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

                . Sequence filename : 				 proteic_M1989_18x173_2004.phy
                . Data type :             			 aa
                . Sequence format : 				 interleaved
                . Number of data sets : 			 1
                . Nb of bootstrapped data sets : 		 0
                . Model name : 					 WAG
                . Proportion of invariable sites :		 0.000000
                . Number of subst. rate categs : 		 4
                . Gamma distribution parameter : 		 estimated
                . 'Middle' of each rate class  : 		 mean
                . Amino acid equilibrium frequencies : 		 model
                . Optimise tree topology : 			 yes
                . Tree topology search : 			 SPRs
                . Starting tree : 				 BioNJ
                . Add random input tree : 			 no
                . Optimise branch lengths : 			 yes
                . Optimise substitution model parameters : 	 yes
                . Run ID : 					 none

 oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo



. 7 sites are made from completely undetermined states ('X', '-', '?')...

. Compressing sequences...

. 139 patterns found. (out of a total of 173 sites) 

. 46 sites without polymorphism (26.59%).

. Computing pairwise distances...

. Building BioNJ tree...

. This analysis requires at least 6Mo of memory space.

. Maximizing likelihood (using SPR moves)...

. (    0 sec) [     -3205.9405] [Alpha              ][  0.715572]
. (    0 sec) [     -3204.8230] [  588] [depth=    1]
. (    1 sec) [     -3204.4975] [  588] [depth=    1]
. (    1 sec) [     -3202.1815] [  588] [depth=    1]
. (    1 sec) [     -3201.6828] [  588] [depth=    1]
. (    1 sec) [     -3201.4585] [  588] [depth=    1]
. (    1 sec) [     -3201.3209] [  588] [depth=    1]
. (    2 sec) [     -3200.3034] [  590] [depth=    1]
. (    2 sec) [     -3196.8229] [  588] [depth=    1]
. (    2 sec) [     -3194.9065] [  588] [depth=    1]
. (    3 sec) [     -3194.5323] [  587] [depth=    1]
. (    3 sec) [     -3190.4379] [  586] [depth=    2]
. (    4 sec) [     -3181.8165] [Branch lengths     ]
. (    4 sec) [     -3181.5951] [Alpha              ][  0.780554]
. (    5 sec) [     -3181.5797] [  586] [depth=    1]
. (    5 sec) [     -3181.5490] [  586] [depth=    1]
. (    8 sec) [     -3181.0164] [Branch lengths     ]
. (    8 sec) [     -3181.0126] [Alpha              ][  0.789701]
. (    8 sec) [     -3181.0126] [Topology           ]
. (    9 sec) [     -3179.9852] [Topology           ]
. (    9 sec) [     -3179.9202] [Topology           ]
. (   10 sec) [     -3179.9089] [Topology           ]
. (   10 sec) [     -3179.9049] [Topology           ]
. (   11 sec) [     -3179.9032] [Topology           ]
. (   11 sec) [     -3179.9024] [Topology           ]
. (   12 sec) [     -3179.8982] [Alpha              ][  0.799475]
. (   12 sec) [     -3179.8982] [Topology           ]
. (   12 sec) [     -3179.8974] [Topology           ]
. (   12 sec) [     -3179.8974] [Alpha              ][  0.799475]

. Checking for NNIs, optimizing five branches...


. Log likelihood of the current tree: -3179.897436.

. Printing the most likely tree in file 'proteic_M1989_18x173_2004.phy_phyml_tree.txt'...


. Time used 0h0m16s

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
16.03user 0.00system 0:16.12elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps