.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data56.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... . 403 patterns found. (out of a total of 500 sites) . 86 sites without polymorphism (17.20%). . 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=-8289.945444 . ( 0 sec) [ -8288.3499] [GTR parameters ] . ( 0 sec) [ -8288.3411] [Alpha ][ 0.988651] . ( 0 sec) [ -8288.3411] [Topology ] . ( 1 sec) [ -8244.1423] [Topology ] . ( 2 sec) [ -8236.4087] [Topology ] . ( 3 sec) [ -8234.2678] [Topology ] . ( 3 sec) [ -8233.3628] [Topology ] . ( 4 sec) [ -8232.9429] [Topology ] . ( 5 sec) [ -8232.6466] [Topology ] . ( 6 sec) [ -8232.4177] [Topology ] . ( 7 sec) [ -8232.3566] [Topology ] . ( 7 sec) [ -8232.3295] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8232.316719 . ( 14 sec) [ -8232.2915] [GTR parameters ] . ( 14 sec) [ -8232.2787] [Alpha ][ 1.001505] . ( 14 sec) [ -8232.2787] [Topology ] . ( 15 sec) [ -8232.2703] [Topology ] . ( 15 sec) [ -8232.2664] [Topology ] . ( 16 sec) [ -8232.2645] [Topology ] . ( 17 sec) [ -8232.2636] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8232.263567 . ( 23 sec) [ -8232.2635] [GTR parameters ] . ( 23 sec) [ -8232.2634] [Alpha ][ 1.002599] . ( 23 sec) [ -8232.2634] [Topology ] . ( 23 sec) [ -8232.2629] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -8232.262930. . Printing the most likely tree in file 'data56.phy_phyml_tree.txt'... . Time used 0h0m40s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo