CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag CIPRES_THREADSPP=4 CIPRES_NP=12 running: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag This is RAxML MPI Process Number: 0 This is RAxML MPI Process Number: 1 This is RAxML MPI Process Number: 2 This is RAxML MPI Process Number: 3 This is RAxML MPI Process Number: 4 This is RAxML MPI Process Number: 5 This is RAxML MPI Process Number: 6 This is RAxML MPI Process Number: 7 This is RAxML MPI Process Number: 8 This is RAxML MPI Process Number: 9 This is RAxML MPI Process Number: 10 This is RAxML MPI Process Number: 11 Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" IMPORTANT WARNING: Alignment column 153 contains only undetermined values which will be treated as missing data Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Alignment has 11 completely undetermined sites that will be automatically removed from the input data Alignment has 11 completely undetermined sites that will be automatically removed from the input data Alignment has 11 completely undetermined sites that will be automatically removed from the input data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 Alignment has 11 completely undetermined sites that will be automatically removed from the input data Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Alignment has 11 completely undetermined sites that will be automatically removed from the input data IMPORTANT WARNING: Alignment column 369 contains only undetermined values which will be treated as missing data Alignment has 11 completely undetermined sites that will be automatically removed from the input data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 Alignment has 11 completely undetermined sites that will be automatically removed from the input data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 Alignment has 11 completely undetermined sites that will be automatically removed from the input data Alignment has 11 completely undetermined sites that will be automatically removed from the input data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 IMPORTANT WARNING: Alignment column 370 contains only undetermined values which will be treated as missing data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 Alignment has 11 completely undetermined sites that will be automatically removed from the input data IMPORTANT WARNING: Alignment column 371 contains only undetermined values which will be treated as missing data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 3 IMPORTANT WARNING: Alignment column 372 contains only undetermined values which will be treated as missing data Alignment has 11 completely undetermined sites that will be automatically removed from the input data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 IMPORTANT WARNING: Alignment column 560 contains only undetermined values which will be treated as missing data IMPORTANT WARNING: Alignment column 1123 contains only undetermined values which will be treated as missing data IMPORTANT WARNING: Alignment column 1504 contains only undetermined values which will be treated as missing data IMPORTANT WARNING: Alignment column 1776 contains only undetermined values which will be treated as missing data IMPORTANT WARNING: Alignment column 1777 contains only undetermined values which will be treated as missing data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 IMPORTANT WARNING: Alignment column 2005 contains only undetermined values which will be treated as missing data IMPORTANT WARNING Found 11 columns that contain only undetermined values which will be treated as missing data. Normally these columns should be excluded from the analysis. Just in case you might need it, an alignment file with undetermined columns removed is printed to file infile.reduced Using BFGS method to optimize GTR rate parameters, to disable this specify "--no-bfgs" Alignment has 11 completely undetermined sites that will be automatically removed from the input data This is the RAxML Master Pthread This is RAxML Worker Pthread Number: 1 This is RAxML Worker Pthread Number: 2 This is RAxML Worker Pthread Number: 3 This is RAxML version 8.2.10 released by Alexandros Stamatakis on March 2017. With greatly appreciated code contributions by: Andre Aberer (HITS) Simon Berger (HITS) Alexey Kozlov (HITS) Kassian Kobert (HITS) David Dao (KIT and HITS) Sarah Lutteropp (KIT and HITS) Nick Pattengale (Sandia) Wayne Pfeiffer (SDSC) Akifumi S. Tanabe (NRIFS) Charlie Taylor (UF) Alignment has 933 distinct alignment patterns Proportion of gaps and completely undetermined characters in this alignment: 3.09% RAxML rapid bootstrapping and subsequent ML search Using 1 distinct models/data partitions with joint branch length optimization Executing 1000 rapid bootstrap inferences and thereafter a thorough ML search All free model parameters will be estimated by RAxML ML estimate of 25 per site rate categories Likelihood of final tree will be evaluated and optimized under GAMMA GAMMA Model parameters will be estimated up to an accuracy of 0.1000000000 Log Likelihood units Partition: 0 Alignment Patterns: 933 Name: No Name Provided DataType: DNA Substitution Matrix: GTR RAxML was called as follows: raxmlHPC-HYBRID -T 4 -s infile -N autoMRE -n result -f a -p 12345 -x 12345 -m GTRCAT -o Y49Pismag Time for BS model parameter optimization on Process 2: 1.292044 seconds Time for BS model parameter optimization on Process 11: 1.246004 seconds Time for BS model parameter optimization on Process 10: 1.277816 seconds Time for BS model parameter optimization on Process 5: 1.374615 seconds Time for BS model parameter optimization on Process 7: 1.313193 seconds Time for BS model parameter optimization on Process 4: 1.311911 seconds Time for BS model parameter optimization on Process 9: 1.339641 seconds Time for BS model parameter optimization on Process 1: 1.357839 seconds Time for BS model parameter optimization on Process 8: 1.339824 seconds Time for BS model parameter optimization on Process 6: 1.368298 seconds Time for BS model parameter optimization on Process 0: 1.364120 seconds Time for BS model parameter optimization on Process 3: 1.350578 seconds Bootstrap[84]: Time 3.547684 seconds, bootstrap likelihood -20208.255072, best rearrangement setting 12 Bootstrap[420]: Time 3.559767 seconds, bootstrap likelihood -21517.938923, best rearrangement setting 6 Bootstrap[504]: Time 3.577112 seconds, bootstrap likelihood -22313.882032, best rearrangement setting 5 Bootstrap[924]: Time 3.593319 seconds, bootstrap likelihood -20883.292274, best rearrangement setting 9 Bootstrap[672]: Time 3.619277 seconds, bootstrap likelihood -20054.817051, best rearrangement setting 13 Bootstrap[336]: Time 3.773900 seconds, bootstrap likelihood -20843.432485, best rearrangement setting 8 Bootstrap[588]: Time 3.756925 seconds, bootstrap likelihood -20359.604697, best rearrangement setting 15 Bootstrap[840]: Time 3.806649 seconds, bootstrap likelihood -20857.726047, best rearrangement setting 10 Bootstrap[756]: Time 3.862934 seconds, bootstrap likelihood -20979.694120, best rearrangement setting 12 Bootstrap[0]: Time 3.693523 seconds, bootstrap likelihood -21380.581531, best rearrangement setting 13 Bootstrap[168]: Time 3.883127 seconds, bootstrap likelihood -20485.379499, best rearrangement setting 10 Bootstrap[252]: Time 3.957951 seconds, bootstrap likelihood -20434.240125, best rearrangement setting 9 Bootstrap[85]: Time 1.886468 seconds, bootstrap likelihood -21631.437693, best rearrangement setting 13 Bootstrap[925]: Time 1.828197 seconds, bootstrap likelihood -21226.932837, best rearrangement setting 6 Bootstrap[673]: Time 1.816781 seconds, bootstrap likelihood -21432.881271, best rearrangement setting 5 Bootstrap[421]: Time 1.952842 seconds, bootstrap likelihood -20906.036302, best rearrangement setting 15 Bootstrap[169]: Time 1.760510 seconds, bootstrap likelihood -20507.913501, best rearrangement setting 13 Bootstrap[337]: Time 1.951296 seconds, bootstrap likelihood -20590.111649, best rearrangement setting 14 Bootstrap[589]: Time 1.976616 seconds, bootstrap likelihood -20491.831934, best rearrangement setting 5 Bootstrap[841]: Time 1.949774 seconds, bootstrap likelihood -21631.815124, best rearrangement setting 6 Bootstrap[757]: Time 1.888006 seconds, bootstrap likelihood -21422.153962, best rearrangement setting 5 Bootstrap[505]: Time 2.193667 seconds, bootstrap likelihood -20862.756466, best rearrangement setting 15 Bootstrap[253]: Time 1.914505 seconds, bootstrap likelihood -20378.818179, best rearrangement setting 14 Bootstrap[1]: Time 2.025880 seconds, bootstrap likelihood -19918.240948, best rearrangement setting 13 Bootstrap[86]: Time 1.822328 seconds, bootstrap likelihood -20326.962365, best rearrangement setting 13 Bootstrap[674]: Time 1.805520 seconds, bootstrap likelihood -21189.522148, best rearrangement setting 9 Bootstrap[422]: Time 1.839521 seconds, bootstrap likelihood -20639.816097, best rearrangement setting 6 Bootstrap[926]: Time 2.093986 seconds, bootstrap likelihood -20000.931948, best rearrangement setting 11 Bootstrap[590]: Time 1.890424 seconds, bootstrap likelihood -21813.411950, best rearrangement setting 8 Bootstrap[758]: Time 1.951567 seconds, bootstrap likelihood -20759.739529, best rearrangement setting 10 Bootstrap[506]: Time 1.952231 seconds, bootstrap likelihood -20585.925216, best rearrangement setting 7 Bootstrap[842]: Time 2.061414 seconds, bootstrap likelihood -21805.214220, best rearrangement setting 11 Bootstrap[170]: Time 2.211017 seconds, bootstrap likelihood -20162.476149, best rearrangement setting 14 Bootstrap[338]: Time 2.140373 seconds, bootstrap likelihood -20883.311423, best rearrangement setting 5 Bootstrap[254]: Time 2.097240 seconds, bootstrap likelihood -21158.399439, best rearrangement setting 15 Bootstrap[2]: Time 2.185931 seconds, bootstrap likelihood -20745.979661, best rearrangement setting 12 Bootstrap[675]: Time 2.020407 seconds, bootstrap likelihood -21609.445943, best rearrangement setting 8 Bootstrap[87]: Time 2.232013 seconds, bootstrap likelihood -22050.216728, best rearrangement setting 6 Bootstrap[591]: Time 1.860283 seconds, bootstrap likelihood -20800.796992, best rearrangement setting 6 Bootstrap[423]: Time 2.214060 seconds, bootstrap likelihood -21322.578088, best rearrangement setting 13 Bootstrap[759]: Time 1.905262 seconds, bootstrap likelihood -22027.186152, best rearrangement setting 9 Bootstrap[339]: Time 1.781507 seconds, bootstrap likelihood -20835.214245, best rearrangement setting 11 Bootstrap[171]: Time 1.915586 seconds, bootstrap likelihood -20885.346191, best rearrangement setting 8 Bootstrap[843]: Time 2.009416 seconds, bootstrap likelihood -20533.011720, best rearrangement setting 11 Bootstrap[927]: Time 2.363233 seconds, bootstrap likelihood -20593.642035, best rearrangement setting 13 Bootstrap[507]: Time 2.255236 seconds, bootstrap likelihood -19887.196242, best rearrangement setting 15 Bootstrap[255]: Time 2.129409 seconds, bootstrap likelihood -19922.535375, best rearrangement setting 10 Bootstrap[3]: Time 2.004036 seconds, bootstrap likelihood -20975.962383, best rearrangement setting 15 Bootstrap[592]: Time 1.763055 seconds, bootstrap likelihood -21735.877035, best rearrangement setting 6 Bootstrap[676]: Time 2.067801 seconds, bootstrap likelihood -20842.561815, best rearrangement setting 14 Bootstrap[88]: Time 1.919573 seconds, bootstrap likelihood -20781.059931, best rearrangement setting 7 Bootstrap[172]: Time 1.767133 seconds, bootstrap likelihood -19863.659182, best rearrangement setting 14 Bootstrap[424]: Time 2.000705 seconds, bootstrap likelihood -22185.594940, best rearrangement setting 14 Bootstrap[760]: Time 1.972356 seconds, bootstrap likelihood -21817.587954, best rearrangement setting 10 Bootstrap[340]: Time 1.979006 seconds, bootstrap likelihood -22268.883663, best rearrangement setting 6 Bootstrap[508]: Time 1.844727 seconds, bootstrap likelihood -20112.373907, best rearrangement setting 10 Bootstrap[844]: Time 2.059791 seconds, bootstrap likelihood -20362.710455, best rearrangement setting 6 Bootstrap[256]: Time 1.826185 seconds, bootstrap likelihood -20115.774943, best rearrangement setting 10 Bootstrap[928]: Time 2.090657 seconds, bootstrap likelihood -20131.579187, best rearrangement setting 13 Bootstrap[4]: Time 1.994199 seconds, bootstrap likelihood -20923.529375, best rearrangement setting 10 Bootstrap[509]: Time 1.805521 seconds, bootstrap likelihood -20795.332843, best rearrangement setting 6 Bootstrap[593]: Time 1.855968 seconds, bootstrap likelihood -20925.508926, best rearrangement setting 7 Bootstrap[425]: Time 1.922565 seconds, bootstrap likelihood -21027.048963, best rearrangement setting 5 Bootstrap[5]: Time 1.929006 seconds, bootstrap likelihood -20384.629275, best rearrangement setting 10 Bootstrap[929]: Time 1.959552 seconds, bootstrap likelihood -21441.149794, best rearrangement setting 12 Bootstrap[89]: Time 2.032197 seconds, bootstrap likelihood -21606.402346, best rearrangement setting 11 Bootstrap[341]: Time 2.049873 seconds, bootstrap likelihood -21133.433189, best rearrangement setting 15 Bootstrap[761]: Time 2.042870 seconds, bootstrap likelihood -21463.693892, best rearrangement setting 10 Bootstrap[845]: Time 2.067440 seconds, bootstrap likelihood -21419.575004, best rearrangement setting 11 Bootstrap[677]: Time 2.127061 seconds, bootstrap likelihood -21370.854023, best rearrangement setting 8 Bootstrap[257]: Time 2.134304 seconds, bootstrap likelihood -21691.682379, best rearrangement setting 13 Bootstrap[173]: Time 2.248734 seconds, bootstrap likelihood -21957.189497, best rearrangement setting 12 Bootstrap[510]: Time 1.836246 seconds, bootstrap likelihood -20066.391592, best rearrangement setting 9 Bootstrap[594]: Time 1.903615 seconds, bootstrap likelihood -21190.764488, best rearrangement setting 13 Bootstrap[426]: Time 1.844220 seconds, bootstrap likelihood -22151.073587, best rearrangement setting 5 Bootstrap[930]: Time 1.860502 seconds, bootstrap likelihood -20467.309771, best rearrangement setting 7 Bootstrap[90]: Time 1.834922 seconds, bootstrap likelihood -21428.248203, best rearrangement setting 10 Bootstrap[846]: Time 1.829080 seconds, bootstrap likelihood -21196.564433, best rearrangement setting 14 Bootstrap[258]: Time 1.889020 seconds, bootstrap likelihood -19646.330590, best rearrangement setting 7 Bootstrap[6]: Time 2.132075 seconds, bootstrap likelihood -20092.842332, best rearrangement setting 6 Bootstrap[762]: Time 2.034019 seconds, bootstrap likelihood -20816.285553, best rearrangement setting 10 Bootstrap[342]: Time 2.097445 seconds, bootstrap likelihood -20513.172748, best rearrangement setting 11 Bootstrap[174]: Time 1.943681 seconds, bootstrap likelihood -21608.517445, best rearrangement setting 14 Bootstrap[678]: Time 2.258184 seconds, bootstrap likelihood -20827.099464, best rearrangement setting 6 Bootstrap[511]: Time 1.722247 seconds, bootstrap likelihood -21782.707041, best rearrangement setting 5 Bootstrap[931]: Time 1.922591 seconds, bootstrap likelihood -20605.543714, best rearrangement setting 13 Bootstrap[847]: Time 1.855718 seconds, bootstrap likelihood -20689.447522, best rearrangement setting 7 Bootstrap[427]: Time 1.984260 seconds, bootstrap likelihood -20902.930649, best rearrangement setting 11 Bootstrap[595]: Time 2.025543 seconds, bootstrap likelihood -20579.134870, best rearrangement setting 11 Bootstrap[91]: Time 1.978877 seconds, bootstrap likelihood -20500.306503, best rearrangement setting 9 Bootstrap[7]: Time 1.805191 seconds, bootstrap likelihood -20730.399208, best rearrangement setting 14 Bootstrap[763]: Time 1.879853 seconds, bootstrap likelihood -20780.992442, best rearrangement setting 12 Bootstrap[343]: Time 1.865171 seconds, bootstrap likelihood -20979.500712, best rearrangement setting 5 Bootstrap[259]: Time 2.170569 seconds, bootstrap likelihood -20150.200384, best rearrangement setting 10 Bootstrap[679]: Time 1.842860 seconds, bootstrap likelihood -20875.019550, best rearrangement setting 6 Bootstrap[175]: Time 2.156154 seconds, bootstrap likelihood -20985.904026, best rearrangement setting 15 Bootstrap[512]: Time 1.964351 seconds, bootstrap likelihood -21186.057904, best rearrangement setting 15 Bootstrap[8]: Time 1.730948 seconds, bootstrap likelihood -20832.324244, best rearrangement setting 5 Bootstrap[764]: Time 1.687195 seconds, bootstrap likelihood -19564.875681, best rearrangement setting 9 Bootstrap[932]: Time 1.964249 seconds, bootstrap likelihood -21494.241281, best rearrangement setting 13 Bootstrap[848]: Time 1.985395 seconds, bootstrap likelihood -20316.805060, best rearrangement setting 11 Bootstrap[596]: Time 2.061758 seconds, bootstrap likelihood -21064.220316, best rearrangement setting 6 Bootstrap[428]: Time 2.162811 seconds, bootstrap likelihood -21297.411258, best rearrangement setting 14 Bootstrap[92]: Time 2.108648 seconds, bootstrap likelihood -20479.020242, best rearrangement setting 7 Bootstrap[344]: Time 1.988894 seconds, bootstrap likelihood -20800.972514, best rearrangement setting 12 Bootstrap[680]: Time 1.853132 seconds, bootstrap likelihood -20177.899240, best rearrangement setting 8 Bootstrap[176]: Time 2.104350 seconds, bootstrap likelihood -21523.854245, best rearrangement setting 9 Bootstrap[260]: Time 2.357479 seconds, bootstrap likelihood -20150.136768, best rearrangement setting 10 Bootstrap[429]: Time 1.781684 seconds, bootstrap likelihood -20848.054234, best rearrangement setting 11 Bootstrap[93]: Time 1.785513 seconds, bootstrap likelihood -21660.306198, best rearrangement setting 12 Bootstrap[513]: Time 1.816021 seconds, bootstrap likelihood -20433.932732, best rearrangement setting 6 Bootstrap[849]: Time 1.840447 seconds, bootstrap likelihood -21047.587578, best rearrangement setting 5 Bootstrap[9]: Time 1.866864 seconds, bootstrap likelihood -20209.694738, best rearrangement setting 7 Bootstrap[597]: Time 1.881962 seconds, bootstrap likelihood -21090.741784, best rearrangement setting 11 Bootstrap[933]: Time 1.898344 seconds, bootstrap likelihood -19923.255279, best rearrangement setting 10 Bootstrap[261]: Time 1.934653 seconds, bootstrap likelihood -20757.324116, best rearrangement setting 12 Bootstrap[177]: Time 1.973959 seconds, bootstrap likelihood -20120.910605, best rearrangement setting 6 Bootstrap[345]: Time 1.985167 seconds, bootstrap likelihood -20872.518713, best rearrangement setting 6 Bootstrap[765]: Time 2.010904 seconds, bootstrap likelihood -19524.724926, best rearrangement setting 11 Bootstrap[681]: Time 2.062969 seconds, bootstrap likelihood -20695.127599, best rearrangement setting 5 Bootstrap[934]: Time 1.997456 seconds, bootstrap likelihood -20766.844005, best rearrangement setting 5 Bootstrap[598]: Time 2.030926 seconds, bootstrap likelihood -21075.093797, best rearrangement setting 5 Bootstrap[514]: Time 2.148693 seconds, bootstrap likelihood -20767.604746, best rearrangement setting 13 Bootstrap[430]: Time 2.201455 seconds, bootstrap likelihood -21566.671920, best rearrangement setting 10 Bootstrap[10]: Time 2.164478 seconds, bootstrap likelihood -18911.463395, best rearrangement setting 7 Bootstrap[262]: Time 2.183706 seconds, bootstrap likelihood -20602.597350, best rearrangement setting 5 Bootstrap[94]: Time 2.361655 seconds, bootstrap likelihood -19668.672376, best rearrangement setting 10 Bootstrap[766]: Time 2.173837 seconds, bootstrap likelihood -20442.427328, best rearrangement setting 11 Bootstrap[682]: Time 2.130773 seconds, bootstrap likelihood -20339.652338, best rearrangement setting 8 Bootstrap[178]: Time 2.230634 seconds, bootstrap likelihood -21045.145089, best rearrangement setting 13 Bootstrap[346]: Time 2.373348 seconds, bootstrap likelihood -21264.603254, best rearrangement setting 7 Bootstrap[850]: Time 2.596917 seconds, bootstrap likelihood -22288.229340, best rearrangement setting 13 Bootstrap[599]: Time 1.806127 seconds, bootstrap likelihood -21535.331247, best rearrangement setting 14 Bootstrap[431]: Time 1.760361 seconds, bootstrap likelihood -22634.848174, best rearrangement setting 11 Bootstrap[935]: Time 2.119619 seconds, bootstrap likelihood -21732.962102, best rearrangement setting 8 Bootstrap[767]: Time 1.869936 seconds, bootstrap likelihood -22298.325972, best rearrangement setting 6 Bootstrap[11]: Time 2.110185 seconds, bootstrap likelihood -20784.714858, best rearrangement setting 5 Bootstrap[179]: Time 1.972760 seconds, bootstrap likelihood -21184.795085, best rearrangement setting 7 Bootstrap[515]: Time 2.234133 seconds, bootstrap likelihood -20194.243104, best rearrangement setting 13 Bootstrap[263]: Time 2.129549 seconds, bootstrap likelihood -21260.140509, best rearrangement setting 9 Bootstrap[95]: Time 2.118657 seconds, bootstrap likelihood -21459.831599, best rearrangement setting 6 Bootstrap[347]: Time 1.932188 seconds, bootstrap likelihood -21860.791228, best rearrangement setting 10 Bootstrap[683]: Time 2.121038 seconds, bootstrap likelihood -20837.295022, best rearrangement setting 15 Bootstrap[851]: Time 1.945596 seconds, bootstrap likelihood -20577.156052, best rearrangement setting 7 Bootstrap[432]: Time 1.993906 seconds, bootstrap likelihood -21439.738431, best rearrangement setting 9 Bootstrap[600]: Time 2.065328 seconds, bootstrap likelihood -21798.064968, best rearrangement setting 12 Bootstrap[264]: Time 1.777888 seconds, bootstrap likelihood -19934.661732, best rearrangement setting 7 Bootstrap[936]: Time 2.045409 seconds, bootstrap likelihood -21172.546338, best rearrangement setting 5 Bootstrap[768]: Time 2.011197 seconds, bootstrap likelihood -21401.926776, best rearrangement setting 14 Bootstrap[516]: Time 1.923845 seconds, bootstrap likelihood -21156.583193, best rearrangement setting 5 Bootstrap[12]: Time 2.053681 seconds, bootstrap likelihood -19923.170020, best rearrangement setting 8 Bootstrap[180]: Time 2.025277 seconds, bootstrap likelihood -20813.943081, best rearrangement setting 11 Bootstrap[684]: Time 1.920089 seconds, bootstrap likelihood -22035.815962, best rearrangement setting 7 Bootstrap[96]: Time 2.062044 seconds, bootstrap likelihood -20548.680822, best rearrangement setting 15 Bootstrap[348]: Time 2.080269 seconds, bootstrap likelihood -21210.547067, best rearrangement setting 13 Bootstrap[852]: Time 2.042674 seconds, bootstrap likelihood -20314.771135, best rearrangement setting 10 Bootstrap[937]: Time 1.725335 seconds, bootstrap likelihood -20943.815441, best rearrangement setting 6 Bootstrap[517]: Time 1.822058 seconds, bootstrap likelihood -20183.690957, best rearrangement setting 7 Bootstrap[853]: Time 1.876897 seconds, bootstrap likelihood -20134.200642, best rearrangement setting 15 Bootstrap[685]: Time 1.999950 seconds, bootstrap likelihood -20639.797875, best rearrangement setting 11 Bootstrap[97]: Time 2.045649 seconds, bootstrap likelihood -21058.846069, best rearrangement setting 9 Bootstrap[601]: Time 2.103945 seconds, bootstrap likelihood -20252.471391, best rearrangement setting 9 Bootstrap[769]: Time 2.157349 seconds, bootstrap likelihood -22015.713676, best rearrangement setting 13 Bootstrap[181]: Time 2.201589 seconds, bootstrap likelihood -22253.927827, best rearrangement setting 10 Bootstrap[265]: Time 2.460380 seconds, bootstrap likelihood -21163.308994, best rearrangement setting 12 Bootstrap[13]: Time 2.527538 seconds, bootstrap likelihood -21036.936414, best rearrangement setting 7 Bootstrap[433]: Time 2.825275 seconds, bootstrap likelihood -21869.699292, best rearrangement setting 5 Bootstrap[349]: Time 2.869844 seconds, bootstrap likelihood -22349.004167, best rearrangement setting 14 Bootstrap[938]: Time 1.988727 seconds, bootstrap likelihood -21843.540239, best rearrangement setting 11 Bootstrap[854]: Time 1.934387 seconds, bootstrap likelihood -20588.766430, best rearrangement setting 8 Bootstrap[686]: Time 1.920444 seconds, bootstrap likelihood -20780.853425, best rearrangement setting 14 Bootstrap[518]: Time 2.179225 seconds, bootstrap likelihood -20302.760354, best rearrangement setting 8 Bootstrap[770]: Time 1.875699 seconds, bootstrap likelihood -19722.157925, best rearrangement setting 6 Bootstrap[602]: Time 2.095548 seconds, bootstrap likelihood -20298.011991, best rearrangement setting 11 Bootstrap[98]: Time 2.198655 seconds, bootstrap likelihood -20666.182258, best rearrangement setting 15 Bootstrap[266]: Time 1.830444 seconds, bootstrap likelihood -21464.262502, best rearrangement setting 10 Bootstrap[182]: Time 2.189030 seconds, bootstrap likelihood -21490.335787, best rearrangement setting 7 Bootstrap[14]: Time 2.300425 seconds, bootstrap likelihood -20940.521794, best rearrangement setting 12 Bootstrap[434]: Time 2.023186 seconds, bootstrap likelihood -21894.764821, best rearrangement setting 5 Bootstrap[350]: Time 1.982720 seconds, bootstrap likelihood -22098.405785, best rearrangement setting 13 Bootstrap[939]: Time 1.822164 seconds, bootstrap likelihood -20657.661492, best rearrangement setting 9 Bootstrap[855]: Time 1.876712 seconds, bootstrap likelihood -22148.340653, best rearrangement setting 10 Bootstrap[687]: Time 1.802832 seconds, bootstrap likelihood -21244.485200, best rearrangement setting 11 Bootstrap[771]: Time 1.871962 seconds, bootstrap likelihood -20744.776229, best rearrangement setting 10 Bootstrap[519]: Time 1.952759 seconds, bootstrap likelihood -20924.922893, best rearrangement setting 12 Bootstrap[267]: Time 1.774862 seconds, bootstrap likelihood -19978.164629, best rearrangement setting 13 Bootstrap[99]: Time 1.913117 seconds, bootstrap likelihood -20030.591437, best rearrangement setting 14 Bootstrap[603]: Time 2.150313 seconds, bootstrap likelihood -20692.537677, best rearrangement setting 11 Bootstrap[183]: Time 2.229631 seconds, bootstrap likelihood -21727.579710, best rearrangement setting 14 Bootstrap[435]: Time 1.853687 seconds, bootstrap likelihood -20474.079248, best rearrangement setting 12 Bootstrap[351]: Time 1.981772 seconds, bootstrap likelihood -20374.769313, best rearrangement setting 13 Bootstrap[15]: Time 2.217405 seconds, bootstrap likelihood -22156.562464, best rearrangement setting 15 Bootstrap[940]: Time 1.971866 seconds, bootstrap likelihood -22997.876303, best rearrangement setting 12 Bootstrap[856]: Time 1.904919 seconds, bootstrap likelihood -21490.556877, best rearrangement setting 6 Bootstrap[688]: Time 2.093229 seconds, bootstrap likelihood -21944.208215, best rearrangement setting 5 Bootstrap[772]: Time 1.929738 seconds, bootstrap likelihood -20377.148502, best rearrangement setting 11 Bootstrap[520]: Time 1.884975 seconds, bootstrap likelihood -20669.416642, best rearrangement setting 15 Bootstrap[268]: Time 1.775506 seconds, bootstrap likelihood -21302.705826, best rearrangement setting 8 Bootstrap[100]: Time 1.769756 seconds, bootstrap likelihood -20354.009951, best rearrangement setting 7 Bootstrap[604]: Time 1.896656 seconds, bootstrap likelihood -19950.156538, best rearrangement setting 10 Bootstrap[184]: Time 2.006117 seconds, bootstrap likelihood -21128.055003, best rearrangement setting 13 Bootstrap[436]: Time 2.105522 seconds, bootstrap likelihood -21196.050857, best rearrangement setting 9 Bootstrap[352]: Time 2.209934 seconds, bootstrap likelihood -19794.306405, best rearrangement setting 14 Bootstrap[16]: Time 2.037452 seconds, bootstrap likelihood -21749.022096, best rearrangement setting 12 Bootstrap[101]: Time 1.803151 seconds, bootstrap likelihood -20832.788868, best rearrangement setting 12 Bootstrap[269]: Time 1.843822 seconds, bootstrap likelihood -19918.064859, best rearrangement setting 12 Bootstrap[689]: Time 1.850258 seconds, bootstrap likelihood -18983.444640, best rearrangement setting 12 Bootstrap[773]: Time 1.964754 seconds, bootstrap likelihood -21748.475649, best rearrangement setting 12 Bootstrap[437]: Time 1.971357 seconds, bootstrap likelihood -20710.776995, best rearrangement setting 12 Bootstrap[185]: Time 2.033223 seconds, bootstrap likelihood -21503.955369, best rearrangement setting 12 Bootstrap[941]: Time 2.069483 seconds, bootstrap likelihood -21252.448278, best rearrangement setting 12 Bootstrap[521]: Time 2.107803 seconds, bootstrap likelihood -21082.102384, best rearrangement setting 12 Bootstrap[17]: Time 2.122205 seconds, bootstrap likelihood -20196.427064, best rearrangement setting 12 Bootstrap[353]: Time 2.206589 seconds, bootstrap likelihood -20462.404808, best rearrangement setting 12 Bootstrap[605]: Time 2.241379 seconds, bootstrap likelihood -21222.820280, best rearrangement setting 12 Bootstrap[857]: Time 2.332880 seconds, bootstrap likelihood -21308.734417, best rearrangement setting 12 Bootstrap[102]: Time 1.928735 seconds, bootstrap likelihood -22098.430232, best rearrangement setting 14 Bootstrap[270]: Time 1.955519 seconds, bootstrap likelihood -21213.506978, best rearrangement setting 11 Bootstrap[690]: Time 2.002988 seconds, bootstrap likelihood -20957.748618, best rearrangement setting 13 Bootstrap[774]: Time 1.897334 seconds, bootstrap likelihood -21590.235030, best rearrangement setting 11 Bootstrap[522]: Time 1.778269 seconds, bootstrap likelihood -20226.491443, best rearrangement setting 5 Bootstrap[438]: Time 1.928592 seconds, bootstrap likelihood -21073.538110, best rearrangement setting 7 Bootstrap[186]: Time 1.872953 seconds, bootstrap likelihood -20482.914162, best rearrangement setting 12 Bootstrap[858]: Time 1.769526 seconds, bootstrap likelihood -20115.294350, best rearrangement setting 9 Bootstrap[606]: Time 1.942831 seconds, bootstrap likelihood -20897.303078, best rearrangement setting 15 Bootstrap[354]: Time 2.082615 seconds, bootstrap likelihood -20139.855822, best rearrangement setting 9 Bootstrap[942]: Time 2.318168 seconds, bootstrap likelihood -20672.971507, best rearrangement setting 8 Bootstrap[18]: Time 2.342403 seconds, bootstrap likelihood -21186.190171, best rearrangement setting 5 Bootstrap[271]: Time 1.836202 seconds, bootstrap likelihood -21045.222867, best rearrangement setting 13 Bootstrap[103]: Time 1.982274 seconds, bootstrap likelihood -21487.066255, best rearrangement setting 6 Bootstrap[691]: Time 1.875082 seconds, bootstrap likelihood -20556.307995, best rearrangement setting 13 Bootstrap[523]: Time 1.852639 seconds, bootstrap likelihood -21220.353431, best rearrangement setting 6 Bootstrap[439]: Time 1.866555 seconds, bootstrap likelihood -20920.124079, best rearrangement setting 8 Bootstrap[187]: Time 1.948509 seconds, bootstrap likelihood -21475.098347, best rearrangement setting 15 Bootstrap[775]: Time 2.055970 seconds, bootstrap likelihood -21648.549048, best rearrangement setting 11 Bootstrap[607]: Time 1.898777 seconds, bootstrap likelihood -19563.798956, best rearrangement setting 15 Bootstrap[859]: Time 2.112207 seconds, bootstrap likelihood -21642.623590, best rearrangement setting 9 Bootstrap[355]: Time 2.203531 seconds, bootstrap likelihood -20909.115287, best rearrangement setting 10 Bootstrap[943]: Time 2.173332 seconds, bootstrap likelihood -20918.981389, best rearrangement setting 7 Bootstrap[19]: Time 2.255057 seconds, bootstrap likelihood -21589.942701, best rearrangement setting 8 Bootstrap[272]: Time 2.178370 seconds, bootstrap likelihood -20344.282910, best rearrangement setting 5 Bootstrap[440]: Time 2.071313 seconds, bootstrap likelihood -21085.401637, best rearrangement setting 13 Bootstrap[104]: Time 2.211838 seconds, bootstrap likelihood -21340.623008, best rearrangement setting 8 Bootstrap[776]: Time 2.089002 seconds, bootstrap likelihood -20830.618521, best rearrangement setting 8 Bootstrap[692]: Time 2.415523 seconds, bootstrap likelihood -20579.378967, best rearrangement setting 9 Bootstrap[188]: Time 2.320904 seconds, bootstrap likelihood -20183.933101, best rearrangement setting 7 Bootstrap[524]: Time 2.577487 seconds, bootstrap likelihood -21768.750766, best rearrangement setting 12 Bootstrap[608]: Time 2.290873 seconds, bootstrap likelihood -21133.846243, best rearrangement setting 11 Bootstrap[860]: Time 2.178636 seconds, bootstrap likelihood -20615.029657, best rearrangement setting 6 Bootstrap[356]: Time 2.264693 seconds, bootstrap likelihood -20786.359756, best rearrangement setting 15 Bootstrap[20]: Time 2.204943 seconds, bootstrap likelihood -20211.172451, best rearrangement setting 10 Bootstrap[944]: Time 2.399772 seconds, bootstrap likelihood -22218.981189, best rearrangement setting 5 Bootstrap[525]: Time 1.756202 seconds, bootstrap likelihood -21190.371924, best rearrangement setting 14 Bootstrap[861]: Time 1.821436 seconds, bootstrap likelihood -21089.693684, best rearrangement setting 5 Bootstrap[693]: Time 1.850556 seconds, bootstrap likelihood -22255.855090, best rearrangement setting 9 Bootstrap[441]: Time 1.856041 seconds, bootstrap likelihood -22308.137281, best rearrangement setting 11 Bootstrap[105]: Time 1.873579 seconds, bootstrap likelihood -21020.072960, best rearrangement setting 9 Bootstrap[189]: Time 1.898428 seconds, bootstrap likelihood -20910.938760, best rearrangement setting 12 Bootstrap[609]: Time 1.954604 seconds, bootstrap likelihood -20502.878148, best rearrangement setting 6 Bootstrap[945]: Time 1.959101 seconds, bootstrap likelihood -18753.186252, best rearrangement setting 8 Bootstrap[357]: Time 1.959487 seconds, bootstrap likelihood -20323.276823, best rearrangement setting 8 Bootstrap[21]: Time 1.961159 seconds, bootstrap likelihood -20534.341674, best rearrangement setting 6 Bootstrap[273]: Time 2.037915 seconds, bootstrap likelihood -20235.897830, best rearrangement setting 15 Bootstrap[777]: Time 2.201965 seconds, bootstrap likelihood -22250.432021, best rearrangement setting 12 Bootstrap[526]: Time 1.943351 seconds, bootstrap likelihood -20803.613420, best rearrangement setting 15 Bootstrap[106]: Time 1.844504 seconds, bootstrap likelihood -21373.862722, best rearrangement setting 8 Bootstrap[862]: Time 1.903489 seconds, bootstrap likelihood -20316.066053, best rearrangement setting 8 Bootstrap[442]: Time 2.009334 seconds, bootstrap likelihood -20686.846724, best rearrangement setting 12 Bootstrap[274]: Time 1.908640 seconds, bootstrap likelihood -20362.939641, best rearrangement setting 5 Bootstrap[610]: Time 1.997052 seconds, bootstrap likelihood -20394.158412, best rearrangement setting 8 Bootstrap[358]: Time 2.022289 seconds, bootstrap likelihood -21853.165178, best rearrangement setting 8 Bootstrap[694]: Time 2.164876 seconds, bootstrap likelihood -21254.348289, best rearrangement setting 12 Bootstrap[22]: Time 2.100663 seconds, bootstrap likelihood -21347.607561, best rearrangement setting 5 Bootstrap[946]: Time 2.141188 seconds, bootstrap likelihood -19731.060207, best rearrangement setting 11 Bootstrap[778]: Time 2.038759 seconds, bootstrap likelihood -21120.970790, best rearrangement setting 15 Bootstrap[190]: Time 2.356833 seconds, bootstrap likelihood -21909.138658, best rearrangement setting 12 Bootstrap[107]: Time 1.757272 seconds, bootstrap likelihood -21733.695073, best rearrangement setting 8 Bootstrap[527]: Time 1.916315 seconds, bootstrap likelihood -19721.328923, best rearrangement setting 13 Bootstrap[863]: Time 1.952261 seconds, bootstrap likelihood -21280.223151, best rearrangement setting 7 Bootstrap[275]: Time 1.811826 seconds, bootstrap likelihood -20773.478699, best rearrangement setting 10 Bootstrap[695]: Time 1.961885 seconds, bootstrap likelihood -21905.188497, best rearrangement setting 5 Bootstrap[443]: Time 2.161093 seconds, bootstrap likelihood -21462.628859, best rearrangement setting 12 Bootstrap[23]: Time 1.975167 seconds, bootstrap likelihood -20839.750155, best rearrangement setting 7 Bootstrap[779]: Time 1.803770 seconds, bootstrap likelihood -20800.055109, best rearrangement setting 6 Bootstrap[947]: Time 2.148478 seconds, bootstrap likelihood -19531.404879, best rearrangement setting 8 Bootstrap[611]: Time 2.352873 seconds, bootstrap likelihood -21234.752238, best rearrangement setting 15 Bootstrap[359]: Time 2.603732 seconds, bootstrap likelihood -20930.705961, best rearrangement setting 11 Bootstrap[191]: Time 2.339228 seconds, bootstrap likelihood -20324.384874, best rearrangement setting 9 Bootstrap[108]: Time 1.928054 seconds, bootstrap likelihood -22414.225052, best rearrangement setting 7 Bootstrap[528]: Time 1.808952 seconds, bootstrap likelihood -21084.851272, best rearrangement setting 6 Bootstrap[276]: Time 1.756694 seconds, bootstrap likelihood -21084.350650, best rearrangement setting 7 Bootstrap[864]: Time 1.879053 seconds, bootstrap likelihood -20779.943052, best rearrangement setting 5 Bootstrap[780]: Time 1.760329 seconds, bootstrap likelihood -19846.267024, best rearrangement setting 5 Bootstrap[444]: Time 1.808253 seconds, bootstrap likelihood -22121.733751, best rearrangement setting 6 Bootstrap[24]: Time 1.864455 seconds, bootstrap likelihood -21576.642993, best rearrangement setting 8 Bootstrap[696]: Time 2.277384 seconds, bootstrap likelihood -21551.811913, best rearrangement setting 6 Bootstrap[948]: Time 2.060914 seconds, bootstrap likelihood -20335.720742, best rearrangement setting 5 Bootstrap[192]: Time 1.863231 seconds, bootstrap likelihood -20972.686180, best rearrangement setting 7 Bootstrap[612]: Time 2.181146 seconds, bootstrap likelihood -20269.871002, best rearrangement setting 6 Bootstrap[360]: Time 2.265845 seconds, bootstrap likelihood -22291.551205, best rearrangement setting 7 Bootstrap[445]: Time 1.653462 seconds, bootstrap likelihood -21082.044976, best rearrangement setting 12 Bootstrap[277]: Time 1.786930 seconds, bootstrap likelihood -21382.050921, best rearrangement setting 10 Bootstrap[697]: Time 1.814727 seconds, bootstrap likelihood -20404.959931, best rearrangement setting 5 Bootstrap[613]: Time 1.855224 seconds, bootstrap likelihood -21998.346276, best rearrangement setting 15 Bootstrap[25]: Time 1.856114 seconds, bootstrap likelihood -20308.140648, best rearrangement setting 6 Bootstrap[781]: Time 1.874985 seconds, bootstrap likelihood -21081.364863, best rearrangement setting 6 Bootstrap[361]: Time 1.907386 seconds, bootstrap likelihood -20557.474058, best rearrangement setting 11 Bootstrap[529]: Time 1.912740 seconds, bootstrap likelihood -21446.962862, best rearrangement setting 14 Bootstrap[193]: Time 1.997203 seconds, bootstrap likelihood -20922.456257, best rearrangement setting 9 Bootstrap[865]: Time 2.018384 seconds, bootstrap likelihood -22406.925449, best rearrangement setting 7 Bootstrap[949]: Time 2.026385 seconds, bootstrap likelihood -21135.837735, best rearrangement setting 9 Bootstrap[109]: Time 2.053203 seconds, bootstrap likelihood -21239.733568, best rearrangement setting 7 Bootstrap[446]: Time 1.868180 seconds, bootstrap likelihood -20418.437814, best rearrangement setting 5 Bootstrap[698]: Time 1.758238 seconds, bootstrap likelihood -19607.467873, best rearrangement setting 14 Bootstrap[866]: Time 1.768156 seconds, bootstrap likelihood -20527.771375, best rearrangement setting 9 Bootstrap[614]: Time 1.952456 seconds, bootstrap likelihood -21550.563812, best rearrangement setting 11 Bootstrap[782]: Time 2.011037 seconds, bootstrap likelihood -20931.634690, best rearrangement setting 6 Bootstrap[278]: Time 2.110184 seconds, bootstrap likelihood -21606.914054, best rearrangement setting 10 Bootstrap[362]: Time 2.038754 seconds, bootstrap likelihood -21804.331672, best rearrangement setting 13 Bootstrap[26]: Time 2.096127 seconds, bootstrap likelihood -21238.459397, best rearrangement setting 12 Bootstrap[110]: Time 1.917767 seconds, bootstrap likelihood -21133.625620, best rearrangement setting 15 Bootstrap[530]: Time 2.124177 seconds, bootstrap likelihood -20605.955360, best rearrangement setting 8 Bootstrap[950]: Time 2.041147 seconds, bootstrap likelihood -20787.880682, best rearrangement setting 12 Bootstrap[194]: Time 2.467445 seconds, bootstrap likelihood -21213.054263, best rearrangement setting 7 Bootstrap[447]: Time 1.887823 seconds, bootstrap likelihood -20192.564399, best rearrangement setting 8 Bootstrap[699]: Time 1.867092 seconds, bootstrap likelihood -20317.860174, best rearrangement setting 11 Bootstrap[783]: Time 1.872266 seconds, bootstrap likelihood -21517.352329, best rearrangement setting 8 Bootstrap[615]: Time 1.962879 seconds, bootstrap likelihood -20232.950985, best rearrangement setting 13 Bootstrap[867]: Time 1.996693 seconds, bootstrap likelihood -20150.055134, best rearrangement setting 5 Bootstrap[111]: Time 1.838481 seconds, bootstrap likelihood -21028.169178, best rearrangement setting 8 Bootstrap[27]: Time 1.963486 seconds, bootstrap likelihood -21711.403743, best rearrangement setting 10 Bootstrap[531]: Time 1.901194 seconds, bootstrap likelihood -21748.928015, best rearrangement setting 5 Bootstrap[279]: Time 2.083720 seconds, bootstrap likelihood -20571.144950, best rearrangement setting 13 Bootstrap[363]: Time 2.044476 seconds, bootstrap likelihood -20885.128287, best rearrangement setting 11 Bootstrap[951]: Time 2.103533 seconds, bootstrap likelihood -21313.349912, best rearrangement setting 13 Bootstrap[195]: Time 1.801715 seconds, bootstrap likelihood -21752.756221, best rearrangement setting 5 Bootstrap[700]: Time 2.072456 seconds, bootstrap likelihood -21456.650354, best rearrangement setting 14 Bootstrap[784]: Time 1.840017 seconds, bootstrap likelihood -20851.639086, best rearrangement setting 9 Bootstrap[448]: Time 2.290407 seconds, bootstrap likelihood -20890.016280, best rearrangement setting 8 Bootstrap[616]: Time 1.968285 seconds, bootstrap likelihood -22576.504115, best rearrangement setting 8 Bootstrap[28]: Time 1.857431 seconds, bootstrap likelihood -20632.206593, best rearrangement setting 11 Bootstrap[364]: Time 1.800865 seconds, bootstrap likelihood -21304.465365, best rearrangement setting 13 Bootstrap[112]: Time 2.015096 seconds, bootstrap likelihood -22065.379279, best rearrangement setting 6 Bootstrap[532]: Time 1.889668 seconds, bootstrap likelihood -20649.240286, best rearrangement setting 13 Bootstrap[868]: Time 2.050738 seconds, bootstrap likelihood -21207.702240, best rearrangement setting 15 Bootstrap[280]: Time 1.917797 seconds, bootstrap likelihood -20889.695763, best rearrangement setting 7 Bootstrap[952]: Time 1.817917 seconds, bootstrap likelihood -19779.878058, best rearrangement setting 10 Bootstrap[196]: Time 2.248685 seconds, bootstrap likelihood -20421.256199, best rearrangement setting 12 Bootstrap[701]: Time 1.875356 seconds, bootstrap likelihood -20826.539282, best rearrangement setting 12 Bootstrap[785]: Time 1.889180 seconds, bootstrap likelihood -21694.393913, best rearrangement setting 13 Bootstrap[449]: Time 1.798583 seconds, bootstrap likelihood -20412.446486, best rearrangement setting 8 Bootstrap[533]: Time 1.800396 seconds, bootstrap likelihood -21786.471682, best rearrangement setting 9 Bootstrap[869]: Time 1.952623 seconds, bootstrap likelihood -20896.692907, best rearrangement setting 15 Bootstrap[617]: Time 2.123409 seconds, bootstrap likelihood -21002.587761, best rearrangement setting 11 Bootstrap[365]: Time 2.081479 seconds, bootstrap likelihood -20461.009123, best rearrangement setting 7 Bootstrap[29]: Time 2.138908 seconds, bootstrap likelihood -21322.367634, best rearrangement setting 12 Bootstrap[281]: Time 2.043096 seconds, bootstrap likelihood -21978.095902, best rearrangement setting 5 Bootstrap[113]: Time 2.144624 seconds, bootstrap likelihood -21287.917923, best rearrangement setting 14 Bootstrap[953]: Time 2.105285 seconds, bootstrap likelihood -21548.706554, best rearrangement setting 5 Bootstrap[197]: Time 2.127255 seconds, bootstrap likelihood -21505.903360, best rearrangement setting 15 Bootstrap[618]: Time 1.948537 seconds, bootstrap likelihood -20206.731902, best rearrangement setting 7 Bootstrap[870]: Time 2.038875 seconds, bootstrap likelihood -21413.327099, best rearrangement setting 8 Bootstrap[702]: Time 2.082874 seconds, bootstrap likelihood -21429.778435, best rearrangement setting 7 Bootstrap[282]: Time 2.107330 seconds, bootstrap likelihood -20095.789561, best rearrangement setting 5 Bootstrap[114]: Time 2.256159 seconds, bootstrap likelihood -21058.984192, best rearrangement setting 5 Bootstrap[954]: Time 2.289189 seconds, bootstrap likelihood -19633.385462, best rearrangement setting 9 Bootstrap[786]: Time 2.312704 seconds, bootstrap likelihood -21880.246902, best rearrangement setting 8 Bootstrap[534]: Time 2.371613 seconds, bootstrap likelihood -20902.479935, best rearrangement setting 7 Bootstrap[198]: Time 2.381446 seconds, bootstrap likelihood -21242.483959, best rearrangement setting 5 Bootstrap[450]: Time 2.405344 seconds, bootstrap likelihood -21215.402720, best rearrangement setting 6 Bootstrap[30]: Time 2.489128 seconds, bootstrap likelihood -21715.554263, best rearrangement setting 15 Bootstrap[366]: Time 2.586757 seconds, bootstrap likelihood -20936.026339, best rearrangement setting 6 Bootstrap[283]: Time 1.704982 seconds, bootstrap likelihood -21825.535583, best rearrangement setting 12 Bootstrap[703]: Time 1.826118 seconds, bootstrap likelihood -21239.231376, best rearrangement setting 13 Bootstrap[871]: Time 1.943195 seconds, bootstrap likelihood -21441.732571, best rearrangement setting 7 Bootstrap[115]: Time 1.793377 seconds, bootstrap likelihood -20395.591812, best rearrangement setting 7 Bootstrap[619]: Time 2.150966 seconds, bootstrap likelihood -20375.368823, best rearrangement setting 11 Bootstrap[787]: Time 1.797831 seconds, bootstrap likelihood -21049.950925, best rearrangement setting 15 Bootstrap[199]: Time 1.802963 seconds, bootstrap likelihood -18898.739759, best rearrangement setting 9 Bootstrap[535]: Time 1.886196 seconds, bootstrap likelihood -21241.408893, best rearrangement setting 8 Bootstrap[955]: Time 2.088007 seconds, bootstrap likelihood -21079.556610, best rearrangement setting 9 Bootstrap[451]: Time 1.975652 seconds, bootstrap likelihood -20790.638259, best rearrangement setting 6 Bootstrap[367]: Time 1.855807 seconds, bootstrap likelihood -21800.779578, best rearrangement setting 14 Bootstrap[31]: Time 2.408646 seconds, bootstrap likelihood -20721.171594, best rearrangement setting 15 Bootstrap[284]: Time 1.825252 seconds, bootstrap likelihood -21035.104570, best rearrangement setting 10 Bootstrap[704]: Time 1.870957 seconds, bootstrap likelihood -21624.677919, best rearrangement setting 5 Bootstrap[872]: Time 2.001424 seconds, bootstrap likelihood -20154.447658, best rearrangement setting 8 Bootstrap[116]: Time 1.953243 seconds, bootstrap likelihood -20912.714928, best rearrangement setting 7 Bootstrap[788]: Time 1.926831 seconds, bootstrap likelihood -20871.029475, best rearrangement setting 7 Bootstrap[536]: Time 1.849427 seconds, bootstrap likelihood -21328.166160, best rearrangement setting 14 Bootstrap[452]: Time 1.894660 seconds, bootstrap likelihood -21765.696622, best rearrangement setting 12 Bootstrap[956]: Time 1.911394 seconds, bootstrap likelihood -21185.402026, best rearrangement setting 10 Bootstrap[620]: Time 2.237170 seconds, bootstrap likelihood -20477.874753, best rearrangement setting 15 Bootstrap[200]: Time 2.304130 seconds, bootstrap likelihood -22397.113620, best rearrangement setting 8 Bootstrap[368]: Time 2.073019 seconds, bootstrap likelihood -22529.910808, best rearrangement setting 11 Bootstrap[32]: Time 1.982750 seconds, bootstrap likelihood -21167.022542, best rearrangement setting 6 Bootstrap[285]: Time 2.109009 seconds, bootstrap likelihood -22460.339537, best rearrangement setting 12 Bootstrap[873]: Time 1.852255 seconds, bootstrap likelihood -20014.478617, best rearrangement setting 6 Bootstrap[117]: Time 1.866056 seconds, bootstrap likelihood -21562.667497, best rearrangement setting 14 Bootstrap[789]: Time 1.902181 seconds, bootstrap likelihood -21350.207768, best rearrangement setting 7 Bootstrap[705]: Time 2.177730 seconds, bootstrap likelihood -21397.005552, best rearrangement setting 8 Bootstrap[621]: Time 1.817098 seconds, bootstrap likelihood -21107.760687, best rearrangement setting 9 Bootstrap[537]: Time 2.097770 seconds, bootstrap likelihood -21197.906085, best rearrangement setting 10 Bootstrap[957]: Time 1.955280 seconds, bootstrap likelihood -21016.349526, best rearrangement setting 5 Bootstrap[453]: Time 2.072797 seconds, bootstrap likelihood -21422.616451, best rearrangement setting 10 Bootstrap[201]: Time 1.974086 seconds, bootstrap likelihood -21083.146173, best rearrangement setting 13 Bootstrap[369]: Time 2.145398 seconds, bootstrap likelihood -21608.969163, best rearrangement setting 11 Bootstrap[33]: Time 1.936068 seconds, bootstrap likelihood -20964.914114, best rearrangement setting 15 Stopped Rapid BS search after 408 replicates with MRE-based Bootstopping criterion WRF Average of 100 random splits: 2.429415 Overall Time for 408 Rapid Bootstraps 76.744527 seconds Average Time per Rapid Bootstrap 0.188099 seconds Starting ML Search ... Fast ML search on Process 11: Time 12.471916 seconds Fast ML search on Process 6: Time 13.464494 seconds Fast ML search on Process 10: Time 14.499257 seconds Fast ML optimization finished Fast ML search on Process 0: Time 15.268854 seconds Fast ML search on Process 7: Time 17.438609 seconds Fast ML search on Process 8: Time 18.575544 seconds Fast ML search on Process 3: Time 18.787410 seconds Fast ML search on Process 9: Time 18.835436 seconds Fast ML search on Process 2: Time 19.325097 seconds Fast ML search on Process 1: Time 19.985192 seconds Fast ML search on Process 4: Time 21.217684 seconds Fast ML search on Process 5: Time 21.757716 seconds Slow ML Search 0 Likelihood: -23926.712802 Slow ML optimization finished Slow ML search on Process 0: Time 20.382156 seconds Slow ML Search 924 Likelihood: -23937.039115 Slow ML search on Process 11: Time 24.253408 seconds Slow ML Search 168 Likelihood: -23920.019112 Slow ML search on Process 2: Time 17.523473 seconds Slow ML Search 84 Likelihood: -23915.733025 Slow ML search on Process 1: Time 17.799227 seconds Slow ML Search 840 Likelihood: -23935.839423 Slow ML search on Process 10: Time 23.498609 seconds Slow ML Search 252 Likelihood: -23928.118984 Slow ML search on Process 3: Time 19.917262 seconds Slow ML Search 336 Likelihood: -23929.964541 Slow ML search on Process 4: Time 20.011319 seconds Slow ML Search 672 Likelihood: -23934.141387 Slow ML search on Process 8: Time 24.285910 seconds Slow ML Search 504 Likelihood: -23930.959078 Slow ML search on Process 6: Time 29.969937 seconds Slow ML Search 420 Likelihood: -23929.163129 Slow ML search on Process 5: Time 22.248201 seconds Slow ML Search 756 Likelihood: -23922.628524 Slow ML search on Process 9: Time 29.944684 seconds Slow ML Search 588 Likelihood: -23927.772978 Slow ML search on Process 7: Time 37.659487 seconds Thorough ML search on Process 0: Time 39.627717 seconds processID = 0, bestLH = -23916.490296 Thorough ML search on Process 11: Time 38.616906 seconds processID = 11, bestLH = -23920.009912 Thorough ML search on Process 2: Time 38.561337 seconds processID = 2, bestLH = -23908.506255 Thorough ML search on Process 10: Time 37.903723 seconds processID = 10, bestLH = -23915.661992 Thorough ML search on Process 1: Time 39.683437 seconds processID = 1, bestLH = -23913.011220 Thorough ML search on Process 3: Time 39.015738 seconds processID = 3, bestLH = -23913.802889 Thorough ML search on Process 8: Time 37.333585 seconds processID = 8, bestLH = -23916.935641 Thorough ML search on Process 6: Time 37.426443 seconds processID = 6, bestLH = -23918.774042 Thorough ML search on Process 5: Time 39.042222 seconds processID = 5, bestLH = -23915.694734 Thorough ML search on Process 4: Time 43.416651 seconds processID = 4, bestLH = -23917.906290 Thorough ML search on Process 9: Time 36.662490 seconds processID = 9, bestLH = -23904.977476 Thorough ML search on Process 7: Time 37.577789 seconds processID = 7, bestLH = -23918.385442 Final ML Optimization Likelihood: -23904.977476 Model Information: Model Parameters of Partition 0, Name: No Name Provided, Type of Data: DNA alpha: 0.199547 Tree-Length: 4.137258 rate A <-> C: 1.455731 rate A <-> G: 12.716304 rate A <-> T: 4.910994 rate C <-> G: 0.974099 rate C <-> T: 22.861647 rate G <-> T: 1.000000 freq pi(A): 0.286041 freq pi(C): 0.195743 freq pi(G): 0.201976 freq pi(T): 0.316240 ML search took 92.734678 secs or 0.025760 hours Combined Bootstrap and ML search took 169.472189 secs or 0.047076 hours Drawing Bootstrap Support Values on best-scoring ML tree ... Found 1 tree in File /projects/ps-ngbt/backend/comet_workspace/NGBW-JOB-RAXMLHPC2BB-4073206A473048D1A70C104535A670A3/RAxML_bestTree.result Found 1 tree in File /projects/ps-ngbt/backend/comet_workspace/NGBW-JOB-RAXMLHPC2BB-4073206A473048D1A70C104535A670A3/RAxML_bestTree.result Program execution info written to /projects/ps-ngbt/backend/comet_workspace/NGBW-JOB-RAXMLHPC2BB-4073206A473048D1A70C104535A670A3/RAxML_info.result All 408 bootstrapped trees written to: /projects/ps-ngbt/backend/comet_workspace/NGBW-JOB-RAXMLHPC2BB-4073206A473048D1A70C104535A670A3/RAxML_bootstrap.result Best-scoring ML tree written to: /projects/ps-ngbt/backend/comet_workspace/NGBW-JOB-RAXMLHPC2BB-4073206A473048D1A70C104535A670A3/RAxML_bestTree.result Best-scoring ML tree with support values written to: /projects/ps-ngbt/backend/comet_workspace/NGBW-JOB-RAXMLHPC2BB-4073206A473048D1A70C104535A670A3/RAxML_bipartitions.result Best-scoring ML tree with support values as branch labels written to: /projects/ps-ngbt/backend/comet_workspace/NGBW-JOB-RAXMLHPC2BB-4073206A473048D1A70C104535A670A3/RAxML_bipartitionsBranchLabels.result Overall execution time for full ML analysis: 169.572390 secs or 0.047103 hours or 0.001963 days