.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data14.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... . 387 patterns found. (out of a total of 500 sites) . 105 sites without polymorphism (21.00%). . 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=-7395.141666 . ( 1 sec) [ -7393.3350] [GTR parameters ] . ( 1 sec) [ -7393.1441] [Alpha ][ 0.947123] . ( 1 sec) [ -7393.1441] [Topology ] . ( 3 sec) [ -7351.5864] [Topology ] . ( 3 sec) [ -7345.3795] [Topology ] . ( 4 sec) [ -7343.3033] [Topology ] . ( 5 sec) [ -7342.8241] [Topology ] . ( 6 sec) [ -7342.6261] [Topology ] . ( 6 sec) [ -7342.5346] [Topology ] . ( 7 sec) [ -7342.4901] [Topology ] . ( 8 sec) [ -7342.4678] [Topology ] . ( 9 sec) [ -7342.4564] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-7342.456420 . ( 16 sec) [ -7342.4419] [GTR parameters ] . ( 16 sec) [ -7342.4218] [Alpha ][ 0.963635] . ( 16 sec) [ -7342.4218] [Topology ] . ( 17 sec) [ -7342.4135] [Topology ] . ( 18 sec) [ -7342.4095] [Topology ] . ( 19 sec) [ -7342.4075] [Topology ] . ( 20 sec) [ -7342.4065] [Topology ] . ( 22 sec) [ -7342.4060] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-7342.405994 . ( 30 sec) [ -7342.4060] [GTR parameters ] . ( 30 sec) [ -7342.4058] [Alpha ][ 0.965001] . ( 30 sec) [ -7342.4058] [Topology ] . ( 31 sec) [ -7342.4055] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7342.405517. . Printing the most likely tree in file 'data14.phy_phyml_tree.txt'... . Time used 0h0m46s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo