ntSynt Report — Manihot eudicots

Assembly statistics

Statistic	Value
Number of assemblies	18
Range of number of chromosomes	17 – 18
Genome size range (Mbp)	525.5 – 727.6

Source: Manihot_eudicots_assemblies/Manihot_eudicots_abyss_fac-summary.tsv

Synteny block statistics

Statistic	Value
Number of blocks	1,592
Average synteny coverage (%)	41.57
Synteny coverage of smallest genome (%)	47.89
N50 length of synteny blocks (bp)	376,113

Source: ntSynt.k24.w1000.synteny_blocks.stats.tsv

Reasons for synteny block discontinuities

Synteny block discontinuity reason	Count
indel	1,168
ori_change	259
inconsistent_order	91
id_change	72
merge	1

Source: ntSynt.k24.w1000.discontinuity_reasons.tsv

Mash divergence distributions

Pairwise mash distances across full-genome, syntenic, and non-syntenic regions. Wilcoxon signed-rank test p-value shown between syntenic and non-syntenic distributions. Interactive — hover over a point to see the genome pair. Source: mash/mash_divergence_boxplot.html

Synteny ribbon plot

Manihot_eudicots_ribbon-plot_tree

ntSynt-viz ribbon plot showing synteny blocks across all assemblies. Nuclear genome tree included in ribbon plot. Interactive — hover to highlight, click to pin tooltips. Source: ntsynt-viz/Manihot_eudicots_ribbon-plot_tree.html