.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1378_18x1561_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... . 855 patterns found. (out of a total of 1561 sites) . 765 sites without polymorphism (49.01%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 34Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 5 sec) [ -16125.1299] [ 2158] [depth= 2] . ( 6 sec) [ -16102.4551] [ 2149] [depth= 3] . ( 7 sec) [ -16087.7199] [ 2155] [depth= 1] . ( 7 sec) [ -16076.9157] [ 2149] [depth= 3] . ( 8 sec) [ -16065.3047] [ 2144] [depth= 4] . ( 9 sec) [ -16053.2186] [ 2139] [depth= 1] . ( 9 sec) [ -16041.9387] [ 2135] [depth= 1] . ( 10 sec) [ -16040.4562] [ 2142] [depth= 1] . ( 10 sec) [ -16038.4261] [ 2143] [depth= 1] . ( 11 sec) [ -16017.3425] [ 2136] [depth= 1] . ( 11 sec) [ -16010.8591] [ 2146] [depth= 1] . ( 15 sec) [ -16009.3823] [ 2149] [depth= 1] . ( 15 sec) [ -16006.5896] [ 2148] [depth= 1] . ( 19 sec) [ -16001.3247] [ 2151] [depth= 2] . ( 20 sec) [ -15991.1768] [ 2144] [depth= 1] . ( 21 sec) [ -15988.8669] [ 2144] [depth= 1] . ( 25 sec) [ -15913.0553] [Branch lengths ] . ( 27 sec) [ -15889.8140] [ 2135] [depth= 1] . ( 36 sec) [ -15889.0796] [ 2135] [depth= 2] . ( 38 sec) [ -15885.1600] [ 2130] [depth= 2] . ( 49 sec) [ -15884.1181] [ 2131] [depth= 1] . ( 53 sec) [ -15873.8362] [Branch lengths ] . ( 92 sec) [ -15873.1431] [Branch lengths ] . ( 92 sec) [ -15873.1431] [Topology ] . ( 95 sec) [ -15873.1072] [Topology ] . ( 98 sec) [ -15873.0981] [Topology ] . ( 101 sec) [ -15873.0943] [Topology ] . ( 104 sec) [ -15873.0925] [Topology ] . ( 106 sec) [ -15873.0917] [Topology ] . ( 107 sec) [ -15873.0917] [Topology ] . ( 109 sec) [ -15873.0914] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -15873.091361. . Launch bootstrap analysis on the most likely tree... . Non parametric bootstrap analysis [....................] 20/ 100 [....................] 40/ 100 [....................] 60/ 100 [....................] 80/ 100 [....................] 100/ 100 Graphics: 100 512.509508 1.000000 0.256959 100 198.231838 1.000000 0.102364 38 14.504134 0.767000 0.034127 100 175.276331 1.000000 0.067346 22 16.989785 0.941000 0.015748 8 12.002418 0.889000 0.005852 4 8.676621 0.846000 0.006396 26 39.533024 0.973000 0.015117 62 22.504382 0.948000 0.016967 67 50.106879 0.994000 0.030938 67 63.844791 0.978000 0.034978 17 4.461614 0.610000 0.008078 23 4.637566 0.578000 0.009122 100 110.261361 1.000000 0.041748 96 45.177412 0.990000 0.025174 . Printing the most likely tree in file 'proteic_M1378_18x1561_2003.phy_phyml_tree.txt'... . Time used 3h55m21s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo