IMPORTANT WARNING: Alignment column 116 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 149 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 181 contains only undetermined values which will be treated as missing data

IMPORTANT WARNING
Found 3 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 
undetermined columns removed is printed to file /auto/dufayard/res/ori_prot_raxml/proteic_M1372_23x394_2003.phy.reduced


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

Alignment has 246 distinct alignment patterns

Proportion of gaps and completely undetermined characters in this alignment: 0.024608

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: AA
Substitution Matrix: WAG
Fixed Base Frequencies:
pi(A): 0.087000 pi(R): 0.044000 pi(N): 0.039000 pi(D): 0.057000 
pi(C): 0.019000 pi(Q): 0.037000 pi(E): 0.058000 pi(G): 0.083000 
pi(H): 0.024000 pi(I): 0.049000 pi(L): 0.086000 pi(K): 0.062000 
pi(M): 0.020000 pi(F): 0.038000 pi(P): 0.046000 pi(S): 0.070000 
pi(T): 0.061000 pi(W): 0.014000 pi(Y): 0.035000 pi(V): 0.071000 



3.366636 -4492.736175
12.621955 -4467.514956
27.068083 -4464.786064
43.415374 -4464.364549
76.500391 -4461.385241
135.560736 -4459.765091
192.844415 -4459.765091
238.241856 -4459.751623
275.223795 -4459.737911
295.748759 -4459.737911
296.177339 -4459.737911
300.458451 -4459.689436


Overall Time for 1 Inference 300.485159
Likelihood   : -4459.689436


Parsimony starting tree written to:    /auto/dufayard/res/ori_prot_raxml/./RAxML_parsimonyTree.proteic_M1372_23x394_2003.phy_RAXML
Final tree written to:                 /auto/dufayard/res/ori_prot_raxml/./RAxML_result.proteic_M1372_23x394_2003.phy_RAXML
Execution Log File written to:         /auto/dufayard/res/ori_prot_raxml/./RAxML_log.proteic_M1372_23x394_2003.phy_RAXML
Execution information file written to: /auto/dufayard/res/ori_prot_raxml/./RAxML_info.proteic_M1372_23x394_2003.phy_RAXML
295.89user 0.00system 5:00.50elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps