.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2477_39x888_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... . 638 patterns found. (out of a total of 888 sites) . 262 sites without polymorphism (29.50%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 59Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 9 sec) [ -21258.1954] [ 3664] [depth= 1] . ( 11 sec) [ -21250.8906] [ 3661] [depth= 1] . ( 11 sec) [ -21246.7638] [ 3663] [depth= 1] . ( 13 sec) [ -21242.9050] [ 3661] [depth= 1] . ( 19 sec) [ -21216.5311] [ 3666] [depth= 2] . ( 20 sec) [ -21215.3958] [ 3662] [depth= 2] . ( 20 sec) [ -21200.5939] [ 3661] [depth= 1] . ( 22 sec) [ -21200.3465] [ 3662] [depth= 1] . ( 24 sec) [ -21190.2208] [ 3661] [depth= 1] . ( 33 sec) [ -21187.1268] [ 3665] [depth= 1] . ( 34 sec) [ -21175.6047] [ 3661] [depth= 1] . ( 34 sec) [ -21175.3101] [ 3665] [depth= 1] . ( 35 sec) [ -21167.0503] [ 3661] [depth= 1] . ( 41 sec) [ -21162.6934] [ 3665] [depth= 1] . ( 42 sec) [ -21155.2324] [ 3661] [depth= 1] . ( 43 sec) [ -21150.9941] [ 3663] [depth= 1] . ( 44 sec) [ -21148.9654] [ 3661] [depth= 1] . ( 47 sec) [ -21143.1171] [ 3667] [depth= 1] . ( 48 sec) [ -21133.1779] [ 3661] [depth= 1] . ( 49 sec) [ -21130.5097] [ 3662] [depth= 1] . ( 51 sec) [ -21130.3677] [ 3661] [depth= 1] . ( 52 sec) [ -21129.8149] [ 3662] [depth= 1] . ( 54 sec) [ -21002.1184] [Branch lengths ] . ( 60 sec) [ -20999.2016] [ 3659] [depth= 1] . ( 65 sec) [ -20998.8671] [ 3662] [depth= 1] . ( 74 sec) [ -20997.6341] [ 3665] [depth= 1] . ( 95 sec) [ -20996.0865] [ 3666] [depth= 1] . ( 104 sec) [ -20974.1816] [Branch lengths ] . ( 152 sec) [ -20970.4332] [Branch lengths ] . ( 152 sec) [ -20970.4332] [Topology ] . ( 157 sec) [ -20969.9075] [Topology ] . ( 162 sec) [ -20969.6967] [Topology ] . ( 168 sec) [ -20969.5741] [Topology ] . ( 173 sec) [ -20969.5001] [Topology ] . ( 178 sec) [ -20969.4546] [Topology ] . ( 184 sec) [ -20969.4266] [Topology ] . ( 184 sec) [ -20969.4266] [Topology ] . ( 189 sec) [ -20969.4093] [Topology ] . ( 195 sec) [ -20969.3985] [Topology ] . ( 200 sec) [ -20969.3919] [Topology ] . ( 205 sec) [ -20969.3878] [Topology ] . ( 211 sec) [ -20969.3852] [Topology ] . ( 216 sec) [ -20969.3837] [Topology ] . ( 216 sec) [ -20969.3837] [Topology ] . ( 222 sec) [ -20969.3827] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -20969.382666. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 752.012843 1.000000 0.699017 47 0.473218 0.031000 0.074715 77 8.327369 0.880000 0.040549 94 25.109826 0.979000 0.061854 96 42.749132 0.991000 0.076931 100 39.566306 0.992000 0.078350 77 14.279737 0.862000 0.040163 33 1.373697 0.119000 0.018621 79 35.203788 0.967000 0.044255 100 93.899655 0.998000 0.066730 57 5.154973 0.837000 0.011887 100 97.948036 0.999000 0.036104 55 14.077093 0.861000 0.011935 100 92.617797 1.000000 0.133042 100 547.676679 1.000000 0.451164 100 212.497665 1.000000 0.194655 100 96.094043 1.000000 0.102527 91 21.515438 0.922000 0.046111 96 57.049565 0.987000 0.063782 100 313.953020 1.000000 0.190184 79 18.716976 0.921000 0.024917 56 5.292716 0.426000 0.034110 85 41.218883 0.955000 0.042859 96 50.354415 0.992000 0.057761 100 141.361996 1.000000 0.089273 100 162.663841 1.000000 0.107757 100 163.994942 1.000000 0.096659 78 21.420908 0.908000 0.030561 99 94.588722 0.999000 0.047774 36 2.272399 0.552000 0.004379 100 106.623411 1.000000 0.062121 86 36.394915 0.968000 0.029546 57 7.642138 0.541000 0.025575 51 7.445058 0.613000 0.016568 100 198.989016 1.000000 0.088561 100 160.022901 1.000000 0.072606 . Printing the most likely tree in file 'proteic_M2477_39x888_2005.phy_phyml_tree.txt'... . Time used 7h11m58s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo