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Table 3 Alignment Length Simulations. Results of the simulated datasets for alignments of 100, 500, and 1000 characters in length. Each entry is the number of times out of 100 replicates the correct model was selected by each measure (using the default NJ-JTT base tree).

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

  100 500 1000
Model AIC1 AIC2 BIC AIC1 AIC2 BIC AIC1 AIC2 BIC
Blosum 86 96 95 91 98 99 94 99 100
Blosum+I 95 100 95 94 99 100 98 100 100
Blosum+G 89 95 95 75 83 87 79 85 88
Blosum+I+G 44 30 30 90 88 87 95 95 94
CPREV 92 99 99 92 99 100 95 100 100
CPREV+I 94 100 100 98 99 99 99 99 100
CPREV+G 87 99 98 89 89 90 91 96 97
CPREV+I+G 51 37 37 80 75 73 95 94 94
Dayhoff 92 99 99 95 100 100 93 99 100
Dayhoff+I 94 100 100 98 100 100 96 100 100
Dayhoff+G 83 93 93 77 86 90 94 94 95
Dayhoff+I+G 54 35 38 82 74 74 95 92 91
JTT 95 98 98 94 99 100 93 98 100
JTT+I 95 99 98 96 100 100 96 100 100
JTT+G 87 94 94 78 85 86 91 91 93
JTT+I+G 48 36 40 89 85 82 96 95 94
MtREV 95 98 98 85 96 97 91 97 97
MtREV+I 97 100 100 92 99 100 97 100 100
MtREV+G 86 97 97 92 94 95 92 95 96
MtREV+I+G 29 17 17 68 65 61 87 85 83
WAG 91 97 96 88 97 99 97 98 100
WAG+I 94 100 99 98 100 100 97 99 100
WAG+G 85 95 93 83 89 89 86 95 95
WAG+I+G 50 34 36 79 73 69 97 96 94