Table 1 Estimated parameters under SPR-based full tree search for datasets of 250 amino acid sites simulated based on a 17-taxa chaperonin tree with JTT + the listed models.

RAS

α

0.50

0.50

-4245.78

698

17 min

Tuffley-Steel

s01

1.875

1.66

-4752.23

648

14 min

s10

1.25

0.80

Galtier

α

0.5

0.41

-4188.25

673

6 hr 52 min

s11

1.5

2.29

π

0.6

0.57

Huelsenbeck

α

0.5

0.46

-4070.79

648

6 hr 8 min

s01

1.875

1.89

s10

1.25

0.83

General

α

0.5

0.50

-4156.24

672

6 hr 26 min

s01

1.5

1.00

s10

2

1.35

s11

2.5

5.35

π

0.6

0.62