Table 2 Average allele substitution effect of SNPs c.3020A>T and c.4500A>C on EBVs for milk yield (Milk), fat yield (Fat), protein yield (Prot), udder depth (UD) and somatic cell score (SCS).

	Trait
	Milk (Kg)	Fat (Kg)	Prot (Kg)	UD	SCS
SNP	Allele substitution effects ± SE (comparison-wise P level)
*c.3020A>T*	359.77 ± 107.70 (<0.0001⁺⁺)	-	9.90 ± 3.20 (0.0003⁺⁺)	-1.10 ± 0.41 (0.0087⁺)	0.07 ± 0.03 (0.0097⁺)
*c.4500A>C*	348.44 ± 117.80 (<0.0001⁺⁺)	8.29 ± 2.40 (0.0010⁺⁺)	11.31 ± 3.51 (<0.0001⁺⁺)	-	-
Power ¹	0.93	0.74	0.93	0.56	0.54

⁺⁺Significant effect by permutation test at an experimental-wise significance level of 5%
⁺Significant effect by permutation test at an experimental-wise significance level of 8%
¹ Power of the analysis considering an experimental-wise significance level of either 5% (for Milk, Fat and Prot) or 8% (for UD and SCS).

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