.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2928_81x1651_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... . 507 patterns found. (out of a total of 1651 sites) . 1189 sites without polymorphism (72.02%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 22Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 0 sec) [ -7271.1166] [GTR parameters ] . ( 1 sec) [ -7211.7409] [Alpha ][ 0.500960] . ( 1 sec) [ -7211.7409] [Topology ] . ( 3 sec) [ -7160.8695] [Topology ] . ( 4 sec) [ -7154.3487] [Topology ] . ( 6 sec) [ -7153.3527] [Topology ] . ( 8 sec) [ -7153.1361] [Topology ] . ( 9 sec) [ -7153.0829] [Topology ] . ( 11 sec) [ -7153.0680] [Topology ] . ( 12 sec) [ -7153.0627] [Topology ] . Checking for NNIs, optimizing five branches... . ( 22 sec) [ -7153.0624] [Topology ] . ( 23 sec) [ -6779.6365] [GTR parameters ] . ( 23 sec) [ -6743.8588] [Alpha ][ 0.250961] . ( 23 sec) [ -6743.8588] [Topology ] . ( 24 sec) [ -6741.1234] [Topology ] . ( 26 sec) [ -6739.6027] [Topology ] . ( 27 sec) [ -6739.2739] [Topology ] . ( 29 sec) [ -6738.9728] [Topology ] . ( 30 sec) [ -6738.7325] [Topology ] . ( 31 sec) [ -6738.6617] [Topology ] . ( 33 sec) [ -6738.6343] [Topology ] . ( 34 sec) [ -6738.6228] [Topology ] . ( 36 sec) [ -6738.6179] [Topology ] . Checking for NNIs, optimizing five branches... . ( 47 sec) [ -6738.6022] [Topology ] . ( 51 sec) [ -6693.1323] [GTR parameters ] . ( 51 sec) [ -6690.7125] [Alpha ][ 0.206643] . ( 51 sec) [ -6690.7125] [Topology ] . ( 53 sec) [ -6690.0654] [Topology ] . ( 54 sec) [ -6689.9338] [Topology ] . ( 56 sec) [ -6689.8854] [Topology ] . ( 57 sec) [ -6689.8660] [Topology ] . ( 59 sec) [ -6689.8580] [Topology ] . ( 60 sec) [ -6689.8546] [Topology ] . Checking for NNIs, optimizing five branches... . ( 70 sec) [ -6689.8543] [Topology ] . ( 73 sec) [ -6689.7198] [GTR parameters ] . ( 73 sec) [ -6689.7187] [Alpha ][ 0.205782] . ( 74 sec) [ -6689.7187] [Topology ] . ( 75 sec) [ -6689.7127] [Topology ] . ( 76 sec) [ -6689.7105] [Topology ] . ( 78 sec) [ -6689.7096] [Topology ] . Checking for NNIs, optimizing five branches... . ( 88 sec) [ -6689.7095] [Topology ] . ( 89 sec) [ -6689.7092] [GTR parameters ] . ( 89 sec) [ -6689.7091] [Alpha ][ 0.206039] . ( 89 sec) [ -6689.7091] [Topology ] . ( 90 sec) [ -6689.7086] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6689.708590. . Printing the most likely tree in file 'nucleic_M2928_81x1651_2006.phy_phyml_tree.txt'... . Time used 0h1m51s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 109.99user 0.00system 1:51.71elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps