.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2902_51x908_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 . 1 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . 467 patterns found. (out of a total of 908 sites) . 480 sites without polymorphism (52.86%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 12Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 2 sec) [ -7873.6472] [GTR parameters ] . ( 2 sec) [ -7790.9479] [Alpha ][ 0.500960] . ( 2 sec) [ -7790.9479] [Topology ] . ( 3 sec) [ -7695.8151] [Topology ] . ( 4 sec) [ -7654.2234] [Topology ] . ( 5 sec) [ -7635.8857] [Topology ] . ( 6 sec) [ -7621.9400] [Topology ] . ( 7 sec) [ -7616.0972] [Topology ] . ( 8 sec) [ -7614.9800] [Topology ] . ( 9 sec) [ -7614.7148] [Topology ] . ( 10 sec) [ -7614.5517] [Topology ] . ( 11 sec) [ -7613.9240] [Topology ] . Checking for NNIs, optimizing five branches... . ( 20 sec) [ -7608.2048] [GTR parameters ] . ( 20 sec) [ -7600.3742] [Alpha ][ 0.381413] . ( 20 sec) [ -7600.3742] [Topology ] . ( 21 sec) [ -7595.2839] [Topology ] . ( 22 sec) [ -7593.6950] [Topology ] . ( 23 sec) [ -7593.3087] [Topology ] . ( 24 sec) [ -7593.2116] [Topology ] . ( 25 sec) [ -7593.1863] [Topology ] . ( 26 sec) [ -7593.1793] [Topology ] . Checking for NNIs, optimizing five branches... . ( 33 sec) [ -7593.1100] [GTR parameters ] . ( 33 sec) [ -7593.1097] [Alpha ][ 0.382068] . ( 33 sec) [ -7593.1097] [Topology ] . ( 34 sec) [ -7593.1069] [Topology ] . ( 35 sec) [ -7593.1060] [Topology ] . Checking for NNIs, optimizing five branches... . ( 43 sec) [ -7593.1060] [GTR parameters ] . ( 43 sec) [ -7593.1060] [Alpha ][ 0.382068] . ( 43 sec) [ -7593.1060] [Topology ] . ( 44 sec) [ -7593.1057] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7593.105691. . Printing the most likely tree in file 'nucleic_M2902_51x908_2006.phy_phyml_tree.txt'... . Time used 0h0m59s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 56.86user 0.00system 0:59.12elapsed 96%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps