.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data51.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... . 400 patterns found. (out of a total of 500 sites) . 96 sites without polymorphism (19.20%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 8Mo of memory space. . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-8457.231258 . ( 1 sec) [ -8451.4738] [GTR parameters ] . ( 1 sec) [ -8450.4220] [Alpha ][ 0.890232] . ( 1 sec) [ -8450.4220] [Topology ] . ( 2 sec) [ -8419.1973] [Topology ] . ( 2 sec) [ -8414.2934] [Topology ] . ( 3 sec) [ -8413.2941] [Topology ] . ( 4 sec) [ -8412.8931] [Topology ] . ( 5 sec) [ -8412.7066] [Topology ] . ( 5 sec) [ -8412.6141] [Topology ] . ( 6 sec) [ -8412.5670] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8412.566967 . ( 11 sec) [ -8412.5049] [GTR parameters ] . ( 11 sec) [ -8412.2671] [Alpha ][ 0.939211] . ( 11 sec) [ -8412.2671] [Topology ] . ( 12 sec) [ -8412.2237] [Topology ] . ( 13 sec) [ -8412.2037] [Topology ] . ( 14 sec) [ -8412.1936] [Topology ] . ( 14 sec) [ -8412.1885] [Topology ] . ( 15 sec) [ -8412.1858] [Topology ] . ( 16 sec) [ -8412.1844] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8412.184397 . ( 21 sec) [ -8412.1844] [GTR parameters ] . ( 21 sec) [ -8412.1835] [Alpha ][ 0.942233] . ( 21 sec) [ -8412.1835] [Topology ] . ( 22 sec) [ -8412.1826] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8412.182644 . ( 27 sec) [ -8412.1826] [GTR parameters ] . ( 27 sec) [ -8412.1826] [Alpha ][ 0.942233] . ( 27 sec) [ -8412.1826] [Topology ] . ( 28 sec) [ -8412.1822] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -8412.182208. . Printing the most likely tree in file 'data51.phy_phyml_tree.txt'... . Time used 0h0m38s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo