Table 3.

Non-synonymous SNPs identified in BCG Mexico compared with BCG Pasteur 1173P2 and BCG Tokyo 172.

SNP	Location1	Gene	Change	In comparison with BCG
1	39256	BCGMEX_0037c	NS	Pasteur
2	89198	BCGMEX_0084	NS	Tokyo
3	338587	PE_PGRS4	NS	Tokyo
4	535543	sigK	NS	Tokyo
5	562401	pcaA	NS	Tokyo
6	582595	regX3	NS	Tokyo
7	585522	BCGMEX_0506c	NS	Tokyo and Pasteur
8	644544	BCGMEX_0568	NS	Tokyo
9	739067	mmaA3	NS	Tokyo
10	1165878	BCGMEX_1072c	NS	Tokyo
11	1294737	narJ	NS	Pasteur
12	1465719	BCGMEX_1346c	NS	Tokyo
13	1908146	PPE22	NS	Pasteur
14	1987564	BCGMEX_1787c	NA	Pasteur
15	2171779	BCGMEX_1957	NS	Tokyo and Pasteur
16	2261942	pks12	NS	Pasteur
17	2268073	pks12	NS	Pasteur
18	2599245	hrcA	NS	Tokyo
19	2625029	BCGMEX_2390	NA	Tokyo and Pasteur
20	2637892	PE_PGRS41	NS	Tokyo
21	2839572	BCGMEX_2587c	NS	Pasteur
22	3294834	ilvN	NS	Pasteur
23	3433045	PPE50	NS	Tokyo
24	3433175	PPE50	NS	Tokyo
25	3537078	BCGMEX_3256	NS	Tokyo
26	3592845	BCGMEX_3305c	NS	Tokyo
27	3674969	sdhB	NS	Tokyo
28	3785919	BCGMEX_3469	NS	Tokyo
29	4015927	hpt	NS	Tokyo
30	4059882	BCGMEX_3724	NA	Pasteur
31	4069095	BCGMEX_3734	NS	Tokyo
32	4075693	ponA2	NS	Tokyo and Pasteur
33	4087843	BCGMEX_3752	NS	Tokyo

¹Locations and names of affected genes follow BCG Mexico 1931; bold text indicates previously reported SNPs; NS = non-synonymous; NA = not annotated