.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data15.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... . 424 patterns found. (out of a total of 500 sites) . 69 sites without polymorphism (13.80%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-9232.261190 . ( 1 sec) [ -9223.1516] [GTR parameters ] . ( 1 sec) [ -9221.6649] [Alpha ][ 0.876656] . ( 1 sec) [ -9221.6649] [Topology ] . ( 2 sec) [ -9163.9155] [Topology ] . ( 3 sec) [ -9152.7065] [Topology ] . ( 4 sec) [ -9149.0056] [Topology ] . ( 5 sec) [ -9147.2834] [Topology ] . ( 7 sec) [ -9146.3846] [Topology ] . ( 8 sec) [ -9145.8961] [Topology ] . ( 9 sec) [ -9145.6216] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9145.621608 . ( 15 sec) [ -9145.5746] [GTR parameters ] . ( 15 sec) [ -9145.5006] [Alpha ][ 0.900803] . ( 15 sec) [ -9145.5006] [Topology ] . ( 16 sec) [ -9145.3417] [Topology ] . ( 17 sec) [ -9145.2518] [Topology ] . ( 18 sec) [ -9145.2001] [Topology ] . ( 19 sec) [ -9145.1700] [Topology ] . ( 19 sec) [ -9145.1523] [Topology ] . ( 20 sec) [ -9145.1419] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9145.141931 . ( 30 sec) [ -9145.1415] [GTR parameters ] . ( 30 sec) [ -9145.1414] [Alpha ][ 0.899898] . ( 30 sec) [ -9145.1414] [Topology ] . ( 31 sec) [ -9145.1352] [Topology ] . ( 32 sec) [ -9145.1314] [Topology ] . ( 33 sec) [ -9145.1292] [Topology ] . ( 34 sec) [ -9145.1279] [Topology ] . ( 36 sec) [ -9145.1272] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9145.127155 . ( 46 sec) [ -9145.1272] [GTR parameters ] . ( 47 sec) [ -9145.1271] [Alpha ][ 0.898998] . ( 47 sec) [ -9145.1271] [Topology ] . ( 48 sec) [ -9145.1266] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -9145.126630. . Printing the most likely tree in file 'data15.phy_phyml_tree.txt'... . Time used 0h1m5s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo