RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM RAxML-NG was called at 05-Jul-2021 16:59:45 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/2_msa/Q9Y399_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399 --seed 2 --threads 4 --tree rand{20} pars{20} Analysis options: run mode: ML tree search start tree(s): random (20) random seed: 2 tip-inner: OFF pattern compression: ON per-rate scalers: OFF site repeats: ON fast spr radius: AUTO spr subtree cutoff: 1.000000 branch lengths: proportional (ML estimate, algorithm: NR-FAST) SIMD kernels: AVX2 parallelization: coarse-grained (auto), PTHREADS (4 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/2_msa/Q9Y399_trimmed_msa.fasta [00:00:00] Loaded alignment with 401 taxa and 178 sites WARNING: Sequences tr_B4Q337_B4Q337_DROSI_7240 and tr_Q8MSS7_Q8MSS7_DROME_7227 are exactly identical! WARNING: Sequences tr_B4Q337_B4Q337_DROSI_7240 and tr_B4I173_B4I173_DROSE_7238 are exactly identical! WARNING: Sequences tr_B4Q337_B4Q337_DROSI_7240 and tr_A0A1W4UIX2_A0A1W4UIX2_DROFC_30025 are exactly identical! WARNING: Sequences tr_V5ILE0_V5ILE0_NEUCR_367110 and tr_G4UWA6_G4UWA6_NEUT9_510952 are exactly identical! WARNING: Sequences tr_Q29M94_Q29M94_DROPS_46245 and tr_B4G9K0_B4G9K0_DROPE_7234 are exactly identical! WARNING: Sequences tr_A0A158NWW8_A0A158NWW8_ATTCE_12957 and tr_A0A195BRU2_A0A195BRU2_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158Q0Q0_A0A158Q0Q0_BRUMA_6279 and tr_A0A0R3R5N9_A0A0R3R5N9_9BILA_42155 are exactly identical! WARNING: Sequences tr_F6YLF6_F6YLF6_MACMU_9544 and tr_G8F5E6_G8F5E6_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6YLF6_F6YLF6_MACMU_9544 and tr_A0A2K6AZP4_A0A2K6AZP4_MACNE_9545 are exactly identical! WARNING: Sequences tr_F4P880_F4P880_BATDJ_684364 and tr_A0A177WUH2_A0A177WUH2_BATDE_403673 are exactly identical! WARNING: Sequences tr_E6R4N4_E6R4N4_CRYGW_367775 and tr_A0A095D0V0_A0A095D0V0_CRYGR_294750 are exactly identical! WARNING: Sequences tr_E3LZT8_E3LZT8_CAERE_31234 and tr_A0A261BG37_A0A261BG37_9PELO_1503980 are exactly identical! WARNING: Sequences tr_M4ET54_M4ET54_BRARP_51351 and tr_A0A078IL36_A0A078IL36_BRANA_3708 are exactly identical! WARNING: Sequences tr_R9AIU7_R9AIU7_WALI9_1299270 and tr_R9AJ38_R9AJ38_WALI9_1299270 are exactly identical! WARNING: Sequences tr_U5GXY6_U5GXY6_USTV1_683840 and tr_A0A2X0M3T7_A0A2X0M3T7_9BASI_796604 are exactly identical! WARNING: Sequences tr_A0A015JJF5_A0A015JJF5_9GLOM_1432141 and tr_A0A2I1FYD7_A0A2I1FYD7_9GLOM_588596 are exactly identical! WARNING: Sequences tr_A0A2K6WE11_A0A2K6WE11_ONCVO_6282 and tr_A0A182EG09_A0A182EG09_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A094EA62_A0A094EA62_9PEZI_1420912 and tr_A0A1B8GCL1_A0A1B8GCL1_9PEZI_342668 are exactly identical! WARNING: Sequences tr_A0A0A2I2P3_A0A0A2I2P3_PENEN_27334 and tr_A0A0N0RYX0_A0A0N0RYX0_9EURO_229535 are exactly identical! WARNING: Sequences tr_A0A0A2I2P3_A0A0A2I2P3_PENEN_27334 and tr_A0A124GQH6_A0A124GQH6_9EURO_48697 are exactly identical! WARNING: Sequences tr_A0A0A2I2P3_A0A0A2I2P3_PENEN_27334 and tr_A0A1V6NPE4_A0A1V6NPE4_9EURO_60169 are exactly identical! WARNING: Sequences tr_A0A0A1MK71_A0A0A1MK71_9FUNG_58291 and tr_A0A2G4SW83_A0A2G4SW83_9FUNG_1340429 are exactly identical! WARNING: Sequences tr_A0A0A1MK71_A0A0A1MK71_9FUNG_58291 and tr_A0A367JST2_A0A367JST2_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A0V1D0N8_A0A0V1D0N8_TRIBR_45882 and tr_A0A0V0W5C8_A0A0V0W5C8_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V1D0N8_A0A0V1D0N8_TRIBR_45882 and tr_A0A0V1P305_A0A0V1P305_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1D0N8_A0A0V1D0N8_TRIBR_45882 and tr_A0A0V0TFS2_A0A0V0TFS2_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A165AH06_A0A165AH06_9HOMO_1314777 and tr_A0A166IW69_A0A166IW69_9HOMO_1314776 are exactly identical! WARNING: Sequences tr_A0A226NHJ2_A0A226NHJ2_CALSU_9009 and tr_A0A226P8H1_A0A226P8H1_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2H3C7X5_A0A2H3C7X5_9AGAR_1076256 and tr_A0A284QV19_A0A284QV19_9AGAR_47428 are exactly identical! WARNING: Duplicate sequences found: 29 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399.raxml.reduced.phy Alignment comprises 1 partitions and 178 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 178 / 178 Gaps: 5.06 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399.raxml.rba Parallelization scheme autoconfig: 4 worker(s) x 1 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 401 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 178 / 14240 [00:00:00] Data distribution: max. searches per worker: 5 Starting ML tree search with 20 distinct starting trees [00:00:00 -125583.874185] Initial branch length optimization [00:00:01 -103444.526403] Model parameter optimization (eps = 10.000000) [00:00:19 -103036.425487] AUTODETECT spr round 1 (radius: 5) [00:00:48 -72932.973155] AUTODETECT spr round 2 (radius: 10) [00:01:23 -56021.081934] AUTODETECT spr round 3 (radius: 15) [00:02:06 -47527.563678] AUTODETECT spr round 4 (radius: 20) [00:03:02 -46345.888508] AUTODETECT spr round 5 (radius: 25) [00:04:00 -46296.455502] SPR radius for FAST iterations: 25 (autodetect) [00:04:00 -46296.455502] Model parameter optimization (eps = 3.000000) [00:04:13 -46208.283311] FAST spr round 1 (radius: 25) [00:04:52 -40709.947895] FAST spr round 2 (radius: 25) [00:05:24 -40423.858913] FAST spr round 3 (radius: 25) [00:05:53 -40377.065858] FAST spr round 4 (radius: 25) [00:06:15 -40369.746375] FAST spr round 5 (radius: 25) [00:06:35 -40369.745695] Model parameter optimization (eps = 1.000000) [00:06:40 -40367.878029] SLOW spr round 1 (radius: 5) [00:07:25 -40358.081864] SLOW spr round 2 (radius: 5) [00:08:08 -40358.080277] SLOW spr round 3 (radius: 10) [00:08:44 -40355.951538] SLOW spr round 4 (radius: 5) [00:09:40 -40354.167576] SLOW spr round 5 (radius: 5) [00:10:21 -40354.167469] SLOW spr round 6 (radius: 10) [00:10:56 -40354.167466] SLOW spr round 7 (radius: 15) [00:11:56 -40351.565127] SLOW spr round 8 (radius: 5) [00:11:56] [worker #2] ML tree search #3, logLikelihood: -40355.096099 [00:12:50 -40351.565035] SLOW spr round 9 (radius: 10) [00:13:32 -40351.565033] SLOW spr round 10 (radius: 15) [00:14:25 -40351.565033] SLOW spr round 11 (radius: 20) [00:14:53] [worker #3] ML tree search #4, logLikelihood: -40356.830987 [00:15:37 -40351.565033] SLOW spr round 12 (radius: 25) [00:16:56 -40351.565033] Model parameter optimization (eps = 0.100000) [00:16:58] [worker #0] ML tree search #1, logLikelihood: -40351.485612 [00:16:58 -124552.403504] Initial branch length optimization [00:17:00 -102665.073701] Model parameter optimization (eps = 10.000000) [00:17:19 -102273.390534] AUTODETECT spr round 1 (radius: 5) [00:17:51 -72473.218665] AUTODETECT spr round 2 (radius: 10) [00:18:26 -55574.326424] AUTODETECT spr round 3 (radius: 15) [00:19:09 -48376.172243] AUTODETECT spr round 4 (radius: 20) [00:20:00 -46578.906941] AUTODETECT spr round 5 (radius: 25) [00:20:56 -46526.058970] SPR radius for FAST iterations: 25 (autodetect) [00:20:56 -46526.058970] Model parameter optimization (eps = 3.000000) [00:21:11 -46453.797785] FAST spr round 1 (radius: 25) [00:21:48 -40761.897727] FAST spr round 2 (radius: 25) [00:22:02] [worker #1] ML tree search #2, logLikelihood: -40356.411419 [00:22:26 -40425.629012] FAST spr round 3 (radius: 25) [00:22:57 -40408.924208] FAST spr round 4 (radius: 25) [00:23:24 -40395.430484] FAST spr round 5 (radius: 25) [00:23:47 -40392.446659] FAST spr round 6 (radius: 25) [00:24:12 -40392.446514] Model parameter optimization (eps = 1.000000) [00:24:18 -40390.121537] SLOW spr round 1 (radius: 5) [00:24:55 -40385.817374] SLOW spr round 2 (radius: 5) [00:25:29 -40385.816669] SLOW spr round 3 (radius: 10) [00:26:04 -40384.500583] SLOW spr round 4 (radius: 5) [00:26:28] [worker #2] ML tree search #7, logLikelihood: -40356.690365 [00:26:57 -40367.364442] SLOW spr round 5 (radius: 5) [00:27:41 -40366.113455] SLOW spr round 6 (radius: 5) [00:28:19 -40363.657444] SLOW spr round 7 (radius: 5) [00:28:56 -40363.183881] SLOW spr round 8 (radius: 5) [00:29:31 -40363.183881] SLOW spr round 9 (radius: 10) [00:30:05 -40363.183881] SLOW spr round 10 (radius: 15) [00:30:55] [worker #3] ML tree search #8, logLikelihood: -40353.924503 [00:31:03 -40363.183881] SLOW spr round 11 (radius: 20) [00:32:11 -40363.183881] SLOW spr round 12 (radius: 25) [00:33:30 -40363.183881] Model parameter optimization (eps = 0.100000) [00:33:33] [worker #0] ML tree search #5, logLikelihood: -40363.130052 [00:33:33 -124486.045240] Initial branch length optimization [00:33:35 -102820.820380] Model parameter optimization (eps = 10.000000) [00:33:53 -102385.234959] AUTODETECT spr round 1 (radius: 5) [00:34:23 -72019.182854] AUTODETECT spr round 2 (radius: 10) [00:34:59 -55087.052700] AUTODETECT spr round 3 (radius: 15) [00:35:41 -49170.349447] AUTODETECT spr round 4 (radius: 20) [00:36:44 -46313.778896] AUTODETECT spr round 5 (radius: 25) [00:38:07 -46313.761930] SPR radius for FAST iterations: 20 (autodetect) [00:38:07 -46313.761930] Model parameter optimization (eps = 3.000000) [00:38:17 -46261.727536] FAST spr round 1 (radius: 20) [00:38:59 -40726.018153] FAST spr round 2 (radius: 20) [00:39:28 -40416.243171] FAST spr round 3 (radius: 20) [00:39:54 -40384.802859] FAST spr round 4 (radius: 20) [00:40:15 -40383.074993] FAST spr round 5 (radius: 20) [00:40:36 -40383.074904] Model parameter optimization (eps = 1.000000) [00:40:43 -40381.139910] SLOW spr round 1 (radius: 5) [00:41:21 -40373.503355] SLOW spr round 2 (radius: 5) [00:42:01 -40362.751896] SLOW spr round 3 (radius: 5) [00:42:17] [worker #1] ML tree search #6, logLikelihood: -40351.011359 [00:42:39 -40358.952959] SLOW spr round 4 (radius: 5) [00:43:15 -40358.946547] SLOW spr round 5 (radius: 10) [00:43:50 -40358.489322] SLOW spr round 6 (radius: 5) [00:43:53] [worker #3] ML tree search #12, logLikelihood: -40360.982222 [00:44:40 -40356.472918] SLOW spr round 7 (radius: 5) [00:45:22 -40356.472517] SLOW spr round 8 (radius: 10) [00:45:47] [worker #2] ML tree search #11, logLikelihood: -40348.209456 [00:45:58 -40356.369773] SLOW spr round 9 (radius: 5) [00:46:46 -40356.369772] SLOW spr round 10 (radius: 10) [00:47:28 -40356.369772] SLOW spr round 11 (radius: 15) [00:48:24 -40356.369772] SLOW spr round 12 (radius: 20) [00:49:36 -40356.369772] SLOW spr round 13 (radius: 25) [00:50:50 -40356.369772] Model parameter optimization (eps = 0.100000) [00:50:55] [worker #0] ML tree search #9, logLikelihood: -40355.820764 [00:50:55 -125802.011176] Initial branch length optimization [00:50:56 -103667.528474] Model parameter optimization (eps = 10.000000) [00:51:11 -103294.539098] AUTODETECT spr round 1 (radius: 5) [00:51:47 -72538.039168] AUTODETECT spr round 2 (radius: 10) [00:52:28 -54188.616478] AUTODETECT spr round 3 (radius: 15) [00:53:09 -44955.160639] AUTODETECT spr round 4 (radius: 20) [00:54:03 -43955.635475] AUTODETECT spr round 5 (radius: 25) [00:54:54] [worker #1] ML tree search #10, logLikelihood: -40349.322111 [00:55:02 -43886.065110] SPR radius for FAST iterations: 25 (autodetect) [00:55:02 -43886.065110] Model parameter optimization (eps = 3.000000) [00:55:15 -43819.440670] FAST spr round 1 (radius: 25) [00:55:50 -40556.876117] FAST spr round 2 (radius: 25) [00:56:20 -40407.817842] FAST spr round 3 (radius: 25) [00:56:47 -40395.128668] FAST spr round 4 (radius: 25) [00:57:09 -40394.434243] FAST spr round 5 (radius: 25) [00:57:31 -40394.433878] Model parameter optimization (eps = 1.000000) [00:57:34] [worker #3] ML tree search #16, logLikelihood: -40373.526665 [00:57:39 -40388.175706] SLOW spr round 1 (radius: 5) [00:58:18 -40371.563973] SLOW spr round 2 (radius: 5) [00:58:57 -40370.150459] SLOW spr round 3 (radius: 5) [00:59:08] [worker #2] ML tree search #15, logLikelihood: -40359.337026 [00:59:31 -40368.886785] SLOW spr round 4 (radius: 5) [01:00:05 -40368.886614] SLOW spr round 5 (radius: 10) [01:00:38 -40367.853168] SLOW spr round 6 (radius: 5) [01:01:26 -40367.853140] SLOW spr round 7 (radius: 10) [01:02:07 -40367.523004] SLOW spr round 8 (radius: 5) [01:02:55 -40367.522882] SLOW spr round 9 (radius: 10) [01:03:35 -40367.522876] SLOW spr round 10 (radius: 15) [01:04:29 -40367.522876] SLOW spr round 11 (radius: 20) [01:05:36 -40367.522876] SLOW spr round 12 (radius: 25) [01:07:05 -40367.522876] Model parameter optimization (eps = 0.100000) [01:07:12] [worker #0] ML tree search #13, logLikelihood: -40365.663194 [01:07:12 -124484.490549] Initial branch length optimization [01:07:14 -102342.762847] Model parameter optimization (eps = 10.000000) [01:07:31 -101960.462286] AUTODETECT spr round 1 (radius: 5) [01:07:58 -74040.456520] AUTODETECT spr round 2 (radius: 10) [01:08:39 -55718.024382] AUTODETECT spr round 3 (radius: 15) [01:09:23 -46122.530217] AUTODETECT spr round 4 (radius: 20) [01:10:08 -45719.705236] AUTODETECT spr round 5 (radius: 25) [01:10:24] [worker #3] ML tree search #20, logLikelihood: -40435.196216 [01:11:05 -45462.130438] SPR radius for FAST iterations: 25 (autodetect) [01:11:05 -45462.130438] Model parameter optimization (eps = 3.000000) [01:11:17 -45389.614438] FAST spr round 1 (radius: 25) [01:11:55 -40539.685815] FAST spr round 2 (radius: 25) [01:12:25 -40392.024728] FAST spr round 3 (radius: 25) [01:12:27] [worker #1] ML tree search #14, logLikelihood: -40362.640334 [01:12:53 -40377.405711] FAST spr round 4 (radius: 25) [01:13:17 -40371.320867] FAST spr round 5 (radius: 25) [01:13:41 -40368.452715] FAST spr round 6 (radius: 25) [01:14:01 -40368.452132] Model parameter optimization (eps = 1.000000) [01:14:07 -40366.871824] SLOW spr round 1 (radius: 5) [01:14:46 -40359.519228] SLOW spr round 2 (radius: 5) [01:15:24 -40357.147831] SLOW spr round 3 (radius: 5) [01:15:58 -40356.394796] SLOW spr round 4 (radius: 5) [01:16:33 -40356.394770] SLOW spr round 5 (radius: 10) [01:17:10 -40351.266755] SLOW spr round 6 (radius: 5) [01:18:00 -40351.266728] SLOW spr round 7 (radius: 10) [01:18:40 -40351.108399] SLOW spr round 8 (radius: 5) [01:19:29 -40351.107811] SLOW spr round 9 (radius: 10) [01:20:06 -40351.107804] SLOW spr round 10 (radius: 15) [01:21:00 -40351.107798] SLOW spr round 11 (radius: 20) [01:21:16] [worker #2] ML tree search #19, logLikelihood: -40355.310267 [01:22:17 -40351.107793] SLOW spr round 12 (radius: 25) [01:23:31 -40351.107787] Model parameter optimization (eps = 0.100000) [01:23:37] [worker #0] ML tree search #17, logLikelihood: -40350.837520 [01:27:29] [worker #1] ML tree search #18, logLikelihood: -40359.149283 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.176402,0.518073) (0.292826,0.590833) (0.339606,0.975675) (0.191166,2.114680) Base frequencies (model): M0: 0.147383 0.017579 0.058208 0.017707 0.026331 0.041582 0.017494 0.027859 0.011849 0.076971 0.147823 0.019535 0.037132 0.029940 0.008059 0.088179 0.089653 0.006477 0.032308 0.097931 M1: 0.063139 0.066357 0.011586 0.066571 0.010800 0.009276 0.053984 0.146986 0.034214 0.088822 0.098196 0.032390 0.021263 0.072697 0.016761 0.020711 0.020797 0.025463 0.045615 0.094372 M2: 0.062457 0.066826 0.049332 0.065270 0.006513 0.041231 0.058965 0.080852 0.028024 0.037024 0.075925 0.064131 0.019620 0.028710 0.104579 0.056388 0.062027 0.008241 0.033124 0.050760 M3: 0.106471 0.074171 0.044513 0.096390 0.002148 0.066733 0.158908 0.037625 0.020691 0.014608 0.028797 0.105352 0.007864 0.007477 0.083595 0.055726 0.047711 0.003975 0.010088 0.027159 Substitution rates (model): M 0: 0.295719 0.067388 0.253712 1.029289 0.107964 0.514644 10.868848 0.380498 0.084223 0.086976 0.188789 0.286389 0.155567 1.671061 2.132922 0.529591 0.115551 0.102453 0.916683 0.448317 0.457483 0.576016 1.741924 0.736017 0.704334 5.658311 0.123387 0.221777 93.433377 0.382175 0.235965 6.535048 0.525521 0.303537 0.641259 0.289466 0.102065 2.358429 0.251987 0.216561 0.503084 0.435271 4.873453 0.090748 0.033310 0.746537 0.128905 0.127321 0.904011 0.939733 0.435450 0.046646 0.262076 0.043986 0.189008 0.599450 109.901504 1.070052 5.229858 0.052764 0.021407 0.621146 0.081091 0.205164 5.164456 0.747330 0.308078 0.260889 0.185083 0.080708 0.029955 0.084794 1.862626 0.553477 0.151733 0.230320 0.096955 0.352526 0.590018 0.386853 1.559564 0.606648 0.587531 0.592318 0.885230 4.117654 0.246260 6.508329 0.054187 0.195703 1.669092 0.810168 0.066081 2.437439 0.165666 0.106333 0.093417 0.035149 0.072549 1.202023 1.634845 0.060194 0.069359 2.448827 0.232297 0.064822 3.537387 0.435384 0.290413 0.280695 0.105999 0.206603 0.404968 0.048984 0.069963 0.256662 0.228519 0.241077 4.320442 3.656545 0.290216 0.307466 0.096556 0.306067 0.204296 0.504221 1.991533 0.655465 6.799829 11.291065 0.961142 0.448965 6.227274 20.304886 0.205944 1.495537 0.091940 1.994320 0.754940 0.170343 0.050315 0.372166 0.206332 0.097050 5.381403 0.122332 3.256485 2.261319 0.848067 0.064441 0.102493 0.459041 0.133091 0.561215 0.457430 0.163849 5.260446 0.360946 0.389413 0.033291 0.115301 0.112593 1.559944 0.426508 0.132547 0.498634 0.559069 0.264728 0.693307 0.438856 0.306683 0.109129 18.392863 66.647302 0.400021 4.586081 2.099355 0.411347 0.476350 0.584622 3.634276 0.101797 0.148995 0.089177 0.034710 0.063603 0.755865 20.561407 0.133790 0.154902 M 1: 0.066142 0.590377 0.069930 9.850951 1.101363 0.150375 0.568586 0.051668 0.127170 0.292429 0.071458 1.218562 0.075144 7.169085 30.139501 13.461692 0.021372 0.045779 4.270235 0.468325 0.013688 0.302287 1.353957 0.028386 0.037750 0.262130 0.016923 0.064289 0.855973 0.079621 0.011169 0.161937 0.276530 0.161053 0.081472 0.036742 0.030342 2.851667 3.932151 8.159169 0.219934 0.421974 2.468752 0.344765 0.210724 1.172204 0.763553 0.082464 0.726566 11.149790 4.782635 0.058046 0.498072 0.258487 0.146882 0.249672 0.560142 0.046719 0.106259 0.003656 0.004200 0.014189 0.009876 0.002656 0.040244 0.267322 0.053740 0.006597 0.027639 0.012745 0.582670 0.005035 0.275844 0.098208 0.445038 1.217010 0.033969 1.988516 0.681161 0.825960 18.762977 11.949233 0.286794 0.534219 4.336817 3.054085 0.129551 4.210126 0.165753 1.088704 1.889645 3.344809 0.111063 2.067758 3.547017 2.466507 0.188236 0.203493 0.281953 0.037250 0.029788 0.008541 0.014768 0.125869 0.056702 0.004186 0.110993 0.201148 0.139705 0.009201 0.012095 0.043812 0.013513 0.002533 0.005848 0.031390 0.021612 0.004854 0.129497 0.976631 0.053397 0.019475 0.004964 0.015539 0.031779 0.064558 0.065585 0.079927 0.095591 0.196886 0.408834 0.126088 0.037226 0.452302 0.016212 7.278994 0.029917 7.918203 0.450964 0.169797 0.104288 1.578530 0.015909 0.094365 16.179952 0.042762 14.799537 1.506485 0.637893 0.123793 0.641351 0.154810 0.140750 3.416059 0.259400 0.009457 0.090576 0.292108 0.297913 0.017172 0.021976 0.032578 1.375871 0.457399 0.598048 4.418398 0.239749 0.168432 2.950318 0.143327 0.328689 0.125011 0.562720 1.414883 0.227807 3.478333 2.984862 0.061299 0.077470 1.050562 13.974326 0.154326 0.224675 0.112000 0.060703 0.123480 5.294490 0.447011 0.033381 0.045528 M 2: 0.733336 0.558955 0.503360 4.149599 1.415369 1.367574 1.263002 0.994098 0.517204 0.775054 0.763094 1.890137 0.540460 0.200122 4.972745 1.825593 0.450842 0.526135 3.839269 0.597671 0.058964 2.863355 2.872594 0.258365 0.366868 2.578946 0.358350 0.672023 5.349861 0.691594 0.063347 0.032875 0.821562 0.580847 0.661866 0.265730 0.395134 5.581680 1.279881 1.335650 0.397108 1.840061 5.739035 0.284730 0.109781 1.612642 0.466979 0.141582 0.019509 4.670980 1.967383 0.088064 0.581928 0.145401 0.225860 0.434096 2.292917 1.024707 0.821921 0.027824 0.021443 0.088850 0.060820 0.018288 0.042687 1.199607 0.420710 0.037642 0.141233 0.090101 1.043232 0.209978 0.823594 3.039380 1.463390 1.983693 0.397640 2.831098 4.102068 0.059723 5.901348 2.034980 2.600668 5.413080 4.193725 4.534772 0.377181 4.877840 0.370939 1.298542 3.509873 2.646440 0.087872 0.072299 1.139018 0.864479 0.390688 0.322761 0.625409 0.496780 0.532488 0.232460 0.169219 0.755219 0.379926 0.020447 0.023282 0.503875 0.577513 0.109318 0.153776 0.696533 0.398817 0.008940 0.043707 0.436013 0.087640 0.064863 0.036426 1.673207 0.124068 0.218118 0.039217 0.104335 0.349195 0.838324 0.888693 0.488389 1.385133 0.050226 0.962470 0.502294 1.065585 8.351808 0.377304 5.102837 0.561690 7.010411 3.054968 0.039318 0.204155 2.653232 0.564368 0.854294 15.559906 0.401070 8.929538 5.525874 0.067505 0.273372 0.437116 1.927515 0.940458 2.508169 1.357738 0.043394 0.023126 0.567639 1.048288 0.120994 0.180650 0.449074 3.135353 0.012695 0.570771 2.319555 1.856122 0.975427 3.404087 0.015631 0.458799 0.151684 4.154750 11.429924 1.457957 0.233109 0.077004 0.011074 0.026268 0.052132 8.113282 0.377578 0.429221 0.260296 0.222293 0.273138 2.903836 4.731579 0.564762 0.681215 M 3: 0.658412 0.566269 0.854111 0.884454 1.309554 1.272639 1.874713 0.552007 0.227683 0.581512 0.695190 0.967985 0.344015 0.978992 3.427163 2.333253 0.154701 0.221089 2.088785 0.540749 0.058015 5.851132 2.294145 0.182966 0.684164 3.192521 0.528161 1.128882 3.010922 1.012866 0.227296 0.156635 0.878405 0.802754 0.830884 0.431617 0.456530 3.060574 1.279257 1.438430 0.431464 2.075952 4.840271 0.644656 0.266076 2.084975 0.720060 0.291854 0.028961 4.071574 2.258357 0.073037 1.238426 0.199728 0.160296 0.482619 2.992763 1.296206 0.841829 0.031467 0.048542 0.132774 0.133055 0.056045 0.209188 0.925172 0.360522 0.094591 0.313945 0.118104 0.992259 0.086318 2.149634 5.103188 3.775817 3.954021 0.190734 1.776095 4.495841 0.264277 7.063879 2.221150 3.017954 8.558815 4.310199 2.130054 0.571406 4.137385 0.437589 2.071689 2.498630 1.763546 0.116381 0.296578 1.033710 1.283423 0.312579 0.305772 0.681277 0.507160 0.351381 0.189152 0.217780 0.767361 0.278392 0.092075 0.177263 0.451893 0.653836 0.074620 0.181992 0.752277 0.679853 0.025780 0.082005 0.326441 0.343977 0.195877 0.217424 3.057583 0.377558 0.401252 0.072258 0.241015 0.665865 1.266791 0.680174 0.717301 4.001286 0.362942 1.189259 0.964545 1.350568 12.869737 0.531100 8.904999 0.652629 10.091413 2.671718 0.086367 0.359932 4.797423 0.336801 1.021885 23.029406 0.440178 14.013035 5.069337 0.539010 0.742569 0.780580 1.331875 1.531589 4.414850 1.082703 0.091278 0.172734 0.693405 1.422571 0.068958 0.163829 0.481711 4.643214 0.121821 0.584083 4.216178 1.677263 1.575754 5.046403 0.161015 1.531223 0.599244 5.832025 33.873091 1.914768 1.287474 0.444362 0.076328 0.079916 0.466823 5.231362 0.548763 0.831890 0.382271 0.208791 0.307846 3.717971 5.910440 0.282540 0.964421 Final LogLikelihood: -40348.209456 AIC score: 82306.418913 / AICc score: 1379966.418913 / BIC score: 84867.754671 Free parameters (model + branch lengths): 805 WARNING: Number of free parameters (K=805) is larger than alignment size (n=178). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 28 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y399/3_mltree/Q9Y399.raxml.log Analysis started: 05-Jul-2021 16:59:45 / finished: 05-Jul-2021 18:27:15 Elapsed time: 5249.862 seconds Consumed energy: 415.473 Wh (= 2 km in an electric car, or 10 km with an e-scooter!)