.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1375_23x530_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... . 370 patterns found. (out of a total of 530 sites) . 201 sites without polymorphism (37.92%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 20Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -7799.0690] [ 1234] [depth= 6] . ( 1 sec) [ -7791.4251] [ 1232] [depth= 2] . ( 3 sec) [ -7782.9493] [ 1227] [depth= 4] . ( 3 sec) [ -7771.7600] [ 1230] [depth= 1] . ( 3 sec) [ -7771.6276] [ 1229] [depth= 1] . ( 4 sec) [ -7761.9548] [ 1225] [depth= 2] . ( 5 sec) [ -7747.4894] [ 1226] [depth= 1] . ( 6 sec) [ -7743.9363] [ 1226] [depth= 1] . ( 7 sec) [ -7743.1433] [ 1225] [depth= 2] . ( 7 sec) [ -7736.3644] [ 1224] [depth= 1] . ( 8 sec) [ -7736.0370] [ 1221] [depth= 4] . ( 8 sec) [ -7733.3834] [ 1222] [depth= 1] . ( 10 sec) [ -7733.0922] [ 1224] [depth= 2] . ( 11 sec) [ -7729.0181] [ 1225] [depth= 2] . ( 11 sec) [ -7725.2629] [ 1225] [depth= 1] . ( 14 sec) [ -7719.0254] [ 1224] [depth= 1] . ( 14 sec) [ -7718.3188] [ 1224] [depth= 1] . ( 15 sec) [ -7717.7009] [ 1226] [depth= 3] . ( 15 sec) [ -7715.2708] [ 1225] [depth= 1] . ( 24 sec) [ -7714.3451] [ 1224] [depth= 1] . ( 25 sec) [ -7692.4225] [Branch lengths ] . ( 26 sec) [ -7685.2706] [ 1222] [depth= 2] . ( 28 sec) [ -7684.9061] [ 1225] [depth= 2] . ( 32 sec) [ -7682.3441] [ 1225] [depth= 1] . ( 33 sec) [ -7681.5877] [ 1229] [depth= 3] . ( 35 sec) [ -7681.0973] [ 1229] [depth= 1] . ( 61 sec) [ -7680.8401] [ 1229] [depth= 1] . ( 68 sec) [ -7680.8293] [ 1228] [depth= 1] . ( 77 sec) [ -7675.4244] [Branch lengths ] . ( 131 sec) [ -7675.1295] [Branch lengths ] . ( 132 sec) [ -7675.1295] [Topology ] . ( 133 sec) [ -7675.0924] [Topology ] . ( 135 sec) [ -7675.0823] [Topology ] . ( 137 sec) [ -7675.0779] [Topology ] . ( 139 sec) [ -7675.0758] [Topology ] . ( 141 sec) [ -7675.0748] [Topology ] . ( 143 sec) [ -7675.0742] [Topology ] . ( 143 sec) [ -7675.0742] [Topology ] . ( 145 sec) [ -7675.0739] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7675.073948. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 176.216767 1.000000 0.242986 100 92.742465 0.999000 0.255064 14 0.133194 0.000000 0.039809 77 26.766144 0.969000 0.063044 24 14.513671 0.902000 0.038381 1 1.746589 0.727000 0.007433 22 10.498731 0.874000 0.036368 1 0.956053 0.089000 0.018355 100 192.956384 1.000000 0.129556 4 7.864085 0.687000 0.021218 6 9.609808 0.814000 0.015365 68 18.311505 0.936000 0.025523 15 5.201080 0.498000 0.019084 96 66.067698 0.997000 0.058217 97 56.059409 0.994000 0.048210 79 12.724170 0.851000 0.024071 42 16.707660 0.943000 0.028623 38 3.708162 0.586000 0.024598 81 1.774849 0.748000 0.025530 98 20.990906 0.959000 0.050490 . Printing the most likely tree in file 'proteic_M1375_23x530_2003.phy_phyml_tree.txt'... . Time used 3h48m25s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo