.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data96.phy . Data type : dna . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : GTR . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Nucleotide equilibrium frequencies : empirical . Optimise tree topology : yes . Tree topology search : NNIs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 437 patterns found. (out of a total of 500 sites) . 57 sites without polymorphism (11.40%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-9376.938197 . ( 0 sec) [ -9375.7050] [GTR parameters ] . ( 0 sec) [ -9374.9931] [Alpha ][ 1.100032] . ( 0 sec) [ -9374.9931] [Topology ] . ( 1 sec) [ -9323.1811] [Topology ] . ( 2 sec) [ -9311.1208] [Topology ] . ( 3 sec) [ -9308.4117] [Topology ] . ( 3 sec) [ -9307.4202] [Topology ] . ( 4 sec) [ -9306.9793] [Topology ] . ( 5 sec) [ -9306.7594] [Topology ] . ( 6 sec) [ -9306.6429] [Topology ] . ( 7 sec) [ -9306.5784] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9306.578440 . ( 14 sec) [ -9306.5318] [GTR parameters ] . ( 14 sec) [ -9306.5244] [Alpha ][ 1.089431] . ( 14 sec) [ -9306.5244] [Topology ] . ( 15 sec) [ -9306.4867] [Topology ] . ( 16 sec) [ -9306.4652] [Topology ] . ( 17 sec) [ -9306.4527] [Topology ] . ( 18 sec) [ -9306.4453] [Topology ] . ( 18 sec) [ -9306.4408] [Topology ] . ( 19 sec) [ -9306.4381] [Topology ] . Checking for NNIs, optimizing five branches... . ( 26 sec) [ -9306.4353] [Topology ] . Before opt ts/t=1.000000 LK=-9306.435340 . ( 26 sec) [ -9306.4353] [GTR parameters ] . ( 26 sec) [ -9306.4352] [Alpha ][ 1.087965] . ( 26 sec) [ -9306.4352] [Topology ] . ( 27 sec) [ -9306.4345] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -9306.434540. . Printing the most likely tree in file 'data96.phy_phyml_tree.txt'... . Time used 0h0m41s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo