.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2558_27x1060_2005.phy . Data type : aa . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 100 . Compute approximate likelihood ratio test : no . Model name : LG . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : 0.500000 . 'Middle' of each rate class : mean . Amino acid equilibrium frequencies : model . Optimise tree topology : yes . Tree topology search : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : no . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 746 patterns found. (out of a total of 1060 sites) . 362 sites without polymorphism (34.15%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 47Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -37604.2377] [ 7644] [depth= 1] . ( 1 sec) [ -37582.9145] [ 7652] [depth= 1] . ( 6 sec) [ -37581.2346] [ 7656] [depth= 1] . ( 9 sec) [ -37541.9920] [ 7652] [depth= 1] . ( 10 sec) [ -37515.7893] [ 7648] [depth= 1] . ( 11 sec) [ -37495.3654] [ 7653] [depth= 2] . ( 13 sec) [ -37493.2613] [ 7655] [depth= 2] . ( 15 sec) [ -37487.2355] [ 7657] [depth= 1] . ( 20 sec) [ -37478.2967] [ 7660] [depth= 1] . ( 22 sec) [ -37462.6479] [ 7655] [depth= 1] . ( 23 sec) [ -37459.7887] [ 7660] [depth= 1] . ( 25 sec) [ -37454.6075] [ 7665] [depth= 2] . ( 26 sec) [ -37454.5501] [ 7666] [depth= 1] . ( 27 sec) [ -37454.2566] [ 7661] [depth= 2] . ( 28 sec) [ -37452.3657] [ 7659] [depth= 4] . ( 29 sec) [ -37442.5104] [ 7658] [depth= 1] . ( 31 sec) [ -37436.7686] [ 7662] [depth= 1] . ( 34 sec) [ -37434.5719] [ 7650] [depth= 1] . ( 37 sec) [ -37420.7111] [ 7643] [depth= 1] . ( 39 sec) [ -37330.4420] [Branch lengths ] . ( 48 sec) [ -37329.5885] [ 7646] [depth= 1] . ( 49 sec) [ -37328.8933] [ 7653] [depth= 1] . ( 50 sec) [ -37326.5117] [ 7651] [depth= 1] . ( 52 sec) [ -37321.8204] [ 7655] [depth= 2] . ( 65 sec) [ -37321.3943] [ 7655] [depth= 1] . ( 68 sec) [ -37320.3379] [ 7660] [depth= 1] . ( 70 sec) [ -37318.5610] [ 7659] [depth= 1] . ( 75 sec) [ -37316.7836] [ 7652] [depth= 2] . ( 77 sec) [ -37316.1428] [ 7652] [depth= 1] . ( 88 sec) [ -37302.6521] [Branch lengths ] . ( 144 sec) [ -37300.8922] [Branch lengths ] . ( 144 sec) [ -37300.8922] [Topology ] . ( 148 sec) [ -37300.0245] [Topology ] . ( 152 sec) [ -37298.8608] [Topology ] . ( 155 sec) [ -37298.4169] [Topology ] . ( 159 sec) [ -37298.1700] [Topology ] . ( 163 sec) [ -37298.0189] [Topology ] . ( 167 sec) [ -37297.9269] [Topology ] . ( 171 sec) [ -37297.8689] [Topology ] . ( 171 sec) [ -37297.8689] [Topology ] . ( 175 sec) [ -37297.8328] [Topology ] . ( 179 sec) [ -37297.8099] [Topology ] . ( 183 sec) [ -37297.7953] [Topology ] . ( 186 sec) [ -37297.7859] [Topology ] . ( 190 sec) [ -37297.7798] [Topology ] . ( 194 sec) [ -37297.7757] [Topology ] . ( 194 sec) [ -37297.7757] [Topology ] . ( 198 sec) [ -37297.7730] [Topology ] . ( 202 sec) [ -37297.7710] [Topology ] . ( 206 sec) [ -37297.7697] [Topology ] . ( 210 sec) [ -37297.7687] [Topology ] . ( 210 sec) [ -37297.7687] [Topology ] . ( 214 sec) [ -37297.7680] [Topology ] . Checking for NNIs, optimizing five branches... . ( 253 sec) [ -37296.9352] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -37296.935193. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 68 19.837054 0.961000 0.028214 67 15.909631 0.889000 0.028688 67 5.990787 0.600000 0.037181 100 121.743845 1.000000 0.225650 100 211.797563 1.000000 0.330147 100 119.453001 1.000000 0.309517 39 3.780787 0.482000 0.079166 60 5.594769 0.865000 0.081660 30 3.095664 0.623000 0.052778 38 12.561474 0.823000 0.077032 45 53.653077 0.993000 0.112600 30 8.738811 0.688000 0.052687 35 37.145672 0.980000 0.051685 19 9.179054 0.830000 0.028043 22 1.667380 0.665000 0.042950 64 13.009183 0.826000 0.050735 24 1.916391 0.646000 0.090200 100 25.068329 0.975000 0.243842 100 438.990568 1.000000 0.662147 84 20.156478 0.879000 0.112429 44 0.234168 0.007000 0.046414 78 6.130935 0.838000 0.067790 53 5.474401 0.768000 0.153311 100 73.305710 0.999000 0.555060 . Printing the most likely tree in file 'proteic_M2558_27x1060_2005.phy_phyml_tree.txt'... . Time used 8h17m48s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo