IMPORTANT WARNING: Sequences Tax38 and Tax39 are exactly identical IMPORTANT WARNING Found 1 sequence that is 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/simu_raxml/data62.phy.reduced You are using RAxML version 7.0.4 released by Alexandros Stamatakis in April 2008 Alignment has 398 distinct alignment patterns Proportion of gaps and completely undetermined characters in this alignment: 0.000000 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): 0.182450 pi(C): 0.243300 pi(G): 0.294850 pi(T): 0.279400 0.487951 -8182.402495 1.129346 -8182.402495 2.747873 -8173.970221 5.045409 -8169.234454 8.456734 -8168.297590 11.847269 -8168.044246 15.178937 -8167.827559 18.333535 -8167.712642 20.190987 -8167.641665 20.216582 -8167.641665 21.828196 -8167.182572 Overall Time for 1 Inference 21.843305 Likelihood : -8167.182572 Parsimony starting tree written to: /auto/dufayard/res/simu_raxml/./RAxML_parsimonyTree.data62.phy_RAXML Final tree written to: /auto/dufayard/res/simu_raxml/./RAxML_result.data62.phy_RAXML Execution Log File written to: /auto/dufayard/res/simu_raxml/./RAxML_log.data62.phy_RAXML Execution information file written to: /auto/dufayard/res/simu_raxml/./RAxML_info.data62.phy_RAXML