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Table 1 Samples analysed with the Illumina Equine SNP70 BeadChip, and the obtained expected heterozygosity and inbreeding estimates

From: Genetic variability and history of a native Finnish horse breed

Breed/breeding section N mares N stallions/geldings HE FIS Mean number of ROH Mean size of ROH (kb) \(\hat{F}_{\text{I}}\) \(\hat{F}_{\text{II}}\) \(\hat{F}_{\text{III}}\) FPED
Finnhorse/not in studbook 5 6 0.325 0.012 8.2 15,927 − 0.057 0.033 − 0.012 0.034
Finnhorse/trotter 6 6 0.318 0.004 9.5 13,854 − 0.067 0.046 − 0.010 0.045
Finnhorse/riding 5 7 0.324 0.010 8.2 13,978 − 0.049 0.035 − 0.007 0.039
Finnhorse/pony-sized 5 5 0.326 0.014 6.7 15,350 − 0.023 0.011 − 0.006 0.032
Finnhorse/draught 6 6 0.324 0.005 7.6 16,221 − 0.051 0.032 − 0.010 0.031
All Finnhorses 27 30 0.324 0.016 8.1 15,036 − 0.050 0.032 − 0.009 0.036
Estonian Horse 1 NA NA 12 14,742 0.207 − 0.075 0.066 0.042
Warmblood trotter 1 1 NA NA 32 10,674 0.588 − 0.012 0.288 0.131
Irish Cob 1 NA NA 20 8994 0.290 0.043 0.166 NA
Welsh mountain 1 NA NA 26 12,892 0.283 0.034 0.158 0.071
Shetland pony 1 1 NA NA 21 10,162 0.279 0.114 0.196 0.020
KWPN (Royal Dutch Sport Horse) 1 NA NA 11 8368 0.507 − 0.192 0.158 0.007
Gotland Russ 1 NA NA 38 13,606 0.367 0.194 0.281 0.140
FWB (Finnish Warmblood) 1 NA NA 13 6846 0.560 − 0.183 0.189 0.006
Norwegian Fjord 1 NA NA 19 12,055 0.198 0.038 0.118 0.045
American Quarter 1 NA NA 16 13,197 0.438 − 0.156 0.141 0.012
Mixed breeds group 6 6 0.352 0.143 21.5 11,031 0.382 − 0.008 0.187 0.057
  1. Note, if only one individual of a breed was analysed, the individual numbers and sizes of ROH and inbreeding coefficients are presented, but not averages
  2. N = number of individuals, HE = expected heterozygosity, FIS = inbreeding coefficient based on difference between expected and observed heterozygosities, mean number of ROH = mean number of runs of homozygosity extending over 1000 kb, mean size of ROH extending over 1000 kb, \(\hat{F}_{\text{I}}\) = inbreeding coefficient based on variance-standardized relationship minus 1, \(\hat{F}_{\text{II}}\) = inbreeding coefficient based on excess of heterozygosity and \(\hat{F}_{\text{III}}\) = inbreeding coefficient based on correlation between uniting gametes and FPED = inbreeding coefficient based on pedigrees