.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data18.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... . 417 patterns found. (out of a total of 500 sites) . 78 sites without polymorphism (15.60%). . 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=-8350.364615 . ( 1 sec) [ -8348.2932] [GTR parameters ] . ( 1 sec) [ -8348.1523] [Alpha ][ 1.044806] . ( 1 sec) [ -8348.1523] [Topology ] . ( 2 sec) [ -8296.9542] [Topology ] . ( 3 sec) [ -8286.8915] [Topology ] . ( 4 sec) [ -8284.3275] [Topology ] . ( 5 sec) [ -8282.5314] [Topology ] . ( 6 sec) [ -8282.0722] [Topology ] . ( 7 sec) [ -8281.8788] [Topology ] . ( 8 sec) [ -8281.7891] [Topology ] . ( 9 sec) [ -8281.7461] [Topology ] . ( 10 sec) [ -8281.7251] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8281.725051 . ( 19 sec) [ -8281.6764] [GTR parameters ] . ( 19 sec) [ -8281.6695] [Alpha ][ 1.034679] . ( 19 sec) [ -8281.6695] [Topology ] . ( 19 sec) [ -8281.6579] [Topology ] . ( 20 sec) [ -8281.6524] [Topology ] . ( 21 sec) [ -8281.6496] [Topology ] . ( 22 sec) [ -8281.6482] [Topology ] . ( 23 sec) [ -8281.6475] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8281.647510 . ( 29 sec) [ -8281.6474] [GTR parameters ] . ( 29 sec) [ -8281.6474] [Alpha ][ 1.034679] . ( 29 sec) [ -8281.6474] [Topology ] . ( 30 sec) [ -8281.6470] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -8281.646982. . Printing the most likely tree in file 'data18.phy_phyml_tree.txt'... . Time used 0h0m45s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo