.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1377_19x1566_2003.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... . 921 patterns found. (out of a total of 1566 sites) . 698 sites without polymorphism (44.57%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 39Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -17635.3667] [ 2484] [depth= 1] . ( 5 sec) [ -17630.7410] [ 2491] [depth= 6] . ( 6 sec) [ -17622.7390] [ 2498] [depth= 4] . ( 8 sec) [ -17573.9744] [ 2493] [depth= 5] . ( 9 sec) [ -17567.8308] [ 2491] [depth= 2] . ( 10 sec) [ -17560.8307] [ 2487] [depth= 2] . ( 11 sec) [ -17551.8055] [ 2492] [depth= 1] . ( 11 sec) [ -17539.0396] [ 2492] [depth= 1] . ( 12 sec) [ -17536.6106] [ 2489] [depth= 2] . ( 13 sec) [ -17533.9189] [ 2488] [depth= 4] . ( 13 sec) [ -17528.3878] [ 2477] [depth= 1] . ( 15 sec) [ -17514.7039] [ 2477] [depth= 3] . ( 15 sec) [ -17508.6762] [ 2476] [depth= 2] . ( 16 sec) [ -17500.5442] [ 2470] [depth= 5] . ( 17 sec) [ -17495.0530] [ 2470] [depth= 1] . ( 19 sec) [ -17481.3303] [ 2473] [depth= 2] . ( 21 sec) [ -17480.6868] [ 2468] [depth= 1] . ( 22 sec) [ -17474.1539] [ 2466] [depth= 1] . ( 27 sec) [ -17464.3647] [ 2459] [depth= 1] . ( 28 sec) [ -17427.8760] [Branch lengths ] . ( 33 sec) [ -17423.6864] [ 2444] [depth= 1] . ( 40 sec) [ -17420.3850] [ 2444] [depth= 1] . ( 75 sec) [ -17414.7830] [Branch lengths ] . ( 123 sec) [ -17414.2925] [Branch lengths ] . ( 123 sec) [ -17414.2925] [Topology ] . ( 126 sec) [ -17414.2411] [Topology ] . ( 129 sec) [ -17414.1806] [Topology ] . ( 133 sec) [ -17413.8465] [Topology ] . ( 136 sec) [ -17412.3129] [Topology ] . ( 139 sec) [ -17407.4893] [Topology ] . ( 143 sec) [ -17396.6423] [Topology ] . ( 143 sec) [ -17396.6423] [Topology ] . ( 146 sec) [ -17390.6279] [Topology ] . ( 149 sec) [ -17390.2210] [Topology ] . ( 153 sec) [ -17390.1797] [Topology ] . ( 156 sec) [ -17390.1753] [Topology ] . ( 159 sec) [ -17390.1747] [Topology ] . ( 159 sec) [ -17390.1747] [Topology ] . ( 163 sec) [ -17390.1746] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -17390.174643. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 451.454523 1.000000 0.226576 60 10.549609 0.749000 0.029883 100 323.687772 1.000000 0.109477 58 31.094313 0.950000 0.027310 18 12.983294 0.904000 0.010519 8 13.301224 0.894000 0.006097 6 8.525662 0.846000 0.005702 33 33.431360 0.957000 0.014525 73 51.642925 0.996000 0.030035 73 60.153017 0.979000 0.033435 58 21.707369 0.938000 0.016459 24 4.944956 0.645000 0.008210 17 3.197498 0.390000 0.008154 100 110.397949 0.998000 0.039581 98 45.655971 0.992000 0.023766 100 212.780204 1.000000 0.069772 . Printing the most likely tree in file 'proteic_M1377_19x1566_2003.phy_phyml_tree.txt'... . Time used 4h46m3s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo