TABLE 3.

Total number of SNPs, chromosome length, and average imputation accuracy (allelic DR²) per chromosome after filtrations, and before and after imputation filtration criteria (allelic DR²) in crossbreds (CBs) and purebreds (PBs).

		CB				PB
		Before filtering on allelic DR2		After filtering allelic DR2 > 0.8 on CBs		Before filtering on allelic DR2		After filtering allelic DR2 > 0.8 on PBs
Chromosome	Length (Mb)	Total number of SNPs	Mean allelic DR2	Total number of SNPs	Mean allelic DR2	Total number of SNPs	Mean allelic DR2	Total number of SNPs	Mean allelic DR2
SSC1	274	945,428	0.83	641,461	0.92	945,428	0.91	831,268	0.98
SSC2	152	791,977	0.81	509,047	0.92	791,977	0.88	668,474	0.97
SSC3	133	660,517	0.80	402,300	0.91	660,517	0.90	572,923	0.97
SSC4	131	740,467	0.84	517,636	0.92	740,467	0.92	669,685	0.97
SSC5	105	544,278	0.77	285,211	0.90	544,278	0.89	466,844	0.96
SSC6	171	824,770	0.79	475,917	0.91	824,770	0.89	696,109	0.96
SSC7	122	679,812	0.81	432,486	0.91	679,812	0.91	596,197	0.97
SSC8	139	866,293	0.81	534,659	0.91	866,293	0.92	774,027	0.97
SSC9	140	728,874	0.79	435,857	0.91	728,874	0.90	626,371	0.97
SSC10	69	579,468	0.79	341,971	0.90	579,468	0.88	483,451	0.95
SSC11	79	529,008	0.79	311,109	0.91	529,008	0.90	465,485	0.96
SSC12	62	429,775	0.79	244,130	0.90	429,775	0.88	359,175	0.95
SSC13	208	872,065	0.82	564,990	0.91	872,065	0.92	781,689	0.97
SSC14	142	755,463	0.81	480,616	0.92	755,463	0.91	660,825	0.97
SSC15	140	708,954	0.82	463,330	0.91	708,954	0.92	636,278	0.97
SSC16	80	523,910	0.80	320,423	0.91	523,910	0.91	465,914	0.96
SSC17	63	459,174	0.77	254,861	0.91	459,174	0.89	384,099	0.96
SSC18	56	305,915	0.79	177,266	0.92	305,915	0.91	270,808	0.97
Total/Average	126	11,946,148	0.80	7,393,270	0.91	11,946,148	0.90	10,409,622	0.97

CB, crossbred; PB, purebred; SNP, single nucleotide polymorphism; Mb, megabyte; SSC, sus scrofa.