.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data21.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... . 451 patterns found. (out of a total of 500 sites) . 45 sites without polymorphism (9.00%). . 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=-10442.050381 . ( 1 sec) [ -10438.0065] [GTR parameters ] . ( 1 sec) [ -10437.9885] [Alpha ][ 1.014348] . ( 1 sec) [ -10437.9885] [Topology ] . ( 2 sec) [ -10372.8235] [Topology ] . ( 3 sec) [ -10365.3616] [Topology ] . ( 4 sec) [ -10363.0571] [Topology ] . ( 5 sec) [ -10362.0626] [Topology ] . ( 6 sec) [ -10361.5856] [Topology ] . ( 7 sec) [ -10361.3468] [Topology ] . ( 8 sec) [ -10361.2242] [Topology ] . ( 8 sec) [ -10361.1605] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10361.160492 . ( 18 sec) [ -10361.1203] [GTR parameters ] . ( 18 sec) [ -10361.1152] [Alpha ][ 1.021447] . ( 18 sec) [ -10361.1152] [Topology ] . ( 19 sec) [ -10361.0795] [Topology ] . ( 21 sec) [ -10361.0607] [Topology ] . ( 22 sec) [ -10361.0508] [Topology ] . ( 24 sec) [ -10361.0455] [Topology ] . ( 25 sec) [ -10361.0427] [Topology ] . ( 26 sec) [ -10361.0412] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10361.041191 . ( 37 sec) [ -10361.0410] [GTR parameters ] . ( 37 sec) [ -10361.0410] [Alpha ][ 1.021447] . ( 37 sec) [ -10361.0410] [Topology ] . ( 38 sec) [ -10361.0402] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10361.040201. . Printing the most likely tree in file 'data21.phy_phyml_tree.txt'... . Time used 0h1m6s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo