.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1392_57x430_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... . 389 patterns found. (out of a total of 430 sites) . 150 sites without polymorphism (34.88%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 54Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 3 sec) [ -8196.8761] [ 1252] [depth= 1] . ( 3 sec) [ -8196.2969] [ 1254] [depth= 1] . ( 5 sec) [ -8191.0389] [ 1251] [depth= 2] . ( 16 sec) [ -8184.7915] [ 1250] [depth= 1] . ( 17 sec) [ -8181.8395] [ 1249] [depth= 1] . ( 19 sec) [ -8171.8724] [ 1248] [depth= 2] . ( 21 sec) [ -8165.1616] [ 1246] [depth= 3] . ( 22 sec) [ -8164.9844] [ 1247] [depth= 1] . ( 26 sec) [ -8163.8544] [ 1247] [depth= 1] . ( 29 sec) [ -8162.6240] [ 1246] [depth= 1] . ( 31 sec) [ -8161.8179] [ 1246] [depth= 1] . ( 41 sec) [ -8157.3783] [ 1246] [depth= 3] . ( 42 sec) [ -8156.2957] [ 1246] [depth= 1] . ( 43 sec) [ -8155.7958] [ 1244] [depth= 2] . ( 46 sec) [ -8155.6948] [ 1244] [depth= 2] . ( 53 sec) [ -8154.0184] [ 1247] [depth= 1] . ( 54 sec) [ -8153.6812] [ 1248] [depth= 1] . ( 57 sec) [ -8152.8334] [ 1247] [depth= 1] . ( 58 sec) [ -8143.4140] [ 1247] [depth= 4] . ( 58 sec) [ -8142.6068] [ 1247] [depth= 1] . ( 59 sec) [ -8141.8195] [ 1247] [depth= 2] . ( 61 sec) [ -8141.6069] [ 1246] [depth= 3] . ( 62 sec) [ -8140.9455] [ 1242] [depth= 2] . ( 64 sec) [ -8137.2713] [ 1242] [depth= 1] . ( 66 sec) [ -8132.0294] [ 1241] [depth= 1] . ( 67 sec) [ -8129.2595] [ 1241] [depth= 1] . ( 73 sec) [ -8128.8028] [ 1243] [depth= 1] . ( 74 sec) [ -8128.5522] [ 1244] [depth= 2] . ( 82 sec) [ -8128.1581] [ 1246] [depth= 3] . ( 83 sec) [ -8126.9315] [ 1247] [depth= 1] . ( 84 sec) [ -8126.7399] [ 1247] [depth= 1] . ( 85 sec) [ -8126.6977] [ 1249] [depth= 2] . ( 107 sec) [ -8126.1794] [ 1249] [depth= 1] . ( 122 sec) [ -8126.0994] [ 1249] [depth= 2] . ( 122 sec) [ -8123.4598] [ 1248] [depth= 3] . ( 123 sec) [ -8123.3173] [ 1248] [depth= 3] . ( 125 sec) [ -8123.1008] [ 1248] [depth= 1] . ( 130 sec) [ -8122.8743] [ 1248] [depth= 2] . ( 131 sec) [ -8122.7962] [ 1248] [depth= 3] . ( 136 sec) [ -8122.7835] [ 1248] [depth= 1] . ( 143 sec) [ -8122.7735] [ 1248] [depth= 2] . ( 149 sec) [ -8094.8075] [Branch lengths ] . ( 152 sec) [ -8094.4507] [ 1246] [depth= 1] . ( 166 sec) [ -8094.4208] [ 1247] [depth= 1] . ( 168 sec) [ -8092.3038] [ 1246] [depth= 1] . ( 191 sec) [ -8091.9647] [ 1247] [depth= 1] . ( 219 sec) [ -8090.5313] [ 1247] [depth= 2] . ( 253 sec) [ -8090.1930] [ 1248] [depth= 2] . ( 261 sec) [ -8089.9089] [ 1248] [depth= 1] . ( 262 sec) [ -8089.8297] [ 1248] [depth= 1] . ( 297 sec) [ -8088.5773] [ 1247] [depth= 5] . ( 307 sec) [ -8088.5671] [ 1247] [depth= 1] . ( 310 sec) [ -8086.4674] [ 1246] [depth= 2] . ( 327 sec) [ -8086.4544] [ 1247] [depth= 4] . ( 341 sec) [ -8080.6090] [Branch lengths ] . ( 483 sec) [ -8080.5791] [ 1246] [depth= 4] . ( 506 sec) [ -8080.5232] [ 1246] [depth= 1] . ( 534 sec) [ -8080.5116] [ 1246] [depth= 3] . ( 546 sec) [ -8079.0273] [Branch lengths ] . ( 736 sec) [ -8079.0173] [ 1246] [depth= 3] . ( 748 sec) [ -8078.5344] [Branch lengths ] . ( 748 sec) [ -8078.5344] [Topology ] . ( 754 sec) [ -8078.4257] [Topology ] . ( 760 sec) [ -8078.3694] [Topology ] . ( 765 sec) [ -8078.3309] [Topology ] . ( 771 sec) [ -8078.3039] [Topology ] . ( 777 sec) [ -8078.2848] [Topology ] . ( 782 sec) [ -8078.2714] [Topology ] . ( 783 sec) [ -8078.2714] [Topology ] . ( 788 sec) [ -8078.2618] [Topology ] . ( 794 sec) [ -8078.2550] [Topology ] . ( 799 sec) [ -8078.2502] [Topology ] . ( 805 sec) [ -8078.2468] [Topology ] . ( 811 sec) [ -8078.2443] [Topology ] . ( 816 sec) [ -8078.2425] [Topology ] . ( 817 sec) [ -8078.2425] [Topology ] . ( 822 sec) [ -8078.2413] [Topology ] . ( 828 sec) [ -8078.2404] [Topology ] . ( 828 sec) [ -8078.2404] [Topology ] . ( 834 sec) [ -8078.2397] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -8078.239713. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 99 16.563632 0.946000 0.033691 100 36.650592 0.987000 0.065920 100 89.371549 0.999000 0.132723 45 7.518223 0.553000 0.041859 30 8.890975 0.643000 0.034874 52 11.050569 0.819000 0.042584 100 91.359383 0.999000 0.147093 43 0.962503 0.152000 0.014886 24 16.023930 0.920000 0.039155 85 17.857258 0.910000 0.023815 93 33.934052 0.969000 0.039586 100 125.154415 1.000000 0.090014 91 17.618152 0.903000 0.013944 57 0.814832 0.201000 0.007207 89 16.631403 0.897000 0.012161 100 48.670847 0.982000 0.044600 100 52.965458 0.961000 0.019945 5 0.785666 0.277000 0.003360 6 4.790415 0.653000 0.003780 85 54.895556 0.978000 0.028554 33 0.479306 0.237000 0.002293 41 2.025485 0.719000 0.004517 27 1.358609 0.697000 0.009951 5 1.698643 0.730000 0.004411 13 5.367635 0.831000 0.009293 52 9.204307 0.794000 0.004239 54 8.277599 0.777000 0.004220 3 0.805316 0.680000 0.002367 0 -1.000000 0.000000 0.000000 51 4.142034 0.747000 0.003104 3 -1.000000 0.000000 0.000000 3 -1.000000 0.000000 0.000000 19 5.327018 0.856000 0.018861 46 10.521424 0.899000 0.035789 100 92.231028 0.998000 0.098190 67 8.951814 0.816000 0.043858 100 80.915936 1.000000 0.118946 53 2.550816 0.712000 0.011601 49 5.395056 0.636000 0.013047 100 85.755653 0.994000 0.056856 85 4.015300 0.735000 0.003555 59 3.983006 0.781000 0.005556 52 1.827328 0.746000 0.002857 41 2.406000 0.728000 0.004317 87 42.330582 0.967000 0.020229 49 1.876344 0.224000 0.007829 99 33.906616 0.955000 0.019342 99 43.588534 0.989000 0.052945 97 56.321539 0.987000 0.054175 45 1.497482 0.253000 0.003134 31 0.286429 0.578000 0.002217 68 15.501031 0.916000 0.014442 100 46.668540 0.986000 0.046475 90 13.952994 0.890000 0.017732 . Printing the most likely tree in file 'proteic_M1392_57x430_2003.phy_phyml_tree.txt'... . Time used 19h48m43s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo