Table 1.

Statistics of lineage-specific single nucleotide polymorphisms (SNPs).

Isolate	Lineage	No. of lineage-specific SNPs	PE/PPE gene family		non-PE/PPE gene family
			Synonymous SNPs	Non-synonymous SNPs	Synonymous SNPs	Non-synonymous SNPs	Intergenic SNPs
M3	Haarlem	133	3	3	55	56	16
W6	modern Beijing	270	4	7	78	150	31
M7	LAM	317	10	7	93	163	44
A18	EAI	1,260	37	60	368	639	156
A27	T	136	2	2	48	69	15
M24	ancient Beijing	260	6	10	78	138	28
Sum		2,376	62	89	720	1,215	290