..........................                                      
 ooooooooooooooooooooooooooooo        CURRENT SETTINGS        ooooooooooooooooooooooooooooooooooo
                                 ..........................                                      

                . Sequence filename : 				 data19.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...

. 423 patterns found. (out of a total of 500 sites) 

. 70 sites without polymorphism (14.00%).

. 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=-9166.391103
. (    1 sec) [     -9163.6827] [GTR parameters     ]
. (    1 sec) [     -9163.5645] [Alpha              ][  0.962775]
. (    1 sec) [     -9163.5645] [Topology           ]
. (    2 sec) [     -9118.6274] [Topology           ]
. (    3 sec) [     -9110.9425] [Topology           ]
. (    4 sec) [     -9108.0749] [Topology           ]
. (    5 sec) [     -9106.8802] [Topology           ]
. (    6 sec) [     -9106.2436] [Topology           ]
. (    7 sec) [     -9105.8925] [Topology           ]
. (    8 sec) [     -9105.7386] [Topology           ]
. (    8 sec) [     -9105.6590] [Topology           ]
. (    9 sec) [     -9105.6166] [Topology           ]

. Checking for NNIs, optimizing five branches...

. Before opt ts/t=1.000000 LK=-9105.593658
. (   17 sec) [     -9105.5414] [GTR parameters     ]
. (   17 sec) [     -9105.4855] [Alpha              ][  0.986389]
. (   17 sec) [     -9105.4855] [Topology           ]
. (   18 sec) [     -9105.4674] [Topology           ]
. (   20 sec) [     -9105.4587] [Topology           ]
. (   21 sec) [     -9105.4542] [Topology           ]
. (   22 sec) [     -9105.4518] [Topology           ]
. (   24 sec) [     -9105.4505] [Topology           ]
. (   25 sec) [     -9105.4498] [Topology           ]

. Checking for NNIs, optimizing five branches...

. (   35 sec) [     -9105.4495] [Topology           ]
. Before opt ts/t=1.000000 LK=-9105.449465
. (   36 sec) [     -9105.4494] [GTR parameters     ]
. (   36 sec) [     -9105.4489] [Alpha              ][  0.988775]
. (   36 sec) [     -9105.4489] [Topology           ]
. (   37 sec) [     -9105.4484] [Topology           ]

. Checking for NNIs, optimizing five branches...

. Before opt ts/t=1.000000 LK=-9105.448438
. (   45 sec) [     -9105.4484] [GTR parameters     ]
. (   45 sec) [     -9105.4484] [Alpha              ][  0.988775]
. (   45 sec) [     -9105.4484] [Topology           ]
. (   46 sec) [     -9105.4482] [Topology           ]

. Checking for NNIs, optimizing five branches...


. Checking for NNIs, optimizing five branches...


. Log likelihood of the current tree: -9105.448221.

. Printing the most likely tree in file 'data19.phy_phyml_tree.txt'...


. Time used 0h1m2s

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo