Figure 1

Dot plots alignments using D-genies. (A) Newly assembled horse X chromosome (TAMU_EquCab4-X) with horse reference EquCab3-X; (B) Newly assembled donkey X chromosome (TAMU_EquAsi2-X) with donkey reference EquAsi1-X; (C) TAMU_EquAsi2-X with horse reference EquCab3-X; (D) TAMU_EquAsi2-X with TAMU_EquCab4-X; an arrow indicates pericentric inversion in donkey X; (F) G-banded horse (ECA) and donkey (EAS) X chromosomes, purple arrows showing centromere positions and a blue arrow indicating pericentric inversion in the donkey X.