TABLE 3.
Improvement of the Madagascar ground gecko genome assembly. BUSCO's Tetrapoda gene set consisting of 5310 orthologues was used to assess gene space completeness with BUSCO v5
| Metric | Draft v1.0 (Hara et al., 2018) | Hi‐C scaffolds v2.0 (this study) |
|---|---|---|
| Total length (Mbp) | 1,694 | 1,562 |
| N50 scaffold length (Mbp) | 4.1 | 109.0 |
| Largest scaffold length (Mbp) | 33.7 | 184.3 |
| Number of scaffolds >1 Mbp | 297 | 18 |
| % of sum length of sequences >10 Mbp | 26.6 | 96.5 |
| % of sum length of sequences >1 Mbp | 73.3 | 96.5 |
| Number (%) of reference orthologues detected as “complete” | 4,575 (86.16) | 4,577 (86.20) |
| Number (%) of reference orthologues detected as ‘fragmented’ or “complete” | 4,960 (93.41) | 4,969 (93.58) |
| Number (%) of reference orthologues detected as “duplicated” | 45 (0.8%) | 38 (0.7%) |
| Number (%) of reference orthologues recognized as “missing” | 350 (6.59%) | 341 (6.42%) |