Estimation of effective population size using single-nucleotide polymorphism (SNP) data in Jeju horse

Table 1 Simple statistics for single-nucleotide polymorphism (SNP) data by chromosome

Chromosome	No. of SNPs	Mean				No. of SNP pairs	Mean
Chromosome	No. of SNPs	Distance¹	MAF²	HE³	r-square⁴		r-square⁵
1	3,509	53.0	0.24	0.33	0.25	6,154,786	0.02
2	2,463	49.1	0.25	0.34	0.29	3,031,953	0.02
3	2,234	53.5	0.25	0.34	0.27	2,494,261	0.02
4	2,185	49.7	0.24	0.33	0.28	2,386,020	0.02
5	1,909	52.2	0.25	0.34	0.26	1,821,186	0.02
6	1,762	48.1	0.24	0.33	0.25	1,551,441	0.02
7	1,887	52.2	0.24	0.33	0.28	1,779,441	0.02
8	1,946	48.2	0.25	0.34	0.27	1,892,485	0.03
9	1,767	47.2	0.26	0.34	0.29	1,560,261	0.03
10	1,688	49.7	0.24	0.33	0.27	1,423,828	0.03
11	1,332	46.0	0.24	0.34	0.27	886,446	0.03
12	622	53.0	0.25	0.34	0.21	193,131	0.03
13	826	51.4	0.24	0.33	0.20	340,725	0.03
14	1,954	47.7	0.24	0.34	0.28	1,908,081	0.03
15	1,841	49.6	0.24	0.33	0.26	1,693,720	0.02
16	1,775	49.2	0.24	0.33	0.25	1,574,425	0.02
17	1,598	50.5	0.25	0.33	0.31	1,276,003	0.03
18	1,532	53.8	0.24	0.33	0.27	1,172,746	0.02
19	1,225	48.9	0.24	0.33	0.26	749,700	0.03
20	1,252	51.0	0.25	0.34	0.26	783,126	0.02
21	1,257	45.6	0.24	0.33	0.25	789,396	0.03
22	1,036	48.1	0.24	0.34	0.24	536,130	0.02
23	1,097	50.4	0.25	0.34	0.28	601,156	0.03
24	1,039	44.5	0.25	0.34	0.25	539,241	0.03
25	737	53.2	0.24	0.33	0.25	271,216	0.03
26	684	61.0	0.24	0.33	0.22	233,586	0.03
27	778	51.1	0.25	0.34	0.25	302,253	0.03
28	867	52.9	0.24	0.33	0.27	375,411	0.03
29	579	58.0	0.24	0.33	0.23	167,331	0.03
30	593	50.7	0.24	0.33	0.23	175,528	0.03
31	452	55.1	0.25	0.33	0.20	101,926.	0.03
Overall	44,426	50.4	0.24	0.34	0.26	38,766,939	0.02

¹Kilo base pairs (Kb) between adjacent SNPs, ²minor allele frequency, ³Expected heterozygosity, ⁴between adjacent SNP pairs, ⁵between all SNP pairs.

ISSN: 2055-0391