.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data46.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... . 436 patterns found. (out of a total of 500 sites) . 62 sites without polymorphism (12.40%). . 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=-10431.263771 . ( 1 sec) [ -10427.9988] [GTR parameters ] . ( 1 sec) [ -10427.3751] [Alpha ][ 0.921352] . ( 1 sec) [ -10427.3751] [Topology ] . ( 2 sec) [ -10366.0401] [Topology ] . ( 3 sec) [ -10358.1689] [Topology ] . ( 4 sec) [ -10355.5306] [Topology ] . ( 5 sec) [ -10353.9275] [Topology ] . ( 6 sec) [ -10353.3427] [Topology ] . ( 7 sec) [ -10353.0657] [Topology ] . ( 8 sec) [ -10352.9283] [Topology ] . ( 9 sec) [ -10352.8601] [Topology ] . ( 10 sec) [ -10352.8259] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10352.825858 . ( 20 sec) [ -10352.7481] [GTR parameters ] . ( 20 sec) [ -10352.5836] [Alpha ][ 0.959089] . ( 21 sec) [ -10352.5836] [Topology ] . ( 21 sec) [ -10352.5521] [Topology ] . ( 22 sec) [ -10352.5389] [Topology ] . ( 24 sec) [ -10352.5323] [Topology ] . ( 25 sec) [ -10352.5289] [Topology ] . ( 26 sec) [ -10352.5271] [Topology ] . ( 27 sec) [ -10352.5261] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10352.526138 . ( 37 sec) [ -10352.5259] [GTR parameters ] . ( 37 sec) [ -10352.5246] [Alpha ][ 0.962592] . ( 37 sec) [ -10352.5246] [Topology ] . ( 38 sec) [ -10352.5240] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10352.523974 . ( 47 sec) [ -10352.5239] [GTR parameters ] . ( 47 sec) [ -10352.5239] [Alpha ][ 0.962592] . ( 47 sec) [ -10352.5239] [Topology ] . ( 48 sec) [ -10352.5236] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10352.523643. . Printing the most likely tree in file 'data46.phy_phyml_tree.txt'... . Time used 0h1m5s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo