. 2016 Mar 29;9:15. doi: 10.1186/s12284-016-0083-8

Table 1.

Nucleotide and haplotype diversity and tests of neutrality for eight high affinity potassium transporter (HKT) family genes from 95 Indian wild rice accessions and 8 cultivated varieties

Candidate gene (Locus ID)	Region	S	π	θω	H	HD	D	D*	F*
HKT1;1	Coding	8	0.00013	0.00084	10	0.217	−2.10133	−3.97252	−3.94393
(LOC_Os04g51820)	Non-coding	3	0.0001	0.00059	4	0.076	−1.48732	−2.01292	−2.16727
(LOC_Os04g51820)	All	11	0.00012	0.00076	13	0.084	−2.22874	−4.21517	−4.17222
HKT1;2	Coding	0	0	0	1	0	0	0	0
HKT1;2	Non-coding	20	0.00027	0.00135	12	0.387	−2.30631	−4.55086	−4.42942
Chr4:30548314..30545885	All	20	0.00026	0.00131	12	0.387	−2.30631	−4.55086	−4.42942
HKT1;3	Coding	8	0.00019	0.00108	9	0.25	−1.99519	−2.80081	−2.99198
(LOC_Os02g07830)	Non-coding	6	0.00067	0.00137	4	0.164	−1.14077	0.15513	−0.32717
(LOC_Os02g07830)	All	14	0.00037	0.00118	10	0.29	−1.88141	−1.8801	−2.24114
HKT1;4	Coding	2	0.00031	0.00091	3	0.128	−1.01249	−1.0804	−1.23948
(LOC_Os04g51830)	Non-coding	42	0.00059	0.00191	19	0.69	−2.1536	−3.07965	−3.2462
(LOC_Os04g51830)	All	44	0.00057	0.00182	20	0.692	−2.15775	−3.12193	−3.27713
HKT1;5	Coding	8	0.00025	0.00183	8	0.166	−2.08122	−3.61227	−3.65909
(LOC_Os01g20160)	Non-coding	37	0.0012	0.00322	18	0.571	−1.94371	−2.70539	−2.87895
(LOC_Os01g20160)	All	45	0.00094	0.00284	23	0.631	−2.10258	−3.40294	−3.44926
HKT2;1	Coding	5	0.00015	0.00073	5	0.18	−1.66589	−3.23816	−3.20982
(LOC_Os06g48810)	Non-coding	46	0.00042	0.00241	17	0.333	−2.60346	−4.60994	−4.55342
(LOC_Os06g48810)	All	51	0.00035	0.00196	18	0.421	−2.61003	−4.91693	−4.76765
HKT2;3	Coding	24	0.00238	0.00353	23	0.891	−0.96284	−1.72038	−1.71118
(LOC_Os01g34850)	Non-coding	4	0.00013	0.00132	3	0.038	−1.77201	−3.90552	−3.78567
(LOC_Os01g34850)	All	28	0.00169	0.00284	23	0.891	−1.22676	−2.67757	−2.5308
HKT2;4	Coding	0	0	0	1	0	0	0	0
(LOC_Os06g48800)	Non-coding	4	0.0012	0.00448	5	0.198	−1.44156	−1.48409	−1.72999
(LOC_Os06g48800)	All	4	0.0012	0.00448	5	0.198	−1.44156	−1.48409	−1.72999

(S SNP/Indel sites, π nucleotide diversity, θω nucleotide diversity with Watterson’s estimator, H number of haplotypes, HD haplotype diversity, D Tajima’s D statistic, D* Fu and Li’s D* statistic, F*: Fu and Li’s F* statistic.)