.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2974_56x827_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... . 330 patterns found. (out of a total of 827 sites) . 592 sites without polymorphism (71.58%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 10Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -5728.9072] [GTR parameters ] . ( 2 sec) [ -5606.6718] [Alpha ][ 0.500960] . ( 2 sec) [ -5606.6718] [Topology ] . ( 2 sec) [ -5510.2825] [Topology ] . ( 3 sec) [ -5499.3079] [Topology ] . ( 4 sec) [ -5491.5808] [Topology ] . ( 5 sec) [ -5489.3486] [Topology ] . ( 6 sec) [ -5488.5977] [Topology ] . ( 6 sec) [ -5488.4658] [Topology ] . ( 7 sec) [ -5488.4264] [Topology ] . ( 8 sec) [ -5488.4137] [Topology ] . ( 9 sec) [ -5488.4094] [Topology ] . Checking for NNIs, optimizing five branches... . ( 15 sec) [ -5488.3977] [Topology ] . ( 16 sec) [ -5487.6246] [GTR parameters ] . ( 16 sec) [ -5400.5669] [Alpha ][ 0.250961] . ( 16 sec) [ -5400.5669] [Topology ] . ( 17 sec) [ -5400.1158] [Topology ] . ( 17 sec) [ -5400.0577] [Topology ] . ( 18 sec) [ -5400.0430] [Topology ] . ( 19 sec) [ -5400.0386] [Topology ] . ( 20 sec) [ -5400.0372] [Topology ] . ( 20 sec) [ -5400.0368] [Topology ] . Checking for NNIs, optimizing five branches... . ( 27 sec) [ -5399.3839] [GTR parameters ] . ( 27 sec) [ -5384.6965] [Alpha ][ 0.172277] . ( 27 sec) [ -5384.6965] [Topology ] . ( 27 sec) [ -5384.4114] [Topology ] . ( 28 sec) [ -5384.3536] [Topology ] . ( 29 sec) [ -5384.3367] [Topology ] . ( 30 sec) [ -5384.3312] [Topology ] . ( 30 sec) [ -5384.3293] [Topology ] . ( 31 sec) [ -5384.3287] [Topology ] . Checking for NNIs, optimizing five branches... . ( 37 sec) [ -5384.2239] [GTR parameters ] . ( 37 sec) [ -5384.1911] [Alpha ][ 0.169387] . ( 37 sec) [ -5384.1911] [Topology ] . ( 38 sec) [ -5384.1899] [Topology ] . ( 39 sec) [ -5384.1896] [Topology ] . Checking for NNIs, optimizing five branches... . ( 45 sec) [ -5384.1893] [GTR parameters ] . ( 45 sec) [ -5384.1892] [Alpha ][ 0.169217] . ( 45 sec) [ -5384.1892] [Topology ] . ( 45 sec) [ -5384.1891] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5384.189132. . Printing the most likely tree in file 'nucleic_M2974_56x827_2006.phy_phyml_tree.txt'... . Time used 0h0m57s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 55.93user 0.00system 0:57.08elapsed 97%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps