.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data23.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) . 57 sites without polymorphism (11.40%). . 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=-11139.762588 . ( 1 sec) [ -11134.8438] [GTR parameters ] . ( 1 sec) [ -11133.7157] [Alpha ][ 0.897560] . ( 1 sec) [ -11133.7157] [Topology ] . ( 2 sec) [ -11071.6927] [Topology ] . ( 3 sec) [ -11062.4220] [Topology ] . ( 3 sec) [ -11059.6633] [Topology ] . ( 4 sec) [ -11058.5159] [Topology ] . ( 5 sec) [ -11057.9695] [Topology ] . ( 6 sec) [ -11057.7608] [Topology ] . ( 7 sec) [ -11057.6626] [Topology ] . ( 8 sec) [ -11057.6133] [Topology ] . ( 9 sec) [ -11057.5878] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11057.574544 . ( 17 sec) [ -11057.4909] [GTR parameters ] . ( 17 sec) [ -11057.2749] [Alpha ][ 0.939065] . ( 17 sec) [ -11057.2749] [Topology ] . ( 18 sec) [ -11057.2482] [Topology ] . ( 18 sec) [ -11057.2386] [Topology ] . ( 19 sec) [ -11057.2339] [Topology ] . ( 20 sec) [ -11057.2316] [Topology ] . ( 21 sec) [ -11057.2304] [Topology ] . ( 23 sec) [ -11057.2297] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11057.229712 . ( 30 sec) [ -11057.2296] [GTR parameters ] . ( 30 sec) [ -11057.2280] [Alpha ][ 0.942620] . ( 30 sec) [ -11057.2280] [Topology ] . ( 31 sec) [ -11057.2275] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11057.227516 . ( 39 sec) [ -11057.2275] [GTR parameters ] . ( 39 sec) [ -11057.2275] [Alpha ][ 0.942620] . ( 39 sec) [ -11057.2275] [Topology ] . ( 40 sec) [ -11057.2273] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11057.227268. . Printing the most likely tree in file 'data23.phy_phyml_tree.txt'... . Time used 0h0m56s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo