.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data95.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... . 415 patterns found. (out of a total of 500 sites) . 84 sites without polymorphism (16.80%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-9320.302500 . ( 1 sec) [ -9318.8428] [GTR parameters ] . ( 1 sec) [ -9318.8360] [Alpha ][ 0.990367] . ( 1 sec) [ -9318.8360] [Topology ] . ( 3 sec) [ -9296.9484] [Topology ] . ( 5 sec) [ -9293.9800] [Topology ] . ( 6 sec) [ -9293.0792] [Topology ] . ( 7 sec) [ -9292.6952] [Topology ] . ( 8 sec) [ -9292.5629] [Topology ] . ( 8 sec) [ -9292.5022] [Topology ] . ( 9 sec) [ -9292.4726] [Topology ] . ( 10 sec) [ -9292.4579] [Topology ] . ( 11 sec) [ -9292.4506] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9292.450570 . ( 17 sec) [ -9292.4042] [GTR parameters ] . ( 17 sec) [ -9292.1729] [Alpha ][ 1.044231] . ( 17 sec) [ -9292.1729] [Topology ] . ( 18 sec) [ -9292.1519] [Topology ] . ( 20 sec) [ -9292.1433] [Topology ] . ( 21 sec) [ -9292.1392] [Topology ] . ( 22 sec) [ -9292.1372] [Topology ] . ( 23 sec) [ -9292.1362] [Topology ] . ( 24 sec) [ -9292.1357] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9292.135669 . ( 33 sec) [ -9292.1352] [GTR parameters ] . ( 33 sec) [ -9292.1336] [Alpha ][ 1.048822] . ( 33 sec) [ -9292.1336] [Topology ] . ( 34 sec) [ -9292.1332] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9292.133168 . ( 43 sec) [ -9292.1332] [GTR parameters ] . ( 43 sec) [ -9292.1332] [Alpha ][ 1.048822] . ( 43 sec) [ -9292.1332] [Topology ] . ( 44 sec) [ -9292.1330] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -9292.132960. . Printing the most likely tree in file 'data95.phy_phyml_tree.txt'... . Time used 0h0m59s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo