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Table 1 Four regions with homozygous haplotype deficiency

From: Homozygous haplotype deficiency reveals deleterious mutations compromising reproductive and rearing success in cattle

Abbreviation Chr Start position End position Fq. Homozygous animals Number of matings Difference in insemination success Difference in stillbirth rate Difference in juvenile mortality
      exp obs P non-risk risk % P % P Day 10 Day 365 P
FH1 1 1,668,494 6,187,555 2.9 20 0 4.8 × 10−9 164,324 14,013 −6.64 7.1 × 10−25 −0.4 0.64 −0.3 0.4 0.004
FH2 1 96,169,900 97,123,740 4.1 37 2 1.2 × 10−13 109,386 8,428 −1.57 0.014 0.7 0.53 1.6 6.6 2.9 × 10−41
FH3 10 26,929,817 35,479,280 3.3 41 3 2.1 × 10−14 136,286 10,936 −4.06 2.4 × 10−17 1.4 0.12 1.8 4.3 1.3 × 10−26
FH4 12 10,859,759 12,805,107 3.3 33 0 1.3 × 10−14 86,464 4,793 −5.99 2.9 × 10−11 0.4 0.39 0.5 0.7 0.34
  1. Insemination success, the proportion of stillborn calves and juvenile mortality of descendants from risk matings were analyzed for four haplotypes with a significant deficit in homozygous animals. The physical position of the deleterious haplotypes was obtained based on the UMD3.1 assembly of the bovine genome.