TABLE 1.

Summary of polymorphisms

Gene	Value for:
	Locus		Polymorphism				Recombination
	Position (kbp)a	Length (bp)	Sb	Snonsync	No. of typesd	π (bp−1)e	Rminf	hg
trpB	616	933	11	2	11	0.0022	2	3*
gyrB	639	1,149	21 (1)	0	19	0.0071	7	21**
glyA	804	930	7	0	8	0.0018	3	3*
dnaK	994	897	10	2	15	0.0026	2	7**
tuf	1374	939	21 (2)	1	18	0.0059	5	14**
rplB	1521	822	5	1	9	0.0018	2	3**
fumC	1823	849	6	1	9	0.0016	1	2*
ftsQ	2319	720	2	0	3	0.0002	0	0
murG	2321	825	23 (1)	9	15	0.0055	6	12**
recA	2573	756	4	0	9	0.0015	2	4**
atpA	2820	978	26	0	17	0.0094	9	36**
Total
Sum		9,798	136 (4)	16		0.0039	39	105**
Concatenation		9,798	136 (4)	16	33	0.0039	49	294**

^aChromosomal position on the complete genome of strain JIP 02/86.

^bNumber of segregating sites (number of tri-allelic sites in parentheses).

^cNumber of nonsynonymous SNPs.

^dNumber of distinct types (either AT or ST).

^eAverage level of pairwise nucleotide diversity per site.

^fHudson and Kaplan's lower bound for the number of recombination.

^gMinimal number of apparent homoplasies (*, P = 0.05; **, P = 0.005).