.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2975_93x982_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 . Compressing sequences... . 725 patterns found. (out of a total of 982 sites) . 454 sites without polymorphism (46.23%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 36Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 2 sec) [ -12806.7417] [GTR parameters ] . ( 2 sec) [ -12644.1413] [Alpha ][ 0.500960] . ( 2 sec) [ -12644.1413] [Topology ] . ( 5 sec) [ -12429.9217] [Topology ] . ( 8 sec) [ -12393.9974] [Topology ] . ( 11 sec) [ -12384.0402] [Topology ] . ( 15 sec) [ -12379.8706] [Topology ] . ( 18 sec) [ -12375.5020] [Topology ] . ( 21 sec) [ -12372.0127] [Topology ] . ( 24 sec) [ -12367.8036] [Topology ] . ( 27 sec) [ -12358.6163] [Topology ] . ( 30 sec) [ -12347.6738] [Topology ] . ( 39 sec) [ -12325.5729] [GTR parameters ] . ( 39 sec) [ -12316.6221] [Alpha ][ 0.402047] . ( 39 sec) [ -12316.6221] [Topology ] . ( 42 sec) [ -12311.6903] [Topology ] . ( 46 sec) [ -12310.8725] [Topology ] . ( 49 sec) [ -12310.7349] [Topology ] . ( 52 sec) [ -12310.6936] [Topology ] . ( 55 sec) [ -12310.6783] [Topology ] . ( 58 sec) [ -12310.6717] [Topology ] . ( 61 sec) [ -12310.6688] [Topology ] . Checking for NNIs, optimizing five branches... . ( 82 sec) [ -12310.6353] [Topology ] . ( 86 sec) [ -12310.5799] [GTR parameters ] . ( 86 sec) [ -12310.5503] [Alpha ][ 0.397259] . ( 86 sec) [ -12310.5503] [Topology ] . ( 89 sec) [ -12309.9367] [Topology ] . ( 92 sec) [ -12309.5523] [Topology ] . ( 95 sec) [ -12309.4877] [Topology ] . ( 98 sec) [ -12309.4700] [Topology ] . ( 102 sec) [ -12309.4642] [Topology ] . ( 105 sec) [ -12309.4621] [Topology ] . ( 108 sec) [ -12309.4611] [Topology ] . Checking for NNIs, optimizing five branches... . ( 129 sec) [ -12308.9047] [Topology ] . ( 130 sec) [ -12308.9028] [GTR parameters ] . ( 130 sec) [ -12308.9010] [Alpha ][ 0.395957] . ( 130 sec) [ -12308.9010] [Topology ] . ( 133 sec) [ -12308.8597] [Topology ] . ( 137 sec) [ -12308.8541] [Topology ] . ( 140 sec) [ -12308.8529] [Topology ] . ( 143 sec) [ -12308.8526] [Topology ] . Checking for NNIs, optimizing five branches... . ( 164 sec) [ -12308.8520] [Topology ] . ( 166 sec) [ -12308.8516] [GTR parameters ] . ( 166 sec) [ -12308.8516] [Alpha ][ 0.395957] . ( 166 sec) [ -12308.8516] [Topology ] . ( 169 sec) [ -12308.8485] [Topology ] . ( 172 sec) [ -12308.8392] [Topology ] . ( 175 sec) [ -12308.8360] [Topology ] . ( 178 sec) [ -12308.8347] [Topology ] . ( 181 sec) [ -12308.8342] [Topology ] . Checking for NNIs, optimizing five branches... . ( 202 sec) [ -12308.8340] [Topology ] . ( 203 sec) [ -12308.8340] [GTR parameters ] . ( 203 sec) [ -12308.8340] [Alpha ][ 0.395957] . ( 203 sec) [ -12308.8340] [Topology ] . ( 206 sec) [ -12308.8338] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -12308.833763. . Printing the most likely tree in file 'nucleic_M2975_93x982_2006.phy_phyml_tree.txt'... . Time used 0h4m8s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 247.36user 0.00system 4:08.95elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps