Table 2. The number of available SNPs and average interval distance between adjacent SNPs in Bovine SNP50k chip

BTA	Number of SNPs		Remove frequency (%)	Mean of Interval SNP
BTA	Before QC	After QC	Remove frequency (%)	Before QC	After QC
1	3,225	2,909	0.902	49.037	54.365
2	2,756	2,444	0.887	49.614	55.94
3	2,582	2,280	0.883	46.937	53.157
4	2,479	2,214	0.893	48.678	54.507
5	2,156	1,912	0.887	56.185	63.359
6	3,158	2,820	0.893	37.698	42.218
7	2,481	2,250	0.907	45.316	49.971
8	2,246	2,011	0.895	50.339	56.224
9	2,077	1,858	0.895	50.802	56.793
10	2,357	2,085	0.885	44.216	49.987
11	2,181	1,915	0.878	49.164	55.997
12	1,651	1,427	0.864	55.118	63.776
13	1,684	1,521	0.903	49.829	55.173
14	2,274	1,965	0.864	36.583	42.338
15	1,681	1,486	0.884	50.437	57.06
16	1,599	1,420	0.888	50.947	57.374
17	1,567	1,386	0.884	47.84	54.07
18	1,303	1,167	0.896	50.231	55.883
19	1,380	1,243	0.901	46.078	51.16
20	1,571	1,388	0.884	45.602	51.618
21	1,398	1,255	0.898	50.893	56.697
22	1,212	1,085	0.895	50.55	56.472
23	1,124	1,019	0.907	46.505	51.175
24	1,230	1,108	0.901	50.745	56.137
25	939	847	0.902	45.633	50.596
26	1,032	922	0.893	49.511	55.324
27	918	823	0.897	49.435	55.149
28	905	799	0.883	51.126	57.873
29	1,029	921	0.895	50.084	55.546
Total	52,195	46,480	0.891	48.453	54.343

SNP, single nucleotide polymorphism; QC, quality control.