Table 5.
AIC values of the present models with the respective selective constraints on amino acids, 
, 
, 
, and 
, for the various 1-PAM substitution matrices.
| #parameters |
b
|
c
|
||||||
| Model name | #parameters (id no.a) | JTT | WAG | LG | cpREV | mtREV | KHG (amino acid) | KHG (codon) |
| JTT-ML91+− | ||||||||
| 0 | 20 | 2657.5 | 20807.0 | 461.7 | 426.0 | |||
| 1 | 21(14) | 2065.1 | 20382.6 | 433.9 | 424.4 | |||
| 4 | 24(1–3,14) | 1773.7 | 16148.3 | 439.2 | 401.9 | |||
| 7 | 27(1–3,8–10,14) | 1257.8 | 12330.2 | 303.4 | 295.5 | |||
| 11 | 31(1–10,14) | 1152.9 | 12140.0 | 291.5 | 286.5 | 40931 | ||
| 12 | 32(0–10,14) | 473668 | ||||||
| WAG-ML91+− | ||||||||
| 0 | 20 | 9095.4 | 10537.3 | 316.2 | 535.1 | |||
| 1 | 21(14) | 8928.9 | 9196.3 | 317.1 | 532.8 | |||
| 4 | 24(1–3,14) | 6274.9 | 6354.9 | 281.4 | 414.0 | |||
| 7 | 27(1–3,8–10,14) | 3658.3 | 5294.9 | 261.6 | 383.6 | |||
| 11 | 31(1–10,14) | 3299.2 | 4813.3 | 259.1 | 365.1 | 12789 | ||
| 12 | 32(0–10,14) | 496804 | ||||||
| LG-ML91+− | ||||||||
| 0 | 20 | 13669.8 | 1806.0 | 487.1 | 593.4 | |||
| 1 | 21(14) | 12176.2 | 1188.8 | 421.4 | 558.0 | |||
| 4 | 24(1–3,14) | 6325.7 | 811.6 | 340.6 | 391.6 | |||
| 7 | 27(1–3,8–10,14) | 3983.0 | 636.0 | 267.0 | 329.8 | |||
| 11 | 31(1–10,14) | 3878.5 | 574.7 | 267.1 | 314.9 | 5732 | ||
| 12 | 32(0–10,14) | 436557 | ||||||
| KHG-ML200- | ||||||||
| 0 | 20 | 15063.5 | 953.4 | 12568.9 | 403.6 | 593.6 | ||
| 1 | 21(14) | 15078.6 | 955.4 | 12570.9 | 405.6 | 595.6 | ||
| 4 | 24(1–3,14) | 6398.0 | 540.7 | 5683.3 | 297.4 | 399.3 | ||
| 7 | 27(1–3,8–10,14) | 4611.5 | 533.4 | 3804.2 | 259.9 | 358.0 | ||
| 11 | 31(1–10,14) | 4429.9 | 518.7 | 3006.1 | 251.7 | 334.1 | ||
aParameter id numbers in the parenthesis mean ML parameters in each model and other parameters except for 
and 
are fixed to the value of the corresponding parameter listed in the column of the ML-91 or the ML-200 in Table 3; each id number corresponds to the parameter id number listed in Table 3.
b
#parameters with 
for JTT, 
for WAG, 
for LG, 
for cpREV, and 
for mtREV; see text for details.
c
for the KHG-derived amino acid substitution probability matrix, and 
for the KHG codon substitution probability matrix; see text for details.