IMPORTANT WARNING: Alignment column 332 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 502 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 658 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 659 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 785 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 943 contains only undetermined values which will be treated as missing data


IMPORTANT WARNING: Sequences tax101 and tax102 are exactly identical

IMPORTANT WARNING
Found 1 sequence that is exactly identical to other sequences in the alignment.
Normally they should be excluded from the analysis.


IMPORTANT WARNING
Found 6 columns that contain only undetermined values which will be treated as missing data.
Normally these columns should be excluded from the analysis.

Just in case you might need it, an alignment file with 
sequence duplicates and undetermined columns removed is printed to file /auto/dufayard/res/ori_nucl_raxml/nucleic_M2946_110x1003_2006.phy.reduced


You are using RAxML version 7.0.4 released by Alexandros Stamatakis in April 2008

Alignment has 614 distinct alignment patterns

Proportion of gaps and completely undetermined characters in this alignment: 0.191118

RAxML rapid hill-climbing mode

Executing 1 inference on the original alignment using a distinct randomized MP tree

All free model parameters will be estimated by RAxML
GAMMA model of rate heteorgeneity, ML estimate of alpha-parameter
GAMMA Model parameters will be estimated up to an accuracy of 0.1000000000 Log Likelihood units

Partition: 0
Name: No Name Provided
DataType: DNA
Substitution Matrix: GTR
Empirical Base Frequencies:
pi(A): 0.248313 pi(C): 0.226223 pi(G): 0.311915 pi(T): 0.213549



3.311520 -17279.689063
6.602031 -17233.404982
16.049870 -17232.799706
34.129216 -17114.482792
48.396338 -17060.983833
64.628786 -17041.010964
79.294445 -17032.786290
92.689084 -17032.649046
106.603900 -17032.050981
120.658775 -17031.839731
141.066420 -17028.789347
160.644718 -17027.824962
179.853200 -17027.726220
198.667987 -17027.639071
226.554434 -17027.561081
244.913697 -17027.561081
260.066726 -16997.259547


Overall Time for 1 Inference 260.083687
Likelihood   : -16997.259547


Parsimony starting tree written to:    /auto/dufayard/res/ori_nucl_raxml/./RAxML_parsimonyTree.nucleic_M2946_110x1003_2006.phy_RAXML
Final tree written to:                 /auto/dufayard/res/ori_nucl_raxml/./RAxML_result.nucleic_M2946_110x1003_2006.phy_RAXML
Execution Log File written to:         /auto/dufayard/res/ori_nucl_raxml/./RAxML_log.nucleic_M2946_110x1003_2006.phy_RAXML
Execution information file written to: /auto/dufayard/res/ori_nucl_raxml/./RAxML_info.nucleic_M2946_110x1003_2006.phy_RAXML