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Table 5 Amino Acid Frequency Simulations. Results of the simulated datasets where the original amino acid frequencies are randomly perturbed by up to 10% from the original values and the alignment length is 500 characters. Each entry indicates the number of times out of 100 replicates the correct model was selected by each measure.

From: Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified

Model

AIC1

AIC2

BIC

Model

AIC1

AIC2

BIC

Blosum+F

94

100

100

JTT+F

93

100

100

Blosum+I+F

71

91

95

JTT+I+F

67

89

94

Blosum+G+F

86

93

96

JTT+G+F

75

89

92

Blosum+I+G+F

99

97

96

JTT+I+G+F

98

96

96

CPREV+F

92

100

100

MtREV+F

93

99

99

CPREV+I+F

87

98

99

MtREV+I+F

86

96

99

CPREV+G+F

93

96

97

MtREV+G+F

86

93

95

CPREV+I+G+F

89

87

84

MtREV+I+G+F

85

82

80

Dayhoff+F

93

99

99

WAG+F

95

100

100

Dayhoff+I+F

91

98

99

WAG+I+F

82

96

97

Dayhoff+G+F

86

93

96

WAG+G+F

88

95

96

Dayhoff+I+G+F

99

97

96

WAG+I+G+F

90

89

89