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/data92.phy.reduced You are using RAxML version 7.0.4 released by Alexandros Stamatakis in April 2008 Alignment has 393 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): 0.179400 pi(C): 0.235300 pi(G): 0.290700 pi(T): 0.294600 0.389876 -7941.375764 1.086314 -7941.375764 2.734674 -7934.963050 4.715298 -7931.556658 7.712495 -7931.032799 10.827810 -7930.924248 13.985361 -7930.841193 14.096476 -7930.780655 14.121159 -7930.780655 15.494294 -7930.696294 Overall Time for 1 Inference 15.511020 Likelihood : -7930.696294 Parsimony starting tree written to: /auto/dufayard/res/simu_raxml/./RAxML_parsimonyTree.data92.phy_RAXML Final tree written to: /auto/dufayard/res/simu_raxml/./RAxML_result.data92.phy_RAXML Execution Log File written to: /auto/dufayard/res/simu_raxml/./RAxML_log.data92.phy_RAXML Execution information file written to: /auto/dufayard/res/simu_raxml/./RAxML_info.data92.phy_RAXML