IMPORTANT WARNING: Sequences tax19 and tax36 are exactly identical IMPORTANT WARNING: Sequences tax20 and tax35 are exactly identical IMPORTANT WARNING: Sequences tax37 and tax38 are exactly identical IMPORTANT WARNING Found 3 sequences that are exactly identical to other sequences in the alignment. Normally they should be excluded from the analysis. Just in case you might need it, an alignment file with sequence duplicates removed is printed to file /auto/dufayard/res/ori_nucl_raxml/nucleic_M2974_56x827_2006.phy.reduced You are using RAxML version 7.0.4 released by Alexandros Stamatakis in April 2008 Alignment has 330 distinct alignment patterns Proportion of gaps and completely undetermined characters in this alignment: 0.069895 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): 0.265560 pi(C): 0.208507 pi(G): 0.301335 pi(T): 0.224598 0.472976 -5439.743866 1.301382 -5429.278295 3.615987 -5411.760038 6.319467 -5390.743024 9.189423 -5389.477688 12.642147 -5389.249350 16.068717 -5389.154437 19.532860 -5389.064596 21.866280 -5389.064596 24.763620 -5378.809463 Overall Time for 1 Inference 24.778177 Likelihood : -5378.809463 Parsimony starting tree written to: /auto/dufayard/res/ori_nucl_raxml/./RAxML_parsimonyTree.nucleic_M2974_56x827_2006.phy_RAXML Final tree written to: /auto/dufayard/res/ori_nucl_raxml/./RAxML_result.nucleic_M2974_56x827_2006.phy_RAXML Execution Log File written to: /auto/dufayard/res/ori_nucl_raxml/./RAxML_log.nucleic_M2974_56x827_2006.phy_RAXML Execution information file written to: /auto/dufayard/res/ori_nucl_raxml/./RAxML_info.nucleic_M2974_56x827_2006.phy_RAXML