Fig. 2

Structure validation of LC2 v1.0 genome. A Structure of the haplotype-resolved chromosomes in LC2 v1.0. All 116 chromosomes of four haplotypes are drawn to scale and the ruler indicates chromosome length. Collinearity between haplotypes with syntenic regions is shown as gray lines, inversions as orange lines, translocations as green lines, and duplications as blue lines. Black triangles indicate the presence of telomere. Yellow dumbbell shapes represent the locations and sizes of centromeric regions. B Characterization of the centromere on Chr12 of the hapB. The histogram shows Class I retrotransposons, Class II DNA transposons, gene and tandem repeat density of Chr12. The heatmap shows pairwise similarity of the 50 Kb sequence along the whole chromosome of Chr12