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 03-Jul-2021 02:43:27 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/2_msa/P20231_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/3_mltree/P20231 --seed 2 --threads 5 --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 (5 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/2_msa/P20231_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 242 sites WARNING: Sequences tr_G3QJV2_G3QJV2_GORGO_9595 and sp_Q9BYE2_TMPSD_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QJV2_G3QJV2_GORGO_9595 and tr_A0A2R9BHU2_A0A2R9BHU2_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3R2X1_G3R2X1_GORGO_9595 and tr_H2QQJ4_H2QQJ4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R2X1_G3R2X1_GORGO_9595 and sp_P03951_FA11_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R2X1_G3R2X1_GORGO_9595 and tr_A0A2R9BBJ0_A0A2R9BBJ0_PANPA_9597 are exactly identical! WARNING: Sequences tr_F1Q464_F1Q464_CANLF_9615 and sp_P19236_TRYM_CANLF_9615 are exactly identical! WARNING: Sequences tr_A0A2I3S5F8_A0A2I3S5F8_PANTR_9598 and tr_A0A2R8ZNJ0_A0A2R8ZNJ0_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3SRK3_A0A2I3SRK3_PANTR_9598 and tr_A0A2R8ZAY6_A0A2R8ZAY6_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3TRF4_A0A2I3TRF4_PANTR_9598 and tr_A0A2R9BKC6_A0A2R9BKC6_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2QAE0_H2QAE0_PANTR_9598 and tr_A0A2R8ZPG1_A0A2R8ZPG1_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2QL28_H2QL28_PANTR_9598 and tr_A0A2R9AG78_A0A2R9AG78_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2RBL6_H2RBL6_PANTR_9598 and tr_A0A2R9CNX8_A0A2R9CNX8_PANPA_9597 are exactly identical! WARNING: Sequences sp_P20231_TRYB2_HUMAN_9606 and sp_Q15661_TRYB1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A1D5RIJ7_A0A1D5RIJ7_MACMU_9544 and tr_A0A2K5XQE9_A0A2K5XQE9_MANLE_9568 are exactly identical! WARNING: Sequences tr_F6PJA1_F6PJA1_MACMU_9544 and tr_G7PKF5_G7PKF5_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7EGM1_F7EGM1_MACMU_9544 and tr_A0A2K6CD39_A0A2K6CD39_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7FT49_F7FT49_MACMU_9544 and tr_G7Q0A2_G7Q0A2_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1LAQ0_G1LAQ0_AILME_9646 and tr_A0A384C0K7_A0A384C0K7_URSMA_29073 are exactly identical! WARNING: Sequences tr_G7NXX1_G7NXX1_MACFA_9541 and tr_A0A2K6BXE6_A0A2K6BXE6_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3LGL3_A0A2I3LGL3_PAPAN_9555 and tr_A0A2K5Y1M8_A0A2K5Y1M8_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3MMZ8_A0A2I3MMZ8_PAPAN_9555 and tr_A0A2K5KJ65_A0A2K5KJ65_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3NGX5_A0A2I3NGX5_PAPAN_9555 and tr_A0A0D9S3I2_A0A0D9S3I2_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I3NGX5_A0A2I3NGX5_PAPAN_9555 and tr_A0A2K5NM45_A0A2K5NM45_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3NGX5_A0A2I3NGX5_PAPAN_9555 and tr_A0A2K6DQT3_A0A2K6DQT3_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2D0SVS9_A0A2D0SVS9_ICTPU_7998 and tr_W5U639_W5U639_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2K5M010_A0A2K5M010_CERAT_9531 and tr_A0A2K5YIF9_A0A2K5YIF9_MANLE_9568 are exactly identical! WARNING: Duplicate sequences found: 26 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/P20231/3_mltree/P20231.raxml.reduced.phy Alignment comprises 1 partitions and 242 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 242 / 242 Gaps: 5.79 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/3_mltree/P20231.raxml.rba Parallelization scheme autoconfig: 5 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 1001 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 242 / 19360 [00:00:00] Data distribution: max. searches per worker: 4 Starting ML tree search with 20 distinct starting trees [00:00:00 -412348.478027] Initial branch length optimization [00:00:05 -360639.385928] Model parameter optimization (eps = 10.000000) [00:00:46 -359841.175737] AUTODETECT spr round 1 (radius: 5) [00:04:23 -281485.240452] AUTODETECT spr round 2 (radius: 10) [00:08:40 -204685.334767] AUTODETECT spr round 3 (radius: 15) [00:13:10 -174981.173972] AUTODETECT spr round 4 (radius: 20) [00:19:16 -166105.681882] AUTODETECT spr round 5 (radius: 25) [00:27:26 -165313.067450] SPR radius for FAST iterations: 25 (autodetect) [00:27:26 -165313.067450] Model parameter optimization (eps = 3.000000) [00:27:58 -165200.696145] FAST spr round 1 (radius: 25) [00:33:30 -147618.540786] FAST spr round 2 (radius: 25) [00:36:50 -146649.856553] FAST spr round 3 (radius: 25) [00:39:43 -146555.463468] FAST spr round 4 (radius: 25) [00:42:17 -146542.751550] FAST spr round 5 (radius: 25) [00:44:42 -146538.506226] FAST spr round 6 (radius: 25) [00:47:01 -146538.506210] Model parameter optimization (eps = 1.000000) [00:47:16 -146536.180455] SLOW spr round 1 (radius: 5) [00:50:41 -146487.839563] SLOW spr round 2 (radius: 5) [00:53:54 -146475.445705] SLOW spr round 3 (radius: 5) [00:57:00 -146473.812925] SLOW spr round 4 (radius: 5) [01:00:02 -146473.812825] SLOW spr round 5 (radius: 10) [01:03:15 -146471.656964] SLOW spr round 6 (radius: 5) [01:07:14 -146470.990571] SLOW spr round 7 (radius: 5) [01:10:42 -146470.990443] SLOW spr round 8 (radius: 10) [01:14:02 -146470.990435] SLOW spr round 9 (radius: 15) [01:20:34 -146470.943786] SLOW spr round 10 (radius: 20) [01:32:22 -146470.943785] SLOW spr round 11 (radius: 25) [01:37:16] [worker #3] ML tree search #4, logLikelihood: -146472.510133 [01:40:26] [worker #2] ML tree search #3, logLikelihood: -146487.414374 [01:44:26] [worker #1] ML tree search #2, logLikelihood: -146477.214521 [01:46:41 -146470.943785] Model parameter optimization (eps = 0.100000) [01:46:49] [worker #0] ML tree search #1, logLikelihood: -146470.917032 [01:46:49 -411434.254841] Initial branch length optimization [01:46:53 -360340.218608] Model parameter optimization (eps = 10.000000) [01:47:37 -359574.961975] AUTODETECT spr round 1 (radius: 5) [01:47:50] [worker #4] ML tree search #5, logLikelihood: -146476.368658 [01:51:15 -279428.428871] AUTODETECT spr round 2 (radius: 10) [01:55:35 -205654.579442] AUTODETECT spr round 3 (radius: 15) [02:00:30 -168539.610702] AUTODETECT spr round 4 (radius: 20) [02:06:15 -162922.492019] AUTODETECT spr round 5 (radius: 25) [02:15:07 -162671.934226] SPR radius for FAST iterations: 25 (autodetect) [02:15:07 -162671.934226] Model parameter optimization (eps = 3.000000) [02:15:38 -162551.985715] FAST spr round 1 (radius: 25) [02:20:42 -147108.944521] FAST spr round 2 (radius: 25) [02:23:55 -146591.867282] FAST spr round 3 (radius: 25) [02:26:46 -146515.468171] FAST spr round 4 (radius: 25) [02:29:20 -146503.502304] FAST spr round 5 (radius: 25) [02:31:44 -146503.502137] Model parameter optimization (eps = 1.000000) [02:31:56 -146502.387717] SLOW spr round 1 (radius: 5) [02:35:27 -146480.143747] SLOW spr round 2 (radius: 5) [02:38:47 -146474.183866] SLOW spr round 3 (radius: 5) [02:41:57 -146474.183839] SLOW spr round 4 (radius: 10) [02:45:13 -146474.183839] SLOW spr round 5 (radius: 15) [02:51:45 -146471.568490] SLOW spr round 6 (radius: 5) [02:55:56 -146471.568420] SLOW spr round 7 (radius: 10) [02:59:50 -146471.568418] SLOW spr round 8 (radius: 15) [03:05:33 -146471.568418] SLOW spr round 9 (radius: 20) [03:11:50] [worker #2] ML tree search #8, logLikelihood: -146484.247906 [03:13:11] [worker #3] ML tree search #9, logLikelihood: -146458.243822 [03:16:55 -146471.568418] SLOW spr round 10 (radius: 25) [03:30:55 -146471.568418] Model parameter optimization (eps = 0.100000) [03:31:02] [worker #0] ML tree search #6, logLikelihood: -146471.551527 [03:31:03 -411607.028553] Initial branch length optimization [03:31:06 -359309.995015] Model parameter optimization (eps = 10.000000) [03:32:00 -358557.540158] AUTODETECT spr round 1 (radius: 5) [03:35:34 -283268.515475] AUTODETECT spr round 2 (radius: 10) [03:39:16] [worker #1] ML tree search #7, logLikelihood: -146456.258676 [03:39:50 -204376.286204] AUTODETECT spr round 3 (radius: 15) [03:44:33 -177605.611792] AUTODETECT spr round 4 (radius: 20) [03:51:08 -168011.974947] AUTODETECT spr round 5 (radius: 25) [03:58:50] [worker #4] ML tree search #10, logLikelihood: -146483.120519 [04:00:49 -166400.226599] SPR radius for FAST iterations: 25 (autodetect) [04:00:49 -166400.226599] Model parameter optimization (eps = 3.000000) [04:01:20 -166282.556683] FAST spr round 1 (radius: 25) [04:07:01 -147495.470513] FAST spr round 2 (radius: 25) [04:10:28 -146674.503799] FAST spr round 3 (radius: 25) [04:13:32 -146550.393317] FAST spr round 4 (radius: 25) [04:16:07 -146534.931691] FAST spr round 5 (radius: 25) [04:18:31 -146534.196647] FAST spr round 6 (radius: 25) [04:20:52 -146534.196645] Model parameter optimization (eps = 1.000000) [04:21:06 -146532.761264] SLOW spr round 1 (radius: 5) [04:24:35 -146491.048578] SLOW spr round 2 (radius: 5) [04:27:49 -146488.687373] SLOW spr round 3 (radius: 5) [04:31:00 -146487.511086] SLOW spr round 4 (radius: 5) [04:34:06 -146487.511065] SLOW spr round 5 (radius: 10) [04:37:24 -146487.511064] SLOW spr round 6 (radius: 15) [04:44:16 -146487.511064] SLOW spr round 7 (radius: 20) [04:55:49 -146487.511064] SLOW spr round 8 (radius: 25) [05:10:08 -146487.511064] Model parameter optimization (eps = 0.100000) [05:10:18] [worker #0] ML tree search #11, logLikelihood: -146487.494491 [05:10:19 -411974.179753] Initial branch length optimization [05:10:23 -360164.334477] Model parameter optimization (eps = 10.000000) [05:11:16 -359363.596482] AUTODETECT spr round 1 (radius: 5) [05:14:53 -280753.263939] AUTODETECT spr round 2 (radius: 10) [05:16:52] [worker #2] ML tree search #13, logLikelihood: -146483.753631 [05:19:08 -199111.367043] AUTODETECT spr round 3 (radius: 15) [05:23:41 -171875.420729] AUTODETECT spr round 4 (radius: 20) [05:30:09 -164911.832861] AUTODETECT spr round 5 (radius: 25) [05:36:44] [worker #3] ML tree search #14, logLikelihood: -146439.024746 [05:39:37 -163876.281291] SPR radius for FAST iterations: 25 (autodetect) [05:39:37 -163876.281291] Model parameter optimization (eps = 3.000000) [05:40:04 -163805.353120] FAST spr round 1 (radius: 25) [05:42:43] [worker #4] ML tree search #15, logLikelihood: -146478.179035 [05:45:48 -147421.587592] FAST spr round 2 (radius: 25) [05:49:14 -146647.565397] FAST spr round 3 (radius: 25) [05:52:13 -146585.167682] FAST spr round 4 (radius: 25) [05:54:50 -146557.689584] FAST spr round 5 (radius: 25) [05:57:15 -146556.645631] FAST spr round 6 (radius: 25) [05:59:36 -146556.645516] Model parameter optimization (eps = 1.000000) [05:59:57 -146546.113556] SLOW spr round 1 (radius: 5) [06:03:28 -146488.288318] SLOW spr round 2 (radius: 5) [06:06:47 -146483.513279] SLOW spr round 3 (radius: 5) [06:08:04] [worker #1] ML tree search #12, logLikelihood: -146482.319958 [06:09:56 -146482.161317] SLOW spr round 4 (radius: 5) [06:13:03 -146482.158834] SLOW spr round 5 (radius: 10) [06:16:19 -146480.854445] SLOW spr round 6 (radius: 5) [06:20:19 -146480.854431] SLOW spr round 7 (radius: 10) [06:24:01 -146480.854431] SLOW spr round 8 (radius: 15) [06:29:40 -146479.710608] SLOW spr round 9 (radius: 5) [06:33:31 -146479.480329] SLOW spr round 10 (radius: 5) [06:36:48 -146479.480154] SLOW spr round 11 (radius: 10) [06:39:56 -146479.480151] SLOW spr round 12 (radius: 15) [06:45:54 -146479.480151] SLOW spr round 13 (radius: 20) [06:57:11 -146479.480151] SLOW spr round 14 (radius: 25) [06:59:38] [worker #2] ML tree search #18, logLikelihood: -146463.311209 [07:10:34 -146479.480151] Model parameter optimization (eps = 0.100000) [07:10:43] [worker #0] ML tree search #16, logLikelihood: -146479.330207 [07:17:26] [worker #3] ML tree search #19, logLikelihood: -146446.373008 [07:18:06] [worker #4] ML tree search #20, logLikelihood: -146458.345859 [07:39:04] [worker #1] ML tree search #17, logLikelihood: -146469.610142 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.160246,0.218209) (0.253962,0.329666) (0.320371,1.150494) (0.265422,1.931741) 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: -146439.024746 AIC score: 296888.049493 / AICc score: 8340948.049493 / BIC score: 303883.369634 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=242). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 68 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/3_mltree/P20231.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/3_mltree/P20231.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/3_mltree/P20231.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/3_mltree/P20231.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P20231/3_mltree/P20231.raxml.log Analysis started: 03-Jul-2021 02:43:27 / finished: 03-Jul-2021 10:22:33 Elapsed time: 27545.071 seconds Consumed energy: 2541.666 Wh (= 13 km in an electric car, or 64 km with an e-scooter!)