Sequence filename : /auto/dufayard/res/2.4.5/nucleic_M2600_69x814_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 . 5 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . Computing pairwise distances... . Building BIONJ tree... . Nbytes = 3453840 . Log(lk) : * -> -1772.273902 . Log(lk) : -1772.273902 -> -1771.375242 8 swaps done . Log(lk) : -1771.375242 -> -1771.248434 4 swaps done . Log(lk) : -1771.248434 -> -1771.099929 2 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -1757.311519 -> -1756.387597 3 swaps done . Log(lk) : -1756.387597 -> -1754.658944 2 swaps done . Log(lk) : -1754.658944 -> -1754.275467 4 swaps done . Log(lk) : -1754.275467 -> -1754.186570 3 swaps done . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -1754.086871 -> -1754.065360 3 swaps done . Log(lk) : -1754.065360 -> -1754.060130 1 swap done . Log(lk) : -1754.060130 -> -1754.058952 0 swap done . Log(lk) : -1754.058952 -> -1754.058667 4 swaps done . Last optimization step... . Log(lk) : * -> -1754.058572 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -1754.058572 -> -1754.058567 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -1754.058567 -> -1754.058565 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Log(lk) : -1754.058565 -> -1754.058565 . Optimisation of the GTR parameters... . Optimisation of the gamma shape parameter... . Final Log(lk) : -1754.058565 . Time used 0h0m5s %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 5.13user 0.00system 0:05.31elapsed 96%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps