.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2792_166x812_2006.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 . 1 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . 616 patterns found. (out of a total of 812 sites) . 322 sites without polymorphism (39.66%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 54Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 10 sec) [ -10920.5693] [GTR parameters ] . ( 11 sec) [ -10843.4467] [Alpha ][ 0.500960] . ( 11 sec) [ -10843.4467] [Topology ] . ( 16 sec) [ -10644.8145] [Topology ] . ( 22 sec) [ -10607.9159] [Topology ] . ( 27 sec) [ -10595.7401] [Topology ] . ( 32 sec) [ -10590.1961] [Topology ] . ( 37 sec) [ -10588.4493] [Topology ] . ( 42 sec) [ -10586.5619] [Topology ] . ( 47 sec) [ -10584.3708] [Topology ] . ( 52 sec) [ -10578.6510] [Topology ] . ( 57 sec) [ -10572.0697] [Topology ] . Checking for NNIs, optimizing five branches... . ( 106 sec) [ -10568.0199] [GTR parameters ] . ( 107 sec) [ -10568.0199] [Alpha ][ 0.500459] . ( 107 sec) [ -10568.0199] [Topology ] . ( 111 sec) [ -10567.7915] [Topology ] . ( 116 sec) [ -10567.6878] [Topology ] . ( 121 sec) [ -10567.5951] [Topology ] . ( 126 sec) [ -10567.4896] [Topology ] . ( 131 sec) [ -10567.3527] [Topology ] . ( 135 sec) [ -10567.2307] [Topology ] . Checking for NNIs, optimizing five branches... . ( 167 sec) [ -10567.2306] [Topology ] . ( 173 sec) [ -10567.2263] [GTR parameters ] . ( 173 sec) [ -10567.2263] [Alpha ][ 0.500959] . ( 173 sec) [ -10567.2263] [Topology ] . ( 178 sec) [ -10567.1805] [Topology ] . ( 183 sec) [ -10567.1684] [Topology ] . ( 188 sec) [ -10567.1638] [Topology ] . ( 192 sec) [ -10567.1616] [Topology ] . ( 197 sec) [ -10567.1602] [Topology ] . ( 202 sec) [ -10567.1594] [Topology ] . Checking for NNIs, optimizing five branches... . ( 233 sec) [ -10567.1593] [Topology ] . ( 237 sec) [ -10567.1588] [GTR parameters ] . ( 237 sec) [ -10567.1588] [Alpha ][ 0.500959] . ( 238 sec) [ -10567.1588] [Topology ] . ( 242 sec) [ -10567.1582] [Topology ] . Checking for NNIs, optimizing five branches... . ( 274 sec) [ -10567.1582] [GTR parameters ] . ( 275 sec) [ -10567.1582] [Alpha ][ 0.500959] . ( 275 sec) [ -10567.1582] [Topology ] . ( 279 sec) [ -10567.1578] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10567.157839. . Printing the most likely tree in file 'nucleic_M2792_166x812_2006.phy_phyml_tree.txt'... . Time used 0h5m42s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 337.30user 0.00system 5:44.65elapsed 97%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps