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/data70.phy.reduced You are using RAxML version 7.0.4 released by Alexandros Stamatakis in April 2008 Alignment has 363 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): 0.192300 pi(C): 0.216950 pi(G): 0.324300 pi(T): 0.266450 0.436709 -6431.596667 0.947635 -6431.596667 2.190366 -6423.530453 4.293909 -6417.537483 7.176792 -6416.618793 10.177240 -6416.364347 12.545536 -6416.182963 14.496431 -6416.094837 15.921780 -6416.094837 17.363054 -6415.137395 Overall Time for 1 Inference 17.377726 Likelihood : -6415.137395 Parsimony starting tree written to: /auto/dufayard/res/simu_raxml/./RAxML_parsimonyTree.data70.phy_RAXML Final tree written to: /auto/dufayard/res/simu_raxml/./RAxML_result.data70.phy_RAXML Execution Log File written to: /auto/dufayard/res/simu_raxml/./RAxML_log.data70.phy_RAXML Execution information file written to: /auto/dufayard/res/simu_raxml/./RAxML_info.data70.phy_RAXML