Table 3 Concatenated data matrix statistics
From: Pan-genome and phylogeny of Bacillus cereus sensu lato
Matrix | Taxon set | Gene set | Alignment method | Alignment length (nt) | Matrix completeness | Ambiguous characters |
|---|---|---|---|---|---|---|
mat_1 | bcsl_114 | all_core | prank | 508,158 | 97.9% | 0.4% |
mat_2 | bcsl_114 | hamstr_core | mafft | 502,005 | 98.4% | 0.0% |
mat_3 | bcsl_114 | hamstr_core_mges_removed | mafft | 486,546 | 98.4% | 0.0% |
mat_4 | bcsl_114 | hamstr_core_mges_removed + PhiPack sites removed | mafft | 134,225 | 98.0% | 0.0% |
mat_5 | bcsl_114 | hamstr_full_mges_removed | mafft | 7,962,138 | 47.4% | 0.0% |
mat_6 | bcsl_498 | hamstr_full_mges_removed | mafft | 8,207,628 | 66.1% | 0.1% |