Table 2.
Number of ROH regions for each investigated potential selection event. For each phenotype, tool and parameter set, the number of ROHRs, the number of SNPs of all ROHRs and number of overlapping genes from the genome annotation are indicated. In addition, the total length of all ROHRs (in bp) and the coverage of the autosomal genome (in %) are provided
| Phenotype | Tool + Parameter set | Number of ROHRs | Number of SNPs | Intersecting genes | ROHR length [bp] | Genome coverage [%] |
|---|---|---|---|---|---|---|
| Heritage breed | PLINK_A | 22,396 | 974,847 | 3,583 | 47,244,400 | 2.09 |
| Heritage breed | PLINK_B | 15 | 1,235 | 10 | 71,087 | 0.00 |
| Heritage breed | RZooRoH | 15,924 | 1,760,741 | 4,341 | 129,231,106 | 5.70 |
| Lop ears | PLINK_A | 31,913 | 2,759,191 | 4,831 | 136,669,724 | 6.03 |
| Lop ears | PLINK_B | 2,007 | 299,821 | 582 | 15,562,455 | 0.69 |
| Lop ears | RZooRoH | 14,824 | 2,482,022 | 4,299 | 165,751,847 | 7.32 |
| Prick ears | PLINK_A | 9,839 | 328,033 | 1,684 | 15,768,865 | 0.70 |
| Prick ears | PLINK_B | 0 | 0 | 0 | 0 | 0.00 |
| Prick ears | RZooRoH | 5,812 | 604,787 | 1,630 | 41,990,018 | 1.85 |
| Disease resistance | PLINK_A | 13,427 | 621,064 | 2,417 | 31,092,255 | 1.37 |
| Disease resistance | PLINK_B | 279 | 43,728 | 78 | 2,261,875 | 0.10 |
| Disease resistance | RZooRoH | 11,774 | 883,853 | 2,969 | 58,704,190 | 2.59 |