.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1379_9x1557_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... . 720 patterns found. (out of a total of 1557 sites) . 838 sites without polymorphism (53.82%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 13Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -11604.8686] [ 1355] [depth= 1] . ( 2 sec) [ -11587.6061] [ 1348] [depth= 1] . ( 3 sec) [ -11575.9517] [ 1349] [depth= 1] . ( 3 sec) [ -11571.9116] [ 1348] [depth= 1] . ( 5 sec) [ -11561.8546] [ 1349] [depth= 1] . ( 9 sec) [ -11534.4897] [Branch lengths ] . ( 18 sec) [ -11532.6927] [Branch lengths ] . ( 18 sec) [ -11532.6927] [Topology ] . ( 19 sec) [ -11532.5749] [Topology ] . ( 20 sec) [ -11532.5471] [Topology ] . ( 21 sec) [ -11532.5389] [Topology ] . ( 22 sec) [ -11532.5361] [Topology ] . ( 23 sec) [ -11532.5351] [Topology ] . ( 23 sec) [ -11532.5351] [Topology ] . ( 24 sec) [ -11532.5347] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11532.534742. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 513.170727 1.000000 0.239904 45 1.896980 0.242000 0.017353 85 32.602875 0.963000 0.025057 63 54.289639 0.989000 0.028730 58 29.584284 0.812000 0.030085 62 8.008225 0.728000 0.010065 . Printing the most likely tree in file 'proteic_M1379_9x1557_2003.phy_phyml_tree.txt'... . Time used 0h47m16s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo