Table 1. Quality control of the single nucleotide polymorphism (SNP) dataset

Description No. of heads and SNPs
Total number of animals 2,037
 Animals with missing SNPs over 0.10% 59
 Selected animals 1,978
Total number of SNPs 61,565
 SNPs with unknown position 7,849
 SNPs on sex chromosome (X, Y) 1,458
Number of SNPs on autosome (1–18) 52,258
 Selected (useful) SNPs: 39,603
 Outlier SNPs 12,669
  - All homo SNPs 4,280
  - All hetero SNPs 2
  - SNPs with missing > 10% 510
  - SNPs with minor allele frequency < 1% 6,786
  - SNPs with Hardy-Weinberg equilibrium test > 23.93 1,091