.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data63.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... . 407 patterns found. (out of a total of 500 sites) . 77 sites without polymorphism (15.40%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 8Mo of memory space. . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-8115.972555 . ( 1 sec) [ -8113.9827] [GTR parameters ] . ( 1 sec) [ -8113.8648] [Alpha ][ 1.041976] . ( 1 sec) [ -8113.8648] [Topology ] . ( 2 sec) [ -8081.6555] [Topology ] . ( 3 sec) [ -8076.8135] [Topology ] . ( 4 sec) [ -8075.2238] [Topology ] . ( 5 sec) [ -8074.5381] [Topology ] . ( 5 sec) [ -8074.2089] [Topology ] . ( 6 sec) [ -8074.0419] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8074.041867 . ( 14 sec) [ -8074.0065] [GTR parameters ] . ( 14 sec) [ -8073.9835] [Alpha ][ 1.024630] . ( 14 sec) [ -8073.9835] [Topology ] . ( 15 sec) [ -8073.8911] [Topology ] . ( 16 sec) [ -8073.8417] [Topology ] . ( 17 sec) [ -8073.8141] [Topology ] . ( 18 sec) [ -8073.7984] [Topology ] . ( 19 sec) [ -8073.7893] [Topology ] . ( 20 sec) [ -8073.7839] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8073.783940 . ( 27 sec) [ -8073.7837] [GTR parameters ] . ( 27 sec) [ -8073.7832] [Alpha ][ 1.021692] . ( 27 sec) [ -8073.7832] [Topology ] . ( 28 sec) [ -8073.7798] [Topology ] . ( 29 sec) [ -8073.7777] [Topology ] . ( 30 sec) [ -8073.7764] [Topology ] . ( 31 sec) [ -8073.7756] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8073.775626 . ( 37 sec) [ -8073.7756] [GTR parameters ] . ( 38 sec) [ -8073.7756] [Alpha ][ 1.021692] . ( 38 sec) [ -8073.7756] [Topology ] . ( 39 sec) [ -8073.7751] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -8073.775106. . Printing the most likely tree in file 'data63.phy_phyml_tree.txt'... . Time used 0h0m53s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo