ntSynt Report — Scombridae mackerels

Assembly statistics

Statistic	Value
Number of assemblies	27
Range of number of chromosomes	24 – 25
Genome size range (Mbp)	731.9 – 839.3

Source: Scombridae_mackerels_assemblies/Scombridae_mackerels_abyss_fac-summary.tsv

Synteny block statistics

Statistic	Value
Number of blocks	934
Average synteny coverage (%)	78.60
Synteny coverage of smallest genome (%)	83.10
N50 length of synteny blocks (bp)	1,936,807

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

Reasons for synteny block discontinuities

Synteny block discontinuity reason	Count
ori_change	496
indel	341
inconsistent_order	53
id_change	43

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

Scombridae_mackerels_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/Scombridae_mackerels_ribbon-plot_tree.html