Table 2. Summary statistics of each of the six assemblies analyzed, with distinct references (“full” and “CDS”) and three different levels of alignment post-filtering (“none”, “moderate”, and “strong”).
| Reference/filtering | Loci (n) | Aligned (bp) | Variable | PIS | Missing data (%) | Bootstrap (mean) |
|---|---|---|---|---|---|---|
| Full/none | 683 | 1,532,601 | 472,022 | 121,647 | 49.6 | 95.5 |
| Full/moderate | 682 | 1,313,414 | 413,152 | 108,389 | 47.8 | 96.5 |
| Full/strong | 683 | 377,028 | 117,781 | 38,952 | 30 | 95 |
| CDS/none | 683 | 885,828 | 242,192 | 75,228 | 44.9 | 95.9 |
| CDS/moderate | 676 | 690,926 | 194,921 | 63,410 | 40.9 | 93.8 |
| CDS/strong | 683 | 298,568 | 85,957 | 29,075 | 31.4 | 92.9 |
Note:
Loci (n), number of loci; Aligned (bp), total number of aligned base pairs; Variable, total number of variable sites; PIS, total number of parsimony informative sites; Missing data (%), Total percent of missing data; Bootstrap (mean), mean boostrap in the concatenated phylogeny.