.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2637_19x380_2006.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... . 73 patterns found. (out of a total of 380 sites) . 334 sites without polymorphism (87.89%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 4Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -1609.5840] [ 66] [depth= 1] . ( 7 sec) [ -1609.2106] [ 66] [depth= 1] . ( 15 sec) [ -1608.3369] [ 66] [depth= 1] . ( 15 sec) [ -1608.2136] [ 66] [depth= 1] . ( 16 sec) [ -1608.1151] [ 66] [depth= 1] . ( 17 sec) [ -1607.1113] [ 66] [depth= 2] . ( 17 sec) [ -1606.7352] [ 66] [depth= 1] . ( 18 sec) [ -1606.7129] [ 66] [depth= 1] . ( 20 sec) [ -1606.1506] [ 66] [depth= 2] . ( 20 sec) [ -1605.3597] [ 66] [depth= 1] . ( 21 sec) [ -1604.1625] [Branch lengths ] . ( 53 sec) [ -1604.1603] [Branch lengths ] . ( 53 sec) [ -1604.1603] [Topology ] . ( 53 sec) [ -1604.1603] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -1604.160265. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 24 -1.000000 0.000000 0.000000 100 33.266227 0.968000 0.016548 70 2.338694 0.758000 0.002951 61 32.730856 0.945000 0.011068 8 -1.000000 0.000000 0.000000 96 49.468197 0.979000 0.016707 38 20.930159 0.940000 0.008310 55 11.281359 0.774000 0.002757 50 9.144954 0.858000 0.002734 17 3.003082 0.387000 0.002748 89 32.097757 0.952000 0.011132 14 -1.000000 0.000000 0.000000 93 31.836484 0.947000 0.013276 47 11.959347 0.806000 0.002765 97 44.908624 0.975000 0.011086 45 -1.000000 0.000000 0.000000 . Printing the most likely tree in file 'proteic_M2637_19x380_2006.phy_phyml_tree.txt'... . Time used 1h33m41s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo