.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2879_70x800_2006.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... . 466 patterns found. (out of a total of 800 sites) . 405 sites without polymorphism (50.62%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 17Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 3 sec) [ -5870.6391] [GTR parameters ] . ( 3 sec) [ -5850.1279] [Alpha ][ 0.500960] . ( 3 sec) [ -5850.1279] [Topology ] . ( 5 sec) [ -5802.4192] [Topology ] . ( 6 sec) [ -5794.8150] [Topology ] . ( 8 sec) [ -5792.6224] [Topology ] . ( 10 sec) [ -5791.9272] [Topology ] . ( 11 sec) [ -5791.6644] [Topology ] . ( 12 sec) [ -5791.5565] [Topology ] . ( 14 sec) [ -5791.5112] [Topology ] . ( 15 sec) [ -5791.4918] [Topology ] . Checking for NNIs, optimizing five branches... . ( 25 sec) [ -5791.4140] [Topology ] . ( 26 sec) [ -5790.8079] [GTR parameters ] . ( 27 sec) [ -5789.8818] [Alpha ][ 0.567522] . ( 27 sec) [ -5789.8818] [Topology ] . ( 28 sec) [ -5789.8160] [Topology ] . ( 29 sec) [ -5789.7926] [Topology ] . ( 31 sec) [ -5789.7832] [Topology ] . ( 32 sec) [ -5789.7793] [Topology ] . ( 34 sec) [ -5789.7776] [Topology ] . ( 35 sec) [ -5789.7768] [Topology ] . Checking for NNIs, optimizing five branches... . ( 45 sec) [ -5789.7143] [Topology ] . ( 46 sec) [ -5789.7090] [GTR parameters ] . ( 46 sec) [ -5789.7079] [Alpha ][ 0.569973] . ( 46 sec) [ -5789.7079] [Topology ] . ( 48 sec) [ -5789.7000] [Topology ] . ( 49 sec) [ -5789.6938] [Topology ] . ( 50 sec) [ -5789.6880] [Topology ] . ( 52 sec) [ -5789.6824] [Topology ] . ( 53 sec) [ -5789.6770] [Topology ] . ( 55 sec) [ -5789.6720] [Topology ] . Checking for NNIs, optimizing five branches... . ( 65 sec) [ -5789.6719] [Topology ] . ( 65 sec) [ -5789.6709] [GTR parameters ] . ( 65 sec) [ -5789.6709] [Alpha ][ 0.569973] . ( 65 sec) [ -5789.6709] [Topology ] . ( 67 sec) [ -5789.6655] [Topology ] . ( 68 sec) [ -5789.6605] [Topology ] . ( 69 sec) [ -5789.6554] [Topology ] . ( 71 sec) [ -5789.6504] [Topology ] . ( 72 sec) [ -5789.6457] [Topology ] . ( 74 sec) [ -5789.6430] [Topology ] . Checking for NNIs, optimizing five branches... . ( 83 sec) [ -5789.6157] [Topology ] . ( 84 sec) [ -5789.6150] [GTR parameters ] . ( 84 sec) [ -5789.6150] [Alpha ][ 0.569973] . ( 84 sec) [ -5789.6150] [Topology ] . ( 85 sec) [ -5789.6140] [Topology ] . Checking for NNIs, optimizing five branches... . ( 95 sec) [ -5789.6140] [GTR parameters ] . ( 95 sec) [ -5789.6140] [Alpha ][ 0.569973] . ( 95 sec) [ -5789.6140] [Topology ] . ( 97 sec) [ -5789.6138] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5789.613810. . Printing the most likely tree in file 'nucleic_M2879_70x800_2006.phy_phyml_tree.txt'... . Time used 0h1m56s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 115.52user 0.00system 1:56.55elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps