.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data98.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... . 427 patterns found. (out of a total of 500 sites) . 71 sites without polymorphism (14.20%). . 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=-8768.396920 . ( 1 sec) [ -8765.3410] [GTR parameters ] . ( 1 sec) [ -8763.4873] [Alpha ][ 1.174574] . ( 1 sec) [ -8763.4873] [Topology ] . ( 1 sec) [ -8706.9612] [Topology ] . ( 2 sec) [ -8694.4275] [Topology ] . ( 3 sec) [ -8691.9231] [Topology ] . ( 4 sec) [ -8691.1687] [Topology ] . ( 5 sec) [ -8690.8831] [Topology ] . ( 6 sec) [ -8690.7542] [Topology ] . ( 6 sec) [ -8690.6895] [Topology ] . Checking for NNIs, optimizing five branches... . ( 13 sec) [ -8690.1883] [Topology ] . Before opt ts/t=1.000000 LK=-8690.188347 . ( 13 sec) [ -8690.1757] [GTR parameters ] . ( 14 sec) [ -8690.1739] [Alpha ][ 1.168506] . ( 14 sec) [ -8690.1739] [Topology ] . ( 14 sec) [ -8690.1317] [Topology ] . ( 15 sec) [ -8690.1094] [Topology ] . ( 16 sec) [ -8690.0966] [Topology ] . ( 17 sec) [ -8690.0892] [Topology ] . ( 18 sec) [ -8690.0847] [Topology ] . ( 18 sec) [ -8690.0821] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8690.082072 . ( 25 sec) [ -8690.0819] [GTR parameters ] . ( 25 sec) [ -8690.0818] [Alpha ][ 1.169955] . ( 25 sec) [ -8690.0818] [Topology ] . ( 26 sec) [ -8690.0802] [Topology ] . ( 27 sec) [ -8690.0792] [Topology ] . ( 28 sec) [ -8690.0785] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8690.078535 . ( 34 sec) [ -8690.0785] [GTR parameters ] . ( 34 sec) [ -8690.0785] [Alpha ][ 1.169955] . ( 34 sec) [ -8690.0785] [Topology ] . ( 35 sec) [ -8690.0781] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -8690.078147. . Printing the most likely tree in file 'data98.phy_phyml_tree.txt'... . Time used 0h0m48s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo