.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data62.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... . 398 patterns found. (out of a total of 500 sites) . 95 sites without polymorphism (19.00%). . 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=-8223.651307 . ( 1 sec) [ -8220.1928] [GTR parameters ] . ( 1 sec) [ -8219.3015] [Alpha ][ 0.896853] . ( 1 sec) [ -8219.3015] [Topology ] . ( 2 sec) [ -8175.9036] [Topology ] . ( 3 sec) [ -8170.0695] [Topology ] . ( 4 sec) [ -8168.4675] [Topology ] . ( 5 sec) [ -8167.8102] [Topology ] . ( 6 sec) [ -8167.5141] [Topology ] . ( 6 sec) [ -8167.3714] [Topology ] . ( 8 sec) [ -8167.3002] [Topology ] . Checking for NNIs, optimizing five branches... . ( 16 sec) [ -8167.2928] [Topology ] . Before opt ts/t=1.000000 LK=-8167.292832 . ( 16 sec) [ -8167.2502] [GTR parameters ] . ( 16 sec) [ -8167.2005] [Alpha ][ 0.918662] . ( 17 sec) [ -8167.2005] [Topology ] . ( 18 sec) [ -8167.1537] [Topology ] . ( 19 sec) [ -8167.1320] [Topology ] . ( 20 sec) [ -8167.1213] [Topology ] . ( 21 sec) [ -8167.1158] [Topology ] . ( 22 sec) [ -8167.1131] [Topology ] . ( 24 sec) [ -8167.1116] [Topology ] . Checking for NNIs, optimizing five branches... . ( 32 sec) [ -8167.1003] [Topology ] . Before opt ts/t=1.000000 LK=-8167.100340 . ( 32 sec) [ -8167.0984] [GTR parameters ] . ( 32 sec) [ -8167.0946] [Alpha ][ 0.925005] . ( 32 sec) [ -8167.0946] [Topology ] . ( 33 sec) [ -8167.0901] [Topology ] . ( 34 sec) [ -8167.0892] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-8167.089155 . ( 40 sec) [ -8167.0892] [GTR parameters ] . ( 40 sec) [ -8167.0891] [Alpha ][ 0.925930] . ( 40 sec) [ -8167.0891] [Topology ] . ( 41 sec) [ -8167.0887] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -8167.088697. . Printing the most likely tree in file 'data62.phy_phyml_tree.txt'... . Time used 0h0m55s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo