Table 3. Relationships between three main Yellow-headed Amazona lineages and their support values obtained for different methods and analysed data sets.
| Data set | MrBayes | LR-ELW | TF boot | PAUP boot | aLRT | PhyML boot |
| nd+cox+atp6+81 | (S,NS)0.62 | (S,NS)52 | (S,NS)45 | (S,NS)35 | (S,NS)0.29 | (S,NS)38 |
| nd+cox2 | (S,NS)0.55 | (S,NS)49 | (S,NS)54 | (S,NS)46 | (S,NS)0.33 | (C,NS)42 |
| nd+cox+atp6+82 | (S,NS)0.76 | (S,NS)58 | (S,NS)61 | (S,NS)66 | (S,NS)0.78 | (S,NS)61 |
| 12s+16s+cox3 | (S,C)0.79 | (S,C)59 | (S,C)65 | (S,C)61 | (S,C)0.79 | (S,C)59 |
| 12s+16s+cox+cytb4 | (S,C)0.54 | (S,C)46 | (S,C)47 | (S,C)42 | (C,NS)0.15 | (C,NS)41 |
| cox | (S,C)0.80 | (C,NS*)98 | (C,NS*)30 | (S,C)33 | (S,C)85 | (S,C)38 |
1
based on Ribas et al. [14] data set;
2
based on Ribas et al. [14] and modified data set;
3
based on Rusello and Amato [7] and modified data set;
4
similar to the set3 but including also cytochrome b;
*the clade contains also A. arausiaca and A. versicolor; LR-ELW - Local Rearrangements–Expected Likelihood Weights method; boot – bootstrap method; aLRT - the approximate likelihood ratio test based on a Shimodaira-Hasegawa-like procedure.
C –Central American lineage, S – South American lineage, NS – Northern South American lineage including A. barbadensis and its relative A. ochrocephala ochrocephala.