Table 1. Model types for protein-coding gene analysis configured by IQtree ModelFinder through ultrafast bootstrap (10,000 replicates) for the phylogenetic tree with 3 codons.
| Model Type |
|
|
|
|
|
|
Gene |
|
|
|
|
|
|
|
ND1 |
ND2 |
COX1 |
COX2 |
ATP8 |
ATP6 |
COX3 |
ND3 |
ND4L |
ND4 |
ND5 |
ND6 |
CYTB |
| GTR+F+G4 |
1st pos |
|
|
1st pos |
|
1st pos |
|
1st pos |
|
|
|
|
1st pos |
| TPM3u+F+I+G4 |
2nd pos |
|
2nd pos |
2nd pos |
|
2nd pos |
2nd pos |
|
|
|
|
|
2rd pos |
| TIM+F+I+G4 |
3rd pos |
3rd pos |
|
|
|
|
|
|
|
|
|
|
3rd pos |
| TIM2+F+I+G4 |
|
1st pos |
|
|
1st pos, 2nd pos |
|
|
|
1st pos |
1st pos |
1st pos |
|
|
| TPM3u+F+I+G4 |
|
2nd pos |
|
|
|
|
|
2nd pos |
2nd pos |
2nd pos |
2nd pos |
|
|
| TIM2e+I+G4 |
|
|
1st pos |
|
|
|
1st pos |
|
|
|
|
|
|
| TIM2+F+I+G4 |
|
|
3rd pos |
3rd pos |
3rd pos |
3rd pos |
|
|
|
|
|
|
|
| TN+F+I+G4 |
|
|
|
|
|
|
3rd pos |
3rd pos |
3rd pos |
3rd pos |
3rd pos |
|
|
| HKY+F+I+G4 |
|
|
|
|
|
|
|
|
|
|
|
1st pos, 2nd pos |
|
| HKY+F+G4 |
|
|
|
|
|
|
|
|
|
|
|
3rd pos |
|