Table 1.

Pairwise numbers of different positions along alignments of ITS (842 bp), Btub (911 bp), HSP90 (840 bp), cox1 (867 bp) and NADH1 (797 bp) among the taxa from Phytophthora Clade 12.

Phytophthora species	P. castanetorum					P. quercina					P. sp. ohioensis					P. sp. versiformis					P. sp. versiformis-like					P. tubulina					Total no. of unique polymorphisms
	ITS	Btub	HHSP90	Cox1	NADH1	ITS	Btub	HHSP90	Cox1	NADH1	ITS	Btub	HHSP90	Cox1	NADH1	ITS	Btub	HHSP90	Cox1	NADH1	ITS	Btub	HHSP90	Cox1	NADH1	ITS	Btub	HHSP90	Cox1	NADH1	ITS	Btub	HHSP90	Cox1	NADH1
P. castanetorum	0	0-3	0	0	0-2	3	0-5	2-3	5-14	4-9	1	2-5	2	n.a.	18-20	2-4	7-10	6	n.a.	30-32	2-3	6-9	6	n.a.	31-33	9	4-7	8	37	39-41	1	0-3	1	5	3-5
P. quercina	3	0-5	2-3	5-14	4-9	0	0-2	0-1	0-9	0-3	2	2-4	2-3	n.a.	15-18	3-5	7-9	6-7	n.a.	30-32	3-4	6-8	6-7	n.a.	32-34	10	4-6	8-9	33-42	37-39	2	0-2	1-2	0-9	1-4
P. sp. ohioensis	1	2-5	2	n.a.	18-20	2	2-4	2-3	n.a.	15-18	0	0	0	n.a.	0	1-3	5	4	n.a.	29	1-2	4	4	n.a.	29	8	3	6	n.a.	40	0	0	0	n.a.	4
P. sp. versiformis	2-4	7-10	6	n.a.	30-32	3-5	7-9	6-7	n.a.	30-32	1-3	5	4	n.a.	28	0-2	0	0	n.a.	0	0-3	1	0	n.a.	5	9-11	4	4	n.a.	34	0-2	1	0	n.a.	2
P. sp. versiformis-like	2-3	6-9	6	n.a.	31-33	3-4	6-8	6-7	n.a.	32-34	1-2	4	4	n.a.	29	0-3	1	0	n.a.	5	0-1	0	0	n.a.	0	9-10	5	4	n.a.	34	0-1	0	0	n.a.	3
P. tubulina	9	4-7	8	37	39-41	10	4-6	8-9	33-42	37-39	8	3	6	n.a.	40	9-11	4	4	n.a.	34	9-10	5	4	n.a.	34	0	0	0	0	0	8	1	3	33	23

n.a. = not available due to insufficient overlap between cox1 sequences of P. sp. ohioensis, P. versiformis and P. sp. versiformis-like from GenBank and of P. castanetorum, P. quercina and P. tubulina generated in this study.

Nucleotides missing from the terminal part(s) of partial sequences and undetermined bases (N) were not considered as polymorphisms.