096	C/T	366	GAG/AAG	E/K	Rv3042c	serB2	nonsyn	essential	no
lineage4.1.1.1	3464053	81	G/A	27	ACG/ACA	T/T	Rv3095	.	syn	nonessential	no
lineage4.1.1.1	3641447	905	C/T	302	ACG/ATG	T/M	Rv3261	fbiA	nonsyn	nonessential	no
lineage4.1.1.1	3796516	922	C/T	308	GTG/ATG	V/M	Rv3382c	lytB1	nonsyn	nonessential	no
lineage4.1.1.1	3797618	872	G/C	291	GCC/GGC	A/G	Rv3383c	idsB	nonsyn	nonessential	no
lineage4.1.1.1	3821926	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.1.1.1	3877553	955	C/T	319	GAG/AAG	E/K	Rv3457c	rpoA	nonsyn	essential	no
lineage4.1.1.1	3909681	1446	C/T	482	CGC/CGT	R/R	Rv3490	otsA	syn	essential	yes
lineage4.1.1.1	3953969	539	G/T	180	CGC/CTC	R/L	Rv3517	.	nonsyn	nonessential	no
lineage4.1.1.1	3969796	454	G/A	152	GCC/ACC	A/T	Rv3532	PPE61	nonsyn	ND	no
lineage4.1.1.1	4148381	582	C/T	194	CAG/CAA	Q/Q	Rv3705c	.	syn	nonessential	no
lineage4.1.1.1	4154011	272	G/T	91	AGC/ATC	S/I	Rv3710	leuA	nonsyn	essential	no
lineage4.1.1.1	4164866	1131	G/A	377	GTG/GTA	V/V	Rv3720	.	syn	nonessential	no
lineage4.1.1.1	4169891	286	C/G	96	CCG/GCG	P/A	Rv3724B	cut5b	nonsyn	nonessential	no
lineage4.1.1.1	4240897	1035	C/G	345	CGC/CGG	R/R	Rv3793	embC	syn	essential	yes
lineage4.1.1.1	4340350	81	C/A	27	CCC/CCA	P/P	Rv3864	espE	syn	essential	yes
lineage4.1.1.1	4381671	270	C/T	90	CGG/CGA	R/R	Rv3895c	eccB2	syn	nonessential	no
lineage4.1.1.2	112737	2737	G/A	913	GAC/AAC	D/N	Rv0101	nrp	nonsyn	essential	no
lineage4.1.1.2	154671	440	G/A	147	AGT/AAT	S/N	Rv0127	mak	nonsyn	essential	no
lineage4.1.1.2	256830	767	C/T	256	ACC/ATC	T/I	Rv0214	fadD4	nonsyn	nonessential	no
lineage4.1.1.2	266115	609	C/T	203	GCC/GCT	A/A	Rv0222	echA1	syn	ND	no
lineage4.1.1.2	274930	57	G/A	19	GGC/GGT	G/G	Rv0229c	.	syn	nonessential	no
lineage4.1.1.2	336200	111	C/T	37	ACG/ACA	T/T	Rv0278c	PE_PGRS3	syn	ND	no
lineage4.1.1.2	339188	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	341082	85	G/A	29	GCC/ACC	A/T	Rv0281	.	nonsyn	nonessential	no
lineage4.1.1.2	382356	1801	A/G	601	ATT/GTT	I/V	Rv0312	.	nonsyn	essential	no
lineage4.1.1.2	424506	189	G/T	63	TTC/TTA	F/L	Rv0354c	PPE7	nonsyn	ND	no
lineage4.1.1.2	495104	2211	C/T	737	CTG/CTA	L/L	Rv0410c	pknG	syn	essential	yes
lineage4.1.1.2	541048	444	T/G	148	TCA/TCC	S/S	Rv0450c	mmpL4	syn	essential	yes
lineage4.1.1.2	573519	283	C/T	95	GAT/AAT	D/N	Rv0484c	.	nonsyn	nonessential	no
lineage4.1.1.2	594027	753	C/T	251	CTG/CTA	L/L	Rv0503c	cmaA2	syn	nonessential	no
lineage4.1.1.2	608179	357	C/T	119	CAG/CAA	Q/Q	Rv0516c	.	syn	nonessential	no
lineage4.1.1.2	637516	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	738135	15	T/C	5	TCA/TCG	S/S	Rv0643c	mmaA3	syn	essential	yes
lineage4.1.1.2	812065	7	A/G	3	ACT/GCT	T/A	Rv0716	rplE	nonsyn	essential	no
lineage4.1.1.2	850760	707	C/T	236	CGC/CAC	R/H	Rv0756c	.	nonsyn	nonessential	no
lineage4.1.1.2	938316	205	G/T	69	GGT/TGT	G/C	Rv0842	.	nonsyn	nonessential	no
lineage4.1.1.2	949019	461	C/G	154	CCG/CGG	P/R	Rv0852	fadD16	nonsyn	nonessential	no
lineage4.1.1.2	978422	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	1006538	25	T/G	9	ACC/CCC	T/P	Rv0903c	prrA	nonsyn	nonessential	no
lineage4.1.1.2	1117773	589	C/G	197	CCG/GCG	P/A	Rv1001	arcA	nonsyn	nonessential	no
lineage4.1.1.2	1118550	1390	C/T	464	GTC/ATC	V/I	Rv1002c	.	nonsyn	essential	no
lineage4.1.1.2	1211385	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	1239471	56	C/T	19	ACT/ATT	T/I	Rv1113	vapB32	nonsyn	nonessential	no
lineage4.1.1.2	1244631	925	G/A	309	GCC/ACC	A/T	Rv1121	zwf1	nonsyn	nonessential	no
lineage4.1.1.2	1268540	470	A/G	157	GTC/GCC	V/A	Rv1141c	echA11	nonsyn	nonessential	no
lineage4.1.1.2	1285799	808	G/A	270	GCC/ACC	A/T	Rv1159	pimE	nonsyn	nonessential	no
lineage4.1.1.2	1286666	72	G/A	24	CGG/CGA	R/R	Rv1160	mutT2	syn	nonessential	no
lineage4.1.1.2	1298223	470	G/A	157	ACT/ATT	T/I	Rv1167c	.	nonsyn	nonessential	no
lineage4.1.1.2	1305971	31	C/T	11	GGT/AGT	G/S	Rv1174c	TB8.4	nonsyn	ND	no
lineage4.1.1.2	1313430	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	1333892	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	1510157	877	G/A	293	GAG/AAG	E/K	Rv1345	mbtM	nonsyn	nonessential	no
lineage4.1.1.2	1555979	9	A/T	3	AAA/AAT	K/N	Rv1383	carA	nonsyn	essential	no
lineage4.1.1.2	1605202	325	G/C	109	GTG/CTG	V/L	Rv1429	.	nonsyn	nonessential	no
lineage4.1.1.2	1612704	247	C/T	83	GTC/ATC	V/I	Rv1435c	.	nonsyn	nonessential	no
lineage4.1.1.2	1795708	953	G/T	318	GGT/GTT	G/V	Rv1594	nadA	nonsyn	essential	no
lineage4.1.1.2	1889579	1554	C/T	518	GGC/GGT	G/G	Rv1664	pks9	syn	nonessential	no
lineage4.1.1.2	1939945	347	A/C	116	GAG/GCG	E/A	Rv1712	cmk	nonsyn	essential	no
lineage4.1.1.2	2017232	245	T/G	82	CAG/CCG	Q/P	Rv1781c	malQ	nonsyn	nonessential	no
lineage4.1.1.2	2194324	661	G/A	221	GCA/ACA	A/T	Rv1941	.	nonsyn	nonessential	no
lineage4.1.1.2	2242615	2457	G/A	819	GCG/GCA	A/A	Rv1997	ctpF	syn	nonessential	no
lineage4.1.1.2	2352142	888	C/T	296	CCG/CCA	P/P	Rv2093c	tatC	syn	essential	yes
lineage4.1.1.2	2474368	969	G/A	323	TGG/TGA	W/*	Rv2209	.	nonsyn	nonessential	no
lineage4.1.1.2	2486368	134	G/T	45	CGC/CTC	R/L	Rv2219	.	nonsyn	essential	no
lineage4.1.1.2	2560539	837	G/A	279	ACG/ACA	T/T	Rv2287	yjcE	syn	nonessential	no
lineage4.1.1.2	2713528	257	A/C	86	ATC/AGC	I/S	Rv2415c	.	nonsyn	nonessential	no
lineage4.1.1.2	2794922	573	G/A	191	CTG/CTA	L/L	Rv2486	echA14	syn	nonessential	no
lineage4.1.1.2	2820603	994	C/T	332	GGG/AGG	G/R	Rv2505c	fadD35	nonsyn	nonessential	no
lineage4.1.1.2	2847933	1400	C/T	467	GGC/GAC	G/D	Rv2524c	fas	nonsyn	essential	no
lineage4.1.1.2	2867483	360	G/C	120	ATG/ATC	M/I	Rv2544	lppB	nonsyn	nonessential	no
lineage4.1.1.2	2900458	233	G/A	78	GCT/GTT	A/V	Rv2576c	.	nonsyn	nonessential	no
lineage4.1.1.2	3005733	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	3041098	364	C/G	122	GCC/CCC	A/P	Rv2728c	.	nonsyn	nonessential	no
lineage4.1.1.2	3134207	387	G/A	129	TTC/TTT	F/F	Rv2826c	.	syn	nonessential	no
lineage4.1.1.2	3138138	1044	C/A	348	GTG/GTT	V/V	Rv2832c	ugpC	syn	essential	yes
lineage4.1.1.2	3150994	282	C/G	94	AGC/AGG	S/R	Rv2844	.	nonsyn	nonessential	no
lineage4.1.1.2	3213615	240	G/A	80	TAC/TAT	Y/Y	Rv2903c	lepB	syn	ND	no
lineage4.1.1.2	3241734	226	A/C	76	TCG/GCG	S/A	Rv2927c	.	nonsyn	essential	no
lineage4.1.1.2	3368566	228	G/T	76	GCC/GCA	A/A	Rv3009c	gatB	syn	essential	yes
lineage4.1.1.2	3420794	1303	G/A	435	GGC/AGC	G/S	Rv3059	cyp136	nonsyn	nonessential	no
lineage4.1.1.2	3449787	1284	C/T	428	GAC/GAT	D/D	Rv3083	.	syn	nonessential	no
lineage4.1.1.2	3504213	19	A/G	7	ATC/GTC	I/V	Rv3138	pflA	nonsyn	nonessential	no
lineage4.1.1.2	3563243	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	3564253	34	G/A	12	CTG/TTG	L/L	Rv3194c	.	syn	nonessential	no
lineage4.1.1.2	3626305	309	G/A	103	AGC/AGT	S/S	Rv3245c	mtrB	syn	essential	yes
lineage4.1.1.2	3735673	1263	C/G	421	TTG/TTC	L/F	Rv3343c	PPE54	nonsyn	ND	no
lineage4.1.1.2	3746976	6209	C/T	2070	GGC/GAC	G/D	Rv3347c	PPE55	nonsyn	ND	no
lineage4.1.1.2	3885383	687	G/A	229	TGC/TGT	C/C	Rv3468c	.	syn	nonessential	no
lineage4.1.1.2	3939163	95	G/A	32	CCG/CTG	P/L	Rv3510c	.	nonsyn	nonessential	no
lineage4.1.1.2	3961438	684	C/G	228	GTC/GTG	V/V	Rv3524	.	syn	nonessential	no
lineage4.1.1.2	4002380	744	G/A	248	CTG/CTA	L/L	Rv3561	fadD3	syn	nonessential	no
lineage4.1.1.2	4129181	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1.1.2	4144971	644	T/G	215	GAG/GCG	E/A	Rv3702c	.	nonsyn	nonessential	no
lineage4.1.1.2	4212656	364	T/C	122	TAC/CAC	Y/H	Rv3766	.	nonsyn	nonessential	no
lineage4.1.1.2	4246930	417	G/C	139	CAG/CAC	Q/H	Rv3795	embB	nonsyn	essential	no
lineage4.1.1.2	4293934	5672	T/C	1891	GAA/GGA	E/G	Rv3825c	pks2	nonsyn	nonessential	no
lineage4.1.1.2	4294328	5278	G/A	1760	CTG/TTG	L/L	Rv3825c	pks2	syn	nonessential	no
lineage4.1.1.2	4296745	2861	G/A	954	GCT/GTT	A/V	Rv3825c	pks2	nonsyn	nonessential	no
lineage4.1.1.2	4306984	118	G/A	40	GTC/ATC	V/I	Rv3833	.	nonsyn	nonessential	no
lineage4.1.1.2	4315064	499	A/G	167	TCG/CCG	S/P	Rv3842c	glpQ1	nonsyn	nonessential	no
lineage4.1.1.2	4350762	18	T/C	6	CAT/CAC	H/H	Rv3872	PE35	syn	ND	no
lineage4.1.1.3	30519	798	C/T	266	GGC/GGT	G/G	Rv0026	.	syn	nonessential	no
lineage4.1.1.3	53785	123	C/G	41	ATC/ATG	I/M	Rv0050	ponA1	nonsyn	nonessential	no
lineage4.1.1.3	97388	462	G/T	154	TGG/TGT	W/C	Rv0088	.	nonsyn	nonessential	no
lineage4.1.1.3	144390	342	G/A	114	GCG/GCA	A/A	Rv0119	fadD7	syn	nonessential	no
lineage4.1.1.3	147985	358	C/T	120	GCT/ACT	A/T	Rv0121c	.	nonsyn	nonessential	no
lineage4.1.1.3	155293	1062	G/A	354	CCG/CCA	P/P	Rv0127	mak	syn	essential	yes
lineage4.1.1.3	174684	1447	C/A	483	CGA/AGA	R/R	Rv0147	.	syn	nonessential	no
lineage4.1.1.3	251468	1349	G/T	450	CGC/CTC	R/L	Rv0210	.	nonsyn	nonessential	no
lineage4.1.1.3	304679	1814	G/T	605	GGC/GTC	G/V	Rv0252	nirB	nonsyn	nonessential	no
lineage4.1.1.3	320038	1117	G/A	373	CCG/TCG	P/S	Rv0266c	oplA	nonsyn	nonessential	no
lineage4.1.1.3	328641	1068	G/T	356	ACC/ACA	T/T	Rv0272c	.	syn	nonessential	no
lineage4.1.1.3	382984	558	G/A	186	TCC/TCT	S/S	Rv0314c	.	syn	nonessential	no
lineage4.1.1.3	405750	92	T/G	31	TAC/TCC	Y/S	Rv0338c	.	nonsyn	essential	no
lineage4.1.1.3	595321	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	631689	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	782246	313	G/A	105	GTC/ATC	V/I	Rv0683	rpsG	nonsyn	essential	no
lineage4.1.1.3	841924	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	851133	334	T/G	112	ACC/CCC	T/P	Rv0756c	.	nonsyn	nonessential	no
lineage4.1.1.3	868488	82	G/A	28	GAG/AAG	E/K	Rv0775	.	nonsyn	nonessential	no
lineage4.1.1.3	872108	678	C/G	226	GCC/GCG	A/A	Rv0778	cyp126	syn	nonessential	no
lineage4.1.1.3	896356	537	C/T	179	ACC/ACT	T/T	Rv0803	purL	syn	essential	yes
lineage4.1.1.3	978373	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	979859	498	T/C	166	GCT/GCC	A/A	Rv0881	.	syn	nonessential	no
lineage4.1.1.3	1028944	1260	C/T	420	TAC/TAT	Y/Y	Rv0922	.	syn	ND	no
lineage4.1.1.3	1090292	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	1102788	247	G/T	83	GTC/TTC	V/F	Rv0987	.	nonsyn	nonessential	no
lineage4.1.1.3	1106877	506	T/C	169	TAC/TGC	Y/C	Rv0989c	grcC2	nonsyn	nonessential	no
lineage4.1.1.3	1237562	631	G/C	211	CGC/GGC	R/G	Rv1111c	.	nonsyn	essential	no
lineage4.1.1.3	1244655	949	G/T	317	GCC/TCC	A/S	Rv1121	zwf1	nonsyn	nonessential	no
lineage4.1.1.3	1365410	67	G/A	23	GCC/ACC	A/T	Rv1222	rseA	nonsyn	nonessential	no
lineage4.1.1.3	1426079	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	1461915	73	C/G	25	CTC/GTC	L/V	Rv1307	atpH	nonsyn	essential	no
lineage4.1.1.3	1487084	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	1546541	530	A/C	177	CAG/CCG	Q/P	Rv1373	.	nonsyn	nonessential	no
lineage4.1.1.3	1605149	272	C/T	91	CCG/CTG	P/L	Rv1429	.	nonsyn	nonessential	no
lineage4.1.1.3	1645334	805	C/T	269	GTC/ATC	V/I	Rv1459c	.	nonsyn	essential	no
lineage4.1.1.3	1689571	350	C/G	117	TGC/TCC	C/S	Rv1498c	.	nonsyn	nonessential	no
lineage4.1.1.3	1704554	462	C/T	154	ATC/ATT	I/I	Rv1512	epiA	syn	nonessential	no
lineage4.1.1.3	1868578	737	C/T	246	TCG/TTG	S/L	Rv1654	argB	nonsyn	essential	no
lineage4.1.1.3	1872906	268	G/T	90	GCC/TCC	A/S	Rv1659	argH	nonsyn	essential	no
lineage4.1.1.3	1884697	2994	G/A	998	GGG/GGA	G/G	Rv1662	pks8	syn	essential	yes
lineage4.1.1.3	1931564	1091	G/A	364	ACG/ATG	T/M	Rv1705c	PPE22	nonsyn	ND	no
lineage4.1.1.3	1956524	722	G/A	241	ACG/ATG	T/M	Rv1730c	.	nonsyn	essential	no
lineage4.1.1.3	2008870	1039	C/G	347	CTC/GTC	L/V	Rv1774	.	nonsyn	nonessential	no
lineage4.1.1.3	2014185	295	C/T	99	GCT/ACT	A/T	Rv1779c	.	nonsyn	nonessential	no
lineage4.1.1.3	2054805	555	G/A	185	CCC/CCT	P/P	Rv1812c	.	syn	nonessential	no
lineage4.1.1.3	2056450	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	2090921	1165	C/T	389	GGC/AGC	G/S	Rv1842c	.	nonsyn	nonessential	no
lineage4.1.1.3	2187274	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	2204260	49	A/G	17	AGC/GGC	S/G	Rv1961	.	nonsyn	nonessential	no
lineage4.1.1.3	2233751	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	2239349	346	G/A	116	GCC/ACC	A/T	Rv1996	.	nonsyn	nonessential	no
lineage4.1.1.3	2396883	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	2426630	458	C/T	153	CGT/CAT	R/H	Rv2163c	pbpB	nonsyn	essential	no
lineage4.1.1.3	2441590	131	T/C	44	CAG/CGG	Q/R	Rv2178c	aroG	nonsyn	essential	no
lineage4.1.1.3	2449284	1125	C/T	375	TAC/TAT	Y/Y	Rv2187	fadD15	syn	nonessential	no
lineage4.1.1.3	2454856	1038	C/T	346	CGC/CGT	R/R	Rv2191	.	syn	nonessential	no
lineage4.1.1.3	2460628	951	C/A	317	GCC/GCA	A/A	Rv2196	qcrB	syn	essential	yes
lineage4.1.1.3	2523709	1083	G/A	361	CGC/CGT	R/R	Rv2249c	glpD1	syn	nonessential	no
lineage4.1.1.3	2540326	223	T/A	75	TAC/AAC	Y/N	Rv2266	cyp124	nonsyn	nonessential	no
lineage4.1.1.3	2559686	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	2623232	521	C/G	174	GGT/GCT	G/A	Rv2344c	dgt	nonsyn	nonessential	no
lineage4.1.1.3	2645270	951	C/T	317	GGC/GGT	G/G	Rv2363	amiA2	syn	nonessential	no
lineage4.1.1.3	2655691	425	T/C	142	CAG/CGG	Q/R	Rv2376c	cfp2	nonsyn	nonessential	no
lineage4.1.1.3	2660091	1995	T/G	665	GCA/GCC	A/A	Rv2379c	mbtF	syn	nonessential	no
lineage4.1.1.3	2730752	1998	T/C	666	TCA/TCG	S/S	Rv2435c	.	syn	nonessential	no
lineage4.1.1.3	2759082	407	T/G	136	AAG/ACG	K/T	Rv2457c	clpX	nonsyn	essential	no
lineage4.1.1.3	2773931	368	T/C	123	ATG/ACG	M/T	Rv2471	aglA	nonsyn	nonessential	no
lineage4.1.1.3	2913078	934	C/G	312	GTG/CTG	V/L	Rv2586c	secF	nonsyn	nonessential	no
lineage4.1.1.3	2935682	637	C/A	213	CGA/AGA	R/R	Rv2608	PPE42	syn	ND	no
lineage4.1.1.3	3057137	96	C/T	32	AAG/AAA	K/K	Rv2743c	.	syn	nonessential	no
lineage4.1.1.3	3189433	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.1.3	3207290	653	C/A	218	GGT/GTT	G/V	Rv2897c	.	nonsyn	essential	no
lineage4.1.1.3	3219790	72	G/A	24	ATC/ATT	I/I	Rv2912c	.	syn	essential	yes
lineage4.1.1.3	3227488	1126	A/G	376	AGC/GGC	S/G	Rv2917	.	nonsyn	nonessential	no
lineage4.1.1.3	3249411	3967	G/A	1323	GGC/AGC	G/S	Rv2931	ppsA	nonsyn	nonessential	no
lineage4.1.1.3	3251956	885	C/G	295	CGC/CGG	R/R	Rv2932	ppsB	syn	nonessential	no
lineage4.1.1.3	3303669	580	C/A	194	GCG/TCG	A/S	Rv2951c	.	nonsyn	nonessential	no
lineage4.1.1.3	3308489	57	C/T	19	CCG/CCA	P/P	Rv2955c	.	syn	nonessential	no
lineage4.1.1.3	3363866	667	G/A	223	CTG/TTG	L/L	Rv3005c	.	syn	nonessential	no
lineage4.1.1.3	3420388	897	C/T	299	TTC/TTT	F/F	Rv3059	cyp136	syn	nonessential	no
lineage4.1.1.3	3458659	449	G/A	150	CGC/CAC	R/H	Rv3090	.	nonsyn	nonessential	no
lineage4.1.1.3	3567600	577	G/A	193	GTG/ATG	V/M	Rv3197	.	nonsyn	nonessential	no
lineage4.1.1.3	3629928	460	T/C	154	ACC/GCC	T/A	Rv3249c	.	nonsyn	nonessential	no
lineage4.1.1.3	3727746	259	G/A	87	GGT/AGT	G/S	Rv3341	metA	nonsyn	essential	no
lineage4.1.1.3	3752809	376	G/A	126	CTG/TTG	L/L	Rv3347c	PPE55	syn	ND	no
lineage4.1.1.3	3752813	372	G/A	124	AAC/AAT	N/N	Rv3347c	PPE55	syn	ND	no
lineage4.1.1.3	3752821	364	T/C	122	ATG/GTG	M/V	Rv3347c	PPE55	nonsyn	ND	no
lineage4.1.1.3	3805526	662	T/G	221	GTG/GGG	V/G	Rv3390	lpqD	nonsyn	nonessential	no
lineage4.1.1.3	3863814	718	C/A	240	GGT/TGT	G/C	Rv3446c	.	nonsyn	nonessential	no
lineage4.1.1.3	3872726	110	C/T	37	CCG/CTG	P/L	Rv3451	cut3	nonsyn	nonessential	no
lineage4.1.1.3	3876910	523	C/T	175	GCA/ACA	A/T	Rv3456c	rplQ	nonsyn	nonessential	no
lineage4.1.1.3	3899124	1279	G/C	427	CTG/GTG	L/V	Rv3480c	.	nonsyn	nonessential	no
lineage4.1.1.3	3982149	992	T/C	331	GAA/GGA	E/G	Rv3543c	fadE29	nonsyn	nonessential	no
lineage4.1.1.3	4047967	215	A/C	72	CTG/CGG	L/R	Rv3605c	.	nonsyn	nonessential	no
lineage4.1.1.3	4051716	1168	C/T	390	GTC/ATC	V/I	Rv3610c	ftsH	nonsyn	essential	no
lineage4.1.1.3	4154051	312	G/A	104	CGG/CGA	R/R	Rv3710	leuA	syn	essential	yes
lineage4.1.1.3	4209518	472	T/A	158	TGT/AGT	C/S	Rv3763	lpqH	nonsyn	ND	no
lineage4.1.1.3	4212840	548	T/C	183	GTC/GCC	V/A	Rv3766	.	nonsyn	nonessential	no
lineage4.1.1.3	4229087	741	C/T	247	AAC/AAT	N/N	Rv3782	glfT1	syn	essential	yes
lineage4.1.1.3	4270835	1445	T/C	482	CAA/CGA	Q/R	Rv3808c	glfT2	nonsyn	essential	no
lineage4.1.1.3	4287109	389	G/A	130	AGT/AAT	S/N	Rv3822	.	nonsyn	nonessential	no
lineage4.1.1.3	4292305	870	C/T	290	ATG/ATA	M/I	Rv3824c	papA1	nonsyn	nonessential	no
lineage4.1.1.3	4306472	340	G/T	114	CTG/ATG	L/M	Rv3832c	.	nonsyn	nonessential	no
lineage4.1.1.3	4377909	2544	G/A	848	TAC/TAT	Y/Y	Rv3894c	eccC2	syn	nonessential	no
lineage4.1.1.3	4385111	269	G/A	90	GCA/GTA	A/V	Rv3899c	.	nonsyn	nonessential	no
lineage4.1.2	83842	1095	G/A	365	CCG/CCA	P/P	Rv0074	.	syn	nonessential	no
lineage4.1.2	435190	285	C/T	95	CTG/CTA	L/L	Rv0356c	.	syn	nonessential	no
lineage4.1.2	443277	921	A/C	307	GAT/GAG	D/E	Rv0365c	.	nonsyn	nonessential	no
lineage4.1.2	446165	361	G/C	121	CAG/GAG	Q/E	Rv0368c	.	nonsyn	nonessential	no
lineage4.1.2	454167	206	T/C	69	TAC/TGC	Y/C	Rv0376c	.	nonsyn	nonessential	no
lineage4.1.2	487852	2122	C/G	708	CTC/GTC	L/V	Rv0405	pks6	nonsyn	nonessential	no
lineage4.1.2	832708	175	A/C	59	AAC/CAC	N/H	Rv0741	.	nonsyn	ND	no
lineage4.1.2	891756	514	A/G	172	TTG/CTG	L/L	Rv0798c	cfp29	syn	essential	yes
lineage4.1.2	1111925	314	A/G	105	TAT/TGT	Y/C	Rv0995	rimJ	nonsyn	nonessential	no
lineage4.1.2	1153676	1665	C/G	555	TTC/TTG	F/L	Rv1029	kdpA	nonsyn	nonessential	no
lineage4.1.2	2062805	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.1.2	2066633	177	C/G	59	AGC/AGG	S/R	Rv1821	secA2	nonsyn	essential	no
lineage4.1.2	2689715	1706	G/C	569	GGC/GCC	G/A	Rv2394	ggtB	nonsyn	nonessential	no
lineage4.1.2	2819009	119	G/A	40	CCC/CTC	P/L	Rv2503c	scoB	nonsyn	nonessential	no
lineage4.1.2	3147742	132	A/G	44	GTT/GTC	V/V	Rv2839c	infB	syn	essential	no
lineage4.1.2	3238090	410	G/A	137	GCC/GTC	A/V	Rv2923c	.	nonsyn	nonessential	no
lineage4.1.2	3959957	429	C/A	143	TAC/TAA	Y/*	Rv3523	ltp3	nonsyn	essential	no
lineage4.1.2.1	69834	1215	C/T	405	GAC/GAT	D/D	Rv0064	.	syn	nonessential	no
lineage4.1.2.1	70095	1476	G/A	492	CGG/CGA	R/R	Rv0064	.	syn	nonessential	no
lineage4.1.2.1	70924	2305	C/T	769	CTC/TTC	L/F	Rv0064	.	nonsyn	nonessential	no
lineage4.1.2.1	105799	476	C/T	159	ACG/ATG	T/M	Rv0096	PPE1	nonsyn	ND	no
lineage4.1.2.1	107794	195	C/T	65	GCC/GCT	A/A	Rv0098	fcoT	syn	essential	yes
lineage4.1.2.1	342340	211	C/T	71	CTG/TTG	L/L	Rv0282	eccA3	syn	essential	no
lineage4.1.2.1	386013	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	438158	641	T/G	214	CTG/CGG	L/R	Rv0359	.	nonsyn	nonessential	no
lineage4.1.2.1	456281	539	C/T	180	GGC/GAC	G/D	Rv0380c	.	nonsyn	nonessential	no
lineage4.1.2.1	575679	332	A/G	111	AAC/AGC	N/S	Rv0486	mshA	nonsyn	nonessential	no
lineage4.1.2.1	608775	30	T/C	10	GGT/GGC	G/G	Rv0517	.	syn	nonessential	no
lineage4.1.2.1	629925	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	637730	240	C/T	80	CTG/CTA	L/L	Rv0546c	.	syn	nonessential	no
lineage4.1.2.1	648990	455	G/C	152	CGC/CCC	R/P	Rv0557	mgtA	nonsyn	essential	no
lineage4.1.2.1	903633	1523	C/T	508	GCG/GTG	A/V	Rv0808	purF	nonsyn	essential	no
lineage4.1.2.1	981670	885	C/T	295	CGG/CGA	R/R	Rv0884c	serC	syn	essential	yes
lineage4.1.2.1	1019632	334	A/G	112	TAC/CAC	Y/H	Rv0914c	.	nonsyn	nonessential	no
lineage4.1.2.1	1080528	1786	G/A	596	GCG/ACG	A/T	Rv0969	ctpV	nonsyn	nonessential	no
lineage4.1.2.1	1232037	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	1234262	1199	G/C	400	GCC/GGC	A/G	Rv1108c	xseA	nonsyn	nonessential	no
lineage4.1.2.1	1338172	342	G/C	114	TTC/TTG	F/L	Rv1194c	.	nonsyn	essential	no
lineage4.1.2.1	1477588	44	G/C	15	ACC/AGC	T/S	Rv1316c	ogt	nonsyn	nonessential	no
lineage4.1.2.1	1529952	3341	G/A	1114	GGA/GAA	G/E	Rv1358	.	nonsyn	nonessential	no
lineage4.1.2.1	1532827	807	A/T	269	TTT/TTA	F/L	Rv1361c	PPE19	nonsyn	ND	no
lineage4.1.2.1	1561614	151	G/A	51	GCC/ACC	A/T	Rv1386	PE15	nonsyn	ND	no
lineage4.1.2.1	1648620	1632	G/A	544	ATG/ATA	M/I	Rv1461	.	nonsyn	ND	no
lineage4.1.2.1	1688649	709	G/C	237	GCC/CCC	A/P	Rv1497	lipL	nonsyn	nonessential	no
lineage4.1.2.1	1695364	583	C/G	195	GGC/CGC	G/R	Rv1505c	.	nonsyn	nonessential	no
lineage4.1.2.1	1706602	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	1708846	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	1712824	523	A/G	175	ACC/GCC	T/A	Rv1521	fadD25	nonsyn	nonessential	no
lineage4.1.2.1	1810237	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	1861804	2047	G/T	683	GGC/TGC	G/C	Rv1650	pheT	nonsyn	essential	no
lineage4.1.2.1	1865976	401	C/T	134	CCG/CTG	P/L	Rv1652	argC	nonsyn	essential	no
lineage4.1.2.1	1913811	210	G/C	70	CTG/CTC	L/L	Rv1689	tyrS	syn	essential	no
lineage4.1.2.1	1931219	238	G/A	80	CTG/TTG	L/L	Rv1704c	cycA	syn	nonessential	no
lineage4.1.2.1	2010991	336	A/C	112	CCA/CCC	P/P	Rv1777	cyp144	syn	nonessential	no
lineage4.1.2.1	2044790	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	2053987	545	G/A	182	CGC/CAC	R/H	Rv1811	mgtC	nonsyn	nonessential	no
lineage4.1.2.1	2074695	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	2187376	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	2219329	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	2219342	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	2238613	473	T/C	158	CTC/CCC	L/P	Rv1995	.	nonsyn	nonessential	no
lineage4.1.2.1	2244770	369	G/A	123	CCC/CCT	P/P	Rv1999c	.	syn	nonessential	no
lineage4.1.2.1	2304068	2919	C/A	973	GAG/GAT	E/D	Rv2048c	pks12	nonsyn	essential	no
lineage4.1.2.1	2362041	1802	C/A	601	CCG/CAG	P/Q	Rv2101	helZ	nonsyn	nonessential	no
lineage4.1.2.1	2468098	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	2473699	300	C/T	100	AAC/AAT	N/N	Rv2209	.	syn	nonessential	no
lineage4.1.2.1	2724782	696	C/T	232	GAG/GAA	E/E	Rv2427c	proA	syn	nonessential	no
lineage4.1.2.1	2788298	986	T/C	329	GAC/GGC	D/G	Rv2482c	plsB2	nonsyn	nonessential	no
lineage4.1.2.1	2871251	765	G/A	255	CCC/CCT	P/P	Rv2552c	aroE	syn	essential	no
lineage4.1.2.1	2898337	295	C/T	99	CCC/TCC	P/S	Rv2573	.	nonsyn	nonessential	no
lineage4.1.2.1	2911823	855	G/A	285	AGC/AGT	S/S	Rv2585c	.	syn	nonessential	no
lineage4.1.2.1	2969494	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	3011692	76	A/C	26	TTA/GTA	L/V	Rv2694c	.	nonsyn	nonessential	no
lineage4.1.2.1	3013784	364	C/G	122	GTC/CTC	V/L	Rv2697c	dut	nonsyn	essential	no
lineage4.1.2.1	3136576	24	C/T	8	CTG/CTA	L/L	Rv2828A	.	syn	essential	no
lineage4.1.2.1	3332254	501	C/T	167	CTG/CTA	L/L	Rv2976c	ung	syn	essential	no
lineage4.1.2.1	3340328	475	G/T	159	GTC/TTC	V/F	Rv2984	ppk1	nonsyn	nonessential	no
lineage4.1.2.1	3417839	824	A/G	275	GTC/GCC	V/A	Rv3057c	.	nonsyn	nonessential	no
lineage4.1.2.1	3450463	467	C/T	156	GCC/GTC	A/V	Rv3084	lipR	nonsyn	nonessential	no
lineage4.1.2.1	3491105	547	G/A	183	CAG/TAG	Q/*	Rv3125c	PPE49	nonsyn	ND	no
lineage4.1.2.1	3573090	580	C/A	194	GTC/TTC	V/F	Rv3200c	.	nonsyn	nonessential	no
lineage4.1.2.1	3587072	468	T/C	156	GAA/GAG	E/E	Rv3210c	.	syn	essential	no
lineage4.1.2.1	3693875	115	G/A	39	CAT/TAT	H/Y	Rv3306c	amiB1	nonsyn	nonessential	no
lineage4.1.2.1	3717464	375	C/G	125	GTC/GTG	V/V	Rv3331	sugI	syn	nonessential	no
lineage4.1.2.1	3746830	6355	A/T	2119	TCC/ACC	S/T	Rv3347c	PPE55	nonsyn	ND	no
lineage4.1.2.1	3746896	6289	A/G	2097	TTG/CTG	L/L	Rv3347c	PPE55	syn	ND	no
lineage4.1.2.1	3751257	1928	A/C	643	CTG/CGG	L/R	Rv3347c	PPE55	nonsyn	ND	no
lineage4.1.2.1	3966813	226	G/A	76	CAG/TAG	Q/*	Rv3529c	.	nonsyn	nonessential	no
lineage4.1.2.1	3969137	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	3971428	1026	G/T	342	AGC/AGA	S/R	Rv3533c	PPE62	nonsyn	ND	no
lineage4.1.2.1	3973152	441	C/G	147	GAG/GAC	E/D	Rv3534c	hsaF	nonsyn	essential	no
lineage4.1.2.1	3985439	7	A/C	3	TGG/GGG	W/G	Rv3545c	cyp125	nonsyn	essential	no
lineage4.1.2.1	4095728	388	C/G	130	GGC/CGC	G/R	Rv3657c	.	nonsyn	nonessential	no
lineage4.1.2.1	4178354	70	C/T	24	CGC/TGC	R/C	Rv3729	.	nonsyn	nonessential	no
lineage4.1.2.1	4178709	425	T/C	142	GTG/GCG	V/A	Rv3729	.	nonsyn	nonessential	no
lineage4.1.2.1	4190332	186	A/G	62	GGT/GGC	G/G	Rv3739c	PPE67	syn	ND	no
lineage4.1.2.1	4216779	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	4239298	1367	C/T	456	GCC/GTC	A/V	Rv3792	aftA	nonsyn	essential	no
lineage4.1.2.1	4256758	4389	G/C	1463	CCC/CCG	P/P	Rv3800c	pks13	syn	essential	no
lineage4.1.2.1	4323348	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.1.2.1	4331585	4497	G/A	1499	GAC/GAT	D/D	Rv3859c	gltB	syn	essential	no
lineage4.1.2.1	4351160	86	C/T	29	GCG/GTG	A/V	Rv3873	PPE68	nonsyn	ND	no
lineage4.1.2.1	4352475	202	G/A	68	GAA/AAA	E/K	Rv3874	esxB	nonsyn	ND	no
lineage4.1.2.1	4365461	1378	G/A	460	CAA/TAA	Q/*	Rv3884c	eccA2	nonsyn	nonessential	no
lineage4.2	9841	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2	15517	604	C/G	202	CGT/GGT	R/G	Rv0013	trpG	nonsyn	nonessential	no
lineage4.2	43722	161	C/T	54	CCG/CTG	P/L	Rv0041	leuS	nonsyn	essential	no
lineage4.2	103181	483	A/G	161	GGT/GGC	G/G	Rv0093c	.	syn	nonessential	no
lineage4.2	161514	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2	202675	200	T/C	67	ATT/ACT	I/T	Rv0172	mce1D	nonsyn	nonessential	no
lineage4.2	217306	1038	C/G	346	GTC/GTG	V/V	Rv0186	bglS	syn	nonessential	no
lineage4.2	295644	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2	317540	3615	G/C	1205	GCC/GCG	A/A	Rv0266c	oplA	syn	nonessential	no
lineage4.2	328464	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.2	355803	1306	G/T	436	GCA/TCA	A/S	Rv0291	mycP3	nonsyn	essential	no
lineage4.2	367824	4941	A/G	1647	AGT/AGC	S/S	Rv0304c	PPE5	syn	ND	no
lineage4.2	378407	477	G/T	159	CAG/CAT	Q/H	Rv0309	.	nonsyn	ND	no
lineage4.2	407877	572	T/C	191	GAA/GGA	E/G	Rv0339c	.	nonsyn	nonessential	no
lineage4.2	423722	84	C/T	28	ACC/ACT	T/T	Rv0353	hspR	syn	nonessential	no
lineage4.2	425537	9143	T/A	3048	TAC/TTC	Y/F	Rv0355c	PPE8	nonsyn	ND	no
lineage4.2	425540	9140	A/T	3047	GTC/GAC	V/D	Rv0355c	PPE8	nonsyn	ND	no
lineage4.2	433515	1165	G/A	389	CTG/TTG	L/L	Rv0355c	PPE8	syn	ND	no
lineage4.2	447411	633	G/T	211	CGC/CGA	R/R	Rv0370c	.	syn	nonessential	no
lineage4.2	503213	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.2	510675	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.2	553613	1000	G/T	334	GCA/TCA	A/S	Rv0462	lpdC	nonsyn	essential	no
lineage4.2	585891	424	C/G	142	GAA/CAA	E/Q	Rv0495c	.	nonsyn	nonessential	no
lineage4.2	591505	31	C/A	11	CGC/AGC	R/S	Rv0500B	.	nonsyn	nonessential	no
lineage4.2	625536	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.2	738902	259	C/T	87	GAC/AAC	D/N	Rv0644c	mmaA2	nonsyn	nonessential	no
lineage4.2	753562	56	A/G	19	ATC/ACC	I/T	Rv0657c	vapB6	nonsyn	nonessential	no
lineage4.2	756216	80	A/G	27	GAC/GGC	D/G	Rv0663	atsD	nonsyn	nonessential	no
lineage4.2	758322	2186	A/G	729	GAC/GGC	D/G	Rv0663	atsD	nonsyn	nonessential	no
lineage4.2	795991	473	T/G	158	TTC/TGC	F/C	Rv0696	.	nonsyn	nonessential	no
lineage4.2	800204	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.2	849486	555	G/C	185	AAC/AAG	N/K	Rv0755c	PPE12	nonsyn	ND	no
lineage4.2	864468	329	A/G	110	GAG/GGG	E/G	Rv0771	.	nonsyn	nonessential	no
lineage4.2	893895	578	C/T	193	GCG/GTG	A/V	Rv0800	pepC	nonsyn	nonessential	no
lineage4.2	919424	130	C/G	44	GTC/CTC	V/L	Rv0825c	.	nonsyn	nonessential	no
lineage4.2	954906	15	C/T	5	CGG/CGA	R/R	Rv0858c	dapC	syn	nonessential	no
lineage4.2	1057990	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.2	1225462	683	T/C	228	GAC/GGC	D/G	Rv1097c	.	nonsyn	nonessential	no
lineage4.2	1237536	657	C/G	219	CCG/CCC	P/P	Rv1111c	.	syn	essential	no
lineage4.2	1243509	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.2	1375446	723	C/T	241	CTG/CTA	L/L	Rv1232c	.	syn	essential	no
lineage4.2	1409766	168	C/T	56	ACG/ACA	T/T	Rv1261c	.	syn	nonessential	no
lineage4.2	1422920	1131	T/C	377	ACA/ACG	T/T	Rv1273c	.	syn	nonessential	no
lineage4.2	1441794	447	A/G	149	GTA/GTG	V/V	Rv1288	.	syn	nonessential	no
lineage4.2	1442141	794	C/G	265	ACA/AGA	T/R	Rv1288	.	nonsyn	nonessential	no
lineage4.2	1466779	939	C/T	313	ATC/ATT	I/I	Rv1310	atpD	syn	essential	yes
lineage4.2	1524904	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.2	1568018	1194	C/T	398	GAC/GAT	D/D	Rv1392	metK	syn	essential	no
lineage4.2	1574120	394	G/A	132	CGG/TGG	R/W	Rv1397c	vapC10	nonsyn	nonessential	no
lineage4.2	1605170	293	C/T	98	GCG/GTG	A/V	Rv1429	.	nonsyn	nonessential	no
lineage4.2	1616354	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.2	1622092	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2	1626857	106	C/T	36	GTC/ATC	V/I	Rv1447c	zwf2	nonsyn	nonessential	no
lineage4.2	1634806	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2	1647444	456	C/T	152	CAC/CAT	H/H	Rv1461	.	syn	ND	no
lineage4.2	1670814	402	C/T	134	GGC/GGT	G/G	Rv1480	.	syn	essential	no
lineage4.2	1677603	207	G/A	69	GAG/GAA	E/E	Rv1488	.	syn	nonessential	no
lineage4.2	1710354	711	C/G	237	ACC/ACG	T/T	Rv1518	.	syn	nonessential	no
lineage4.2	1719823	1098	A/G	366	AAA/AAG	K/K	Rv1524	.	syn	essential	yes
lineage4.2	1728022	388	C/G	130	GGG/CGG	G/R	Rv1527c	pks5	nonsyn	nonessential	no
lineage4.2	1732204	832	A/G	278	ACC/GCC	T/A	Rv1530	adh	nonsyn	nonessential	no
lineage4.2	1747327	133	C/T	45	CTG/TTG	L/L	Rv1546	.	syn	nonessential	no
lineage4.2	1808795	893	A/C	298	GAC/GCC	D/A	Rv1609	trpE	nonsyn	essential	no
lineage4.2	1817856	242	A/C	81	GAG/GCG	E/A	Rv1618	tesB1	nonsyn	nonessential	no
lineage4.2	1849381	2655	G/A	885	ATC/ATT	I/I	Rv1640c	lysX	syn	essential	yes
lineage4.2	1860528	771	T/C	257	TGT/TGC	C/C	Rv1650	pheT	syn	essential	yes
lineage4.2	1867614	984	C/T	328	GCC/GCT	A/A	Rv1653	argJ	syn	essential	no
lineage4.2	1867838	1208	G/A	403	AGC/AAC	S/N	Rv1653	argJ	nonsyn	essential	no
lineage4.2	1872211	849	G/A	283	GCG/GCA	A/A	Rv1658	argG	syn	essential	no
lineage4.2	2008217	386	T/G	129	GTC/GGC	V/G	Rv1774	.	nonsyn	nonessential	no
lineage4.2	2057591	64	C/T	22	CCG/TCG	P/S	Rv1815	.	nonsyn	nonessential	no
lineage4.2	2059831	237	T/G	79	GGT/GGG	G/G	Rv1817	.	syn	nonessential	no
lineage4.2	2063685	1044	C/T	348	TTG/TTA	L/L	Rv1819c	bacA	syn	nonessential	no
lineage4.2	2063911	818	A/G	273	ATC/ACC	I/T	Rv1819c	bacA	nonsyn	nonessential	no
lineage4.2	2066470	14	G/A	5	GGT/GAT	G/D	Rv1821	secA2	nonsyn	essential	no
lineage4.2	2100906	567	C/T	189	GAC/GAT	D/D	Rv1852	ureG	syn	nonessential	no
lineage4.2	2123182	9	A/T	3	TCA/TCT	S/S	Rv1873	.	syn	nonessential	no
lineage4.2	2151148	195	C/G	65	ATC/ATG	I/M	Rv1904	.	nonsyn	nonessential	no
lineage4.2	2173033	763	A/G	255	TGG/CGG	W/R	Rv1921c	lppF	nonsyn	nonessential	no
lineage4.2	2181026	192	G/C	64	CCC/CCG	P/P	Rv1928c	.	syn	nonessential	no
lineage4.2	2185342	847	C/T	283	GAC/AAC	D/N	Rv1934c	fadE17	nonsyn	nonessential	no
lineage4.2	2186785	375	C/T	125	CAG/CAA	Q/Q	Rv1935c	echA13	syn	nonessential	no
lineage4.2	2216035	779	A/G	260	GAG/GGG	E/G	Rv1971	mce3F	nonsyn	nonessential	no
lineage4.2	2225237	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.2	2225238	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.2	2237059	248	G/A	83	ACC/ATC	T/I	Rv1992c	ctpG	nonsyn	nonessential	no
lineage4.2	2251179	705	C/T	235	CCG/CCA	P/P	Rv2005c	.	syn	nonessential	no
lineage4.2	2277272	1215	A/G	405	TAT/TAC	Y/Y	Rv2030c	.	syn	nonessential	no
lineage4.2	2280734	349	G/A	117	CAC/TAC	H/Y	Rv2033c	.	nonsyn	nonessential	no
lineage4.2	2300664	6323	G/A	2108	CCC/CTC	P/L	Rv2048c	pks12	nonsyn	essential	no
lineage4.2	2316510	1337	G/A	446	GGT/GAT	G/D	Rv2059	.	nonsyn	nonessential	no
lineage4.2	2359051	663	T/C	221	GAT/GAC	D/D	Rv2100	.	syn	nonessential	no
lineage4.2	2359072	684	G/A	228	GCG/GCA	A/A	Rv2100	.	syn	nonessential	no
lineage4.2	2359075	687	G/A	229	CTG/CTA	L/L	Rv2100	.	syn	nonessential	no
lineage4.2	2361492	1253	T/G	418	CTC/CGC	L/R	Rv2101	helZ	nonsyn	nonessential	no
lineage4.2	2372550	20	G/C	7	CCT/CGT	P/R	Rv2112c	dop	nonsyn	nonessential	no
lineage4.2	2393341	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.2	2394922	316	C/T	106	GTG/ATG	V/M	Rv2134c	.	nonsyn	nonessential	no
lineage4.2	2396770	69	G/C	23	TCC/TCG	S/S	Rv2136c	.	syn	nonessential	no
lineage4.2	2411730	393	G/C	131	TCC/TCG	S/S	Rv2152c	murC	syn	essential	yes
lineage4.2	2441970	348	G/A	116	TTC/TTT	F/F	Rv2179c	.	syn	essential	yes
lineage4.2	2446461	486	G/A	162	CGC/CGT	R/R	Rv2184c	.	syn	nonessential	no
lineage4.2	2478266	1077	A/C	359	GAA/GAC	E/D	Rv2212	.	nonsyn	nonessential	no
lineage4.2	2480676	1026	G/A	342	CTC/CTT	L/L	Rv2214c	ephD	syn	nonessential	no
lineage4.2	2507412	267	G/A	89	TTG/TTA	L/L	Rv2234	ptpA	syn	nonessential	no
lineage4.2	2525776	212	C/T	71	GCC/GTC	A/V	Rv2251	.	nonsyn	essential	no
lineage4.2	2540441	338	T/C	113	CTC/CCC	L/P	Rv2266	cyp124	nonsyn	nonessential	no
lineage4.2	2559151	419	C/T	140	GGC/GAC	G/D	Rv2286c	.	nonsyn	nonessential	no
lineage4.2	2631226	850	C/A	284	GAC/TAC	D/Y	Rv2351c	plcA	nonsyn	nonessential	no
lineage4.2	2748087	2139	G/A	713	TCC/TCT	S/S	Rv2448c	valS	syn	essential	no
lineage4.2	2838564	978	C/G	326	CCG/CCC	P/P	Rv2522c	.	syn	nonessential	no
lineage4.2	2851736	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.2	2942377	891	G/A	297	GGC/GGT	G/G	Rv2614c	thrS	syn	essential	yes
lineage4.2	2954571	178	A/C	60	TTA/GTA	L/V	Rv2627c	.	nonsyn	nonessential	no
lineage4.2	2988815	1134	C/G	378	AAC/AAG	N/K	Rv2672	.	nonsyn	nonessential	no
lineage4.2	3016852	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.2	3021962	124	G/A	42	GAG/AAG	E/K	Rv2709	.	nonsyn	nonessential	no
lineage4.2	3056663	570	G/A	190	TGC/TGT	C/C	Rv2743c	.	syn	nonessential	no
lineage4.2	3086742	13	A/C	5	TTT/GTT	F/V	Rv2779c	.	nonsyn	nonessential	no
lineage4.2	3103461	480	G/A	160	TAC/TAT	Y/Y	Rv2794c	pptT	syn	nonessential	no
lineage4.2	3104336	576	T/C	192	GAA/GAG	E/E	Rv2795c	.	syn	nonessential	no
lineage4.2	3124014	970	A/C	324	TCG/GCG	S/A	Rv2817c	.	nonsyn	essential	no
lineage4.2	3186664	1818	A/C	606	GCA/GCC	A/A	Rv2874	dipZ	syn	nonessential	no
lineage4.2	3198496	612	G/A	204	ATC/ATT	I/I	Rv2889c	tsf	syn	essential	no
lineage4.2	3218122	149	A/C	50	ATC/AGC	I/S	Rv2910c	.	nonsyn	nonessential	no
lineage4.2	3233940	200	G/C	67	GCC/GGC	A/G	Rv2921c	ftsY	nonsyn	essential	no
lineage4.2	3290870	456	G/C	152	TCC/TCG	S/S	Rv2945c	lppX	syn	ND	no
lineage4.2	3391074	1153	G/C	385	GTC/CTC	V/L	Rv3031	.	nonsyn	essential	no
lineage4.2	3406045	910	G/A	304	GCG/ACG	A/T	Rv3044	fecB	nonsyn	nonessential	no
lineage4.2	3422104	1110	G/A	370	GTC/GTT	V/V	Rv3060c	.	syn	nonessential	no
lineage4.2	3422687	527	G/A	176	ACC/ATC	T/I	Rv3060c	.	nonsyn	nonessential	no
lineage4.2	3442970	3019	C/T	1007	GCA/ACA	A/T	Rv3080c	pknK	nonsyn	nonessential	no
lineage4.2	3447800	627	G/T	209	GAC/GAA	D/E	Rv3082c	virS	nonsyn	nonessential	no
lineage4.2	3469694	90	G/T	30	GCC/GCA	A/A	Rv3100c	smpB	syn	nonessential	no
lineage4.2	3574504	2533	G/A	845	CGG/TGG	R/W	Rv3201c	.	nonsyn	ND	no
lineage4.2	3585577	574	T/C	192	TGC/CGC	C/R	Rv3208	.	nonsyn	nonessential	no
lineage4.2	3589537	144	C/T	48	CCC/CCT	P/P	Rv3212	.	syn	nonessential	no
lineage4.2	3666905	549	C/T	183	ACC/ACT	T/T	Rv3285	accA3	syn	essential	no
lineage4.2	3867404	835	C/A	279	GAG/TAG	E/*	Rv3447c	eccC4	nonsyn	nonessential	no
lineage4.2	3868379	28	C/T	10	CGG/TGG	R/W	Rv3448	eccD4	nonsyn	nonessential	no
lineage4.2	3875230	409	A/G	137	ACC/GCC	T/A	Rv3454	.	nonsyn	nonessential	no
lineage4.2	3929843	3275	C/T	1092	GCC/GTC	A/V	Rv3507	PE_PGRS53	nonsyn	ND	no
lineage4.2	3940073	457	G/T	153	GCC/TCC	A/S	Rv3511	PE_PGRS55	nonsyn	ND	no
lineage4.2	3971125	1329	C/T	443	ACG/ACA	T/T	Rv3533c	PPE62	syn	ND	no
lineage4.2	3995746	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.2	3999707	729	G/A	243	GCC/GCT	A/A	Rv3559c	.	syn	essential	no
lineage4.2	4073918	285	G/A	95	CTG/CTA	L/L	Rv3635	.	syn	essential	yes
lineage4.2	4095320	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.2	4129917	441	C/A	147	TCG/TCT	S/S	Rv3688c	.	syn	nonessential	no
lineage4.2	4168771	236	C/T	79	TCA/TTA	S/L	Rv3723	.	nonsyn	essential	no
lineage4.2	4212976	684	G/A	228	GCG/GCA	A/A	Rv3766	.	syn	nonessential	no
lineage4.2	4230033	776	T/C	259	GTC/GCC	V/A	Rv3783	rfbD	nonsyn	nonessential	no
lineage4.2	4280072	717	C/A	239	GCG/GCT	A/A	Rv3815c	.	syn	nonessential	no
lineage4.2	4291449	81	A/C	27	GGT/GGG	G/G	Rv3823c	mmpL8	syn	nonessential	no
lineage4.2	4309617	571	G/T	191	GCC/TCC	A/S	Rv3835	.	nonsyn	nonessential	no
lineage4.2	4310449	49	G/A	17	GCA/ACA	A/T	Rv3836	.	nonsyn	nonessential	no
lineage4.2	4324042	28	C/T	10	CGC/TGC	R/C	Rv3850	.	nonsyn	nonessential	no
lineage4.2	4355141	135	A/C	45	GAA/GAC	E/D	Rv3877	eccD1	nonsyn	essential	no
lineage4.2	4362735	686	T/C	229	GAC/GGC	D/G	Rv3882c	eccE1	nonsyn	essential	no
lineage4.2	4364826	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.2	4376445	4008	G/A	1336	CCC/CCT	P/P	Rv3894c	eccC2	syn	nonessential	no
lineage4.2	4388730	1703	T/C	568	CAA/CGA	Q/R	Rv3903c	.	nonsyn	nonessential	no
lineage4.2	4390391	42	C/G	14	GCG/GCC	A/A	Rv3903c	.	syn	nonessential	no
lineage4.2	4394744	553	G/C	185	GTG/CTG	V/L	Rv3909	.	nonsyn	nonessential	no
lineage4.2	4406116	376	C/A	126	GCC/TCC	A/S	Rv3917c	parB	nonsyn	essential	no
lineage4.2.1	101092	510	C/A	170	GTC/GTA	V/V	Rv0092	ctpA	syn	nonessential	no
lineage4.2.1	306639	1220	T/C	407	GAG/GGG	E/G	Rv0255c	cobQ1	nonsyn	nonessential	no
lineage4.2.1	314338	517	A/G	173	TGC/CGC	C/R	Rv0262c	aac	nonsyn	nonessential	no
lineage4.2.1	335387	924	G/A	308	GGC/GGT	G/G	Rv0278c	PE_PGRS3	syn	ND	no
lineage4.2.1	368079	4686	A/G	1562	ACT/ACC	T/T	Rv0304c	PPE5	syn	ND	no
lineage4.2.1	422879	428	G/A	143	CGC/CAC	R/H	Rv0352	dnaJ1	nonsyn	essential	no
lineage4.2.1	449395	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.2.1	609254	509	C/T	170	CCG/CTG	P/L	Rv0517	.	nonsyn	nonessential	no
lineage4.2.1	624025	1233	C/G	411	AGC/AGG	S/R	Rv0532	PE_PGRS6	nonsyn	ND	no
lineage4.2.1	783601	1117	A/C	373	AGG/CGG	R/R	Rv0684	fusA1	syn	essential	yes
lineage4.2.1	926825	1465	G/A	489	GGG/AGG	G/R	Rv0833	PE_PGRS13	nonsyn	ND	no
lineage4.2.1	928917	1569	C/G	523	GGG/GGC	G/G	Rv0834c	PE_PGRS14	syn	ND	no
lineage4.2.1	928918	1568	C/G	523	GGG/GCG	G/A	Rv0834c	PE_PGRS14	nonsyn	ND	no
lineage4.2.1	1017836	890	A/C	297	TTC/TGC	F/C	Rv0913c	.	nonsyn	nonessential	no
lineage4.2.1	1105587	472	T/C	158	TGG/CGG	W/R	Rv0988	.	nonsyn	nonessential	no
lineage4.2.1	1645173	966	C/A	322	TGG/TGT	W/C	Rv1459c	.	nonsyn	essential	no
lineage4.2.1	1721372	689	A/C	230	ATG/AGG	M/R	Rv1526c	.	nonsyn	nonessential	no
lineage4.2.1	1793790	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.2.1	1862521	2862	C/T	954	ACG/ACA	T/T	Rv1651c	PE_PGRS30	syn	ND	no
lineage4.2.1	2053454	12	G/A	4	CTG/CTA	L/L	Rv1811	mgtC	syn	nonessential	no
lineage4.2.1	2147906	245	C/T	82	ACC/ATC	T/I	Rv1901	cinA	nonsyn	nonessential	no
lineage4.2.1	2169879	734	A/C	245	TTC/TGC	F/C	Rv1918c	PPE35	nonsyn	ND	no
lineage4.2.1	2209807	481	C/T	161	CCG/TCG	P/S	Rv1966	mce3A	nonsyn	nonessential	no
lineage4.2.1	2211600	1000	C/G	334	CAG/GAG	Q/E	Rv1967	mce3B	nonsyn	nonessential	no
lineage4.2.1	2522550	191	T/C	64	GTC/GCC	V/A	Rv2248	.	nonsyn	nonessential	no
lineage4.2.1	2625052	1232	G/A	411	CGG/CAG	R/Q	Rv2345	.	nonsyn	nonessential	no
lineage4.2.1	2793706	283	G/A	95	CTC/TTC	L/F	Rv2485c	lipQ	nonsyn	nonessential	no
lineage4.2.1	2802271	3966	G/A	1322	GGC/GGT	G/G	Rv2490c	PE_PGRS43	syn	ND	no
lineage4.2.1	2882343	54	C/A	18	ATC/ATA	I/I	Rv2563	.	syn	nonessential	no
lineage4.2.1	2930057	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.2.1	3257233	1549	G/A	517	GAT/AAT	D/N	Rv2933	ppsC	nonsyn	nonessential	no
lineage4.2.1	3257531	1847	G/A	616	CGC/CAC	R/H	Rv2933	ppsC	nonsyn	nonessential	no
lineage4.2.1	3309275	608	C/G	203	CCT/CGT	P/R	Rv2956	.	nonsyn	nonessential	no
lineage4.2.1	3471151	219	G/A	73	CGC/CGT	R/R	Rv3102c	ftsE	syn	nonessential	no
lineage4.2.1	3541237	128	T/A	43	AAA/ATA	K/I	Rv3172c	.	nonsyn	nonessential	no
lineage4.2.1	3564737	374	G/C	125	GGG/GCG	G/A	Rv3195	.	nonsyn	nonessential	no
lineage4.2.1	3646964	846	C/G	282	CTG/CTC	L/L	Rv3266c	rmlD	syn	nonessential	no
lineage4.2.1	3736303	633	G/C	211	GCC/GCG	A/A	Rv3343c	PPE54	syn	ND	no
lineage4.2.1	3736306	630	C/A	210	GGG/GGT	G/G	Rv3343c	PPE54	syn	ND	no
lineage4.2.1	3917305	694	C/A	232	GTC/TTC	V/F	Rv3498c	mce4B	nonsyn	nonessential	no
lineage4.2.1	3930440	3872	C/A	1291	GCC/GAC	A/D	Rv3507	PE_PGRS53	nonsyn	ND	no
lineage4.2.1	3930448	3880	G/A	1294	GAC/AAC	D/N	Rv3507	PE_PGRS53	nonsyn	ND	no
lineage4.2.1	4199739	483	G/T	161	ATC/ATA	I/I	Rv3753c	.	syn	nonessential	no
lineage4.2.2	9944	31	A/C	11	AGC/CGC	S/R	Rv0007	.	nonsyn	nonessential	no
lineage4.2.2	33929	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2.2	74956	243	T/C	81	AAA/AAG	K/K	Rv0067c	.	syn	nonessential	yes
lineage4.2.2	193735	110	C/G	37	GCC/GGC	A/G	Rv0164	TB18.5	nonsyn	nonessential	no
lineage4.2.2	353766	684	T/C	228	ATT/ATC	I/I	Rv0290	eccD3	syn	essential	no
lineage4.2.2	353767	685	C/T	229	CCC/TCC	P/S	Rv0290	eccD3	nonsyn	essential	no
lineage4.2.2	396634	434	A/G	145	GAG/GGG	E/G	Rv0331	.	nonsyn	nonessential	no
lineage4.2.2	401693	1502	C/G	501	CCG/CGG	P/R	Rv0336	.	nonsyn	nonessential	no
lineage4.2.2	515110	212	T/G	71	GAG/GCG	E/A	Rv0425c	ctpH	nonsyn	essential	no
lineage4.2.2	576077	730	C/T	244	CTG/TTG	L/L	Rv0486	mshA	syn	nonessential	yes
lineage4.2.2	1487796	636	C/A	212	ATC/ATA	I/I	Rv1324	.	syn	nonessential	yes
lineage4.2.2	1600586	929	C/T	310	TCG/TTG	S/L	Rv1425	.	nonsyn	nonessential	no
lineage4.2.2	1644362	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2.2	1720444	428	T/G	143	GTC/GGC	V/G	Rv1525	wbbL2	nonsyn	nonessential	no
lineage4.2.2	1933953	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.2.2	2244768	371	G/A	124	GCG/GTG	A/V	Rv1999c	.	nonsyn	nonessential	no
lineage4.2.2	2356054	624	G/A	208	GTC/GTT	V/V	Rv2097c	pafA	syn	nonessential	no
lineage4.2.2	2408744	781	T/C	261	ATC/GTC	I/V	Rv2150c	ftsZ	nonsyn	essential	no
lineage4.2.2	2420503	106	A/G	36	TTG/CTG	L/L	Rv2158c	murE	syn	nonessential	no
lineage4.2.2	2482888	924	G/A	308	GCG/GCA	A/A	Rv2215	dlaT	syn	essential	no
lineage4.2.2	2615585	893	A/G	298	TAC/TGC	Y/C	Rv2339	mmpL9	nonsyn	nonessential	no
lineage4.2.2	2617610	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.2.2	2891700	1906	T/G	636	TCG/GCG	S/A	Rv2567	.	nonsyn	nonessential	no
lineage4.2.2	2943878	1108	C/G	370	GGC/CGC	G/R	Rv2615c	PE_PGRS45	nonsyn	ND	no
lineage4.2.2	3020457	1	C/T	1	GTG/ATG	V/M	Rv2706c	.	nonsyn	nonessential	no
lineage4.2.2	3066280	845	G/A	282	ACA/ATA	T/I	Rv2753c	dapA	nonsyn	essential	no
lineage4.2.2	3383966	1101	G/C	367	GTC/GTG	V/V	Rv3025c	iscS	syn	essential	no
lineage4.2.2	3450780	784	C/G	262	CGC/GGC	R/G	Rv3084	lipR	nonsyn	nonessential	no
lineage4.2.2	3549429	260	T/C	87	CAG/CGG	Q/R	Rv3180c	.	nonsyn	nonessential	no
lineage4.2.2	3635110	1158	G/A	386	GCC/GCT	A/A	Rv3255c	manA	syn	essential	no
lineage4.2.2	3744931	8254	C/A	2752	GCC/TCC	A/S	Rv3347c	PPE55	nonsyn	ND	no
lineage4.2.2	4168330	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.2.2	4324358	344	T/C	115	ATC/ACC	I/T	Rv3850	.	nonsyn	nonessential	no
lineage4.2.2	4341354	1085	A/G	362	CAG/CGG	Q/R	Rv3864	espE	nonsyn	essential	no
lineage4.2.2.1	1131	1131	C/A	377	ATC/ATA	I/I	Rv0001	dnaA	syn	essential	yes
lineage4.2.2.1	63097	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	84636	641	C/G	214	GCC/GGC	A/G	Rv0075	.	nonsyn	nonessential	no
lineage4.2.2.1	105979	656	C/T	219	GCC/GTC	A/V	Rv0096	PPE1	nonsyn	ND	no
lineage4.2.2.1	152092	945	C/T	315	GCC/GCT	A/A	Rv0125	pepA	syn	ND	no
lineage4.2.2.1	155952	286	T/G	96	TTC/GTC	F/V	Rv0128	.	nonsyn	nonessential	no
lineage4.2.2.1	218596	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	226006	566	G/A	189	GCA/GTA	A/V	Rv0193c	.	nonsyn	nonessential	no
lineage4.2.2.1	232692	462	G/A	154	ACG/ACA	T/T	Rv0197	.	syn	nonessential	no
lineage4.2.2.1	310711	39	G/A	13	GAC/GAT	D/D	Rv0258c	.	syn	nonessential	no
lineage4.2.2.1	397680	239	A/C	80	AAG/ACG	K/T	Rv0332	.	nonsyn	nonessential	no
lineage4.2.2.1	455605	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	456648	172	C/T	58	GCC/ACC	A/T	Rv0380c	.	nonsyn	nonessential	no
lineage4.2.2.1	486100	370	G/A	124	GGC/AGC	G/S	Rv0405	pks6	nonsyn	nonessential	no
lineage4.2.2.1	591009	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	612768	171	G/A	57	AAG/AAA	K/K	Rv0521	.	syn	nonessential	no
lineage4.2.2.1	650598	148	A/C	50	TGG/GGG	W/G	Rv0559c	.	nonsyn	nonessential	no
lineage4.2.2.1	676796	559	C/T	187	CGG/TGG	R/W	Rv0579	.	nonsyn	nonessential	no
lineage4.2.2.1	917174	473	G/A	158	CCG/CTG	P/L	Rv0823c	.	nonsyn	nonessential	no
lineage4.2.2.1	943912	283	G/C	95	CCA/GCA	P/A	Rv0846c	.	nonsyn	nonessential	no
lineage4.2.2.1	995684	612	G/A	204	CCC/CCT	P/P	Rv0893c	.	syn	nonessential	no
lineage4.2.2.1	1033502	285	C/T	95	GCG/GCA	A/A	Rv0926c	.	syn	nonessential	no
lineage4.2.2.1	1039119	796	C/T	266	GGT/AGT	G/S	Rv0931c	pknD	nonsyn	nonessential	no
lineage4.2.2.1	1042941	827	C/A	276	CCC/CAC	P/H	Rv0934	pstS1	nonsyn	ND	no
lineage4.2.2.1	1061178	477	C/T	159	CCG/CCA	P/P	Rv0950c	.	syn	essential	no
lineage4.2.2.1	1106219	1104	G/T	368	ATG/ATT	M/I	Rv0988	.	nonsyn	nonessential	no
lineage4.2.2.1	1113326	943	T/C	315	TCG/CCG	S/P	Rv0996	.	nonsyn	nonessential	no
lineage4.2.2.1	1129165	14	G/A	5	AGC/AAC	S/N	Rv1010	ksgA	nonsyn	nonessential	no
lineage4.2.2.1	1306780	1447	C/T	483	GTG/ATG	V/M	Rv1175c	fadH	nonsyn	nonessential	no
lineage4.2.2.1	1333459	480	C/T	160	GCC/GCT	A/A	Rv1190	.	syn	nonessential	no
lineage4.2.2.1	1455780	286	T/C	96	TTG/CTG	L/L	Rv1299	prfA	syn	essential	yes
lineage4.2.2.1	1600714	1057	G/C	353	GAG/CAG	E/Q	Rv1425	.	nonsyn	nonessential	no
lineage4.2.2.1	1619555	130	C/A	44	GCC/TCC	A/S	Rv1441c	PE_PGRS26	nonsyn	ND	no
lineage4.2.2.1	1676398	486	C/T	162	GTG/GTA	V/V	Rv1486c	.	syn	nonessential	no
lineage4.2.2.1	1678462	1066	C/G	356	CGG/GGG	R/G	Rv1488	.	nonsyn	nonessential	no
lineage4.2.2.1	1747341	147	C/A	49	GTC/GTA	V/V	Rv1546	.	syn	nonessential	no
lineage4.2.2.1	1801636	741	G/C	247	ACG/ACC	T/T	Rv1600	hisC1	syn	essential	no
lineage4.2.2.1	1889908	1883	C/T	628	GCT/GTT	A/V	Rv1664	pks9	nonsyn	nonessential	no
lineage4.2.2.1	1919736	54	T/G	18	GCT/GCG	A/A	Rv1696	recN	syn	essential	no
lineage4.2.2.1	1941852	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	1954797	773	T/G	258	GAC/GCC	D/A	Rv1729c	.	nonsyn	nonessential	no
lineage4.2.2.1	1957665	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	1985573	1098	C/A	366	ACG/ACT	T/T	Rv1754c	.	syn	nonessential	no
lineage4.2.2.1	2012300	231	C/G	77	CAG/CAC	Q/H	Rv1778c	.	nonsyn	nonessential	no
lineage4.2.2.1	2131886	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	2157367	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	2166060	1252	T/G	418	ACC/CCC	T/P	Rv1917c	PPE34	nonsyn	ND	no
lineage4.2.2.1	2173997	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	2234084	133	G/A	45	CTC/TTC	L/F	Rv1990A	.	nonsyn	nonessential	no
lineage4.2.2.1	2276348	77	G/A	26	ACG/ATG	T/M	Rv2029c	pfkB	nonsyn	nonessential	no
lineage4.2.2.1	2336517	1163	C/A	388	GCG/GAG	A/E	Rv2079	.	nonsyn	nonessential	no
lineage4.2.2.1	2338768	60	G/T	20	CCG/CCT	P/P	Rv2082	.	syn	nonessential	no
lineage4.2.2.1	2338773	65	G/A	22	CGG/CAG	R/Q	Rv2082	.	nonsyn	nonessential	no
lineage4.2.2.1	2338912	204	A/C	68	CGA/CGC	R/R	Rv2082	.	syn	nonessential	no
lineage4.2.2.1	2341714	844	C/T	282	CCC/TCC	P/S	Rv2083	.	nonsyn	nonessential	no
lineage4.2.2.1	2362844	2605	C/T	869	CTG/TTG	L/L	Rv2101	helZ	syn	nonessential	no
lineage4.2.2.1	2375129	1162	C/T	388	GTC/ATC	V/I	Rv2115c	mpa	nonsyn	nonessential	no
lineage4.2.2.1	2383188	2880	C/T	960	CCG/CCA	P/P	Rv2124c	metH	syn	nonessential	no
lineage4.2.2.1	2447495	6	C/A	2	GCG/GCT	A/A	Rv2185c	TB16.3	syn	nonessential	no
lineage4.2.2.1	2491446	908	G/A	303	CCA/CTA	P/L	Rv2221c	glnE	nonsyn	essential	no
lineage4.2.2.1	2616467	1775	C/T	592	TCG/TTG	S/L	Rv2339	mmpL9	nonsyn	nonessential	no
lineage4.2.2.1	2667580	2690	A/G	897	ATG/ACG	M/T	Rv2381c	mbtD	nonsyn	nonessential	no
lineage4.2.2.1	2673848	1990	C/A	664	GTG/TTG	V/L	Rv2383c	mbtB	nonsyn	nonessential	no
lineage4.2.2.1	2690427	356	T/A	119	ATT/AAT	I/N	Rv2395	.	nonsyn	nonessential	no
lineage4.2.2.1	2712128	749	C/T	250	GGG/GAG	G/E	Rv2414c	.	nonsyn	nonessential	no
lineage4.2.2.1	2747825	2401	C/G	801	GTC/CTC	V/L	Rv2448c	valS	nonsyn	essential	no
lineage4.2.2.1	2815041	1840	C/T	614	GTG/ATG	V/M	Rv2501c	accA1	nonsyn	nonessential	no
lineage4.2.2.1	2826511	579	A/C	193	AGT/AGG	S/R	Rv2510c	.	nonsyn	essential	no
lineage4.2.2.1	2858270	455	A/C	152	GTG/GGG	V/G	Rv2533c	nusB	nonsyn	essential	no
lineage4.2.2.1	2906753	11	G/T	4	ACC/AAC	T/N	Rv2581c	.	nonsyn	nonessential	no
lineage4.2.2.1	3007524	1686	G/A	562	AGC/AGT	S/S	Rv2690c	.	syn	nonessential	no
lineage4.2.2.1	3018272	438	T/G	146	GAT/GAG	D/E	Rv2703	sigA	nonsyn	essential	no
lineage4.2.2.1	3117588	771	A/C	257	CAA/CAC	Q/H	Rv2812	.	nonsyn	ND	no
lineage4.2.2.1	3131336	438	G/C	146	GCC/GCG	A/A	Rv2823c	.	syn	ND	no
lineage4.2.2.1	3259272	3588	A/C	1196	GTA/GTC	V/V	Rv2933	ppsC	syn	nonessential	no
lineage4.2.2.1	3317301	773	C/T	258	CCC/CTC	P/L	Rv2964	purU	nonsyn	nonessential	no
lineage4.2.2.1	3471310	60	A/C	20	GAT/GAG	D/E	Rv3102c	ftsE	nonsyn	nonessential	no
lineage4.2.2.1	3494024	158	A/G	53	ATC/ACC	I/T	Rv3128c	.	nonsyn	ND	no
lineage4.2.2.1	3514777	121	G/C	41	GAG/CAG	E/Q	Rv3149	nuoE	nonsyn	nonessential	no
lineage4.2.2.1	3579166	1035	C/G	345	CGG/CGC	R/R	Rv3202c	.	syn	nonessential	no
lineage4.2.2.1	3596416	1119	C/G	373	GTG/GTC	V/V	Rv3220c	.	syn	nonessential	no
lineage4.2.2.1	3656971	1119	C/T	373	GAG/GAA	E/E	Rv3274c	fadE25	syn	nonessential	no
lineage4.2.2.1	3672987	660	C/T	220	TCC/TCT	S/S	Rv3292	.	syn	nonessential	no
lineage4.2.2.1	3688222	1221	G/T	407	CCC/CCA	P/P	Rv3302c	glpD2	syn	nonessential	no
lineage4.2.2.1	3690764	175	C/T	59	GGG/AGG	G/R	Rv3303c	lpdA	nonsyn	nonessential	no
lineage4.2.2.1	3699068	948	C/T	316	GAC/GAT	D/D	Rv3311	.	syn	nonessential	no
lineage4.2.2.1	3888637	166	C/A	56	GAC/TAC	D/Y	Rv3470c	ilvB2	nonsyn	nonessential	no
lineage4.2.2.1	3973676	825	C/T	275	GCG/GCA	A/A	Rv3535c	hsaG	syn	nonessential	no
lineage4.2.2.1	4016262	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.2.2.1	4054331	366	G/A	122	GCC/GCT	A/A	Rv3614c	espD	syn	essential	no
lineage4.2.2.1	4179591	1307	T/C	436	GTG/GCG	V/A	Rv3729	.	nonsyn	nonessential	no
lineage4.2.2.1	4234953	174	A/C	58	GAA/GAC	E/D	Rv3788	.	nonsyn	nonessential	no
lineage4.2.2.1	4291750	1425	T/C	475	CCA/CCG	P/P	Rv3824c	papA1	syn	nonessential	no
lineage4.2.2.1	4294209	5397	G/A	1799	ATC/ATT	I/I	Rv3825c	pks2	syn	nonessential	no
lineage4.2.2.1	4385099	281	G/A	94	CCG/CTG	P/L	Rv3899c	.	nonsyn	nonessential	no
lineage4.2.2.1	4391753	1321	C/T	441	GGC/AGC	G/S	Rv3907c	pcnA	nonsyn	essential	no
lineage4.2.2.1	4410654	136	T/G	46	AGT/CGT	S/R	Rv3923c	rnpA	nonsyn	essential	no
lineage4.3	14251	163	G/A	55	GAT/AAT	D/N	Rv0012	.	nonsyn	nonessential	no
lineage4.3	33457	234	C/T	78	CAC/CAT	H/H	Rv0030	.	syn	nonessential	no
lineage4.3	63771	572	C/T	191	CCG/CTG	P/L	Rv0059	.	nonsyn	nonessential	no
lineage4.3	74059	453	C/G	151	AAG/AAC	K/N	Rv0066c	icd2	nonsyn	nonessential	no
lineage4.3	133862	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3	157292	309	C/T	103	GAG/GAA	E/E	Rv0129c	fbpC	syn	ND	no
lineage4.3	162581	811	G/A	271	GGC/AGC	G/S	Rv0134	ephF	nonsyn	nonessential	no
lineage4.3	180025	872	C/T	291	GGG/GAG	G/E	Rv0152c	PE2	nonsyn	ND	no
lineage4.3	203269	794	C/T	265	GCG/GTG	A/V	Rv0172	mce1D	nonsyn	nonessential	no
lineage4.3	207226	413	T/C	138	ATG/ACG	M/T	Rv0175	.	nonsyn	essential	no
lineage4.3	212353	659	C/T	220	CGC/CAC	R/H	Rv0181c	.	nonsyn	nonessential	no
lineage4.3	408723	90	C/T	30	ATC/ATT	I/I	Rv0340	.	syn	nonessential	no
lineage4.3	472705	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.3	534691	525	C/T	175	TGG/TGA	W/*	Rv0446c	.	nonsyn	nonessential	no
lineage4.3	563420	8	T/C	3	GAG/GGG	E/G	Rv0472c	.	nonsyn	nonessential	no
lineage4.3	637922	48	C/T	16	CAG/CAA	Q/Q	Rv0546c	.	syn	nonessential	no
lineage4.3	664249	570	C/T	190	CAG/CAA	Q/Q	Rv0571c	.	syn	nonessential	no
lineage4.3	709226	290	G/A	97	ACC/ATC	T/I	Rv0613c	.	nonsyn	nonessential	no
lineage4.3	726703	1604	C/A	535	AGG/ATG	R/M	Rv0631c	recC	nonsyn	nonessential	no
lineage4.3	752343	827	A/G	276	GAG/GGG	E/G	Rv0655	mkl	nonsyn	essential	no
lineage4.3	764995	1626	C/G	542	GCC/GCG	A/A	Rv0668	rpoC	syn	essential	yes
lineage4.3	796509	991	G/T	331	GGC/TGC	G/C	Rv0696	.	nonsyn	nonessential	no
lineage4.3	885542	299	G/C	100	TCC/TGC	S/C	Rv0791c	.	nonsyn	nonessential	no
lineage4.3	942479	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.3	1103249	708	C/T	236	GCC/GCT	A/A	Rv0987	.	syn	nonessential	no
lineage4.3	1107434	.	A/T	.	./.	./.	.	.	inter	.	no
lineage4.3	1107917	183	G/T	61	CAC/CAA	H/Q	Rv0990c	.	nonsyn	nonessential	no
lineage4.3	1199547	824	G/A	275	CCA/CTA	P/L	Rv1075c	.	nonsyn	nonessential	no
lineage4.3	1354437	195	A/C	65	GCA/GCC	A/A	Rv1211	.	syn	essential	no
lineage4.3	1389738	3315	G/A	1105	GAC/GAT	D/D	Rv1248c	.	syn	essential	no
lineage4.3	1404169	435	T/G	145	AAA/AAC	K/N	Rv1256c	cyp130	nonsyn	ND	no
lineage4.3	1445474	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3	1446923	545	T/G	182	ATC/AGC	I/S	Rv1292	argS	nonsyn	essential	no
lineage4.3	1452071	75	C/A	25	GGC/GGA	G/G	Rv1296	thrB	syn	essential	no
lineage4.3	1480024	801	G/T	267	TTC/TTA	F/L	Rv1318c	.	nonsyn	nonessential	no
lineage4.3	1512031	575	T/G	192	GAC/GCC	D/A	Rv1347c	mbtK	nonsyn	essential	no
lineage4.3	1613960	654	G/T	218	GCG/GCT	A/A	Rv1436	gap	syn	essential	no
lineage4.3	1692795	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.3	1718761	36	C/T	12	GGC/GGT	G/G	Rv1524	.	syn	essential	no
lineage4.3	1734994	261	C/T	87	GCC/GCT	A/A	Rv1534	.	syn	nonessential	no
lineage4.3	1740771	916	A/C	306	ACC/CCC	T/P	Rv1537	dinX	nonsyn	nonessential	no
lineage4.3	1793769	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3	1899351	566	T/C	189	GAA/GGA	E/G	Rv1674c	.	nonsyn	nonessential	no
lineage4.3	1943592	17	C/T	6	CCC/CTC	P/L	Rv1716	.	nonsyn	nonessential	no
lineage4.3	1981056	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3	2053411	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.3	2097990	30	A/C	10	GCA/GCC	A/A	Rv1850	ureC	syn	essential	no
lineage4.3	2174216	150	A/G	50	GTA/GTG	V/V	Rv1922	.	syn	nonessential	no
lineage4.3	2207525	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3	2216248	992	C/G	331	CCG/CGG	P/R	Rv1971	mce3F	nonsyn	nonessential	no
lineage4.3	2231132	107	G/A	36	AGT/AAT	S/N	Rv1987	.	nonsyn	ND	no
lineage4.3	2245532	324	T/C	108	TGT/TGC	C/C	Rv2000	.	syn	nonessential	no
lineage4.3	2283030	692	A/G	231	ATT/ACT	I/T	Rv2037c	.	nonsyn	nonessential	no
lineage4.3	2463094	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3	2503625	984	C/T	328	CTG/CTA	L/L	Rv2230c	.	syn	nonessential	no
lineage4.3	2621058	1395	G/A	465	CCC/CCT	P/P	Rv2343c	dnaG	syn	essential	no
lineage4.3	2654371	723	G/A	241	AAC/AAT	N/N	Rv2374c	hrcA	syn	essential	no
lineage4.3	2745889	250	C/T	84	GCC/ACC	A/T	Rv2446c	.	nonsyn	nonessential	no
lineage4.3	2881455	47	A/G	16	TAC/TGC	Y/C	Rv2561	.	nonsyn	nonessential	no
lineage4.3	2893238	234	C/A	78	CGG/CGT	R/R	Rv2568c	.	syn	nonessential	no
lineage4.3	2968913	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.3	3101119	463	G/T	155	CGC/AGC	R/S	Rv2791c	.	nonsyn	ND	no
lineage4.3	3108674	259	A/C	87	AGG/CGG	R/R	Rv2800	.	syn	nonessential	no
lineage4.3	3165074	923	T/C	308	GTG/GCG	V/A	Rv2854	.	nonsyn	nonessential	no
lineage4.3	3175702	1564	T/C	522	ATC/GTC	I/V	Rv2864c	.	nonsyn	nonessential	no
lineage4.3	3178445	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.3	3191027	595	G/A	199	CTG/TTG	L/L	Rv2881c	cdsA	syn	essential	no
lineage4.3	3243630	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3	3260301	4617	A/G	1539	GGA/GGG	G/G	Rv2933	ppsC	syn	nonessential	no
lineage4.3	3418328	335	T/G	112	GAT/GCT	D/A	Rv3057c	.	nonsyn	nonessential	no
lineage4.3	3418330	333	G/A	111	CAC/CAT	H/H	Rv3057c	.	syn	nonessential	no
lineage4.3	3426795	1212	C/G	404	TCC/TCG	S/S	Rv3062	ligB	syn	nonessential	no
lineage4.3	3429202	1960	T/G	654	TAC/GAC	Y/D	Rv3063	cstA	nonsyn	nonessential	no
lineage4.3	3460986	749	G/A	250	CCG/CTG	P/L	Rv3092c	.	nonsyn	nonessential	no
lineage4.3	3548641	1024	T/C	342	TAT/CAT	Y/H	Rv3179	.	nonsyn	nonessential	no
lineage4.3	3594124	112	C/T	38	GCC/ACC	A/T	Rv3217c	.	nonsyn	nonessential	no
lineage4.3	3610441	749	C/T	250	CGT/CAT	R/H	Rv3234c	tgs3	nonsyn	nonessential	no
lineage4.3	3730327	6609	G/A	2203	TTC/TTT	F/F	Rv3343c	PPE54	syn	ND	no
lineage4.3	3776706	796	C/T	266	GCG/ACG	A/T	Rv3365c	.	nonsyn	nonessential	no
lineage4.3	3825560	231	C/G	77	CTC/CTG	L/L	Rv3406	.	syn	nonessential	no
lineage4.3	3859376	287	C/T	96	GGG/GAG	G/E	Rv3439c	.	nonsyn	nonessential	no
lineage4.3	3983271	874	T/G	292	ATC/CTC	I/L	Rv3544c	fadE28	nonsyn	essential	no
lineage4.3	4038287	2418	G/A	806	AAC/AAT	N/N	Rv3596c	clpC1	syn	essential	no
lineage4.3	4075957	206	C/A	69	GCC/GAC	A/D	Rv3636	.	nonsyn	ND	no
lineage4.3	4135112	387	G/A	129	ATG/ATA	M/I	Rv3693	.	nonsyn	nonessential	no
lineage4.3	4163944	209	A/G	70	CAT/CGT	H/R	Rv3720	.	nonsyn	nonessential	no
lineage4.3	4174564	1610	T/C	537	ATC/ACC	I/T	Rv3727	.	nonsyn	nonessential	no
lineage4.3	4220174	490	G/A	164	GAC/AAC	D/N	Rv3775	lipE	nonsyn	nonessential	no
lineage4.3	4233299	299	G/A	100	ACC/ATC	T/I	Rv3786c	.	nonsyn	nonessential	no
lineage4.3	4293072	103	G/A	35	CTT/TTT	L/F	Rv3824c	papA1	nonsyn	nonessential	no
lineage4.3	4315384	179	T/C	60	GAC/GGC	D/G	Rv3842c	glpQ1	nonsyn	nonessential	no
lineage4.3	4340330	61	T/G	21	TTG/GTG	L/V	Rv3864	espE	nonsyn	essential	no
lineage4.3	4373496	135	C/G	45	GTG/GTC	V/V	Rv3889c	espG2	syn	nonessential	no
lineage4.3	4391553	54	C/T	18	CCG/CCA	P/P	Rv3906c	.	syn	nonessential	no
lineage4.3	4408156	47	A/C	16	CTT/CGT	L/R	Rv3919c	gid	nonsyn	nonessential	no
lineage4.3.1	4771	338	A/G	113	CAT/CGT	H/R	Rv0004	.	nonsyn	nonessential	no
lineage4.3.1	20036	199	C/T	67	GCC/ACC	A/T	Rv0016c	pbpA	nonsyn	nonessential	no
lineage4.3.1	39724	106	C/T	36	GCG/ACG	A/T	Rv0036c	.	nonsyn	nonessential	no
lineage4.3.1	71622	34	G/A	12	GAT/AAT	D/N	Rv0064A	vapB1	nonsyn	nonessential	no
lineage4.3.1	90477	78	C/T	26	GGC/GGT	G/G	Rv0083	.	syn	nonessential	no
lineage4.3.1	134113	164	C/T	55	CCC/CTC	P/L	Rv0111	.	nonsyn	nonessential	no
lineage4.3.1	180373	524	C/T	175	AGG/AAG	R/K	Rv0152c	PE2	nonsyn	ND	no
lineage4.3.1	205402	172	G/T	58	GTG/TTG	V/L	Rv0174	mce1F	nonsyn	nonessential	no
lineage4.3.1	246239	1080	C/A	360	TCG/TCT	S/S	Rv0206c	mmpL3	syn	nonessential	no
lineage4.3.1	378647	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.3.1	488778	3048	C/T	1016	CTC/CTT	L/L	Rv0405	pks6	syn	nonessential	no
lineage4.3.1	502262	96	C/T	32	ATC/ATT	I/I	Rv0416	thiS	syn	essential	yes
lineage4.3.1	506979	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.1	609814	1069	C/T	357	CAA/TAA	Q/*	Rv0517	.	nonsyn	nonessential	no
lineage4.3.1	615614	780	C/A	260	GCC/GCA	A/A	Rv0524	hemL	syn	essential	yes
lineage4.3.1	662584	1290	C/T	430	CCC/CCT	P/P	Rv0570	nrdZ	syn	nonessential	no
lineage4.3.1	691309	809	G/A	270	AGC/AAC	S/N	Rv0592	mce2D	nonsyn	nonessential	no
lineage4.3.1	695527	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.3.1	697551	17	G/T	6	GCA/GAA	A/E	Rv0598c	vapC27	nonsyn	nonessential	no
lineage4.3.1	825585	786	T/C	262	TAT/TAC	Y/Y	Rv0732	secY	syn	essential	yes
lineage4.3.1	845670	284	G/A	95	ACG/ATG	T/M	Rv0753c	mmsA	nonsyn	nonessential	no
lineage4.3.1	942594	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.1	966942	406	C/A	136	GCC/TCC	A/S	Rv0869c	moaA2	nonsyn	nonessential	no
lineage4.3.1	1054951	705	G/A	235	GCG/GCA	A/A	Rv0945	.	syn	nonessential	no
lineage4.3.1	1137773	288	C/T	96	GGG/GGA	G/G	Rv1018c	glmU	syn	essential	yes
lineage4.3.1	1169028	201	G/A	67	ACC/ACT	T/T	Rv1046c	.	syn	nonessential	no
lineage4.3.1	1172079	75	A/G	25	CGT/CGC	R/R	Rv1048c	.	syn	nonessential	no
lineage4.3.1	1202106	390	T/A	130	AGT/AGA	S/R	Rv1077	cbs	nonsyn	nonessential	no
lineage4.3.1	1341254	249	G/A	83	GCG/GCA	A/A	Rv1198	esxL	syn	ND	no
lineage4.3.1	1346522	384	A/C	128	CGT/CGG	R/R	Rv1203c	.	syn	nonessential	no
lineage4.3.1	1370328	498	G/A	166	ACC/ACT	T/T	Rv1227c	.	syn	nonessential	no
lineage4.3.1	1373666	532	G/C	178	CCA/GCA	P/A	Rv1230c	.	nonsyn	nonessential	no
lineage4.3.1	1384198	986	T/C	329	ATC/ACC	I/T	Rv1240	mdh	nonsyn	nonessential	no
lineage4.3.1	1421109	1197	A/G	399	TTT/TTC	F/F	Rv1272c	.	syn	essential	yes
lineage4.3.1	1427896	483	T/G	161	GGT/GGG	G/G	Rv1278	.	syn	essential	yes
lineage4.3.1	1465535	652	A/G	218	ACG/GCG	T/A	Rv1309	atpG	nonsyn	essential	no
lineage4.3.1	1496295	1732	C/T	578	CAC/TAC	H/Y	Rv1328	glgP	nonsyn	nonessential	no
lineage4.3.1	1539854	792	G/A	264	CGC/CGT	R/R	Rv1367c	.	syn	nonessential	no
lineage4.3.1	1541214	195	T/C	65	AGT/AGC	S/S	Rv1368	lprF	syn	nonessential	no
lineage4.3.1	1625059	307	C/T	103	GCC/ACC	A/T	Rv1446c	opcA	nonsyn	essential	no
lineage4.3.1	1640446	215	G/C	72	CCA/CGA	P/R	Rv1454c	qor	nonsyn	nonessential	no
lineage4.3.1	1669254	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.1	1709249	379	C/T	127	CTG/TTG	L/L	Rv1517	.	syn	nonessential	no
lineage4.3.1	1715828	1785	G/C	595	GCC/GCG	A/A	Rv1522c	mmpL12	syn	nonessential	no
lineage4.3.1	1728154	256	C/G	86	GAT/CAT	D/H	Rv1527c	pks5	nonsyn	nonessential	no
lineage4.3.1	1914631	1030	G/A	344	GAA/AAA	E/K	Rv1689	tyrS	nonsyn	essential	no
lineage4.3.1	1942884	226	C/G	76	CTG/GTG	L/V	Rv1715	fadB3	nonsyn	essential	no
lineage4.3.1	1965624	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.3.1	2005558	398	C/T	133	GCG/GTG	A/V	Rv1771	.	nonsyn	nonessential	no
lineage4.3.1	2108291	556	G/A	186	GCG/ACG	A/T	Rv1860	apa	nonsyn	ND	no
lineage4.3.1	2203024	609	C/G	203	AGG/AGC	R/S	Rv1958c	.	nonsyn	nonessential	no
lineage4.3.1	2403621	645	G/C	215	ATG/ATC	M/I	Rv2143	.	nonsyn	nonessential	no
lineage4.3.1	2494560	840	A/G	280	AAT/AAC	N/N	Rv2223c	.	syn	ND	no
lineage4.3.1	2745142	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.3.1	2792510	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.3.1	2895948	13	G/C	5	CTG/GTG	L/V	Rv2571c	.	nonsyn	nonessential	no
lineage4.3.1	2950840	468	G/A	156	CGC/CGT	R/R	Rv2624c	.	syn	nonessential	no
lineage4.3.1	3037136	156	G/A	52	GCC/GCT	A/A	Rv2724c	fadE20	syn	nonessential	no
lineage4.3.1	3042846	305	A/C	102	GAC/GCC	D/A	Rv2730	.	nonsyn	nonessential	no
lineage4.3.1	3063365	550	T/C	184	TAC/CAC	Y/H	Rv2750	.	nonsyn	nonessential	no
lineage4.3.1	3096737	1627	T/G	543	TCT/GCT	S/A	Rv2787	.	nonsyn	nonessential	no
lineage4.3.1	3187535	506	A/C	169	GAC/GCC	D/A	Rv2875	mpt70	nonsyn	ND	no
lineage4.3.1	3233295	845	A/G	282	GTT/GCT	V/A	Rv2921c	ftsY	nonsyn	essential	no
lineage4.3.1	3248699	3255	C/G	1085	GCC/GCG	A/A	Rv2931	ppsA	syn	nonessential	no
lineage4.3.1	3260960	5276	A/G	1759	GAT/GGT	D/G	Rv2933	ppsC	nonsyn	nonessential	no
lineage4.3.1	3276352	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.3.1	3304133	116	C/T	39	TGG/TAG	W/*	Rv2951c	.	nonsyn	nonessential	no
lineage4.3.1	3395509	131	A/C	44	CAG/CCG	Q/P	Rv3035	.	nonsyn	nonessential	no
lineage4.3.1	3450169	173	T/C	58	GTC/GCC	V/A	Rv3084	lipR	nonsyn	nonessential	no
lineage4.3.1	3522395	162	G/A	54	CTG/CTA	L/L	Rv3156	nuoL	syn	nonessential	no
lineage4.3.1	3588146	349	A/G	117	ACA/GCA	T/A	Rv3211	rhlE	nonsyn	nonessential	no
lineage4.3.1	3604465	1089	C/G	363	CCC/CCG	P/P	Rv3227	aroA	syn	nonessential	no
lineage4.3.1	3629572	76	G/A	26	CTG/TTG	L/L	Rv3248c	sahH	syn	essential	yes
lineage4.3.1	3670183	229	G/A	77	CTG/TTG	L/L	Rv3289c	.	syn	nonessential	no
lineage4.3.1	3671865	433	C/T	145	GAT/AAT	D/N	Rv3291c	lrpA	nonsyn	nonessential	no
lineage4.3.1	3671866	432	G/C	144	AGC/AGG	S/R	Rv3291c	lrpA	nonsyn	nonessential	no
lineage4.3.1	3684845	1119	T/G	373	GAA/GAC	E/D	Rv3299c	atsB	nonsyn	nonessential	no
lineage4.3.1	3748196	4989	A/G	1663	GAT/GAC	D/D	Rv3347c	PPE55	syn	ND	no
lineage4.3.1	3776748	754	G/T	252	CCG/ACG	P/T	Rv3365c	.	nonsyn	nonessential	no
lineage4.3.1	3778777	210	G/A	70	ACG/ACA	T/T	Rv3367	PE_PGRS51	syn	ND	no
lineage4.3.1	3860288	1083	C/T	361	TCG/TCA	S/S	Rv3441c	mrsA	syn	essential	yes
lineage4.3.1	3885955	115	G/A	39	CTG/TTG	L/L	Rv3468c	.	syn	nonessential	no
lineage4.3.1	3888025	778	C/A	260	GGC/TGC	G/C	Rv3470c	ilvB2	nonsyn	nonessential	no
lineage4.3.1	3981171	810	T/G	270	GAA/GAC	E/D	Rv3542c	.	nonsyn	essential	no
lineage4.3.1	4034097	41	G/A	14	GGC/GAC	G/D	Rv3592	mhuD	nonsyn	nonessential	no
lineage4.3.1	4047843	339	C/T	113	CGG/CGA	R/R	Rv3605c	.	syn	nonessential	no
lineage4.3.1	4132356	618	C/T	206	CAC/CAT	H/H	Rv3690	.	syn	nonessential	no
lineage4.3.1	4168283	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.1	4168590	55	G/A	19	GTC/ATC	V/I	Rv3723	.	nonsyn	essential	no
lineage4.3.1	4304045	964	C/T	322	GGC/AGC	G/S	Rv3829c	.	nonsyn	nonessential	no
lineage4.3.1	4378091	2362	C/T	788	GAC/AAC	D/N	Rv3894c	eccC2	nonsyn	nonessential	no
lineage4.3.1	4405186	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.2	41257	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2	47699	402	G/A	134	CGC/CGT	R/R	Rv0043c	.	syn	nonessential	no
lineage4.3.2	102188	1606	C/T	536	CGC/TGC	R/C	Rv0092	ctpA	nonsyn	nonessential	no
lineage4.3.2	113838	3838	C/T	1280	CTT/TTT	L/F	Rv0101	nrp	nonsyn	essential	no
lineage4.3.2	243118	97	G/A	33	CGC/TGC	R/C	Rv0204c	.	nonsyn	essential	no
lineage4.3.2	243535	152	C/T	51	GCG/GTG	A/V	Rv0205	.	nonsyn	essential	no
lineage4.3.2	244911	2408	G/C	803	CCA/CGA	P/R	Rv0206c	mmpL3	nonsyn	nonessential	no
lineage4.3.2	285876	976	C/T	326	GCC/ACC	A/T	Rv0236c	aftD	nonsyn	essential	no
lineage4.3.2	287904	719	T/C	240	GTC/GCC	V/A	Rv0237	lpqI	nonsyn	nonessential	no
lineage4.3.2	295917	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2	302660	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.3.2	326039	1473	C/T	491	GCC/GCT	A/A	Rv0270	fadD2	syn	nonessential	no
lineage4.3.2	453780	593	A/G	198	ATG/ACG	M/T	Rv0376c	.	nonsyn	nonessential	no
lineage4.3.2	466096	2686	C/T	896	CGC/TGC	R/C	Rv0386	.	nonsyn	nonessential	no
lineage4.3.2	515125	197	T/G	66	AAC/ACC	N/T	Rv0425c	ctpH	nonsyn	essential	no
lineage4.3.2	533781	9	T/C	3	GAA/GAG	E/E	Rv0444c	rskA	syn	nonessential	no
lineage4.3.2	544683	1510	A/G	504	ATG/GTG	M/V	Rv0453	PPE11	nonsyn	ND	no
lineage4.3.2	646243	777	T/C	259	AGT/AGC	S/S	Rv0554	bpoC	syn	nonessential	no
lineage4.3.2	701336	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2	705595	315	C/T	105	GCG/GCA	A/A	Rv0610c	.	syn	nonessential	no
lineage4.3.2	814641	314	T/C	105	GTA/GCA	V/A	Rv0721	rpsE	nonsyn	essential	no
lineage4.3.2	853469	1074	C/A	358	GGC/GGA	G/G	Rv0758	phoR	syn	nonessential	no
lineage4.3.2	980100	739	C/T	247	CGG/TGG	R/W	Rv0881	.	nonsyn	nonessential	no
lineage4.3.2	980360	136	G/T	46	GGT/TGT	G/C	Rv0882	.	nonsyn	nonessential	no
lineage4.3.2	986563	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2	1047683	1548	G/T	516	TTG/TTT	L/F	Rv0938	ligD	nonsyn	nonessential	no
lineage4.3.2	1090172	4	G/A	2	CGT/TGT	R/C	Rv0976c	.	nonsyn	nonessential	no
lineage4.3.2	1205269	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2	1290326	2999	G/A	1000	CGT/CAT	R/H	Rv1161	narG	nonsyn	nonessential	no
lineage4.3.2	1339399	51	C/T	17	TAC/TAT	Y/Y	Rv1196	PPE18	syn	ND	no
lineage4.3.2	1440150	1244	T/C	415	TTA/TCA	L/S	Rv1286	cysN	nonsyn	essential	no
lineage4.3.2	1472337	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2	1592453	304	T/C	102	TCG/CCG	S/P	Rv1417	.	nonsyn	nonessential	no
lineage4.3.2	1592454	305	C/A	102	TCG/TAG	S/*	Rv1417	.	nonsyn	nonessential	no
lineage4.3.2	1625019	347	G/A	116	CCC/CTC	P/L	Rv1446c	opcA	nonsyn	essential	no
lineage4.3.2	1710070	427	C/G	143	CAA/GAA	Q/E	Rv1518	.	nonsyn	nonessential	no
lineage4.3.2	1778557	19	C/T	7	CTG/TTG	L/L	Rv1571	.	syn	nonessential	no
lineage4.3.2	1799806	224	C/T	75	GCG/GTG	A/V	Rv1599	hisD	nonsyn	essential	no
lineage4.3.2	1813255	85	T/A	29	TGC/AGC	C/S	Rv1614	lgt	nonsyn	essential	no
lineage4.3.2	1838153	1079	G/A	360	CGC/CAC	R/H	Rv1633	uvrB	nonsyn	nonessential	no
lineage4.3.2	1862335	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2	1885073	3370	A/G	1124	ATG/GTG	M/V	Rv1662	pks8	nonsyn	essential	no
lineage4.3.2	2038913	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2	2121063	368	C/T	123	GGT/GAT	G/D	Rv1870c	.	nonsyn	nonessential	no
lineage4.3.2	2184371	587	G/A	196	GCC/GTC	A/V	Rv1933c	fadE18	nonsyn	nonessential	no
lineage4.3.2	2191251	225	G/A	75	AAG/AAA	K/K	Rv1938	ephB	syn	nonessential	no
lineage4.3.2	2192350	257	C/T	86	GCC/GTC	A/V	Rv1939	.	nonsyn	essential	no
lineage4.3.2	2227654	1411	C/T	471	CCC/TCC	P/S	Rv1983	PE_PGRS35	nonsyn	ND	no
lineage4.3.2	2249403	18	C/T	6	CGG/CGA	R/R	Rv2003c	.	syn	nonessential	no
lineage4.3.2	2438090	150	G/A	50	ATG/ATA	M/I	Rv2176	pknL	nonsyn	nonessential	no
lineage4.3.2	2537602	749	A/C	250	CTT/CGT	L/R	Rv2264c	.	nonsyn	nonessential	no
lineage4.3.2	2546359	258	C/T	86	CGC/CGT	R/R	Rv2273	.	syn	nonessential	no
lineage4.3.2	2649855	120	G/A	40	GAC/GAT	D/D	Rv2368c	phoH1	syn	nonessential	no
lineage4.3.2	2659711	2375	G/A	792	CCG/CTG	P/L	Rv2379c	mbtF	nonsyn	nonessential	no
lineage4.3.2	2695094	706	C/G	236	GCC/CCC	A/P	Rv2398c	cysW	nonsyn	essential	no
lineage4.3.2	2835576	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.2	2907629	816	G/A	272	CAG/CAA	Q/Q	Rv2582	ppiB	syn	essential	no
lineage4.3.2	2932318	825	A/C	275	GGT/GGG	G/G	Rv2605c	tesB2	syn	nonessential	no
lineage4.3.2	2964024	439	G/A	147	GTC/ATC	V/I	Rv2637	dedA	nonsyn	nonessential	no
lineage4.3.2	2976541	14	G/T	5	GCA/GAA	A/E	Rv2652c	.	nonsyn	ND	no
lineage4.3.2	3007840	1370	A/G	457	GTG/GCG	V/A	Rv2690c	.	nonsyn	nonessential	no
lineage4.3.2	3011834	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2	3051068	357	C/T	119	CAG/CAA	Q/Q	Rv2737c	recA	syn	nonessential	no
lineage4.3.2	3107859	92	C/T	31	GCG/GTG	A/V	Rv2799	.	nonsyn	nonessential	no
lineage4.3.2	3130682	1092	G/A	364	GGC/GGT	G/G	Rv2823c	.	syn	ND	no
lineage4.3.2	3195557	876	G/A	292	CAC/CAT	H/H	Rv2886c	.	syn	nonessential	no
lineage4.3.2	3195975	458	G/A	153	GCG/GTG	A/V	Rv2886c	.	nonsyn	nonessential	no
lineage4.3.2	3340615	762	C/G	254	TTC/TTG	F/L	Rv2984	ppk1	nonsyn	nonessential	no
lineage4.3.2	3357160	346	G/C	116	GCG/CCG	A/P	Rv2998	.	nonsyn	essential	no
lineage4.3.2	3378404	12	G/T	4	AGC/AGA	S/R	Rv3018A	PE27A	nonsyn	ND	no
lineage4.3.2	3378419	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.3.2	3382748	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2	3401951	1212	G/A	404	GTC/GTT	V/V	Rv3042c	serB2	syn	essential	no
lineage4.3.2	3414791	168	G/C	56	GCC/GCG	A/A	Rv3053c	nrdH	syn	nonessential	no
lineage4.3.2	3436296	27	A/G	9	GAT/GAC	D/D	Rv3072c	.	syn	nonessential	no
lineage4.3.2	3451670	751	G/C	251	GTG/CTG	V/L	Rv3085	.	nonsyn	nonessential	no
lineage4.3.2	3495658	709	G/C	237	CCT/GCT	P/A	Rv3130c	tgs1	nonsyn	nonessential	no
lineage4.3.2	3564790	427	G/A	143	GAC/AAC	D/N	Rv3195	.	nonsyn	nonessential	no
lineage4.3.2	3576965	72	G/A	24	CCC/CCT	P/P	Rv3201c	.	syn	ND	no
lineage4.3.2	3600717	83	T/G	28	ATC/AGC	I/S	Rv3224A	.	nonsyn	nonessential	no
lineage4.3.2	3688944	499	C/T	167	GGC/AGC	G/S	Rv3302c	glpD2	nonsyn	nonessential	no
lineage4.3.2	3770768	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2	3771563	220	G/T	74	GGC/TGC	G/C	Rv3359	.	nonsyn	nonessential	no
lineage4.3.2	3788840	220	G/T	74	GCC/TCC	A/S	Rv3375	amiD	nonsyn	essential	no
lineage4.3.2	3831558	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2	3894176	84	T/C	28	AAT/AAC	N/N	Rv3477	PE31	syn	ND	no
lineage4.3.2	4033954	89	G/A	30	TCC/TTC	S/F	Rv3591c	.	nonsyn	nonessential	no
lineage4.3.2	4050877	2007	G/C	669	GCC/GCG	A/A	Rv3610c	ftsH	syn	essential	no
lineage4.3.2	4076546	63	G/A	21	GTG/GTA	V/V	Rv3637	.	syn	ND	no
lineage4.3.2	4080979	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2	4127997	729	G/C	243	CGC/CGG	R/R	Rv3685c	cyp137	syn	nonessential	no
lineage4.3.2	4141036	544	G/T	182	GAT/TAT	D/Y	Rv3698	.	nonsyn	nonessential	no
lineage4.3.2	4148529	434	T/G	145	GAC/GCC	D/A	Rv3705c	.	nonsyn	nonessential	no
lineage4.3.2	4225647	663	G/A	221	GCG/GCA	A/A	Rv3779	.	syn	nonessential	no
lineage4.3.2	4251087	3	G/A	1	ATG/ATA	M/I	Rv3797	fadE35	nonsyn	nonessential	no
lineage4.3.2	4295631	3975	C/A	1325	GTG/GTT	V/V	Rv3825c	pks2	syn	nonessential	no
lineage4.3.2	4297793	1813	T/C	605	ACC/GCC	T/A	Rv3825c	pks2	nonsyn	nonessential	no
lineage4.3.2	4316114	483	G/A	161	GCC/GCT	A/A	Rv3843c	.	syn	nonessential	yes
lineage4.3.2	4349688	862	C/T	288	CCC/TCC	P/S	Rv3871	eccCb1	nonsyn	ND	no
lineage4.3.2	4350446	1620	G/C	540	TCG/TCC	S/S	Rv3871	eccCb1	syn	ND	no
lineage4.3.2	4361162	764	T/G	255	CAG/CCG	Q/P	Rv3881c	espB	nonsyn	nonessential	no
lineage4.3.2	4389202	1231	C/T	411	GAC/AAC	D/N	Rv3903c	.	nonsyn	nonessential	no
lineage4.3.2.1	5520	281	C/T	94	CCG/CTG	P/L	Rv0005	gyrB	nonsyn	essential	no
lineage4.3.2.1	7222	1983	C/T	661	AGC/AGT	S/S	Rv0005	gyrB	syn	essential	yes
lineage4.3.2.1	69025	406	G/C	136	GTG/CTG	V/L	Rv0064	.	nonsyn	nonessential	no
lineage4.3.2.1	104824	392	C/A	131	AGC/ATC	S/I	Rv0095c	.	nonsyn	nonessential	no
lineage4.3.2.1	147655	117	G/C	39	CTC/CTG	L/L	Rv0120c	fusA2	syn	nonessential	no
lineage4.3.2.1	165665	343	A/G	115	ATC/GTC	I/V	Rv0138	.	nonsyn	nonessential	no
lineage4.3.2.1	168694	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2.1	244719	2600	G/A	867	CCG/CTG	P/L	Rv0206c	mmpL3	nonsyn	nonessential	no
lineage4.3.2.1	265154	1088	G/C	363	TGG/TCG	W/S	Rv0221	.	nonsyn	nonessential	no
lineage4.3.2.1	361596	263	C/T	88	GCC/GTC	A/V	Rv0297	PE_PGRS5	nonsyn	ND	no
lineage4.3.2.1	371265	1500	C/T	500	TCG/TCA	S/S	Rv0304c	PPE5	syn	ND	no
lineage4.3.2.1	392914	1132	C/T	378	GGC/AGC	G/S	Rv0327c	cyp135A1	nonsyn	nonessential	no
lineage4.3.2.1	429247	5433	C/T	1811	GGG/GGA	G/G	Rv0355c	PPE8	syn	ND	no
lineage4.3.2.1	457032	792	T/C	264	CTA/CTG	L/L	Rv0381c	.	syn	nonessential	no
lineage4.3.2.1	712773	58	T/C	20	TAC/CAC	Y/H	Rv0620	galK	nonsyn	nonessential	no
lineage4.3.2.1	784581	2097	G/C	699	ACG/ACC	T/T	Rv0684	fusA1	syn	essential	yes
lineage4.3.2.1	848652	1389	A/G	463	ATT/ATC	I/I	Rv0755c	PPE12	syn	ND	no
lineage4.3.2.1	1055672	1014	C/A	338	CTG/CTT	L/L	Rv0946c	pgi	syn	essential	yes
lineage4.3.2.1	1070476	594	C/T	198	CTC/CTT	L/L	Rv0958	.	syn	nonessential	no
lineage4.3.2.1	1118026	842	T/C	281	ATG/ACG	M/T	Rv1001	arcA	nonsyn	nonessential	no
lineage4.3.2.1	1157768	188	A/C	63	CTG/CGG	L/R	Rv1032c	trcS	nonsyn	nonessential	no
lineage4.3.2.1	1163404	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2.1	1231349	49	G/A	17	GGC/AGC	G/S	Rv1104	.	nonsyn	nonessential	no
lineage4.3.2.1	1232496	186	T/C	62	TAT/TAC	Y/Y	Rv1105	.	syn	nonessential	no
lineage4.3.2.1	1334260	330	C/A	110	GGC/GGA	G/G	Rv1191	.	syn	nonessential	no
lineage4.3.2.1	1354765	897	C/G	299	ATG/ATC	M/I	Rv1212c	glgA	nonsyn	nonessential	no
lineage4.3.2.1	1592015	345	C/T	115	GGC/GGT	G/G	Rv1416	ribH	syn	essential	yes
lineage4.3.2.1	1692205	316	G/A	106	GGC/AGC	G/S	Rv1501	.	nonsyn	nonessential	no
lineage4.3.2.1	1801706	811	G/T	271	GCC/TCC	A/S	Rv1600	hisC1	nonsyn	essential	no
lineage4.3.2.1	1810757	518	A/G	173	CAG/CGG	Q/R	Rv1611	trpC	nonsyn	essential	no
lineage4.3.2.1	1842280	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2.1	1862066	2309	T/A	770	CTG/CAG	L/Q	Rv1650	pheT	nonsyn	essential	no
lineage4.3.2.1	1887410	899	C/G	300	CCG/CGG	P/R	Rv1663	pks17	nonsyn	essential	no
lineage4.3.2.1	2034662	934	A/G	312	ATG/GTG	M/V	Rv1796	mycP5	nonsyn	nonessential	no
lineage4.3.2.1	2260339	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2.1	2371787	783	G/T	261	GTC/GTA	V/V	Rv2112c	dop	syn	nonessential	no
lineage4.3.2.1	2371788	782	A/G	261	GTC/GCC	V/A	Rv2112c	dop	nonsyn	nonessential	no
lineage4.3.2.1	2380682	263	T/G	88	GAC/GCC	D/A	Rv2122c	hisE	nonsyn	essential	no
lineage4.3.2.1	2412160	1192	G/C	398	CTG/GTG	L/V	Rv2153c	murG	nonsyn	essential	no
lineage4.3.2.1	2453383	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.3.2.1	2461815	334	A/G	112	TCC/CCC	S/P	Rv2197c	.	nonsyn	nonessential	no
lineage4.3.2.1	2470627	6	G/A	2	AAG/AAA	K/K	Rv2206	.	syn	nonessential	no
lineage4.3.2.1	2562004	330	C/A	110	TAC/TAA	Y/*	Rv2289	cdh	nonsyn	nonessential	no
lineage4.3.2.1	2654643	451	C/T	151	GTG/ATG	V/M	Rv2374c	hrcA	nonsyn	essential	no
lineage4.3.2.1	2754600	147	A/G	49	AGT/AGC	S/S	Rv2454c	.	syn	nonessential	no
lineage4.3.2.1	2793360	629	C/T	210	AGC/AAC	S/N	Rv2485c	lipQ	nonsyn	nonessential	no
lineage4.3.2.1	2844689	4644	G/C	1548	CTC/CTG	L/L	Rv2524c	fas	syn	essential	yes
lineage4.3.2.1	2871911	105	G/A	35	GAC/GAT	D/D	Rv2552c	aroE	syn	essential	yes
lineage4.3.2.1	2945838	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.2.1	3095606	496	G/A	166	GGG/AGG	G/R	Rv2787	.	nonsyn	nonessential	no
lineage4.3.2.1	3196434	4	G/A	2	GGT/AGT	G/S	Rv2887	.	nonsyn	nonessential	no
lineage4.3.2.1	3284726	1392	C/G	464	CTC/CTG	L/L	Rv2941	fadD28	syn	nonessential	no
lineage4.3.2.1	3388166	705	C/G	235	ACG/ACC	T/T	Rv3029c	fixA	syn	essential	yes
lineage4.3.2.1	3392462	929	T/A	310	CTG/CAG	L/Q	Rv3032	.	nonsyn	essential	no
lineage4.3.2.1	3458491	281	G/A	94	GGT/GAT	G/D	Rv3090	.	nonsyn	nonessential	no
lineage4.3.2.1	3524903	772	G/A	258	GCG/ACG	A/T	Rv3157	nuoM	nonsyn	nonessential	no
lineage4.3.2.1	3717205	116	C/T	39	CCC/CTC	P/L	Rv3331	sugI	nonsyn	nonessential	no
lineage4.3.2.1	3722592	9	C/G	3	GAG/GAC	E/D	Rv3335c	.	nonsyn	essential	no
lineage4.3.2.1	3849867	273	C/T	91	GTG/GTA	V/V	Rv3431c	.	syn	nonessential	no
lineage4.3.2.1	3883226	393	G/A	131	ATG/ATA	M/I	Rv3465	rmlC	nonsyn	essential	no
lineage4.3.2.1	3968114	831	A/G	277	AAT/AAC	N/N	Rv3531c	.	syn	nonessential	no
lineage4.3.2.1	4005862	616	T/C	206	TAC/CAC	Y/H	Rv3564	fadE33	nonsyn	essential	no
lineage4.3.2.1	4045645	474	C/T	158	GCG/GCA	A/A	Rv3603c	.	syn	nonessential	no
lineage4.3.2.1	4084599	2659	G/T	887	CTG/ATG	L/M	Rv3646c	topA	nonsyn	essential	no
lineage4.3.2.1	4133356	839	G/C	280	GGC/GCC	G/A	Rv3691	.	nonsyn	nonessential	no
lineage4.3.2.1	4137657	452	G/A	151	CGT/CAT	R/H	Rv3695	.	nonsyn	nonessential	no
lineage4.3.2.1	4147496	691	C/T	231	GCG/ACG	A/T	Rv3704c	gshA	nonsyn	nonessential	no
lineage4.3.2.1	4266668	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.2.1	4299175	431	G/C	144	GCG/GGG	A/G	Rv3825c	pks2	nonsyn	nonessential	no
lineage4.3.2.1	4388153	2280	G/A	760	GGC/GGT	G/G	Rv3903c	.	syn	nonessential	no
lineage4.3.3	8040	739	G/A	247	GGC/AGC	G/S	Rv0006	gyrA	nonsyn	nonessential	no
lineage4.3.3	37763	505	G/C	169	GAC/CAC	D/H	Rv0035	fadD34	nonsyn	nonessential	no
lineage4.3.3	149323	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.3	178941	369	G/T	123	AAC/AAA	N/K	Rv0151c	PE1	nonsyn	ND	no
lineage4.3.3	387353	206	G/A	69	GGC/GAC	G/D	Rv0319	pcp	nonsyn	nonessential	no
lineage4.3.3	403364	2478	G/A	826	CCC/CCT	P/P	Rv0338c	.	syn	essential	yes
lineage4.3.3	403920	1922	C/T	641	CGC/CAC	R/H	Rv0338c	.	nonsyn	essential	no
lineage4.3.3	479632	122	G/T	41	ACC/AAC	T/N	Rv0400c	fadE7	nonsyn	essential	no
lineage4.3.3	535695	813	C/T	271	GGG/GGA	G/G	Rv0447c	ufaA1	syn	nonessential	no
lineage4.3.3	558501	975	C/T	325	GAC/GAT	D/D	Rv0467	icl1	syn	nonessential	no
lineage4.3.3	675673	244	C/T	82	GCC/ACC	A/T	Rv0578c	PE_PGRS7	nonsyn	ND	no
lineage4.3.3	752802	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.3.3	769663	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.3.3	812808	182	G/A	61	TGG/TAG	W/*	Rv0717	rpsN1	nonsyn	nonessential	no
lineage4.3.3	919393	161	G/C	54	ACA/AGA	T/R	Rv0825c	.	nonsyn	nonessential	no
lineage4.3.3	1073033	1779	T/G	593	GGT/GGG	G/G	Rv0959	.	syn	nonessential	no
lineage4.3.3	1087279	67	T/C	23	AAG/GAG	K/E	Rv0974c	accD2	nonsyn	nonessential	no
lineage4.3.3	1144664	101	G/A	34	CGG/CAG	R/Q	Rv1023	eno	nonsyn	essential	no
lineage4.3.3	1162274	199	C/T	67	GCC/ACC	A/T	Rv1039c	PPE15	nonsyn	ND	no
lineage4.3.3	1190154	271	C/T	91	GAG/AAG	E/K	Rv1067c	PE_PGRS19	nonsyn	ND	no
lineage4.3.3	1324724	888	C/A	296	ATG/ATT	M/I	Rv1184c	.	nonsyn	ND	no
lineage4.3.3	1390527	2526	C/G	842	TCG/TCC	S/S	Rv1248c	.	syn	essential	yes
lineage4.3.3	1390528	2525	G/T	842	TCG/TAG	S/*	Rv1248c	.	nonsyn	essential	no
lineage4.3.3	1519847	139	C/G	47	GGC/CGC	G/R	Rv1353c	.	nonsyn	nonessential	no
lineage4.3.3	1546530	519	G/A	173	GAG/GAA	E/E	Rv1373	.	syn	nonessential	no
lineage4.3.3	1651306	591	C/G	197	GCC/GCG	A/A	Rv1463	.	syn	essential	no
lineage4.3.3	1755519	75	G/T	25	ATG/ATT	M/I	Rv1551	plsB1	nonsyn	nonessential	no
lineage4.3.3	1779243	56	T/G	19	CAC/CCC	H/P	Rv1572c	.	nonsyn	nonessential	no
lineage4.3.3	1797027	1223	C/T	408	ACC/ATC	T/I	Rv1595	nadB	nonsyn	essential	no
lineage4.3.3	1815604	352	G/A	118	GCC/ACC	A/T	Rv1615	.	nonsyn	nonessential	no
lineage4.3.3	1895174	169	C/T	57	GAC/AAC	D/N	Rv1668c	.	nonsyn	nonessential	no
lineage4.3.3	2037716	1017	T/C	339	CGT/CGC	R/R	Rv1798	eccA5	syn	nonessential	no
lineage4.3.3	2077253	1377	G/A	459	ACG/ACA	T/T	Rv1832	gcvB	syn	essential	yes
lineage4.3.3	2128908	887	C/T	296	TCC/TTC	S/F	Rv1878	glnA3	nonsyn	nonessential	no
lineage4.3.3	2144617	266	G/A	89	CCG/CTG	P/L	Rv1897c	.	nonsyn	nonessential	no
lineage4.3.3	2315669	496	G/A	166	GTC/ATC	V/I	Rv2059	.	nonsyn	nonessential	no
lineage4.3.3	2518919	805	G/A	269	GGT/AGT	G/S	Rv2245	kasA	nonsyn	essential	no
lineage4.3.3	2814961	1920	G/A	640	GGC/GGT	G/G	Rv2501c	accA1	syn	nonessential	no
lineage4.3.3	2960231	2211	G/T	737	GGC/GGA	G/G	Rv2634c	PE_PGRS46	syn	ND	no
lineage4.3.3	3004091	658	G/A	220	CGG/TGG	R/W	Rv2687c	.	nonsyn	nonessential	no
lineage4.3.3	3061615	892	T/C	298	ATG/GTG	M/V	Rv2748c	ftsK	nonsyn	essential	no
lineage4.3.3	3218343	5	G/A	2	CGA/CAA	R/Q	Rv2911	dacB2	nonsyn	nonessential	no
lineage4.3.3	3261380	5696	A/G	1899	AAC/AGC	N/S	Rv2933	ppsC	nonsyn	nonessential	no
lineage4.3.3	3423184	30	C/T	10	ACG/ACA	T/T	Rv3060c	.	syn	nonessential	no
lineage4.3.3	3542262	125	T/G	42	CTG/CGG	L/R	Rv3174	.	nonsyn	nonessential	no
lineage4.3.3	3643392	216	C/T	72	GGC/GGT	G/G	Rv3263	.	syn	nonessential	no
lineage4.3.3	3850197	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.3	3894032	.	T/A	.	./.	./.	.	.	inter	.	no
lineage4.3.3	3973954	547	C/T	183	GGG/AGG	G/R	Rv3535c	hsaG	nonsyn	nonessential	no
lineage4.3.3	4299480	126	G/A	42	TCC/TCT	S/S	Rv3825c	pks2	syn	nonessential	no
lineage4.3.3	4316046	551	A/G	184	GTC/GCC	V/A	Rv3843c	.	nonsyn	nonessential	no
lineage4.3.3	4363069	352	T/C	118	ATC/GTC	I/V	Rv3882c	eccE1	nonsyn	essential	no
lineage4.3.3	4376098	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.3	4385530	779	G/C	260	CCA/CGA	P/R	Rv3900c	.	nonsyn	nonessential	no
lineage4.3.3	4390753	279	C/G	93	TCG/TCC	S/S	Rv3905c	esxF	syn	nonessential	no
lineage4.3.4	35097	803	T/C	268	ATC/ACC	I/T	Rv0032	bioF2	nonsyn	nonessential	no
lineage4.3.4	101727	1145	G/A	382	GGA/GAA	G/E	Rv0092	ctpA	nonsyn	nonessential	no
lineage4.3.4	176303	604	C/T	202	CAC/TAC	H/Y	Rv0149	.	nonsyn	nonessential	no
lineage4.3.4	234051	1821	G/A	607	CCG/CCA	P/P	Rv0197	.	syn	nonessential	no
lineage4.3.4	478358	199	C/T	67	GAG/AAG	E/K	Rv0399c	lpqK	nonsyn	essential	no
lineage4.3.4	557133	676	G/A	226	GTT/ATT	V/I	Rv0466	.	nonsyn	nonessential	no
lineage4.3.4	571943	234	G/A	78	GTG/GTA	V/V	Rv0483	lprQ	syn	nonessential	no
lineage4.3.4	667659	736	C/T	246	GAC/AAC	D/N	Rv0574c	.	nonsyn	nonessential	no
lineage4.3.4	733798	62	G/C	21	AGC/ACC	S/T	Rv0638	secE1	nonsyn	essential	no
lineage4.3.4	790180	894	A/G	298	GAT/GAC	D/D	Rv0690c	.	syn	nonessential	no
lineage4.3.4	1037355	357	T/C	119	ACT/ACC	T/T	Rv0930	pstA1	syn	nonessential	no
lineage4.3.4	1041445	182	C/T	61	ACG/ATG	T/M	Rv0933	pstB	nonsyn	nonessential	no
lineage4.3.4	1071797	543	C/G	181	GGC/GGG	G/G	Rv0959	.	syn	nonessential	no
lineage4.3.4	1281443	42	C/G	14	AAG/AAC	K/N	Rv1154c	.	nonsyn	nonessential	no
lineage4.3.4	1297327	1176	G/A	392	GTG/GTA	V/V	Rv1166	lpqW	syn	essential	yes
lineage4.3.4	1297999	1848	T/G	616	TCT/TCG	S/S	Rv1166	lpqW	syn	essential	no
lineage4.3.4	1588456	27	A/G	9	CGT/CGC	R/R	Rv1411c	lprG	syn	essential	no
lineage4.3.4	1691799	950	C/T	317	ACC/ATC	T/I	Rv1500	.	nonsyn	nonessential	no
lineage4.3.4	1709899	256	A/C	86	AAC/CAC	N/H	Rv1518	.	nonsyn	nonessential	no
lineage4.3.4	1719322	597	G/A	199	CTG/CTA	L/L	Rv1524	.	syn	essential	no
lineage4.3.4	1736638	120	C/T	40	CGC/CGT	R/R	Rv1536	ileS	syn	nonessential	no
lineage4.3.4	1847811	648	A/C	216	CCT/CCG	P/P	Rv1639c	.	syn	nonessential	no
lineage4.3.4	1861274	1517	G/A	506	CGC/CAC	R/H	Rv1650	pheT	nonsyn	essential	no
lineage4.3.4	2007785	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.4	2126366	463	G/C	155	GTC/CTC	V/L	Rv1877	.	nonsyn	nonessential	no
lineage4.3.4	2213265	411	G/A	137	CGG/CGA	R/R	Rv1969	mce3D	syn	nonessential	no
lineage4.3.4	2257780	163	T/G	55	ATC/CTC	I/L	Rv2008c	.	nonsyn	nonessential	no
lineage4.3.4	2527676	688	G/A	230	GGC/AGC	G/S	Rv2252	.	nonsyn	nonessential	no
lineage4.3.4	2599821	127	C/A	43	GCG/TCG	A/S	Rv2326c	.	nonsyn	nonessential	no
lineage4.3.4	2664299	2817	G/C	939	ACC/ACG	T/T	Rv2380c	mbtE	syn	nonessential	no
lineage4.3.4	2698585	57	C/T	19	TAC/TAT	Y/Y	Rv2402	.	syn	nonessential	no
lineage4.3.4	2717710	90	C/T	30	TTG/TTA	L/L	Rv2419c	gpgP	syn	nonessential	no
lineage4.3.4	2857014	768	G/A	256	ACC/ACT	T/T	Rv2531c	.	syn	nonessential	no
lineage4.3.4	2868659	54	C/G	18	GCC/GCG	A/A	Rv2547	vapB19	syn	nonessential	no
lineage4.3.4	2894854	343	C/T	115	CAG/TAG	Q/*	Rv2570	.	nonsyn	nonessential	no
lineage4.3.4	2906918	105	A/T	35	CTA/CTT	L/L	Rv2582	ppiB	syn	essential	no
lineage4.3.4	2946157	131	T/C	44	AAT/AGT	N/S	Rv2617c	.	nonsyn	nonessential	no
lineage4.3.4	3099269	901	A/C	301	TTC/GTC	F/V	Rv2790c	ltp1	nonsyn	nonessential	no
lineage4.3.4	3207297	646	G/T	216	CTG/ATG	L/M	Rv2897c	.	nonsyn	essential	no
lineage4.3.4	3214790	163	C/T	55	CTG/TTG	L/L	Rv2905	lppW	syn	nonessential	no
lineage4.3.4	3312632	207	C/T	69	TGG/TGA	W/*	Rv2959c	.	nonsyn	nonessential	no
lineage4.3.4	3377347	897	C/A	299	GGG/GGT	G/G	Rv3018c	PPE46	syn	ND	no
lineage4.3.4	3503231	47	G/C	16	GCG/GGG	A/G	Rv3136A	.	nonsyn	ND	no
lineage4.3.4	3612009	1108	C/T	370	GCC/ACC	A/T	Rv3236c	.	nonsyn	essential	no
lineage4.3.4	3874191	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.3.4	3881187	281	G/A	94	GGC/GAC	G/D	Rv3463	.	nonsyn	nonessential	no
lineage4.3.4	3977226	165	G/A	55	TTG/TTA	L/L	Rv3538	.	syn	essential	yes
lineage4.3.4	4042761	180	G/A	60	GAC/GAT	D/D	Rv3598c	lysS	syn	essential	yes
lineage4.3.4	4109354	1563	A/C	521	CTA/CTC	L/L	Rv3667	acs	syn	nonessential	no
lineage4.3.4	4146330	562	A/G	188	TTG/CTG	L/L	Rv3703c	.	syn	nonessential	no
lineage4.3.4	4311871	799	G/A	267	CAC/TAC	H/Y	Rv3838c	pheA	nonsyn	nonessential	no
lineage4.3.4	4319652	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.4	4372661	46	T/C	16	ATC/GTC	I/V	Rv3888c	.	nonsyn	nonessential	no
lineage4.3.4	4383094	547	A/G	183	TGT/CGT	C/R	Rv3897c	.	nonsyn	nonessential	no
lineage4.3.4	4395964	1773	C/A	591	ACC/ACA	T/T	Rv3909	.	syn	nonessential	no
lineage4.3.4.1	170263	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.4.1	197047	187	A/G	63	ATG/GTG	M/V	Rv0167	yrbE1A	nonsyn	nonessential	no
lineage4.3.4.1	361362	29	T/C	10	ATG/ACG	M/T	Rv0297	PE_PGRS5	nonsyn	ND	no
lineage4.3.4.1	393780	266	T/G	89	GAG/GCG	E/A	Rv0327c	cyp135A1	nonsyn	nonessential	no
lineage4.3.4.1	1002044	372	A/G	124	GAT/GAC	D/D	Rv0897c	.	syn	nonessential	no
lineage4.3.4.1	1106649	734	T/C	245	TAC/TGC	Y/C	Rv0989c	grcC2	nonsyn	nonessential	no
lineage4.3.4.1	1150143	1544	G/T	515	GCC/GAC	A/D	Rv1028c	kdpD	nonsyn	essential	no
lineage4.3.4.1	1251955	1018	C/T	340	GCG/ACG	A/T	Rv1128c	.	nonsyn	essential	no
lineage4.3.4.1	1274335	981	G/A	327	TTG/TTA	L/L	Rv1146	mmpL13b	syn	nonessential	no
lineage4.3.4.1	1364434	22	C/T	8	CGG/TGG	R/W	Rv1221	sigE	nonsyn	nonessential	no
lineage4.3.4.1	1439711	805	G/A	269	GCG/ACG	A/T	Rv1286	cysN	nonsyn	essential	no
lineage4.3.4.1	1692824	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.3.4.1	1953648	379	T/C	127	TGG/CGG	W/R	Rv1727	.	nonsyn	nonessential	no
lineage4.3.4.1	2133668	25	C/A	9	GGT/TGT	G/C	Rv1883c	.	nonsyn	nonessential	no
lineage4.3.4.1	2199684	351	G/A	117	TTC/TTT	F/F	Rv1949c	.	syn	nonessential	no
lineage4.3.4.1	2210740	140	A/C	47	AAC/ACC	N/T	Rv1967	mce3B	nonsyn	nonessential	no
lineage4.3.4.1	2316912	174	G/A	58	AAC/AAT	N/N	Rv2061c	.	syn	nonessential	no
lineage4.3.4.1	3118976	753	C/G	251	GAC/GAG	D/E	Rv2813	.	nonsyn	essential	no
lineage4.3.4.1	3244674	978	G/A	326	CGG/CGA	R/R	Rv2930	fadD26	syn	nonessential	no
lineage4.3.4.1	3285945	876	C/G	292	GCC/GCG	A/A	Rv2942	mmpL7	syn	essential	no
lineage4.3.4.1	3558749	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.3.4.1	3700783	234	G/A	78	CCC/CCT	P/P	Rv3312A	.	syn	nonessential	no
lineage4.3.4.1	3736276	660	G/A	220	GGC/GGT	G/G	Rv3343c	PPE54	syn	ND	no
lineage4.3.4.1	4068928	127	G/A	43	CTG/TTG	L/L	Rv3629c	.	syn	nonessential	no
lineage4.3.4.1	4121030	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.3.4.1	4288212	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.4.1	4337005	229	A/C	77	ACC/CCC	T/P	Rv3860	.	nonsyn	nonessential	no
lineage4.3.4.1	4345420	382	G/T	128	GTT/TTT	V/F	Rv3869	eccB1	nonsyn	essential	no
lineage4.3.4.1	4398141	1545	G/A	515	TCG/TCA	S/S	Rv3910	.	syn	essential	yes
lineage4.3.4.1	4404694	474	G/A	158	GGC/GGT	G/G	Rv3916c	.	syn	nonessential	no
lineage4.3.4.2	40162	1041	C/T	347	ATG/ATA	M/I	Rv0037c	.	nonsyn	nonessential	no
lineage4.3.4.2	282188	427	G/A	143	CGC/TGC	R/C	Rv0235c	.	nonsyn	nonessential	no
lineage4.3.4.2	623021	229	G/T	77	GTG/TTG	V/L	Rv0532	PE_PGRS6	nonsyn	ND	no
lineage4.3.4.2	632330	588	G/T	196	CGG/CGT	R/R	Rv0539	.	syn	nonessential	no
lineage4.3.4.2	784440	1956	G/T	652	GCG/GCT	A/A	Rv0684	fusA1	syn	essential	yes
lineage4.3.4.2	990533	2064	T/C	688	ACA/ACG	T/T	Rv0890c	.	syn	nonessential	no
lineage4.3.4.2	1055049	1637	C/T	546	CGC/CAC	R/H	Rv0946c	pgi	nonsyn	essential	no
lineage4.3.4.2	1132368	744	C/T	248	ACC/ACT	T/T	Rv1013	pks16	syn	essential	yes
lineage4.3.4.2	1373170	1028	G/C	343	CCG/CGG	P/R	Rv1230c	.	nonsyn	nonessential	no
lineage4.3.4.2	1724120	4290	G/A	1430	GAC/GAT	D/D	Rv1527c	pks5	syn	nonessential	no
lineage4.3.4.2	1755599	155	C/T	52	GCC/GTC	A/V	Rv1551	plsB1	nonsyn	nonessential	no
lineage4.3.4.2	1769099	334	C/A	112	GAT/TAT	D/Y	Rv1563c	treY	nonsyn	nonessential	no
lineage4.3.4.2	1771320	282	G/A	94	GAC/GAT	D/D	Rv1564c	treX	syn	nonessential	no
lineage4.3.4.2	2019942	686	A/G	229	CAG/CGG	Q/R	Rv1783	eccC5	nonsyn	nonessential	no
lineage4.3.4.2	2084526	111	G/A	37	CCC/CCT	P/P	Rv1836c	.	syn	nonessential	no
lineage4.3.4.2	2278442	45	C/G	15	CGG/CGC	R/R	Rv2030c	.	syn	nonessential	no
lineage4.3.4.2	2327492	734	C/T	245	TGA/TAA	*/*	Rv2070c	cobK	syn	nonessential	no
lineage4.3.4.2	2385695	373	C/T	125	GGG/AGG	G/R	Rv2124c	metH	nonsyn	nonessential	no
lineage4.3.4.2	2420535	74	C/A	25	GGC/GTC	G/V	Rv2158c	murE	nonsyn	nonessential	no
lineage4.3.4.2	2443188	27	G/A	9	CAC/CAT	H/H	Rv2180c	.	syn	nonessential	no
lineage4.3.4.2	3006767	296	A/C	99	CTT/CGT	L/R	Rv2689c	.	nonsyn	nonessential	no
lineage4.3.4.2	3089679	683	G/A	228	CCA/CTA	P/L	Rv2782c	pepR	nonsyn	nonessential	no
lineage4.3.4.2	3158935	1120	G/C	374	CGC/GGC	R/G	Rv2850c	.	nonsyn	nonessential	no
lineage4.3.4.2	3267743	7	A/G	3	ATC/GTC	I/V	Rv2935	ppsE	nonsyn	nonessential	no
lineage4.3.4.2	3504930	736	C/T	246	CTG/TTG	L/L	Rv3138	pflA	syn	nonessential	no
lineage4.3.4.2	3514512	1175	G/C	392	GGT/GCT	G/A	Rv3148	nuoD	nonsyn	nonessential	no
lineage4.3.4.2	3829152	759	G/A	253	CTC/CTT	L/L	Rv3410c	guaB3	syn	nonessential	no
lineage4.3.4.2	3847380	216	C/A	72	GAC/GAA	D/E	Rv3429	PPE59	nonsyn	ND	no
lineage4.3.4.2	4043365	495	G/T	165	GCC/GCA	A/A	Rv3600c	.	syn	nonessential	no
lineage4.3.4.2	4218350	476	T/C	159	AAG/AGG	K/R	Rv3773c	.	nonsyn	nonessential	no
lineage4.3.4.2	4288405	3125	G/T	1042	GCA/GAA	A/E	Rv3823c	mmpL8	nonsyn	nonessential	no
lineage4.3.4.2	4359195	588	G/A	196	GGC/GGT	G/G	Rv3879c	espK	syn	ND	no
lineage4.3.4.2	4373475	156	C/G	52	GTG/GTC	V/V	Rv3889c	espG2	syn	nonessential	no
lineage4.3.4.2	4377447	3006	G/A	1002	GAC/GAT	D/D	Rv3894c	eccC2	syn	nonessential	no
lineage4.3.4.2	4403900	709	A/G	237	ATG/GTG	M/V	Rv3915	.	nonsyn	essential	no
lineage4.3.4.2.1	225495	1077	T/C	359	GTA/GTG	V/V	Rv0193c	.	syn	nonessential	no
lineage4.3.4.2.1	451577	227	G/A	76	GCA/GTA	A/V	Rv0373c	.	nonsyn	nonessential	no
lineage4.3.4.2.1	550573	899	A/C	300	GAG/GCG	E/A	Rv0458	.	nonsyn	nonessential	no
lineage4.3.4.2.1	991247	1350	G/A	450	CCC/CCT	P/P	Rv0890c	.	syn	nonessential	no
lineage4.3.4.2.1	1163845	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.3.4.2.1	1239078	824	C/A	275	ACC/AAC	T/N	Rv1112	.	nonsyn	nonessential	no
lineage4.3.4.2.1	1502120	522	C/A	174	ACC/ACA	T/T	Rv1333	.	syn	essential	yes
lineage4.3.4.2.1	1607415	1030	C/A	344	CTG/ATG	L/M	Rv1430	PE16	nonsyn	ND	no
lineage4.3.4.2.1	1740535	680	G/A	227	GGC/GAC	G/D	Rv1537	dinX	nonsyn	nonessential	no
lineage4.3.4.2.1	2004460	583	G/A	195	GGG/AGG	G/R	Rv1770	.	nonsyn	nonessential	no
lineage4.3.4.2.1	2729453	1108	C/A	370	GGT/TGT	G/C	Rv2434c	.	nonsyn	nonessential	no
lineage4.3.4.2.1	2873374	397	G/A	133	CGG/TGG	R/W	Rv2554c	.	nonsyn	essential	no
lineage4.3.4.2.1	3119453	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.3.4.2.1	3127639	634	G/C	212	CTG/GTG	L/V	Rv2820c	.	nonsyn	nonessential	no
lineage4.3.4.2.1	4071606	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.3.4.2.1	4189403	830	G/A	277	TCC/TTC	S/F	Rv3738c	PPE66	nonsyn	ND	no
lineage4.3.4.2.1	4273842	104	A/C	35	GAA/GCA	E/A	Rv3810	pirG	nonsyn	essential	no
lineage4.3.4.2.1	4380236	217	T/G	73	ATG/CTG	M/L	Rv3894c	eccC2	nonsyn	nonessential	no
lineage4.4	29641	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4	67792	870	C/T	290	TGC/TGT	C/C	Rv0063	.	syn	nonessential	no
lineage4.4	289095	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.4	411371	534	T/C	178	GGT/GGC	G/G	Rv0342	iniA	syn	nonessential	no
lineage4.4	753088	280	C/T	94	GCG/ACG	A/T	Rv0656c	vapC6	nonsyn	nonessential	no
lineage4.4	1032674	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.4	1052899	838	C/T	280	GAC/AAC	D/N	Rv0943c	.	nonsyn	nonessential	no
lineage4.4	1103786	1245	G/T	415	TTG/TTT	L/F	Rv0987	.	nonsyn	nonessential	no
lineage4.4	1105102	2561	A/C	854	GAG/GCG	E/A	Rv0987	.	nonsyn	nonessential	no
lineage4.4	1226129	16	C/T	6	GCT/ACT	A/T	Rv1097c	.	nonsyn	nonessential	no
lineage4.4	1320675	641	G/A	214	CGC/CAC	R/H	Rv1182	papA3	nonsyn	essential	no
lineage4.4	1365818	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.4	1372301	649	G/C	217	CTG/GTG	L/V	Rv1229c	mrp	nonsyn	essential	no
lineage4.4	1392921	132	G/A	44	CCC/CCT	P/P	Rv1248c	.	syn	essential	yes
lineage4.4	1447655	1277	T/C	426	GTC/GCC	V/A	Rv1292	argS	nonsyn	essential	no
lineage4.4	1538720	331	C/T	111	CTC/TTC	L/F	Rv1366	.	nonsyn	nonessential	no
lineage4.4	1711676	649	A/C	217	AAG/CAG	K/Q	Rv1520	.	nonsyn	nonessential	no
lineage4.4	1751493	1841	C/T	614	GGT/GAT	G/D	Rv1548c	PPE21	nonsyn	ND	no
lineage4.4	1779854	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4	1779920	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4	1819488	914	G/A	305	CGG/CAG	R/Q	Rv1619	.	nonsyn	nonessential	no
lineage4.4	2097368	21	A/C	7	GAA/GAC	E/D	Rv1848	ureA	nonsyn	nonessential	no
lineage4.4	2202582	445	G/T	149	GCA/TCA	A/S	Rv1956	higA	nonsyn	nonessential	no
lineage4.4	2234475	175	C/T	59	GGC/AGC	G/S	Rv1991c	mazF6	nonsyn	nonessential	no
lineage4.4	2235930	1377	T/G	459	GTA/GTC	V/V	Rv1992c	ctpG	syn	nonessential	no
lineage4.4	2356012	666	G/A	222	CTC/CTT	L/L	Rv2097c	pafA	syn	nonessential	no
lineage4.4	2358916	528	C/T	176	GCC/GCT	A/A	Rv2100	.	syn	nonessential	no
lineage4.4	2822255	544	A/C	182	AGC/CGC	S/R	Rv2506	.	nonsyn	nonessential	no
lineage4.4	2868925	66	G/A	22	CTG/CTA	L/L	Rv2548	vapC19	syn	nonessential	no
lineage4.4	2876703	263	G/C	88	GCG/GGG	A/G	Rv2556c	.	nonsyn	nonessential	no
lineage4.4	2926654	300	C/G	100	GAC/GAG	D/E	Rv2597	.	nonsyn	nonessential	no
lineage4.4	2945342	13	G/A	5	GCG/ACG	A/T	Rv2616	.	nonsyn	nonessential	no
lineage4.4	2970820	270	A/G	90	CCA/CCG	P/P	Rv2646	.	syn	ND	no
lineage4.4	2978220	439	C/T	147	GGC/AGC	G/S	Rv2655c	.	nonsyn	ND	no
lineage4.4	3037917	998	G/A	333	CCC/CTC	P/L	Rv2725c	hflX	nonsyn	nonessential	no
lineage4.4	3170166	558	C/A	186	AAG/AAT	K/N	Rv2858c	aldC	nonsyn	nonessential	no
lineage4.4	3419560	69	C/T	23	AAC/AAT	N/N	Rv3059	cyp136	syn	nonessential	no
lineage4.4	3608514	360	G/A	120	GGC/GGT	G/G	Rv3231c	.	syn	nonessential	no
lineage4.4	3704686	250	T/C	84	TGG/CGG	W/R	Rv3317	sdhD	nonsyn	nonessential	no
lineage4.4	3713652	681	C/T	227	GGG/GGA	G/G	Rv3328c	sigJ	syn	nonessential	no
lineage4.4	3751199	1986	C/T	662	CCG/CCA	P/P	Rv3347c	PPE55	syn	ND	no
lineage4.4	3798665	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4	3966059	980	G/C	327	ACG/AGG	T/R	Rv3529c	.	nonsyn	nonessential	no
lineage4.4	4004036	876	C/T	292	ACC/ACT	T/T	Rv3562	fadE31	syn	nonessential	no
lineage4.4	4007564	619	C/T	207	GGA/AGA	G/R	Rv3566c	nat	nonsyn	nonessential	no
lineage4.4	4051823	1061	T/C	354	GAC/GGC	D/G	Rv3610c	ftsH	nonsyn	essential	no
lineage4.4	4055993	383	G/A	128	GCC/GTC	A/V	Rv3616c	espA	nonsyn	essential	no
lineage4.4	4069743	569	C/T	190	ACG/ATG	T/M	Rv3630	.	nonsyn	nonessential	no
lineage4.4	4099481	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4	4116773	296	T/C	99	GTG/GCG	V/A	Rv3676	crp	nonsyn	nonessential	no
lineage4.4	4140319	145	G/A	49	CGC/TGC	R/C	Rv3697A	vapB48	nonsyn	nonessential	no
lineage4.4	4238963	1032	C/T	344	CAC/CAT	H/H	Rv3792	aftA	syn	essential	no
lineage4.4	4291593	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4	4307886	1029	G/A	343	CGC/CGT	R/R	Rv3834c	serS	syn	essential	yes
lineage4.4.1	33436	213	C/T	71	GGC/GGT	G/G	Rv0030	.	syn	nonessential	no
lineage4.4.1	197397	537	G/C	179	CTG/CTC	L/L	Rv0167	yrbE1A	syn	nonessential	no
lineage4.4.1	226517	55	C/T	19	GCC/ACC	A/T	Rv0193c	.	nonsyn	nonessential	no
lineage4.4.1	275328	636	G/C	212	ACC/ACG	T/T	Rv0230c	php	syn	nonessential	no
lineage4.4.1	283313	3539	G/A	1180	ACT/ATT	T/I	Rv0236c	aftD	nonsyn	essential	no
lineage4.4.1	330002	324	G/A	108	AGC/AGT	S/S	Rv0273c	.	syn	nonessential	no
lineage4.4.1	609511	766	G/A	256	GCC/ACC	A/T	Rv0517	.	nonsyn	nonessential	no
lineage4.4.1	609514	769	G/A	257	GCC/ACC	A/T	Rv0517	.	nonsyn	nonessential	no
lineage4.4.1	651772	984	C/A	328	TCG/TCT	S/S	Rv0561c	.	syn	nonessential	no
lineage4.4.1	809806	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1	821102	375	C/T	125	CTG/CTA	L/L	Rv0728c	serA2	syn	nonessential	no
lineage4.4.1	909453	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.4.1	948270	199	G/A	67	CGA/TGA	R/*	Rv0851c	.	nonsyn	nonessential	no
lineage4.4.1	1051949	369	G/A	123	GCC/GCT	A/A	Rv0941c	.	syn	nonessential	no
lineage4.4.1	1130261	71	G/A	24	CGC/CAC	R/H	Rv1011	ispE	nonsyn	essential	no
lineage4.4.1	1208652	1017	G/A	339	CTG/CTA	L/L	Rv1084	.	syn	nonessential	no
lineage4.4.1	1257610	286	G/T	96	GTG/TTG	V/L	Rv1132	.	nonsyn	nonessential	no
lineage4.4.1	1507546	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.4.1	1573683	175	C/T	59	GCG/ACG	A/T	Rv1396c	PE_PGRS25	nonsyn	ND	no
lineage4.4.1	2033890	162	G/T	54	GGG/GGT	G/G	Rv1796	mycP5	syn	nonessential	no
lineage4.4.1	2080611	782	T/C	261	GTG/GCG	V/A	Rv1834	lipZ	nonsyn	nonessential	no
lineage4.4.1	2102990	53	A/G	18	GTG/GCG	V/A	Rv1854c	ndh	nonsyn	nonessential	no
lineage4.4.1	2169840	773	C/T	258	GGC/GAC	G/D	Rv1918c	PPE35	nonsyn	ND	no
lineage4.4.1	2176813	118	C/T	40	GTG/ATG	V/M	Rv1924c	.	nonsyn	nonessential	no
lineage4.4.1	2240063	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1	2344853	443	C/A	148	GCT/GAT	A/D	Rv2088	pknJ	nonsyn	nonessential	no
lineage4.4.1	2416167	228	G/T	76	TTC/TTA	F/L	Rv2155c	murD	nonsyn	essential	no
lineage4.4.1	2531610	288	A/G	96	CGT/CGC	R/R	Rv2258c	.	syn	nonessential	no
lineage4.4.1	2770654	1669	C/T	557	CGC/TGC	R/C	Rv2467	pepN	nonsyn	nonessential	no
lineage4.4.1	2868358	205	G/A	69	GAA/AAA	E/K	Rv2546	vapC18	nonsyn	nonessential	no
lineage4.4.1	2905505	588	G/A	196	ACC/ACT	T/T	Rv2580c	hisS	syn	essential	yes
lineage4.4.1	2964281	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4.1	3053688	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.4.1	3168137	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1	3401501	418	G/A	140	CGC/TGC	R/C	Rv3041c	.	nonsyn	nonessential	no
lineage4.4.1	3448608	105	G/A	35	CTG/CTA	L/L	Rv3083	.	syn	nonessential	no
lineage4.4.1	3463451	441	G/C	147	TTC/TTG	F/L	Rv3094c	.	nonsyn	nonessential	no
lineage4.4.1	3575106	1931	A/G	644	GTC/GCC	V/A	Rv3201c	.	nonsyn	ND	no
lineage4.4.1	3591211	282	G/A	94	GGC/GGT	G/G	Rv3213c	.	syn	nonessential	no
lineage4.4.1	3664135	447	G/A	149	CGG/CGA	R/R	Rv3281	accE5	syn	essential	yes
lineage4.4.1	3747998	5187	C/T	1729	CCG/CCA	P/P	Rv3347c	PPE55	syn	ND	no
lineage4.4.1	3780542	438	C/T	146	CTG/CTA	L/L	Rv3368c	.	syn	nonessential	no
lineage4.4.1	3813473	606	G/A	202	CTC/CTT	L/L	Rv3396c	guaA	syn	essential	yes
lineage4.4.1	3995342	358	G/A	120	CGC/TGC	R/C	Rv3555c	.	nonsyn	nonessential	no
lineage4.4.1	4008835	448	G/A	150	CTG/TTG	L/L	Rv3567c	hsaB	syn	nonessential	no
lineage4.4.1	4020812	671	C/T	224	GCG/GTG	A/V	Rv3578	arsB2	nonsyn	nonessential	no
lineage4.4.1	4072313	523	T/G	175	TCG/GCG	S/A	Rv3633	.	nonsyn	nonessential	no
lineage4.4.1	4149144	337	G/T	113	CCG/ACG	P/T	Rv3705A	.	nonsyn	nonessential	no
lineage4.4.1	4151558	660	G/A	220	GGC/GGT	G/G	Rv3708c	asd	syn	essential	yes
lineage4.4.1	4353557	548	C/T	183	CCC/CTC	P/L	Rv3876	espI	nonsyn	essential	no
lineage4.4.1	4372634	73	G/T	25	CAT/AAT	H/N	Rv3888c	.	nonsyn	nonessential	no
lineage4.4.1	4385709	600	C/G	200	CTG/CTC	L/L	Rv3900c	.	syn	nonessential	no
lineage4.4.1.1	33841	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.4.1.1	63214	15	C/T	5	TAC/TAT	Y/Y	Rv0059	.	syn	nonessential	no
lineage4.4.1.1	84908	913	C/T	305	CTG/TTG	L/L	Rv0075	.	syn	nonessential	no
lineage4.4.1.1	105007	209	C/G	70	AGC/ACC	S/T	Rv0095c	.	nonsyn	nonessential	no
lineage4.4.1.1	105011	205	G/A	69	CTG/TTG	L/L	Rv0095c	.	syn	nonessential	no
lineage4.4.1.1	178297	1013	A/C	338	ATC/AGC	I/S	Rv0151c	PE1	nonsyn	ND	no
lineage4.4.1.1	224901	1671	C/G	557	GTG/GTC	V/V	Rv0193c	.	syn	nonessential	no
lineage4.4.1.1	252083	302	A/C	101	AAC/ACC	N/T	Rv0211	pckA	nonsyn	nonessential	no
lineage4.4.1.1	263306	495	T/C	165	GGT/GGC	G/G	Rv0220	lipC	syn	nonessential	no
lineage4.4.1.1	329923	403	T/C	135	ACC/GCC	T/A	Rv0273c	.	nonsyn	nonessential	no
lineage4.4.1.1	331502	157	G/A	53	CTG/TTG	L/L	Rv0275c	.	syn	nonessential	no
lineage4.4.1.1	355181	684	G/A	228	AAG/AAA	K/K	Rv0291	mycP3	syn	essential	yes
lineage4.4.1.1	361145	11	T/C	4	GAG/GGG	E/G	Rv0296c	.	nonsyn	nonessential	no
lineage4.4.1.1	383081	461	A/G	154	ATT/ACT	I/T	Rv0314c	.	nonsyn	nonessential	no
lineage4.4.1.1	425193	9487	A/T	3163	TCC/ACC	S/T	Rv0355c	PPE8	nonsyn	ND	no
lineage4.4.1.1	482418	814	C/T	272	GGA/AGA	G/R	Rv0402c	mmpL1	nonsyn	nonessential	no
lineage4.4.1.1	506386	1301	T/C	434	ATC/ACC	I/T	Rv0419	lpqM	nonsyn	nonessential	no
lineage4.4.1.1	595374	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4.1.1	648992	457	C/G	153	CTG/GTG	L/V	Rv0557	mgtA	nonsyn	essential	no
lineage4.4.1.1	705062	848	G/C	283	CCG/CGG	P/R	Rv0610c	.	nonsyn	nonessential	no
lineage4.4.1.1	744624	1906	G/T	636	GTC/TTC	V/F	Rv0648	.	nonsyn	nonessential	no
lineage4.4.1.1	874640	408	C/T	136	AAC/AAT	N/N	Rv0781	ptrBa	syn	essential	yes
lineage4.4.1.1	932994	.	A/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.1	964099	231	T/C	77	CGT/CGC	R/R	Rv0866	moaE2	syn	nonessential	no
lineage4.4.1.1	970204	41	G/A	14	GCA/GTA	A/V	Rv0872c	PE_PGRS15	nonsyn	ND	no
lineage4.4.1.1	1106652	731	A/G	244	CTC/CCC	L/P	Rv0989c	grcC2	nonsyn	nonessential	no
lineage4.4.1.1	1146421	564	C/T	188	ACC/ACT	T/T	Rv1024	.	syn	essential	yes
lineage4.4.1.1	1224307	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.4.1.1	1311932	1368	G/A	456	GCC/GCT	A/A	Rv1179c	.	syn	nonessential	no
lineage4.4.1.1	1321210	1176	C/T	392	GGC/GGT	G/G	Rv1182	papA3	syn	essential	yes
lineage4.4.1.1	1357309	317	G/A	106	GCA/GTA	A/V	Rv1214c	PE14	nonsyn	ND	no
lineage4.4.1.1	1388470	159	G/A	53	ATC/ATT	I/I	Rv1245c	.	syn	nonessential	no
lineage4.4.1.1	1396310	2931	G/A	977	CCC/CCT	P/P	Rv1251c	.	syn	nonessential	no
lineage4.4.1.1	1446543	165	G/C	55	AAG/AAC	K/N	Rv1292	argS	nonsyn	essential	no
lineage4.4.1.1	1715531	2082	G/C	694	AGC/AGG	S/R	Rv1522c	mmpL12	nonsyn	nonessential	no
lineage4.4.1.1	1719996	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.1	1861042	1285	A/G	429	ATC/GTC	I/V	Rv1650	pheT	nonsyn	essential	no
lineage4.4.1.1	1938311	166	G/A	56	GTC/ATC	V/I	Rv1710	scpB	nonsyn	essential	no
lineage4.4.1.1	2022126	2870	G/C	957	GGA/GCA	G/A	Rv1783	eccC5	nonsyn	nonessential	no
lineage4.4.1.1	2201198	261	C/T	87	CCC/CCT	P/P	Rv1953	vapC14	syn	nonessential	no
lineage4.4.1.1	2211714	89	A/G	30	TAC/TGC	Y/C	Rv1968	mce3C	nonsyn	nonessential	no
lineage4.4.1.1	2271368	381	G/A	127	ATC/ATT	I/I	Rv2025c	.	syn	nonessential	no
lineage4.4.1.1	2436936	1028	G/A	343	GGC/GAC	G/D	Rv2174	mptA	nonsyn	essential	no
lineage4.4.1.1	2463195	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4.1.1	2467937	91	G/A	31	CAC/TAC	H/Y	Rv2202c	adoK	nonsyn	nonessential	no
lineage4.4.1.1	2496830	194	G/A	65	CCC/CTC	P/L	Rv2224c	caeA	nonsyn	essential	no
lineage4.4.1.1	2628914	1406	A/G	469	TTG/TCG	L/S	Rv2350c	plcB	nonsyn	nonessential	no
lineage4.4.1.1	2662958	4158	G/A	1386	ACC/ACT	T/T	Rv2380c	mbtE	syn	nonessential	no
lineage4.4.1.1	2671091	513	G/T	171	ACC/ACA	T/T	Rv2382c	mbtC	syn	essential	yes
lineage4.4.1.1	2767631	35	C/T	12	CGG/CAG	R/Q	Rv2464c	.	nonsyn	nonessential	no
lineage4.4.1.1	2776641	329	T/C	110	TAT/TGT	Y/C	Rv2474c	.	nonsyn	nonessential	no
lineage4.4.1.1	2819180	691	C/G	231	GTG/CTG	V/L	Rv2504c	scoA	nonsyn	nonessential	no
lineage4.4.1.1	2821864	153	C/A	51	ATC/ATA	I/I	Rv2506	.	syn	nonessential	no
lineage4.4.1.1	3047931	622	G/A	208	CGT/TGT	R/C	Rv2735c	.	nonsyn	nonessential	no
lineage4.4.1.1	3062139	368	A/G	123	ATG/ACG	M/T	Rv2748c	ftsK	nonsyn	essential	no
lineage4.4.1.1	3088614	371	A/G	124	GTG/GCG	V/A	Rv2781c	.	nonsyn	nonessential	no
lineage4.4.1.1	3097404	446	C/T	149	CCA/CTA	P/L	Rv2788	sirR	nonsyn	nonessential	no
lineage4.4.1.1	3159936	119	G/A	40	GCG/GTG	A/V	Rv2850c	.	nonsyn	nonessential	no
lineage4.4.1.1	3193602	210	C/G	70	GCC/GCG	A/A	Rv2884	.	syn	nonessential	no
lineage4.4.1.1	3269805	2069	A/C	690	CAG/CCG	Q/P	Rv2935	ppsE	nonsyn	nonessential	no
lineage4.4.1.1	3281659	1057	C/T	353	GCG/ACG	A/T	Rv2940c	mas	nonsyn	nonessential	no
lineage4.4.1.1	3311442	559	G/A	187	CCG/TCG	P/S	Rv2958c	.	nonsyn	nonessential	no
lineage4.4.1.1	3347480	240	G/A	80	GCC/GCT	A/A	Rv2990c	.	syn	nonessential	no
lineage4.4.1.1	3349564	714	A/C	238	GCT/GCG	A/A	Rv2992c	gltS	syn	essential	yes
lineage4.4.1.1	3369382	473	G/A	158	GCC/GTC	A/V	Rv3010c	pfkA	nonsyn	nonessential	no
lineage4.4.1.1	3376685	168	G/A	56	GCC/GCT	A/A	Rv3017c	esxQ	syn	ND	no
lineage4.4.1.1	3380982	12	T/G	4	AGA/AGC	R/S	Rv3022A	PE29	nonsyn	ND	no
lineage4.4.1.1	3433011	612	G/A	204	GAC/GAT	D/D	Rv3068c	pgmA	syn	nonessential	no
lineage4.4.1.1	3585610	607	A/G	203	ATT/GTT	I/V	Rv3208	.	nonsyn	nonessential	no
lineage4.4.1.1	3612665	452	A/G	151	GTG/GCG	V/A	Rv3236c	.	nonsyn	essential	no
lineage4.4.1.1	3716031	255	C/T	85	AGC/AGT	S/S	Rv3330	dacB1	syn	nonessential	no
lineage4.4.1.1	3773573	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4.1.1	3784011	730	C/T	244	GCC/ACC	A/T	Rv3370c	dnaE2	nonsyn	nonessential	no
lineage4.4.1.1	3847221	57	T/C	19	GGT/GGC	G/G	Rv3429	PPE59	syn	ND	no
lineage4.4.1.1	3905330	237	T/G	79	CCA/CCC	P/P	Rv3485c	.	syn	nonessential	no
lineage4.4.1.1	4035305	954	T/C	318	CGT/CGC	R/R	Rv3593	lpqF	syn	essential	yes
lineage4.4.1.1	4151996	222	C/T	74	TCG/TCA	S/S	Rv3708c	asd	syn	essential	yes
lineage4.4.1.1	4214747	133	C/T	45	CAC/TAC	H/Y	Rv3769	.	nonsyn	nonessential	no
lineage4.4.1.1	4343048	279	G/C	93	AAG/AAC	K/N	Rv3867	espH	nonsyn	nonessential	no
lineage4.4.1.1	4343679	366	C/T	122	GCC/GCT	A/A	Rv3868	eccA1	syn	essential	yes
lineage4.4.1.1	4361879	47	T/C	16	AAC/AGC	N/S	Rv3881c	espB	nonsyn	nonessential	no
lineage4.4.1.2	22266	916	C/A	306	GCA/TCA	A/S	Rv0018c	pstP	nonsyn	nonessential	no
lineage4.4.1.2	23051	131	G/A	44	GCG/GTG	A/V	Rv0018c	pstP	nonsyn	nonessential	no
lineage4.4.1.2	45701	2140	C/A	714	CAG/AAG	Q/K	Rv0041	leuS	nonsyn	essential	no
lineage4.4.1.2	56604	909	C/A	303	GCC/GCA	A/A	Rv0051	.	syn	nonessential	no
lineage4.4.1.2	102567	1985	T/C	662	ATC/ACC	I/T	Rv0092	ctpA	nonsyn	nonessential	no
lineage4.4.1.2	104838	378	T/G	126	GAA/GAC	E/D	Rv0095c	.	nonsyn	nonessential	no
lineage4.4.1.2	129758	784	G/A	262	CTG/TTG	L/L	Rv0107c	ctpI	syn	nonessential	no
lineage4.4.1.2	131005	100	T/G	34	AGC/CGC	S/R	Rv0108c	.	nonsyn	nonessential	no
lineage4.4.1.2	233751	1521	A/G	507	AAA/AAG	K/K	Rv0197	.	syn	nonessential	no
lineage4.4.1.2	234966	1542	A/G	514	GAT/GAC	D/D	Rv0198c	zmp1	syn	nonessential	no
lineage4.4.1.2	288820	393	C/T	131	ATC/ATT	I/I	Rv0238	.	syn	nonessential	no
lineage4.4.1.2	295645	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	342194	65	C/T	22	GCT/GTT	A/V	Rv0282	eccA3	nonsyn	essential	no
lineage4.4.1.2	342201	72	C/G	24	CCC/CCG	P/P	Rv0282	eccA3	syn	essential	yes
lineage4.4.1.2	345697	63	C/T	21	ACC/ACT	T/T	Rv0284	eccC3	syn	essential	yes
lineage4.4.1.2	379953	782	C/T	261	GCT/GTT	A/V	Rv0311	.	nonsyn	essential	no
lineage4.4.1.2	389774	515	G/A	172	GGG/GAG	G/E	Rv0322	udgA	nonsyn	nonessential	no
lineage4.4.1.2	404809	1033	C/G	345	GAG/CAG	E/Q	Rv0338c	.	nonsyn	essential	no
lineage4.4.1.2	434285	395	G/A	132	GCG/GTG	A/V	Rv0355c	PPE8	nonsyn	ND	no
lineage4.4.1.2	439829	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	458948	368	A/T	123	CTG/CAG	L/Q	Rv0383c	.	nonsyn	essential	no
lineage4.4.1.2	468221	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	471616	1024	G/A	342	CGA/TGA	R/*	Rv0392c	ndhA	nonsyn	nonessential	no
lineage4.4.1.2	476396	3	G/C	1	ATG/ATC	M/I	Rv0397A	.	nonsyn	nonessential	no
lineage4.4.1.2	495423	1892	G/A	631	CCC/CTC	P/L	Rv0410c	pknG	nonsyn	essential	no
lineage4.4.1.2	546018	786	C/T	262	CGG/CGA	R/R	Rv0456c	echA2	syn	nonessential	no
lineage4.4.1.2	546019	785	C/T	262	CGG/CAG	R/Q	Rv0456c	echA2	nonsyn	nonessential	no
lineage4.4.1.2	590986	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	640968	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	682800	1473	G/T	491	GGC/GGA	G/G	Rv0585c	.	syn	nonessential	no
lineage4.4.1.2	711767	232	C/T	78	CTG/TTG	L/L	Rv0618	galTa	syn	nonessential	no
lineage4.4.1.2	715542	173	A/G	58	TAC/TGC	Y/C	Rv0622	.	nonsyn	nonessential	no
lineage4.4.1.2	802491	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	806855	521	G/A	174	GGG/GAG	G/E	Rv0711	atsA	nonsyn	nonessential	no
lineage4.4.1.2	878051	390	G/A	130	AAC/AAT	N/N	Rv0783c	emrB	syn	nonessential	no
lineage4.4.1.2	879532	193	T/C	65	TCG/CCG	S/P	Rv0785	.	nonsyn	nonessential	no
lineage4.4.1.2	899510	680	C/T	227	ACT/ATT	T/I	Rv0805	.	nonsyn	nonessential	no
lineage4.4.1.2	966639	709	C/G	237	GAC/CAC	D/H	Rv0869c	moaA2	nonsyn	nonessential	no
lineage4.4.1.2	990521	2076	G/A	692	CGC/CGT	R/R	Rv0890c	.	syn	nonessential	no
lineage4.4.1.2	1013422	1692	A/G	564	GCA/GCG	A/A	Rv0908	ctpE	syn	nonessential	no
lineage4.4.1.2	1054645	399	C/A	133	AAC/AAA	N/K	Rv0945	.	nonsyn	nonessential	no
lineage4.4.1.2	1056094	592	C/T	198	GAT/AAT	D/N	Rv0946c	pgi	nonsyn	essential	no
lineage4.4.1.2	1279620	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	1297981	1830	G/C	610	GTG/GTC	V/V	Rv1166	lpqW	syn	essential	yes
lineage4.4.1.2	1399589	316	T/G	106	AAC/CAC	N/H	Rv1252c	lprE	nonsyn	nonessential	no
lineage4.4.1.2	1470283	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	1482363	139	A/C	47	TGG/GGG	W/G	Rv1319c	.	nonsyn	nonessential	no
lineage4.4.1.2	1494231	195	G/A	65	CTC/CTT	L/L	Rv1327c	glgE	syn	essential	yes
lineage4.4.1.2	1531813	466	G/A	156	GAG/AAG	E/K	Rv1360	.	nonsyn	nonessential	no
lineage4.4.1.2	1567056	232	A/C	78	ATC/CTC	I/L	Rv1392	metK	nonsyn	essential	no
lineage4.4.1.2	1684546	542	T/C	181	ATG/ACG	M/T	Rv1493	mutB	nonsyn	nonessential	no
lineage4.4.1.2	1689879	42	C/T	14	CCG/CCA	P/P	Rv1498c	.	syn	nonessential	no
lineage4.4.1.2	1721370	691	C/T	231	GAG/AAG	E/K	Rv1526c	.	nonsyn	nonessential	no
lineage4.4.1.2	1735757	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	1763201	255	G/A	85	GTG/GTA	V/V	Rv1558	.	syn	nonessential	no
lineage4.4.1.2	1763564	137	C/T	46	GCG/GTG	A/V	Rv1559	ilvA	nonsyn	nonessential	no
lineage4.4.1.2	1803959	666	G/T	222	GGG/GGT	G/G	Rv1603	hisA	syn	essential	yes
lineage4.4.1.2	1808124	222	A/C	74	CCA/CCC	P/P	Rv1609	trpE	syn	essential	yes
lineage4.4.1.2	1904706	278	C/G	93	ACC/AGC	T/S	Rv1680	.	nonsyn	nonessential	no
lineage4.4.1.2	1951474	278	T/G	93	GAC/GCC	D/A	Rv1725c	.	nonsyn	nonessential	no
lineage4.4.1.2	1981604	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	1983317	1459	G/A	487	CTG/TTG	L/L	Rv1753c	PPE24	syn	ND	no
lineage4.4.1.2	2123169	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	2152413	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	2167770	2843	C/A	948	AGC/ATC	S/I	Rv1918c	PPE35	nonsyn	ND	no
lineage4.4.1.2	2246438	1230	A/C	410	GCA/GCC	A/A	Rv2000	.	syn	nonessential	no
lineage4.4.1.2	2324449	1275	T/C	425	CAT/CAC	H/H	Rv2066	cobI	syn	nonessential	no
lineage4.4.1.2	2410938	1185	A/T	395	GCT/GCA	A/A	Rv2152c	murC	syn	essential	yes
lineage4.4.1.2	2503486	1123	C/A	375	GGG/TGG	G/W	Rv2230c	.	nonsyn	nonessential	no
lineage4.4.1.2	2531575	323	T/G	108	CAG/CCG	Q/P	Rv2258c	.	nonsyn	nonessential	no
lineage4.4.1.2	2694560	405	G/C	135	CTC/CTG	L/L	Rv2397c	cysA1	syn	essential	yes
lineage4.4.1.2	2701768	1481	G/T	494	ACC/AAC	T/N	Rv2404c	lepA	nonsyn	nonessential	no
lineage4.4.1.2	2734017	788	T/G	263	CTG/CGG	L/R	Rv2436	rbsK	nonsyn	nonessential	no
lineage4.4.1.2	2813655	76	T/G	26	AGA/CGA	R/R	Rv2499c	.	syn	nonessential	no
lineage4.4.1.2	2860213	206	G/A	69	CCC/CTC	P/L	Rv2535c	pepQ	nonsyn	nonessential	no
lineage4.4.1.2	2862401	276	G/A	92	CGC/CGT	R/R	Rv2538c	aroB	syn	essential	no
lineage4.4.1.2	2908819	1380	G/C	460	GAC/GAG	D/E	Rv2583c	relA	nonsyn	nonessential	no
lineage4.4.1.2	2928487	100	G/T	34	GTT/TTT	V/F	Rv2601	speE	nonsyn	nonessential	no
lineage4.4.1.2	2944085	901	C/T	301	GGC/AGC	G/S	Rv2615c	PE_PGRS45	nonsyn	ND	no
lineage4.4.1.2	2950848	460	C/T	154	GTG/ATG	V/M	Rv2624c	.	nonsyn	nonessential	no
lineage4.4.1.2	2965984	46	G/A	16	GCA/ACA	A/T	Rv2641	cadI	nonsyn	nonessential	no
lineage4.4.1.2	3015686	484	T/C	162	TAT/CAT	Y/H	Rv2700	.	nonsyn	essential	no
lineage4.4.1.2	3036095	1187	A/G	396	CAC/CGC	H/R	Rv2723	.	nonsyn	nonessential	no
lineage4.4.1.2	3053671	439	G/C	147	GCA/CCA	A/P	Rv2740	ephG	nonsyn	nonessential	no
lineage4.4.1.2	3074721	86	C/G	29	CCC/CGC	P/R	Rv2765	.	nonsyn	nonessential	no
lineage4.4.1.2	3216607	285	G/A	95	CCC/CCT	P/P	Rv2907c	rimM	syn	essential	yes
lineage4.4.1.2	3248421	2977	C/A	993	CTG/ATG	L/M	Rv2931	ppsA	nonsyn	nonessential	no
lineage4.4.1.2	3299886	69	C/T	23	CCG/CCA	P/P	Rv2948c	fadD22	syn	nonessential	no
lineage4.4.1.2	3310127	658	G/C	220	GAA/CAA	E/Q	Rv2957	.	nonsyn	nonessential	no
lineage4.4.1.2	3315191	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	3338252	748	C/T	250	GTG/ATG	V/M	Rv2982c	gpdA2	nonsyn	nonessential	no
lineage4.4.1.2	3349093	1185	G/C	395	CCC/CCG	P/P	Rv2992c	gltS	syn	essential	yes
lineage4.4.1.2	3361668	1319	T/C	440	TAC/TGC	Y/C	Rv3003c	ilvB1	nonsyn	essential	no
lineage4.4.1.2	3416905	201	G/A	67	TTG/TTA	L/L	Rv3056	dinP	syn	nonessential	no
lineage4.4.1.2	3421499	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	3477528	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	3489452	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	3631160	829	G/A	277	CTG/TTG	L/L	Rv3252c	alkB	syn	nonessential	no
lineage4.4.1.2	3632483	1102	T/C	368	ACC/GCC	T/A	Rv3253c	.	nonsyn	nonessential	no
lineage4.4.1.2	3700221	110	G/A	37	ACC/ATC	T/I	Rv3312c	.	nonsyn	nonessential	no
lineage4.4.1.2	3725396	449	T/C	150	GAC/GGC	D/G	Rv3339c	icd1	nonsyn	nonessential	no
lineage4.4.1.2	3734963	1973	G/A	658	CCG/CTG	P/L	Rv3343c	PPE54	nonsyn	ND	no
lineage4.4.1.2	3743021	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.4.1.2	3758165	8938	G/C	2980	CCC/GCC	P/A	Rv3350c	PPE56	nonsyn	ND	no
lineage4.4.1.2	3781574	3167	G/C	1056	GCA/GGA	A/G	Rv3370c	dnaE2	nonsyn	nonessential	no
lineage4.4.1.2	3875222	401	T/G	134	TTT/TGT	F/C	Rv3454	.	nonsyn	nonessential	no
lineage4.4.1.2	3876024	1203	C/G	401	GAC/GAG	D/E	Rv3454	.	nonsyn	nonessential	no
lineage4.4.1.2	4007654	529	A/G	177	TAC/CAC	Y/H	Rv3566c	nat	nonsyn	nonessential	no
lineage4.4.1.2	4021272	1131	C/T	377	AAC/AAT	N/N	Rv3578	arsB2	syn	nonessential	no
lineage4.4.1.2	4021860	534	C/T	178	GTG/GTA	V/V	Rv3579c	.	syn	essential	no
lineage4.4.1.2	4141953	1461	G/A	487	CTG/CTA	L/L	Rv3698	.	syn	nonessential	no
lineage4.4.1.2	4148402	561	C/A	187	TTG/TTT	L/F	Rv3705c	.	nonsyn	nonessential	no
lineage4.4.1.2	4162510	205	C/T	69	CTG/TTG	L/L	Rv3719	.	syn	nonessential	no
lineage4.4.1.2	4208487	390	G/A	130	GAC/GAT	D/D	Rv3762c	.	syn	nonessential	no
lineage4.4.1.2	4249012	2499	G/A	833	CTG/CTA	L/L	Rv3795	embB	syn	essential	yes
lineage4.4.1.2	4266036	623	C/G	208	GGC/GCC	G/A	Rv3804c	fbpA	nonsyn	ND	no
lineage4.4.1.2	4277669	1099	T/C	367	TTG/CTG	L/L	Rv3812	PE_PGRS62	syn	ND	no
lineage4.4.1.2	4294926	4680	G/A	1560	CTC/CTT	L/L	Rv3825c	pks2	syn	nonessential	no
lineage4.4.1.2	4392120	954	G/A	318	CAC/CAT	H/H	Rv3907c	pcnA	syn	essential	yes
lineage4.4.2	31894	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.2	45073	1512	G/A	504	GAG/GAA	E/E	Rv0041	leuS	syn	essential	yes
lineage4.4.2	67570	648	C/T	216	GAC/GAT	D/D	Rv0063	.	syn	nonessential	no
lineage4.4.2	84629	634	C/G	212	CAT/GAT	H/D	Rv0075	.	nonsyn	nonessential	no
lineage4.4.2	109043	888	G/A	296	TCG/TCA	S/S	Rv0099	fadD10	syn	essential	yes
lineage4.4.2	143901	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.2	207304	491	A/G	164	AAT/AGT	N/S	Rv0175	.	nonsyn	essential	no
lineage4.4.2	300193	611	G/A	204	GCG/GTG	A/V	Rv0248c	.	nonsyn	nonessential	no
lineage4.4.2	438605	135	C/T	45	GCG/GCA	A/A	Rv0360c	.	syn	nonessential	no
lineage4.4.2	446437	89	A/G	30	GTG/GCG	V/A	Rv0368c	.	nonsyn	nonessential	no
lineage4.4.2	455749	113	G/A	38	GGT/GAT	G/D	Rv0378	.	nonsyn	nonessential	no
lineage4.4.2	488579	2849	T/C	950	GTG/GCG	V/A	Rv0405	pks6	nonsyn	nonessential	no
lineage4.4.2	500530	489	G/A	163	GCC/GCT	A/A	Rv0414c	thiE	syn	essential	yes
lineage4.4.2	524129	405	C/G	135	CTG/CTC	L/L	Rv0435c	.	syn	nonessential	no
lineage4.4.2	605161	560	A/C	187	GAC/GCC	D/A	Rv0512	hemB	nonsyn	nonessential	no
lineage4.4.2	621509	603	C/T	201	CTC/CTT	L/L	Rv0530	.	syn	nonessential	no
lineage4.4.2	666295	948	G/C	316	GTC/GTG	V/V	Rv0573c	pncB2	syn	nonessential	no
lineage4.4.2	711504	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.2	741552	1066	T/C	356	ACC/GCC	T/A	Rv0647c	.	nonsyn	nonessential	no
lineage4.4.2	747169	133	G/A	45	GTC/ATC	V/I	Rv0650	.	nonsyn	nonessential	no
lineage4.4.2	796184	666	A/G	222	TTA/TTG	L/L	Rv0696	.	syn	nonessential	no
lineage4.4.2	851475	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.4.2	919420	134	C/T	45	CGC/CAC	R/H	Rv0825c	.	nonsyn	nonessential	no
lineage4.4.2	948322	147	G/A	49	CAC/CAT	H/H	Rv0851c	.	syn	nonessential	no
lineage4.4.2	985287	1485	G/A	495	CCG/CCA	P/P	Rv0886	fprB	syn	nonessential	no
lineage4.4.2	995419	877	T/C	293	ATA/GTA	I/V	Rv0893c	.	nonsyn	nonessential	no
lineage4.4.2	1061813	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.2	1072076	822	G/T	274	CAG/CAT	Q/H	Rv0959	.	nonsyn	nonessential	no
lineage4.4.2	1120115	94	G/A	32	GTG/ATG	V/M	Rv1003	.	nonsyn	nonessential	no
lineage4.4.2	1198510	864	C/T	288	GTG/GTA	V/V	Rv1074c	fadA3	syn	nonessential	no
lineage4.4.2	1255487	933	G/C	311	GCG/GCC	A/A	Rv1130	prpD	syn	nonessential	no
lineage4.4.2	1318920	3687	G/A	1229	GTG/GTA	V/V	Rv1181	pks4	syn	nonessential	no
lineage4.4.2	1360212	1590	A/G	530	GAT/GAC	D/D	Rv1217c	.	syn	nonessential	no
lineage4.4.2	1395684	1506	C/T	502	GGC/GGT	G/G	Rv1250	.	syn	nonessential	no
lineage4.4.2	1439478	572	C/T	191	TCC/TTC	S/F	Rv1286	cysN	nonsyn	essential	no
lineage4.4.2	1624276	182	T/G	61	GAA/GCA	E/A	Rv1445c	devB	nonsyn	nonessential	no
lineage4.4.2	1625724	1239	C/G	413	CGG/CGC	R/R	Rv1447c	zwf2	syn	nonessential	no
lineage4.4.2	1644855	1284	C/T	428	CTG/CTA	L/L	Rv1459c	.	syn	essential	yes
lineage4.4.2	1647363	375	C/T	125	GAC/GAT	D/D	Rv1461	.	syn	ND	no
lineage4.4.2	1671260	848	G/C	283	GGT/GCT	G/A	Rv1480	.	nonsyn	essential	no
lineage4.4.2	1684430	426	C/T	142	GAC/GAT	D/D	Rv1493	mutB	syn	nonessential	no
lineage4.4.2	1710215	572	C/A	191	GCG/GAG	A/E	Rv1518	.	nonsyn	nonessential	no
lineage4.4.2	1758825	1145	G/C	382	AGC/ACC	S/T	Rv1552	frdA	nonsyn	nonessential	no
lineage4.4.2	1797312	1508	A/C	503	CAG/CCG	Q/P	Rv1595	nadB	nonsyn	essential	no
lineage4.4.2	1942850	192	A/T	64	GCA/GCT	A/A	Rv1715	fadB3	syn	essential	no
lineage4.4.2	1952057	206	C/T	69	GCG/GTG	A/V	Rv1726	.	nonsyn	nonessential	no
lineage4.4.2	1965133	238	C/T	80	GCG/ACG	A/T	Rv1737c	narK2	nonsyn	nonessential	no
lineage4.4.2	1983317	1459	G/A	487	CTG/TTG	L/L	Rv1753c	PPE24	syn	ND	no
lineage4.4.2	2002579	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.2	2095529	640	G/A	214	CGC/TGC	R/C	Rv1845c	blaR	nonsyn	nonessential	no
lineage4.4.2	2105029	45	G/A	15	CTG/CTA	L/L	Rv1857	modA	syn	nonessential	no
lineage4.4.2	2141192	678	G/A	226	GGC/GGT	G/G	Rv1894c	.	syn	nonessential	no
lineage4.4.2	2191657	631	G/T	211	GAC/TAC	D/Y	Rv1938	ephB	nonsyn	nonessential	no
lineage4.4.2	2239303	300	G/A	100	GCG/GCA	A/A	Rv1996	.	syn	nonessential	no
lineage4.4.2	2245075	64	C/T	22	GAT/AAT	D/N	Rv1999c	.	nonsyn	nonessential	no
lineage4.4.2	2255190	3189	C/T	1063	ACC/ACT	T/T	Rv2006	otsB1	syn	nonessential	no
lineage4.4.2	2257835	108	C/G	36	CCG/CCC	P/P	Rv2008c	.	syn	nonessential	no
lineage4.4.2	2310038	718	T/C	240	ACG/GCG	T/A	Rv2051c	ppm1	nonsyn	nonessential	no
lineage4.4.2	2313206	82	G/A	28	GGT/AGT	G/S	Rv2054	.	nonsyn	nonessential	no
lineage4.4.2	2326024	786	G/A	262	ATC/ATT	I/I	Rv2068c	blaC	syn	nonessential	no
lineage4.4.2	2389986	1371	C/T	457	TAC/TAT	Y/Y	Rv2127	ansP1	syn	nonessential	no
lineage4.4.2	2401509	214	C/T	72	GCC/ACC	A/T	Rv2141c	.	nonsyn	nonessential	no
lineage4.4.2	2427471	768	A/C	256	GAT/GAG	D/E	Rv2164c	.	nonsyn	essential	no
lineage4.4.2	2436247	339	C/T	113	ACC/ACT	T/T	Rv2174	mptA	syn	essential	yes
lineage4.4.2	2456256	488	T/G	163	GAC/GCC	D/A	Rv2192c	trpD	nonsyn	essential	no
lineage4.4.2	2556092	152	C/T	51	ACA/ATA	T/I	Rv2283	.	nonsyn	essential	no
lineage4.4.2	2600689	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4.2	2620500	229	G/T	77	GTC/TTC	V/F	Rv2342	.	nonsyn	nonessential	no
lineage4.4.2	2651706	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.2	2704416	22	G/C	8	CGG/GGG	R/G	Rv2406c	.	nonsyn	nonessential	no
lineage4.4.2	2739131	556	T/C	186	ATC/GTC	I/V	Rv2440c	obg	nonsyn	essential	no
lineage4.4.2	2900706	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4.2	2913091	921	C/T	307	GTG/GTA	V/V	Rv2586c	secF	syn	nonessential	no
lineage4.4.2	2919828	1958	G/A	653	CGT/CAT	R/H	Rv2590	fadD9	nonsyn	nonessential	no
lineage4.4.2	2953379	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.4.2	2962658	189	C/T	63	AGC/AGT	S/S	Rv2635	.	syn	nonessential	no
lineage4.4.2	2970649	99	C/T	33	GCC/GCT	A/A	Rv2646	.	syn	ND	no
lineage4.4.2	3036437	855	G/T	285	TTC/TTA	F/L	Rv2724c	fadE20	nonsyn	nonessential	no
lineage4.4.2	3040001	769	T/G	257	ATG/CTG	M/L	Rv2727c	miaA	nonsyn	essential	no
lineage4.4.2	3066099	93	C/T	31	ATG/ATA	M/I	Rv2752c	.	nonsyn	nonessential	no
lineage4.4.2	3084375	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.2	3126279	1089	C/T	363	GAG/GAA	E/E	Rv2819c	.	syn	nonessential	no
lineage4.4.2	3253552	2481	G/A	827	GAG/GAA	E/E	Rv2932	ppsB	syn	nonessential	no
lineage4.4.2	3292987	3367	G/A	1123	CTG/TTG	L/L	Rv2946c	pks1	syn	nonessential	no
lineage4.4.2	3304970	530	A/G	177	TAC/TGC	Y/C	Rv2952	.	nonsyn	nonessential	no
lineage4.4.2	3312069	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.4.2	3343150	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.4.2	3393033	222	C/T	74	CCC/CCT	P/P	Rv3032A	.	syn	essential	yes
lineage4.4.2	3520977	471	G/C	157	CTG/CTC	L/L	Rv3153	nuoI	syn	nonessential	no
lineage4.4.2	3559192	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.4.2	3583640	71	C/T	24	AGC/AAC	S/N	Rv3206c	moeB1	nonsyn	nonessential	no
lineage4.4.2	3643703	527	G/A	176	GGC/GAC	G/D	Rv3263	.	nonsyn	nonessential	no
lineage4.4.2	3751433	1752	A/G	584	AAT/AAC	N/N	Rv3347c	PPE55	syn	ND	no
lineage4.4.2	3765430	1673	A/G	558	ATC/ACC	I/T	Rv3350c	PPE56	nonsyn	ND	no
lineage4.4.2	3824390	195	C/T	65	CAG/CAA	Q/Q	Rv3404c	.	syn	nonessential	no
lineage4.4.2	3886203	881	T/C	294	CAC/CGC	H/R	Rv3469c	mhpE	nonsyn	nonessential	no
lineage4.4.2	3886878	206	T/C	69	GAC/GGC	D/G	Rv3469c	mhpE	nonsyn	nonessential	no
lineage4.4.2	3895483	1058	C/A	353	GCC/GAC	A/D	Rv3478	PPE60	nonsyn	ND	no
lineage4.4.2	3898775	2956	G/A	986	GGC/AGC	G/S	Rv3479	.	nonsyn	nonessential	no
lineage4.4.2	3899045	1358	C/T	453	AGT/AAT	S/N	Rv3480c	.	nonsyn	nonessential	no
lineage4.4.2	3907451	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.2	3922214	43	C/T	15	GTG/ATG	V/M	Rv3503c	fdxD	nonsyn	nonessential	no
lineage4.4.2	3930983	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.4.2	3965965	1074	G/A	358	GCC/GCT	A/A	Rv3529c	.	syn	nonessential	no
lineage4.4.2	3990402	507	G/A	169	TTG/TTA	L/L	Rv3551	.	syn	essential	yes
lineage4.4.2	4074738	1105	G/A	369	GGC/AGC	G/S	Rv3635	.	nonsyn	essential	no
lineage4.4.2	4117614	439	C/T	147	GAC/AAC	D/N	Rv3677c	.	nonsyn	nonessential	no
lineage4.4.2	4142063	20	A/C	7	GAC/GCC	D/A	Rv3699	.	nonsyn	nonessential	no
lineage4.4.2	4161581	534	C/T	178	GAC/GAT	D/D	Rv3717	.	syn	essential	yes
lineage4.4.2	4246508	3276	G/A	1092	GCG/GCA	A/A	Rv3794	embA	syn	essential	yes
lineage4.4.2	4268928	906	G/A	302	GGC/GGT	G/G	Rv3806c	ubiA	syn	essential	yes
lineage4.4.2	4269375	459	C/T	153	GTG/GTA	V/V	Rv3806c	ubiA	syn	essential	yes
lineage4.4.2	4365784	1055	C/A	352	CGC/CTC	R/L	Rv3884c	eccA2	nonsyn	nonessential	no
lineage4.4.2	4375673	11	G/C	4	CCA/CGA	P/R	Rv3892c	PPE69	nonsyn	ND	no
lineage4.5	7892	591	G/A	197	CTG/CTA	L/L	Rv0006	gyrA	syn	nonessential	no
lineage4.5	12555	88	C/T	30	CTG/TTG	L/L	Rv0009	ppiA	syn	nonessential	no
lineage4.5	63148	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.5	72268	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.5	113142	3142	G/A	1048	GCG/ACG	A/T	Rv0101	nrp	nonsyn	essential	no
lineage4.5	125560	1187	A/G	396	GAA/GGA	E/G	Rv0106	.	nonsyn	nonessential	no
lineage4.5	187439	1401	G/C	467	ATC/ATG	I/M	Rv0159c	PE3	nonsyn	ND	no
lineage4.5	204426	362	T/C	121	GTC/GCC	V/A	Rv0173	lprK	nonsyn	essential	no
lineage4.5	213335	806	C/G	269	CGG/CCG	R/P	Rv0182c	sigG	nonsyn	nonessential	no
lineage4.5	244550	2769	A/G	923	CGT/CGC	R/R	Rv0206c	mmpL3	syn	nonessential	no
lineage4.5	255660	291	G/A	97	TAC/TAT	Y/Y	Rv0213c	.	syn	nonessential	no
lineage4.5	280860	281	C/T	94	CGC/CAC	R/H	Rv0234c	gabD1	nonsyn	nonessential	no
lineage4.5	281316	1299	C/T	433	CCG/CCA	P/P	Rv0235c	.	syn	nonessential	no
lineage4.5	310336	414	C/T	138	CCG/CCA	P/P	Rv0258c	.	syn	nonessential	no
lineage4.5	349200	3566	G/A	1189	CGC/CAC	R/H	Rv0284	eccC3	nonsyn	essential	no
lineage4.5	384842	308	C/T	103	CCG/CTG	P/L	Rv0316	.	nonsyn	nonessential	no
lineage4.5	431101	3579	C/T	1193	GCG/GCA	A/A	Rv0355c	PPE8	syn	ND	no
lineage4.5	532758	363	A/T	121	GAA/GAT	E/D	Rv0443	.	nonsyn	nonessential	no
lineage4.5	552713	100	C/G	34	CCC/GCC	P/A	Rv0462	lpdC	nonsyn	essential	no
lineage4.5	620029	139	C/T	47	CTG/TTG	L/L	Rv0529	ccsA	syn	essential	yes
lineage4.5	654719	841	G/A	281	GAG/AAG	E/K	Rv0563	htpX	nonsyn	nonessential	no
lineage4.5	661524	230	T/C	77	CTG/CCG	L/P	Rv0570	nrdZ	nonsyn	nonessential	no
lineage4.5	663803	1016	G/A	339	GCG/GTG	A/V	Rv0571c	.	nonsyn	nonessential	no
lineage4.5	684019	254	A/G	85	GTG/GCG	V/A	Rv0585c	.	nonsyn	nonessential	no
lineage4.5	690191	1133	C/T	378	CCG/CTG	P/L	Rv0591	mce2C	nonsyn	nonessential	no
lineage4.5	801697	236	G/A	79	CGT/CAT	R/H	Rv0702	rplD	nonsyn	essential	no
lineage4.5	848319	1722	C/T	574	TCG/TCA	S/S	Rv0755c	PPE12	syn	ND	no
lineage4.5	973290	417	G/A	139	ATC/ATT	I/I	Rv0874c	.	syn	nonessential	no
lineage4.5	993566	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	1016101	704	C/G	235	CCG/CGG	P/R	Rv0911	.	nonsyn	nonessential	no
lineage4.5	1129926	775	G/C	259	GGA/CGA	G/R	Rv1010	ksgA	nonsyn	nonessential	no
lineage4.5	1178823	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	1262172	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	1351724	534	C/T	178	TTC/TTT	F/F	Rv1207	folP2	syn	nonessential	no
lineage4.5	1376886	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.5	1388246	383	T/C	128	CAT/CGT	H/R	Rv1245c	.	nonsyn	nonessential	no
lineage4.5	1404949	1136	A/C	379	CTG/CGG	L/R	Rv1257c	.	nonsyn	nonessential	no
lineage4.5	1414767	1074	C/A	358	GCG/GCT	A/A	Rv1266c	pknH	syn	nonessential	no
lineage4.5	1435763	381	C/T	127	GTG/GTA	V/V	Rv1282c	oppC	syn	nonessential	no
lineage4.5	1507626	54	C/T	18	GCC/GCT	A/A	Rv1341	.	syn	nonessential	no
lineage4.5	1522856	1177	C/T	393	GCC/ACC	A/T	Rv1355c	moeY	nonsyn	nonessential	no
lineage4.5	1555801	325	C/T	109	CCT/TCT	P/S	Rv1382	.	nonsyn	essential	no
lineage4.5	1604835	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.5	1626656	307	C/T	103	GAG/AAG	E/K	Rv1447c	zwf2	nonsyn	nonessential	no
lineage4.5	1640474	187	C/T	63	GTA/ATA	V/I	Rv1454c	qor	nonsyn	nonessential	no
lineage4.5	1645599	540	C/T	180	GCG/GCA	A/A	Rv1459c	.	syn	essential	yes
lineage4.5	1679273	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.5	1698581	1314	G/C	438	TTC/TTG	F/L	Rv1508c	.	nonsyn	nonessential	no
lineage4.5	1701247	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	1719757	1032	G/T	344	CCG/CCT	P/P	Rv1524	.	syn	essential	yes
lineage4.5	1781580	485	C/T	162	TGG/TAG	W/*	Rv1576c	.	nonsyn	ND	no
lineage4.5	1843658	35	G/A	12	ACC/ATC	T/I	Rv1637c	.	nonsyn	nonessential	no
lineage4.5	1881343	6040	G/T	2014	GCC/TCC	A/S	Rv1661	pks7	nonsyn	essential	no
lineage4.5	1901924	177	T/C	59	CTT/CTC	L/L	Rv1677	dsbF	syn	nonessential	no
lineage4.5	1955930	1316	G/A	439	ACG/ATG	T/M	Rv1730c	.	nonsyn	essential	no
lineage4.5	1980871	1251	G/C	417	GCG/GCC	A/A	Rv1751	.	syn	nonessential	no
lineage4.5	1981605	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.5	2005932	772	C/T	258	CGT/TGT	R/C	Rv1771	.	nonsyn	nonessential	no
lineage4.5	2035893	411	G/T	137	TCG/TCT	S/S	Rv1797	eccE5	syn	nonessential	no
lineage4.5	2058203	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.5	2093998	1191	C/T	397	CTG/CTA	L/L	Rv1844c	gnd1	syn	nonessential	no
lineage4.5	2101009	670	G/C	224	GTC/CTC	V/L	Rv1852	ureG	nonsyn	nonessential	no
lineage4.5	2109694	151	T/C	51	TGC/CGC	C/R	Rv1862	adhA	nonsyn	nonessential	no
lineage4.5	2119297	1951	G/A	651	GAC/AAC	D/N	Rv1868	.	nonsyn	nonessential	no
lineage4.5	2170568	45	G/C	15	ATC/ATG	I/M	Rv1918c	PPE35	nonsyn	ND	no
lineage4.5	2185888	301	C/T	101	GGC/AGC	G/S	Rv1934c	fadE17	nonsyn	nonessential	no
lineage4.5	2186054	135	G/A	45	CAC/CAT	H/H	Rv1934c	fadE17	syn	nonessential	no
lineage4.5	2205511	39	C/T	13	ACG/ACA	T/T	Rv1962A	vapB35	syn	nonessential	no
lineage4.5	2253701	1700	C/G	567	GCA/GGA	A/G	Rv2006	otsB1	nonsyn	nonessential	no
lineage4.5	2270100	141	C/T	47	TGG/TGA	W/*	Rv2024c	.	nonsyn	nonessential	no
lineage4.5	2280668	415	G/A	139	CAT/TAT	H/Y	Rv2033c	.	nonsyn	nonessential	no
lineage4.5	2283866	931	A/C	311	TCG/GCG	S/A	Rv2038c	.	nonsyn	essential	no
lineage4.5	2325142	729	G/A	243	GCC/GCT	A/A	Rv2067c	.	syn	nonessential	no
lineage4.5	2344389	.	T/A	.	./.	./.	.	.	inter	.	no
lineage4.5	2353070	228	G/A	76	GAC/GAT	D/D	Rv2094c	tatA	syn	nonessential	no
lineage4.5	2361311	1072	C/T	358	CTC/TTC	L/F	Rv2101	helZ	nonsyn	nonessential	no
lineage4.5	2390415	775	G/A	259	CGT/TGT	R/C	Rv2129c	.	nonsyn	nonessential	no
lineage4.5	2419540	1069	T/C	357	ACC/GCC	T/A	Rv2158c	murE	nonsyn	nonessential	no
lineage4.5	2427088	1151	C/T	384	AGG/AAG	R/K	Rv2164c	.	nonsyn	essential	no
lineage4.5	2446408	539	G/A	180	GCC/GTC	A/V	Rv2184c	.	nonsyn	nonessential	no
lineage4.5	2520761	19	G/A	7	GAG/AAG	E/K	Rv2247	accD6	nonsyn	essential	no
lineage4.5	2528992	183	G/A	61	CCC/CCT	P/P	Rv2255c	.	syn	nonessential	no
lineage4.5	2544639	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	2597696	162	C/T	54	CCG/CCA	P/P	Rv2325c	.	syn	essential	yes
lineage4.5	2634253	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	2789341	1682	A/C	561	ATC/AGC	I/S	Rv2483c	plsC	nonsyn	essential	no
lineage4.5	2790578	445	G/A	149	CTG/TTG	L/L	Rv2483c	plsC	syn	essential	yes
lineage4.5	2795454	1932	G/A	644	GTC/GTT	V/V	Rv2487c	PE_PGRS42	syn	ND	no
lineage4.5	2800874	272	G/A	91	CCG/CTG	P/L	Rv2489c	.	nonsyn	nonessential	no
lineage4.5	2818550	578	G/A	193	ACC/ATC	T/I	Rv2503c	scoB	nonsyn	nonessential	no
lineage4.5	2852526	146	C/G	49	AGC/ACC	S/T	Rv2528c	mrr	nonsyn	nonessential	no
lineage4.5	2868976	117	C/G	39	GTC/GTG	V/V	Rv2548	vapC19	syn	nonessential	no
lineage4.5	2924461	360	G/A	120	GCC/GCT	A/A	Rv2593c	ruvA	syn	nonessential	no
lineage4.5	2960757	1685	C/T	562	GGT/GAT	G/D	Rv2634c	PE_PGRS46	nonsyn	ND	no
lineage4.5	2977344	1315	A/C	439	TGC/GGC	C/G	Rv2655c	.	nonsyn	ND	no
lineage4.5	3047972	581	T/G	194	CAG/CCG	Q/P	Rv2735c	.	nonsyn	nonessential	no
lineage4.5	3108217	450	G/T	150	GTG/GTT	V/V	Rv2799	.	syn	nonessential	no
lineage4.5	3110211	313	G/A	105	CAG/TAG	Q/*	Rv2801c	mazF9	nonsyn	nonessential	no
lineage4.5	3125518	627	G/A	209	GAC/GAT	D/D	Rv2818c	.	syn	nonessential	no
lineage4.5	3198115	171	G/A	57	TTC/TTT	F/F	Rv2888c	amiC	syn	nonessential	no
lineage4.5	3211406	340	G/A	114	CAC/TAC	H/Y	Rv2900c	fdhF	nonsyn	nonessential	no
lineage4.5	3267163	4916	C/T	1639	GCT/GTT	A/V	Rv2934	ppsD	nonsyn	nonessential	no
lineage4.5	3331626	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	3347560	160	C/T	54	GTC/ATC	V/I	Rv2990c	.	nonsyn	nonessential	no
lineage4.5	3349521	757	C/G	253	GAG/CAG	E/Q	Rv2992c	gltS	nonsyn	essential	no
lineage4.5	3405197	62	G/T	21	GGC/GTC	G/V	Rv3044	fecB	nonsyn	nonessential	no
lineage4.5	3407904	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.5	3426025	442	G/A	148	GCG/ACG	A/T	Rv3062	ligB	nonsyn	nonessential	no
lineage4.5	3473214	691	G/C	231	CTG/GTG	L/V	Rv3105c	prfB	nonsyn	essential	no
lineage4.5	3527479	1685	A/C	562	CTC/CGC	L/R	Rv3159c	PPE53	nonsyn	ND	no
lineage4.5	3547681	64	G/A	22	GTT/ATT	V/I	Rv3179	.	nonsyn	nonessential	no
lineage4.5	3556459	229	C/A	77	GAG/TAG	E/*	Rv3190c	.	nonsyn	nonessential	no
lineage4.5	3593421	53	C/T	18	GCC/GTC	A/V	Rv3216	.	nonsyn	nonessential	no
lineage4.5	3609004	754	T/G	252	ATT/CTT	I/L	Rv3232c	ppk2	nonsyn	nonessential	no
lineage4.5	3708849	204	G/A	68	CAC/CAT	H/H	Rv3322c	.	syn	nonessential	no
lineage4.5	3758561	8542	C/T	2848	GCA/ACA	A/T	Rv3350c	PPE56	nonsyn	ND	no
lineage4.5	3766696	407	G/A	136	GCC/GTC	A/V	Rv3350c	PPE56	nonsyn	ND	no
lineage4.5	3817132	1004	C/T	335	ACT/ATT	T/I	Rv3399	.	nonsyn	nonessential	no
lineage4.5	3828326	402	G/C	134	ACC/ACG	T/T	Rv3409c	choD	syn	nonessential	no
lineage4.5	3874322	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.5	3878575	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.5	3879560	133	T/C	45	ACC/GCC	T/A	Rv3459c	rpsK	nonsyn	essential	no
lineage4.5	3924275	578	T/C	193	CTG/CCG	L/P	Rv3505	fadE27	nonsyn	nonessential	no
lineage4.5	3924991	102	C/T	34	GAC/GAT	D/D	Rv3506	fadD17	syn	nonessential	no
lineage4.5	3965470	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.5	4016840	357	G/A	119	GTG/GTA	V/V	Rv3574	kstR	syn	essential	yes
lineage4.5	4038318	2387	G/A	796	CCG/CTG	P/L	Rv3596c	clpC1	nonsyn	essential	no
lineage4.5	4041787	1154	C/T	385	AGC/AAC	S/N	Rv3598c	lysS	nonsyn	essential	no
lineage4.5	4117692	361	C/G	121	GTG/CTG	V/L	Rv3677c	.	nonsyn	nonessential	no
lineage4.5	4121368	187	G/A	63	CCG/TCG	P/S	Rv3681c	whiB4	nonsyn	nonessential	no
lineage4.5	4152890	594	G/A	198	TTC/TTT	F/F	Rv3709c	ask	syn	essential	yes
lineage4.5	4153435	49	C/T	17	GAA/AAA	E/K	Rv3709c	ask	nonsyn	essential	no
lineage4.5	4162790	485	A/G	162	TAC/TGC	Y/C	Rv3719	.	nonsyn	nonessential	no
lineage4.5	4168644	109	G/A	37	GGA/AGA	G/R	Rv3723	.	nonsyn	essential	no
lineage4.5	4214507	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.5	4233760	777	G/A	259	CAC/CAT	H/H	Rv3787c	.	syn	nonessential	no
lineage4.5	4254632	1317	G/A	439	GAC/GAT	D/D	Rv3799c	accD4	syn	essential	yes
lineage4.5	4302102	688	G/A	230	CTG/TTG	L/L	Rv3827c	.	syn	ND	no
lineage4.5	4313577	11	G/A	4	TGC/TAC	C/Y	Rv3840	.	nonsyn	nonessential	no
lineage4.5	4337898	1122	G/A	374	ACG/ACA	T/T	Rv3860	.	syn	nonessential	no
lineage4.5	4339743	895	G/A	299	GCC/ACC	A/T	Rv3863	.	nonsyn	nonessential	no
lineage4.5	4397129	533	G/T	178	TGG/TTG	W/L	Rv3910	.	nonsyn	essential	no
lineage4.5	4398019	1423	G/A	475	GGC/AGC	G/S	Rv3910	.	nonsyn	essential	no
lineage4.6	18091	672	G/A	224	ACC/ACT	T/T	Rv0015c	pknA	syn	essential	no
lineage4.6	54304	642	C/T	214	CTC/CTT	L/L	Rv0050	ponA1	syn	nonessential	yes
lineage4.6	122794	478	T/G	160	TTT/GTT	F/V	Rv0104	.	nonsyn	nonessential	no
lineage4.6	312944	1225	C/T	409	GTC/ATC	V/I	Rv0261c	narK3	nonsyn	nonessential	no
lineage4.6	325038	472	G/A	158	GGC/AGC	G/S	Rv0270	fadD2	nonsyn	nonessential	no
lineage4.6	325039	473	G/A	158	GGC/GAC	G/D	Rv0270	fadD2	nonsyn	nonessential	no
lineage4.6	1056916	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6	1696464	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.6	1864698	685	C/T	229	GCC/ACC	A/T	Rv1651c	PE_PGRS30	nonsyn	ND	no
lineage4.6	2358104	103	G/C	35	CCG/GCG	P/A	Rv2099c	PE21	nonsyn	ND	no
lineage4.6	2369971	631	A/G	211	TAT/CAT	Y/H	Rv2110c	prcB	nonsyn	essential	no
lineage4.6	2816296	585	A/C	195	GAT/GAG	D/E	Rv2501c	accA1	nonsyn	nonessential	no
lineage4.6	3015966	770	G/A	257	GCG/GTG	A/V	Rv2701c	suhB	nonsyn	nonessential	no
lineage4.6	3170460	264	C/T	88	GTG/GTA	V/V	Rv2858c	aldC	syn	nonessential	yes
lineage4.6	3175335	344	C/T	115	ACG/ATG	T/M	Rv2863	vapC23	nonsyn	nonessential	no
lineage4.6	3466426	666	G/A	222	GTC/GTT	V/V	Rv3097c	lipY	syn	nonessential	yes
lineage4.6.1	7539	238	A/G	80	ACC/GCC	T/A	Rv0006	gyrA	nonsyn	nonessential	no
lineage4.6.1	22334	848	C/T	283	CGC/CAC	R/H	Rv0018c	pstP	nonsyn	nonessential	no
lineage4.6.1	32075	19	T/C	7	TGG/CGG	W/R	Rv0029	.	nonsyn	nonessential	no
lineage4.6.1	34226	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.1	105031	185	T/G	62	GAC/GCC	D/A	Rv0095c	.	nonsyn	nonessential	no
lineage4.6.1	218204	1936	C/T	646	CGA/TGA	R/*	Rv0186	bglS	nonsyn	nonessential	no
lineage4.6.1	219120	416	A/G	139	GAC/GGC	D/G	Rv0187	.	nonsyn	nonessential	no
lineage4.6.1	237709	504	C/T	168	GCC/GCT	A/A	Rv0200	.	syn	ND	no
lineage4.6.1	256640	577	T/G	193	TCG/GCG	S/A	Rv0214	fadD4	nonsyn	nonessential	no
lineage4.6.1	257982	875	T/G	292	GAC/GCC	D/A	Rv0215c	fadE3	nonsyn	nonessential	no
lineage4.6.1	265244	1178	C/T	393	GCG/GTG	A/V	Rv0221	.	nonsyn	nonessential	no
lineage4.6.1	312060	600	T/G	200	CGA/CGC	R/R	Rv0260c	.	syn	nonessential	no
lineage4.6.1	332357	610	A/G	204	ATC/GTC	I/V	Rv0276	.	nonsyn	nonessential	no
lineage4.6.1	412017	1180	C/G	394	CAG/GAG	Q/E	Rv0342	iniA	nonsyn	nonessential	no
lineage4.6.1	435708	1062	G/A	354	ACC/ACT	T/T	Rv0357c	purA	syn	essential	yes
lineage4.6.1	488796	3066	G/A	1022	GTG/GTA	V/V	Rv0405	pks6	syn	nonessential	no
lineage4.6.1	493934	84	T/C	28	CGT/CGC	R/R	Rv0409	ackA	syn	nonessential	no
lineage4.6.1	587974	598	G/A	200	GCG/ACG	A/T	Rv0497	.	nonsyn	nonessential	no
lineage4.6.1	591628	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1	595232	71	C/T	24	GGG/GAG	G/E	Rv0504c	.	nonsyn	nonessential	no
lineage4.6.1	628113	866	C/T	289	GCG/GTG	A/V	Rv0536	galE3	nonsyn	nonessential	no
lineage4.6.1	685869	741	G/A	247	CTG/CTA	L/L	Rv0587	yrbE2A	syn	nonessential	no
lineage4.6.1	721498	235	G/A	79	CTG/TTG	L/L	Rv0629c	recD	syn	nonessential	no
lineage4.6.1	846256	98	C/A	33	GCC/GAC	A/D	Rv0754	PE_PGRS11	nonsyn	ND	no
lineage4.6.1	859769	304	A/G	102	TCC/CCC	S/P	Rv0766c	cyp123	nonsyn	nonessential	no
lineage4.6.1	869679	85	C/T	29	GGG/AGG	G/R	Rv0776c	.	nonsyn	nonessential	no
lineage4.6.1	919384	170	T/C	57	TAC/TGC	Y/C	Rv0825c	.	nonsyn	nonessential	no
lineage4.6.1	944941	4	A/G	2	AGG/GGG	R/G	Rv0848	cysK2	nonsyn	nonessential	no
lineage4.6.1	955983	907	C/T	303	CCC/TCC	P/S	Rv0859	fadA	nonsyn	nonessential	no
lineage4.6.1	956644	352	C/T	118	CTG/TTG	L/L	Rv0860	fadB	syn	nonessential	no
lineage4.6.1	979314	381	C/T	127	ATC/ATT	I/I	Rv0880	.	syn	nonessential	no
lineage4.6.1	990626	1971	T/A	657	TTA/TTT	L/F	Rv0890c	.	nonsyn	nonessential	no
lineage4.6.1	1020044	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1	1184605	591	C/A	197	GAC/GAA	D/E	Rv1061	.	nonsyn	nonessential	no
lineage4.6.1	1328222	1084	T/C	362	AAC/GAC	N/D	Rv1186c	.	nonsyn	essential	no
lineage4.6.1	1357977	1468	C/T	490	GAG/AAG	E/K	Rv1215c	.	nonsyn	essential	no
lineage4.6.1	1433114	327	G/A	109	GGC/GGT	G/G	Rv1280c	oppA	syn	ND	no
lineage4.6.1	1465155	272	C/T	91	GCA/GTA	A/V	Rv1309	atpG	nonsyn	essential	no
lineage4.6.1	1481468	1034	G/T	345	GCC/GAC	A/D	Rv1319c	.	nonsyn	nonessential	no
lineage4.6.1	1483652	566	A/G	189	CTG/CCG	L/P	Rv1320c	.	nonsyn	nonessential	no
lineage4.6.1	1537771	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1	1544349	991	T/G	331	TGG/GGG	W/G	Rv1371	.	nonsyn	essential	no
lineage4.6.1	1597405	525	G/A	175	CCG/CCA	P/P	Rv1422	.	syn	essential	no
lineage4.6.1	1620135	345	A/G	115	GGA/GGG	G/G	Rv1442	bisC	syn	nonessential	no
lineage4.6.1	1638211	19	T/C	7	ACC/GCC	T/A	Rv1452c	PE_PGRS28	nonsyn	ND	no
lineage4.6.1	1638212	18	T/G	6	GTA/GTC	V/V	Rv1452c	PE_PGRS28	syn	ND	no
lineage4.6.1	1736577	59	A/G	20	GAA/GGA	E/G	Rv1536	ileS	nonsyn	nonessential	no
lineage4.6.1	1751042	3349	C/T	1117	CCC/TCC	P/S	Rv1547	dnaE1	nonsyn	essential	no
lineage4.6.1	1781577	488	G/A	163	ACC/ATC	T/I	Rv1576c	.	nonsyn	ND	no
lineage4.6.1	1978166	1402	G/T	468	CAG/AAG	Q/K	Rv1750c	fadD1	nonsyn	nonessential	no
lineage4.6.1	1987394	303	C/T	101	GCG/GCA	A/A	Rv1755c	plcD	syn	nonessential	no
lineage4.6.1	1994939	116	G/A	39	ACC/ATC	T/I	Rv1761c	.	nonsyn	nonessential	no
lineage4.6.1	2033748	1509	G/C	503	CGG/CGC	R/R	Rv1795	eccD5	syn	nonessential	no
lineage4.6.1	2123169	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.1	2165928	1384	G/T	462	CCG/ACG	P/T	Rv1917c	PPE34	nonsyn	ND	no
lineage4.6.1	2184781	177	G/T	59	GGC/GGA	G/G	Rv1933c	fadE18	syn	nonessential	no
lineage4.6.1	2273627	882	C/T	294	GGG/GGA	G/G	Rv2027c	dosT	syn	nonessential	no
lineage4.6.1	2310543	213	G/A	71	GGC/GGT	G/G	Rv2051c	ppm1	syn	nonessential	no
lineage4.6.1	2346672	653	T/C	218	GAC/GGC	D/G	Rv2089c	pepE	nonsyn	nonessential	no
lineage4.6.1	2355511	1167	G/A	389	GTC/GTT	V/V	Rv2097c	pafA	syn	nonessential	no
lineage4.6.1	2374245	412	C/T	138	CAG/TAG	Q/*	Rv2114	.	nonsyn	nonessential	no
lineage4.6.1	2400467	1256	G/A	419	ACC/ATC	T/I	Rv2141c	.	nonsyn	nonessential	no
lineage4.6.1	2440953	768	G/T	256	CGC/CGA	R/R	Rv2178c	aroG	syn	essential	yes
lineage4.6.1	2453645	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1	2465997	1001	T/G	334	ATC/AGC	I/S	Rv2201	asnB	nonsyn	essential	no
lineage4.6.1	2551572	13	A/C	5	ACA/CCA	T/P	Rv2280	.	nonsyn	nonessential	no
lineage4.6.1	2795160	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1	2807237	573	G/A	191	GTG/GTA	V/V	Rv2491	.	syn	nonessential	no
lineage4.6.1	2816034	847	G/A	283	CCC/TCC	P/S	Rv2501c	accA1	nonsyn	nonessential	no
lineage4.6.1	2836257	473	G/A	158	GGC/GAC	G/D	Rv2519	PE26	nonsyn	ND	no
lineage4.6.1	2897375	429	T/G	143	CGA/CGC	R/R	Rv2572c	aspS	syn	nonessential	no
lineage4.6.1	2996876	138	A/C	46	CTA/CTC	L/L	Rv2681	.	syn	nonessential	no
lineage4.6.1	3020515	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1	3143100	529	A/G	177	TGC/CGC	C/R	Rv2836c	dinF	nonsyn	nonessential	no
lineage4.6.1	3189523	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1	3300196	375	G/A	125	TTC/TTT	F/F	Rv2949c	.	syn	nonessential	no
lineage4.6.1	3304753	313	G/A	105	GCC/ACC	A/T	Rv2952	.	nonsyn	nonessential	no
lineage4.6.1	3317702	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1	3371719	12	G/A	4	ATC/ATT	I/I	Rv3012c	gatC	syn	nonessential	no
lineage4.6.1	3477917	269	C/T	90	CCA/CTA	P/L	Rv3109	moaA1	nonsyn	essential	no
lineage4.6.1	3490749	903	C/T	301	TTG/TTA	L/L	Rv3125c	PPE49	syn	ND	no
lineage4.6.1	3569029	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1	3644061	885	C/T	295	ATC/ATT	I/I	Rv3263	.	syn	nonessential	no
lineage4.6.1	3687908	1535	T/C	512	TAC/TGC	Y/C	Rv3302c	glpD2	nonsyn	nonessential	no
lineage4.6.1	3697152	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1	3699253	1133	C/G	378	CCG/CGG	P/R	Rv3311	.	nonsyn	nonessential	no
lineage4.6.1	3735508	1428	G/A	476	CTC/CTT	L/L	Rv3343c	PPE54	syn	ND	no
lineage4.6.1	3747403	5782	C/A	1928	GGC/TGC	G/C	Rv3347c	PPE55	nonsyn	ND	no
lineage4.6.1	3752761	424	A/G	142	TTG/CTG	L/L	Rv3347c	PPE55	syn	ND	no
lineage4.6.1	3752778	407	A/G	136	GTC/GCC	V/A	Rv3347c	PPE55	nonsyn	ND	no
lineage4.6.1	3792796	453	G/A	151	AAC/AAT	N/N	Rv3378c	.	syn	ND	no
lineage4.6.1	3879331	362	G/A	121	TCG/TTG	S/L	Rv3459c	rpsK	nonsyn	essential	no
lineage4.6.1	3895269	844	G/C	282	GAA/CAA	E/Q	Rv3478	PPE60	nonsyn	ND	no
lineage4.6.1	4018415	58	G/A	20	GGA/AGA	G/R	Rv3576	lppH	nonsyn	nonessential	no
lineage4.6.1	4109796	686	G/A	229	CCG/CTG	P/L	Rv3668c	.	nonsyn	nonessential	no
lineage4.6.1	4139670	86	C/T	29	TGC/TAC	C/Y	Rv3696c	glpK	nonsyn	nonessential	no
lineage4.6.1	4148669	294	C/T	98	ACG/ACA	T/T	Rv3705c	.	syn	nonessential	no
lineage4.6.1	4155050	1311	G/A	437	GTG/GTA	V/V	Rv3710	leuA	syn	essential	yes
lineage4.6.1	4160407	94	A/G	32	TTG/CTG	L/L	Rv3715c	recR	syn	nonessential	no
lineage4.6.1	4162073	186	C/T	62	CAG/CAA	Q/Q	Rv3718c	.	syn	nonessential	no
lineage4.6.1	4189841	392	T/C	131	TAC/TGC	Y/C	Rv3738c	PPE66	nonsyn	ND	no
lineage4.6.1	4212196	.	A/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1	4215467	309	G/A	103	GGC/GGT	G/G	Rv3770c	.	syn	nonessential	no
lineage4.6.1	4250742	865	G/A	289	GGC/AGC	G/S	Rv3796	.	nonsyn	nonessential	no
lineage4.6.1	4257849	3298	G/A	1100	CGG/TGG	R/W	Rv3800c	pks13	nonsyn	essential	no
lineage4.6.1	4260268	879	G/C	293	GCC/GCG	A/A	Rv3800c	pks13	syn	essential	yes
lineage4.6.1	4287195	475	A/G	159	ACG/GCG	T/A	Rv3822	.	nonsyn	nonessential	no
lineage4.6.1	4311528	180	G/A	60	GCC/GCT	A/A	Rv3837c	.	syn	nonessential	no
lineage4.6.1.1	42747	619	C/T	207	GAC/AAC	D/N	Rv0040c	mtc28	nonsyn	nonessential	no
lineage4.6.1.1	87257	545	C/A	182	CGG/CTG	R/L	Rv0078A	.	nonsyn	nonessential	no
lineage4.6.1.1	207160	347	G/A	116	AGC/AAC	S/N	Rv0175	.	nonsyn	essential	no
lineage4.6.1.1	215613	645	G/A	215	GCG/GCA	A/A	Rv0184	.	syn	nonessential	no
lineage4.6.1.1	275859	105	G/T	35	AAC/AAA	N/K	Rv0230c	php	nonsyn	nonessential	no
lineage4.6.1.1	295724	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	396180	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	410264	903	C/T	301	GCC/GCT	A/A	Rv0341	iniB	syn	ND	no
lineage4.6.1.1	433654	1026	G/A	342	GGC/GGT	G/G	Rv0355c	PPE8	syn	ND	no
lineage4.6.1.1	684363	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	859649	424	C/T	142	GGC/AGC	G/S	Rv0766c	cyp123	nonsyn	nonessential	no
lineage4.6.1.1	874787	555	G/A	185	CCG/CCA	P/P	Rv0781	ptrBa	syn	essential	yes
lineage4.6.1.1	876378	1647	T/C	549	GCT/GCC	A/A	Rv0782	ptrBb	syn	nonessential	no
lineage4.6.1.1	984493	691	C/T	231	CTG/TTG	L/L	Rv0886	fprB	syn	nonessential	no
lineage4.6.1.1	996871	348	G/A	116	TTG/TTA	L/L	Rv0894	.	syn	essential	yes
lineage4.6.1.1	1177446	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	1199762	609	A/G	203	CGT/CGC	R/R	Rv1075c	.	syn	nonessential	no
lineage4.6.1.1	1204882	816	A/G	272	GTA/GTG	V/V	Rv1079	metB	syn	nonessential	no
lineage4.6.1.1	1371182	263	G/A	88	GGG/GAG	G/E	Rv1228	lpqX	nonsyn	nonessential	no
lineage4.6.1.1	1439332	426	C/T	142	GTC/GTT	V/V	Rv1286	cysN	syn	essential	yes
lineage4.6.1.1	1597696	816	G/A	272	GAG/GAA	E/E	Rv1422	.	syn	essential	yes
lineage4.6.1.1	1695518	429	C/A	143	TCG/TCT	S/S	Rv1505c	.	syn	nonessential	no
lineage4.6.1.1	1808795	893	A/C	298	GAC/GCC	D/A	Rv1609	trpE	nonsyn	essential	no
lineage4.6.1.1	1814629	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	1917289	592	C/T	198	CGG/TGG	R/W	Rv1692	.	nonsyn	nonessential	no
lineage4.6.1.1	1955910	1336	T/G	446	AGG/CGG	R/R	Rv1730c	.	syn	essential	yes
lineage4.6.1.1	1989042	1	A/T	1	ATG/TTG	M/L	Rv1758	cut1	nonsyn	nonessential	no
lineage4.6.1.1	1989043	2	T/C	1	ATG/ACG	M/T	Rv1758	cut1	nonsyn	nonessential	no
lineage4.6.1.1	1989044	3	G/A	1	ATG/ATA	M/I	Rv1758	cut1	nonsyn	nonessential	no
lineage4.6.1.1	1990942	1636	C/T	546	GGC/AGC	G/S	Rv1759c	wag22	nonsyn	nonessential	no
lineage4.6.1.1	2009881	710	T/C	237	ATC/ACC	I/T	Rv1775	.	nonsyn	nonessential	no
lineage4.6.1.1	2143217	697	T/C	233	TCG/CCG	S/P	Rv1895	.	nonsyn	nonessential	no
lineage4.6.1.1	2297287	9700	G/T	3234	CAG/AAG	Q/K	Rv2048c	pks12	nonsyn	essential	no
lineage4.6.1.1	2331061	69	G/T	23	CTG/CTT	L/L	Rv2074	.	syn	nonessential	no
lineage4.6.1.1	2377785	528	C/T	176	GTG/GTA	V/V	Rv2118c	.	syn	nonessential	no
lineage4.6.1.1	2748712	1514	T/G	505	GAC/GCC	D/A	Rv2448c	valS	nonsyn	essential	no
lineage4.6.1.1	2795713	1673	C/T	558	GGC/GAC	G/D	Rv2487c	PE_PGRS42	nonsyn	ND	no
lineage4.6.1.1	2823309	1285	G/A	429	CGG/TGG	R/W	Rv2508c	.	nonsyn	nonessential	no
lineage4.6.1.1	2840091	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	2971419	869	G/A	290	CGC/CAC	R/H	Rv2646	.	nonsyn	ND	no
lineage4.6.1.1	3021929	91	C/T	31	CCG/TCG	P/S	Rv2709	.	nonsyn	nonessential	no
lineage4.6.1.1	3028658	561	G/A	187	TTG/TTA	L/L	Rv2715	.	syn	ND	no
lineage4.6.1.1	3181029	734	A/C	245	GTG/GGG	V/G	Rv2869c	rip	nonsyn	essential	no
lineage4.6.1.1	3240568	604	T/G	202	ACA/CCA	T/P	Rv2926c	.	nonsyn	essential	no
lineage4.6.1.1	3353548	1522	C/G	508	GAC/CAC	D/H	Rv2996c	serA1	nonsyn	essential	no
lineage4.6.1.1	3366092	359	A/C	120	CTC/CGC	L/R	Rv3007c	.	nonsyn	nonessential	no
lineage4.6.1.1	3405776	641	A/G	214	CAC/CGC	H/R	Rv3044	fecB	nonsyn	nonessential	no
lineage4.6.1.1	3417231	527	T/C	176	ATG/ACG	M/T	Rv3056	dinP	nonsyn	nonessential	no
lineage4.6.1.1	3467096	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	3562270	903	G/C	301	GCC/GCG	A/A	Rv3193c	.	syn	nonessential	no
lineage4.6.1.1	3607613	642	A/G	214	GGT/GGC	G/G	Rv3230c	.	syn	nonessential	no
lineage4.6.1.1	3692193	616	C/T	206	GCC/ACC	A/T	Rv3305c	amiA1	nonsyn	nonessential	no
lineage4.6.1.1	3819169	1128	G/A	376	CCG/CCA	P/P	Rv3401	.	syn	nonessential	no
lineage4.6.1.1	3842425	187	T/A	63	TTG/ATG	L/M	Rv3425	PPE57	nonsyn	ND	no
lineage4.6.1.1	3842636	398	A/G	133	GAC/GGC	D/G	Rv3425	PPE57	nonsyn	ND	no
lineage4.6.1.1	3842637	399	C/A	133	GAC/GAA	D/E	Rv3425	PPE57	nonsyn	ND	no
lineage4.6.1.1	3859576	87	G/A	29	CAC/CAT	H/H	Rv3439c	.	syn	nonessential	no
lineage4.6.1.1	3920950	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	3963665	61	C/T	21	CTG/TTG	L/L	Rv3527	.	syn	nonessential	no
lineage4.6.1.1	4052608	276	G/A	92	TTC/TTT	F/F	Rv3610c	ftsH	syn	essential	yes
lineage4.6.1.1	4076615	132	A/C	44	GCA/GCC	A/A	Rv3637	.	syn	ND	no
lineage4.6.1.1	4136497	618	C/G	206	AAG/AAC	K/N	Rv3694c	.	nonsyn	nonessential	no
lineage4.6.1.1	4287017	297	G/A	99	GCG/GCA	A/A	Rv3822	.	syn	nonessential	no
lineage4.6.1.1	4328329	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1.1	4377461	2992	G/A	998	CTC/TTC	L/F	Rv3894c	eccC2	nonsyn	nonessential	no
lineage4.6.1.1	4406749	783	G/A	261	CTC/CTT	L/L	Rv3918c	parA	syn	essential	yes
lineage4.6.1.1	4409645	425	G/A	142	TCG/TTG	S/L	Rv3921c	.	nonsyn	essential	no
lineage4.6.1.2	56334	639	G/C	213	TCG/TCC	S/S	Rv0051	.	syn	nonessential	no
lineage4.6.1.2	79162	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	117403	7403	C/T	2468	GCG/GTG	A/V	Rv0101	nrp	nonsyn	essential	no
lineage4.6.1.2	130449	93	C/A	31	GCG/GCT	A/A	Rv0107c	ctpI	syn	nonessential	no
lineage4.6.1.2	138788	276	C/T	92	TTC/TTT	F/F	Rv0115	hddA	syn	nonessential	no
lineage4.6.1.2	232110	464	C/T	155	ACG/ATG	T/M	Rv0196	.	nonsyn	nonessential	no
lineage4.6.1.2	281628	987	C/A	329	TTG/TTT	L/F	Rv0235c	.	nonsyn	nonessential	no
lineage4.6.1.2	364563	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	428563	6117	G/A	2039	AAC/AAT	N/N	Rv0355c	PPE8	syn	ND	no
lineage4.6.1.2	483874	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	524095	439	A/G	147	TCG/CCG	S/P	Rv0435c	.	nonsyn	nonessential	no
lineage4.6.1.2	578032	369	C/T	123	GCC/GCT	A/A	Rv0488	.	syn	nonessential	no
lineage4.6.1.2	818798	843	G/T	281	ATC/ATA	I/I	Rv0726c	.	syn	nonessential	no
lineage4.6.1.2	925784	424	G/A	142	GCC/ACC	A/T	Rv0833	PE_PGRS13	nonsyn	ND	no
lineage4.6.1.2	1098698	1191	C/G	397	GGC/GGG	G/G	Rv0982	mprB	syn	essential	yes
lineage4.6.1.2	1186775	49	C/T	17	GTC/ATC	V/I	Rv1063c	.	nonsyn	nonessential	no
lineage4.6.1.2	1263633	496	C/T	166	GCC/ACC	A/T	Rv1135c	PPE16	nonsyn	ND	no
lineage4.6.1.2	1391868	1185	G/A	395	GAC/GAT	D/D	Rv1248c	.	syn	essential	yes
lineage4.6.1.2	1416410	938	A/C	313	CTG/CGG	L/R	Rv1267c	embR	nonsyn	nonessential	no
lineage4.6.1.2	1430158	97	G/A	33	GCC/ACC	A/T	Rv1279	.	nonsyn	nonessential	no
lineage4.6.1.2	1445922	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	1501468	543	G/C	181	CCG/CCC	P/P	Rv1332	.	syn	essential	yes
lineage4.6.1.2	1502795	155	T/C	52	ATG/ACG	M/T	Rv1334	mec	nonsyn	nonessential	no
lineage4.6.1.2	1706034	562	A/G	188	TGC/CGC	C/R	Rv1514c	.	nonsyn	essential	no
lineage4.6.1.2	1706262	334	T/C	112	AAG/GAG	K/E	Rv1514c	.	nonsyn	essential	no
lineage4.6.1.2	1726541	1869	G/A	623	TAC/TAT	Y/Y	Rv1527c	pks5	syn	nonessential	no
lineage4.6.1.2	1736992	474	G/C	158	CTG/CTC	L/L	Rv1536	ileS	syn	nonessential	no
lineage4.6.1.2	1757105	1661	A/C	554	CAG/CCG	Q/P	Rv1551	plsB1	nonsyn	nonessential	no
lineage4.6.1.2	1763855	428	A/G	143	GAT/GGT	D/G	Rv1559	ilvA	nonsyn	nonessential	no
lineage4.6.1.2	1832350	1686	G/A	562	CAG/CAA	Q/Q	Rv1629	polA	syn	essential	yes
lineage4.6.1.2	2046073	770	A/G	257	GTC/GCC	V/A	Rv1803c	PE_PGRS32	nonsyn	ND	no
lineage4.6.1.2	2058447	192	G/A	64	TTG/TTA	L/L	Rv1816	.	syn	nonessential	no
lineage4.6.1.2	2074806	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	2294876	12111	G/A	4037	CGC/CGT	R/R	Rv2048c	pks12	syn	essential	no
lineage4.6.1.2	2294894	12093	G/C	4031	CTC/CTG	L/L	Rv2048c	pks12	syn	essential	no
lineage4.6.1.2	2294896	12091	G/A	4031	CTC/TTC	L/F	Rv2048c	pks12	nonsyn	essential	no
lineage4.6.1.2	2294903	12084	G/A	4028	TTC/TTT	F/F	Rv2048c	pks12	syn	essential	no
lineage4.6.1.2	2447282	219	T/G	73	GAA/GAC	E/D	Rv2185c	TB16.3	nonsyn	nonessential	no
lineage4.6.1.2	2494263	1137	G/A	379	TAC/TAT	Y/Y	Rv2223c	.	syn	ND	no
lineage4.6.1.2	2562752	154	G/A	52	GTA/ATA	V/I	Rv2290	lppO	nonsyn	ND	no
lineage4.6.1.2	2639364	172	C/A	58	GGT/TGT	G/C	Rv2356c	PPE40	nonsyn	ND	no
lineage4.6.1.2	2794793	444	G/A	148	ATG/ATA	M/I	Rv2486	echA14	nonsyn	nonessential	no
lineage4.6.1.2	2899538	200	A/C	67	GAC/GCC	D/A	Rv2575	.	nonsyn	nonessential	no
lineage4.6.1.2	2902562	970	C/G	324	GCG/CCG	A/P	Rv2578c	.	nonsyn	nonessential	no
lineage4.6.1.2	2965900	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	3069778	306	G/T	102	TTC/TTA	F/L	Rv2756c	hsdM	nonsyn	nonessential	no
lineage4.6.1.2	3112675	420	G/A	140	GAC/GAT	D/D	Rv2804c	.	syn	nonessential	no
lineage4.6.1.2	3332626	129	C/T	43	CTG/CTA	L/L	Rv2976c	ung	syn	essential	yes
lineage4.6.1.2	3423426	2002	G/A	668	CTA/TTA	L/L	Rv3061c	fadE22	syn	essential	yes
lineage4.6.1.2	3480435	362	A/G	121	CAC/CGC	H/R	Rv3113	.	nonsyn	essential	no
lineage4.6.1.2	3515582	171	C/T	57	TCC/TCT	S/S	Rv3150	nuoF	syn	nonessential	no
lineage4.6.1.2	3696179	1316	T/C	439	GTG/GCG	V/A	Rv3308	pmmB	nonsyn	nonessential	no
lineage4.6.1.2	3803918	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	3898637	2818	G/A	940	GTC/ATC	V/I	Rv3479	.	nonsyn	nonessential	no
lineage4.6.1.2	3958797	350	C/T	117	GCC/GTC	A/V	Rv3522	ltp4	nonsyn	nonessential	no
lineage4.6.1.2	4013927	417	G/A	139	TCG/TCA	S/S	Rv3572	.	syn	nonessential	no
lineage4.6.1.2	4091590	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	4148377	586	C/T	196	GGC/AGC	G/S	Rv3705c	.	nonsyn	nonessential	no
lineage4.6.1.2	4159830	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.6.1.2	4179179	895	A/G	299	ATC/GTC	I/V	Rv3729	.	nonsyn	nonessential	no
lineage4.6.1.2	4214751	137	C/A	46	ACC/AAC	T/N	Rv3769	.	nonsyn	nonessential	no
lineage4.6.1.2	4245055	1823	C/A	608	ACC/AAC	T/N	Rv3794	embA	nonsyn	essential	no
lineage4.6.1.2	4315691	906	C/T	302	GAG/GAA	E/E	Rv3843c	.	syn	nonessential	no
lineage4.6.1.2	4367911	611	A/G	204	ATT/ACT	I/T	Rv3885c	eccE2	nonsyn	nonessential	no
lineage4.6.2	23854	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2	49079	861	C/G	287	CTG/CTC	L/L	Rv0045c	.	syn	nonessential	no
lineage4.6.2	140215	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2	206453	1223	G/C	408	GGA/GCA	G/A	Rv0174	mce1F	nonsyn	nonessential	no
lineage4.6.2	419387	439	A/G	147	ACC/GCC	T/A	Rv0349	.	nonsyn	nonessential	no
lineage4.6.2	473968	1188	C/A	396	CGC/CGA	R/R	Rv0393	.	syn	nonessential	no
lineage4.6.2	473969	1189	A/G	397	ACC/GCC	T/A	Rv0393	.	nonsyn	nonessential	no
lineage4.6.2	473971	1191	C/G	397	ACC/ACG	T/T	Rv0393	.	syn	nonessential	no
lineage4.6.2	500714	305	A/G	102	CTG/CCG	L/P	Rv0414c	thiE	nonsyn	essential	no
lineage4.6.2	561021	691	G/A	231	CAC/TAC	H/Y	Rv0470c	pcaA	nonsyn	essential	no
lineage4.6.2	696916	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2	778298	183	C/T	61	GCG/GCA	A/A	Rv0676c	mmpL5	syn	nonessential	no
lineage4.6.2	863340	85	T/C	29	TGG/CGG	W/R	Rv0770	.	nonsyn	nonessential	no
lineage4.6.2	868006	346	C/T	116	GTG/ATG	V/M	Rv0774c	.	nonsyn	nonessential	no
lineage4.6.2	1010532	397	G/A	133	GCG/ACG	A/T	Rv0907	.	nonsyn	nonessential	no
lineage4.6.2	1065149	23	C/T	8	CCC/CTC	P/L	Rv0954	.	nonsyn	nonessential	no
lineage4.6.2	1178910	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2	1239045	791	C/T	264	GCC/GTC	A/V	Rv1112	.	nonsyn	nonessential	no
lineage4.6.2	1289555	2228	C/G	743	ACC/AGC	T/S	Rv1161	narG	nonsyn	nonessential	no
lineage4.6.2	1308161	66	C/T	22	CGG/CGA	R/R	Rv1175c	fadH	syn	nonessential	no
lineage4.6.2	1467753	66	G/A	22	CTG/CTA	L/L	Rv1312	.	syn	nonessential	no
lineage4.6.2	1487166	6	G/T	2	ACG/ACT	T/T	Rv1324	.	syn	nonessential	no
lineage4.6.2	1534538	73	C/T	25	GCA/ACA	A/T	Rv1362c	.	nonsyn	nonessential	no
lineage4.6.2	1886982	471	C/T	157	ATC/ATT	I/I	Rv1663	pks17	syn	essential	yes
lineage4.6.2	1939026	189	C/T	63	GTC/GTT	V/V	Rv1711	.	syn	essential	yes
lineage4.6.2	1983273	1503	G/A	501	GGC/GGT	G/G	Rv1753c	PPE24	syn	ND	no
lineage4.6.2	2027180	391	T/C	131	TCG/CCG	S/P	Rv1789	PPE26	nonsyn	ND	no
lineage4.6.2	2030702	9	T/C	3	ATT/ATC	I/I	Rv1793	esxN	syn	ND	no
lineage4.6.2	2049673	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2	2063187	1542	G/A	514	CCC/CCT	P/P	Rv1819c	bacA	syn	nonessential	no
lineage4.6.2	2340797	2089	A/G	697	ATC/GTC	I/V	Rv2082	.	nonsyn	nonessential	no
lineage4.6.2	2821089	508	C/A	170	GGT/TGT	G/C	Rv2505c	fadD35	nonsyn	nonessential	no
lineage4.6.2	2852973	99	G/A	33	CGG/CGA	R/R	Rv2529	.	syn	nonessential	no
lineage4.6.2	2932708	435	G/A	145	TTC/TTT	F/F	Rv2605c	tesB2	syn	nonessential	no
lineage4.6.2	2976830	80	T/A	27	CAA/CTA	Q/L	Rv2653c	.	nonsyn	ND	no
lineage4.6.2	2996208	104	C/A	35	GCT/GAT	A/D	Rv2680	.	nonsyn	nonessential	no
lineage4.6.2	3101653	510	G/A	170	TAC/TAT	Y/Y	Rv2792c	.	syn	nonessential	no
lineage4.6.2	3135762	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2	3161903	159	G/A	53	AAC/AAT	N/N	Rv2852c	mqo	syn	nonessential	no
lineage4.6.2	3300104	467	C/T	156	CGT/CAT	R/H	Rv2949c	.	nonsyn	nonessential	no
lineage4.6.2	3407446	243	G/C	81	ACC/ACG	T/T	Rv3046c	.	syn	nonessential	no
lineage4.6.2	3477794	146	A/G	49	CAC/CGC	H/R	Rv3109	moaA1	nonsyn	essential	no
lineage4.6.2	3724397	494	G/A	165	AGC/AAC	S/N	Rv3338	.	nonsyn	nonessential	no
lineage4.6.2	3804942	78	C/T	26	TGC/TGT	C/C	Rv3390	lpqD	syn	nonessential	no
lineage4.6.2	3856478	412	G/A	138	CGG/TGG	R/W	Rv3436c	glmS	nonsyn	essential	no
lineage4.6.2	3907324	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2	4076869	386	A/G	129	AAA/AGA	K/R	Rv3637	.	nonsyn	ND	no
lineage4.6.2	4107970	179	C/T	60	TCG/TTG	S/L	Rv3667	acs	nonsyn	nonessential	no
lineage4.6.2	4125058	642	G/C	214	CGG/CGC	R/R	Rv3683	.	syn	essential	yes
lineage4.6.2	4260742	405	G/A	135	CCC/CCT	P/P	Rv3800c	pks13	syn	essential	yes
lineage4.6.2	4315495	68	G/A	23	GCT/GTT	A/V	Rv3842c	glpQ1	nonsyn	nonessential	no
lineage4.6.2	4404575	593	G/C	198	CCG/CGG	P/R	Rv3916c	.	nonsyn	nonessential	no
lineage4.6.2.1	324	324	C/G	108	GCC/GCG	A/A	Rv0001	dnaA	syn	essential	yes
lineage4.6.2.1	10219	306	C/G	102	ACC/ACG	T/T	Rv0007	.	syn	nonessential	no
lineage4.6.2.1	14192	104	C/T	35	GCG/GTG	A/V	Rv0012	.	nonsyn	nonessential	no
lineage4.6.2.1	29132	771	C/G	257	CCC/CCG	P/P	Rv0024	.	syn	nonessential	no
lineage4.6.2.1	42531	835	C/T	279	GCG/ACG	A/T	Rv0040c	mtc28	nonsyn	nonessential	no
lineage4.6.2.1	60473	78	G/A	26	CAG/CAA	Q/Q	Rv0058	dnaB	syn	essential	yes
lineage4.6.2.1	76695	928	C/T	310	GAC/AAC	D/N	Rv0069c	sdaA	nonsyn	nonessential	no
lineage4.6.2.1	79032	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	131398	17	C/T	6	ACA/ATA	T/I	Rv0109	PE_PGRS1	nonsyn	ND	no
lineage4.6.2.1	180846	51	A/C	17	AAT/AAG	N/K	Rv0152c	PE2	nonsyn	ND	no
lineage4.6.2.1	183310	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	192841	295	C/A	99	GTC/TTC	V/F	Rv0162c	adhE1	nonsyn	nonessential	no
lineage4.6.2.1	197825	166	G/A	56	GAG/AAG	E/K	Rv0168	yrbE1B	nonsyn	nonessential	no
lineage4.6.2.1	288927	500	C/T	167	GCC/GTC	A/V	Rv0238	.	nonsyn	nonessential	no
lineage4.6.2.1	312689	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	315096	671	C/G	224	CGG/CCG	R/P	Rv0263c	.	nonsyn	nonessential	no
lineage4.6.2.1	322680	1350	C/T	450	TGC/TGT	C/C	Rv0267	narU	syn	nonessential	no
lineage4.6.2.1	328659	1050	G/A	350	GAC/GAT	D/D	Rv0272c	.	syn	nonessential	no
lineage4.6.2.1	341932	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	347274	1640	C/T	547	ACG/ATG	T/M	Rv0284	eccC3	nonsyn	essential	no
lineage4.6.2.1	369765	3000	G/A	1000	GGC/GGT	G/G	Rv0304c	PPE5	syn	ND	no
lineage4.6.2.1	371030	1735	C/T	579	GGA/AGA	G/R	Rv0304c	PPE5	nonsyn	ND	no
lineage4.6.2.1	388556	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	428134	6546	G/A	2182	AAC/AAT	N/N	Rv0355c	PPE8	syn	ND	no
lineage4.6.2.1	428138	6542	T/A	2181	TAC/TTC	Y/F	Rv0355c	PPE8	nonsyn	ND	no
lineage4.6.2.1	438732	8	T/A	3	AAG/ATG	K/M	Rv0360c	.	nonsyn	nonessential	no
lineage4.6.2.1	438755	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	484208	232	G/C	78	GGA/CGA	G/R	Rv0404	fadD30	nonsyn	essential	no
lineage4.6.2.1	489928	778	C/T	260	GCC/ACC	A/T	Rv0406c	.	nonsyn	nonessential	no
lineage4.6.2.1	496101	1214	C/T	405	GGG/GAG	G/E	Rv0410c	pknG	nonsyn	essential	no
lineage4.6.2.1	506563	1478	A/G	493	TAT/TGT	Y/C	Rv0419	lpqM	nonsyn	nonessential	no
lineage4.6.2.1	507009	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	528669	62	C/G	21	GCC/GGC	A/G	Rv0440	groEL2	nonsyn	ND	no
lineage4.6.2.1	534588	628	G/C	210	CCG/GCG	P/A	Rv0446c	.	nonsyn	nonessential	no
lineage4.6.2.1	546849	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	560437	550	A/C	184	ACG/CCG	T/P	Rv0469	umaA	nonsyn	nonessential	no
lineage4.6.2.1	593741	951	C/T	317	GCC/GCT	A/A	Rv0502	.	syn	nonessential	no
lineage4.6.2.1	729690	477	G/A	159	TAC/TAT	Y/Y	Rv0633c	.	syn	nonessential	no
lineage4.6.2.1	737116	88	C/T	30	GAT/AAT	D/N	Rv0642c	mmaA4	nonsyn	nonessential	no
lineage4.6.2.1	770917	336	C/T	112	CCC/CCT	P/P	Rv0671	lpqP	syn	nonessential	no
lineage4.6.2.1	780743	23	G/A	8	AGC/AAC	S/N	Rv0681	.	nonsyn	nonessential	no
lineage4.6.2.1	794822	108	C/T	36	TCC/TCT	S/S	Rv0695	.	syn	nonessential	no
lineage4.6.2.1	810086	141	C/T	47	GCC/GCT	A/A	Rv0713	.	syn	nonessential	no
lineage4.6.2.1	835647	494	G/A	165	TGG/TAG	W/*	Rv0745	.	nonsyn	nonessential	no
lineage4.6.2.1	867428	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	867579	773	T/A	258	TAT/TTT	Y/F	Rv0774c	.	nonsyn	nonessential	no
lineage4.6.2.1	884287	514	C/T	172	GGA/AGA	G/R	Rv0790c	.	nonsyn	nonessential	no
lineage4.6.2.1	896119	300	C/T	100	TTC/TTT	F/F	Rv0803	purL	syn	essential	yes
lineage4.6.2.1	904657	933	C/T	311	AAC/AAT	N/N	Rv0809	purM	syn	nonessential	no
lineage4.6.2.1	944626	284	C/T	95	GCC/GTC	A/V	Rv0847	lpqS	nonsyn	nonessential	no
lineage4.6.2.1	945523	586	C/T	196	CTG/TTG	L/L	Rv0848	cysK2	syn	nonessential	no
lineage4.6.2.1	958630	1522	C/T	508	GAC/AAC	D/N	Rv0861c	ercc3	nonsyn	nonessential	no
lineage4.6.2.1	1024377	167	C/T	56	CCT/CTT	P/L	Rv0918	.	nonsyn	nonessential	no
lineage4.6.2.1	1030368	210	C/G	70	CTG/CTC	L/L	Rv0923c	.	syn	nonessential	no
lineage4.6.2.1	1069877	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	1077340	496	T/G	166	AAG/CAG	K/Q	Rv0966c	.	nonsyn	nonessential	no
lineage4.6.2.1	1088939	1237	C/T	413	GCG/ACG	A/T	Rv0976c	.	nonsyn	nonessential	no
lineage4.6.2.1	1094538	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	1110469	201	C/T	67	ACC/ACT	T/T	Rv0994	moeA1	syn	nonessential	no
lineage4.6.2.1	1117848	664	G/T	222	GCC/TCC	A/S	Rv1001	arcA	nonsyn	nonessential	no
lineage4.6.2.1	1127421	333	C/T	111	CAC/CAT	H/H	Rv1008	tatD	syn	nonessential	no
lineage4.6.2.1	1165713	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	1171856	298	C/T	100	GCT/ACT	A/T	Rv1048c	.	nonsyn	nonessential	no
lineage4.6.2.1	1200672	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	1214602	90	C/T	30	GCC/GCT	A/A	Rv1088	PE9	syn	ND	no
lineage4.6.2.1	1233101	856	G/A	286	CGC/TGC	R/C	Rv1106c	.	nonsyn	nonessential	no
lineage4.6.2.1	1245962	834	A/G	278	GGA/GGG	G/G	Rv1122	gnd2	syn	essential	yes
lineage4.6.2.1	1272053	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	1275303	404	G/C	135	CGG/CCG	R/P	Rv1147	.	nonsyn	nonessential	no
lineage4.6.2.1	1275411	512	G/A	171	TGT/TAT	C/Y	Rv1147	.	nonsyn	nonessential	no
lineage4.6.2.1	1277785	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	1313459	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	1323466	1947	G/A	649	TTG/TTA	L/L	Rv1183	mmpL10	syn	essential	yes
lineage4.6.2.1	1335964	171	G/T	57	GCG/GCT	A/A	Rv1193	fadD36	syn	essential	yes
lineage4.6.2.1	1346944	1681	A/C	561	TTC/GTC	F/V	Rv1204c	.	nonsyn	essential	no
lineage4.6.2.1	1402881	506	C/A	169	CGT/CTT	R/L	Rv1255c	.	nonsyn	ND	no
lineage4.6.2.1	1404009	595	C/T	199	GGG/AGG	G/R	Rv1256c	cyp130	nonsyn	ND	no
lineage4.6.2.1	1415044	797	C/T	266	GGC/GAC	G/D	Rv1266c	pknH	nonsyn	nonessential	no
lineage4.6.2.1	1416702	646	A/G	216	TAC/CAC	Y/H	Rv1267c	embR	nonsyn	nonessential	no
lineage4.6.2.1	1438578	670	A/G	224	ATC/GTC	I/V	Rv1285	cysD	nonsyn	essential	no
lineage4.6.2.1	1526904	293	A/G	98	CAG/CGG	Q/R	Rv1358	.	nonsyn	nonessential	no
lineage4.6.2.1	1565230	138	C/G	46	CGC/CGG	R/R	Rv1390	rpoZ	syn	essential	yes
lineage4.6.2.1	1569845	1125	C/T	375	TGG/TGA	W/*	Rv1394c	cyp132	nonsyn	nonessential	no
lineage4.6.2.1	1577942	330	G/A	110	CCG/CCA	P/P	Rv1402	priA	syn	nonessential	no
lineage4.6.2.1	1588887	321	T/C	107	GGT/GGC	G/G	Rv1412	ribC	syn	nonessential	no
lineage4.6.2.1	1600444	787	G/A	263	GTC/ATC	V/I	Rv1425	.	nonsyn	nonessential	no
lineage4.6.2.1	1612637	314	G/C	105	GCA/GGA	A/G	Rv1435c	.	nonsyn	nonessential	no
lineage4.6.2.1	1612642	309	A/G	103	CCT/CCC	P/P	Rv1435c	.	syn	nonessential	no
lineage4.6.2.1	1625769	1194	G/A	398	AAC/AAT	N/N	Rv1447c	zwf2	syn	nonessential	no
lineage4.6.2.1	1687630	747	A/C	249	GGA/GGC	G/G	Rv1496	.	syn	nonessential	no
lineage4.6.2.1	1711095	68	C/T	23	GCC/GTC	A/V	Rv1520	.	nonsyn	nonessential	no
lineage4.6.2.1	1764132	705	C/G	235	GGC/GGG	G/G	Rv1559	ilvA	syn	nonessential	no
lineage4.6.2.1	1779243	56	T/G	19	CAC/CCC	H/P	Rv1572c	.	nonsyn	nonessential	no
lineage4.6.2.1	1864589	794	C/G	265	AGC/ACC	S/T	Rv1651c	PE_PGRS30	nonsyn	ND	no
lineage4.6.2.1	1872460	1098	C/T	366	ACC/ACT	T/T	Rv1658	argG	syn	essential	yes
lineage4.6.2.1	1876202	899	T/C	300	GTC/GCC	V/A	Rv1661	pks7	nonsyn	essential	no
lineage4.6.2.1	1881947	244	G/A	82	GAT/AAT	D/N	Rv1662	pks8	nonsyn	essential	no
lineage4.6.2.1	1900732	244	G/A	82	CGA/TGA	R/*	Rv1675c	cmr	nonsyn	nonessential	no
lineage4.6.2.1	1929358	364	C/T	122	GAC/AAC	D/N	Rv1703c	.	nonsyn	nonessential	no
lineage4.6.2.1	1978211	1357	C/A	453	GGT/TGT	G/C	Rv1750c	fadD1	nonsyn	nonessential	no
lineage4.6.2.1	2010353	203	G/A	68	ACC/ATC	T/I	Rv1776c	.	nonsyn	nonessential	no
lineage4.6.2.1	2022601	3345	C/T	1115	CTC/CTT	L/L	Rv1783	eccC5	syn	nonessential	no
lineage4.6.2.1	2043501	118	T/G	40	TCC/GCC	S/A	Rv1802	PPE30	nonsyn	ND	no
lineage4.6.2.1	2066765	309	G/A	103	CAG/CAA	Q/Q	Rv1821	secA2	syn	essential	yes
lineage4.6.2.1	2067679	1223	C/T	408	GCG/GTG	A/V	Rv1821	secA2	nonsyn	essential	no
lineage4.6.2.1	2083145	1492	G/T	498	CCC/ACC	P/T	Rv1836c	.	nonsyn	nonessential	no
lineage4.6.2.1	2091151	935	C/T	312	AGT/AAT	S/N	Rv1842c	.	nonsyn	nonessential	no
lineage4.6.2.1	2105065	81	C/T	27	CCC/CCT	P/P	Rv1857	modA	syn	nonessential	no
lineage4.6.2.1	2113684	545	T/G	182	GTC/GGC	V/G	Rv1866	.	nonsyn	nonessential	no
lineage4.6.2.1	2152451	445	T/G	149	ACT/CCT	T/P	Rv1906c	.	nonsyn	nonessential	no
lineage4.6.2.1	2164481	2831	C/G	944	GGC/GCC	G/A	Rv1917c	PPE34	nonsyn	ND	no
lineage4.6.2.1	2167169	143	A/G	48	GTG/GCG	V/A	Rv1917c	PPE34	nonsyn	ND	no
lineage4.6.2.1	2192584	491	G/A	164	CGG/CAG	R/Q	Rv1939	.	nonsyn	essential	no
lineage4.6.2.1	2194106	443	T/G	148	GTG/GGG	V/G	Rv1941	.	nonsyn	nonessential	no
lineage4.6.2.1	2215466	210	G/A	70	CGG/CGA	R/R	Rv1971	mce3F	syn	nonessential	no
lineage4.6.2.1	2225515	318	G/A	106	ACC/ACT	T/T	Rv1982c	vapC36	syn	nonessential	no
lineage4.6.2.1	2232463	.	G/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2247787	128	A/C	43	GAG/GCG	E/A	Rv2002	fabG3	nonsyn	nonessential	no
lineage4.6.2.1	2263223	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2267917	192	G/A	64	GCC/GCT	A/A	Rv2023c	.	syn	nonessential	no
lineage4.6.2.1	2276472	2015	T/G	672	GAG/GCG	E/A	Rv2030c	.	nonsyn	nonessential	no
lineage4.6.2.1	2294805	12182	G/A	4061	GCG/GTG	A/V	Rv2048c	pks12	nonsyn	essential	no
lineage4.6.2.1	2337082	1728	C/A	576	TAC/TAA	Y/*	Rv2079	.	nonsyn	nonessential	no
lineage4.6.2.1	2366768	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2382330	1260	A/C	420	GCA/GCC	A/A	Rv2123	PPE37	syn	ND	no
lineage4.6.2.1	2404596	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2418364	641	C/G	214	GGC/GCC	G/A	Rv2157c	murF	nonsyn	essential	no
lineage4.6.2.1	2453552	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2545027	330	C/T	110	GTC/GTT	V/V	Rv2270	lppN	syn	nonessential	no
lineage4.6.2.1	2561465	138	A/G	46	CGA/CGG	R/R	Rv2288	.	syn	nonessential	no
lineage4.6.2.1	2561823	149	A/C	50	GAC/GCC	D/A	Rv2289	cdh	nonsyn	nonessential	no
lineage4.6.2.1	2591739	1222	G/A	408	GCC/ACC	A/T	Rv2318	uspC	nonsyn	nonessential	no
lineage4.6.2.1	2626950	31	G/A	11	CCC/TCC	P/S	Rv2348c	.	nonsyn	nonessential	no
lineage4.6.2.1	2628489	210	G/A	70	GAC/GAT	D/D	Rv2349c	plcC	syn	nonessential	no
lineage4.6.2.1	2629005	1315	C/T	439	GGC/AGC	G/S	Rv2350c	plcB	nonsyn	nonessential	no
lineage4.6.2.1	2640144	921	C/T	307	CTG/CTA	L/L	Rv2357c	glyS	syn	essential	yes
lineage4.6.2.1	2676038	103	G/A	35	GGC/AGC	G/S	Rv2384	mbtA	nonsyn	nonessential	no
lineage4.6.2.1	2681575	811	G/A	271	GTC/ATC	V/I	Rv2387	.	nonsyn	essential	no
lineage4.6.2.1	2681905	1141	G/A	381	GCG/ACG	A/T	Rv2387	.	nonsyn	essential	no
lineage4.6.2.1	2704008	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2781384	879	A/G	293	TAT/TAC	Y/Y	Rv2476c	gdh	syn	ND	no
lineage4.6.2.1	2801196	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2864155	258	C/T	86	GAG/GAA	E/E	Rv2540c	aroF	syn	essential	yes
lineage4.6.2.1	2871783	233	T/C	78	GAG/GGG	E/G	Rv2552c	aroE	nonsyn	essential	no
lineage4.6.2.1	2872956	310	G/A	104	CAC/TAC	H/Y	Rv2553c	.	nonsyn	essential	no
lineage4.6.2.1	2897684	120	A/G	40	GAT/GAC	D/D	Rv2572c	aspS	syn	nonessential	no
lineage4.6.2.1	2915406	331	C/T	111	GGA/AGA	G/R	Rv2587c	secD	nonsyn	nonessential	no
lineage4.6.2.1	2949476	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	2956118	352	A/C	118	ACG/CCG	T/P	Rv2629	.	nonsyn	nonessential	no
lineage4.6.2.1	2975496	280	T/C	94	AAC/GAC	N/D	Rv2651c	.	nonsyn	ND	no
lineage4.6.2.1	2975502	274	G/T	92	CTT/ATT	L/I	Rv2651c	.	nonsyn	ND	no
lineage4.6.2.1	2975584	192	G/A	64	TCC/TCT	S/S	Rv2651c	.	syn	ND	no
lineage4.6.2.1	2975673	103	G/A	35	CTC/TTC	L/F	Rv2651c	.	nonsyn	ND	no
lineage4.6.2.1	2975937	618	T/C	206	CCA/CCG	P/P	Rv2652c	.	syn	ND	no
lineage4.6.2.1	2975943	612	G/A	204	TTC/TTT	F/F	Rv2652c	.	syn	ND	no
lineage4.6.2.1	2999648	321	G/A	107	GAC/GAT	D/D	Rv2682c	dxs1	syn	essential	yes
lineage4.6.2.1	3007808	1402	T/C	468	ATC/GTC	I/V	Rv2690c	.	nonsyn	nonessential	no
lineage4.6.2.1	3010332	309	C/T	103	AAC/AAT	N/N	Rv2692	ceoC	syn	essential	yes
lineage4.6.2.1	3017020	163	G/A	55	GCC/ACC	A/T	Rv2702	ppgK	nonsyn	essential	no
lineage4.6.2.1	3048675	412	G/A	138	CGG/TGG	R/W	Rv2736c	recX	nonsyn	nonessential	no
lineage4.6.2.1	3085991	193	G/A	65	CGG/TGG	R/W	Rv2778c	.	nonsyn	nonessential	no
lineage4.6.2.1	3113420	153	C/T	51	TAC/TAT	Y/Y	Rv2806	.	syn	nonessential	no
lineage4.6.2.1	3129069	279	T/G	93	GAA/GAC	E/D	Rv2822c	.	nonsyn	nonessential	no
lineage4.6.2.1	3142253	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	3152055	896	C/T	299	GGG/GAG	G/E	Rv2845c	proS	nonsyn	essential	no
lineage4.6.2.1	3177431	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	3206136	299	G/C	100	CCG/CGG	P/R	Rv2896c	.	nonsyn	nonessential	no
lineage4.6.2.1	3208379	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	3228794	1887	C/T	629	CTG/CTA	L/L	Rv2918c	glnD	syn	nonessential	no
lineage4.6.2.1	3238748	723	G/A	241	GGC/GGT	G/G	Rv2924c	fpg	syn	nonessential	no
lineage4.6.2.1	3254566	3495	G/A	1165	CCG/CCA	P/P	Rv2932	ppsB	syn	nonessential	no
lineage4.6.2.1	3293315	3039	C/T	1013	CAG/CAA	Q/Q	Rv2946c	pks1	syn	nonessential	no
lineage4.6.2.1	3297676	165	G/A	55	GGC/GGT	G/G	Rv2947c	pks15	syn	nonessential	no
lineage4.6.2.1	3332655	100	C/T	34	GCC/ACC	A/T	Rv2976c	ung	nonsyn	essential	no
lineage4.6.2.1	3364828	120	G/A	40	GAG/GAA	E/E	Rv3006	lppZ	syn	nonessential	no
lineage4.6.2.1	3379788	665	C/G	222	GGG/GCG	G/A	Rv3021c	PPE47	nonsyn	ND	no
lineage4.6.2.1	3437762	984	C/T	328	ACC/ACT	T/T	Rv3074	.	syn	nonessential	no
lineage4.6.2.1	3445606	383	G/A	128	TCG/TTG	S/L	Rv3080c	pknK	nonsyn	nonessential	no
lineage4.6.2.1	3454309	1385	G/A	462	CGT/CAT	R/H	Rv3087	.	nonsyn	essential	no
lineage4.6.2.1	3475438	1524	C/T	508	GCG/GCA	A/A	Rv3107c	agpS	syn	nonessential	no
lineage4.6.2.1	3479424	254	T/G	85	CTC/CGC	L/R	Rv3111	moaC1	nonsyn	essential	no
lineage4.6.2.1	3492438	292	A/G	98	ATC/GTC	I/V	Rv3127	.	nonsyn	nonessential	no
lineage4.6.2.1	3545910	464	A/C	155	GAG/GCG	E/A	Rv3177	.	nonsyn	essential	no
lineage4.6.2.1	3560344	2829	G/A	943	ACC/ACT	T/T	Rv3193c	.	syn	nonessential	no
lineage4.6.2.1	3570528	684	C/G	228	CGG/CGC	R/R	Rv3198c	uvrD2	syn	essential	yes
lineage4.6.2.1	3590100	707	A/C	236	GAG/GCG	E/A	Rv3212	.	nonsyn	nonessential	no
lineage4.6.2.1	3609798	574	G/A	192	CTG/TTG	L/L	Rv3233c	.	syn	nonessential	no
lineage4.6.2.1	3611279	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	3615439	2165	C/G	722	GGA/GCA	G/A	Rv3239c	.	nonsyn	nonessential	no
lineage4.6.2.1	3655215	579	G/T	193	GCG/GCT	A/A	Rv3273	.	syn	nonessential	no
lineage4.6.2.1	3689519	1420	C/A	474	GCA/TCA	A/S	Rv3303c	lpdA	nonsyn	nonessential	no
lineage4.6.2.1	3704482	46	C/T	16	CTG/TTG	L/L	Rv3317	sdhD	syn	nonessential	no
lineage4.6.2.1	3721333	77	T/C	26	CTG/CCG	L/P	Rv3334	.	nonsyn	nonessential	no
lineage4.6.2.1	3729443	7493	A/G	2498	ATC/ACC	I/T	Rv3343c	PPE54	nonsyn	ND	no
lineage4.6.2.1	3748773	4412	C/T	1471	GGC/GAC	G/D	Rv3347c	PPE55	nonsyn	ND	no
lineage4.6.2.1	3749616	3569	G/T	1190	CCG/CAG	P/Q	Rv3347c	PPE55	nonsyn	ND	no
lineage4.6.2.1	3765044	2059	C/A	687	GCG/TCG	A/S	Rv3350c	PPE56	nonsyn	ND	no
lineage4.6.2.1	3771009	237	T/G	79	TCT/TCG	S/S	Rv3357	relJ	syn	nonessential	no
lineage4.6.2.1	3856790	100	T/C	34	ATC/GTC	I/V	Rv3436c	glmS	nonsyn	essential	no
lineage4.6.2.1	3862725	202	C/T	68	GCG/ACG	A/T	Rv3444c	esxT	nonsyn	nonessential	no
lineage4.6.2.1	3865601	2638	G/C	880	CAG/GAG	Q/E	Rv3447c	eccC4	nonsyn	nonessential	no
lineage4.6.2.1	3871181	1316	G/A	439	CCG/CTG	P/L	Rv3450c	eccB4	nonsyn	nonessential	no
lineage4.6.2.1	3878654	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	3889750	389	A/G	130	GAT/GGT	D/G	Rv3472	.	nonsyn	essential	no
lineage4.6.2.1	3908458	223	G/A	75	GGG/AGG	G/R	Rv3490	otsA	nonsyn	essential	no
lineage4.6.2.1	3925120	231	G/A	77	CTG/CTA	L/L	Rv3506	fadD17	syn	nonessential	no
lineage4.6.2.1	3998861	882	T/C	294	GGT/GGC	G/G	Rv3558	PPE64	syn	ND	no
lineage4.6.2.1	4010108	92	T/G	31	GAG/GCG	E/A	Rv3568c	hsaC	nonsyn	nonessential	no
lineage4.6.2.1	4072024	234	C/T	78	GAC/GAT	D/D	Rv3633	.	syn	nonessential	no
lineage4.6.2.1	4093770	139	G/A	47	GTG/ATG	V/M	Rv3652	PE_PGRS60	nonsyn	ND	no
lineage4.6.2.1	4111885	540	G/A	180	CAG/CAA	Q/Q	Rv3670	ephE	syn	nonessential	no
lineage4.6.2.1	4118506	9	A/C	3	GCT/GCG	A/A	Rv3678c	.	syn	nonessential	no
lineage4.6.2.1	4137810	605	A/C	202	CAG/CCG	Q/P	Rv3695	.	nonsyn	nonessential	no
lineage4.6.2.1	4143411	510	G/C	170	GGC/GGG	G/G	Rv3700c	.	syn	nonessential	no
lineage4.6.2.1	4191732	448	G/A	150	CAG/TAG	Q/*	Rv3740c	.	nonsyn	nonessential	no
lineage4.6.2.1	4215271	505	G/A	169	CAG/TAG	Q/*	Rv3770c	.	nonsyn	nonessential	no
lineage4.6.2.1	4223380	687	C/T	229	GCC/GCT	A/A	Rv3777	.	syn	nonessential	no
lineage4.6.2.1	4233129	469	C/T	157	GCA/ACA	A/T	Rv3786c	.	nonsyn	nonessential	no
lineage4.6.2.1	4242883	3021	C/T	1007	CCC/CCT	P/P	Rv3793	embC	syn	essential	no
lineage4.6.2.1	4252697	1613	G/A	538	TGG/TAG	W/*	Rv3797	fadE35	nonsyn	nonessential	no
lineage4.6.2.1	4266575	84	C/A	28	GTG/GTT	V/V	Rv3804c	fbpA	syn	ND	no
lineage4.6.2.1	4276038	1241	G/A	414	GGC/GAC	G/D	Rv3811	.	nonsyn	nonessential	no
lineage4.6.2.1	4282063	417	C/T	139	GCC/GCT	A/A	Rv3817	.	syn	nonessential	no
lineage4.6.2.1	4285162	664	C/T	222	GCC/ACC	A/T	Rv3820c	papA2	nonsyn	nonessential	no
lineage4.6.2.1	4320122	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.1	4348079	1599	C/T	533	AAC/AAT	N/N	Rv3870	eccCa1	syn	essential	yes
lineage4.6.2.1	4368061	461	C/T	154	GGC/GAC	G/D	Rv3885c	eccE2	nonsyn	nonessential	no
lineage4.6.2.1	4375628	56	G/T	19	ACG/AAG	T/K	Rv3892c	PPE69	nonsyn	ND	no
lineage4.6.2.1	4394124	676	A/C	226	ACG/CCG	T/P	Rv3908	mutT4	nonsyn	nonessential	no
lineage4.6.2.1	4401824	97	G/A	33	GCC/ACC	A/T	Rv3913	trxB2	nonsyn	essential	no
lineage4.6.2.2	27918	324	G/A	108	CTG/CTA	L/L	Rv0023	.	syn	nonessential	no
lineage4.6.2.2	33817	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	67385	463	G/A	155	GCC/ACC	A/T	Rv0063	.	nonsyn	nonessential	no
lineage4.6.2.2	69342	723	G/A	241	AAG/AAA	K/K	Rv0064	.	syn	nonessential	no
lineage4.6.2.2	89767	193	G/T	65	GCG/TCG	A/S	Rv0081	.	nonsyn	nonessential	no
lineage4.6.2.2	93044	717	G/A	239	CTG/CTA	L/L	Rv0084	hycD	syn	nonessential	no
lineage4.6.2.2	100895	313	G/T	105	GCC/TCC	A/S	Rv0092	ctpA	nonsyn	nonessential	no
lineage4.6.2.2	118469	756	G/A	252	GCG/GCA	A/A	Rv0102	.	syn	essential	yes
lineage4.6.2.2	123475	1159	T/G	387	TTG/GTG	L/V	Rv0104	.	nonsyn	nonessential	no
lineage4.6.2.2	135569	1620	C/G	540	GAC/GAG	D/E	Rv0111	.	nonsyn	nonessential	no
lineage4.6.2.2	142317	1560	C/T	520	GCG/GCA	A/A	Rv0118c	oxcA	syn	essential	yes
lineage4.6.2.2	166348	522	A/C	174	ACA/ACC	T/T	Rv0139	.	syn	nonessential	no
lineage4.6.2.2	166349	523	A/T	175	ACC/TCC	T/S	Rv0139	.	nonsyn	nonessential	no
lineage4.6.2.2	191738	1132	C/T	378	CTG/TTG	L/L	Rv0161	.	syn	nonessential	no
lineage4.6.2.2	252105	324	G/A	108	ATG/ATA	M/I	Rv0211	pckA	nonsyn	nonessential	no
lineage4.6.2.2	275691	273	G/A	91	ATC/ATT	I/I	Rv0230c	php	syn	nonessential	no
lineage4.6.2.2	316886	618	C/T	206	CTG/CTA	L/L	Rv0265c	.	syn	nonessential	no
lineage4.6.2.2	347772	2138	C/T	713	GCC/GTC	A/V	Rv0284	eccC3	nonsyn	essential	no
lineage4.6.2.2	379724	553	C/T	185	CCG/TCG	P/S	Rv0311	.	nonsyn	essential	no
lineage4.6.2.2	409296	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	487475	1745	C/A	582	TCG/TAG	S/*	Rv0405	pks6	nonsyn	nonessential	no
lineage4.6.2.2	540349	1143	C/T	381	GTG/GTA	V/V	Rv0450c	mmpL4	syn	essential	yes
lineage4.6.2.2	547585	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	550559	885	C/T	295	GCC/GCT	A/A	Rv0458	.	syn	nonessential	no
lineage4.6.2.2	628902	830	G/A	277	ACC/ATC	T/I	Rv0537c	.	nonsyn	nonessential	no
lineage4.6.2.2	649067	532	C/G	178	CGG/GGG	R/G	Rv0557	mgtA	nonsyn	essential	no
lineage4.6.2.2	681775	2547	G/A	849	GGG/GGA	G/G	Rv0584	.	syn	nonessential	no
lineage4.6.2.2	686247	320	G/A	107	GGC/GAC	G/D	Rv0588	yrbE2B	nonsyn	essential	no
lineage4.6.2.2	788324	385	C/T	129	CTT/TTT	L/F	Rv0688	.	nonsyn	nonessential	no
lineage4.6.2.2	826613	492	C/T	164	GCC/GCT	A/A	Rv0733	adk	syn	nonessential	no
lineage4.6.2.2	850303	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	850636	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	854101	57	G/T	19	CGC/CGA	R/R	Rv0759c	.	syn	nonessential	no
lineage4.6.2.2	857346	692	G/C	231	GCC/GGC	A/G	Rv0764c	cyp51	nonsyn	nonessential	no
lineage4.6.2.2	886351	296	G/A	99	ACC/ATC	T/I	Rv0792c	.	nonsyn	nonessential	no
lineage4.6.2.2	903760	36	G/A	12	CCG/CCA	P/P	Rv0809	purM	syn	nonessential	no
lineage4.6.2.2	945552	615	T/G	205	CAT/CAG	H/Q	Rv0848	cysK2	nonsyn	nonessential	no
lineage4.6.2.2	1015811	414	C/A	138	GGC/GGA	G/G	Rv0911	.	syn	nonessential	no
lineage4.6.2.2	1063387	248	T/C	83	ATC/ACC	I/T	Rv0952	sucD	nonsyn	essential	no
lineage4.6.2.2	1075269	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	1086525	821	G/T	274	CCG/CAG	P/Q	Rv0974c	accD2	nonsyn	nonessential	no
lineage4.6.2.2	1101092	389	C/T	130	GGG/GAG	G/E	Rv0985c	mscL	nonsyn	nonessential	no
lineage4.6.2.2	1200899	133	A/G	45	AAT/GAT	N/D	Rv1076	lipU	nonsyn	nonessential	no
lineage4.6.2.2	1207340	821	C/T	274	CCC/CTC	P/L	Rv1082	mca	nonsyn	nonessential	no
lineage4.6.2.2	1220478	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	1249263	1182	G/C	394	GCG/GCC	A/A	Rv1125	.	syn	nonessential	no
lineage4.6.2.2	1280508	339	C/T	113	CTG/CTA	L/L	Rv1153c	omt	syn	nonessential	no
lineage4.6.2.2	1352350	207	C/T	69	GTC/GTT	V/V	Rv1208	gpgS	syn	essential	yes
lineage4.6.2.2	1373502	696	G/A	232	GCC/GCT	A/A	Rv1230c	.	syn	nonessential	no
lineage4.6.2.2	1425511	404	A/G	135	CTA/CCA	L/P	Rv1276c	.	nonsyn	nonessential	no
lineage4.6.2.2	1434648	624	C/T	208	GTG/GTA	V/V	Rv1281c	oppD	syn	nonessential	no
lineage4.6.2.2	1518164	674	T/A	225	TTC/TAC	F/Y	Rv1350	fabG2	nonsyn	essential	no
lineage4.6.2.2	1567533	709	G/C	237	GAC/CAC	D/H	Rv1392	metK	nonsyn	essential	no
lineage4.6.2.2	1581419	551	C/A	184	CGT/CTT	R/L	Rv1405c	.	nonsyn	essential	no
lineage4.6.2.2	1614697	369	C/T	123	TTC/TTT	F/F	Rv1437	pgk	syn	essential	yes
lineage4.6.2.2	1639894	767	A/C	256	CTC/CGC	L/R	Rv1454c	qor	nonsyn	nonessential	no
lineage4.6.2.2	1660502	740	C/T	247	GCG/GTG	A/V	Rv1472	echA12	nonsyn	nonessential	no
lineage4.6.2.2	1703142	69	C/G	23	GCC/GCG	A/A	Rv1511	gmdA	syn	nonessential	no
lineage4.6.2.2	1708799	.	G/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	1733565	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	1746781	688	G/A	230	GTC/ATC	V/I	Rv1544	.	nonsyn	nonessential	no
lineage4.6.2.2	1771756	2074	C/G	692	GCG/CCG	A/P	Rv1565c	.	nonsyn	nonessential	no
lineage4.6.2.2	1806730	550	G/T	184	GTC/TTC	V/F	Rv1607	chaA	nonsyn	nonessential	no
lineage4.6.2.2	1812362	4	G/A	2	GTG/ATG	V/M	Rv1613	trpA	nonsyn	essential	no
lineage4.6.2.2	1847570	889	C/T	297	GTC/ATC	V/I	Rv1639c	.	nonsyn	nonessential	no
lineage4.6.2.2	1850082	1954	T/C	652	ACC/GCC	T/A	Rv1640c	lysX	nonsyn	essential	no
lineage4.6.2.2	1948352	492	G/C	164	CGG/CGC	R/R	Rv1722	.	syn	nonessential	no
lineage4.6.2.2	1973572	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	1985124	1547	T/G	516	GAG/GCG	E/A	Rv1754c	.	nonsyn	nonessential	no
lineage4.6.2.2	2010390	166	C/A	56	GCC/TCC	A/S	Rv1776c	.	nonsyn	nonessential	no
lineage4.6.2.2	2038922	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	2080925	1663	C/T	555	GCG/ACG	A/T	Rv1835c	.	nonsyn	nonessential	no
lineage4.6.2.2	2081087	1501	T/C	501	ATC/GTC	I/V	Rv1835c	.	nonsyn	nonessential	no
lineage4.6.2.2	2113058	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	2123168	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	2143958	489	C/T	163	TGG/TGA	W/*	Rv1896c	.	nonsyn	nonessential	no
lineage4.6.2.2	2158327	765	C/T	255	CTG/CTA	L/L	Rv1912c	fadB5	syn	nonessential	no
lineage4.6.2.2	2176101	929	A/G	310	TAT/TGT	Y/C	Rv1923	lipD	nonsyn	nonessential	no
lineage4.6.2.2	2233947	270	T/C	90	TCA/TCG	S/S	Rv1990A	.	syn	nonessential	no
lineage4.6.2.2	2255839	3838	C/A	1280	CGC/AGC	R/S	Rv2006	otsB1	nonsyn	nonessential	no
lineage4.6.2.2	2281733	120	G/A	40	CTG/CTA	L/L	Rv2035	.	syn	nonessential	no
lineage4.6.2.2	2340097	1389	C/T	463	GGC/GGT	G/G	Rv2082	.	syn	nonessential	no
lineage4.6.2.2	2350268	1787	G/A	596	TCG/TTG	S/L	Rv2092c	helY	nonsyn	nonessential	no
lineage4.6.2.2	2369118	612	G/A	204	GGC/GGT	G/G	Rv2109c	prcA	syn	essential	yes
lineage4.6.2.2	2586790	501	G/A	167	ACC/ACT	T/T	Rv2314c	.	syn	nonessential	no
lineage4.6.2.2	2593424	730	G/C	244	CTT/GTT	L/V	Rv2320c	rocE	nonsyn	nonessential	no
lineage4.6.2.2	2639625	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	2665304	1812	G/A	604	TAC/TAT	Y/Y	Rv2380c	mbtE	syn	nonessential	no
lineage4.6.2.2	2847973	1360	T/C	454	ACC/GCC	T/A	Rv2524c	fas	nonsyn	essential	no
lineage4.6.2.2	2860901	450	T/C	150	CTT/CTC	L/L	Rv2536	.	syn	nonessential	no
lineage4.6.2.2	2875883	603	C/T	201	CTG/CTA	L/L	Rv2555c	alaS	syn	essential	yes
lineage4.6.2.2	2889947	153	G/A	51	GTG/GTA	V/V	Rv2567	.	syn	nonessential	no
lineage4.6.2.2	2891892	2098	G/A	700	GTG/ATG	V/M	Rv2567	.	nonsyn	nonessential	no
lineage4.6.2.2	2911595	1083	G/A	361	ACC/ACT	T/T	Rv2585c	.	syn	nonessential	no
lineage4.6.2.2	2927664	188	C/T	63	ACC/ATC	T/I	Rv2599	.	nonsyn	nonessential	no
lineage4.6.2.2	2933223	848	A/G	283	ATC/ACC	I/T	Rv2606c	snzP	nonsyn	nonessential	no
lineage4.6.2.2	2947476	412	G/A	138	CTA/TTA	L/L	Rv2620c	.	syn	nonessential	no
lineage4.6.2.2	2952922	72	G/T	24	GCC/GCA	A/A	Rv2626c	hrp1	syn	nonessential	no
lineage4.6.2.2	2976535	20	G/T	7	GCC/GAC	A/D	Rv2652c	.	nonsyn	ND	no
lineage4.6.2.2	2980497	322	C/T	108	GCC/ACC	A/T	Rv2659c	.	nonsyn	ND	no
lineage4.6.2.2	3033922	698	G/A	233	GCA/GTA	A/V	Rv2721c	.	nonsyn	nonessential	no
lineage4.6.2.2	3088886	99	A/G	33	GCT/GCC	A/A	Rv2781c	.	syn	nonessential	no
lineage4.6.2.2	3099510	660	G/T	220	CCC/CCA	P/P	Rv2790c	ltp1	syn	nonessential	no
lineage4.6.2.2	3100153	17	G/C	6	TCG/TGG	S/W	Rv2790c	ltp1	nonsyn	nonessential	no
lineage4.6.2.2	3139540	945	G/T	315	CTC/CTA	L/L	Rv2833c	ugpB	syn	essential	yes
lineage4.6.2.2	3166006	802	T/C	268	TCC/CCC	S/P	Rv2855	mtr	nonsyn	essential	no
lineage4.6.2.2	3191099	523	C/A	175	GGC/TGC	G/C	Rv2881c	cdsA	nonsyn	essential	no
lineage4.6.2.2	3218673	335	C/G	112	ACC/AGC	T/S	Rv2911	dacB2	nonsyn	nonessential	no
lineage4.6.2.2	3231548	959	A/G	320	GTG/GCG	V/A	Rv2920c	amt	nonsyn	nonessential	no
lineage4.6.2.2	3268258	522	C/T	174	CGC/CGT	R/R	Rv2935	ppsE	syn	nonessential	no
lineage4.6.2.2	3274951	3	G/C	1	ATG/ATC	M/I	Rv2939	papA5	nonsyn	nonessential	no
lineage4.6.2.2	3354625	445	G/A	149	CTG/TTG	L/L	Rv2996c	serA1	syn	essential	yes
lineage4.6.2.2	3357727	126	G/A	42	TCG/TCA	S/S	Rv2999	lppY	syn	essential	yes
lineage4.6.2.2	3360152	435	C/A	145	CCG/CCT	P/P	Rv3001c	ilvC	syn	essential	yes
lineage4.6.2.2	3369702	153	T/A	51	CAA/CAT	Q/H	Rv3010c	pfkA	nonsyn	nonessential	no
lineage4.6.2.2	3448567	64	C/G	22	CAC/GAC	H/D	Rv3083	.	nonsyn	nonessential	no
lineage4.6.2.2	3472473	306	G/T	102	GTC/GTA	V/V	Rv3104c	.	syn	nonessential	no
lineage4.6.2.2	3526884	1095	G/A	365	CCG/CCA	P/P	Rv3158	nuoN	syn	nonessential	no
lineage4.6.2.2	3556097	591	G/A	197	GCC/GCT	A/A	Rv3190c	.	syn	nonessential	no
lineage4.6.2.2	3622049	163	C/A	55	GCG/TCG	A/S	Rv3242c	.	nonsyn	nonessential	no
lineage4.6.2.2	3746409	6776	A/G	2259	CTG/CCG	L/P	Rv3347c	PPE55	nonsyn	ND	no
lineage4.6.2.2	3752207	978	A/G	326	ATT/ATC	I/I	Rv3347c	PPE55	syn	ND	no
lineage4.6.2.2	3788280	555	C/T	185	ACC/ACT	T/T	Rv3373	echA18	syn	nonessential	no
lineage4.6.2.2	3847221	57	T/C	19	GGT/GGC	G/G	Rv3429	PPE59	syn	ND	no
lineage4.6.2.2	3876008	1187	T/G	396	CTG/CGG	L/R	Rv3454	.	nonsyn	nonessential	no
lineage4.6.2.2	3879961	110	G/A	37	ACC/ATC	T/I	Rv3460c	rpsM	nonsyn	nonessential	no
lineage4.6.2.2	3896260	441	G/A	147	CTG/CTA	L/L	Rv3479	.	syn	nonessential	no
lineage4.6.2.2	3954534	988	G/T	330	CAC/AAC	H/N	Rv3518c	cyp142	nonsyn	nonessential	no
lineage4.6.2.2	3969234	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	4004368	78	C/T	26	GAC/GAT	D/D	Rv3563	fadE32	syn	essential	yes
lineage4.6.2.2	4005590	344	C/G	115	GCG/GGG	A/G	Rv3564	fadE33	nonsyn	essential	no
lineage4.6.2.2	4063257	648	C/A	216	CAG/CAT	Q/H	Rv3624c	hpt	nonsyn	nonessential	no
lineage4.6.2.2	4103911	565	C/A	189	GCT/TCT	A/S	Rv3664c	dppC	nonsyn	nonessential	no
lineage4.6.2.2	4117942	111	G/T	37	GAC/GAA	D/E	Rv3677c	.	nonsyn	nonessential	no
lineage4.6.2.2	4156421	309	G/A	103	TTC/TTT	F/F	Rv3711c	dnaQ	syn	nonessential	no
lineage4.6.2.2	4222343	1255	G/A	419	GCG/ACG	A/T	Rv3776	.	nonsyn	nonessential	no
lineage4.6.2.2	4235509	136	C/T	46	CTG/TTG	L/L	Rv3789	.	syn	nonessential	no
lineage4.6.2.2	4267272	1565	T/C	522	AAG/AGG	K/R	Rv3805c	aftB	nonsyn	essential	no
lineage4.6.2.2	4312024	646	C/T	216	GTA/ATA	V/I	Rv3838c	pheA	nonsyn	nonessential	no
lineage4.6.2.2	4320886	183	G/A	61	CTG/CTA	L/L	Rv3846	sodA	syn	ND	no
lineage4.6.2.2	4326739	735	G/C	245	CGC/CGG	R/R	Rv3854c	ethA	syn	nonessential	no
lineage4.6.2.2	4328004	456	G/A	152	GTG/GTA	V/V	Rv3855	ethR	syn	essential	yes
lineage4.6.2.2	4340232	.	A/C	.	./.	./.	.	.	inter	.	no
lineage4.6.2.2	4384598	782	T/C	261	GAC/GGC	D/G	Rv3899c	.	nonsyn	nonessential	no
lineage4.7	10741	828	C/G	276	ACC/ACG	T/T	Rv0007	.	syn	nonessential	no
lineage4.7	201896	965	A/G	322	GAT/GGT	D/G	Rv0171	mce1C	nonsyn	essential	no
lineage4.7	716918	255	G/A	85	ACG/ACA	T/T	Rv0624	vapC30	syn	nonessential	no
lineage4.7	796876	1358	A/G	453	TAC/TGC	Y/C	Rv0696	.	nonsyn	nonessential	no
lineage4.7	2378813	428	A/G	143	TAC/TGC	Y/C	Rv2119	.	nonsyn	nonessential	no
lineage4.7	2892168	2374	G/A	792	GAA/AAA	E/K	Rv2567	.	nonsyn	nonessential	no
lineage4.7	3220222	1477	G/A	493	CCG/TCG	P/S	Rv2913c	.	nonsyn	nonessential	no
lineage4.7	3270289	2553	C/A	851	CGC/CGA	R/R	Rv2935	ppsE	syn	nonessential	no
lineage4.7	4112595	921	G/A	307	GCC/GCT	A/A	Rv3671c	.	syn	nonessential	no
lineage4.7	4249732	3219	C/G	1073	GCC/GCG	A/A	Rv3795	embB	syn	essential	yes
lineage4.7	4391579	28	C/G	10	GGC/CGC	G/R	Rv3906c	.	nonsyn	nonessential	no
lineage4.8	28640	279	T/C	93	GTT/GTC	V/V	Rv0024	.	syn	nonessential	no
lineage4.8	212244	7	G/A	3	CAA/TAA	Q/*	Rv0180c	.	nonsyn	nonessential	no
lineage4.8	1082445	140	T/A	47	GAA/GTA	E/V	Rv0971c	echA7	nonsyn	nonessential	no
lineage4.8	1130526	336	G/A	112	GCG/GCA	A/A	Rv1011	ispE	syn	essential	no
lineage4.8	1227217	349	C/T	117	GCG/ACG	A/T	Rv1098c	fum	nonsyn	essential	no
lineage4.8	1273071	649	T/C	217	TCG/CCG	S/P	Rv1145	mmpL13a	nonsyn	nonessential	no
lineage4.8	1461309	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.8	1474001	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.8	1983528	1248	G/T	416	GCC/GCA	A/A	Rv1753c	PPE24	syn	ND	no
lineage4.8	2184176	782	G/A	261	GCG/GTG	A/V	Rv1933c	fadE18	nonsyn	nonessential	no
lineage4.8	2246603	1395	C/T	465	TCC/TCT	S/S	Rv2000	.	syn	nonessential	no
lineage4.8	2507254	109	G/A	37	GCG/ACG	A/T	Rv2234	ptpA	nonsyn	nonessential	no
lineage4.8	2809250	690	C/T	230	TTG/TTA	L/L	Rv2495c	bkdC	syn	nonessential	no
lineage4.8	2884398	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.8	2955061	4	T/C	2	TCC/CCC	S/P	Rv2628	.	nonsyn	nonessential	no
lineage4.8	3005789	.	T/C	.	./.	./.	.	.	inter	.	no
lineage4.8	3017134	277	G/T	93	GCG/TCG	A/S	Rv2702	ppgK	nonsyn	essential	no
lineage4.8	3168967	393	C/A	131	GTG/GTT	V/V	Rv2857c	.	syn	essential	no
lineage4.8	3190721	901	C/T	301	GTC/ATC	V/I	Rv2881c	cdsA	nonsyn	essential	no
lineage4.8	3419467	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.8	3836739	153	G/A	51	GAC/GAT	D/D	Rv3417c	groEL1	syn	essential	yes
lineage4.8	4028292	402	C/T	134	GTC/GTT	V/V	Rv3586	.	syn	nonessential	no
lineage4.8	4188020	322	A/G	108	ATC/GTC	I/V	Rv3737	.	nonsyn	nonessential	no
lineage4.8	4234664	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.8	4284570	1256	A/C	419	GTC/GGC	V/G	Rv3820c	papA2	nonsyn	nonessential	no
lineage4.9	4013	734	T/C	245	ATC/ACC	I/T	Rv0003	recF	nonsyn	nonessential	no
lineage4.9	26959	.	C/G	.	./.	./.	.	.	inter	.	no
lineage4.9	62049	1654	A/G	552	AGG/GGG	R/G	Rv0058	dnaB	nonsyn	essential	no
lineage4.9	75940	640	G/C	214	GTG/CTG	V/L	Rv0068	.	nonsyn	nonessential	no
lineage4.9	133839	.	C/T	.	./.	./.	.	.	inter	.	no
lineage4.9	188800	40	T/C	14	ACG/GCG	T/A	Rv0159c	PE3	nonsyn	ND	no
lineage4.9	206339	1109	T/C	370	CTG/CCG	L/P	Rv0174	mce1F	nonsyn	nonessential	no
lineage4.9	225323	1249	T/C	417	AAG/GAG	K/E	Rv0193c	.	nonsyn	nonessential	no
lineage4.9	227098	221	T/C	74	ATG/ACG	M/T	Rv0194	.	nonsyn	nonessential	no
lineage4.9	311613	1047	G/T	349	GTC/GTA	V/V	Rv0260c	.	syn	nonessential	no
lineage4.9	384380	779	A/C	260	AAG/ACG	K/T	Rv0315	.	nonsyn	nonessential	no
lineage4.9	386432	668	C/G	223	GGG/GCG	G/A	Rv0318c	.	nonsyn	nonessential	no
lineage4.9	420008	174	A/G	58	GCA/GCG	A/A	Rv0350	dnaK	syn	essential	no
lineage4.9	513257	2065	T/C	689	ATG/GTG	M/V	Rv0425c	ctpH	nonsyn	essential	no
lineage4.9	541201	291	A/G	97	CTT/CTC	L/L	Rv0450c	mmpL4	syn	essential	no
lineage4.9	598475	1277	G/A	426	CGC/CAC	R/H	Rv0507	mmpL2	nonsyn	nonessential	no
lineage4.9	610120	.	T/G	.	./.	./.	.	.	inter	.	no
lineage4.9	648002	44	T/G	15	CTC/CGC	L/R	Rv0556	.	nonsyn	essential	no
lineage4.9	669398	348	T/C	116	CAA/CAG	Q/Q	Rv0575c	.	syn	nonessential	no
lineage4.9	686972	152	T/C	51	TTC/TCC	F/S	Rv0589	mce2A	nonsyn	ND	no
lineage4.9	690465	1407	T/G	469	CTT/CTG	L/L	Rv0591	mce2C	syn	nonessential	no
lineage4.9	698968	27	G/A	9	GGC/GGT	G/G	Rv0601c	.	syn	nonessential	no
lineage4.9	903913	189	T/C	63	GGT/GGC	G/G	Rv0809	purM	syn	nonessential	no
lineage4.9	979704	343	G/C	115	GGC/CGC	G/R	Rv0881	.	nonsyn	nonessential	no
lineage4.9	993346	110	A/C	37	GTT/GGT	V/G	Rv0891c	.	nonsyn	nonessential	no
lineage4.9	1076309	370	G/T	124	CCT/ACT	P/T	Rv0964c	.	nonsyn	nonessential	no
lineage4.9	1079927	1185	C/A	395	ACC/ACA	T/T	Rv0969	ctpV	syn	nonessential	no
lineage4.9	1109975	704	A/G	235	CAG/CGG	Q/R	Rv0993	galU	nonsyn	essential	no
lineage4.9	1126889	115	G/C	39	CGC/GGC	R/G	Rv1007c	metS	nonsyn	essential	no
lineage4.9	1150585	1102	G/A	368	CCC/TCC	P/S	Rv1028c	kdpD	nonsyn	essential	no
lineage4.9	1163134	243	T/C	81	GGA/GGG	G/G	Rv1040c	PE8	syn	ND	no
lineage4.9	1396922	2319	T/C	773	ACA/ACG	T/T	Rv1251c	.	syn	nonessential	no
lineage4.9	1457144	580	C/T	194	CGC/TGC	R/C	Rv1300	hemK	nonsyn	essential	no
lineage4.9	1499274	1286	C/G	429	GGC/GCC	G/A	Rv1330c	pncB1	nonsyn	nonessential	no
lineage4.9	1536251	1394	G/T	465	GCG/GAG	A/E	Rv1364c	.	nonsyn	nonessential	no
lineage4.9	1639594	1214	C/A	405	CCA/CAA	P/Q	Rv1453	.	nonsyn	nonessential	no
lineage4.9	1728837	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.9	1759252	1572	G/T	524	TCG/TCT	S/S	Rv1552	frdA	syn	nonessential	yes
lineage4.9	1885772	4069	G/A	1357	GCC/ACC	A/T	Rv1662	pks8	nonsyn	essential	no
lineage4.9	1907296	894	G/C	298	GCG/GCC	A/A	Rv1682	.	syn	nonessential	no
lineage4.9	1950767	285	T/C	95	AAA/AAG	K/K	Rv1724c	.	syn	nonessential	no
lineage4.9	2022868	3612	T/C	1204	AGT/AGC	S/S	Rv1783	eccC5	syn	nonessential	no
lineage4.9	2096186	414	A/G	138	ACT/ACC	T/T	Rv1846c	blaI	syn	nonessential	no
lineage4.9	2128870	849	A/G	283	CTA/CTG	L/L	Rv1878	glnA3	syn	nonessential	no
lineage4.9	2165286	2026	A/C	676	TCA/GCA	S/A	Rv1917c	PPE34	nonsyn	ND	no
lineage4.9	2216443	1187	C/A	396	GCG/GAG	A/E	Rv1971	mce3F	nonsyn	nonessential	no
lineage4.9	2220512	759	T/G	253	TCT/TCG	S/S	Rv1977	.	syn	ND	no
lineage4.9	2264782	785	C/A	262	GCG/GAG	A/E	Rv2017	.	nonsyn	nonessential	no
lineage4.9	2269780	461	T/C	154	GAC/GGC	D/G	Rv2024c	.	nonsyn	nonessential	no
lineage4.9	2285251	391	C/A	131	GTC/TTC	V/F	Rv2039c	.	nonsyn	nonessential	no
lineage4.9	2287121	726	A/G	242	GAT/GAC	D/D	Rv2041c	.	syn	essential	no
lineage4.9	2362041	1802	C/A	601	CCG/CAG	P/Q	Rv2101	helZ	nonsyn	nonessential	no
lineage4.9	2386389	97	G/A	33	GGC/AGC	G/S	Rv2125	.	nonsyn	nonessential	no
lineage4.9	2586127	1164	A/G	388	GGT/GGC	G/G	Rv2314c	.	syn	nonessential	no
lineage4.9	2752698	.	C/A	.	./.	./.	.	.	inter	.	no
lineage4.9	2760152	374	A/G	125	TAC/TGC	Y/C	Rv2458	mmuM	nonsyn	nonessential	no
lineage4.9	2779136	3127	T/C	1043	AGC/GGC	S/G	Rv2476c	gdh	nonsyn	ND	no
lineage4.9	2830525	365	C/A	122	ACG/AAG	T/K	Rv2513	.	nonsyn	nonessential	no
lineage4.9	2891267	1473	C/T	491	GGC/GGT	G/G	Rv2567	.	syn	nonessential	no
lineage4.9	2891728	1934	A/G	645	CAG/CGG	Q/R	Rv2567	.	nonsyn	nonessential	no
lineage4.9	3017465	608	T/C	203	ATA/ACA	I/T	Rv2702	ppgK	nonsyn	essential	no
lineage4.9	3137058	167	G/A	56	GCG/GTG	A/V	Rv2830c	vapB22	nonsyn	essential	no
lineage4.9	3270784	3048	A/G	1016	CAA/CAG	Q/Q	Rv2935	ppsE	syn	nonessential	no
lineage4.9	3308606	.	G/A	.	./.	./.	.	.	inter	.	no
lineage4.9	3363338	.	A/G	.	./.	./.	.	.	inter	.	no
lineage4.9	3367765	1029	G/A	343	GGC/GGT	G/G	Rv3009c	gatB	syn	essential	no
lineage4.9	3425854	271	C/T	91	CCG/TCG	P/S	Rv3062	ligB	nonsyn	nonessential	no
lineage4.9	3428917	1675	C/A	559	CGT/AGT	R/S	Rv3063	cstA	nonsyn	nonessential	no
lineage4.9	3486977	469	A/G	157	AAA/GAA	K/E	Rv3121	cyp141	nonsyn	nonessential	no
lineage4.9	3518555	1810	A/G	604	ACG/GCG	T/A	Rv3151	nuoG	nonsyn	nonessential	no
lineage4.9	3823159	705	A/T	235	GTT/GTA	V/V	Rv3403c	.	syn	nonessential	no
lineage4.9	3898408	2589	A/G	863	GCA/GCG	A/A	Rv3479	.	syn	nonessential	no
lineage4.9	3952800	257	G/A	86	GGC/GAC	G/D	Rv3516	echA19	nonsyn	nonessential	no
lineage4.9	3959418	971	C/T	324	ACC/ATC	T/I	Rv3522	ltp4	nonsyn	nonessential	no
lineage4.9	4055801	575	G/A	192	ACC/ATC	T/I	Rv3616c	espA	nonsyn	essential	no
lineage4.9	4156099	631	C/A	211	GTG/TTG	V/L	Rv3711c	dnaQ	nonsyn	nonessential	no
lineage4.9	4187485	852	T/C	284	GCT/GCC	A/A	Rv3736	.	syn	nonessential	no
lineage4.9	4187817	119	A/G	40	GAT/GGT	D/G	Rv3737	.	nonsyn	nonessential	no
lineage4.9	4204441	933	A/G	311	CAT/CAC	H/H	Rv3759c	proX	syn	nonessential	no
lineage4.9	4210274	736	A/G	246	TGT/CGT	C/R	Rv3764c	tcrY	nonsyn	nonessential	no
lineage4.9	4221490	402	C/A	134	CTC/CTA	L/L	Rv3776	.	syn	nonessential	no
lineage4.9	4222073	985	A/G	329	ATG/GTG	M/V	Rv3776	.	nonsyn	nonessential	no
lineage4.9	4242643	2781	C/T	927	CGC/CGT	R/R	Rv3793	embC	syn	essential	no
lineage4.9	4302036	754	T/C	252	ACG/GCG	T/A	Rv3827c	.	nonsyn	ND	no
lineage4.9	4351039	295	G/T	99	GAA/TAA	E/*	Rv3872	PE35	nonsyn	ND	no
lineage4.9	4356110	1104	G/C	368	CTG/CTC	L/L	Rv3877	eccD1	syn	essential	no
lineage4.9	4375628	56	G/T	19	ACG/AAG	T/K	Rv3892c	PPE69	nonsyn	ND	no
lineage4.9	4382275	577	G/T	193	CAA/AAA	Q/K	Rv3896c	.	nonsyn	nonessential	no
lineage5	9566	2265	C/T	755	TAC/TAT	Y/Y	Rv0006	gyrA	syn	nonessential	no
lineage5	16720	751	C/G	251	GTT/CTT	V/L	Rv0014c	pknB	nonsyn	essential	no
lineage5	25386	59	C/T	20	GGC/GAC	G/D	Rv0020c	fhaA	nonsyn	nonessential	no
lineage5	26783	99	C/T	33	GCG/GCA	A/A	Rv0021c	.	syn	nonessential	no
lineage5	32776	720	G/T	240	ACG/ACT	T/T	Rv0029	.	syn	nonessential	no
lineage5	39786	44	C/G	15	AGC/ACC	S/T	Rv0036c	.	nonsyn	nonessential	no
lineage5	46297	2736	T/C	912	TAT/TAC	Y/Y	Rv0041	leuS	syn	essential	yes
lineage5	50059	1066	T/A	356	ATC/TTC	I/F	Rv0046c	ino1	nonsyn	nonessential	no
lineage5	73148	1364	G/A	455	GCC/GTC	A/V	Rv0066c	icd2	nonsyn	nonessential	no
lineage5	75313	13	A/C	5	ACT/CCT	T/P	Rv0068	.	nonsyn	nonessential	no
lineage5	86587	60	C/A	20	ATC/ATA	I/I	Rv0078	.	syn	nonessential	no
lineage5	87973	32	C/T	11	AGG/AAG	R/K	Rv0078B	.	nonsyn	nonessential	no
lineage5	89474	453	G/A	151	ACG/ACA	T/T	Rv0080	.	syn	nonessential	no
lineage5	95867	454	G/T	152	GCC/TCC	A/S	Rv0087	hycE	nonsyn	nonessential	no
lineage5	131232	.	G/T	.	./.	./.	.	.	inter	.	no
lineage5	134555	606	C/A	202	GGC/GGA	G/G	Rv0111	.	syn	nonessential	no
lineage5	137085	797	A/G	266	GAC/GGC	D/G	Rv0112	gca	nonsyn	essential	no
lineage5	146893	879	C/T	293	CTG/CTA	L/L	Rv0120c	fusA2	syn	nonessential	no
lineage5	155478	1247	C/A	416	GCG/GAG	A/E	Rv0127	mak	nonsyn	essential	no
lineage5	163148	102	G/A	34	CGC/CGT	R/R	Rv0135c	.	syn	nonessential	no
lineage5	164936	325	C/T	109	GAC/AAC	D/N	Rv0137c	msrA	nonsyn	nonessential	no
lineage5	224414	851	A/G	284	AAC/AGC	N/S	Rv0192	.	nonsyn	nonessential	no
lineage5	229448	2571	G/C	857	TTG/TTC	L/F	Rv0194	.	nonsyn	nonessential	no
lineage5	253046	1265	A/C	422	AAG/ACG	K/T	Rv0211	pckA	nonsyn	nonessential	no
lineage5	258470	387	A/G	129	GGT/GGC	G/G	Rv0215c	fadE3	syn	nonessential	no
lineage5	258561	296	A/C	99	CTG/CGG	L/R	Rv0215c	fadE3	nonsyn	nonessential	no
lineage5	277865	.	G/C	.	./.	./.	.	.	inter	.	no
lineage5	291830	200	T/G	67	GAC/GCC	D/A	Rv0242c	fabG4	nonsyn	nonessential	no
lineage5	295645	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	306201	149	T/C	50	CAT/CGT	H/R	Rv0254c	cobU	nonsyn	nonessential	no
lineage5	331309	350	A/G	117	CTG/CCG	L/P	Rv0275c	.	nonsyn	nonessential	no
lineage5	334862	1449	C/G	483	AAG/AAC	K/N	Rv0278c	PE_PGRS3	nonsyn	ND	no
lineage5	344258	237	G/A	79	GTG/GTA	V/V	Rv0283	eccB3	syn	essential	yes
lineage5	345317	1296	G/C	432	GTG/GTC	V/V	Rv0283	eccB3	syn	essential	yes
lineage5	352646	498	G/A	166	CCG/CCA	P/P	Rv0289	espG3	syn	essential	yes
lineage5	376237	324	G/A	108	CTG/CTA	L/L	Rv0306	.	syn	nonessential	no
lineage5	379687	516	C/T	172	GTC/GTT	V/V	Rv0311	.	syn	essential	yes
lineage5	408006	443	G/T	148	CCG/CAG	P/Q	Rv0339c	.	nonsyn	nonessential	no
lineage5	408935	302	C/T	101	GCG/GTG	A/V	Rv0340	.	nonsyn	nonessential	no
lineage5	409079	446	G/A	149	GGA/GAA	G/E	Rv0340	.	nonsyn	nonessential	no
lineage5	433440	1240	A/C	414	TTC/GTC	F/V	Rv0355c	PPE8	nonsyn	ND	no
lineage5	442468	74	G/A	25	GGT/GAT	G/D	Rv0364	.	nonsyn	nonessential	no
lineage5	443471	727	C/T	243	GCC/ACC	A/T	Rv0365c	.	nonsyn	nonessential	no
lineage5	454418	.	T/G	.	./.	./.	.	.	inter	.	no
lineage5	456731	89	C/T	30	CGC/CAC	R/H	Rv0380c	.	nonsyn	nonessential	no
lineage5	466175	2765	A/C	922	GAG/GCG	E/A	Rv0386	.	nonsyn	nonessential	no
lineage5	479350	404	T/C	135	GAC/GGC	D/G	Rv0400c	fadE7	nonsyn	essential	no
lineage5	487463	1733	A/G	578	GAT/GGT	D/G	Rv0405	pks6	nonsyn	nonessential	no
lineage5	495322	1993	C/T	665	GCC/ACC	A/T	Rv0410c	pknG	nonsyn	essential	no
lineage5	500223	511	G/T	171	GTG/TTG	V/L	Rv0413	mutT3	nonsyn	nonessential	no
lineage5	501517	370	G/A	124	GAG/AAG	E/K	Rv0415	thiO	nonsyn	essential	no
lineage5	512659	2663	C/T	888	AGC/AAC	S/N	Rv0425c	ctpH	nonsyn	essential	no
lineage5	519872	273	C/T	91	TTC/TTT	F/F	Rv0432	sodC	syn	nonessential	no
lineage5	536070	438	C/T	146	CGG/CGA	R/R	Rv0447c	ufaA1	syn	nonessential	no
lineage5	539019	2473	G/A	825	CAT/TAT	H/Y	Rv0450c	mmpL4	nonsyn	essential	no
lineage5	554297	282	C/T	94	GAC/GAT	D/D	Rv0463	.	syn	nonessential	no
lineage5	563965	402	C/T	134	GGC/GGT	G/G	Rv0473	.	syn	nonessential	no
lineage5	573190	612	G/A	204	GGC/GGT	G/G	Rv0484c	.	syn	nonessential	no
lineage5	588160	784	G/T	262	GCG/TCG	A/S	Rv0497	.	nonsyn	nonessential	no
lineage5	609003	258	C/G	86	ATC/ATG	I/M	Rv0517	.	nonsyn	nonessential	no
lineage5	635775	101	C/T	34	CGC/CAC	R/H	Rv0543c	.	nonsyn	nonessential	no
lineage5	644472	1584	T/C	528	GGT/GGC	G/G	Rv0552	.	syn	nonessential	no
lineage5	648756	221	C/T	74	ACG/ATG	T/M	Rv0557	mgtA	nonsyn	essential	no
lineage5	649446	911	G/A	304	GGC/GAC	G/D	Rv0557	mgtA	nonsyn	essential	no
lineage5	660153	704	T/G	235	CTG/CGG	L/R	Rv0568	cyp135B1	nonsyn	nonessential	no
lineage5	678934	142	C/A	48	GCA/TCA	A/S	Rv0583c	lpqN	nonsyn	nonessential	no
lineage5	717558	336	G/C	112	GGC/GGG	G/G	Rv0625c	.	syn	nonessential	no
lineage5	728532	.	A/C	.	./.	./.	.	.	inter	.	no
lineage5	735135	114	G/A	38	ATG/ATA	M/I	Rv0640	rplK	nonsyn	essential	no
lineage5	740038	150	G/C	50	GCC/GCG	A/A	Rv0645c	mmaA1	syn	nonessential	no
lineage5	769406	192	C/T	64	CTG/CTA	L/L	Rv0669c	.	syn	nonessential	no
lineage5	773021	1538	G/A	513	CGG/CAG	R/Q	Rv0672	fadE8	nonsyn	nonessential	no
lineage5	801959	498	C/T	166	CGC/CGT	R/R	Rv0702	rplD	syn	essential	yes
lineage5	861279	368	A/C	123	GAG/GCG	E/A	Rv0768	aldA	nonsyn	nonessential	no
lineage5	863975	720	G/T	240	CGG/CGT	R/R	Rv0770	.	syn	nonessential	no
lineage5	869036	728	G/A	243	ACC/ATC	T/I	Rv0776c	.	nonsyn	nonessential	no
lineage5	872863	430	T/G	144	ACC/CCC	T/P	Rv0779c	.	nonsyn	nonessential	no
lineage5	883072	313	C/T	105	CGC/TGC	R/C	Rv0788	purQ	nonsyn	essential	no
lineage5	904367	643	G/C	215	GAC/CAC	D/H	Rv0809	purM	nonsyn	nonessential	no
lineage5	905344	997	C/A	333	GGT/TGT	G/C	Rv0811c	.	nonsyn	essential	no
lineage5	907906	113	C/T	38	CGC/CAC	R/H	Rv0813c	.	nonsyn	nonessential	no
lineage5	908033	.	G/C	.	./.	./.	.	.	inter	.	no
lineage5	910282	561	G/T	187	TCC/TCA	S/S	Rv0817c	.	syn	essential	yes
lineage5	919007	547	A/G	183	TGC/CGC	C/R	Rv0825c	.	nonsyn	nonessential	no
lineage5	921429	185	G/A	62	CCC/CTC	P/L	Rv0828c	.	nonsyn	nonessential	no
lineage5	955631	555	C/T	185	GGC/GGT	G/G	Rv0859	fadA	syn	nonessential	no
lineage5	991740	857	T/C	286	CAG/CGG	Q/R	Rv0890c	.	nonsyn	nonessential	no
lineage5	1004177	221	A/C	74	GAG/GCG	E/A	Rv0901	.	nonsyn	nonessential	no
lineage5	1020452	878	G/A	293	ACG/ATG	T/M	Rv0915c	PPE14	nonsyn	ND	no
lineage5	1025135	452	T/C	151	CTG/CCG	L/P	Rv0919	.	nonsyn	nonessential	no
lineage5	1050523	.	G/T	.	./.	./.	.	.	inter	.	no
lineage5	1058309	50	A/G	17	GAC/GGC	D/G	Rv0949	uvrD1	nonsyn	essential	no
lineage5	1077102	96	C/T	32	GCG/GCA	A/A	Rv0965c	.	syn	nonessential	no
lineage5	1104499	1958	A/G	653	GAT/GGT	D/G	Rv0987	.	nonsyn	nonessential	no
lineage5	1141069	2103	G/T	701	GCG/GCT	A/A	Rv1020	mfd	syn	nonessential	no
lineage5	1145442	879	C/G	293	GGC/GGG	G/G	Rv1023	eno	syn	essential	yes
lineage5	1155819	2096	T/C	699	GTC/GCC	V/A	Rv1030	kdpB	nonsyn	nonessential	no
lineage5	1190588	.	G/A	.	./.	./.	.	.	inter	.	no
lineage5	1213925	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	1216822	354	G/T	118	GGG/GGT	G/G	Rv1091	PE_PGRS22	syn	ND	no
lineage5	1239649	40	C/T	14	CGC/TGC	R/C	Rv1114	vapC32	nonsyn	nonessential	no
lineage5	1240578	392	C/T	131	CCC/CTC	P/L	Rv1115	.	nonsyn	nonessential	no
lineage5	1242416	416	T/C	139	CAA/CGA	Q/R	Rv1118c	.	nonsyn	nonessential	no
lineage5	1243724	18	T/C	6	GGT/GGC	G/G	Rv1121	zwf1	syn	nonessential	no
lineage5	1250131	1274	A/G	425	GTG/GCG	V/A	Rv1127c	ppdK	nonsyn	nonessential	no
lineage5	1251071	334	A/C	112	TCG/GCG	S/A	Rv1127c	ppdK	nonsyn	nonessential	no
lineage5	1275333	434	A/G	145	CAT/CGT	H/R	Rv1147	.	nonsyn	nonessential	no
lineage5	1283821	351	A/G	117	AAT/AAC	N/N	Rv1157c	.	syn	ND	no
lineage5	1284479	384	G/C	128	ACC/ACG	T/T	Rv1158c	.	syn	ND	no
lineage5	1288251	924	C/T	308	TGC/TGT	C/C	Rv1161	narG	syn	nonessential	no
lineage5	1316651	1418	A/G	473	CAG/CGG	Q/R	Rv1181	pks4	nonsyn	nonessential	no
lineage5	1340127	779	A/G	260	AAC/AGC	N/S	Rv1196	PPE18	nonsyn	ND	no
lineage5	1372975	1223	G/C	408	GCT/GGT	A/G	Rv1230c	.	nonsyn	nonessential	no
lineage5	1377185	210	C/G	70	CTC/CTG	L/L	Rv1234	.	syn	nonessential	no
lineage5	1383970	758	A/C	253	GAC/GCC	D/A	Rv1240	mdh	nonsyn	nonessential	no
lineage5	1385838	840	G/C	280	GGC/GGG	G/G	Rv1243c	PE_PGRS23	syn	ND	no
lineage5	1397633	1608	C/T	536	AAG/AAA	K/K	Rv1251c	.	syn	nonessential	no
lineage5	1403266	121	C/G	41	GCC/CCC	A/P	Rv1255c	.	nonsyn	ND	no
lineage5	1419373	376	T/C	126	ACC/GCC	T/A	Rv1270c	lprA	nonsyn	nonessential	no
lineage5	1422079	227	C/G	76	CGA/CCA	R/P	Rv1272c	.	nonsyn	essential	no
lineage5	1436284	834	A/G	278	GGT/GGC	G/G	Rv1283c	oppB	syn	nonessential	no
lineage5	1463143	1301	C/T	434	TCG/TTG	S/L	Rv1307	atpH	nonsyn	essential	no
lineage5	1465542	659	A/C	220	TAC/TCC	Y/S	Rv1309	atpG	nonsyn	essential	no
lineage5	1481038	1464	C/T	488	CTG/CTA	L/L	Rv1319c	.	syn	nonessential	no
lineage5	1487674	514	G/A	172	GCG/ACG	A/T	Rv1324	.	nonsyn	nonessential	no
lineage5	1501448	523	G/T	175	GTG/TTG	V/L	Rv1332	.	nonsyn	essential	no
lineage5	1505806	732	C/T	244	CCC/CCT	P/P	Rv1338	murI	syn	essential	yes
lineage5	1507920	348	G/A	116	GTG/GTA	V/V	Rv1341	.	syn	nonessential	no
lineage5	1518280	50	C/T	17	TCT/TTT	S/F	Rv1351	.	nonsyn	nonessential	no
lineage5	1518681	.	C/G	.	./.	./.	.	.	inter	.	no
lineage5	1545720	896	A/G	299	GAC/GGC	D/G	Rv1372	.	nonsyn	nonessential	no
lineage5	1555432	1245	C/T	415	ACC/ACT	T/T	Rv1381	pyrC	syn	essential	yes
lineage5	1556030	60	C/T	20	GGC/GGT	G/G	Rv1383	carA	syn	essential	yes
lineage5	1568891	697	G/C	233	CTG/GTG	L/V	Rv1393c	.	nonsyn	nonessential	no
lineage5	1593536	32	T/C	11	CTC/CCC	L/P	Rv1419	.	nonsyn	nonessential	no
lineage5	1593762	258	C/T	86	CCC/CCT	P/P	Rv1419	.	syn	nonessential	no
lineage5	1601722	600	C/T	200	CCG/CCA	P/P	Rv1426c	lipO	syn	nonessential	no
lineage5	1611024	1176	C/T	392	ACC/ACT	T/T	Rv1432	.	syn	nonessential	no
lineage5	1639699	962	A/C	321	GTC/GGC	V/G	Rv1454c	qor	nonsyn	nonessential	no
lineage5	1658030	1068	C/T	356	ATC/ATT	I/I	Rv1469	ctpD	syn	essential	yes
lineage5	1678639	88	C/G	30	CCT/GCT	P/A	Rv1489	.	nonsyn	nonessential	no
lineage5	1686414	144	C/T	48	GAC/GAT	D/D	Rv1494	mazE4	syn	nonessential	no
lineage5	1703786	713	A/C	238	CAG/CCG	Q/P	Rv1511	gmdA	nonsyn	nonessential	no
lineage5	1717141	472	C/G	158	GCG/CCG	A/P	Rv1522c	mmpL12	nonsyn	nonessential	no
lineage5	1721987	74	C/T	25	CGG/CAG	R/Q	Rv1526c	.	nonsyn	nonessential	no
lineage5	1733563	.	A/G	.	./.	./.	.	.	inter	.	no
lineage5	1735926	.	T/G	.	./.	./.	.	.	inter	.	no
lineage5	1776614	1223	C/T	408	GCC/GTC	A/V	Rv1568	bioA	nonsyn	essential	no
lineage5	1799921	339	C/A	113	GGC/GGA	G/G	Rv1599	hisD	syn	essential	yes
lineage5	1810169	.	T/G	.	./.	./.	.	.	inter	.	no
lineage5	1811243	117	A/C	39	GAA/GAC	E/D	Rv1612	trpB	nonsyn	essential	no
lineage5	1826577	9	G/T	3	CAC/CAA	H/Q	Rv1624c	.	nonsyn	nonessential	no
lineage5	1848963	3073	C/A	1025	GAC/TAC	D/Y	Rv1640c	lysX	nonsyn	essential	no
lineage5	1853565	382	G/A	128	GCC/ACC	A/T	Rv1643	rplT	nonsyn	nonessential	no
lineage5	1862099	2342	C/A	781	ACC/AAC	T/N	Rv1650	pheT	nonsyn	essential	no
lineage5	1865039	344	C/A	115	CGC/CTC	R/L	Rv1651c	PE_PGRS30	nonsyn	ND	no
lineage5	1890948	2923	T/G	975	TTG/GTG	L/V	Rv1664	pks9	nonsyn	nonessential	no
lineage5	1909456	1863	C/T	621	GCC/GCT	A/A	Rv1683	.	syn	essential	yes
lineage5	1911301	99	C/T	33	GCG/GCA	A/A	Rv1685c	.	syn	nonessential	no
lineage5	1939007	170	A/C	57	CAG/CCG	Q/P	Rv1711	.	nonsyn	essential	no
lineage5	1951438	314	G/A	105	CCC/CTC	P/L	Rv1725c	.	nonsyn	nonessential	no
lineage5	1955339	231	T/G	77	GCA/GCC	A/A	Rv1729c	.	syn	nonessential	no
lineage5	1961730	59	G/A	20	GCA/GTA	A/V	Rv1735c	.	nonsyn	nonessential	no
lineage5	1964984	387	C/T	129	CGG/CGA	R/R	Rv1737c	narK2	syn	nonessential	no
lineage5	1968284	112	C/T	38	CGG/TGG	R/W	Rv1742	.	nonsyn	nonessential	no
lineage5	1971965	27	T/G	9	CCA/CCC	P/P	Rv1745c	idi	syn	nonessential	no
lineage5	1982628	2148	G/T	716	AGC/AGA	S/R	Rv1753c	PPE24	nonsyn	ND	no
lineage5	1989553	512	G/C	171	GGT/GCT	G/A	Rv1758	cut1	nonsyn	nonessential	no
lineage5	2007015	.	C/G	.	./.	./.	.	.	inter	.	no
lineage5	2008140	309	A/C	103	CCA/CCC	P/P	Rv1774	.	syn	nonessential	no
lineage5	2017860	121	C/T	41	CGT/TGT	R/C	Rv1782	eccB5	nonsyn	nonessential	no
lineage5	2018883	1144	G/C	382	GGG/CGG	G/R	Rv1782	eccB5	nonsyn	nonessential	no
lineage5	2026110	810	G/A	270	CCG/CCA	P/P	Rv1787	PPE25	syn	ND	no
lineage5	2046615	228	C/G	76	GAG/GAC	E/D	Rv1803c	PE_PGRS32	nonsyn	ND	no
lineage5	2048959	562	C/T	188	CAC/TAC	H/Y	Rv1807	PPE31	nonsyn	ND	no
lineage5	2060377	783	C/T	261	TAC/TAT	Y/Y	Rv1817	.	syn	nonessential	no
lineage5	2069546	467	T/C	156	GTG/GCG	V/A	Rv1822	pgsA2	nonsyn	nonessential	no
lineage5	2080594	765	C/T	255	CGC/CGT	R/R	Rv1834	lipZ	syn	nonessential	no
lineage5	2087453	200	A/G	67	ATT/ACT	I/T	Rv1838c	vapC13	nonsyn	nonessential	no
lineage5	2090366	353	A/G	118	ATG/ACG	M/T	Rv1841c	.	nonsyn	nonessential	no
lineage5	2095234	935	C/A	312	CGG/CTG	R/L	Rv1845c	blaR	nonsyn	nonessential	no
lineage5	2099402	1442	T/G	481	GTG/GGG	V/G	Rv1850	ureC	nonsyn	essential	no
lineage5	2099631	1671	C/T	557	GGC/GGT	G/G	Rv1850	ureC	syn	essential	yes
lineage5	2101921	1122	C/T	374	TCG/TCA	S/S	Rv1854c	ndh	syn	nonessential	no
lineage5	2122443	709	C/A	237	GCT/TCT	A/S	Rv1872c	lldD2	nonsyn	nonessential	no
lineage5	2123146	6	C/T	2	GCG/GCA	A/A	Rv1872c	lldD2	syn	nonessential	no
lineage5	2125054	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	2130784	1074	C/T	358	CCG/CCA	P/P	Rv1880c	cyp140	syn	nonessential	no
lineage5	2132077	253	T/C	85	ATC/GTC	I/V	Rv1881c	lppE	nonsyn	nonessential	no
lineage5	2136642	385	C/T	129	CTT/TTT	L/F	Rv1887	.	nonsyn	nonessential	no
lineage5	2140748	1122	C/G	374	GCG/GCC	A/A	Rv1894c	.	syn	nonessential	no
lineage5	2158190	902	A/C	301	ATC/AGC	I/S	Rv1912c	fadB5	nonsyn	nonessential	no
lineage5	2165687	1625	T/G	542	GAG/GCG	E/A	Rv1917c	PPE34	nonsyn	ND	no
lineage5	2176648	283	A/C	95	TGG/GGG	W/G	Rv1924c	.	nonsyn	nonessential	no
lineage5	2178941	1855	G/A	619	GTG/ATG	V/M	Rv1925	fadD31	nonsyn	nonessential	no
lineage5	2186371	789	G/A	263	GCC/GCT	A/A	Rv1935c	echA13	syn	nonessential	no
lineage5	2186421	739	T/G	247	ACG/CCG	T/P	Rv1935c	echA13	nonsyn	nonessential	no
lineage5	2208538	32	G/A	11	TGG/TAG	W/*	Rv1965	yrbE3B	nonsyn	nonessential	no
lineage5	2216392	1136	A/G	379	GAA/GGA	E/G	Rv1971	mce3F	nonsyn	nonessential	no
lineage5	2223902	128	A/T	43	ATT/AAT	I/N	Rv1980c	mpt64	nonsyn	ND	no
lineage5	2246459	1251	C/A	417	GCC/GCA	A/A	Rv2000	.	syn	nonessential	no
lineage5	2260933	269	T/G	90	CTG/CGG	L/R	Rv2013	.	nonsyn	ND	no
lineage5	2268887	1354	G/C	452	CTG/GTG	L/V	Rv2024c	.	nonsyn	nonessential	no
lineage5	2283293	429	G/C	143	ACC/ACG	T/T	Rv2037c	.	syn	nonessential	no
lineage5	2304017	2970	C/T	990	CTG/CTA	L/L	Rv2048c	pks12	syn	essential	yes
lineage5	2328420	558	C/T	186	ACG/ACA	T/T	Rv2071c	cobM	syn	nonessential	no
lineage5	2335650	296	G/A	99	GGT/GAT	G/D	Rv2079	.	nonsyn	nonessential	no
lineage5	2338773	65	G/A	22	CGG/CAG	R/Q	Rv2082	.	nonsyn	nonessential	no
lineage5	2338866	158	T/G	53	CTG/CGG	L/R	Rv2082	.	nonsyn	nonessential	no
lineage5	2338912	204	A/C	68	CGA/CGC	R/R	Rv2082	.	syn	nonessential	no
lineage5	2388205	.	A/G	.	./.	./.	.	.	inter	.	no
lineage5	2408524	1001	G/A	334	TCA/TTA	S/L	Rv2150c	ftsZ	nonsyn	essential	no
lineage5	2414989	1406	C/G	469	GGT/GCT	G/A	Rv2155c	murD	nonsyn	essential	no
lineage5	2452657	616	C/A	206	GTC/TTC	V/F	Rv2190c	.	nonsyn	ND	no
lineage5	2463455	198	C/T	66	CGG/CGA	R/R	Rv2199c	.	syn	nonessential	no
lineage5	2489855	2499	C/T	833	ACG/ACA	T/T	Rv2221c	glnE	syn	essential	yes
lineage5	2493513	230	T/C	77	CAG/CGG	Q/R	Rv2222c	glnA2	nonsyn	nonessential	no
lineage5	2498200	459	G/T	153	ATG/ATT	M/I	Rv2225	panB	nonsyn	essential	no
lineage5	2516804	18	A/C	6	GCA/GCC	A/A	Rv2243	fabD	syn	nonessential	no
lineage5	2530101	722	T/A	241	GAC/GTC	D/V	Rv2257c	.	nonsyn	nonessential	no
lineage5	2532788	544	A/G	182	ACC/GCC	T/A	Rv2259	mscR	nonsyn	nonessential	no
lineage5	2561261	1559	T/C	520	GTG/GCG	V/A	Rv2287	yjcE	nonsyn	nonessential	no
lineage5	2562933	335	T/C	112	ATC/ACC	I/T	Rv2290	lppO	nonsyn	ND	no
lineage5	2574950	70	T/C	24	ATT/GTT	I/V	Rv2303c	.	nonsyn	nonessential	no
lineage5	2598899	1049	G/T	350	ACC/AAC	T/N	Rv2326c	.	nonsyn	nonessential	no
lineage5	2603523	.	G/C	.	./.	./.	.	.	inter	.	no
lineage5	2609302	507	G/C	169	AAG/AAC	K/N	Rv2334	cysK1	nonsyn	nonessential	no
lineage5	2615969	1277	C/A	426	GCG/GAG	A/E	Rv2339	mmpL9	nonsyn	nonessential	no
lineage5	2616527	1835	G/T	612	CGG/CTG	R/L	Rv2339	mmpL9	nonsyn	nonessential	no
lineage5	2617442	2750	C/A	917	TCG/TAG	S/*	Rv2339	mmpL9	nonsyn	nonessential	no
lineage5	2645780	894	C/T	298	CTG/CTA	L/L	Rv2364c	era	syn	essential	yes
lineage5	2663463	3653	C/A	1218	CGC/CTC	R/L	Rv2380c	mbtE	nonsyn	nonessential	no
lineage5	2682158	985	G/A	329	CTC/TTC	L/F	Rv2388c	hemN	nonsyn	essential	no
lineage5	2701940	1309	G/A	437	CCG/TCG	P/S	Rv2404c	lepA	nonsyn	nonessential	no
lineage5	2730711	2039	G/A	680	GCC/GTC	A/V	Rv2435c	.	nonsyn	nonessential	no
lineage5	2744225	760	A/G	254	TTG/CTG	L/L	Rv2444c	rne	syn	essential	yes
lineage5	2797011	375	C/A	125	GGG/GGT	G/G	Rv2487c	PE_PGRS42	syn	ND	no
lineage5	2808296	214	G/A	72	GAG/AAG	E/K	Rv2493	vapB38	nonsyn	nonessential	no
lineage5	2810816	167	T/C	56	GAG/GGG	E/G	Rv2496c	bkdB	nonsyn	nonessential	no
lineage5	2811013	1084	C/T	362	GAA/AAA	E/K	Rv2497c	bkdA	nonsyn	nonessential	no
lineage5	2819093	35	G/C	12	GCC/GGC	A/G	Rv2503c	scoB	nonsyn	nonessential	no
lineage5	2852798	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	2855231	2551	A/G	851	TTC/CTC	F/L	Rv2531c	.	nonsyn	nonessential	no
lineage5	2855959	1823	G/A	608	CCC/CTC	P/L	Rv2531c	.	nonsyn	nonessential	no
lineage5	2859147	144	C/T	48	AAG/AAA	K/K	Rv2534c	efp	syn	essential	yes
lineage5	2868769	164	G/A	55	GGC/GAC	G/D	Rv2547	vapB19	nonsyn	nonessential	no
lineage5	2881938	181	G/C	61	GGC/CGC	G/R	Rv2562	.	nonsyn	nonessential	no
lineage5	2919947	2077	T/C	693	TTC/CTC	F/L	Rv2590	fadD9	nonsyn	nonessential	no
lineage5	2922028	478	G/A	160	GGT/AGT	G/S	Rv2591	PE_PGRS44	nonsyn	ND	no
lineage5	2934398	201	C/G	67	ACC/ACG	T/T	Rv2607	pdxH	syn	nonessential	no
lineage5	2945389	60	G/A	20	GCG/GCA	A/A	Rv2616	.	syn	nonessential	no
lineage5	2958044	473	G/T	158	GGC/GTC	G/V	Rv2631	.	nonsyn	nonessential	no
lineage5	2971122	572	T/C	191	ATC/ACC	I/T	Rv2646	.	nonsyn	ND	no
lineage5	2976562	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	2976565	.	C/G	.	./.	./.	.	.	inter	.	no
lineage5	2976579	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	2976616	294	G/C	98	CAC/CAG	H/Q	Rv2653c	.	nonsyn	ND	no
lineage5	3004427	322	C/A	108	GTG/TTG	V/L	Rv2687c	.	nonsyn	nonessential	no
lineage5	3009738	395	A/C	132	CAG/CCG	Q/P	Rv2691	ceoB	nonsyn	nonessential	no
lineage5	3009759	416	G/C	139	TGG/TCG	W/S	Rv2691	ceoB	nonsyn	nonessential	no
lineage5	3015834	632	T/C	211	ATC/ACC	I/T	Rv2700	.	nonsyn	essential	no
lineage5	3016149	587	G/C	196	GCT/GGT	A/G	Rv2701c	suhB	nonsyn	nonessential	no
lineage5	3035033	125	C/T	42	TCG/TTG	S/L	Rv2723	.	nonsyn	nonessential	no
lineage5	3037196	96	C/T	32	GCG/GCA	A/A	Rv2724c	fadE20	syn	nonessential	no
lineage5	3051911	102	G/A	34	GGC/GGT	G/G	Rv2738c	.	syn	nonessential	no
lineage5	3056742	491	G/T	164	ACG/AAG	T/K	Rv2743c	.	nonsyn	nonessential	no
lineage5	3098714	225	T/C	75	TCA/TCG	S/S	Rv2789c	fadE21	syn	nonessential	no
lineage5	3106231	1077	C/T	359	GCG/GCA	A/A	Rv2797c	.	syn	nonessential	no
lineage5	3106491	817	G/A	273	CAG/TAG	Q/*	Rv2797c	.	nonsyn	nonessential	no
lineage5	3158512	1543	G/A	515	CGA/TGA	R/*	Rv2850c	.	nonsyn	nonessential	no
lineage5	3159164	891	G/A	297	GAC/GAT	D/D	Rv2850c	.	syn	nonessential	no
lineage5	3163330	1063	A/C	355	AAA/CAA	K/Q	Rv2853	PE_PGRS48	nonsyn	ND	no
lineage5	3175460	1806	C/T	602	CTG/CTA	L/L	Rv2864c	.	syn	nonessential	no
lineage5	3184670	.	T/C	.	./.	./.	.	.	inter	.	no
lineage5	3199103	5	G/A	2	GCG/GTG	A/V	Rv2889c	tsf	nonsyn	essential	no
lineage5	3214120	134	A/G	45	GTG/GCG	V/A	Rv2904c	rplS	nonsyn	essential	no
lineage5	3298691	1264	T/G	422	AGG/CGG	R/R	Rv2948c	fadD22	syn	nonessential	no
lineage5	3300479	92	A/C	31	GTT/GGT	V/G	Rv2949c	.	nonsyn	nonessential	no
lineage5	3320271	2776	C/T	926	GCG/ACG	A/T	Rv2967c	pca	nonsyn	essential	no
lineage5	3345427	649	A/G	217	TCG/CCG	S/P	Rv2988c	leuC	nonsyn	nonessential	no
lineage5	3356624	.	G/C	.	./.	./.	.	.	inter	.	no
lineage5	3363584	237	G/A	79	ACG/ACA	T/T	Rv3004	cfp6	syn	nonessential	no
lineage5	3399945	239	T/G	80	GAG/GCG	E/A	Rv3039c	echA17	nonsyn	nonessential	no
lineage5	3416432	352	G/A	118	GTC/ATC	V/I	Rv3055	.	nonsyn	nonessential	no
lineage5	3416630	550	G/A	184	GGC/AGC	G/S	Rv3055	.	nonsyn	nonessential	no
lineage5	3431529	102	C/T	34	CCC/CCT	P/P	Rv3067	.	syn	nonessential	no
lineage5	3433326	297	C/T	99	CTG/CTA	L/L	Rv3068c	pgmA	syn	nonessential	no
lineage5	3466706	386	A/G	129	TTC/TCC	F/S	Rv3097c	lipY	nonsyn	nonessential	no
lineage5	3478253	605	C/A	202	GCG/GAG	A/E	Rv3109	moaA1	nonsyn	essential	no
lineage5	3496002	365	T/G	122	GAA/GCA	E/A	Rv3130c	tgs1	nonsyn	nonessential	no
lineage5	3503284	.	A/G	.	./.	./.	.	.	inter	.	no
lineage5	3504184	.	T/A	.	./.	./.	.	.	inter	.	no
lineage5	3506470	1108	G/A	370	GCT/ACT	A/T	Rv3139	fadE24	nonsyn	essential	no
lineage5	3511335	.	T/G	.	./.	./.	.	.	inter	.	no
lineage5	3573080	590	T/C	197	CAT/CGT	H/R	Rv3200c	.	nonsyn	nonessential	no
lineage5	3580275	.	G/C	.	./.	./.	.	.	inter	.	no
lineage5	3591082	411	G/A	137	AAC/AAT	N/N	Rv3213c	.	syn	nonessential	no
lineage5	3596354	1181	T/C	394	GAC/GGC	D/G	Rv3220c	.	nonsyn	nonessential	no
lineage5	3630235	153	G/A	51	CGC/CGT	R/R	Rv3249c	.	syn	nonessential	no
lineage5	3648267	383	G/T	128	GGT/GTT	G/V	Rv3267	.	nonsyn	essential	no
lineage5	3651849	1324	T/G	442	TCG/GCG	S/A	Rv3270	ctpC	nonsyn	essential	no
lineage5	3674194	593	G/C	198	GGC/GCC	G/A	Rv3293	pcd	nonsyn	nonessential	no
lineage5	3685487	477	C/T	159	CTG/CTA	L/L	Rv3299c	atsB	syn	nonessential	no
lineage5	3701552	633	C/T	211	GAG/GAA	E/E	Rv3313c	add	syn	nonessential	no
lineage5	3705776	777	C/T	259	CGC/CGT	R/R	Rv3318	sdhA	syn	nonessential	no
lineage5	3744243	8942	C/A	2981	GGA/GTA	G/V	Rv3347c	PPE55	nonsyn	ND	no
lineage5	3749531	3654	G/C	1218	GGC/GGG	G/G	Rv3347c	PPE55	syn	ND	no
lineage5	3754342	692	T/C	231	CAG/CGG	Q/R	Rv3349c	.	nonsyn	ND	no
lineage5	3778148	412	G/A	138	GCC/ACC	A/T	Rv3366	spoU	nonsyn	nonessential	no
lineage5	3780715	265	T/C	89	ACC/GCC	T/A	Rv3368c	.	nonsyn	nonessential	no
lineage5	3790652	497	C/T	166	ACG/ATG	T/M	Rv3376	.	nonsyn	nonessential	no
lineage5	3812009	291	C/A	97	GAC/GAA	D/E	Rv3395A	.	nonsyn	nonessential	no
lineage5	3822047	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	3835102	211	G/T	71	GAG/TAG	E/*	Rv3416	whiB3	nonsyn	nonessential	no
lineage5	3840932	489	G/A	163	AAC/AAT	N/N	Rv3423c	alr	syn	essential	yes
lineage5	3850261	.	G/T	.	./.	./.	.	.	inter	.	no
lineage5	3858894	769	G/A	257	CTT/TTT	L/F	Rv3439c	.	nonsyn	nonessential	no
lineage5	3864816	3423	C/T	1141	TCG/TCA	S/S	Rv3447c	eccC4	syn	nonessential	no
lineage5	3865398	2841	G/T	947	GTC/GTA	V/V	Rv3447c	eccC4	syn	nonessential	no
lineage5	3866953	1286	A/G	429	GTC/GCC	V/A	Rv3447c	eccC4	nonsyn	nonessential	no
lineage5	3872171	326	G/A	109	GCC/GTC	A/V	Rv3450c	eccB4	nonsyn	nonessential	no
lineage5	3875633	812	A/G	271	TAT/TGT	Y/C	Rv3454	.	nonsyn	nonessential	no
lineage5	3895055	630	G/A	210	CAG/CAA	Q/Q	Rv3478	PPE60	syn	ND	no
lineage5	3909589	1354	G/A	452	GGG/AGG	G/R	Rv3490	otsA	nonsyn	essential	no
lineage5	3919261	802	C/T	268	GCC/ACC	A/T	Rv3500c	yrbE4B	nonsyn	nonessential	no
lineage5	3939405	.	G/T	.	./.	./.	.	.	inter	.	no
lineage5	3964234	.	A/T	.	./.	./.	.	.	inter	.	no
lineage5	3986987	144	G/T	48	CTG/CTT	L/L	Rv3547	ddn	syn	nonessential	no
lineage5	3999805	631	T/C	211	ACC/GCC	T/A	Rv3559c	.	nonsyn	essential	no
lineage5	4006943	744	G/A	248	GTG/GTA	V/V	Rv3565	aspB	syn	nonessential	no
lineage5	4008863	420	T/C	140	TCA/TCG	S/S	Rv3567c	hsaB	syn	nonessential	no
lineage5	4033260	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	4062582	56	C/G	19	GCA/GGA	A/G	Rv3623	lpqG	nonsyn	nonessential	no
lineage5	4067386	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	4074437	804	G/C	268	CCG/CCC	P/P	Rv3635	.	syn	essential	yes
lineage5	4086604	654	G/A	218	TAC/TAT	Y/Y	Rv3646c	topA	syn	essential	yes
lineage5	4109151	1360	G/A	454	GAT/AAT	D/N	Rv3667	acs	nonsyn	nonessential	no
lineage5	4113005	511	C/T	171	GCG/ACG	A/T	Rv3671c	.	nonsyn	nonessential	no
lineage5	4117097	620	A/C	207	GAG/GCG	E/A	Rv3676	crp	nonsyn	nonessential	no
lineage5	4120451	657	G/T	219	GCG/GCT	A/A	Rv3680	.	syn	nonessential	no
lineage5	4123685	1770	C/A	590	GAC/GAA	D/E	Rv3682	ponA2	nonsyn	nonessential	no
lineage5	4134341	826	G/A	276	GTC/ATC	V/I	Rv3692	moxR2	nonsyn	nonessential	no
lineage5	4137136	.	G/A	.	./.	./.	.	.	inter	.	no
lineage5	4139131	625	C/T	209	GAG/AAG	E/K	Rv3696c	glpK	nonsyn	nonessential	no
lineage5	4153687	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	4161854	405	C/A	135	GTG/GTT	V/V	Rv3718c	.	syn	nonessential	no
lineage5	4190465	53	A/C	18	CTC/CGC	L/R	Rv3739c	PPE67	nonsyn	ND	no
lineage5	4192797	57	T/C	19	CAA/CAG	Q/Q	Rv3741c	.	syn	nonessential	no
lineage5	4200686	266	C/T	89	ACG/ATG	T/M	Rv3754	tyrA	nonsyn	nonessential	no
lineage5	4201728	161	G/A	54	CCG/CTG	P/L	Rv3755c	.	nonsyn	nonessential	no
lineage5	4205237	137	C/T	46	GGG/GAG	G/E	Rv3759c	proX	nonsyn	nonessential	no
lineage5	4208331	546	C/A	182	GCG/GCT	A/A	Rv3762c	.	syn	nonessential	no
lineage5	4214206	137	G/C	46	CGC/CCC	R/P	Rv3768	.	nonsyn	nonessential	no
lineage5	4230965	710	G/T	237	GGT/GTT	G/V	Rv3784	.	nonsyn	nonessential	no
lineage5	4231528	209	A/G	70	TAC/TGC	Y/C	Rv3785	.	nonsyn	nonessential	no
lineage5	4233541	57	C/T	19	ACG/ACA	T/T	Rv3786c	.	syn	nonessential	no
lineage5	4239843	1912	A/C	638	AAG/CAG	K/Q	Rv3792	aftA	nonsyn	essential	no
lineage5	4262256	811	T/C	271	ATC/GTC	I/V	Rv3801c	fadD32	nonsyn	essential	no
lineage5	4271348	932	G/A	311	GCC/GTC	A/V	Rv3808c	glfT2	nonsyn	essential	no
lineage5	4275241	444	C/A	148	CTC/CTA	L/L	Rv3811	.	syn	nonessential	no
lineage5	4306059	303	C/T	101	GCC/GCT	A/A	Rv3831	.	syn	nonessential	no
lineage5	4317750	.	C/T	.	./.	./.	.	.	inter	.	no
lineage5	4319352	72	T/C	24	GCT/GCC	A/A	Rv3845	.	syn	nonessential	no
lineage5	4322042	505	G/A	169	GCA/ACA	A/T	Rv3847	.	nonsyn	nonessential	no
lineage5	4328644	765	A/G	255	CGT/CGC	R/R	Rv3856c	.	syn	nonessential	no
lineage5	4339610	762	G/A	254	TTG/TTA	L/L	Rv3863	.	syn	nonessential	no
lineage5	4386746	69	T/C	23	ATA/ATG	I/M	Rv3901c	.	nonsyn	nonessential	no
lineage5	4387392	504	G/A	168	TTC/TTT	F/F	Rv3902c	.	syn	nonessential	no
lineage5	4387423	473	G/A	158	TCT/TTT	S/F	Rv3902c	.	nonsyn	nonessential	no
lineage5	4397374	778	G/A	260	GCC/ACC	A/T	Rv3910	.	nonsyn	essential	no
lineage5	4397763	1167	C/A	389	CCC/CCA	P/P	Rv3910	.	syn	essential	yes
lineage5	4400947	78	C/G	26	GAC/GAG	D/E	Rv3912	.	nonsyn	nonessential	no
lineage6	13482	77	G/A	26	GCG/GTG	A/V	Rv0010c	.	nonsyn	nonessential	no
lineage6	33137	1081	C/G	361	CTC/GTC	L/V	Rv0029	.	nonsyn	nonessential	no
lineage6	36304	2010	T/G	670	GCT/GCG	A/A	Rv0032	bioF2	syn	nonessential	no
lineage6	51113	12	G/A	4	CAC/CAT	H/H	Rv0046c	ino1	syn	nonessential	no
lineage6	62367	1972	G/A	658	GTT/ATT	V/I	Rv0058	dnaB	nonsyn	essential	no
lineage6	84238	243	T/G	81	GGT/GGG	G/G	Rv0075	.	syn	nonessential	no
lineage6	91001	602	C/T	201	CCG/CTG	P/L	Rv0083	.	nonsyn	nonessential	no
lineage6	121248	926	G/A	309	CCG/CTG	P/L	Rv0103c	ctpB	nonsyn	nonessential	no
lineage6	144570	522	C/G	174	TTC/TTG	F/L	Rv0119	fadD7	nonsyn	nonessential	no
lineage6	191470	864	G/A	288	CTG/CTA	L/L	Rv0161	.	syn	nonessential	no
lineage6	203639	1164	G/A	388	CTG/CTA	L/L	Rv0172	mce1D	syn	nonessential	no
lineage6	254508	133	C/G	45	GGC/CGC	G/R	Rv0212c	nadR	nonsyn	nonessential	no
lineage6	272306	534	C/A	178	GCG/GCT	A/A	Rv0227c	.	syn	essential	yes
lineage6	282537	78	G/T	26	ATC/ATA	I/I	Rv0235c	.	syn	nonessential	no
lineage6	310129	.	T/C	.	./.	./.	.	.	inter	.	no
lineage6	310132	.	G/A	.	./.	./.	.	.	inter	.	no
lineage6	315069	698	C/A	233	CGC/CTC	R/L	Rv0263c	.	nonsyn	nonessential	no
lineage6	344957	936	A/G	312	ATA/ATG	I/M	Rv0283	eccB3	nonsyn	essential	no
lineage6	352058	211	G/T	71	GCG/TCG	A/S	Rv0288	esxH	nonsyn	ND	no
lineage6	368397	4368	A/G	1456	GGT/GGC	G/G	Rv0304c	PPE5	syn	ND	no
lineage6	399581	470	G/A	157	GCT/GTT	A/V	Rv0335c	PE6	nonsyn	ND	no
lineage6	402881	282	G/A	94	GAC/GAT	D/D	Rv0337c	aspC	syn	essential	yes
lineage6	430653	4027	C/T	1343	GGC/AGC	G/S	Rv0355c	PPE8	nonsyn	ND	no
lineage6	445737	789	C/T	263	CCG/CCA	P/P	Rv0368c	.	syn	nonessential	no
lineage6	457372	452	G/T	151	CCG/CAG	P/Q	Rv0381c	.	nonsyn	nonessential	no
lineage6	477634	923	T/C	308	GAG/GGG	E/G	Rv0399c	lpqK	nonsyn	essential	no
lineage6	518166	231	G/T	77	CGC/CGA	R/R	Rv0429c	def	syn	essential	yes
lineage6	519331	259	A/G	87	ACA/GCA	T/A	Rv0431	.	nonsyn	nonessential	no
lineage6	529147	540	C/G	180	ACC/ACG	T/T	Rv0440	groEL2	syn	ND	no
lineage6	532927	.	G/C	.	./.	./.	.	.	inter	.	no
lineage6	547013	.	G/A	.	./.	./.	.	.	inter	.	no
lineage6	590622	540	C/G	180	GGC/GGG	G/G	Rv0500	proC	syn	essential	yes
lineage6	628906	826	G/A	276	CTG/TTG	L/L	Rv0537c	.	syn	nonessential	no
lineage6	687074	254	C/T	85	CCG/CTG	P/L	Rv0589	mce2A	nonsyn	ND	no
lineage6	717062	.	C/T	.	./.	./.	.	.	inter	.	no
lineage6	781075	355	G/C	119	GCG/CCG	A/P	Rv0681	.	nonsyn	nonessential	no
lineage6	807012	678	G/T	226	TGG/TGT	W/C	Rv0711	atsA	nonsyn	nonessential	no
lineage6	886178	469	G/T	157	CTT/ATT	L/I	Rv0792c	.	nonsyn	nonessential	no
lineage6	900065	1266	G/T	422	ACC/ACA	T/T	Rv0806c	cpsY	syn	nonessential	no
lineage6	901327	4	G/C	2	CCC/GCC	P/A	Rv0806c	cpsY	nonsyn	nonessential	no
lineage6	920333	700	C/T	234	CCC/TCC	P/S	Rv0826	.	nonsyn	nonessential	no
lineage6	941054	53	G/A	18	CCG/CTG	P/L	Rv0844c	narL	nonsyn	nonessential	no
lineage6	975915	23	C/G	8	CGG/CCG	R/P	Rv0876c	.	nonsyn	nonessential	no
lineage6	994678	826	C/G	276	CTG/GTG	L/V	Rv0892	.	nonsyn	nonessential	no
lineage6	1007708	473	C/T	158	GGG/GAG	G/E	Rv0904c	accD3	nonsyn	nonessential	no
lineage6	1095053	168	G/T	56	AAG/AAT	K/N	Rv0979A	rpmF	nonsyn	nonessential	no
lineage6	1117308	124	C/T	42	CTG/TTG	L/L	Rv1001	arcA	syn	nonessential	no
lineage6	1118270	1086	A/G	362	GTA/GTG	V/V	Rv1001	arcA	syn	nonessential	no
lineage6	1122175	.	C/G	.	./.	./.	.	.	inter	.	no
lineage6	1150490	1197	C/G	399	TCG/TCC	S/S	Rv1028c	kdpD	syn	essential	yes
lineage6	1154634	911	T/C	304	GTG/GCG	V/A	Rv1030	kdpB	nonsyn	nonessential	no
lineage6	1156704	1252	T/C	418	ACC/GCC	T/A	Rv1032c	trcS	nonsyn	nonessential	no
lineage6	1197169	.	G/C	.	./.	./.	.	.	inter	.	no
lineage6	1224174	1178	C/T	393	GCC/GTC	A/V	Rv1095	phoH2	nonsyn	nonessential	no
lineage6	1233275	682	G/A	228	CTG/TTG	L/L	Rv1106c	.	syn	nonessential	no
lineage6	1245781	653	C/T	218	ACC/ATC	T/I	Rv1122	gnd2	nonsyn	essential	no
lineage6	1247306	180	C/G	60	GTC/GTG	V/V	Rv1124	ephC	syn	nonessential	no
lineage6	1276405	1344	G/A	448	ACC/ACT	T/T	Rv1148c	.	syn	nonessential	no
lineage6	1276414	1335	G/T	445	CAC/CAA	H/Q	Rv1148c	.	nonsyn	nonessential	no
lineage6	1276416	1333	G/T	445	CAC/AAC	H/N	Rv1148c	.	nonsyn	nonessential	no
lineage6	1279184	434	C/T	145	CGG/CAG	R/Q	Rv1151c	.	nonsyn	nonessential	no
lineage6	1281685	257	C/G	86	GCG/GGG	A/G	Rv1155	.	nonsyn	nonessential	no
lineage6	1286582	.	A/G	.	./.	./.	.	.	inter	.	no
lineage6	1313726	2	T/C	1	GTG/GCG	V/A	Rv1180	pks3	nonsyn	nonessential	no
lineage6	1373576	622	A/G	208	TGG/CGG	W/R	Rv1230c	.	nonsyn	nonessential	no
lineage6	1375349	820	C/A	274	GGG/TGG	G/W	Rv1232c	.	nonsyn	essential	no
lineage6	1414870	971	G/A	324	ACC/ATC	T/I	Rv1266c	pknH	nonsyn	nonessential	no
lineage6	1438981	75	C/T	25	CTC/CTT	L/L	Rv1286	cysN	syn	essential	no
lineage6	1461251	207	G/T	69	GCG/GCT	A/A	Rv1305	atpE	syn	essential	yes
lineage6	1486647	786	G/C	262	CAG/CAC	Q/H	Rv1323	fadA4	nonsyn	essential	no
lineage6	1507308	554	G/C	185	CGC/CCC	R/P	Rv1340	rphA	nonsyn	nonessential	no
lineage6	1529346	2735	C/T	912	GCT/GTT	A/V	Rv1358	.	nonsyn	nonessential	no
lineage6	1536183	1462	G/A	488	CGC/TGC	R/C	Rv1364c	.	nonsyn	nonessential	no
lineage6	1560088	2988	G/T	996	CTG/CTT	L/L	Rv1384	carB	syn	nonessential	no
lineage6	1598404	499	C/A	167	CTT/ATT	L/I	Rv1423	whiA	nonsyn	nonessential	no
lineage6	1619451	234	C/G	78	CAG/CAC	Q/H	Rv1441c	PE_PGRS26	nonsyn	ND	no
lineage6	1659318	339	C/T	113	GGC/GGT	G/G	Rv1470	trxA	syn	nonessential	no
lineage6	1666671	468	G/A	156	GTG/GTA	V/V	Rv1476	.	syn	essential	yes
lineage6	1674434	233	T/C	78	GTG/GCG	V/A	Rv1484	inhA	nonsyn	nonessential	no
lineage6	1679008	67	A/G	23	AAA/GAA	K/E	Rv1489A	.	nonsyn	nonessential	no
lineage6	1692061	172	C/G	58	CGG/GGG	R/G	Rv1501	.	nonsyn	nonessential	no
lineage6	1699448	447	C/A	149	TGG/TGT	W/C	Rv1508c	.	nonsyn	nonessential	no
lineage6	1701212	.	A/C	.	./.	./.	.	.	inter	.	no
lineage6	1702423	1129	G/A	377	GCC/ACC	A/T	Rv1510	.	nonsyn	nonessential	no
lineage6	1711637	610	G/T	204	GCT/TCT	A/S	Rv1520	.	nonsyn	nonessential	no
lineage6	1725768	2642	G/A	881	ACA/ATA	T/I	Rv1527c	pks5	nonsyn	nonessential	no
lineage6	1775066	79	C/T	27	GTA/ATA	V/I	Rv1567c	.	nonsyn	nonessential	no
lineage6	1776663	1272	G/A	424	TCG/TCA	S/S	Rv1568	bioA	syn	essential	yes
lineage6	1778197	339	G/A	113	CTG/CTA	L/L	Rv1570	bioD	syn	nonessential	no
lineage6	1805289	437	C/A	146	CCG/CAG	P/Q	Rv1605	hisF	nonsyn	essential	no
lineage6	1805670	18	G/A	6	AAG/AAA	K/K	Rv1606	hisI	syn	essential	yes
lineage6	1816587	399	C/G	133	GTC/GTG	V/V	Rv1617	pykA	syn	essential	yes
lineage6	1824107	294	C/G	98	ATG/ATC	M/I	Rv1622c	cydB	nonsyn	essential	no
lineage6	1827946	.	G/A	.	./.	./.	.	.	inter	.	no
lineage6	1828506	327	G/C	109	ATG/ATC	M/I	Rv1626	.	nonsyn	essential	no
lineage6	1846552	2812	G/T	938	GCC/TCC	A/S	Rv1638	uvrA	nonsyn	nonessential	no
lineage6	1870031	110	A/C	37	CAA/CCA	Q/P	Rv1656	argF	nonsyn	essential	no
lineage6	1875585	282	C/T	94	ACC/ACT	T/T	Rv1661	pks7	syn	essential	yes
lineage6	1912617	304	C/T	102	GAC/AAC	D/N	Rv1687c	.	nonsyn	nonessential	no
lineage6	1958423	747	C/T	249	ATC/ATT	I/I	Rv1731	gabD2	syn	nonessential	no
lineage6	2042439	439	G/T	147	GCC/TCC	A/S	Rv1801	PPE29	nonsyn	ND	no
lineage6	2043867	484	C/T	162	CAG/TAG	Q/*	Rv1802	PPE30	nonsyn	ND	no
lineage6	2049907	.	G/A	.	./.	./.	.	.	inter	.	no
lineage6	2053762	320	C/T	107	GCC/GTC	A/V	Rv1811	mgtC	nonsyn	nonessential	no
lineage6	2063121	1608	T/A	536	CCA/CCT	P/P	Rv1819c	bacA	syn	nonessential	no
lineage6	2071192	157	C/T	53	CGG/TGG	R/W	Rv1825	.	nonsyn	nonessential	no
lineage6	2071410	375	C/T	125	GAC/GAT	D/D	Rv1825	.	syn	nonessential	no
lineage6	2108374	639	C/T	213	GAC/GAT	D/D	Rv1860	apa	syn	ND	no
lineage6	2124926	.	T/C	.	./.	./.	.	.	inter	.	no
lineage6	2127646	1743	C/T	581	ACC/ACT	T/T	Rv1877	.	syn	nonessential	no
lineage6	2143839	608	T/C	203	GAG/GGG	E/G	Rv1896c	.	nonsyn	nonessential	no
lineage6	2150754	391	A/G	131	ACT/GCT	T/A	Rv1903	.	nonsyn	nonessential	no
lineage6	2181541	366	G/T	122	CCC/CCA	P/P	Rv1929c	.	syn	nonessential	no
lineage6	2221313	406	G/A	136	GCC/ACC	A/T	Rv1978	.	nonsyn	nonessential	no
lineage6	2275771	654	T/C	218	GCA/GCG	A/A	Rv2029c	pfkB	syn	nonessential	no
lineage6	2281289	.	G/T	.	./.	./.	.	.	inter	.	no
lineage6	2347616	244	C/A	82	CTA/ATA	L/I	Rv2090	.	nonsyn	nonessential	no
lineage6	2370902	.	G/A	.	./.	./.	.	.	inter	.	no
lineage6	2379997	664	A/G	222	TCG/CCG	S/P	Rv2121c	hisG	nonsyn	essential	no
lineage6	2435582	736	G/A	246	GCC/ACC	A/T	Rv2173	idsA2	nonsyn	nonessential	no
lineage6	2443508	207	G/T	69	TTG/TTT	L/F	Rv2181	.	nonsyn	nonessential	no
lineage6	2447150	351	G/T	117	CCC/CCA	P/P	Rv2185c	TB16.3	syn	nonessential	no
lineage6	2453933	115	C/A	39	CGC/AGC	R/S	Rv2191	.	nonsyn	nonessential	no
lineage6	2458234	682	A/C	228	AAA/CAA	K/Q	Rv2194	qcrC	nonsyn	essential	no
lineage6	2478180	991	C/A	331	CTC/ATC	L/I	Rv2212	.	nonsyn	nonessential	no
lineage6	2501668	1071	C/T	357	TTG/TTA	L/L	Rv2228c	.	syn	nonessential	no
lineage6	2514867	2329	G/A	777	GCC/ACC	A/T	Rv2241	aceE	nonsyn	essential	no
lineage6	2522878	519	C/A	173	CTC/CTA	L/L	Rv2248	.	syn	nonessential	no
lineage6	2566596	.	G/C	.	./.	./.	.	.	inter	.	no
lineage6	2571678	325	G/A	109	CAG/TAG	Q/*	Rv2299c	htpG	nonsyn	nonessential	no
lineage6	2592510	217	G/A	73	CGC/TGC	R/C	Rv2319c	.	nonsyn	essential	no
lineage6	2623917	97	T/C	33	TCG/CCG	S/P	Rv2345	.	nonsyn	nonessential	no
lineage6	2624945	1125	C/A	375	GAC/GAA	D/E	Rv2345	.	nonsyn	nonessential	no
lineage6	2697218	497	C/A	166	CGC/CTC	R/L	Rv2400c	subI	nonsyn	essential	no
lineage6	2705145	449	C/A	150	ACG/AAG	T/K	Rv2407	.	nonsyn	nonessential	no
lineage6	2733100	.	G/A	.	./.	./.	.	.	inter	.	no
lineage6	2739242	445	A/G	149	TCC/CCC	S/P	Rv2440c	obg	nonsyn	essential	no
lineage6	2757464	729	C/A	243	CTG/CTT	L/L	Rv2456c	.	syn	nonessential	no
lineage6	2772760	276	G/A	92	TCC/TCT	S/S	Rv2469c	.	syn	nonessential	no
lineage6	2789237	47	T/C	16	GAC/GGC	D/G	Rv2482c	plsB2	nonsyn	nonessential	no
lineage6	2817056	1419	C/T	473	GCG/GCA	A/A	Rv2502c	accD1	syn	essential	yes
lineage6	2823743	851	G/T	284	GCA/GAA	A/E	Rv2508c	.	nonsyn	nonessential	no
lineage6	2831046	293	G/A	98	GCC/GTC	A/V	Rv2514c	.	nonsyn	nonessential	no
lineage6	2844335	4998	C/A	1666	ACG/ACT	T/T	Rv2524c	fas	syn	essential	yes
lineage6	2847318	2015	C/G	672	GGC/GCC	G/A	Rv2524c	fas	nonsyn	essential	no
lineage6	2855422	2360	A/G	787	ATC/ACC	I/T	Rv2531c	.	nonsyn	nonessential	no
lineage6	2887964	1592	C/T	531	GCG/GTG	A/V	Rv2566	.	nonsyn	nonessential	no
lineage6	2892917	555	G/A	185	CTC/CTT	L/L	Rv2568c	.	syn	nonessential	no
lineage6	2894322	87	G/C	29	GAC/GAG	D/E	Rv2569c	.	nonsyn	nonessential	no
lineage6	2904864	1229	A/G	410	ATG/ACG	M/T	Rv2580c	hisS	nonsyn	essential	no
lineage6	2939177	786	A/G	262	TAT/TAC	Y/Y	Rv2611c	.	syn	essential	yes
lineage6	3014016	132	C/T	44	CTG/CTA	L/L	Rv2697c	dut	syn	essential	yes
lineage6	3022369	.	G/T	.	./.	./.	.	.	inter	.	no
lineage6	3029177	6	C/T	2	GCC/GCT	A/A	Rv2716	.	syn	nonessential	no
lineage6	3037234	58	G/A	20	CGC/TGC	R/C	Rv2724c	fadE20	nonsyn	nonessential	no
lineage6	3043960	935	C/G	312	GCC/GGC	A/G	Rv2731	.	nonsyn	nonessential	no
lineage6	3049728	1697	T/G	566	CAG/CCG	Q/P	Rv2737c	recA	nonsyn	nonessential	no
lineage6	3068710	1374	C/A	458	AAG/AAT	K/N	Rv2756c	hsdM	nonsyn	nonessential	no
lineage6	3103497	444	C/A	148	TGG/TGT	W/C	Rv2794c	pptT	nonsyn	nonessential	no
lineage6	3117647	830	T/A	277	ATC/AAC	I/N	Rv2812	.	nonsyn	ND	no
lineage6	3117704	887	A/C	296	AAT/ACT	N/T	Rv2812	.	nonsyn	ND	no
lineage6	3119277	.	G/C	.	./.	./.	.	.	inter	.	no
lineage6	3123291	.	C/T	.	./.	./.	.	.	inter	.	no
lineage6	3125180	965	C/G	322	CGG/CCG	R/P	Rv2818c	.	nonsyn	nonessential	no
lineage6	3148174	85	A/G	29	TAC/CAC	Y/H	Rv2840c	.	nonsyn	nonessential	no
lineage6	3148356	.	G/T	.	./.	./.	.	.	inter	.	no
lineage6	3152837	114	C/G	38	GCG/GCC	A/A	Rv2845c	proS	syn	essential	yes
lineage6	3172564	437	G/T	146	ACC/AAC	T/N	Rv2860c	glnA4	nonsyn	nonessential	no
lineage6	3173645	373	C/G	125	GGC/CGC	G/R	Rv2861c	mapB	nonsyn	nonessential	no
lineage6	3187539	510	C/T	170	GTC/GTT	V/V	Rv2875	mpt70	syn	ND	no
lineage6	3202515	96	G/A	32	GCG/GCA	A/A	Rv2893	.	syn	nonessential	no
lineage6	3244091	395	C/A	132	GCA/GAA	A/E	Rv2930	fadD26	nonsyn	nonessential	no
lineage6	3281634	1082	G/A	361	GCA/GTA	A/V	Rv2940c	mas	nonsyn	nonessential	no
lineage6	3317795	.	G/C	.	./.	./.	.	.	inter	.	no
lineage6	3353082	387	G/C	129	ACC/ACG	T/T	Rv2995c	leuB	syn	essential	yes
lineage6	3363185	.	A/T	.	./.	./.	.	.	inter	.	no
lineage6	3383287	602	T/C	201	AAG/AGG	K/R	Rv3024c	trmU	nonsyn	nonessential	no
lineage6	3389840	740	C/A	247	ACC/AAC	T/N	Rv3030	.	nonsyn	essential	no
lineage6	3393311	.	C/T	.	./.	./.	.	.	inter	.	no
lineage6	3395847	469	G/T	157	GTC/TTC	V/F	Rv3035	.	nonsyn	nonessential	no
lineage6	3425952	369	C/A	123	GGC/GGA	G/G	Rv3062	ligB	syn	nonessential	no
lineage6	3546678	241	G/A	81	GCC/ACC	A/T	Rv3178	.	nonsyn	essential	no
lineage6	3564897	534	G/A	178	ATG/ATA	M/I	Rv3195	.	nonsyn	nonessential	no
lineage6	3570843	369	G/A	123	AGC/AGT	S/S	Rv3198c	uvrD2	syn	essential	no
lineage6	3571742	802	C/G	268	GCC/CCC	A/P	Rv3199c	nudC	nonsyn	nonessential	no
lineage6	3681349	30	C/A	10	ACC/ACA	T/T	Rv3297	nei	syn	nonessential	no
lineage6	3688648	795	G/A	265	CGC/CGT	R/R	Rv3302c	glpD2	syn	nonessential	no
lineage6	3705098	99	G/A	33	GTG/GTA	V/V	Rv3318	sdhA	syn	nonessential	no
lineage6	3706343	1344	C/T	448	AAC/AAT	N/N	Rv3318	sdhA	syn	nonessential	no
lineage6	3744543	8642	G/A	2881	CCG/CTG	P/L	Rv3347c	PPE55	nonsyn	ND	no
lineage6	3762189	4914	C/A	1638	CTG/CTT	L/L	Rv3350c	PPE56	syn	ND	no
lineage6	3767368	773	A/C	258	GTT/GGT	V/G	Rv3351c	.	nonsyn	nonessential	no
lineage6	3775639	1863	G/T	621	GGC/GGA	G/G	Rv3365c	.	syn	nonessential	no
lineage6	3829664	247	G/A	83	CAC/TAC	H/Y	Rv3410c	guaB3	nonsyn	nonessential	no
lineage6	3847221	57	T/C	19	GGT/GGC	G/G	Rv3429	PPE59	syn	ND	no
lineage6	3872797	181	A/G	61	ATC/GTC	I/V	Rv3451	cut3	nonsyn	nonessential	no
lineage6	3898522	2703	G/A	901	TCG/TCA	S/S	Rv3479	.	syn	nonessential	no
lineage6	3939062	196	G/C	66	CTC/GTC	L/V	Rv3510c	.	nonsyn	nonessential	no
lineage6	3968375	570	G/C	190	TCC/TCG	S/S	Rv3531c	.	syn	nonessential	no
lineage6	3979323	1265	C/T	422	ACG/ATG	T/M	Rv3539	PPE63	nonsyn	ND	no
lineage6	3981329	652	G/A	218	CAC/TAC	H/Y	Rv3542c	.	nonsyn	essential	no
lineage6	4001813	177	G/A	59	GTG/GTA	V/V	Rv3561	fadD3	syn	nonessential	no
lineage6	4007432	751	C/T	251	GAA/AAA	E/K	Rv3566c	nat	nonsyn	nonessential	no
lineage6	4031202	710	C/A	237	GCC/GAC	A/D	Rv3589	mutY	nonsyn	nonessential	no
lineage6	4035242	891	C/A	297	TTC/TTA	F/L	Rv3593	lpqF	nonsyn	essential	no
lineage6	4051853	1031	A/C	344	GTG/GGG	V/G	Rv3610c	ftsH	nonsyn	essential	no
lineage6	4064918	986	C/T	329	GGC/GAC	G/D	Rv3626c	.	nonsyn	nonessential	no
lineage6	4074919	1286	C/T	429	CCG/CTG	P/L	Rv3635	.	nonsyn	essential	no
lineage6	4130604	248	G/A	83	AGC/AAC	S/N	Rv3689	.	nonsyn	ND	no
lineage6	4173849	895	C/T	299	CGC/TGC	R/C	Rv3727	.	nonsyn	nonessential	no
lineage6	4193449	1925	C/G	642	GGG/GCG	G/A	Rv3743c	ctpJ	nonsyn	nonessential	no
lineage6	4219820	136	G/C	46	GCC/CCC	A/P	Rv3775	lipE	nonsyn	nonessential	no
lineage6	4225401	417	C/T	139	ACC/ACT	T/T	Rv3779	.	syn	nonessential	no
lineage6	4270171	167	G/T	56	GCG/GAG	A/E	Rv3807c	.	nonsyn	nonessential	no
lineage6	4272211	69	C/T	23	GTG/GTA	V/V	Rv3808c	glfT2	syn	essential	yes
lineage6	4320299	.	G/A	.	./.	./.	.	.	inter	.	no
lineage6	4333284	2798	T/C	933	AAC/AGC	N/S	Rv3859c	gltB	nonsyn	essential	no
lineage6	4346843	363	C/A	121	ACC/ACA	T/T	Rv3870	eccCa1	syn	essential	yes
lineage6	4362384	1037	C/G	346	GGC/GCC	G/A	Rv3882c	eccE1	nonsyn	essential	no
lineage6	4365212	1627	T/C	543	AAC/GAC	N/D	Rv3884c	eccA2	nonsyn	nonessential	no
lineage7	1960	.	G/C	.	./.	./.	.	.	inter	.	no
lineage7	8876	1575	C/T	525	TAC/TAT	Y/Y	Rv0006	gyrA	syn	nonessential	no
lineage7	11924	388	G/A	130	CCG/TCG	P/S	Rv0008c	.	nonsyn	nonessential	no
lineage7	13445	114	C/T	38	GTG/GTA	V/V	Rv0010c	.	syn	nonessential	no
lineage7	13563	.	T/C	.	./.	./.	.	.	inter	.	no
lineage7	14806	718	T/C	240	TTG/CTG	L/L	Rv0012	.	syn	nonessential	no
lineage7	15735	1736	C/T	579	CGC/CAC	R/H	Rv0014c	pknB	nonsyn	essential	no
lineage7	19077	1158	C/T	386	CAG/CAA	Q/Q	Rv0016c	pbpA	syn	nonessential	no
lineage7	22303	879	C/G	293	CGG/CGC	R/R	Rv0018c	pstP	syn	nonessential	no
lineage7	25223	222	C/G	74	TTG/TTC	L/F	Rv0020c	fhaA	nonsyn	nonessential	no
lineage7	32767	711	T/C	237	TGT/TGC	C/C	Rv0029	.	syn	nonessential	no
lineage7	39699	131	T/G	44	CAG/CCG	Q/P	Rv0036c	.	nonsyn	nonessential	no
lineage7	42401	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	47371	730	G/C	244	CCC/GCC	P/A	Rv0043c	.	nonsyn	nonessential	no
lineage7	48410	618	G/A	206	ACC/ACT	T/T	Rv0044c	.	syn	nonessential	no
lineage7	49139	801	A/C	267	CGT/CGG	R/R	Rv0045c	.	syn	nonessential	no
lineage7	49405	535	G/T	179	CAG/AAG	Q/K	Rv0045c	.	nonsyn	nonessential	no
lineage7	57731	322	C/T	108	CGA/TGA	R/*	Rv0052	.	nonsyn	nonessential	no
lineage7	66827	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	69603	984	C/A	328	AAC/AAA	N/K	Rv0064	.	nonsyn	nonessential	no
lineage7	72545	1967	T/G	656	GAA/GCA	E/A	Rv0066c	icd2	nonsyn	nonessential	no
lineage7	73456	1056	G/A	352	GAC/GAT	D/D	Rv0066c	icd2	syn	nonessential	no
lineage7	77870	1027	C/A	343	GCC/TCC	A/S	Rv0070c	glyA2	nonsyn	nonessential	no
lineage7	78929	.	G/C	.	./.	./.	.	.	inter	.	no
lineage7	80705	82	G/A	28	GGG/AGG	G/R	Rv0072	.	nonsyn	nonessential	no
lineage7	81160	537	G/T	179	GAG/GAT	E/D	Rv0072	.	nonsyn	nonessential	no
lineage7	90613	214	A/G	72	ATC/GTC	I/V	Rv0083	.	nonsyn	nonessential	no
lineage7	100122	439	A/G	147	ACG/GCG	T/A	Rv0091	mtn	nonsyn	nonessential	no
lineage7	101706	1124	C/T	375	GCC/GTC	A/V	Rv0092	ctpA	nonsyn	nonessential	no
lineage7	102188	1606	C/T	536	CGC/TGC	R/C	Rv0092	ctpA	nonsyn	nonessential	no
lineage7	111135	1135	C/T	379	CGC/TGC	R/C	Rv0101	nrp	nonsyn	essential	no
lineage7	112336	2336	G/A	779	GGC/GAC	G/D	Rv0101	nrp	nonsyn	essential	no
lineage7	123065	749	G/A	250	GGT/GAT	G/D	Rv0104	.	nonsyn	nonessential	no
lineage7	129295	1247	C/A	416	CGC/CTC	R/L	Rv0107c	ctpI	nonsyn	nonessential	no
lineage7	131262	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	134002	53	T/G	18	GTC/GGC	V/G	Rv0111	.	nonsyn	nonessential	no
lineage7	137163	875	A/T	292	CAA/CTA	Q/L	Rv0112	gca	nonsyn	essential	no
lineage7	138083	143	T/C	48	CTA/CCA	L/P	Rv0114	gmhB	nonsyn	nonessential	no
lineage7	142799	1078	G/A	360	CGC/TGC	R/C	Rv0118c	oxcA	nonsyn	essential	no
lineage7	150944	1412	C/T	471	ACG/ATG	T/M	Rv0124	PE_PGRS2	nonsyn	ND	no
lineage7	151092	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	151168	21	C/G	7	CGC/CGG	R/R	Rv0125	pepA	syn	ND	no
lineage7	159817	966	G/A	322	ATC/ATT	I/I	Rv0132c	fgd2	syn	nonessential	no
lineage7	163333	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	163950	585	C/T	195	CGC/CGT	R/R	Rv0136	cyp138	syn	nonessential	no
lineage7	167150	241	T/C	81	TAC/CAC	Y/H	Rv0140	.	nonsyn	nonessential	no
lineage7	167152	243	C/T	81	TAC/TAT	Y/Y	Rv0140	.	syn	nonessential	no
lineage7	168945	1238	A/G	413	ATC/ACC	I/T	Rv0143c	.	nonsyn	nonessential	no
lineage7	173460	223	C/T	75	CGC/TGC	R/C	Rv0147	.	nonsyn	nonessential	no
lineage7	173914	677	A/G	226	GAC/GGC	D/G	Rv0147	.	nonsyn	nonessential	no
lineage7	174058	821	A/G	274	AAG/AGG	K/R	Rv0147	.	nonsyn	nonessential	no
lineage7	177866	1444	C/G	482	GTG/CTG	V/L	Rv0151c	PE1	nonsyn	ND	no
lineage7	184321	700	A/G	234	ACC/GCC	T/A	Rv0155	pntAa	nonsyn	nonessential	no
lineage7	184638	1017	G/A	339	TTG/TTA	L/L	Rv0155	pntAa	syn	nonessential	no
lineage7	188904	.	T/A	.	./.	./.	.	.	inter	.	no
lineage7	202710	235	G/A	79	GAA/AAA	E/K	Rv0172	mce1D	nonsyn	nonessential	no
lineage7	204504	440	C/G	147	GCC/GGC	A/G	Rv0173	lprK	nonsyn	essential	no
lineage7	205441	211	G/T	71	GTC/TTC	V/F	Rv0174	mce1F	nonsyn	nonessential	no
lineage7	205771	541	C/T	181	CAA/TAA	Q/*	Rv0174	mce1F	nonsyn	nonessential	no
lineage7	205773	543	A/C	181	CAA/CAC	Q/H	Rv0174	mce1F	nonsyn	nonessential	no
lineage7	207592	141	G/A	47	ACG/ACA	T/T	Rv0176	.	syn	essential	yes
lineage7	211548	703	C/A	235	GTG/TTG	V/L	Rv0180c	.	nonsyn	nonessential	no
lineage7	212165	86	G/A	29	CCG/CTG	P/L	Rv0180c	.	nonsyn	nonessential	no
lineage7	217794	1526	T/C	509	GTG/GCG	V/A	Rv0186	bglS	nonsyn	nonessential	no
lineage7	227697	820	A/C	274	ACC/CCC	T/P	Rv0194	.	nonsyn	nonessential	no
lineage7	232985	755	T/C	252	GTG/GCG	V/A	Rv0197	.	nonsyn	nonessential	no
lineage7	237215	10	G/C	4	GCT/CCT	A/P	Rv0200	.	nonsyn	ND	no
lineage7	237762	557	C/T	186	GCG/GTG	A/V	Rv0200	.	nonsyn	ND	no
lineage7	246359	960	C/T	320	CTG/CTA	L/L	Rv0206c	mmpL3	syn	nonessential	no
lineage7	247732	381	T/G	127	AAA/AAC	K/N	Rv0207c	.	nonsyn	nonessential	no
lineage7	250454	335	A/G	112	AAG/AGG	K/R	Rv0210	.	nonsyn	nonessential	no
lineage7	254676	1275	C/A	425	GAG/GAT	E/D	Rv0213c	.	nonsyn	nonessential	no
lineage7	255200	751	C/T	251	GTC/ATC	V/I	Rv0213c	.	nonsyn	nonessential	no
lineage7	255950	1	T/G	1	ATG/CTG	M/L	Rv0213c	.	nonsyn	nonessential	no
lineage7	265231	1165	C/G	389	CGC/GGC	R/G	Rv0221	.	nonsyn	nonessential	no
lineage7	265399	1333	G/A	445	GAC/AAC	D/N	Rv0221	.	nonsyn	nonessential	no
lineage7	271357	208	C/A	70	GTC/TTC	V/F	Rv0226c	.	nonsyn	essential	no
lineage7	272740	100	T/C	34	ATC/GTC	I/V	Rv0227c	.	nonsyn	essential	no
lineage7	280519	622	C/T	208	GGC/AGC	G/S	Rv0234c	gabD1	nonsyn	nonessential	no
lineage7	283436	3416	T/G	1139	GAA/GCA	E/A	Rv0236c	aftD	nonsyn	essential	no
lineage7	284051	2801	T/G	934	AAG/ACG	K/T	Rv0236c	aftD	nonsyn	essential	no
lineage7	298713	150	G/A	50	CGC/CGT	R/R	Rv0247c	.	syn	nonessential	no
lineage7	302889	24	C/A	8	CGC/CGA	R/R	Rv0252	nirB	syn	nonessential	no
lineage7	307534	325	C/G	109	GCG/CCG	A/P	Rv0255c	cobQ1	nonsyn	nonessential	no
lineage7	331042	617	G/A	206	TCC/TTC	S/F	Rv0275c	.	nonsyn	nonessential	no
lineage7	332746	391	G/A	131	CGG/TGG	R/W	Rv0277c	vapC25	nonsyn	nonessential	no
lineage7	333212	206	G/C	69	ACG/AGG	T/R	Rv0277A	vapB25	nonsyn	nonessential	no
lineage7	344329	308	G/C	103	AGC/ACC	S/T	Rv0283	eccB3	nonsyn	essential	no
lineage7	345719	85	G/A	29	GAG/AAG	E/K	Rv0284	eccC3	nonsyn	essential	no
lineage7	347456	1822	C/A	608	CCG/ACG	P/T	Rv0284	eccC3	nonsyn	essential	no
lineage7	349081	3447	G/A	1149	CTG/CTA	L/L	Rv0284	eccC3	syn	essential	yes
lineage7	351503	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	353026	878	A/C	293	CAA/CCA	Q/P	Rv0289	espG3	nonsyn	essential	no
lineage7	366639	6126	G/A	2042	CCC/CCT	P/P	Rv0304c	PPE5	syn	ND	no
lineage7	368087	4678	A/T	1560	TTC/ATC	F/I	Rv0304c	PPE5	nonsyn	ND	no
lineage7	368109	4656	G/A	1552	ACC/ACT	T/T	Rv0304c	PPE5	syn	ND	no
lineage7	369527	3238	T/G	1080	AAC/CAC	N/H	Rv0304c	PPE5	nonsyn	ND	no
lineage7	372679	86	G/T	29	ACC/AAC	T/N	Rv0304c	PPE5	nonsyn	ND	no
lineage7	379417	246	A/G	82	CTA/CTG	L/L	Rv0311	.	syn	essential	yes
lineage7	381053	498	C/T	166	TTC/TTT	F/F	Rv0312	.	syn	essential	yes
lineage7	386956	144	C/T	48	CCG/CCA	P/P	Rv0318c	.	syn	nonessential	no
lineage7	404496	1346	G/A	449	TCA/TTA	S/L	Rv0338c	.	nonsyn	essential	no
lineage7	412842	86	A/G	29	GAC/GGC	D/G	Rv0343	iniC	nonsyn	nonessential	no
lineage7	420243	409	G/T	137	GCC/TCC	A/S	Rv0350	dnaK	nonsyn	essential	no
lineage7	431219	3461	C/G	1154	GGC/GCC	G/A	Rv0355c	PPE8	nonsyn	ND	no
lineage7	433539	1141	T/C	381	ATG/GTG	M/V	Rv0355c	PPE8	nonsyn	ND	no
lineage7	443264	934	C/T	312	GTG/ATG	V/M	Rv0365c	.	nonsyn	nonessential	no
lineage7	452375	780	G/A	260	CAC/CAT	H/H	Rv0375c	.	syn	nonessential	no
lineage7	453561	812	T/C	271	CAC/CGC	H/R	Rv0376c	.	nonsyn	nonessential	no
lineage7	454924	504	C/A	168	ATC/ATA	I/I	Rv0377	.	syn	nonessential	no
lineage7	455557	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	456189	213	C/A	71	CGC/CGA	R/R	Rv0379	secE2	syn	nonessential	no
lineage7	482789	443	C/A	148	GGC/GTC	G/V	Rv0402c	mmpL1	nonsyn	nonessential	no
lineage7	492739	954	C/T	318	GCC/GCT	A/A	Rv0408	pta	syn	nonessential	no
lineage7	496284	1031	G/T	344	ACC/AAC	T/N	Rv0410c	pknG	nonsyn	essential	no
lineage7	497126	189	G/A	63	ACC/ACT	T/T	Rv0410c	pknG	syn	essential	yes
lineage7	498932	688	G/T	230	CGC/AGC	R/S	Rv0412c	.	nonsyn	essential	no
lineage7	502881	516	G/A	172	ATG/ATA	M/I	Rv0417	thiG	nonsyn	essential	no
lineage7	517025	779	C/A	260	CGC/CTC	R/L	Rv0428c	.	nonsyn	nonessential	no
lineage7	526533	828	T/G	276	GAA/GAC	E/D	Rv0438c	moeA2	nonsyn	nonessential	no
lineage7	532127	88	C/G	30	GCG/CCG	A/P	Rv0442c	PPE10	nonsyn	ND	no
lineage7	534342	55	C/A	19	GCT/TCT	A/S	Rv0445c	sigK	nonsyn	nonessential	no
lineage7	536722	448	C/T	150	GAC/AAC	D/N	Rv0448c	.	nonsyn	nonessential	no
lineage7	540424	1068	G/T	356	GTC/GTA	V/V	Rv0450c	mmpL4	syn	essential	yes
lineage7	542959	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	545800	22	G/C	8	CTG/GTG	L/V	Rv0455c	.	nonsyn	nonessential	no
lineage7	555639	668	G/T	223	CCG/CAG	P/Q	Rv0465c	.	nonsyn	nonessential	no
lineage7	560504	617	C/T	206	GCG/GTG	A/V	Rv0469	umaA	nonsyn	nonessential	no
lineage7	562311	403	C/T	135	GAA/AAA	E/K	Rv0471c	.	nonsyn	nonessential	no
lineage7	569810	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	611543	532	A/C	178	TCC/GCC	S/A	Rv0519c	.	nonsyn	nonessential	no
lineage7	612629	32	A/C	11	GAG/GCG	E/A	Rv0521	.	nonsyn	nonessential	no
lineage7	626380	61	C/A	21	GCG/TCG	A/S	Rv0534c	menA	nonsyn	nonessential	no
lineage7	633147	1258	C/T	420	GCA/ACA	A/T	Rv0541c	.	nonsyn	essential	no
lineage7	636120	94	C/A	32	GTG/TTG	V/L	Rv0544c	.	nonsyn	nonessential	no
lineage7	637585	385	A/C	129	TGA/GGA	*/G	Rv0546c	.	nonsyn	nonessential	no
lineage7	648647	112	G/T	38	GCC/TCC	A/S	Rv0557	mgtA	nonsyn	essential	no
lineage7	653826	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	654376	498	G/A	166	ATG/ATA	M/I	Rv0563	htpX	nonsyn	nonessential	no
lineage7	655155	795	T/C	265	GAA/GAG	E/E	Rv0564c	gpdA1	syn	nonessential	no
lineage7	656656	815	G/A	272	GCG/GTG	A/V	Rv0565c	.	nonsyn	nonessential	no
lineage7	669984	137	C/T	46	GCC/GTC	A/V	Rv0576	.	nonsyn	nonessential	no
lineage7	688558	527	T/A	176	ATC/AAC	I/N	Rv0590	mce2B	nonsyn	nonessential	no
lineage7	693742	506	T/C	169	CTG/CCG	L/P	Rv0594	mce2F	nonsyn	nonessential	no
lineage7	699431	369	T/G	123	AAA/AAC	K/N	Rv0602c	tcrA	nonsyn	nonessential	no
lineage7	700226	.	T/G	.	./.	./.	.	.	inter	.	no
lineage7	700316	78	C/G	26	AGC/AGG	S/R	Rv0604	lpqO	nonsyn	nonessential	no
lineage7	700776	538	T/C	180	TCG/CCG	S/P	Rv0604	lpqO	nonsyn	nonessential	no
lineage7	701159	921	C/G	307	CGC/CGG	R/R	Rv0604	lpqO	syn	nonessential	no
lineage7	704034	205	C/G	69	CCG/GCG	P/A	Rv0609A	.	nonsyn	nonessential	no
lineage7	708733	783	G/T	261	GAC/GAA	D/E	Rv0613c	.	nonsyn	nonessential	no
lineage7	711870	335	C/G	112	CCG/CGG	P/R	Rv0618	galTa	nonsyn	nonessential	no
lineage7	716126	757	G/A	253	GGT/AGT	G/S	Rv0622	.	nonsyn	nonessential	no
lineage7	718229	205	A/G	69	AAC/GAC	N/D	Rv0626	vapB5	nonsyn	nonessential	no
lineage7	719387	526	A/C	176	TCC/GCC	S/A	Rv0628c	.	nonsyn	essential	no
lineage7	732691	299	C/G	100	GCC/GGC	A/G	Rv0636	hadB	nonsyn	essential	no
lineage7	737363	787	C/A	263	GAG/TAG	E/*	Rv0643c	mmaA3	nonsyn	essential	no
lineage7	741333	1285	C/A	429	GCC/TCC	A/S	Rv0647c	.	nonsyn	nonessential	no
lineage7	746166	3448	T/G	1150	TCG/GCG	S/A	Rv0648	.	nonsyn	nonessential	no
lineage7	752014	498	C/T	166	GGC/GGT	G/G	Rv0655	mkl	syn	essential	yes
lineage7	764013	644	A/C	215	GAG/GCG	E/A	Rv0668	rpoC	nonsyn	essential	no
lineage7	766955	3586	G/A	1196	GAG/AAG	E/K	Rv0668	rpoC	nonsyn	essential	no
lineage7	771378	797	T/C	266	TTT/TCT	F/S	Rv0671	lpqP	nonsyn	nonessential	no
lineage7	772316	833	A/G	278	GAG/GGG	E/G	Rv0672	fadE8	nonsyn	nonessential	no
lineage7	774301	238	C/T	80	CCA/TCA	P/S	Rv0674	.	nonsyn	essential	no
lineage7	776202	2279	C/G	760	GGT/GCT	G/A	Rv0676c	mmpL5	nonsyn	nonessential	no
lineage7	781488	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	784143	1659	A/G	553	GCA/GCG	A/A	Rv0684	fusA1	syn	essential	no
lineage7	796515	997	G/A	333	GGC/AGC	G/S	Rv0696	.	nonsyn	nonessential	no
lineage7	799237	405	C/T	135	CGC/CGT	R/R	Rv0698	.	syn	nonessential	no
lineage7	806841	507	C/T	169	TAC/TAT	Y/Y	Rv0711	atsA	syn	nonessential	no
lineage7	811642	270	C/T	90	GAC/GAT	D/D	Rv0714	rplN	syn	essential	yes
lineage7	813375	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	816925	1263	T/G	421	GGT/GGG	G/G	Rv0724	sppA	syn	nonessential	no
lineage7	821057	420	G/A	140	GAC/GAT	D/D	Rv0728c	serA2	syn	nonessential	no
lineage7	826066	1267	A/G	423	ACG/GCG	T/A	Rv0732	secY	nonsyn	essential	no
lineage7	829407	201	C/T	67	TTC/TTT	F/F	Rv0737	.	syn	nonessential	no
lineage7	838738	288	G/A	96	TCG/TCA	S/S	Rv0747	PE_PGRS10	syn	ND	no
lineage7	845487	467	A/G	156	ATT/ACT	I/T	Rv0753c	mmsA	nonsyn	nonessential	no
lineage7	848363	1678	C/A	560	GGC/TGC	G/C	Rv0755c	PPE12	nonsyn	ND	no
lineage7	850343	185	T/C	62	TAA/TGA	*/*	Rv0755A	.	syn	ND	no
lineage7	857803	235	T/C	79	ATG/GTG	M/V	Rv0764c	cyp51	nonsyn	nonessential	no
lineage7	864571	432	C/T	144	AGC/AGT	S/S	Rv0771	.	syn	nonessential	no
lineage7	867893	459	A/G	153	TCT/TCC	S/S	Rv0774c	.	syn	nonessential	no
lineage7	872505	1075	G/A	359	GGG/AGG	G/R	Rv0778	cyp126	nonsyn	nonessential	no
lineage7	873676	334	C/G	112	CTG/GTG	L/V	Rv0780	purC	nonsyn	essential	no
lineage7	879323	686	G/C	229	TGA/TCA	*/S	Rv0784	.	nonsyn	nonessential	no
lineage7	885228	613	G/A	205	CGG/TGG	R/W	Rv0791c	.	nonsyn	nonessential	no
lineage7	893119	155	T/G	52	GAC/GCC	D/A	Rv0799c	.	nonsyn	nonessential	no
lineage7	895250	379	G/C	127	CGG/GGG	R/G	Rv0802c	.	nonsyn	nonessential	no
lineage7	895504	125	T/C	42	GAC/GGC	D/G	Rv0802c	.	nonsyn	nonessential	no
lineage7	896431	612	G/A	204	CTG/CTA	L/L	Rv0803	purL	syn	essential	yes
lineage7	904403	679	G/A	227	GGT/AGT	G/S	Rv0809	purM	nonsyn	nonessential	no
lineage7	907649	370	A/C	124	TTA/GTA	L/V	Rv0813c	.	nonsyn	nonessential	no
lineage7	912040	305	A/C	102	AAG/ACG	K/T	Rv0819	mshD	nonsyn	nonessential	no
lineage7	918558	193	C/T	65	GCC/ACC	A/T	Rv0824c	desA1	nonsyn	essential	no
lineage7	918795	.	T/G	.	./.	./.	.	.	inter	.	no
lineage7	922528	559	C/T	187	CTG/TTG	L/L	Rv0830	.	syn	nonessential	no
lineage7	928229	2257	C/T	753	GCC/ACC	A/T	Rv0834c	PE_PGRS14	nonsyn	ND	no
lineage7	938330	219	G/T	73	GGG/GGT	G/G	Rv0842	.	syn	nonessential	no
lineage7	939017	906	C/G	302	GCC/GCG	A/A	Rv0842	.	syn	nonessential	no
lineage7	940678	429	C/G	143	GAG/GAC	E/D	Rv0844c	narL	nonsyn	nonessential	no
lineage7	940745	362	G/A	121	GCG/GTG	A/V	Rv0844c	narL	nonsyn	nonessential	no
lineage7	948743	185	A/C	62	GAA/GCA	E/A	Rv0852	fadD16	nonsyn	nonessential	no
lineage7	956055	979	A/G	327	AAC/GAC	N/D	Rv0859	fadA	nonsyn	nonessential	no
lineage7	958808	1344	G/A	448	GTC/GTT	V/V	Rv0861c	ercc3	syn	nonessential	no
lineage7	967288	60	G/A	20	GAC/GAT	D/D	Rv0869c	moaA2	syn	nonessential	no
lineage7	973502	205	C/T	69	GCC/ACC	A/T	Rv0874c	.	nonsyn	nonessential	no
lineage7	973932	363	G/C	121	CCC/CCG	P/P	Rv0875c	.	syn	essential	yes
lineage7	978259	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	989400	462	C/T	154	TGG/TGA	W/*	Rv0889c	citA	nonsyn	nonessential	no
lineage7	994229	377	C/T	126	ACA/ATA	T/I	Rv0892	.	nonsyn	nonessential	no
lineage7	994233	381	A/T	127	GTA/GTT	V/V	Rv0892	.	syn	nonessential	no
lineage7	994568	716	T/G	239	TTC/TGC	F/C	Rv0892	.	nonsyn	nonessential	no
lineage7	995018	1166	A/C	389	AAC/ACC	N/T	Rv0892	.	nonsyn	nonessential	no
lineage7	997124	601	C/T	201	CGG/TGG	R/W	Rv0894	.	nonsyn	essential	no
lineage7	1001291	1125	G/A	375	TGC/TGT	C/C	Rv0897c	.	syn	nonessential	no
lineage7	1010996	861	C/T	287	GGC/GGT	G/G	Rv0907	.	syn	nonessential	no
lineage7	1015633	236	C/T	79	ACC/ATC	T/I	Rv0911	.	nonsyn	nonessential	no
lineage7	1020952	378	C/T	126	CTG/CTA	L/L	Rv0915c	PPE14	syn	ND	no
lineage7	1021717	.	T/C	.	./.	./.	.	.	inter	.	no
lineage7	1024413	203	C/G	68	CCT/CGT	P/R	Rv0918	.	nonsyn	nonessential	no
lineage7	1032476	158	T/A	53	CAG/CTG	Q/L	Rv0925c	.	nonsyn	nonessential	no
lineage7	1032978	809	A/G	270	GTG/GCG	V/A	Rv0926c	.	nonsyn	nonessential	no
lineage7	1037024	26	C/T	9	GCG/GTG	A/V	Rv0930	pstA1	nonsyn	nonessential	no
lineage7	1039885	30	C/G	10	TCG/TCC	S/S	Rv0931c	pknD	syn	nonessential	no
lineage7	1039887	28	A/G	10	TCG/CCG	S/P	Rv0931c	pknD	nonsyn	nonessential	no
lineage7	1040921	128	C/T	43	TGC/TAC	C/Y	Rv0932c	pstS2	nonsyn	nonessential	no
lineage7	1042103	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	1048808	397	T/G	133	TTC/GTC	F/V	Rv0939	.	nonsyn	nonessential	no
lineage7	1064489	474	G/A	158	GAC/GAT	D/D	Rv0953c	.	syn	nonessential	no
lineage7	1073031	1777	G/T	593	GGT/TGT	G/C	Rv0959	.	nonsyn	nonessential	no
lineage7	1077713	123	C/T	41	CAG/CAA	Q/Q	Rv0966c	.	syn	nonessential	no
lineage7	1081882	703	A/G	235	TCG/CCG	S/P	Rv0971c	echA7	nonsyn	nonessential	no
lineage7	1088804	1372	C/T	458	GGC/AGC	G/S	Rv0976c	.	nonsyn	nonessential	no
lineage7	1090722	350	G/A	117	GGT/GAT	G/D	Rv0977	PE_PGRS16	nonsyn	ND	no
lineage7	1095085	1367	G/T	456	GCC/GAC	A/D	Rv0980c	PE_PGRS18	nonsyn	ND	no
lineage7	1102273	471	T/G	157	ATT/ATG	I/M	Rv0986	.	nonsyn	nonessential	no
lineage7	1105739	624	G/C	208	CCG/CCC	P/P	Rv0988	.	syn	nonessential	no
lineage7	1124532	819	G/T	273	GCG/GCT	A/A	Rv1006	.	syn	nonessential	no
lineage7	1125894	1110	A/C	370	CTT/CTG	L/L	Rv1007c	metS	syn	essential	yes
lineage7	1128048	.	C/G	.	./.	./.	.	.	inter	.	no
lineage7	1131396	269	C/T	90	ACG/ATG	T/M	Rv1012	.	nonsyn	nonessential	no
lineage7	1137518	543	G/A	181	AAC/AAT	N/N	Rv1018c	glmU	syn	essential	yes
lineage7	1138636	322	G/T	108	GCC/TCC	A/S	Rv1019	.	nonsyn	nonessential	no
lineage7	1141176	2210	C/T	737	GCC/GTC	A/V	Rv1020	mfd	nonsyn	nonessential	no
lineage7	1143126	456	C/T	152	ATC/ATT	I/I	Rv1021	.	syn	essential	yes
lineage7	1149058	50	A/C	17	CTG/CGG	L/R	Rv1027c	kdpE	nonsyn	essential	no
lineage7	1155494	1771	A/G	591	ATC/GTC	I/V	Rv1030	kdpB	nonsyn	nonessential	no
lineage7	1157089	867	C/G	289	CTG/CTC	L/L	Rv1032c	trcS	syn	nonessential	no
lineage7	1157219	737	G/A	246	CCG/CTG	P/L	Rv1032c	trcS	nonsyn	nonessential	no
lineage7	1158720	17	C/T	6	GGG/GAG	G/E	Rv1033c	trcR	nonsyn	nonessential	no
lineage7	1162095	378	C/T	126	CTG/CTA	L/L	Rv1039c	PPE15	syn	ND	no
lineage7	1172771	386	A/G	129	GAC/GGC	D/G	Rv1049	.	nonsyn	nonessential	no
lineage7	1173047	167	G/C	56	GGT/GCT	G/A	Rv1050	.	nonsyn	nonessential	no
lineage7	1177819	192	G/T	64	GAG/GAT	E/D	Rv1056	.	nonsyn	nonessential	no
lineage7	1182145	1462	G/T	488	GCT/TCT	A/S	Rv1058	fadD14	nonsyn	nonessential	no
lineage7	1186669	155	G/A	52	TCG/TTG	S/L	Rv1063c	.	nonsyn	nonessential	no
lineage7	1191907	242	G/A	81	ACG/ATG	T/M	Rv1068c	PE_PGRS20	nonsyn	ND	no
lineage7	1192343	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	1193578	696	C/T	232	GAG/GAA	E/E	Rv1069c	.	syn	nonessential	no
lineage7	1205577	222	T/G	74	GCA/GCC	A/A	Rv1080c	greA	syn	nonessential	no
lineage7	1206334	85	C/A	29	GCC/TCC	A/S	Rv1081c	.	nonsyn	nonessential	no
lineage7	1232071	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	1236776	592	G/A	198	GAG/AAG	E/K	Rv1110	lytB2	nonsyn	nonessential	no
lineage7	1237743	450	G/A	150	GCC/GCT	A/A	Rv1111c	.	syn	essential	yes
lineage7	1245045	1339	T/G	447	TCG/GCG	S/A	Rv1121	zwf1	nonsyn	nonessential	no
lineage7	1246311	742	G/A	248	CGC/TGC	R/C	Rv1123c	bpoB	nonsyn	nonessential	no
lineage7	1253707	828	T/G	276	GGA/GGC	G/G	Rv1129c	.	syn	nonessential	no
lineage7	1254136	399	T/G	133	GAA/GAC	E/D	Rv1129c	.	nonsyn	nonessential	no
lineage7	1257355	31	A/G	11	ATC/GTC	I/V	Rv1132	.	nonsyn	nonessential	no
lineage7	1257744	420	C/A	140	GGC/GGA	G/G	Rv1132	.	syn	nonessential	no
lineage7	1266130	359	G/A	120	ACT/ATT	T/I	Rv1138c	.	nonsyn	nonessential	no
lineage7	1268760	250	C/T	84	GGA/AGA	G/R	Rv1141c	echA11	nonsyn	nonessential	no
lineage7	1272843	421	C/T	141	CAC/TAC	H/Y	Rv1145	mmpL13a	nonsyn	nonessential	no
lineage7	1273368	14	C/T	5	GCA/GTA	A/V	Rv1146	mmpL13b	nonsyn	nonessential	no
lineage7	1274955	56	G/A	19	CGG/CAG	R/Q	Rv1147	.	nonsyn	nonessential	no
lineage7	1274956	57	G/A	19	CGG/CGA	R/R	Rv1147	.	syn	nonessential	no
lineage7	1280079	768	C/T	256	TCG/TCA	S/S	Rv1153c	omt	syn	nonessential	no
lineage7	1287068	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	1291650	586	T/G	196	TCG/GCG	S/A	Rv1162	narH	nonsyn	nonessential	no
lineage7	1291868	804	G/T	268	CTG/CTT	L/L	Rv1162	narH	syn	nonessential	no
lineage7	1295399	1232	A/C	411	AAG/ACG	K/T	Rv1165	typA	nonsyn	nonessential	no
lineage7	1297084	933	G/A	311	CTG/CTA	L/L	Rv1166	lpqW	syn	essential	yes
lineage7	1298713	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	1299558	247	C/A	83	GTC/TTC	V/F	Rv1168c	PPE17	nonsyn	ND	no
lineage7	1305129	2199	C/T	733	ACC/ACT	T/T	Rv1173	fbiC	syn	nonessential	no
lineage7	1307140	1087	C/T	363	GGG/AGG	G/R	Rv1175c	fadH	nonsyn	nonessential	no
lineage7	1310963	2337	T/G	779	CAA/CAC	Q/H	Rv1179c	.	nonsyn	nonessential	no
lineage7	1315186	1462	G/A	488	GGC/AGC	G/S	Rv1180	pks3	nonsyn	nonessential	no
lineage7	1317045	1812	C/T	604	CCC/CCT	P/P	Rv1181	pks4	syn	nonessential	no
lineage7	1319586	4353	C/T	1451	GGC/GGT	G/G	Rv1181	pks4	syn	nonessential	no
lineage7	1325990	1523	T/G	508	AAG/ACG	K/T	Rv1185c	fadD21	nonsyn	essential	no
lineage7	1329168	138	C/T	46	CTG/CTA	L/L	Rv1186c	.	syn	essential	yes
lineage7	1334310	380	C/T	127	GCC/GTC	A/V	Rv1191	.	nonsyn	nonessential	no
lineage7	1338678	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	1357114	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	1358592	853	G/A	285	CGC/TGC	R/C	Rv1215c	.	nonsyn	essential	no
lineage7	1365242	.	T/A	.	./.	./.	.	.	inter	.	no
lineage7	1365243	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	1365895	21	G/A	7	ACG/ACA	T/T	Rv1223	htrA	syn	essential	yes
lineage7	1373735	463	C/A	155	GGC/TGC	G/C	Rv1230c	.	nonsyn	nonessential	no
lineage7	1384291	14	T/G	5	TTG/TGG	L/W	Rv1241	vapB33	nonsyn	nonessential	no
lineage7	1384292	15	G/C	5	TTG/TTC	L/F	Rv1241	vapB33	nonsyn	nonessential	no
lineage7	1388427	202	C/T	68	GAA/AAA	E/K	Rv1245c	.	nonsyn	nonessential	no
lineage7	1388741	238	T/G	80	ATC/CTC	I/L	Rv1246c	relE	nonsyn	nonessential	no
lineage7	1394040	.	G/C	.	./.	./.	.	.	inter	.	no
lineage7	1395587	1409	C/T	470	CCC/CTC	P/L	Rv1250	.	nonsyn	nonessential	no
lineage7	1396792	2449	G/T	817	CAG/AAG	Q/K	Rv1251c	.	nonsyn	nonessential	no
lineage7	1415097	744	C/G	248	GCG/GCC	A/A	Rv1266c	pknH	syn	nonessential	no
lineage7	1415259	582	G/A	194	TAC/TAT	Y/Y	Rv1266c	pknH	syn	nonessential	no
lineage7	1416977	371	T/C	124	CAC/CGC	H/R	Rv1267c	embR	nonsyn	nonessential	no
lineage7	1429541	2128	A/G	710	ACC/GCC	T/A	Rv1278	.	nonsyn	essential	no
lineage7	1430596	535	C/T	179	CCT/TCT	P/S	Rv1279	.	nonsyn	nonessential	no
lineage7	1434990	282	C/T	94	GTG/GTA	V/V	Rv1281c	oppD	syn	nonessential	no
lineage7	1436780	338	C/G	113	GGT/GCT	G/A	Rv1283c	oppB	nonsyn	nonessential	no
lineage7	1437906	.	T/C	.	./.	./.	.	.	inter	.	no
lineage7	1440409	1503	G/A	501	CTG/CTA	L/L	Rv1286	cysN	syn	essential	yes
lineage7	1442227	880	T/C	294	TCG/CCG	S/P	Rv1288	.	nonsyn	nonessential	no
lineage7	1444492	556	C/T	186	GGG/AGG	G/R	Rv1290c	.	nonsyn	nonessential	no
lineage7	1462713	871	G/A	291	GAG/AAG	E/K	Rv1307	atpH	nonsyn	essential	no
lineage7	1463776	549	C/T	183	GTC/GTT	V/V	Rv1308	atpA	syn	essential	yes
lineage7	1467505	191	C/T	64	GCG/GTG	A/V	Rv1311	atpC	nonsyn	essential	no
lineage7	1481602	900	T/G	300	CGA/CGC	R/R	Rv1319c	.	syn	nonessential	no
lineage7	1489912	54	C/T	18	TTG/TTA	L/L	Rv1325c	PE_PGRS24	syn	ND	no
lineage7	1502798	158	C/T	53	ACC/ATC	T/I	Rv1334	mec	nonsyn	nonessential	no
lineage7	1504334	941	A/G	314	GAG/GGG	E/G	Rv1336	cysM	nonsyn	nonessential	no
lineage7	1506094	178	G/A	60	GCG/ACG	A/T	Rv1339	.	nonsyn	essential	no
lineage7	1507101	347	T/C	116	ATC/ACC	I/T	Rv1340	rphA	nonsyn	nonessential	no
lineage7	1513250	204	C/T	68	TTC/TTT	F/F	Rv1348	irtA	syn	essential	yes
lineage7	1515388	2342	A/C	781	GAA/GCA	E/A	Rv1348	irtA	nonsyn	essential	no
lineage7	1516601	979	G/C	327	GCC/CCC	A/P	Rv1349	irtB	nonsyn	essential	no
lineage7	1516704	1082	C/T	361	ACG/ATG	T/M	Rv1349	irtB	nonsyn	essential	no
lineage7	1518078	588	G/A	196	ATG/ATA	M/I	Rv1350	fabG2	nonsyn	essential	no
lineage7	1522385	1648	G/A	550	CCT/TCT	P/S	Rv1355c	moeY	nonsyn	nonessential	no
lineage7	1522386	1647	G/A	549	GAC/GAT	D/D	Rv1355c	moeY	syn	nonessential	no
lineage7	1525102	.	A/C	.	./.	./.	.	.	inter	.	no
lineage7	1527632	1021	C/T	341	CTG/TTG	L/L	Rv1358	.	syn	nonessential	no
lineage7	1534767	626	T/G	209	GAA/GCA	E/A	Rv1363c	.	nonsyn	nonessential	no
lineage7	1536424	1221	C/T	407	CTG/CTA	L/L	Rv1364c	.	syn	nonessential	no
lineage7	1540364	282	G/A	94	GAC/GAT	D/D	Rv1367c	.	syn	nonessential	no
lineage7	1540808	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	1547568	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	1561245	801	C/T	267	GCC/GCT	A/A	Rv1385	pyrF	syn	nonessential	no
lineage7	1561400	.	T/G	.	./.	./.	.	.	inter	.	no
lineage7	1570300	670	G/T	224	CTG/ATG	L/M	Rv1394c	cyp132	nonsyn	nonessential	no
lineage7	1570380	590	G/A	197	ACG/ATG	T/M	Rv1394c	cyp132	nonsyn	nonessential	no
lineage7	1575188	622	C/T	208	GCG/ACG	A/T	Rv1399c	nlhH	nonsyn	nonessential	no
lineage7	1577475	546	C/G	182	GCC/GCG	A/A	Rv1401	.	syn	nonessential	no
lineage7	1583387	287	C/T	96	ACC/ATC	T/I	Rv1407	fmu	nonsyn	nonessential	no
lineage7	1584108	1008	C/T	336	GAC/GAT	D/D	Rv1407	fmu	syn	nonessential	no
lineage7	1588861	295	G/A	99	GTG/ATG	V/M	Rv1412	ribC	nonsyn	nonessential	no
lineage7	1595934	1893	G/C	631	ACG/ACC	T/T	Rv1420	uvrC	syn	essential	yes
lineage7	1608935	853	A/G	285	AAC/GAC	N/D	Rv1431	.	nonsyn	nonessential	no
lineage7	1610350	502	C/T	168	CAC/TAC	H/Y	Rv1432	.	nonsyn	nonessential	no
lineage7	1613708	402	C/T	134	GAC/GAT	D/D	Rv1436	gap	syn	essential	yes
lineage7	1614979	651	G/C	217	GAG/GAC	E/D	Rv1437	pgk	nonsyn	essential	no
lineage7	1620192	402	C/T	134	TAC/TAT	Y/Y	Rv1442	bisC	syn	nonessential	no
lineage7	1624388	70	C/T	24	GGC/AGC	G/S	Rv1445c	devB	nonsyn	nonessential	no
lineage7	1627488	593	T/C	198	AAG/AGG	K/R	Rv1448c	tal	nonsyn	essential	no
lineage7	1627489	592	T/C	198	AAG/GAG	K/E	Rv1448c	tal	nonsyn	essential	no
lineage7	1638211	19	T/C	7	ACC/GCC	T/A	Rv1452c	PE_PGRS28	nonsyn	ND	no
lineage7	1638212	18	T/G	6	GTA/GTC	V/V	Rv1452c	PE_PGRS28	syn	ND	no
lineage7	1649476	2488	G/T	830	GCG/TCG	A/S	Rv1461	.	nonsyn	ND	no
lineage7	1655606	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	1656971	9	G/T	3	TTG/TTT	L/F	Rv1469	ctpD	nonsyn	essential	no
lineage7	1663221	2826	T/G	942	TCA/TCC	S/S	Rv1475c	acn	syn	essential	yes
lineage7	1678309	913	C/T	305	CAG/TAG	Q/*	Rv1488	.	nonsyn	nonessential	no
lineage7	1679214	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	1690091	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	1690140	207	A/C	69	GAT/GAG	D/E	Rv1498A	.	nonsyn	nonessential	no
lineage7	1692186	297	C/A	99	GCC/GCA	A/A	Rv1501	.	syn	nonessential	no
lineage7	1698290	1605	G/A	535	TTC/TTT	F/F	Rv1508c	.	syn	nonessential	no
lineage7	1699495	400	C/T	134	GCG/ACG	A/T	Rv1508c	.	nonsyn	nonessential	no
lineage7	1705823	773	G/T	258	ACG/AAG	T/K	Rv1514c	.	nonsyn	essential	no
lineage7	1708170	370	A/G	124	TGC/CGC	C/R	Rv1516c	.	nonsyn	nonessential	no
lineage7	1714913	2700	C/T	900	ATG/ATA	M/I	Rv1522c	mmpL12	nonsyn	nonessential	no
lineage7	1734985	252	C/T	84	GCC/GCT	A/A	Rv1534	.	syn	nonessential	no
lineage7	1736595	77	A/C	26	TAC/TCC	Y/S	Rv1536	ileS	nonsyn	nonessential	no
lineage7	1743003	159	G/C	53	CGG/CGC	R/R	Rv1540	.	syn	nonessential	no
lineage7	1752567	767	T/C	256	AAC/AGC	N/S	Rv1548c	PPE21	nonsyn	ND	no
lineage7	1761299	303	G/T	101	CGG/CGT	R/R	Rv1556	.	syn	nonessential	no
lineage7	1761813	70	G/C	24	GAC/CAC	D/H	Rv1557	mmpL6	nonsyn	nonessential	no
lineage7	1791504	171	C/T	57	CCC/CCT	P/P	Rv1590	.	syn	essential	yes
lineage7	1791537	204	G/A	68	GGG/GGA	G/G	Rv1590	.	syn	essential	yes
lineage7	1798690	397	C/T	133	CTC/TTC	L/F	Rv1597	.	nonsyn	nonessential	no
lineage7	1799774	192	C/T	64	GCC/GCT	A/A	Rv1599	hisD	syn	essential	yes
lineage7	1806811	631	C/A	211	CGC/AGC	R/S	Rv1607	chaA	nonsyn	nonessential	no
lineage7	1806812	632	G/C	211	CGC/CCC	R/P	Rv1607	chaA	nonsyn	nonessential	no
lineage7	1811061	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	1823649	752	G/A	251	TCC/TTC	S/F	Rv1622c	cydB	nonsyn	essential	no
lineage7	1824531	1357	T/C	453	AAG/GAG	K/E	Rv1623c	cydA	nonsyn	ND	no
lineage7	1826523	63	C/T	21	CCG/CCA	P/P	Rv1624c	.	syn	nonessential	no
lineage7	1827492	454	G/C	152	CTA/GTA	L/V	Rv1625c	cya	nonsyn	nonessential	no
lineage7	1834916	1375	A/C	459	ACC/CCC	T/P	Rv1630	rpsA	nonsyn	essential	no
lineage7	1840168	1001	G/T	334	AGT/ATT	S/I	Rv1634	.	nonsyn	nonessential	no
lineage7	1840760	1483	T/G	495	AAG/CAG	K/Q	Rv1635c	.	nonsyn	nonessential	no
lineage7	1841073	1170	G/A	390	ATC/ATT	I/I	Rv1635c	.	syn	nonessential	no
lineage7	1846994	1465	T/G	489	AGA/CGA	R/R	Rv1639c	.	syn	nonessential	no
lineage7	1855456	.	A/C	.	./.	./.	.	.	inter	.	no
lineage7	1856360	597	T/G	199	GCT/GCG	A/A	Rv1646	PE17	syn	ND	no
lineage7	1858585	.	T/G	.	./.	./.	.	.	inter	.	no
lineage7	1867937	96	C/T	32	GTC/GTT	V/V	Rv1654	argB	syn	essential	yes
lineage7	1879023	3720	C/G	1240	CAC/CAG	H/Q	Rv1661	pks7	nonsyn	essential	no
lineage7	1882533	830	G/A	277	CGG/CAG	R/Q	Rv1662	pks8	nonsyn	essential	no
lineage7	1886993	482	C/T	161	ACG/ATG	T/M	Rv1663	pks17	nonsyn	essential	no
lineage7	1890146	2121	G/C	707	AAG/AAC	K/N	Rv1664	pks9	nonsyn	nonessential	no
lineage7	1896923	1285	C/T	429	GAC/AAC	D/N	Rv1672c	.	nonsyn	nonessential	no
lineage7	1900919	57	G/A	19	GGC/GGT	G/G	Rv1675c	cmr	syn	nonessential	no
lineage7	1902383	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	1908737	1144	C/T	382	CAC/TAC	H/Y	Rv1683	.	nonsyn	essential	no
lineage7	1910450	2857	A/G	953	ACG/GCG	T/A	Rv1683	.	nonsyn	essential	no
lineage7	1916605	657	C/T	219	GCC/GCT	A/A	Rv1691	.	syn	nonessential	no
lineage7	1918281	342	A/C	114	GGA/GGC	G/G	Rv1694	tlyA	syn	ND	no
lineage7	1923599	855	G/T	285	GTG/GTT	V/V	Rv1698	mctB	syn	nonessential	no
lineage7	1927528	1048	A/C	350	TCA/GCA	S/A	Rv1702c	.	nonsyn	nonessential	no
lineage7	1934970	89	C/T	30	GCC/GTC	A/V	Rv1707	.	nonsyn	nonessential	no
lineage7	1942672	14	A/G	5	CAC/CGC	H/R	Rv1715	fadB3	nonsyn	essential	no
lineage7	1949894	553	C/G	185	CGC/GGC	R/G	Rv1723	.	nonsyn	nonessential	no
lineage7	1955359	211	A/C	71	TCA/GCA	S/A	Rv1729c	.	nonsyn	nonessential	no
lineage7	1959947	541	C/T	181	GCC/ACC	A/T	Rv1733c	.	nonsyn	nonessential	no
lineage7	1959986	502	C/T	168	GCC/ACC	A/T	Rv1733c	.	nonsyn	nonessential	no
lineage7	1965548	.	G/C	.	./.	./.	.	.	inter	.	no
lineage7	1965815	159	C/T	53	AAC/AAT	N/N	Rv1738	.	syn	essential	yes
lineage7	1969465	462	T/C	154	TAT/TAC	Y/Y	Rv1743	pknE	syn	nonessential	no
lineage7	1970346	1343	G/A	448	AGC/AAC	S/N	Rv1743	pknE	nonsyn	nonessential	no
lineage7	1971401	591	C/T	197	CCG/CCA	P/P	Rv1745c	idi	syn	nonessential	no
lineage7	1974133	504	C/T	168	CCC/CCT	P/P	Rv1747	.	syn	nonessential	no
lineage7	1974388	759	C/T	253	ACC/ACT	T/T	Rv1747	.	syn	nonessential	no
lineage7	1980859	1239	C/T	413	CCC/CCT	P/P	Rv1751	.	syn	nonessential	no
lineage7	1987559	138	T/C	46	GCA/GCG	A/A	Rv1755c	plcD	syn	nonessential	no
lineage7	1991438	1140	G/A	380	TTC/TTT	F/F	Rv1759c	wag22	syn	nonessential	no
lineage7	1992896	.	T/C	.	./.	./.	.	.	inter	.	no
lineage7	1999553	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	2003594	969	T/G	323	GGT/GGG	G/G	Rv1769	.	syn	nonessential	no
lineage7	2007098	669	G/T	223	ACC/ACA	T/T	Rv1773c	.	syn	nonessential	no
lineage7	2007872	41	G/C	14	AGT/ACT	S/T	Rv1774	.	nonsyn	nonessential	no
lineage7	2010704	49	C/T	17	CGA/TGA	R/*	Rv1777	cyp144	nonsyn	nonessential	no
lineage7	2017422	55	T/C	19	ACC/GCC	T/A	Rv1781c	malQ	nonsyn	nonessential	no
lineage7	2018860	1121	G/A	374	CGG/CAG	R/Q	Rv1782	eccB5	nonsyn	nonessential	no
lineage7	2022098	2842	G/C	948	GAG/CAG	E/Q	Rv1783	eccC5	nonsyn	nonessential	no
lineage7	2026751	275	C/T	92	GCC/GTC	A/V	Rv1788	PE18	nonsyn	ND	no
lineage7	2035938	456	C/A	152	CGC/CGA	R/R	Rv1797	eccE5	syn	nonessential	no
lineage7	2039884	432	T/G	144	TGT/TGG	C/W	Rv1800	PPE28	nonsyn	ND	no
lineage7	2039944	492	C/T	164	GCC/GCT	A/A	Rv1800	PPE28	syn	ND	no
lineage7	2078963	827	C/G	276	CGG/CCG	R/P	Rv1833c	.	nonsyn	nonessential	no
lineage7	2086202	780	C/G	260	GTG/GTC	V/V	Rv1837c	glcB	syn	nonessential	no
lineage7	2088189	1330	C/A	444	GGG/TGG	G/W	Rv1840c	PE_PGRS34	nonsyn	ND	no
lineage7	2092154	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	2098195	235	G/A	79	GTG/ATG	V/M	Rv1850	ureC	nonsyn	essential	no
lineage7	2098345	385	A/C	129	AAC/CAC	N/H	Rv1850	ureC	nonsyn	essential	no
lineage7	2102218	825	G/A	275	GTC/GTT	V/V	Rv1854c	ndh	syn	nonessential	no
lineage7	2104112	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	2120842	589	G/C	197	CCC/GCC	P/A	Rv1870c	.	nonsyn	nonessential	no
lineage7	2123182	9	A/T	3	TCA/TCT	S/S	Rv1873	.	syn	nonessential	no
lineage7	2123242	69	C/T	23	AGC/AGT	S/S	Rv1873	.	syn	nonessential	no
lineage7	2133817	445	C/T	149	GCA/ACA	A/T	Rv1884c	rpfC	nonsyn	nonessential	no
lineage7	2134602	271	G/A	91	CCC/TCC	P/S	Rv1885c	.	nonsyn	nonessential	no
lineage7	2138547	71	G/A	24	CCC/CTC	P/L	Rv1888A	.	nonsyn	nonessential	no
lineage7	2152688	208	C/T	70	GGC/AGC	G/S	Rv1906c	.	nonsyn	nonessential	no
lineage7	2153410	473	A/G	158	GTT/GCT	V/A	Rv1907c	.	nonsyn	nonessential	no
lineage7	2163493	3819	A/G	1273	GCT/GCC	A/A	Rv1917c	PPE34	syn	ND	no
lineage7	2164840	2472	G/A	824	AAC/AAT	N/N	Rv1917c	PPE34	syn	ND	no
lineage7	2165735	1577	A/G	526	GTT/GCT	V/A	Rv1917c	PPE34	nonsyn	ND	no
lineage7	2167368	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	2169232	1381	T/C	461	ACG/GCG	T/A	Rv1918c	PPE35	nonsyn	ND	no
lineage7	2173273	523	A/C	175	TAC/GAC	Y/D	Rv1921c	lppF	nonsyn	nonessential	no
lineage7	2174215	149	T/C	50	GTA/GCA	V/A	Rv1922	.	nonsyn	nonessential	no
lineage7	2175153	1087	G/A	363	GCC/ACC	A/T	Rv1922	.	nonsyn	nonessential	no
lineage7	2183443	72	C/A	24	GCC/GCA	A/A	Rv1932	tpx	syn	nonessential	no
lineage7	2187306	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	2189489	994	T/G	332	TTC/GTC	F/V	Rv1937	.	nonsyn	nonessential	no
lineage7	2191261	235	A/G	79	ATC/GTC	I/V	Rv1938	ephB	nonsyn	nonessential	no
lineage7	2195445	490	A/G	164	TGG/CGG	W/R	Rv1944c	.	nonsyn	nonessential	no
lineage7	2197386	.	G/C	.	./.	./.	.	.	inter	.	no
lineage7	2203033	600	C/A	200	CGG/CGT	R/R	Rv1958c	.	syn	nonessential	no
lineage7	2204199	27	G/C	9	CTC/CTG	L/L	Rv1960c	parD1	syn	nonessential	no
lineage7	2204623	412	G/A	138	GGT/AGT	G/S	Rv1961	.	nonsyn	nonessential	no
lineage7	2224216	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	2227339	1096	C/T	366	CCA/TCA	P/S	Rv1983	PE_PGRS35	nonsyn	ND	no
lineage7	2240773	615	G/A	205	TTG/TTA	L/L	Rv1997	ctpF	syn	nonessential	no
lineage7	2241316	1158	G/T	386	TGG/TGT	W/C	Rv1997	ctpF	nonsyn	nonessential	no
lineage7	2245063	76	T/G	26	ATC/CTC	I/L	Rv1999c	.	nonsyn	nonessential	no
lineage7	2247935	276	C/T	92	CTC/CTT	L/L	Rv2002	fabG3	syn	nonessential	no
lineage7	2248823	598	A/G	200	TAC/CAC	Y/H	Rv2003c	.	nonsyn	nonessential	no
lineage7	2252997	996	T/G	332	GTT/GTG	V/V	Rv2006	otsB1	syn	nonessential	no
lineage7	2261553	456	C/T	152	CCC/CCT	P/P	Rv2014	.	syn	ND	no
lineage7	2269261	980	C/T	327	CGC/CAC	R/H	Rv2024c	.	nonsyn	nonessential	no
lineage7	2271128	621	T/A	207	CCA/CCT	P/P	Rv2025c	.	syn	nonessential	no
lineage7	2274477	32	G/T	11	CCT/CAT	P/H	Rv2027c	dosT	nonsyn	nonessential	no
lineage7	2280092	964	G/A	322	GTG/ATG	V/M	Rv2032	acg	nonsyn	nonessential	no
lineage7	2287790	57	A/C	19	ACT/ACG	T/T	Rv2041c	.	syn	essential	yes
lineage7	2291331	63	C/A	21	GGC/GGA	G/G	Rv2046	lppI	syn	nonessential	no
lineage7	2292549	1978	G/A	660	CGG/TGG	R/W	Rv2047c	.	nonsyn	nonessential	no
lineage7	2293847	680	A/G	227	TTG/TCG	L/S	Rv2047c	.	nonsyn	nonessential	no
lineage7	2303324	3663	C/T	1221	GGG/GGA	G/G	Rv2048c	pks12	syn	essential	no
lineage7	2303524	3463	G/T	1155	CGG/AGG	R/R	Rv2048c	pks12	syn	essential	yes
lineage7	2305184	1803	C/A	601	TCG/TCT	S/S	Rv2048c	pks12	syn	essential	yes
lineage7	2307439	79	C/T	27	GAT/AAT	D/N	Rv2049c	.	nonsyn	nonessential	no
lineage7	2313023	27	G/A	9	GCC/GCT	A/A	Rv2053c	fxsA	syn	nonessential	no
lineage7	2317633	3121	A/C	1041	TAT/GAT	Y/D	Rv2062c	cobN	nonsyn	nonessential	no
lineage7	2327067	124	G/T	42	GCC/TCC	A/S	Rv2069	sigC	nonsyn	nonessential	no
lineage7	2334656	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	2336329	975	C/T	325	AAC/AAT	N/N	Rv2079	.	syn	nonessential	no
lineage7	2337697	392	G/A	131	GGA/GAA	G/E	Rv2080	lppJ	nonsyn	nonessential	no
lineage7	2338768	60	G/T	20	CCG/CCT	P/P	Rv2082	.	syn	nonessential	no
lineage7	2338773	65	G/A	22	CGG/CAG	R/Q	Rv2082	.	nonsyn	nonessential	no
lineage7	2338961	253	G/A	85	GTC/ATC	V/I	Rv2082	.	nonsyn	nonessential	no
lineage7	2338990	282	G/C	94	GCG/GCC	A/A	Rv2082	.	syn	nonessential	no
lineage7	2338994	286	G/A	96	GCG/ACG	A/T	Rv2082	.	nonsyn	nonessential	no
lineage7	2358356	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	2380244	417	G/A	139	GCC/GCT	A/A	Rv2121c	hisG	syn	essential	yes
lineage7	2380979	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	2381717	647	T/G	216	CTG/CGG	L/R	Rv2123	PPE37	nonsyn	ND	no
lineage7	2383599	2469	C/T	823	ACG/ACA	T/T	Rv2124c	metH	syn	nonessential	no
lineage7	2385615	453	G/T	151	GCC/GCA	A/A	Rv2124c	metH	syn	nonessential	no
lineage7	2386883	591	G/A	197	TCG/TCA	S/S	Rv2125	.	syn	nonessential	no
lineage7	2399808	521	T/C	174	GAG/GGG	E/G	Rv2140c	TB18.6	nonsyn	nonessential	no
lineage7	2403490	514	G/C	172	GTC/CTC	V/L	Rv2143	.	nonsyn	nonessential	no
lineage7	2406193	651	G/C	217	CTC/CTG	L/L	Rv2147c	.	syn	nonessential	no
lineage7	2414272	651	C/T	217	TCG/TCA	S/S	Rv2154c	ftsW	syn	essential	yes
lineage7	2414434	489	A/C	163	TCT/TCG	S/S	Rv2154c	ftsW	syn	essential	yes
lineage7	2415149	1246	G/C	416	CCT/GCT	P/A	Rv2155c	murD	nonsyn	essential	no
lineage7	2421349	317	G/A	106	GCC/GTC	A/V	Rv2159c	.	nonsyn	nonessential	no
lineage7	2429729	130	G/T	44	CCG/ACG	P/T	Rv2166c	.	nonsyn	essential	no
lineage7	2431607	363	G/C	121	ACC/ACG	T/T	Rv2169c	.	syn	nonessential	no
lineage7	2436352	444	C/G	148	GAC/GAG	D/E	Rv2174	mptA	nonsyn	essential	no
lineage7	2438422	482	T/G	161	TTC/TGC	F/C	Rv2176	pknL	nonsyn	nonessential	no
lineage7	2442862	353	A/C	118	CTG/CGG	L/R	Rv2180c	.	nonsyn	nonessential	no
lineage7	2450895	256	G/T	86	CAC/AAC	H/N	Rv2188c	pimB	nonsyn	essential	no
lineage7	2451275	746	G/A	249	GCG/GTG	A/V	Rv2189c	.	nonsyn	nonessential	no
lineage7	2470347	117	G/T	39	GCC/GCA	A/A	Rv2205c	.	syn	nonessential	no
lineage7	2478401	64	G/A	22	GGT/AGT	G/S	Rv2213	pepB	nonsyn	nonessential	no
lineage7	2501377	447	G/A	149	CAG/CAA	Q/Q	Rv2227	.	syn	nonessential	no
lineage7	2512754	216	C/A	72	GGC/GGA	G/G	Rv2241	aceE	syn	essential	yes
lineage7	2513847	1309	A/G	437	AAT/GAT	N/D	Rv2241	aceE	nonsyn	essential	no
lineage7	2516588	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	2516640	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	2528278	295	A/C	99	AAT/CAT	N/H	Rv2253	.	nonsyn	nonessential	no
lineage7	2538467	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	2541694	1117	C/A	373	GAT/TAT	D/Y	Rv2267c	.	nonsyn	nonessential	no
lineage7	2545215	518	C/A	173	GCC/GAC	A/D	Rv2270	lppN	nonsyn	nonessential	no
lineage7	2546994	112	G/T	38	GGG/TGG	G/W	Rv2275	.	nonsyn	essential	no
lineage7	2549256	774	G/A	258	TTC/TTT	F/F	Rv2277c	.	syn	essential	yes
lineage7	2549303	727	A/C	243	TCC/GCC	S/A	Rv2277c	.	nonsyn	essential	no
lineage7	2549725	305	T/G	102	CAG/CCG	Q/P	Rv2277c	.	nonsyn	essential	no
lineage7	2558668	1196	G/A	399	GGC/GAC	G/D	Rv2285	.	nonsyn	nonessential	no
lineage7	2578652	45	G/C	15	GTC/GTG	V/V	Rv2307c	.	syn	nonessential	no
lineage7	2588440	365	T/G	122	GAG/GCG	E/A	Rv2315c	.	nonsyn	nonessential	no
lineage7	2590090	394	C/T	132	CTA/TTA	L/L	Rv2317	uspB	syn	nonessential	no
lineage7	2592048	679	C/T	227	GTC/ATC	V/I	Rv2319c	.	nonsyn	essential	no
lineage7	2595295	70	A/C	24	TCG/GCG	S/A	Rv2322c	rocD1	nonsyn	nonessential	no
lineage7	2603380	82	G/A	28	CGT/TGT	R/C	Rv2329c	narK1	nonsyn	nonessential	no
lineage7	2607221	1101	C/A	367	TTG/TTT	L/F	Rv2333c	stp	nonsyn	nonessential	no
lineage7	2614431	.	G/C	.	./.	./.	.	.	inter	.	no
lineage7	2621157	1296	T/C	432	GCA/GCG	A/A	Rv2343c	dnaG	syn	essential	yes
lineage7	2634697	896	A/C	299	CTC/CGC	L/R	Rv2353c	PPE39	nonsyn	ND	no
lineage7	2647342	1026	G/A	342	GGC/GGT	G/G	Rv2366c	.	syn	nonessential	no
lineage7	2661345	741	G/A	247	ACC/ACT	T/T	Rv2379c	mbtF	syn	nonessential	no
lineage7	2663297	3819	T/C	1273	CTA/CTG	L/L	Rv2380c	mbtE	syn	nonessential	no
lineage7	2666885	231	C/T	77	CTG/CTA	L/L	Rv2380c	mbtE	syn	nonessential	no
lineage7	2691958	1887	A/C	629	GGA/GGC	G/G	Rv2395	.	syn	nonessential	no
lineage7	2705855	.	C/G	.	./.	./.	.	.	inter	.	no
lineage7	2709457	509	G/C	170	GCC/GGC	A/G	Rv2411c	.	nonsyn	nonessential	no
lineage7	2711106	196	C/T	66	GCC/ACC	A/T	Rv2413c	.	nonsyn	nonessential	no
lineage7	2716008	307	C/T	103	GGT/AGT	G/S	Rv2417c	.	nonsyn	nonessential	no
lineage7	2724174	10	G/A	4	CCC/TCC	P/S	Rv2426c	.	nonsyn	nonessential	no
lineage7	2728454	394	A/G	132	TGG/CGG	W/R	Rv2432c	.	nonsyn	nonessential	no
lineage7	2730359	202	G/C	68	CCG/GCG	P/A	Rv2434c	.	nonsyn	nonessential	no
lineage7	2731731	1019	G/A	340	TCC/TTC	S/F	Rv2435c	.	nonsyn	nonessential	no
lineage7	2734271	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	2759363	126	A/G	42	TGT/TGC	C/C	Rv2457c	clpX	syn	essential	yes
lineage7	2764924	368	G/A	123	GCG/GTG	A/V	Rv2462c	tig	nonsyn	nonessential	no
lineage7	2765091	201	G/A	67	ATC/ATT	I/I	Rv2462c	tig	syn	nonessential	no
lineage7	2766211	557	C/A	186	ACC/AAC	T/N	Rv2463	lipP	nonsyn	nonessential	no
lineage7	2767071	595	G/A	199	CTG/TTG	L/L	Rv2464c	.	syn	nonessential	no
lineage7	2770542	1557	C/T	519	AAC/AAT	N/N	Rv2467	pepN	syn	nonessential	no
lineage7	2771112	2127	C/T	709	GCC/GCT	A/A	Rv2467	pepN	syn	nonessential	no
lineage7	2775540	269	G/A	90	GGC/GAC	G/D	Rv2472	.	nonsyn	essential	no
lineage7	2781628	635	C/T	212	GGC/GAC	G/D	Rv2476c	gdh	nonsyn	ND	no
lineage7	2789267	17	G/T	6	GCC/GAC	A/D	Rv2482c	plsB2	nonsyn	nonessential	no
lineage7	2789503	1520	T/G	507	CAG/CCG	Q/P	Rv2483c	plsC	nonsyn	essential	no
lineage7	2789841	1182	G/A	394	CGC/CGT	R/R	Rv2483c	plsC	syn	essential	yes
lineage7	2793444	545	T/C	182	AAC/AGC	N/S	Rv2485c	lipQ	nonsyn	nonessential	no
lineage7	2795567	1819	C/A	607	GGC/TGC	G/C	Rv2487c	PE_PGRS42	nonsyn	ND	no
lineage7	2799361	1520	G/A	507	GCG/GTG	A/V	Rv2488c	.	nonsyn	nonessential	no
lineage7	2800874	272	G/A	91	CCG/CTG	P/L	Rv2489c	.	nonsyn	nonessential	no
lineage7	2805436	801	G/A	267	GCC/GCT	A/A	Rv2490c	PE_PGRS43	syn	ND	no
lineage7	2822737	300	G/A	100	CCG/CCA	P/P	Rv2507	.	syn	essential	yes
lineage7	2832776	738	A/C	246	AAT/AAG	N/K	Rv2516c	.	nonsyn	essential	no
lineage7	2833478	36	A/G	12	GAT/GAC	D/D	Rv2516c	.	syn	essential	yes
lineage7	2836375	591	C/T	197	GCC/GCT	A/A	Rv2519	PE26	syn	ND	no
lineage7	2838982	560	G/C	187	GCG/GGG	A/G	Rv2522c	.	nonsyn	nonessential	no
lineage7	2839468	74	A/C	25	GTT/GGT	V/G	Rv2522c	.	nonsyn	nonessential	no
lineage7	2842238	7095	C/A	2365	GCG/GCT	A/A	Rv2524c	fas	syn	essential	yes
lineage7	2867759	636	G/A	212	TGG/TGA	W/*	Rv2544	lppB	nonsyn	nonessential	no
lineage7	2871227	789	G/A	263	TGC/TGT	C/C	Rv2552c	aroE	syn	essential	yes
lineage7	2887047	675	G/A	225	CTG/CTA	L/L	Rv2566	.	syn	nonessential	no
lineage7	2893421	51	G/A	17	AAC/AAT	N/N	Rv2568c	.	syn	nonessential	no
lineage7	2894182	227	G/A	76	TCC/TTC	S/F	Rv2569c	.	nonsyn	nonessential	no
lineage7	2909916	283	C/T	95	GCC/ACC	A/T	Rv2583c	relA	nonsyn	nonessential	no
lineage7	2913373	639	G/A	213	TAC/TAT	Y/Y	Rv2586c	secF	syn	nonessential	no
lineage7	2919994	2124	C/T	708	GAC/GAT	D/D	Rv2590	fadD9	syn	nonessential	no
lineage7	2922236	686	G/A	229	GGG/GAG	G/E	Rv2591	PE_PGRS44	nonsyn	ND	no
lineage7	2929571	1184	T/G	395	CTG/CGG	L/R	Rv2601	speE	nonsyn	nonessential	no
lineage7	2931372	189	G/A	63	AAC/AAT	N/N	Rv2603c	.	syn	nonessential	no
lineage7	2932343	800	T/C	267	GAG/GGG	E/G	Rv2605c	tesB2	nonsyn	nonessential	no
lineage7	2948000	559	T/C	187	ATG/GTG	M/V	Rv2621c	.	nonsyn	nonessential	no
lineage7	2948621	.	G/C	.	./.	./.	.	.	inter	.	no
lineage7	2949204	569	C/T	190	GCG/GTG	A/V	Rv2622	.	nonsyn	nonessential	no
lineage7	2950574	734	G/T	245	GCC/GAC	A/D	Rv2624c	.	nonsyn	nonessential	no
lineage7	2952062	442	T/C	148	ACT/GCT	T/A	Rv2625c	.	nonsyn	nonessential	no
lineage7	2952738	256	T/A	86	AGC/TGC	S/C	Rv2626c	hrp1	nonsyn	nonessential	no
lineage7	2953113	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	2955128	71	G/A	24	GGT/GAT	G/D	Rv2628	.	nonsyn	nonessential	no
lineage7	2955392	335	T/C	112	CTG/CCG	L/P	Rv2628	.	nonsyn	nonessential	no
lineage7	2958245	674	G/T	225	CGC/CTC	R/L	Rv2631	.	nonsyn	nonessential	no
lineage7	2964856	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	2967746	837	A/G	279	GTA/GTG	V/V	Rv2643	arsC	syn	nonessential	no
lineage7	2967747	838	G/T	280	GGC/TGC	G/C	Rv2643	arsC	nonsyn	nonessential	no
lineage7	2968348	1439	T/G	480	ATC/AGC	I/S	Rv2643	arsC	nonsyn	nonessential	no
lineage7	2968593	258	T/G	86	CAA/CAC	Q/H	Rv2644c	.	nonsyn	nonessential	no
lineage7	2982028	176	C/T	59	CCA/CTA	P/L	Rv2663	.	nonsyn	nonessential	no
lineage7	2998027	1289	C/T	430	GCC/GTC	A/V	Rv2681	.	nonsyn	nonessential	no
lineage7	2999030	939	G/A	313	GGC/GGT	G/G	Rv2682c	dxs1	syn	essential	yes
lineage7	3004837	814	C/T	272	GTG/ATG	V/M	Rv2688c	.	nonsyn	nonessential	no
lineage7	3008474	736	T/C	246	AAC/GAC	N/D	Rv2690c	.	nonsyn	nonessential	no
lineage7	3009027	183	C/T	61	GCG/GCA	A/A	Rv2690c	.	syn	nonessential	no
lineage7	3015090	.	T/G	.	./.	./.	.	.	inter	.	no
lineage7	3026670	1230	C/T	410	ATC/ATT	I/I	Rv2713	sthA	syn	nonessential	no
lineage7	3035390	482	T/G	161	CTC/CGC	L/R	Rv2723	.	nonsyn	nonessential	no
lineage7	3035643	735	C/G	245	TAC/TAG	Y/*	Rv2723	.	nonsyn	nonessential	no
lineage7	3035681	773	T/C	258	CTG/CCG	L/P	Rv2723	.	nonsyn	nonessential	no
lineage7	3044874	116	G/T	39	GCA/GAA	A/E	Rv2732c	.	nonsyn	nonessential	no
lineage7	3046916	96	A/C	32	GCA/GCC	A/A	Rv2734	.	syn	essential	yes
lineage7	3059346	85	A/G	29	ACC/GCC	T/A	Rv2747	argA	nonsyn	essential	no
lineage7	3061622	885	C/T	295	ATG/ATA	M/I	Rv2748c	ftsK	nonsyn	essential	no
lineage7	3063828	191	A/C	64	GAG/GCG	E/A	Rv2751	.	nonsyn	nonessential	no
lineage7	3065880	312	G/A	104	GGC/GGT	G/G	Rv2752c	.	syn	nonessential	no
lineage7	3068795	1289	T/G	430	GAC/GCC	D/A	Rv2756c	hsdM	nonsyn	nonessential	no
lineage7	3077872	207	G/A	69	GCC/GCT	A/A	Rv2768c	PPE43	syn	ND	no
lineage7	3083059	151	G/C	51	GGT/CGT	G/R	Rv2775	.	nonsyn	nonessential	no
lineage7	3088238	747	G/T	249	CAC/CAA	H/Q	Rv2781c	.	nonsyn	nonessential	no
lineage7	3096005	895	A/C	299	AGC/CGC	S/R	Rv2787	.	nonsyn	nonessential	no
lineage7	3101444	138	G/T	46	ACC/ACA	T/T	Rv2791c	.	syn	ND	no
lineage7	3102234	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	3114739	1082	C/T	361	GCC/GTC	A/V	Rv2807	.	nonsyn	nonessential	no
lineage7	3123282	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	3123689	278	A/C	93	GTT/GGT	V/G	Rv2816c	.	nonsyn	nonessential	no
lineage7	3131218	556	C/T	186	GAA/AAA	E/K	Rv2823c	.	nonsyn	ND	no
lineage7	3140047	438	G/A	146	TAC/TAT	Y/Y	Rv2833c	ugpB	syn	essential	yes
lineage7	3141736	487	C/A	163	GCG/TCG	A/S	Rv2835c	ugpA	nonsyn	nonessential	no
lineage7	3142654	975	C/T	325	GCG/GCA	A/A	Rv2836c	dinF	syn	nonessential	no
lineage7	3155322	550	C/T	184	GCC/ACC	A/T	Rv2847c	cysG	nonsyn	nonessential	no
lineage7	3157369	153	G/A	51	GCC/GCT	A/A	Rv2848c	cobB	syn	nonessential	no
lineage7	3157671	474	C/T	158	CTG/CTA	L/L	Rv2849c	cobO	syn	nonessential	no
lineage7	3157698	447	G/A	149	CTC/CTT	L/L	Rv2849c	cobO	syn	nonessential	no
lineage7	3174869	123	G/A	41	CTG/CTA	L/L	Rv2862A	vapB23	syn	nonessential	no
lineage7	3175295	304	C/G	102	CTG/GTG	L/V	Rv2863	vapC23	nonsyn	nonessential	no
lineage7	3177240	26	G/A	9	TCA/TTA	S/L	Rv2864c	.	nonsyn	nonessential	no
lineage7	3179636	896	G/A	299	GCC/GTC	A/V	Rv2868c	gcpE	nonsyn	nonessential	no
lineage7	3182040	972	C/T	324	GCG/GCA	A/A	Rv2870c	dxr	syn	nonessential	no
lineage7	3184462	558	C/A	186	CGC/CGA	R/R	Rv2873	mpt83	syn	nonessential	no
lineage7	3187814	152	C/A	51	ACC/AAC	T/N	Rv2876	.	nonsyn	nonessential	no
lineage7	3198080	206	C/T	69	GGC/GAC	G/D	Rv2888c	amiC	nonsyn	nonessential	no
lineage7	3202040	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	3207323	620	G/C	207	GCC/GGC	A/G	Rv2897c	.	nonsyn	essential	no
lineage7	3218932	594	C/G	198	GCC/GCG	A/A	Rv2911	dacB2	syn	nonessential	no
lineage7	3221466	233	G/A	78	ACC/ATC	T/I	Rv2913c	.	nonsyn	nonessential	no
lineage7	3225566	720	C/T	240	GCG/GCA	A/A	Rv2916c	ffh	syn	essential	yes
lineage7	3228978	1703	C/T	568	CGC/CAC	R/H	Rv2918c	glnD	nonsyn	nonessential	no
lineage7	3232007	500	T/G	167	CAC/CCC	H/P	Rv2920c	amt	nonsyn	nonessential	no
lineage7	3235618	2189	G/A	730	GCC/GTC	A/V	Rv2922c	smc	nonsyn	nonessential	no
lineage7	3247496	2052	A/C	684	GAA/GAC	E/D	Rv2931	ppsA	nonsyn	nonessential	no
lineage7	3247626	2182	G/A	728	GTG/ATG	V/M	Rv2931	ppsA	nonsyn	nonessential	no
lineage7	3266342	4095	G/T	1365	GTG/GTT	V/V	Rv2934	ppsD	syn	nonessential	no
lineage7	3268253	517	C/T	173	CTG/TTG	L/L	Rv2935	ppsE	syn	nonessential	no
lineage7	3271760	4024	A/C	1342	AAG/CAG	K/Q	Rv2935	ppsE	nonsyn	nonessential	no
lineage7	3274835	764	C/G	255	ACC/AGC	T/S	Rv2938	drrC	nonsyn	essential	no
lineage7	3282499	217	C/A	73	GTC/TTC	V/F	Rv2940c	mas	nonsyn	nonessential	no
lineage7	3286669	1600	C/G	534	CTC/GTC	L/V	Rv2942	mmpL7	nonsyn	essential	no
lineage7	3287589	2520	C/T	840	GCC/GCT	A/A	Rv2942	mmpL7	syn	essential	yes
lineage7	3292044	4310	G/A	1437	GCG/GTG	A/V	Rv2946c	pks1	nonsyn	nonessential	no
lineage7	3292903	3451	G/A	1151	CCC/TCC	P/S	Rv2946c	pks1	nonsyn	nonessential	no
lineage7	3297159	682	A/G	228	TCG/CCG	S/P	Rv2947c	pks15	nonsyn	nonessential	no
lineage7	3300827	1629	A/G	543	ATT/ATC	I/I	Rv2950c	fadD29	syn	nonessential	no
lineage7	3304991	551	G/A	184	CGC/CAC	R/H	Rv2952	.	nonsyn	nonessential	no
lineage7	3310776	1225	A/G	409	TTC/CTC	F/L	Rv2958c	.	nonsyn	nonessential	no
lineage7	3314728	395	T/G	132	GAG/GCG	E/A	Rv2962c	.	nonsyn	nonessential	no
lineage7	3316595	67	G/T	23	GGT/TGT	G/C	Rv2964	purU	nonsyn	nonessential	no
lineage7	3319841	3206	A/G	1069	GTC/GCC	V/A	Rv2967c	pca	nonsyn	essential	no
lineage7	3324231	246	G/C	82	TCC/TCG	S/S	Rv2969c	.	syn	essential	yes
lineage7	3327073	664	G/A	222	CCA/TCA	P/S	Rv2972c	.	nonsyn	nonessential	no
lineage7	3342191	27	C/A	9	CGC/CGA	R/R	Rv2985	mutT1	syn	nonessential	no
lineage7	3347748	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	3360233	354	G/A	118	GCC/GCT	A/A	Rv3001c	ilvC	syn	essential	yes
lineage7	3362216	771	C/G	257	CAG/CAC	Q/H	Rv3003c	ilvB1	nonsyn	essential	no
lineage7	3364438	95	T/G	32	GAG/GCG	E/A	Rv3005c	.	nonsyn	nonessential	no
lineage7	3367184	541	C/T	181	CGC/TGC	R/C	Rv3008	.	nonsyn	nonessential	no
lineage7	3377530	714	G/C	238	ATC/ATG	I/M	Rv3018c	PPE46	nonsyn	ND	no
lineage7	3378952	50	T/C	17	GAC/GGC	D/G	Rv3019c	esxR	nonsyn	ND	no
lineage7	3393970	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	3402510	653	C/T	218	CGT/CAT	R/H	Rv3042c	serB2	nonsyn	essential	no
lineage7	3408050	257	G/T	86	ACC/AAC	T/N	Rv3047c	.	nonsyn	nonessential	no
lineage7	3412710	1457	C/T	486	CGG/CAG	R/Q	Rv3051c	nrdE	nonsyn	essential	no
lineage7	3417370	666	T/C	222	GGT/GGC	G/G	Rv3056	dinP	syn	nonessential	no
lineage7	3417385	681	G/A	227	CTG/CTA	L/L	Rv3056	dinP	syn	nonessential	no
lineage7	3417862	801	T/G	267	CCA/CCC	P/P	Rv3057c	.	syn	nonessential	no
lineage7	3424868	560	C/A	187	CGC/CTC	R/L	Rv3061c	fadE22	nonsyn	essential	no
lineage7	3429470	2228	A/C	743	CAA/CCA	Q/P	Rv3063	cstA	nonsyn	nonessential	no
lineage7	3436750	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	3440038	498	G/A	166	GTG/GTA	V/V	Rv3077	.	syn	nonessential	no
lineage7	3445279	710	A/C	237	CTG/CGG	L/R	Rv3080c	pknK	nonsyn	nonessential	no
lineage7	3448540	37	G/A	13	GGC/AGC	G/S	Rv3083	.	nonsyn	nonessential	no
lineage7	3450589	593	C/A	198	TCG/TAG	S/*	Rv3084	lipR	nonsyn	nonessential	no
lineage7	3455887	127	G/T	43	GCC/TCC	A/S	Rv3089	fadD13	nonsyn	nonessential	no
lineage7	3456275	515	A/C	172	AAG/ACG	K/T	Rv3089	fadD13	nonsyn	nonessential	no
lineage7	3465072	526	G/C	176	GTC/CTC	V/L	Rv3096	.	nonsyn	nonessential	no
lineage7	3466724	368	G/A	123	ACG/ATG	T/M	Rv3097c	lipY	nonsyn	nonessential	no
lineage7	3468108	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	3470461	219	G/A	73	TGC/TGT	C/C	Rv3101c	ftsX	syn	essential	yes
lineage7	3473482	423	C/T	141	CGG/CGA	R/R	Rv3105c	prfB	syn	essential	yes
lineage7	3479661	491	A/G	164	GAT/GGT	D/G	Rv3111	moaC1	nonsyn	essential	no
lineage7	3489839	334	T/G	112	TCG/GCG	S/A	Rv3124	moaR1	nonsyn	nonessential	no
lineage7	3492156	10	A/C	4	AAC/CAC	N/H	Rv3127	.	nonsyn	nonessential	no
lineage7	3508871	777	A/G	259	GTA/GTG	V/V	Rv3141	fadB4	syn	nonessential	no
lineage7	3509448	99	G/T	33	AAC/AAA	N/K	Rv3142c	.	nonsyn	nonessential	no
lineage7	3509722	69	G/A	23	GTG/GTA	V/V	Rv3143	.	syn	nonessential	no
lineage7	3511580	.	T/G	.	./.	./.	.	.	inter	.	no
lineage7	3512287	211	A/G	71	ATC/GTC	I/V	Rv3146	nuoB	nonsyn	nonessential	no
lineage7	3525049	918	G/A	306	CTG/CTA	L/L	Rv3157	nuoM	syn	nonessential	no
lineage7	3525531	1400	T/C	467	CTC/CCC	L/P	Rv3157	nuoM	nonsyn	nonessential	no
lineage7	3526551	762	C/A	254	GTC/GTA	V/V	Rv3158	nuoN	syn	nonessential	no
lineage7	3541842	204	G/A	68	TAC/TAT	Y/Y	Rv3173c	.	syn	nonessential	no
lineage7	3542596	459	G/A	153	ACG/ACA	T/T	Rv3174	.	syn	nonessential	no
lineage7	3560102	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	3564633	270	C/G	90	GCC/GCG	A/A	Rv3195	.	syn	nonessential	no
lineage7	3567218	195	A/G	65	GAA/GAG	E/E	Rv3197	.	syn	nonessential	no
lineage7	3579122	1079	C/T	360	CGC/CAC	R/H	Rv3202c	.	nonsyn	nonessential	no
lineage7	3581047	410	G/T	137	GGT/GTT	G/V	Rv3203	lipV	nonsyn	nonessential	no
lineage7	3582248	258	C/A	86	GTG/GTT	V/V	Rv3205c	.	syn	nonessential	no
lineage7	3588550	753	C/T	251	CGC/CGT	R/R	Rv3211	rhlE	syn	nonessential	no
lineage7	3594599	132	C/T	44	ACC/ACT	T/T	Rv3218	.	syn	nonessential	no
lineage7	3602652	671	A/C	224	GTG/GGG	V/G	Rv3226c	.	nonsyn	nonessential	no
lineage7	3603631	255	G/T	85	GGG/GGT	G/G	Rv3227	aroA	syn	nonessential	no
lineage7	3616681	923	A/G	308	GTG/GCG	V/A	Rv3239c	.	nonsyn	nonessential	no
lineage7	3619430	1102	G/A	368	CTC/TTC	L/F	Rv3240c	secA1	nonsyn	essential	no
lineage7	3631360	629	A/G	210	TTC/TCC	F/S	Rv3252c	alkB	nonsyn	nonessential	no
lineage7	3634808	1134	T/G	378	AGT/AGG	S/R	Rv3254	.	nonsyn	nonessential	no
lineage7	3635935	333	C/G	111	CGG/CGC	R/R	Rv3255c	manA	syn	essential	yes
lineage7	3645990	895	C/T	299	GGG/AGG	G/R	Rv3265c	wbbL1	nonsyn	essential	no
lineage7	3650505	272	A/T	91	CAC/CTC	H/L	Rv3269	.	nonsyn	nonessential	no
lineage7	3660842	328	G/A	110	CTA/TTA	L/L	Rv3278c	.	syn	nonessential	no
lineage7	3666497	141	C/T	47	GCC/GCT	A/A	Rv3285	accA3	syn	essential	yes
lineage7	3667883	1527	C/A	509	GTC/GTA	V/V	Rv3285	accA3	syn	essential	yes
lineage7	3680314	3540	C/T	1180	GAC/GAT	D/D	Rv3296	lhr	syn	ND	no
lineage7	3688142	1301	T/C	434	GAA/GGA	E/G	Rv3302c	glpD2	nonsyn	nonessential	no
lineage7	3696423	1560	G/A	520	CGG/CGA	R/R	Rv3308	pmmB	syn	nonessential	no
lineage7	3703500	366	G/A	122	GCC/GCT	A/A	Rv3315c	cdd	syn	nonessential	no
lineage7	3719655	1061	T/A	354	CTG/CAG	L/Q	Rv3332	nagA	nonsyn	essential	no
lineage7	3725218	627	C/T	209	CCG/CCA	P/P	Rv3339c	icd1	syn	nonessential	no
lineage7	3730082	6854	G/A	2285	CCG/CTG	P/L	Rv3343c	PPE54	nonsyn	ND	no
lineage7	3737161	1278	C/T	426	CAG/CAA	Q/Q	Rv3344c	PE_PGRS49	syn	ND	no
lineage7	3740208	2567	T/C	856	AAC/AGC	N/S	Rv3345c	PE_PGRS50	nonsyn	ND	no
lineage7	3740576	2199	G/C	733	GGC/GGG	G/G	Rv3345c	PE_PGRS50	syn	ND	no
lineage7	3743205	251	G/C	84	ACG/AGG	T/R	Rv3346c	.	nonsyn	nonessential	no
lineage7	3743928	9257	G/A	3086	TCG/TTG	S/L	Rv3347c	PPE55	nonsyn	ND	no
lineage7	3748466	4719	G/C	1573	CTC/CTG	L/L	Rv3347c	PPE55	syn	ND	no
lineage7	3750805	2380	A/C	794	TTC/GTC	F/V	Rv3347c	PPE55	nonsyn	ND	no
lineage7	3750808	2377	C/T	793	GAC/AAC	D/N	Rv3347c	PPE55	nonsyn	ND	no
lineage7	3750812	2373	G/A	791	GTC/GTT	V/V	Rv3347c	PPE55	syn	ND	no
lineage7	3750860	2325	A/G	775	AAT/AAC	N/N	Rv3347c	PPE55	syn	ND	no
lineage7	3752190	995	C/T	332	GGG/GAG	G/E	Rv3347c	PPE55	nonsyn	ND	no
lineage7	3755486	.	G/T	.	./.	./.	.	.	inter	.	no
lineage7	3757714	9389	G/A	3130	TCG/TTG	S/L	Rv3350c	PPE56	nonsyn	ND	no
lineage7	3764697	2406	C/T	802	GCG/GCA	A/A	Rv3350c	PPE56	syn	ND	no
lineage7	3766308	795	G/A	265	ATC/ATT	I/I	Rv3350c	PPE56	syn	ND	no
lineage7	3768072	69	C/T	23	GTG/GTA	V/V	Rv3351c	.	syn	nonessential	no
lineage7	3769180	70	G/A	24	GCG/ACG	A/T	Rv3354	.	nonsyn	nonessential	no
lineage7	3774487	18	G/A	6	GGC/GGT	G/G	Rv3363c	.	syn	nonessential	no
lineage7	3780885	95	A/G	32	CTG/CCG	L/P	Rv3368c	.	nonsyn	nonessential	no
lineage7	3787467	1154	A/C	385	GAG/GCG	E/A	Rv3372	otsB2	nonsyn	essential	no
lineage7	3793068	181	G/T	61	CGT/AGT	R/S	Rv3378c	.	nonsyn	ND	no
lineage7	3812032	314	C/G	105	GCC/GGC	A/G	Rv3395A	.	nonsyn	nonessential	no
lineage7	3817296	58	C/A	20	CCC/ACC	P/T	Rv3400	.	nonsyn	essential	no
lineage7	3817814	576	C/T	192	GCC/GCT	A/A	Rv3400	.	syn	essential	yes
lineage7	3822242	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	3823763	101	A/T	34	ATG/AAG	M/K	Rv3403c	.	nonsyn	nonessential	no
lineage7	3827636	1092	G/A	364	ACC/ACT	T/T	Rv3409c	choD	syn	nonessential	no
lineage7	3830436	1084	C/T	362	GCG/ACG	A/T	Rv3411c	guaB2	nonsyn	essential	no
lineage7	3834001	521	T/G	174	GAG/GCG	E/A	Rv3415c	.	nonsyn	nonessential	no
lineage7	3837064	225	G/A	75	GGC/GGT	G/G	Rv3418c	groES	syn	ND	no
lineage7	3854279	515	G/A	172	CCT/CTT	P/L	Rv3435c	.	nonsyn	nonessential	no
lineage7	3860696	675	G/A	225	GAC/GAT	D/D	Rv3441c	mrsA	syn	essential	yes
lineage7	3863203	62	G/A	21	ACG/ATG	T/M	Rv3445c	esxU	nonsyn	nonessential	no
lineage7	3865541	2698	C/T	900	GGC/AGC	G/S	Rv3447c	eccC4	nonsyn	nonessential	no
lineage7	3868110	129	A/G	43	GGT/GGC	G/G	Rv3447c	eccC4	syn	nonessential	no
lineage7	3878040	468	A/G	156	GGT/GGC	G/G	Rv3457c	rpoA	syn	essential	yes
lineage7	3881683	777	T/C	259	CAT/CAC	H/H	Rv3463	.	syn	nonessential	no
lineage7	3882707	871	G/T	291	GCG/TCG	A/S	Rv3464	rmlB	nonsyn	essential	no
lineage7	3885886	184	T/C	62	ATC/GTC	I/V	Rv3468c	.	nonsyn	nonessential	no
lineage7	3893211	510	C/T	170	GGG/GGA	G/G	Rv3476c	kgtP	syn	nonessential	no
lineage7	3900139	264	G/A	88	CAC/CAT	H/H	Rv3480c	.	syn	nonessential	no
lineage7	3905923	152	C/T	51	GCC/GTC	A/V	Rv3486	.	nonsyn	nonessential	no
lineage7	3906644	364	G/C	122	CTG/GTG	L/V	Rv3487c	lipF	nonsyn	nonessential	no
lineage7	3911389	287	A/G	96	GTG/GCG	V/A	Rv3493c	.	nonsyn	nonessential	no
lineage7	3912041	1329	G/A	443	CCC/CCT	P/P	Rv3494c	mce4F	syn	nonessential	no
lineage7	3919736	327	G/T	109	GTC/GTA	V/V	Rv3500c	yrbE4B	syn	nonessential	no
lineage7	3945728	21	C/A	7	GAG/GAT	E/D	Rv3513c	fadD18	nonsyn	nonessential	no
lineage7	3965523	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	3965703	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	3991333	563	C/A	188	CCC/CAC	P/H	Rv3552	.	nonsyn	nonessential	no
lineage7	3991558	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	3993047	363	C/T	121	TTC/TTT	F/F	Rv3554	fdxB	syn	nonessential	no
lineage7	4001622	.	T/C	.	./.	./.	.	.	inter	.	no
lineage7	4012366	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	4018680	323	T/C	108	ATG/ACG	M/T	Rv3576	lppH	nonsyn	nonessential	no
lineage7	4019210	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	4022147	247	C/T	83	GGT/AGT	G/S	Rv3579c	.	nonsyn	essential	no
lineage7	4022163	231	C/T	77	CTG/CTA	L/L	Rv3579c	.	syn	essential	yes
lineage7	4029027	736	C/T	246	GTA/ATA	V/I	Rv3587c	.	nonsyn	nonessential	no
lineage7	4030666	174	G/C	58	CGG/CGC	R/R	Rv3589	mutY	syn	nonessential	no
lineage7	4032352	807	G/A	269	GCC/GCT	A/A	Rv3590c	PE_PGRS58	syn	ND	no
lineage7	4034557	206	A/C	69	GAC/GCC	D/A	Rv3593	lpqF	nonsyn	essential	no
lineage7	4038080	.	C/T	.	./.	./.	.	.	inter	.	no
lineage7	4056453	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	4061704	186	G/A	62	TCC/TCT	S/S	Rv3621c	PPE65	syn	ND	no
lineage7	4070302	1128	C/A	376	GCC/GCA	A/A	Rv3630	.	syn	nonessential	no
lineage7	4071660	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	4073875	242	T/G	81	GTG/GGG	V/G	Rv3635	.	nonsyn	essential	no
lineage7	4086748	510	C/G	170	CTG/CTC	L/L	Rv3646c	topA	syn	essential	yes
lineage7	4090980	2200	T/C	734	TGT/CGT	C/R	Rv3649	.	nonsyn	essential	no
lineage7	4100209	563	T/C	188	CTG/CCG	L/P	Rv3661	.	nonsyn	nonessential	no
lineage7	4109312	1521	G/A	507	GGG/GGA	G/G	Rv3667	acs	syn	nonessential	no
lineage7	4112211	866	C/T	289	GCA/GTA	A/V	Rv3670	ephE	nonsyn	nonessential	no
lineage7	4113054	462	C/T	154	AAG/AAA	K/K	Rv3671c	.	syn	nonessential	no
lineage7	4122786	871	G/A	291	GCC/ACC	A/T	Rv3682	ponA2	nonsyn	nonessential	no
lineage7	4141126	634	C/T	212	CAT/TAT	H/Y	Rv3698	.	nonsyn	nonessential	no
lineage7	4145696	1196	A/G	399	ATC/ACC	I/T	Rv3703c	.	nonsyn	nonessential	no
lineage7	4162310	5	A/C	2	CAG/CCG	Q/P	Rv3719	.	nonsyn	nonessential	no
lineage7	4163703	1398	G/A	466	GCG/GCA	A/A	Rv3719	.	syn	nonessential	no
lineage7	4167830	299	C/T	100	AGC/AAC	S/N	Rv3722c	.	nonsyn	essential	no
lineage7	4173568	614	T/C	205	GTG/GCG	V/A	Rv3727	.	nonsyn	nonessential	no
lineage7	4174350	1396	C/T	466	CAT/TAT	H/Y	Rv3727	.	nonsyn	nonessential	no
lineage7	4175644	772	C/A	258	CTG/ATG	L/M	Rv3728	.	nonsyn	nonessential	no
lineage7	4178700	416	C/G	139	CCC/CGC	P/R	Rv3729	.	nonsyn	nonessential	no
lineage7	4178780	496	C/A	166	CCG/ACG	P/T	Rv3729	.	nonsyn	nonessential	no
lineage7	4188742	1044	C/A	348	GCC/GCA	A/A	Rv3737	.	syn	nonessential	no
lineage7	4188978	1280	A/C	427	CAG/CCG	Q/P	Rv3737	.	nonsyn	nonessential	no
lineage7	4191147	1033	G/A	345	CTG/TTG	L/L	Rv3740c	.	syn	nonessential	no
lineage7	4191174	1006	G/A	336	CCC/TCC	P/S	Rv3740c	.	nonsyn	nonessential	no
lineage7	4198576	22	G/A	8	CTT/TTT	L/F	Rv3750c	.	nonsyn	nonessential	no
lineage7	4200343	.	C/A	.	./.	./.	.	.	inter	.	no
lineage7	4204828	546	G/A	182	TCC/TCT	S/S	Rv3759c	proX	syn	nonessential	no
lineage7	4212165	.	A/G	.	./.	./.	.	.	inter	.	no
lineage7	4213146	795	C/G	265	GCG/GCC	A/A	Rv3767c	.	syn	nonessential	no
lineage7	4213412	529	G/C	177	CCA/GCA	P/A	Rv3767c	.	nonsyn	nonessential	no
lineage7	4213478	463	G/A	155	CTG/TTG	L/L	Rv3767c	.	syn	nonessential	no
lineage7	4238778	847	G/A	283	GTG/ATG	V/M	Rv3792	aftA	nonsyn	essential	no
lineage7	4240153	291	G/A	97	TCG/TCA	S/S	Rv3793	embC	syn	essential	yes
lineage7	4248073	1560	C/T	520	ACC/ACT	T/T	Rv3795	embB	syn	essential	no
lineage7	4262608	459	G/A	153	ATC/ATT	I/I	Rv3801c	fadD32	syn	essential	yes
lineage7	4266344	315	G/A	105	GAC/GAT	D/D	Rv3804c	fbpA	syn	ND	no
lineage7	4267649	1188	A/G	396	GGT/GGC	G/G	Rv3805c	aftB	syn	essential	no
lineage7	4272216	64	C/T	22	GAC/AAC	D/N	Rv3808c	glfT2	nonsyn	essential	no
lineage7	4277638	1068	C/T	356	TTC/TTT	F/F	Rv3812	PE_PGRS62	syn	ND	no
lineage7	4281911	265	T/A	89	TGG/AGG	W/R	Rv3817	.	nonsyn	nonessential	no
lineage7	4284514	1312	C/A	438	GCA/TCA	A/S	Rv3820c	papA2	nonsyn	nonessential	no
lineage7	4308411	504	T/G	168	CTA/CTC	L/L	Rv3834c	serS	syn	essential	yes
lineage7	4309264	218	C/G	73	GCC/GGC	A/G	Rv3835	.	nonsyn	nonessential	no
lineage7	4328371	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	4331184	322	G/A	108	CTG/TTG	L/L	Rv3858c	gltD	syn	essential	yes
lineage7	4333011	3071	G/A	1024	GCC/GTC	A/V	Rv3859c	gltB	nonsyn	essential	no
lineage7	4343706	393	C/T	131	TCC/TCT	S/S	Rv3868	eccA1	syn	essential	yes
lineage7	4351903	829	C/T	277	CTG/TTG	L/L	Rv3873	PPE68	syn	ND	no
lineage7	4352439	166	G/T	56	GTG/TTG	V/L	Rv3874	esxB	nonsyn	ND	no
lineage7	4353991	982	G/A	328	GCC/ACC	A/T	Rv3876	espI	nonsyn	essential	no
lineage7	4354860	1851	A/G	617	CAA/CAG	Q/Q	Rv3876	espI	syn	essential	yes
lineage7	4355145	139	T/A	47	TAT/AAT	Y/N	Rv3877	eccD1	nonsyn	essential	no
lineage7	4355146	140	A/C	47	TAT/TCT	Y/S	Rv3877	eccD1	nonsyn	essential	no
lineage7	4355184	178	G/A	60	GAA/AAA	E/K	Rv3877	eccD1	nonsyn	essential	no
lineage7	4355438	432	T/C	144	TTT/TTC	F/F	Rv3877	eccD1	syn	essential	yes
lineage7	4368292	230	G/C	77	CCA/CGA	P/R	Rv3885c	eccE2	nonsyn	nonessential	no
lineage7	4370531	1154	G/A	385	ACG/ATG	T/M	Rv3887c	eccD2	nonsyn	nonessential	no
lineage7	4371623	62	T/G	21	AAG/ACG	K/T	Rv3887c	eccD2	nonsyn	nonessential	no
lineage7	4371708	999	A/G	333	GTT/GTC	V/V	Rv3888c	.	syn	nonessential	no
lineage7	4377344	3109	T/C	1037	ATT/GTT	I/V	Rv3894c	eccC2	nonsyn	nonessential	no
lineage7	4383246	395	C/G	132	GGG/GCG	G/A	Rv3897c	.	nonsyn	nonessential	no
lineage7	4384325	1055	G/C	352	GCG/GGG	A/G	Rv3899c	.	nonsyn	nonessential	no
lineage7	4386210	99	G/A	33	CAC/CAT	H/H	Rv3900c	.	syn	nonessential	no
lineage7	4386257	52	G/C	18	CCG/GCG	P/A	Rv3900c	.	nonsyn	nonessential	no
lineage7	4388296	2137	G/A	713	CGA/TGA	R/*	Rv3903c	.	nonsyn	nonessential	no
lineage7	4391382	225	G/A	75	GAC/GAT	D/D	Rv3906c	.	syn	nonessential	no
lineage7	4398270	1674	G/C	558	TTG/TTC	L/F	Rv3910	.	nonsyn	essential	no
lineage7	4402376	649	G/A	217	GTG/ATG	V/M	Rv3913	trxB2	nonsyn	essential	no
lineage7	4404561	607	G/A	203	CTA/TTA	L/L	Rv3916c	.	syn	nonessential	no
lineage7	4405417	.	G/A	.	./.	./.	.	.	inter	.	no
lineage7	4410974	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV	3751	472	T/G	158	TTG/GTG	L/V	Rv0003	recF	nonsyn	nonessential	no
lineageBOV	22264	918	T/G	306	GCA/GCC	A/A	Rv0018c	pstP	syn	nonessential	no
lineageBOV	86864	337	A/G	113	ATC/GTC	I/V	Rv0078	.	nonsyn	nonessential	no
lineageBOV	126563	3979	C/A	1327	GCG/TCG	A/S	Rv0107c	ctpI	nonsyn	nonessential	no
lineageBOV	227860	983	C/T	328	CCG/CTG	P/L	Rv0194	.	nonsyn	nonessential	no
lineageBOV	231589	.	T/C	.	./.	./.	.	.	inter	.	no
lineageBOV	389129	548	A/G	183	TAC/TGC	Y/C	Rv0321	dcd	nonsyn	nonessential	no
lineageBOV	411100	263	A/G	88	AAT/AGT	N/S	Rv0342	iniA	nonsyn	nonessential	no
lineageBOV	451827	453	C/T	151	GCG/GCA	A/A	Rv0374c	.	syn	nonessential	no
lineageBOV	484238	262	A/G	88	ACG/GCG	T/A	Rv0404	fadD30	nonsyn	essential	no
lineageBOV	689204	146	C/T	49	ACG/ATG	T/M	Rv0591	mce2C	nonsyn	nonessential	no
lineageBOV	712129	594	G/C	198	GCG/GCC	A/A	Rv0618	galTa	syn	nonessential	no
lineageBOV	877720	721	G/A	241	CTG/TTG	L/L	Rv0783c	emrB	syn	nonessential	no
lineageBOV	877721	720	G/A	240	GGC/GGT	G/G	Rv0783c	emrB	syn	nonessential	no
lineageBOV	1174782	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV	1355349	313	C/T	105	GTT/ATT	V/I	Rv1212c	glgA	nonsyn	nonessential	no
lineageBOV	1377140	165	A/G	55	GAA/GAG	E/E	Rv1234	.	syn	nonessential	no
lineageBOV	1427476	63	C/T	21	TTC/TTT	F/F	Rv1278	.	syn	essential	yes
lineageBOV	1609445	1363	A/C	455	AAG/CAG	K/Q	Rv1431	.	nonsyn	nonessential	no
lineageBOV	1684979	975	T/C	325	AGT/AGC	S/S	Rv1493	mutB	syn	nonessential	no
lineageBOV	1794234	474	G/A	158	GCC/GCT	A/A	Rv1593c	.	syn	nonessential	no
lineageBOV	1952827	976	C/T	326	CAC/TAC	H/Y	Rv1726	.	nonsyn	nonessential	no
lineageBOV	2092688	1011	G/A	337	GGC/GGT	G/G	Rv1843c	guaB1	syn	nonessential	no
lineageBOV	2258216	187	A/G	63	AAC/GAC	N/D	Rv2009	vapB15	nonsyn	nonessential	no
lineageBOV	2454932	1114	G/A	372	GCA/ACA	A/T	Rv2191	.	nonsyn	nonessential	no
lineageBOV	2454934	1116	A/G	372	GCA/GCG	A/A	Rv2191	.	syn	nonessential	no
lineageBOV	2572460	549	G/A	183	CAC/CAT	H/H	Rv2300c	.	syn	nonessential	no
lineageBOV	2741758	1050	G/T	350	CTG/CTT	L/L	Rv2443	dctA	syn	nonessential	no
lineageBOV	2831482	1110	A/G	370	GGT/GGC	G/G	Rv2515c	.	syn	essential	yes
lineageBOV	3292275	4079	G/A	1360	GCG/GTG	A/V	Rv2946c	pks1	nonsyn	nonessential	no
lineageBOV	3292506	3848	A/C	1283	GTG/GGG	V/G	Rv2946c	pks1	nonsyn	nonessential	no
lineageBOV	3309377	710	T/C	237	ATC/ACC	I/T	Rv2956	.	nonsyn	nonessential	no
lineageBOV	3445339	650	G/A	217	GCG/GTG	A/V	Rv3080c	pknK	nonsyn	nonessential	no
lineageBOV	3448783	280	G/A	94	GTC/ATC	V/I	Rv3083	.	nonsyn	nonessential	no
lineageBOV	3486977	469	A/G	157	AAA/GAA	K/E	Rv3121	cyp141	nonsyn	nonessential	no
lineageBOV	3491539	113	G/A	38	GCG/GTG	A/V	Rv3125c	PPE49	nonsyn	ND	no
lineageBOV	3528552	612	G/T	204	GAC/GAA	D/E	Rv3159c	PPE53	nonsyn	ND	no
lineageBOV	3601528	913	C/T	305	GCC/ACC	A/T	Rv3225c	.	nonsyn	nonessential	no
lineageBOV	3624593	318	C/T	106	GTG/GTA	V/V	Rv3244c	lpqB	syn	essential	yes
lineageBOV	3714572	181	C/T	61	CTG/TTG	L/L	Rv3329	.	syn	nonessential	no
lineageBOV	3771245	201	G/A	67	CTG/CTA	L/L	Rv3358	relK	syn	nonessential	no
lineageBOV	3858247	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV	4047039	458	A/C	153	GTG/GGG	V/G	Rv3604c	.	nonsyn	essential	no
lineageBOV	4070487	.	G/T	.	./.	./.	.	.	inter	.	no
lineageBOV	4190916	1264	G/A	422	CGC/TGC	R/C	Rv3740c	.	nonsyn	nonessential	no
lineageBOV	4395804	1613	C/T	538	GCG/GTG	A/V	Rv3909	.	nonsyn	nonessential	no
lineageBOV	4398035	1439	T/C	480	GTC/GCC	V/A	Rv3910	.	nonsyn	essential	no
lineageBOV_AFRI	26053	829	C/G	277	GCT/CCT	A/P	Rv0021c	.	nonsyn	nonessential	no
lineageBOV_AFRI	74161	351	C/G	117	AAG/AAC	K/N	Rv0066c	icd2	nonsyn	nonessential	no
lineageBOV_AFRI	78103	794	T/C	265	GAG/GGG	E/G	Rv0070c	glyA2	nonsyn	nonessential	no
lineageBOV_AFRI	89535	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	100589	7	A/G	3	ACG/GCG	T/A	Rv0092	ctpA	nonsyn	nonessential	no
lineageBOV_AFRI	123842	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	137185	897	G/A	299	CAG/CAA	Q/Q	Rv0112	gca	syn	essential	yes
lineageBOV_AFRI	170083	100	A/G	34	TTC/CTC	F/L	Rv0143c	.	nonsyn	nonessential	no
lineageBOV_AFRI	189809	631	C/T	211	GCC/ACC	A/T	Rv0160c	PE4	nonsyn	ND	no
lineageBOV_AFRI	201567	636	G/C	212	GAG/GAC	E/D	Rv0171	mce1C	nonsyn	essential	no
lineageBOV_AFRI	210442	371	C/T	124	CGC/CAC	R/H	Rv0179c	lprO	nonsyn	nonessential	no
lineageBOV_AFRI	245921	1398	G/C	466	GAC/GAG	D/E	Rv0206c	mmpL3	nonsyn	nonessential	no
lineageBOV_AFRI	246169	1150	A/T	384	TTC/ATC	F/I	Rv0206c	mmpL3	nonsyn	nonessential	no
lineageBOV_AFRI	265554	48	A/C	16	GTA/GTC	V/V	Rv0222	echA1	syn	ND	no
lineageBOV_AFRI	273558	504	C/G	168	TCC/TCG	S/S	Rv0228	.	syn	essential	yes
lineageBOV_AFRI	275367	597	G/T	199	GAC/GAA	D/E	Rv0230c	php	nonsyn	nonessential	no
lineageBOV_AFRI	301687	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	323306	.	A/G	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	368168	4597	C/T	1533	GGC/AGC	G/S	Rv0304c	PPE5	nonsyn	ND	no
lineageBOV_AFRI	382243	1688	C/T	563	CCG/CTG	P/L	Rv0312	.	nonsyn	essential	no
lineageBOV_AFRI	382489	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	405854	.	C/G	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	475866	51	C/G	17	ACC/ACG	T/T	Rv0397	.	syn	nonessential	no
lineageBOV_AFRI	556201	106	T/C	36	AAC/GAC	N/D	Rv0465c	.	nonsyn	nonessential	no
lineageBOV_AFRI	560857	855	C/G	285	CTG/CTC	L/L	Rv0470c	pcaA	syn	essential	yes
lineageBOV_AFRI	598723	1525	G/T	509	GAT/TAT	D/Y	Rv0507	mmpL2	nonsyn	nonessential	no
lineageBOV_AFRI	599363	2165	C/G	722	TCT/TGT	S/C	Rv0507	mmpL2	nonsyn	nonessential	no
lineageBOV_AFRI	611373	702	T/C	234	CAA/CAG	Q/Q	Rv0519c	.	syn	nonessential	no
lineageBOV_AFRI	630018	.	A/G	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	640129	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	644439	1551	C/T	517	GCC/GCT	A/A	Rv0552	.	syn	nonessential	no
lineageBOV_AFRI	658923	603	C/G	201	TTC/TTG	F/L	Rv0567	.	nonsyn	nonessential	no
lineageBOV_AFRI	713802	1087	C/T	363	CGT/TGT	R/C	Rv0620	galK	nonsyn	nonessential	no
lineageBOV_AFRI	729114	165	G/A	55	GGC/GGT	G/G	Rv0632c	echA3	syn	nonessential	no
lineageBOV_AFRI	736919	285	G/T	95	TTC/TTA	F/L	Rv0642c	mmaA4	nonsyn	nonessential	no
lineageBOV_AFRI	738820	341	C/A	114	CGC/CTC	R/L	Rv0644c	mmaA2	nonsyn	nonessential	no
lineageBOV_AFRI	851104	363	C/T	121	GCG/GCA	A/A	Rv0756c	.	syn	nonessential	no
lineageBOV_AFRI	851562	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	916350	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	916714	933	G/T	311	CTC/CTA	L/L	Rv0823c	.	syn	nonessential	no
lineageBOV_AFRI	917259	388	C/A	130	GGC/TGC	G/C	Rv0823c	.	nonsyn	nonessential	no
lineageBOV_AFRI	1000732	1261	A/G	421	ACG/GCG	T/A	Rv0896	gltA2	nonsyn	nonessential	no
lineageBOV_AFRI	1009957	1014	G/A	338	CTG/CTA	L/L	Rv0906	.	syn	nonessential	no
lineageBOV_AFRI	1043169	1055	T/C	352	GTT/GCT	V/A	Rv0934	pstS1	nonsyn	ND	no
lineageBOV_AFRI	1054136	372	C/T	124	ACC/ACT	T/T	Rv0944	.	syn	nonessential	no
lineageBOV_AFRI	1119597	343	C/G	115	GTC/CTC	V/L	Rv1002c	.	nonsyn	essential	no
lineageBOV_AFRI	1150803	884	C/T	295	GGC/GAC	G/D	Rv1028c	kdpD	nonsyn	essential	no
lineageBOV_AFRI	1176753	.	T/C	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	1225198	814	C/T	272	CCC/TCC	P/S	Rv1096	.	nonsyn	nonessential	no
lineageBOV_AFRI	1238483	229	G/A	77	GTC/ATC	V/I	Rv1112	.	nonsyn	nonessential	no
lineageBOV_AFRI	1256012	1458	G/T	486	CGG/CGT	R/R	Rv1130	prpD	syn	nonessential	no
lineageBOV_AFRI	1302283	399	T/G	133	CAA/CAC	Q/H	Rv1172c	PE12	nonsyn	ND	no
lineageBOV_AFRI	1306281	1946	A/C	649	ATC/AGC	I/S	Rv1175c	fadH	nonsyn	nonessential	no
lineageBOV_AFRI	1340093	745	A/G	249	ATG/GTG	M/V	Rv1196	PPE18	nonsyn	ND	no
lineageBOV_AFRI	1347173	1452	C/T	484	CTG/CTA	L/L	Rv1204c	.	syn	essential	yes
lineageBOV_AFRI	1355937	102	C/T	34	TTC/TTT	F/F	Rv1213	glgC	syn	nonessential	no
lineageBOV_AFRI	1366736	862	T/C	288	TTC/CTC	F/L	Rv1223	htrA	nonsyn	essential	no
lineageBOV_AFRI	1367208	1334	G/A	445	AGC/AAC	S/N	Rv1223	htrA	nonsyn	essential	no
lineageBOV_AFRI	1390089	2964	C/T	988	GCG/GCA	A/A	Rv1248c	.	syn	essential	yes
lineageBOV_AFRI	1442734	.	C/G	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	1454811	1608	C/T	536	AAC/AAT	N/N	Rv1297	rho	syn	essential	yes
lineageBOV_AFRI	1467735	48	G/A	16	GGG/GGA	G/G	Rv1312	.	syn	nonessential	no
lineageBOV_AFRI	1508682	242	T/G	81	GAG/GCG	E/A	Rv1343c	lprD	nonsyn	nonessential	no
lineageBOV_AFRI	1537926	244	C/T	82	GAG/AAG	E/K	Rv1365c	rsfA	nonsyn	nonessential	no
lineageBOV_AFRI	1548149	318	G/A	106	CCG/CCA	P/P	Rv1375	.	syn	nonessential	no
lineageBOV_AFRI	1646982	797	C/T	266	GCG/GTG	A/V	Rv1460	.	nonsyn	essential	no
lineageBOV_AFRI	1662719	486	G/C	162	GCC/GCG	A/A	Rv1474c	.	syn	nonessential	no
lineageBOV_AFRI	1690345	2	A/G	1	ATG/ACG	M/T	Rv1498A	.	nonsyn	nonessential	no
lineageBOV_AFRI	1694199	346	C/T	116	GAA/AAA	E/K	Rv1503c	.	nonsyn	nonessential	no
lineageBOV_AFRI	1712522	221	G/T	74	AGC/ATC	S/I	Rv1521	fadD25	nonsyn	nonessential	no
lineageBOV_AFRI	1775167	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	1828389	210	C/T	70	CGC/CGT	R/R	Rv1626	.	syn	essential	no
lineageBOV_AFRI	1882180	477	C/T	159	GCC/GCT	A/A	Rv1662	pks8	syn	essential	yes
lineageBOV_AFRI	1885481	3778	C/G	1260	CGA/GGA	R/G	Rv1662	pks8	nonsyn	essential	no
lineageBOV_AFRI	1900021	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	1912024	58	C/A	20	GTC/TTC	V/F	Rv1686c	.	nonsyn	nonessential	no
lineageBOV_AFRI	1912582	339	G/A	113	GCC/GCT	A/A	Rv1687c	.	syn	nonessential	no
lineageBOV_AFRI	1914570	969	A/C	323	GCA/GCC	A/A	Rv1689	tyrS	syn	essential	yes
lineageBOV_AFRI	1951764	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	1965434	.	A/G	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	1968116	200	A/T	67	AAG/ATG	K/M	Rv1741	vapC34	nonsyn	nonessential	no
lineageBOV_AFRI	1975960	2331	G/T	777	TCG/TCT	S/S	Rv1747	.	syn	nonessential	no
lineageBOV_AFRI	2017861	122	G/A	41	CGT/CAT	R/H	Rv1782	eccB5	nonsyn	nonessential	no
lineageBOV_AFRI	2033021	782	G/A	261	GGT/GAT	G/D	Rv1795	eccD5	nonsyn	nonessential	no
lineageBOV_AFRI	2075089	249	T/C	83	TAT/TAC	Y/Y	Rv1830	.	syn	nonessential	no
lineageBOV_AFRI	2090776	1310	A/G	437	TTG/TCG	L/S	Rv1842c	.	nonsyn	nonessential	no
lineageBOV_AFRI	2107511	938	C/T	313	ACG/ATG	T/M	Rv1859	modC	nonsyn	nonessential	no
lineageBOV_AFRI	2125863	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	2155503	609	G/A	203	ACC/ACT	T/T	Rv1908c	katG	syn	nonessential	no
lineageBOV_AFRI	2172012	390	G/C	130	ATG/ATC	M/I	Rv1920	.	nonsyn	nonessential	no
lineageBOV_AFRI	2216443	1187	C/A	396	GCG/GAG	A/E	Rv1971	mce3F	nonsyn	nonessential	no
lineageBOV_AFRI	2225175	14	A/C	5	CTC/CGC	L/R	Rv1981c	nrdF1	nonsyn	nonessential	no
lineageBOV_AFRI	2244343	796	G/T	266	CGG/AGG	R/R	Rv1999c	.	syn	nonessential	no
lineageBOV_AFRI	2261241	144	A/G	48	GAA/GAG	E/E	Rv2014	.	syn	ND	no
lineageBOV_AFRI	2261693	.	G/C	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	2274463	46	A/C	16	TTG/GTG	L/V	Rv2027c	dosT	nonsyn	nonessential	no
lineageBOV_AFRI	2328627	351	C/T	117	GCG/GCA	A/A	Rv2071c	cobM	syn	nonessential	no
lineageBOV_AFRI	2329466	681	C/T	227	CCG/CCA	P/P	Rv2072c	cobL	syn	essential	no
lineageBOV_AFRI	2337373	68	T/C	23	GTG/GCG	V/A	Rv2080	lppJ	nonsyn	nonessential	no
lineageBOV_AFRI	2351522	533	G/A	178	ACG/ATG	T/M	Rv2092c	helY	nonsyn	nonessential	no
lineageBOV_AFRI	2415351	1044	C/A	348	GTG/GTT	V/V	Rv2155c	murD	syn	essential	yes
lineageBOV_AFRI	2437837	50	G/A	17	CCC/CTC	P/L	Rv2175c	.	nonsyn	nonessential	no
lineageBOV_AFRI	2438094	154	T/G	52	TCT/GCT	S/A	Rv2176	pknL	nonsyn	nonessential	no
lineageBOV_AFRI	2447426	75	G/T	25	ATC/ATA	I/I	Rv2185c	TB16.3	syn	nonessential	no
lineageBOV_AFRI	2461545	604	C/A	202	GCT/TCT	A/S	Rv2197c	.	nonsyn	nonessential	no
lineageBOV_AFRI	2478967	630	C/G	210	TTC/TTG	F/L	Rv2213	pepB	nonsyn	nonessential	no
lineageBOV_AFRI	2509362	14	G/A	5	ACC/ATC	T/I	Rv2236c	cobD	nonsyn	nonessential	no
lineageBOV_AFRI	2522284	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	2576251	443	G/A	148	GGC/GAC	G/D	Rv2305	.	nonsyn	nonessential	no
lineageBOV_AFRI	2577994	703	G/A	235	CGG/TGG	R/W	Rv2307c	.	nonsyn	nonessential	no
lineageBOV_AFRI	2688726	717	T/C	239	GCT/GCC	A/A	Rv2394	ggtB	syn	nonessential	no
lineageBOV_AFRI	2689193	1184	G/A	395	CGG/CAG	R/Q	Rv2394	ggtB	nonsyn	nonessential	no
lineageBOV_AFRI	2703018	231	G/T	77	GGC/GGA	G/G	Rv2404c	lepA	syn	nonessential	no
lineageBOV_AFRI	2719057	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	2751300	273	G/A	91	ACC/ACT	T/T	Rv2449c	.	syn	nonessential	no
lineageBOV_AFRI	2772741	295	C/A	99	GCG/TCG	A/S	Rv2469c	.	nonsyn	nonessential	no
lineageBOV_AFRI	2772954	82	T/C	28	AGT/GGT	S/G	Rv2469c	.	nonsyn	nonessential	no
lineageBOV_AFRI	2875808	678	C/G	226	AAG/AAC	K/N	Rv2555c	alaS	nonsyn	essential	no
lineageBOV_AFRI	2886400	28	G/A	10	GGC/AGC	G/S	Rv2566	.	nonsyn	nonessential	no
lineageBOV_AFRI	2896260	1544	G/A	515	GCG/GTG	A/V	Rv2572c	aspS	nonsyn	nonessential	no
lineageBOV_AFRI	2935886	841	C/T	281	CCG/TCG	P/S	Rv2608	PPE42	nonsyn	ND	no
lineageBOV_AFRI	2968468	.	G/C	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	3011566	202	G/T	68	CGC/AGC	R/S	Rv2694c	.	nonsyn	nonessential	no
lineageBOV_AFRI	3077291	788	G/C	263	CCC/CGC	P/R	Rv2768c	PPE43	nonsyn	ND	no
lineageBOV_AFRI	3086728	27	C/T	9	ATG/ATA	M/I	Rv2779c	.	nonsyn	nonessential	no
lineageBOV_AFRI	3125235	910	G/A	304	CAA/TAA	Q/*	Rv2818c	.	nonsyn	nonessential	no
lineageBOV_AFRI	3127466	807	T/G	269	CGA/CGC	R/R	Rv2820c	.	syn	nonessential	no
lineageBOV_AFRI	3134839	645	G/A	215	CGC/CGT	R/R	Rv2827c	.	syn	essential	yes
lineageBOV_AFRI	3146953	921	T/C	307	GAA/GAG	E/E	Rv2839c	infB	syn	essential	no
lineageBOV_AFRI	3187792	130	T/C	44	TGG/CGG	W/R	Rv2876	.	nonsyn	nonessential	no
lineageBOV_AFRI	3283592	258	G/C	86	GGG/GGC	G/G	Rv2941	fadD28	syn	nonessential	no
lineageBOV_AFRI	3286107	1038	C/A	346	GTC/GTA	V/V	Rv2942	mmpL7	syn	essential	yes
lineageBOV_AFRI	3356517	1419	T/C	473	CCT/CCC	P/P	Rv2997	.	syn	nonessential	no
lineageBOV_AFRI	3429605	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	3568004	981	C/A	327	CGC/CGA	R/R	Rv3197	.	syn	nonessential	no
lineageBOV_AFRI	3702543	925	G/A	309	CGG/TGG	R/W	Rv3314c	deoA	nonsyn	nonessential	no
lineageBOV_AFRI	3755443	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	3758046	9057	C/T	3019	TCG/TCA	S/S	Rv3350c	PPE56	syn	ND	no
lineageBOV_AFRI	3764381	2722	T/C	908	AAC/GAC	N/D	Rv3350c	PPE56	nonsyn	ND	no
lineageBOV_AFRI	3766410	693	C/G	231	GGG/GGC	G/G	Rv3350c	PPE56	syn	ND	no
lineageBOV_AFRI	3776265	1237	G/T	413	CGA/AGA	R/R	Rv3365c	.	syn	nonessential	no
lineageBOV_AFRI	3811327	310	C/T	104	GTG/ATG	V/M	Rv3395c	.	nonsyn	nonessential	no
lineageBOV_AFRI	3893290	431	G/A	144	GCG/GTG	A/V	Rv3476c	kgtP	nonsyn	nonessential	no
lineageBOV_AFRI	3968618	327	G/A	109	ACC/ACT	T/T	Rv3531c	.	syn	nonessential	no
lineageBOV_AFRI	3999774	662	G/C	221	GCG/GGG	A/G	Rv3559c	.	nonsyn	essential	no
lineageBOV_AFRI	4002847	1211	C/A	404	ACC/AAC	T/N	Rv3561	fadD3	nonsyn	nonessential	no
lineageBOV_AFRI	4021757	637	G/T	213	CGG/AGG	R/R	Rv3579c	.	syn	essential	no
lineageBOV_AFRI	4046218	.	G/A	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	4059904	.	A/G	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	4067044	242	G/A	81	GCC/GTC	A/V	Rv3627c	.	nonsyn	essential	no
lineageBOV_AFRI	4078292	159	T/G	53	AAA/AAC	K/N	Rv3639c	.	nonsyn	nonessential	no
lineageBOV_AFRI	4087670	519	C/T	173	GTG/GTA	V/V	Rv3647c	.	syn	nonessential	no
lineageBOV_AFRI	4099060	89	G/A	30	CCG/CTG	P/L	Rv3660c	.	nonsyn	essential	no
lineageBOV_AFRI	4158032	1052	A/C	351	AAG/ACG	K/T	Rv3712	.	nonsyn	essential	no
lineageBOV_AFRI	4172173	753	A/C	251	AGA/AGC	R/S	Rv3726	.	nonsyn	nonessential	no
lineageBOV_AFRI	4183602	669	C/T	223	GCC/GCT	A/A	Rv3732	.	syn	nonessential	no
lineageBOV_AFRI	4195182	192	G/A	64	TGC/TGT	C/C	Rv3743c	ctpJ	syn	nonessential	no
lineageBOV_AFRI	4212174	.	T/C	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	4215001	.	C/T	.	./.	./.	.	.	inter	.	no
lineageBOV_AFRI	4236150	372	C/T	124	GGC/GGT	G/G	Rv3790	dprE1	syn	essential	no
lineageBOV_AFRI	4246864	351	C/T	117	GTC/GTT	V/V	Rv3795	embB	syn	essential	yes
lineageBOV_AFRI	4269351	483	G/A	161	GCC/GCT	A/A	Rv3806c	ubiA	syn	essential	yes
lineageBOV_AFRI	4292095	1080	C/A	360	GCG/GCT	A/A	Rv3824c	papA1	syn	nonessential	no
lineageBOV_AFRI	4330238	1268	C/T	423	CGT/CAT	R/H	Rv3858c	gltD	nonsyn	essential	no
lineageBOV_AFRI	4386257	52	G/C	18	CCG/GCG	P/A	Rv3900c	.	nonsyn	nonessential	no
lineageBOV_AFRI	4393838	390	C/T	130	CTC/CTT	L/L	Rv3908	mutT4	syn	nonessential	no
lineageBOV_AFRI	4408570	328	G/A	110	CGG/TGG	R/W	Rv3920c	.	nonsyn	nonessential	no