Fragmented assemblies can manufacture spurious "accessory" gene families: a gene broken across a contig boundary is predicted as two partial proteins, neither of which clusters with the intact family, so each becomes a fake strain-private family. This report checks whether that confound is present on this run.
| Comparison | rho (raw) | rho (partial, controlling total_length) | n strains |
|---|---|---|---|
| accessory_present vs n_contigs | 0.0673 | 0.0211 | 293 |
| accessory_present vs n50 | 0.0789 | -0.0072 | 293 |
| core_missing vs n_contigs | -0.0235 | -0.0196 | 293 |
| core_missing vs n50 | -0.0054 | 0.0016 | 293 |
Proteins in strain-private (singleton) families sit within 1000 bp of a contig end 55.02% of the time (n=10307), against 5.31% of all 2766703 proteins genome-wide. See assembly_quality_vs_content.tsv for the per-strain breakdown.