IMPORTANT WARNING: Sequences Tax38 and Tax39 are exactly identical IMPORTANT WARNING: Sequences Tax34 and Tax35 are exactly identical IMPORTANT WARNING: Sequences Tax31 and Tax32 are exactly identical IMPORTANT WARNING: Sequences Tax36 and Tax37 are exactly identical IMPORTANT WARNING Found 4 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/simu_raxml/data7.phy.reduced You are using RAxML version 7.0.4 released by Alexandros Stamatakis in April 2008 Alignment has 288 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): 0.153250 pi(C): 0.252700 pi(G): 0.301600 pi(T): 0.292450 0.308943 -4320.284562 0.783214 -4319.123766 1.928205 -4314.055921 3.364485 -4311.152966 5.837731 -4309.578124 8.291917 -4309.376814 10.686246 -4309.271853 12.550950 -4309.183717 13.740510 -4309.101918 13.932353 -4309.101918 15.049011 -4307.876874 Overall Time for 1 Inference 15.062719 Likelihood : -4307.876874 Parsimony starting tree written to: /auto/dufayard/res/simu_raxml/./RAxML_parsimonyTree.data7.phy_RAXML Final tree written to: /auto/dufayard/res/simu_raxml/./RAxML_result.data7.phy_RAXML Execution Log File written to: /auto/dufayard/res/simu_raxml/./RAxML_log.data7.phy_RAXML Execution information file written to: /auto/dufayard/res/simu_raxml/./RAxML_info.data7.phy_RAXML