.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data67.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... . 385 patterns found. (out of a total of 500 sites) . 104 sites without polymorphism (20.80%). . 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=-7871.915246 . ( 1 sec) [ -7869.8054] [GTR parameters ] . ( 1 sec) [ -7868.6494] [Alpha ][ 0.879732] . ( 1 sec) [ -7868.6494] [Topology ] . ( 2 sec) [ -7813.0785] [Topology ] . ( 4 sec) [ -7802.9008] [Topology ] . ( 5 sec) [ -7800.8748] [Topology ] . ( 5 sec) [ -7800.3566] [Topology ] . ( 6 sec) [ -7800.1461] [Topology ] . ( 7 sec) [ -7800.0490] [Topology ] . ( 8 sec) [ -7800.0020] [Topology ] . ( 9 sec) [ -7799.9787] [Topology ] . ( 10 sec) [ -7799.9671] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-7799.967122 . ( 19 sec) [ -7799.9151] [GTR parameters ] . ( 19 sec) [ -7799.8043] [Alpha ][ 0.914129] . ( 20 sec) [ -7799.8043] [Topology ] . ( 21 sec) [ -7799.7919] [Topology ] . ( 22 sec) [ -7799.7868] [Topology ] . ( 23 sec) [ -7799.7844] [Topology ] . ( 24 sec) [ -7799.7831] [Topology ] . ( 25 sec) [ -7799.7825] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-7799.782542 . ( 32 sec) [ -7799.7825] [GTR parameters ] . ( 33 sec) [ -7799.7824] [Alpha ][ 0.915335] . ( 33 sec) [ -7799.7824] [Topology ] . ( 34 sec) [ -7799.7820] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7799.782037. . Printing the most likely tree in file 'data67.phy_phyml_tree.txt'... . Time used 0h0m46s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo