.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1385_11x530_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... . 312 patterns found. (out of a total of 530 sites) . 226 sites without polymorphism (42.64%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 7Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -5575.9753] [ 810] [depth= 1] . ( 1 sec) [ -5571.0638] [ 810] [depth= 2] . ( 2 sec) [ -5565.1995] [ 810] [depth= 2] . ( 2 sec) [ -5562.6719] [ 808] [depth= 2] . ( 2 sec) [ -5558.7129] [ 810] [depth= 1] . ( 2 sec) [ -5554.8207] [ 811] [depth= 1] . ( 10 sec) [ -5545.4463] [Branch lengths ] . ( 26 sec) [ -5544.8544] [Branch lengths ] . ( 26 sec) [ -5544.8544] [Topology ] . ( 26 sec) [ -5544.8014] [Topology ] . ( 27 sec) [ -5544.7859] [Topology ] . ( 27 sec) [ -5544.7790] [Topology ] . ( 28 sec) [ -5544.7758] [Topology ] . ( 29 sec) [ -5544.7744] [Topology ] . ( 29 sec) [ -5544.7737] [Topology ] . ( 29 sec) [ -5544.7737] [Topology ] . ( 30 sec) [ -5544.7733] [Topology ] . Checking for NNIs, optimizing five branches... . ( 34 sec) [ -5543.9193] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5543.919269. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 196.188550 1.000000 0.262511 20 1.708065 0.196000 0.027518 19 7.988498 0.780000 0.031956 40 2.589545 0.320000 0.019138 25 12.168981 0.813000 0.027507 37 5.640742 0.665000 0.020468 63 7.146486 0.757000 0.023132 100 38.586138 0.978000 0.048019 . Printing the most likely tree in file 'proteic_M1385_11x530_2003.phy_phyml_tree.txt'... . Time used 0h44m14s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo