.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2476_30x719_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... . 620 patterns found. (out of a total of 719 sites) . 115 sites without polymorphism (15.99%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 44Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -24601.2724] [ 4916] [depth= 3] . ( 2 sec) [ -24581.5233] [ 4918] [depth= 1] . ( 4 sec) [ -24570.1528] [ 4921] [depth= 1] . ( 6 sec) [ -24557.8540] [ 4920] [depth= 3] . ( 7 sec) [ -24536.4460] [ 4926] [depth= 7] . ( 8 sec) [ -24528.6700] [ 4903] [depth= 1] . ( 12 sec) [ -24521.2556] [ 4908] [depth= 1] . ( 14 sec) [ -24518.3923] [ 4911] [depth= 2] . ( 14 sec) [ -24516.3379] [ 4912] [depth= 2] . ( 15 sec) [ -24505.0675] [ 4917] [depth= 1] . ( 16 sec) [ -24500.0480] [ 4912] [depth= 1] . ( 18 sec) [ -24499.3100] [ 4911] [depth= 1] . ( 19 sec) [ -24485.6651] [ 4915] [depth= 2] . ( 20 sec) [ -24485.2431] [ 4920] [depth= 1] . ( 21 sec) [ -24479.9371] [ 4924] [depth= 1] . ( 22 sec) [ -24468.3107] [ 4920] [depth= 1] . ( 23 sec) [ -24459.0583] [ 4914] [depth= 1] . ( 24 sec) [ -24446.3576] [ 4915] [depth= 1] . ( 25 sec) [ -24444.1172] [ 4914] [depth= 1] . ( 29 sec) [ -24442.8924] [ 4921] [depth= 1] . ( 30 sec) [ -24441.1307] [ 4916] [depth= 1] . ( 31 sec) [ -24441.1155] [ 4919] [depth= 1] . ( 32 sec) [ -24436.9828] [ 4916] [depth= 1] . ( 34 sec) [ -24422.1861] [ 4913] [depth= 1] . ( 35 sec) [ -24421.1205] [ 4917] [depth= 1] . ( 35 sec) [ -24414.1774] [ 4918] [depth= 1] . ( 45 sec) [ -24356.9478] [Branch lengths ] . ( 61 sec) [ -24355.0377] [ 4917] [depth= 1] . ( 62 sec) [ -24354.2544] [ 4913] [depth= 1] . ( 69 sec) [ -24350.0255] [ 4909] [depth= 1] . ( 96 sec) [ -24335.0291] [Branch lengths ] . ( 149 sec) [ -24330.7508] [Branch lengths ] . ( 149 sec) [ -24330.7508] [Topology ] . ( 153 sec) [ -24329.9038] [Topology ] . ( 156 sec) [ -24329.4820] [Topology ] . ( 160 sec) [ -24329.1944] [Topology ] . ( 164 sec) [ -24328.9918] [Topology ] . ( 167 sec) [ -24328.8473] [Topology ] . ( 171 sec) [ -24328.7435] [Topology ] . ( 171 sec) [ -24328.7435] [Topology ] . ( 175 sec) [ -24328.6680] [Topology ] . ( 178 sec) [ -24328.6132] [Topology ] . ( 182 sec) [ -24328.5734] [Topology ] . ( 186 sec) [ -24328.5444] [Topology ] . ( 190 sec) [ -24328.5231] [Topology ] . ( 193 sec) [ -24328.5075] [Topology ] . ( 193 sec) [ -24328.5075] [Topology ] . ( 197 sec) [ -24328.4961] [Topology ] . ( 201 sec) [ -24328.4877] [Topology ] . ( 204 sec) [ -24328.4815] [Topology ] . ( 208 sec) [ -24328.4769] [Topology ] . ( 212 sec) [ -24328.4735] [Topology ] . ( 215 sec) [ -24328.4710] [Topology ] . ( 216 sec) [ -24328.4710] [Topology ] . ( 219 sec) [ -24328.4691] [Topology ] . ( 223 sec) [ -24328.4678] [Topology ] . ( 227 sec) [ -24328.4667] [Topology ] . ( 230 sec) [ -24328.4660] [Topology ] . ( 231 sec) [ -24328.4660] [Topology ] . ( 234 sec) [ -24328.4654] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -24328.465423. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 358.187859 1.000000 0.460700 56 19.694461 0.945000 0.087371 69 12.946369 0.884000 0.118639 97 43.240293 0.982000 0.201175 60 21.310278 0.965000 0.258053 15 2.245277 0.523000 0.022045 37 15.823092 0.912000 0.040799 13 3.570944 0.303000 0.042737 22 5.687513 0.588000 0.029023 85 65.636002 0.999000 0.105501 25 1.495626 0.141000 0.024789 36 3.548427 0.435000 0.039187 97 59.286379 0.996000 0.102979 55 23.962319 0.946000 0.041310 20 9.669843 0.735000 0.024654 55 22.204845 0.967000 0.106311 100 49.932688 0.990000 0.149808 36 10.409927 0.748000 0.016029 70 8.647078 0.793000 0.026274 61 5.369552 0.699000 0.032442 37 6.971855 0.428000 0.043020 100 93.978126 0.999000 0.116759 44 9.003945 0.791000 0.041113 100 72.939011 0.998000 0.096839 100 94.851141 1.000000 0.124505 86 22.453417 0.931000 0.059185 56 11.385360 0.823000 0.055410 . Printing the most likely tree in file 'proteic_M2476_30x719_2005.phy_phyml_tree.txt'... . Time used 7h34m49s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo