IMPORTANT WARNING: Alignment column 102 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 103 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 104 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 105 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 106 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 107 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 108 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 109 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 110 contains only undetermined values which will be treated as missing data

IMPORTANT WARNING
Found 9 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_M1991_32x129_2004.phy.reduced


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

Alignment has 113 distinct alignment patterns

Proportion of gaps and completely undetermined characters in this alignment: 0.298934

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 



10.133060 -2407.691246
16.162753 -2390.673268
26.111790 -2387.826530
39.630332 -2387.681513
72.048816 -2384.293004
114.888193 -2384.292969
152.557035 -2384.292934
186.159263 -2384.292899
215.012891 -2384.292864
235.556421 -2384.292864
241.046415 -2384.292638


Overall Time for 1 Inference 241.061508
Likelihood   : -2384.292638


Parsimony starting tree written to:    /auto/dufayard/res/ori_prot_raxml/./RAxML_parsimonyTree.proteic_M1991_32x129_2004.phy_RAXML
Final tree written to:                 /auto/dufayard/res/ori_prot_raxml/./RAxML_result.proteic_M1991_32x129_2004.phy_RAXML
Execution Log File written to:         /auto/dufayard/res/ori_prot_raxml/./RAxML_log.proteic_M1991_32x129_2004.phy_RAXML
Execution information file written to: /auto/dufayard/res/ori_prot_raxml/./RAxML_info.proteic_M1991_32x129_2004.phy_RAXML
239.50user 0.00system 4:01.07elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k
0inputs+0outputs (0major+0minor)pagefaults 0swaps