.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data73.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... . 372 patterns found. (out of a total of 500 sites) . 117 sites without polymorphism (23.40%). . 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=-6901.023459 . ( 1 sec) [ -6897.4830] [GTR parameters ] . ( 1 sec) [ -6896.2294] [Alpha ][ 0.867784] . ( 1 sec) [ -6896.2294] [Topology ] . ( 2 sec) [ -6854.9826] [Topology ] . ( 3 sec) [ -6848.5129] [Topology ] . ( 4 sec) [ -6847.5405] [Topology ] . ( 5 sec) [ -6847.1551] [Topology ] . ( 5 sec) [ -6846.9790] [Topology ] . ( 6 sec) [ -6846.8982] [Topology ] . ( 7 sec) [ -6846.8629] [Topology ] . ( 8 sec) [ -6846.8473] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-6846.847277 . ( 17 sec) [ -6846.7912] [GTR parameters ] . ( 18 sec) [ -6846.6948] [Alpha ][ 0.900748] . ( 18 sec) [ -6846.6948] [Topology ] . ( 19 sec) [ -6846.6778] [Topology ] . ( 20 sec) [ -6846.6709] [Topology ] . ( 21 sec) [ -6846.6678] [Topology ] . ( 22 sec) [ -6846.6664] [Topology ] . ( 23 sec) [ -6846.6657] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-6846.665678 . ( 31 sec) [ -6846.6656] [GTR parameters ] . ( 31 sec) [ -6846.6648] [Alpha ][ 0.903758] . ( 31 sec) [ -6846.6648] [Topology ] . ( 32 sec) [ -6846.6644] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-6846.664389 . ( 39 sec) [ -6846.6644] [GTR parameters ] . ( 39 sec) [ -6846.6644] [Alpha ][ 0.903758] . ( 39 sec) [ -6846.6644] [Topology ] . ( 40 sec) [ -6846.6642] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6846.664201. . Printing the most likely tree in file 'data73.phy_phyml_tree.txt'... . Time used 0h0m55s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo