Table 2. Results of the Pairwise Homoplasy Index (φ_w)^a and Sawyer’s Run Test^b for homologous recombination performed on individual loci included in the MLST scheme (dnaE, gyrB, recA, dtdS, pntA, pryC and tnaA).

Chromosome	Locus	φw a (P)*	SSCFb (P)*	SSUFb (P)*
I	dnaE	0.1231 (0.061)	28,193 (0.040)	17,852,729 (0.008)
	gyrB	0.1779 (0.163)	25,202 (0.085)	13,820,083 (0.080)
	recA	0.2526 (0.000)	92,754 (0.000)	24,289,938 (0.000)
II	dtdS	0.4359 (0.000)	29,905 (0.000)	6,896,551 (0.016)
	pntA	0.0784 (0.293)	6,455 (0.319)	4,917,051 (0.671)
	pyrC	0.1666 (0.012)	17,084 (0.063)	15,456,797 (0.055)
	tnaA	0.0994 (0.024)	11,572 (0.140)	7,846,412 (0.128)

^amean Pairwise Homoplasy Index, see reference [48].

^bsum of squared lengths of condensed fragments (SSCF) and sum of squared lengths of uncondensed fragments (SSUF), see reference [49].

^*significance declared at P<0.05.