.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data86.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... . 394 patterns found. (out of a total of 500 sites) . 96 sites without polymorphism (19.20%). . 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=-7635.534928 . ( 1 sec) [ -7630.7980] [GTR parameters ] . ( 1 sec) [ -7630.6061] [Alpha ][ 1.055716] . ( 1 sec) [ -7630.6061] [Topology ] . ( 2 sec) [ -7600.6305] [Topology ] . ( 3 sec) [ -7596.7981] [Topology ] . ( 4 sec) [ -7595.9117] [Topology ] . ( 5 sec) [ -7595.5834] [Topology ] . ( 6 sec) [ -7595.4422] [Topology ] . ( 7 sec) [ -7595.3780] [Topology ] . ( 9 sec) [ -7595.3480] [Topology ] . Checking for NNIs, optimizing five branches... . ( 18 sec) [ -7595.1140] [Topology ] . Before opt ts/t=1.000000 LK=-7595.114037 . ( 18 sec) [ -7595.0703] [GTR parameters ] . ( 18 sec) [ -7595.0021] [Alpha ][ 1.089690] . ( 18 sec) [ -7595.0021] [Topology ] . ( 20 sec) [ -7594.9687] [Topology ] . ( 21 sec) [ -7594.9564] [Topology ] . ( 22 sec) [ -7594.9510] [Topology ] . ( 23 sec) [ -7594.9484] [Topology ] . ( 24 sec) [ -7594.9472] [Topology ] . ( 26 sec) [ -7594.9466] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-7594.946644 . ( 34 sec) [ -7594.9466] [GTR parameters ] . ( 34 sec) [ -7594.9461] [Alpha ][ 1.092464] . ( 35 sec) [ -7594.9461] [Topology ] . ( 36 sec) [ -7594.9458] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7594.945794. . Printing the most likely tree in file 'data86.phy_phyml_tree.txt'... . Time used 0h0m54s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo