.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2733_60x1207_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... . 564 patterns found. (out of a total of 1207 sites) . 771 sites without polymorphism (63.88%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 18Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 2 sec) [ -11527.8412] [GTR parameters ] . ( 2 sec) [ -11290.9171] [Alpha ][ 0.500960] . ( 2 sec) [ -11290.9171] [Topology ] . ( 3 sec) [ -11117.8710] [Topology ] . ( 5 sec) [ -11094.1516] [Topology ] . ( 6 sec) [ -11082.0348] [Topology ] . ( 7 sec) [ -11077.9788] [Topology ] . ( 9 sec) [ -11076.4776] [Topology ] . ( 10 sec) [ -11076.4553] [Topology ] . ( 12 sec) [ -11075.8479] [Topology ] . ( 13 sec) [ -11076.2332] [Topology ] . Moving backward . ( 13 sec) [ -11075.1093] [Topology ] . ( 15 sec) [ -11068.4643] [GTR parameters ] . ( 16 sec) [ -10959.7071] [Alpha ][ 0.250961] . ( 16 sec) [ -10959.7071] [Topology ] . ( 17 sec) [ -10957.4372] [Topology ] . ( 18 sec) [ -10954.7582] [Topology ] . ( 20 sec) [ -10953.6852] [Topology ] . ( 21 sec) [ -10953.4971] [Topology ] . ( 23 sec) [ -10953.4414] [Topology ] . ( 24 sec) [ -10953.4210] [Topology ] . ( 26 sec) [ -10953.4130] [Topology ] . ( 27 sec) [ -10953.4098] [Topology ] . Checking for NNIs, optimizing five branches... . ( 39 sec) [ -10951.3573] [GTR parameters ] . ( 39 sec) [ -10948.0561] [Alpha ][ 0.220954] . ( 39 sec) [ -10948.0561] [Topology ] . ( 41 sec) [ -10947.8648] [Topology ] . ( 42 sec) [ -10947.8045] [Topology ] . ( 43 sec) [ -10947.7823] [Topology ] . ( 45 sec) [ -10947.7737] [Topology ] . ( 46 sec) [ -10947.7704] [Topology ] . ( 48 sec) [ -10947.7691] [Topology ] . Checking for NNIs, optimizing five branches... . ( 59 sec) [ -10947.6913] [GTR parameters ] . ( 59 sec) [ -10947.6238] [Alpha ][ 0.217056] . ( 59 sec) [ -10947.6238] [Topology ] . ( 61 sec) [ -10947.6183] [Topology ] . ( 62 sec) [ -10947.6165] [Topology ] . ( 64 sec) [ -10947.6159] [Topology ] . Checking for NNIs, optimizing five branches... . ( 75 sec) [ -10947.6141] [GTR parameters ] . ( 75 sec) [ -10947.6123] [Alpha ][ 0.216373] . ( 75 sec) [ -10947.6123] [Topology ] . ( 76 sec) [ -10947.6117] [Topology ] . Checking for NNIs, optimizing five branches... . ( 88 sec) [ -10947.6116] [GTR parameters ] . ( 88 sec) [ -10947.6116] [Alpha ][ 0.216373] . ( 88 sec) [ -10947.6116] [Topology ] . ( 89 sec) [ -10947.6114] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10947.611398. . Printing the most likely tree in file 'nucleic_M2733_60x1207_2006.phy_phyml_tree.txt'... . Time used 0h1m52s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 110.96user 0.00system 1:52.54elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps