Table 3 The Primer information of 15 cpSSRs and nucleotide mutations of their flanking sequences.

Locus Name	Forward primer	Reverse primer	Product size (bps)	Tm (°C)	Nucleotide diversity (π)	Total number of mutations (η)	Region length (bp)	D_j^a	D_j^b	Site
Rhcp2	AACTCATCAACGGACTCTCCA	ATTAGTGCTTGATGCGGGAAA	261	59.5	0.00193	3	205	0.4130	0.3446	matK-trnK-UUU
Rhcp5	GACTTGTGTTGGATTGGCACT	ACGGAACTTCGCCTTAACCAA	289	60	0.02362	53	221	0.1231	0.9016	trnK-UUU-rps16
Rhcp6	CATTCCTTCAGTTTGGAACCCA	TCTTGGTACTTGAAGAAGTGTGA	337	58	0.06351	150	271	0.4544	0.9885	rps16-trnQ-UUG
Rhcp11	TGGAGTGAAAAGCGTCCATTG	AGCGCCTCTTATTCAAGTTATTCA	167	59	0.04529	78	113	0.3111	0.5339	trnR-UCU-aptA
Rhcp13	CGGATGGCCAATAACCCAAG	GAGGTATTTCGCAACTGGCCT	311	59	0.00906	58	266	0.3700	0.5196	atpF-atpH
Rhcp14	CGCACGTCGTAAACAAATCCA	AGCTTAGCCTGACGCAATGT	331	60	0.05264	76	282	0.4642	0.8277	atpH-aptL
Rhcp16	CCGGCTCCAGTAGTTACACC	TAACCGTCGAGGCGAAGTAG	350	60	0.00891	34	296	0.2170	0.9495	rpoC1
Rhcp19	CACATATTGCGCACTTCCCG	AGGGCCTCTTCGATGGGTAT	246	60	0.04801	48	200	0.3534	0.9996	petN-psbM
Rhcp22	CGCTATCCGCCCAGGATAAT	CCTTGAGGTCACGGGTTCAA	243	60	0.01792	24	197	0.3020	0.9727	trnG-UUC-trnfM-CAU
Rhcp24	CGGGGATACACGACAGAAGG	CACCTATTACAGAGATGGTGCGA	190	60	0.02778	23	114	0.1043	0.9084	ycf3
Rhcp29	CGTGTAGAAACGTGTAGAAGGG	GAAACCATTGCAATTGCCGGA	360	59	0.01671	48	322	0.4523	0.7457	accD-psaL
Rhcp31	AGCGAGTCAACCGCTAGAAC	GGAGAATGAACTCTGGGAAGGT	296	60	0.03396	53	252	0.5046	0.9991	rps18-rpl20
Rhcp34	CTCCGAGTAAAGATCCGCCC	TGAAGTATCCAGGCTCCGTT	308	59	0.03085	92	272	0.3925	0.7929	rpl 20
Rhcp38	TGTGTATCTAGGGAATCGTCGC	CTGCCCCCGAGGGTCTATAA	319	59	0.07443	81	269	0.9350	0.9930	petD-rpoA
Rhcp41	AGCTCCTCGCGAATTAAACGA	TGGGAACGACAGAACCTGTG	390	60	0.01791	39	352	0.6307	0.9790	rpl 16-rps3

‘a’ indicates the discriminating power based on the genotype of cpSSR; ‘b’ indicates the discriminating power based on the genotype of nucleotide mutations.

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