likelihood computation only, with gamma and alpha optimiziation
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# SEMPHY: A Structural EM Algorithm for Phylogenetic Inference  #
# for information, please send email to semphy@cs.huji.ac.il    #
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# Best alpha after branch length optimiziation
1.41967
# The likelihood of the tree
-1035.86
# Best alpha after branch length optimiziation
1.41967
# The likelihood of the tree
-1035.86
# The log likelihood of the tree is:
-1035.86
-1035.86
# The tree
(((Langur:0.083589,Baboon:0.032831):0.018610,Human:0.068043):0.003896,Rat:0.334485,(Cow:0.262984,Horse:0.803845):0.113608);