.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data20.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... . 419 patterns found. (out of a total of 500 sites) . 77 sites without polymorphism (15.40%). . 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=-9819.544236 . ( 1 sec) [ -9818.9780] [GTR parameters ] . ( 1 sec) [ -9817.3593] [Alpha ][ 0.874247] . ( 1 sec) [ -9817.3593] [Topology ] . ( 1 sec) [ -9764.1157] [Topology ] . ( 2 sec) [ -9753.9386] [Topology ] . ( 3 sec) [ -9750.7269] [Topology ] . ( 4 sec) [ -9749.3574] [Topology ] . ( 4 sec) [ -9748.6569] [Topology ] . ( 5 sec) [ -9748.2723] [Topology ] . ( 6 sec) [ -9748.0537] [Topology ] . ( 7 sec) [ -9747.9264] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9747.926387 . ( 15 sec) [ -9747.8744] [GTR parameters ] . ( 15 sec) [ -9747.5766] [Alpha ][ 0.923577] . ( 15 sec) [ -9747.5766] [Topology ] . ( 17 sec) [ -9747.4687] [Topology ] . ( 18 sec) [ -9747.4098] [Topology ] . ( 19 sec) [ -9747.3755] [Topology ] . ( 20 sec) [ -9747.3552] [Topology ] . ( 21 sec) [ -9747.3432] [Topology ] . ( 22 sec) [ -9747.3361] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9747.336102 . ( 32 sec) [ -9747.3359] [GTR parameters ] . ( 32 sec) [ -9747.3331] [Alpha ][ 0.928476] . ( 32 sec) [ -9747.3331] [Topology ] . ( 33 sec) [ -9747.3284] [Topology ] . ( 34 sec) [ -9747.3256] [Topology ] . ( 36 sec) [ -9747.3240] [Topology ] . ( 37 sec) [ -9747.3230] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-9747.322977 . ( 48 sec) [ -9747.3230] [GTR parameters ] . ( 48 sec) [ -9747.3229] [Alpha ][ 0.929405] . ( 48 sec) [ -9747.3229] [Topology ] . ( 50 sec) [ -9747.3223] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -9747.322299. . Printing the most likely tree in file 'data20.phy_phyml_tree.txt'... . Time used 0h1m8s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo