.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2738_53x1538_2006.phy . Data type : dna . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : GTR . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Nucleotide equilibrium frequencies : empirical . Optimise tree topology : yes . Tree topology search : NNIs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 762 patterns found. (out of a total of 1538 sites) . 828 sites without polymorphism (53.84%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 21Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -14871.4533] [GTR parameters ] . ( 1 sec) [ -14653.1273] [Alpha ][ 0.500960] . ( 1 sec) [ -14653.1273] [Topology ] . ( 3 sec) [ -14475.8787] [Topology ] . ( 5 sec) [ -14449.9667] [Topology ] . ( 6 sec) [ -14437.7778] [Topology ] . ( 8 sec) [ -14433.7019] [Topology ] . ( 10 sec) [ -14432.2135] [Topology ] . ( 11 sec) [ -14431.6513] [Topology ] . ( 13 sec) [ -14431.4138] [Topology ] . ( 15 sec) [ -14431.3098] [Topology ] . ( 16 sec) [ -14431.2636] [Topology ] . Checking for NNIs, optimizing five branches... . ( 34 sec) [ -13978.0628] [GTR parameters ] . ( 34 sec) [ -13925.0703] [Alpha ][ 0.310835] . ( 34 sec) [ -13925.0703] [Topology ] . ( 36 sec) [ -13913.8490] [Topology ] . ( 38 sec) [ -13912.8086] [Topology ] . ( 40 sec) [ -13912.5969] [Topology ] . ( 41 sec) [ -13912.5496] [Topology ] . ( 43 sec) [ -13912.5342] [Topology ] . ( 45 sec) [ -13912.5281] [Topology ] . ( 47 sec) [ -13912.5254] [Topology ] . ( 48 sec) [ -13912.5242] [Topology ] . Checking for NNIs, optimizing five branches... . ( 66 sec) [ -13910.7996] [GTR parameters ] . ( 66 sec) [ -13910.4734] [Alpha ][ 0.299981] . ( 66 sec) [ -13910.4734] [Topology ] . ( 68 sec) [ -13910.3270] [Topology ] . ( 69 sec) [ -13910.3021] [Topology ] . ( 71 sec) [ -13910.2910] [Topology ] . ( 73 sec) [ -13910.2855] [Topology ] . ( 75 sec) [ -13910.2828] [Topology ] . ( 76 sec) [ -13910.2814] [Topology ] . Checking for NNIs, optimizing five branches... . ( 89 sec) [ -13910.2341] [Topology ] . ( 92 sec) [ -13910.1845] [GTR parameters ] . ( 92 sec) [ -13910.1744] [Alpha ][ 0.298017] . ( 92 sec) [ -13910.1744] [Topology ] . ( 94 sec) [ -13910.1474] [Topology ] . ( 96 sec) [ -13910.1430] [Topology ] . ( 98 sec) [ -13910.1416] [Topology ] . ( 100 sec) [ -13910.1410] [Topology ] . Checking for NNIs, optimizing five branches... . ( 113 sec) [ -13910.1397] [GTR parameters ] . ( 113 sec) [ -13910.1397] [Alpha ][ 0.298017] . ( 113 sec) [ -13910.1397] [Topology ] . ( 115 sec) [ -13910.1391] [Topology ] . Checking for NNIs, optimizing five branches... . ( 129 sec) [ -13910.1390] [GTR parameters ] . ( 129 sec) [ -13910.1390] [Alpha ][ 0.298017] . ( 129 sec) [ -13910.1390] [Topology ] . ( 131 sec) [ -13910.1388] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -13910.138779. . Printing the most likely tree in file 'nucleic_M2738_53x1538_2006.phy_phyml_tree.txt'... . Time used 0h2m37s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 155.89user 0.00system 2:37.67elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps