Study of whole genome linkage disequilibrium in Nellore cattle

BMC Genomics

Table 2 Linkage disequilibrium (r²and |D'|) between pairs (N) of synthetic SNPs separated by different distances across all autosomes

Distance (kb)	N	Mean r²±SD	Median r²	Mean \|D'\| ±SD	Median \|D'\|	% r²> 0.3¹	% r²> 0.15¹	% \|D'\| > 0.8¹
0 - 1	54404	0.34±0.33	0.21	0.72±0.32	0.90	42	57	44
1 - 2	99488	0.32±0.33	0.19	0.70±0.33	0.88	40	55	42
2 - 3	104465	0.31±0.32	0.18	0.69±0.33	0.86	38	54	41
3 - 4	112729	0.30±0.32	0.17	0.68±0.33	0.84	38	53	40
4 - 5	108799	0.29±0.31	0.16	0.67±0.33	0.82	36	51	39
5 - 10	514160	0.27±0.30	0.14	0.64±033	0.77	33	48	37
10 - 20	977946	0.23±0.28	0.10	0.60±0.33	0.68	28	43	34
20 - 30	946535	0.20±0.26	0.08	0.57±0.33	0.61	24	38	30
30 - 40	927788	0.18±0.24	0.07	0.54±0.33	0.57	21	35	28
40 - 50	918536	0.16±0.23	0.06	0.52±0.33	0.53	19	32	26
50 - 60	908630	0.15±0.22	0.05	0.51±0.32	0.50	17	29	24
60 - 70	901928	0.14±0.21	0.05	0.50±0.32	0.48	15	28	23
70- 80	895944	0.13±0.20	0.04	0.48±0.32	0.47	14	26	21
80 - 90	893132	0.12±0.19	0.04	0.47±0.31	0.45	13	24	20
90 - 100	889644	0.11±0.18	0.04	0.47±0.31	0.44	12	23	19

SNP: single-nucleotide polymorphism; SD: Standard deviation. ¹Percentage of SNP pairs with r² > 0.3, r² > 0.15 and |D'| > 0.8.

ISSN: 1471-2164