TABLE 8.

Most significant SNP (lead SNP—rs80985094) identified in the within-breed association analysis and Haplotype-based association using number of copies of the core haplotype.

Population	Model	-log10 (p-value)	b	SE	${\sigma }_a^2$ Exp	${\sigma }_p^2$ Exp
Synthetic	SNP a	57.67	-0.36	0.02	0.04	0.02
	Haplotype b	45.92	-0.29	0.02	0.03	0.02
Pietrain	SNP	43.29	-0.27	0.02	0.06	0.03
	Haplotype	40.08	-0.26	0.02	0.05	0.03
Landrace	SNP	67.61	-0.24	0.01	0.05	0.02
	Haplotype	40.68	-0.17	0.01	0.02	0.01
Large-White	SNP	37.91	-0.33	0.03	0.02	0.01
	Haplotype	32.27	-0.30	0.03	0.02	0.01

b, beta coefficient; SE, standard error; ${\sigma }_a^2$ Exp, genetic variance explained; ${\sigma }_p^2$ Exp, phenotypic variance explained.

^ars80985094, lead SNP.

^bGCAAG, core haplotype.