Table 1.

Summary of numbers of animals^a and SNPs after quality control by breed

Breed	After quality control
	Animals	Females 2012	Males 2012	SNP	SNP ROH5c	SNP ROH10d
DU	2050	1512	538	34,904	34,179	34,181
LA	1225	1144	81	41,489	41,272	41,331
LW	1440	1341	99	39,671	39,488	39,501
LA × LWb	8100	–	–	35,191	35,059	35,054
DU × (LA × LW)b	53,900	–	–	26,548	25,559	25,490

DU Duroc, LW Large White, LA Landrace

^aThe females born in 2012 were used in the principal component analysis and to characterize the ROH frequency within the purebred population, while both males and females born in 2012 were used to generate the crossbred genome to characterize ROH frequency and in mating designs

^bGenotypes were simulated based on the purebred genotypes and therefore were not genotyped on a platform

^cRefers to the number of SNPs used in the calculation to determine whether a given SNP was in a ROH of at least 5 Mb

^dRefers to the number of SNPs used in the calculation to determine whether a given SNP was in a ROH of at least 10 Mb