.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data66.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... . 442 patterns found. (out of a total of 500 sites) . 56 sites without polymorphism (11.20%). . 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=-10526.728407 . ( 0 sec) [ -10524.4761] [GTR parameters ] . ( 1 sec) [ -10524.4715] [Alpha ][ 0.992621] . ( 1 sec) [ -10524.4715] [Topology ] . ( 1 sec) [ -10465.5610] [Topology ] . ( 3 sec) [ -10455.2547] [Topology ] . ( 4 sec) [ -10452.8768] [Topology ] . ( 6 sec) [ -10452.0332] [Topology ] . ( 7 sec) [ -10451.6737] [Topology ] . ( 8 sec) [ -10451.5056] [Topology ] . ( 9 sec) [ -10451.4234] [Topology ] . ( 10 sec) [ -10451.3821] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10451.382088 . ( 20 sec) [ -10451.3223] [GTR parameters ] . ( 20 sec) [ -10451.1965] [Alpha ][ 1.029002] . ( 20 sec) [ -10451.1965] [Topology ] . ( 22 sec) [ -10451.1604] [Topology ] . ( 23 sec) [ -10451.1442] [Topology ] . ( 24 sec) [ -10451.1360] [Topology ] . ( 25 sec) [ -10451.1319] [Topology ] . ( 26 sec) [ -10451.1297] [Topology ] . ( 28 sec) [ -10451.1286] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10451.128613 . ( 38 sec) [ -10451.1286] [GTR parameters ] . ( 38 sec) [ -10451.1276] [Alpha ][ 1.032220] . ( 38 sec) [ -10451.1276] [Topology ] . ( 39 sec) [ -10451.1269] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10451.126877 . ( 48 sec) [ -10451.1269] [GTR parameters ] . ( 49 sec) [ -10451.1269] [Alpha ][ 1.032220] . ( 49 sec) [ -10451.1269] [Topology ] . ( 50 sec) [ -10451.1265] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10451.126529. . Printing the most likely tree in file 'data66.phy_phyml_tree.txt'... . Time used 0h1m10s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo