Table 2. Chlamydia trachomatis strains identified in this study.

Genovar A strain	VS1	VS1	CS2	CS2	VS2	VS2	CS4	VS4	VS4	Genovar B strain	VS2
Nucleotide	278	289	304	353	505	523	790	991	1020		511
Ref A (HAR13)	T (V)	G (E)	G (A)	C (A)	G (G)	A (I)	A	A (T)	G	Ref B (M33636)	G(G)
A 1	.	.	.	.	.	.	G	.	.	B1	A (G→S)
A 2	.	.	A (A→T)	.	.	C (I→L)	G	.	A	B2
A 3	.	.	A (A→T)	.	.	C (I→L)	G	.	.
A 4	.	.	.	.	.	.	G	G (T→A)	.
A 5	A (V→E)	C (E→Q)	.	.	A (G→S)	.	G	.	.
A 6	.	.	A (A→T)	T (A→V)	.	C (I→L)	G	.	A
A 7	.	.	A (A→T)	.	.	.	G	.	A
A 8	.	.	.	.	.	.	G	.	A

Only single nucleotide polymorphisms and their locations are shown. Reference strains are C. trachomatis HAR 13 (genovar A) (NC_007429) and C. trachomatis M33636 (genovar B). Letters in parenthesis represent the amino acid and any resulting change. Genotype B2 is identical to the reference strain. (VS, variable sequence. CS, conserved sequence.)