.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data45.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... . 439 patterns found. (out of a total of 500 sites) . 55 sites without polymorphism (11.00%). . 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=-10249.134706 . ( 2 sec) [ -10245.1148] [GTR parameters ] . ( 2 sec) [ -10243.8466] [Alpha ][ 0.889997] . ( 2 sec) [ -10243.8466] [Topology ] . ( 3 sec) [ -10164.4022] [Topology ] . ( 3 sec) [ -10138.0065] [Topology ] . ( 5 sec) [ -10131.1905] [Topology ] . ( 6 sec) [ -10129.1012] [Topology ] . ( 8 sec) [ -10128.1641] [Topology ] . ( 9 sec) [ -10127.6945] [Topology ] . ( 11 sec) [ -10127.4437] [Topology ] . ( 12 sec) [ -10127.3062] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10127.306184 . ( 23 sec) [ -10127.0631] [GTR parameters ] . ( 23 sec) [ -10126.8625] [Alpha ][ 0.929574] . ( 23 sec) [ -10126.8625] [Topology ] . ( 24 sec) [ -10126.7541] [Topology ] . ( 25 sec) [ -10126.6997] [Topology ] . ( 27 sec) [ -10126.6700] [Topology ] . ( 28 sec) [ -10126.6535] [Topology ] . ( 29 sec) [ -10126.6444] [Topology ] . ( 30 sec) [ -10126.6392] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10126.639199 . ( 39 sec) [ -10126.6387] [GTR parameters ] . ( 39 sec) [ -10126.6362] [Alpha ][ 0.934120] . ( 39 sec) [ -10126.6362] [Topology ] . ( 40 sec) [ -10126.6329] [Topology ] . ( 42 sec) [ -10126.6311] [Topology ] . ( 43 sec) [ -10126.6301] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10126.630135 . ( 53 sec) [ -10126.6301] [GTR parameters ] . ( 53 sec) [ -10126.6301] [Alpha ][ 0.934120] . ( 53 sec) [ -10126.6301] [Topology ] . ( 54 sec) [ -10126.6295] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10126.629534. . Printing the most likely tree in file 'data45.phy_phyml_tree.txt'... . Time used 0h1m9s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo