.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data37.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... . 450 patterns found. (out of a total of 500 sites) . 49 sites without polymorphism (9.80%). . 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=-11647.550131 . ( 2 sec) [ -11644.9724] [GTR parameters ] . ( 2 sec) [ -11644.5594] [Alpha ][ 0.939814] . ( 2 sec) [ -11644.5594] [Topology ] . ( 4 sec) [ -11553.5851] [Topology ] . ( 5 sec) [ -11534.4428] [Topology ] . ( 6 sec) [ -11529.9584] [Topology ] . ( 7 sec) [ -11527.9639] [Topology ] . ( 8 sec) [ -11526.9049] [Topology ] . ( 9 sec) [ -11526.3062] [Topology ] . ( 10 sec) [ -11525.7263] [Topology ] . ( 11 sec) [ -11525.2686] [Topology ] . ( 13 sec) [ -11525.1291] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11525.057322 . ( 24 sec) [ -11525.0023] [GTR parameters ] . ( 24 sec) [ -11524.9751] [Alpha ][ 0.954125] . ( 24 sec) [ -11524.9751] [Topology ] . ( 25 sec) [ -11524.9319] [Topology ] . ( 26 sec) [ -11524.9078] [Topology ] . ( 27 sec) [ -11524.8939] [Topology ] . ( 29 sec) [ -11524.8857] [Topology ] . ( 30 sec) [ -11524.8809] [Topology ] . ( 31 sec) [ -11524.8780] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11524.878014 . ( 40 sec) [ -11524.8779] [GTR parameters ] . ( 40 sec) [ -11524.8779] [Alpha ][ 0.955079] . ( 40 sec) [ -11524.8779] [Topology ] . ( 41 sec) [ -11524.8761] [Topology ] . ( 43 sec) [ -11524.8751] [Topology ] . ( 44 sec) [ -11524.8745] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11524.874533 . ( 53 sec) [ -11524.8745] [GTR parameters ] . ( 53 sec) [ -11524.8745] [Alpha ][ 0.955079] . ( 54 sec) [ -11524.8745] [Topology ] . ( 55 sec) [ -11524.8742] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11524.874160. . Printing the most likely tree in file 'data37.phy_phyml_tree.txt'... . Time used 0h1m14s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo