.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2636_20x1275_2006.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... . 775 patterns found. (out of a total of 1275 sites) . 495 sites without polymorphism (38.82%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 35Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -19199.1575] [ 2961] [depth= 3] . ( 1 sec) [ -19179.7108] [ 2957] [depth= 1] . ( 2 sec) [ -19163.0302] [ 2949] [depth= 2] . ( 3 sec) [ -19159.3848] [ 2951] [depth= 1] . ( 3 sec) [ -19158.5282] [ 2954] [depth= 1] . ( 4 sec) [ -19154.9022] [ 2955] [depth= 1] . ( 5 sec) [ -19150.9225] [ 2955] [depth= 1] . ( 7 sec) [ -19106.9281] [ 2957] [depth= 1] . ( 11 sec) [ -19102.8962] [ 2968] [depth= 1] . ( 12 sec) [ -19102.4529] [ 2972] [depth= 1] . ( 12 sec) [ -19087.5297] [ 2968] [depth= 1] . ( 14 sec) [ -19077.8789] [ 2957] [depth= 1] . ( 16 sec) [ -19076.2523] [ 2961] [depth= 1] . ( 16 sec) [ -19063.7219] [ 2957] [depth= 1] . ( 21 sec) [ -18994.6412] [Branch lengths ] . ( 23 sec) [ -18992.5345] [ 2950] [depth= 1] . ( 45 sec) [ -18980.0446] [Branch lengths ] . ( 68 sec) [ -18977.6475] [Branch lengths ] . ( 69 sec) [ -18977.6475] [Topology ] . ( 72 sec) [ -18977.1384] [Topology ] . ( 74 sec) [ -18976.2061] [Topology ] . ( 77 sec) [ -18976.1215] [Topology ] . ( 80 sec) [ -18976.0975] [Topology ] . ( 83 sec) [ -18976.0865] [Topology ] . ( 86 sec) [ -18976.0807] [Topology ] . ( 89 sec) [ -18976.0774] [Topology ] . ( 89 sec) [ -18976.0774] [Topology ] . ( 92 sec) [ -18976.0756] [Topology ] . ( 95 sec) [ -18976.0745] [Topology ] . ( 98 sec) [ -18976.0739] [Topology ] . ( 98 sec) [ -18976.0739] [Topology ] . ( 101 sec) [ -18976.0736] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -18976.073618. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 40 2.050414 0.144000 0.030045 53 26.107032 0.979000 0.044615 49 3.119135 0.268000 0.022154 92 81.992540 1.000000 0.059922 64 5.820603 0.530000 0.029745 100 26.767335 0.969000 0.043660 100 1090.368546 1.000000 0.490887 99 54.788133 0.993000 0.059793 18 29.249634 0.948000 0.040510 100 136.001001 1.000000 0.064833 54 14.740489 0.858000 0.023974 42 8.790034 0.639000 0.015834 100 168.558259 1.000000 0.059676 73 19.560183 0.854000 0.026069 53 18.945294 0.780000 0.023379 85 60.578832 0.983000 0.033573 95 51.533353 0.983000 0.043003 . Printing the most likely tree in file 'proteic_M2636_20x1275_2006.phy_phyml_tree.txt'... . Time used 3h24m11s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo