.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2954_5x1006_2006.phy . Data type : aa . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 100 . Compute approximate likelihood ratio test : no . Model name : LG . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : 0.500000 . 'Middle' of each rate class : mean . Amino acid equilibrium frequencies : model . Optimise tree topology : yes . Tree topology search : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : no . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 85 patterns found. (out of a total of 1006 sites) . 959 sites without polymorphism (95.33%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 1Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -3237.7020] [Branch lengths ] . ( 1 sec) [ -3237.7020] [Topology ] . ( 1 sec) [ -3237.6994] [Topology ] . ( 1 sec) [ -3237.6991] [Topology ] . ( 1 sec) [ -3237.6991] [Topology ] . ( 1 sec) [ -3237.6986] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -3237.698633. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 118.586707 1.000000 0.024916 92 4.843595 0.785000 0.001777 . Printing the most likely tree in file 'proteic_M2954_5x1006_2006.phy_phyml_tree.txt'... . Time used 0h2m9s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo