.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2382_28x162_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... . 129 patterns found. (out of a total of 162 sites) . 75 sites without polymorphism (46.30%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -2755.4260] [ 461] [depth= 1] . ( 1 sec) [ -2753.7776] [ 461] [depth= 1] . ( 3 sec) [ -2752.9003] [ 462] [depth= 1] . ( 4 sec) [ -2752.1741] [ 464] [depth= 4] . ( 4 sec) [ -2743.4754] [ 462] [depth= 5] . ( 4 sec) [ -2740.3179] [ 462] [depth= 6] . ( 7 sec) [ -2737.9332] [ 462] [depth= 1] . ( 9 sec) [ -2733.8610] [ 465] [depth= 2] . ( 9 sec) [ -2732.5445] [ 459] [depth= 3] . ( 9 sec) [ -2730.5844] [ 458] [depth= 1] . ( 9 sec) [ -2727.9938] [ 458] [depth= 1] . ( 9 sec) [ -2727.6590] [ 456] [depth= 2] . ( 12 sec) [ -2724.8502] [ 455] [depth= 1] . ( 12 sec) [ -2722.9958] [ 457] [depth= 1] . ( 13 sec) [ -2720.1790] [ 454] [depth= 2] . ( 15 sec) [ -2720.0595] [ 455] [depth= 1] . ( 16 sec) [ -2719.6193] [ 457] [depth= 1] . ( 17 sec) [ -2718.4005] [ 459] [depth= 6] . ( 17 sec) [ -2717.3256] [ 458] [depth= 1] . ( 17 sec) [ -2716.9642] [ 459] [depth= 1] . ( 17 sec) [ -2713.2069] [ 458] [depth= 1] . ( 19 sec) [ -2712.6372] [ 458] [depth= 1] . ( 20 sec) [ -2712.4370] [ 461] [depth= 4] . ( 21 sec) [ -2707.9108] [ 460] [depth= 10] . ( 23 sec) [ -2707.5079] [ 460] [depth= 2] . ( 23 sec) [ -2706.5413] [ 459] [depth= 1] . ( 23 sec) [ -2705.8198] [ 460] [depth= 3] . ( 23 sec) [ -2704.6316] [ 461] [depth= 1] . ( 24 sec) [ -2703.8565] [ 460] [depth= 5] . ( 30 sec) [ -2703.1577] [ 459] [depth= 1] . ( 30 sec) [ -2702.8300] [ 458] [depth= 4] . ( 31 sec) [ -2701.6629] [ 459] [depth= 1] . ( 33 sec) [ -2701.5541] [ 459] [depth= 1] . ( 40 sec) [ -2699.4048] [ 458] [depth= 1] . ( 46 sec) [ -2699.2182] [ 459] [depth= 1] . ( 46 sec) [ -2686.5741] [Branch lengths ] . ( 56 sec) [ -2686.0776] [ 459] [depth= 5] . ( 59 sec) [ -2680.0161] [ 456] [depth= 3] . ( 68 sec) [ -2678.7694] [ 456] [depth= 1] . ( 92 sec) [ -2676.8264] [ 454] [depth= 3] . ( 126 sec) [ -2674.1485] [Branch lengths ] . ( 133 sec) [ -2673.7002] [ 453] [depth= 2] . ( 133 sec) [ -2673.5203] [ 454] [depth= 1] . ( 204 sec) [ -2673.0064] [Branch lengths ] . ( 286 sec) [ -2672.6997] [Branch lengths ] . ( 286 sec) [ -2672.6997] [Topology ] . ( 287 sec) [ -2672.6184] [Topology ] . ( 288 sec) [ -2672.6053] [Topology ] . ( 289 sec) [ -2672.6021] [Topology ] . ( 290 sec) [ -2672.6013] [Topology ] . ( 290 sec) [ -2672.6013] [Topology ] . ( 291 sec) [ -2672.6011] [Topology ] . Checking for NNIs, optimizing five branches... . ( 297 sec) [ -2672.5749] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -2672.574860. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 93 16.742292 0.924000 0.092193 78 17.495256 0.926000 0.100541 13 7.748349 0.863000 0.062263 7 8.983534 0.871000 0.035524 16 7.128529 0.862000 0.068507 26 3.261060 0.530000 0.057438 2 3.894612 0.816000 0.024386 2 10.962510 0.885000 0.050624 13 3.811573 0.701000 0.026000 85 10.535652 0.903000 0.059943 18 3.790309 0.689000 0.056833 1 6.192388 0.802000 0.034528 1 4.038760 0.468000 0.030980 10 6.170624 0.789000 0.023672 7 1.563268 0.673000 0.026020 8 13.019366 0.903000 0.045724 0 0.052544 0.000000 0.003285 7 8.193013 0.848000 0.049118 2 1.701936 0.401000 0.011130 1 4.238251 0.757000 0.010811 0 3.095373 0.767000 0.020634 0 0.931497 0.685000 0.008336 4 4.618169 0.791000 0.020217 18 3.201256 0.754000 0.021037 21 0.963177 0.678000 0.018267 . Printing the most likely tree in file 'proteic_M2382_28x162_2005.phy_phyml_tree.txt'... . Time used 5h51m8s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo