Table 5.

Genetic diversity observed at each locus. Amplicon lengths with external or internal primers were obtained with Primer-BLAST (NCBI), apart from the PCR products with recG external primers, and polA external and internal primers, which were estimated on agarose gels

	typA	ctrA	msp4	pleD	recG	polA
No. of complete sequences	40	39	36	36	35	37
No. of sequences without ambiguities	31	39	28	33	33	31
No. of sequences with ambiguities (%)	9 (22.5)	0 (0)	8 (22.2)	3 (8.3)	2 (5.7)	6 (16.2)
Amplicon length with external primers (bp)	1455	1453	558	1102	515	~490
Amplicon length with internal primers (bp)	550	574	471	na	~480	~460
Alignment length (bp)	385	317	337	597	309	331
No. of polymorphic sites	5	6	11	20	6	7
Proportion of polymorphic sites	1.30	1.89	3.26	3.35	1.94	2.11
No. of alleles at each locus	7	6	7	3	8	8

Abbreviation: na not applicable