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                                  ---  PhyML 3.3.3:3.3.20180621-2  ---                                             
                              http://www.atgc-montpellier.fr/phyml                                          
                             Copyright CNRS - Universite Montpellier                                 
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. Sequence filename: 			raytAln.phy
. Data set: 				#1
. Tree topology search: 		SPRs
. Initial tree: 			BioNJ
. Model of nucleotides substitution: 	GTR
. Number of taxa: 			21
. Log-likelihood: 			-3247.64682
. Unconstrained log-likelihood: 	-2180.08115
. Composite log-likelihood: 		-13492.27748
. Parsimony: 				645
. Tree size: 				2.67913
. Discrete gamma model: 		Yes
  - Number of classes: 			4
  - Gamma shape parameter: 		0.656
  - Relative rate in class 1: 		0.06479 [freq=0.250000] 		
  - Relative rate in class 2: 		0.34193 [freq=0.250000] 		
  - Relative rate in class 3: 		0.90734 [freq=0.250000] 		
  - Relative rate in class 4: 		2.68594 [freq=0.250000] 		
. Nucleotides frequencies:
  - f(A)=  0.19453
  - f(C)=  0.29870
  - f(G)=  0.28964
  - f(T)=  0.21713
. GTR relative rate parameters : 
  A <-> C    1.45900
  A <-> G    3.46834
  A <-> T    0.12583
  C <-> G    0.94335
  C <-> T    4.93157
  G <-> T    1.00000

. Instantaneous rate matrix : 
  [A---------C---------G---------T------]
  -0.97865   0.29059   0.66984   0.01822  
   0.18925  -1.08544   0.18219   0.71400  
   0.44987   0.18789  -0.78254   0.14478  
   0.01632   0.98222   0.19313  -1.19167  



. Run ID:				none
. Random seed:				1636635181
. Subtree patterns aliasing:		no
. Version:				3.3.3:3.3.20180621-2
. Time used:				0h0m3s (3 seconds)

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 Suggested citations:
 S. Guindon, JF. Dufayard, V. Lefort, M. Anisimova, W. Hordijk, O. Gascuel
 "New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0."
 Systematic Biology. 2010. 59(3):307-321.

 S. Guindon & O. Gascuel
 "A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood"
 Systematic Biology. 2003. 52(5):696-704.
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