Table 1 Summary of initial conditions and results obtained in phylogenetic reconstructions and model testing.
Analysis | Mitochondrial | Nuclear | Combined |
|---|---|---|---|
| Â | 129 taxa, 2866 bp | 73 taxa, 978 bp | 73 taxa, 3844 bp |
MP | Â | Â | Â |
RA replicates | 100 | 5 | 100 |
Bootstrap replicates | 1000 (10 RA rep.) | _ | 1000 (10 RA rep.) |
Optimal trees retained | 8 | >5 × 104 | 36 |
Optimal tree score (steps) | 11208 | 387 | 9002 |
Consistency index | 0.188 | 0.749 | 0.25 |
Consensus type | strict | 50% majority rule | 90% majority rule |
Initial model (ML and BI) | Â | Â | Â |
Akaike information criterion | GTR+I+Γ | HKY+I+Γ | GTR+I+Γ |
Number of substitution rate parameters | 6 | 2 | 6 |
ML – Garli |  |  |  |
Search replicates | 10 | 5 | 10 |
Automatic termination* (generations) | 1 × 104 | 1 × 104 | 1 × 104 |
Optimal tree score (lnL) | -52003.50 | -3791.51 | -43666.78 |
Bootstrap | _ | _ | _ |
ML – RAxML |  |  |  |
Search replicates | 10 | 5 | 5 |
Partitions | none | none | none |
Optimal tree score (lnL) | -52145.37 | -3790.72 | -43726.10 |
Bootstrap replicates** | 150 | 400 | 200 |
BI | Â | Â | Â |
Search replicates | 3 | 3 | 3 |
Partitions | none | none | none |
Generations | 1 × 107 | 6 × 106 | 6 × 106 |
Burn-in | 2.5 × 106 | 1.5 × 106 | 1.5 × 106 |
Post-burn-in trees (combined searches) | ~2.15 × 105 | ~1.35 × 105 | ~1.35 × 105 |
Mean lnL | -52160 | -4119.14 | -43760 |
Efective Sample Size (all parameters) | >200 | >200 | >200 |
Consensus type | 50% majority rule | 50% majority rule | 50% majority rule |