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AAML (in paml version 4.7, January 2013) ../Alignments/aa_alignment.phylip
Model: Poisson for branches, ns = 5 ls = 74
Frequencies..
A R N D C Q E G H I L K M F P S T W Y V
Homo_sapie 0.00000 0.04054 0.02703 0.08108 0.04054 0.01351 0.16216 0.05405 0.00000 0.05405 0.09459 0.13514 0.04054 0.01351 0.05405 0.04054 0.02703 0.00000 0.01351 0.10811
Pan_troglo 0.00000 0.04054 0.02703 0.08108 0.04054 0.01351 0.16216 0.05405 0.00000 0.05405 0.09459 0.13514 0.04054 0.01351 0.05405 0.04054 0.02703 0.00000 0.01351 0.10811
Gorilla_go 0.00000 0.04054 0.02703 0.08108 0.04054 0.01351 0.16216 0.05405 0.00000 0.05405 0.09459 0.13514 0.04054 0.01351 0.05405 0.04054 0.02703 0.00000 0.01351 0.10811
Pongo_pygm 0.00000 0.04054 0.02703 0.08108 0.04054 0.01351 0.16216 0.05405 0.00000 0.05405 0.09459 0.13514 0.04054 0.01351 0.05405 0.04054 0.02703 0.00000 0.01351 0.10811
Macaca_mul 0.00000 0.04054 0.02703 0.08108 0.04054 0.01351 0.16216 0.05405 0.00000 0.05405 0.09459 0.13514 0.04054 0.01351 0.05405 0.04054 0.02703 0.00000 0.01351 0.10811
Homogeneity statistic: X2 = 0.00000 G = 0.00000
Average 0.00000 0.04054 0.02703 0.08108 0.04054 0.01351 0.16216 0.05405 0.00000 0.05405 0.09459 0.13514 0.04054 0.01351 0.05405 0.04054 0.02703 0.00000 0.01351 0.10811
# constant sites: 74 (100.00%)
ln Lmax (unconstrained) = -192.057157
AA distances (raw proportions of different sites)
Homo_sapie
Pan_troglo 0.0000
Gorilla_go 0.0000 0.0000
Pongo_pygm 0.0000 0.0000 0.0000
Macaca_mul 0.0000 0.0000 0.0000 0.0000
Printing out site pattern counts
5 1 P
Homo_sapie A
Pan_troglo A
Gorilla_go A
Pongo_pygm A
Macaca_mul A
74
ML distances of aa seqs.
Homo_sapie
Pan_troglo 0.0000
Gorilla_go 0.0000 0.0000
Pongo_pygm 0.0000 0.0000 0.0000
Macaca_mul 0.0000 0.0000 0.0000 0.0000
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