Table 1. List of HvSSR primers used for genotyping of 375 rice accessions along with their chromosomal position, product size, No of alleles amplified, Temperature of Amplification (Ta), Gene diversity, Heterozygosity and PIC value.

Chr. No.	Primer ID	Size (bp)	Forward primer	Reverse primer	No of alleles amp.	Ann. temp(°C)	Gene Div.	Heterozygosity	PIC	Major Allele freq.
1	HvSSR01-32	250	AAACTGGAGATGAACTCGAA	GTAACGAACTAGAGCATGGG	2	55.6	0.13	0.02	0.12	0.93
	HvSSR01-41	348	TGAGTGAGACTTGACAGTGC	AGTTAACACCAATGCTGACC	2	59	0.34	0.005	0.28	0.78
	HvSSR01-53	274	TGTCGTCCACGTAGTAGGAG	ACACTCCTCCTCTGTTCTCA	2	51.9	0.35	0.006	0.29	0.77
2	HvSSR02-01	312	AAGAGATGAGAAGAGCAATGA	CAACTTAGAGGAAGAAGGAGG	2	60	0.41	0.18	0.32	0.72
	HvSSR02-33	355	TAATGCACGCACAACTTTAC	TATAGAATGCTGACTGGGCT	2	60.1	0.24	0.03	0.21	0.87
	HvSSR02-50	195	TTTCAGGAATCTGATGCTTT	TTAATCAAAGCCCTAACAGC	2	52	0.45	0.31	0.35	0.64
3	HvSSR03-02	228	TAGCGGAGTTGGAATAACAC	CTGCACTGCATACCTCATAA	2	55	0.45	0.008	0.35	0.68
	HvSSR03-10	280	GTACACAACGTCACAACAGC	ACTGTGGCATATGTTCGATT	2	55	0.45	0.26	0.35	0.66
	HvSSR03-19	230	AATTCAGTTCACGCATTCTT	AGCTGTTCGTCTGCATAGTT	2	61	0.17	0.06	0.15	0.91
	HvSSR03-37	386	GGAAATCGTCAAGAACGTC	TAATTGTATACCACTCCGCC	2	59	0.47	0.09	0.36	0.59
	HvSSR03-54	352	GCCTATCAGGCTATCATCAC	GTGATCGACATTGAGGAGTT	2	59	0.40	0.006	0.32	0.71
4	HvSSR04-19	265	TCGTGGAGTATCCTGTATCC	TTATAACTTGGAGCTCAGGC	2	56	0.24	0.19	0.21	0.86
	HvSSR04-27	318	ATGGATTTAGGCTTGTTTGA	ATACTGCGAAGGTGAAGAGA	2	58	0.37	0.28	0.30	0.75
	HvSSR04-46	179	GGCGCGCTTATATATGTACT	CGATTGCGTGGTGTAACTAT	2	61.2	0.49	0.03	0.37	0.55
5	HvSSR05-09	335	CTCTCCATCTTGCAATCTTC	TGCATGACTCTATCAACCAG	3	61	0.58	0.12	0.50	0.50
	HvSSR05-15	275	CCATGTCAAACGGTTACTTT	GGGAGAAGTGAGAAAGAGGT	2	60.5	0.07	0.01	0.07	0.97
	HvSSR05-30	353	TACGACGGACGATTAAAGTT	GCTAACTCATTCATCTCGCT	2	60.5	0.38	0.0	0.31	0.74
6	HvSSR06-03	212	CTAGGGAATCAGCGGTTAG	GCTCTCTTGTCCTTCTTCTTC	2	57.8	0.08	0.01	0.08	0.96
	HvSSR06-16	368	TCTGAAATGCTGTCATCAAG	GAGCAGAGTAGGACATGAGC	2	55.2	0.05	0.0	0.04	0.97
	HvSSR06-40	385	CTCTTCCGTGGTTAAAGAAA	CACTGGTATGATCTCCGACT	3	61	0.52	0.39	0.41	0.49
7	HvSSR07-18	343	GGTGTGTTGTCGAATCTCTC	ATGCCATTGTCCTTACATTC	3	61.3	0.39	0.23	0.36	0.76
	HvSSR07-51	341	CGAGCATGTCTGTCAAGTAA	GTTCGAATGTAATGTTGGCT	3	56.3	0.22	0.04	0.21	0.87
8	HvSSR08-14	295	TCCACTTTACATCGTCACAA	CTACCTCTTAACCGCACATT	2	59.3	0.30	0.0	0.26	0.81
	HvSSR08-19	221	CATCTCTTGAGAAATCTGCC	TGTGCATTTCGTCTTTCATA	2	55.6	0.27	0.06	0.24	0.84
9	HvSSR09-11	366	TGCAGAATTTCTTCCTTCAT	ACCAGAATCTCCCAAATGTA	3	61	0.36	0.01	0.33	0.78
	HvSSR09-26	331	TGGGCATCTGGTACTATCTT	AGCTCATTCCACAGGTTAGA	2	60	0.11	0.0	0.11	0.93
	HvSSR09-55	382	TTACTCCGCATATATCCATGT	ATTTGACACCAAGTTGATCC	2	61	0.48	0.73	0.37	0.59
10	HvSSR10-03	289	TCTTTCCCAAATTCCAGATA	CATTAGTTGTTTGTGGCAGA	2	56.3	0.07	0.0	0.08	0.96
	HvSSR10-13	169	CAGGGAATCAACATCAAAGT	AGCAAGGCAAGTCATCTCTA	2	59.4	0.49	0.52	0.37	0.51
	HvSSR10-34	202	TAGACCGAGGAATTGAAAGA	TTTGGGCTTATTGTCAGTTT	2	50.8	0.14	0.07	0.13	0.93
11	HvSSR11-13	285	TGAAACCACAATGAGTCAAA	GCCCTAAACCCAAATAGAAG	2	54.1	0.46	0.13	0.35	0.65
	HvSSR11-21	291	TACGCTATAACCATGAAGCA	CTCCCGTTATTGTCCTTACA	3	61	0.19	0.08	0.18	0.89
	HvSSR11-58	371	ACTGAATCCTTACTGGAGCA	GGAGATAAGCATTTGGAAGA	2	54.1	0.32	0.19	0.27	0.79
12	HvSSR12-01	271	GATTTGCAACACGTACGATA	GATCATCCACTCTGAGCAAT	2	52.6	0.07	0.04	0.07	0.96
	HvSSR12-13	388	ACCTTAGGGCTGAGTTCTTT	TTAGGCTTGTCTCTTCCTCA	2	60	0.10	0.03	0.10	0.95
	HvSSR12-39	289	ATCTAACAACAACAATCCCG	CATCTTCATCCCTCGTGTAT	4	60.5	0.27	0.13	0.26	0.85
				Mean			0.30	0.12	0.25	0.78