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

                . Sequence filename : 				 data32.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...

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

. 126 sites without polymorphism (25.20%).

. Computing pairwise distances...

. Building BioNJ tree...

. This analysis requires at least 7Mo of memory space.

. Maximizing likelihood (using NNI moves)...

. Before opt ts/t=1.000000 LK=-6050.767439
. (    1 sec) [     -6049.9424] [GTR parameters     ]
. (    1 sec) [     -6049.0215] [Alpha              ][  1.151920]
. (    1 sec) [     -6049.0215] [Topology           ]
. (    2 sec) [     -6033.2685] [Topology           ]
. (    2 sec) [     -6031.6348] [Topology           ]
. (    3 sec) [     -6031.2775] [Topology           ]
. (    4 sec) [     -6031.1739] [Topology           ]
. (    5 sec) [     -6031.1396] [Topology           ]
. (    5 sec) [     -6031.1271] [Topology           ]
. (    6 sec) [     -6031.1224] [Topology           ]

. Checking for NNIs, optimizing five branches...

. Before opt ts/t=1.000000 LK=-6031.122354
. (   11 sec) [     -6031.1169] [GTR parameters     ]
. (   11 sec) [     -6031.0936] [Alpha              ][  1.177729]
. (   11 sec) [     -6031.0936] [Topology           ]
. (   12 sec) [     -6031.0902] [Topology           ]
. (   12 sec) [     -6031.0890] [Topology           ]
. (   13 sec) [     -6031.0885] [Topology           ]

. Checking for NNIs, optimizing five branches...

. Before opt ts/t=1.000000 LK=-6031.088514
. (   18 sec) [     -6031.0885] [GTR parameters     ]
. (   18 sec) [     -6031.0884] [Alpha              ][  1.179251]
. (   18 sec) [     -6031.0884] [Topology           ]
. (   19 sec) [     -6031.0882] [Topology           ]

. Checking for NNIs, optimizing five branches...


. Checking for NNIs, optimizing five branches...


. Log likelihood of the current tree: -6031.088198.

. Printing the most likely tree in file 'data32.phy_phyml_tree.txt'...


. Time used 0h0m28s

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