Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2661_66x1027_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 Starting tree : BIONJ Optimise tree topology : yes Optimise branch lengths and rate parameters : yes . 9 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = 25217952 . Log(lk) : * -> -9631.641491 . Log(lk) : -9631.641491 -> -9497.709579 6 swaps done . Log(lk) : -9497.709579 -> -9484.919924 3 swaps done . Log(lk) : -9484.919924 -> -9482.542701 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9168.915227 -> -9142.192340 0 swap done . Log(lk) : -9142.192340 -> -9140.041782 0 swap done . Log(lk) : -9140.041782 -> -9139.422177 0 swap done . Log(lk) : -9139.422177 -> -9139.183785 0 swap done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9133.896130 -> -9132.818014 0 swap done . Last optimization step... . Log(lk) : * -> -9132.626858 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.626858 -> -9132.310877 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.310877 -> -9132.228197 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.228197 -> -9132.218196 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.218196 -> -9132.215948 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.215948 -> -9132.215352 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.215352 -> -9132.215206 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.215206 -> -9132.215174 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.215174 -> -9132.215167 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.215167 -> -9132.215165 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -9132.215165 -> -9132.215165 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -9132.215165 . Time used 0h0m57s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 54.48user 0.00system 0:56.36elapsed 96%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps