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

                . Sequence filename : 				 data69.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...

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

. 46 sites without polymorphism (9.20%).

. 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=-11173.737666
. (    1 sec) [    -11168.5712] [GTR parameters     ]
. (    1 sec) [    -11168.2821] [Alpha              ][  0.947402]
. (    1 sec) [    -11168.2821] [Topology           ]
. (    2 sec) [    -11068.6753] [Topology           ]
. (    4 sec) [    -11049.7537] [Topology           ]
. (    5 sec) [    -11045.0305] [Topology           ]
. (    5 sec) [    -11043.0991] [Topology           ]
. (    6 sec) [    -11042.2218] [Topology           ]
. (    7 sec) [    -11041.7763] [Topology           ]
. (    8 sec) [    -11041.5398] [Topology           ]
. (    9 sec) [    -11041.3785] [Topology           ]
. (   10 sec) [    -11040.7455] [Topology           ]

. Checking for NNIs, optimizing five branches...

. (   17 sec) [    -11040.4333] [Topology           ]
. Before opt ts/t=1.000000 LK=-11040.433323
. (   18 sec) [    -11040.2647] [GTR parameters     ]
. (   18 sec) [    -11040.2022] [Alpha              ][  0.970113]
. (   18 sec) [    -11040.2022] [Topology           ]
. (   19 sec) [    -11040.1562] [Topology           ]
. (   20 sec) [    -11040.1377] [Topology           ]
. (   22 sec) [    -11040.1280] [Topology           ]
. (   23 sec) [    -11040.1225] [Topology           ]
. (   24 sec) [    -11040.1193] [Topology           ]
. (   25 sec) [    -11040.1175] [Topology           ]

. Checking for NNIs, optimizing five branches...

. Before opt ts/t=1.000000 LK=-11040.117474
. (   35 sec) [    -11040.1173] [GTR parameters     ]
. (   35 sec) [    -11040.1167] [Alpha              ][  0.972223]
. (   35 sec) [    -11040.1167] [Topology           ]
. (   36 sec) [    -11040.1155] [Topology           ]
. (   37 sec) [    -11040.1148] [Topology           ]

. Checking for NNIs, optimizing five branches...

. Before opt ts/t=1.000000 LK=-11040.114800
. (   47 sec) [    -11040.1148] [GTR parameters     ]
. (   47 sec) [    -11040.1148] [Alpha              ][  0.972223]
. (   47 sec) [    -11040.1148] [Topology           ]
. (   49 sec) [    -11040.1144] [Topology           ]

. Checking for NNIs, optimizing five branches...


. Checking for NNIs, optimizing five branches...


. Log likelihood of the current tree: -11040.114360.

. Printing the most likely tree in file 'data69.phy_phyml_tree.txt'...


. Time used 0h1m8s

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