IMPORTANT WARNING: Alignment column 302 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 525 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 526 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 527 contains only undetermined values which will be treated as missing data
IMPORTANT WARNING: Alignment column 528 contains only undetermined values which will be treated as missing data


IMPORTANT WARNING: Sequences tax2 and tax8 are exactly identical


IMPORTANT WARNING: Sequences tax2 and tax50 are exactly identical


IMPORTANT WARNING: Sequences tax2 and tax61 are exactly identical


IMPORTANT WARNING: Sequences tax5 and tax7 are exactly identical


IMPORTANT WARNING: Sequences tax5 and tax15 are exactly identical


IMPORTANT WARNING: Sequences tax5 and tax62 are exactly identical


IMPORTANT WARNING: Sequences tax6 and tax19 are exactly identical


IMPORTANT WARNING: Sequences tax6 and tax42 are exactly identical


IMPORTANT WARNING: Sequences tax6 and tax43 are exactly identical


IMPORTANT WARNING: Sequences tax6 and tax46 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax14 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax16 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax55 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax57 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax58 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax63 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax65 are exactly identical


IMPORTANT WARNING: Sequences tax11 and tax69 are exactly identical


IMPORTANT WARNING: Sequences tax22 and tax31 are exactly identical


IMPORTANT WARNING: Sequences tax23 and tax39 are exactly identical


IMPORTANT WARNING: Sequences tax26 and tax27 are exactly identical


IMPORTANT WARNING: Sequences tax28 and tax29 are exactly identical


IMPORTANT WARNING: Sequences tax33 and tax36 are exactly identical


IMPORTANT WARNING: Sequences tax37 and tax52 are exactly identical


IMPORTANT WARNING: Sequences tax47 and tax48 are exactly identical


IMPORTANT WARNING: Sequences tax51 and tax54 are exactly identical


IMPORTANT WARNING: Sequences tax51 and tax56 are exactly identical

IMPORTANT WARNING
Found 27 sequences that are exactly identical to other sequences in the alignment.
Normally they should be excluded from the analysis.


IMPORTANT WARNING
Found 5 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_M2600_69x814_2006.phy.reduced


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

Alignment has 78 distinct alignment patterns

Proportion of gaps and completely undetermined characters in this alignment: 0.008867

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): 0.267407 pi(C): 0.163379 pi(G): 0.199450 pi(T): 0.369764



0.142654 -1762.579340
0.387013 -1757.924048
1.013212 -1756.451450
1.519303 -1756.054808
2.225846 -1755.968718
2.827895 -1755.896868
3.584594 -1755.836809
4.116951 -1755.836809
4.728799 -1753.183673


Overall Time for 1 Inference 4.746314
Likelihood   : -1753.183673


Parsimony starting tree written to:    /auto/dufayard/res/ori_nucl_raxml/./RAxML_parsimonyTree.nucleic_M2600_69x814_2006.phy_RAXML
Final tree written to:                 /auto/dufayard/res/ori_nucl_raxml/./RAxML_result.nucleic_M2600_69x814_2006.phy_RAXML
Execution Log File written to:         /auto/dufayard/res/ori_nucl_raxml/./RAxML_log.nucleic_M2600_69x814_2006.phy_RAXML
Execution information file written to: /auto/dufayard/res/ori_nucl_raxml/./RAxML_info.nucleic_M2600_69x814_2006.phy_RAXML