IMPORTANT WARNING: Alignment column 500 contains only undetermined values which will be treated as missing data

IMPORTANT WARNING
Found 1 column that contains 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/bigdatasets_raxml_nucl/nucleic_M3562_626x4716_2007.phy.reduced


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

Alignment has 3996 distinct alignment patterns

Proportion of gaps and completely undetermined characters in this alignment: 0.314727

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): 0.286526 pi(C): 0.175037 pi(G): 0.187122 pi(T): 0.351316



440.696618 -156313.836131
594.823853 -156141.654486
1273.984753 -156020.451281
3236.115148 -155865.826690
6448.720635 -155799.135983
10066.232391 -155794.291826
10160.303720 -155500.591094
14531.728084 -155331.230840
17878.915821 -155220.532794
20762.844587 -155170.078110
23124.224611 -155128.091541
25132.245747 -155067.931560
26931.155595 -155030.694633
28780.251316 -155017.546507
30447.173547 -155010.119737
32048.586599 -155004.777154
33452.402484 -155003.714331
34818.933780 -155003.275207
36154.413614 -155002.991403
37507.745406 -155002.783254
38872.882083 -155002.241926
40236.712986 -155001.683163
41644.514302 -154995.813948
42954.598066 -154995.559787
44267.144133 -154995.559787
45441.324643 -154987.869480
46479.456133 -154985.169959
47434.805088 -154984.214010
48359.874982 -154983.738280
49274.530424 -154983.737618
50700.349310 -154983.732986
55178.243711 -154983.732986
61237.227100 -154982.507980
62512.737470 -154982.507980
64667.630760 -154982.507980
68945.547796 -154979.264813
70202.035556 -154978.614166
71262.210338 -154978.614166
72907.729849 -154978.402415
74083.560013 -154978.298458
75931.856231 -154978.296560
80250.961616 -154978.295526
86301.263113 -154978.295526
86767.763621 -154978.103679


Overall Time for 1 Inference 86767.852393
Likelihood   : -154978.103679


Parsimony starting tree written to:    /auto/dufayard/res/bigdatasets_raxml_nucl/./RAxML_parsimonyTree.nucleic_M3562_626x4716_2007.phy_RAXML
Final tree written to:                 /auto/dufayard/res/bigdatasets_raxml_nucl/./RAxML_result.nucleic_M3562_626x4716_2007.phy_RAXML
Execution Log File written to:         /auto/dufayard/res/bigdatasets_raxml_nucl/./RAxML_log.nucleic_M3562_626x4716_2007.phy_RAXML
Execution information file written to: /auto/dufayard/res/bigdatasets_raxml_nucl/./RAxML_info.nucleic_M3562_626x4716_2007.phy_RAXML