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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 16-Jul-2021 23:59:41 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/2_msa/Q9BYV7_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7 --seed 2 --threads 6 --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 (6 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/2_msa/Q9BYV7_trimmed_msa.fasta [00:00:00] Loaded alignment with 570 taxa and 517 sites WARNING: Sequences tr_G1RDQ9_G1RDQ9_NOMLE_61853 and tr_G3R2K3_G3R2K3_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1RDQ9_G1RDQ9_NOMLE_61853 and tr_H2N732_H2N732_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1RDQ9_G1RDQ9_NOMLE_61853 and tr_H2PZ77_H2PZ77_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1RDQ9_G1RDQ9_NOMLE_61853 and sp_Q16518_RPE65_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1RDQ9_G1RDQ9_NOMLE_61853 and tr_A0A2R9CDI3_A0A2R9CDI3_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1NHG6_G1NHG6_MELGA_9103 and tr_A0A226NGD2_A0A226NGD2_CALSU_9009 are exactly identical! WARNING: Sequences tr_G1NHG6_G1NHG6_MELGA_9103 and tr_A0A226PRP2_A0A226PRP2_COLVI_9014 are exactly identical! WARNING: Sequences tr_F7HIH7_F7HIH7_MACMU_9544 and tr_A0A2I3MLZ9_A0A2I3MLZ9_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1L0Y3_G1L0Y3_AILME_9646 and tr_A0A384C3E6_A0A384C3E6_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A1I7TZ04_A0A1I7TZ04_9PELO_1561998 and tr_A0A1I7TZ05_A0A1I7TZ05_9PELO_1561998 are exactly identical! WARNING: Sequences tr_A0A2D0QCU0_A0A2D0QCU0_ICTPU_7998 and tr_A0A2D0QFH1_A0A2D0QFH1_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0RT03_A0A2D0RT03_ICTPU_7998 and tr_A0A2D0RTY1_A0A2D0RTY1_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2G5C0R6_A0A2G5C0R6_AQUCA_218851 and tr_A0A2G5C7Y6_A0A2G5C7Y6_AQUCA_218851 are exactly identical! WARNING: Duplicate sequences found: 13 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7.raxml.reduced.phy Alignment comprises 1 partitions and 517 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 517 / 517 Gaps: 11.04 % Invariant sites: 0.19 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7.raxml.rba Parallelization scheme autoconfig: 3 worker(s) x 2 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 570 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 259 / 20720 [00:00:00] Data distribution: max. searches per worker: 7 Starting ML tree search with 20 distinct starting trees [00:00:00 -485463.532324] Initial branch length optimization [00:00:04 -403245.760294] Model parameter optimization (eps = 10.000000) [00:00:45 -401434.323759] AUTODETECT spr round 1 (radius: 5) [00:02:07 -282350.840133] AUTODETECT spr round 2 (radius: 10) [00:03:37 -219628.460259] AUTODETECT spr round 3 (radius: 15) [00:05:22 -192425.858693] AUTODETECT spr round 4 (radius: 20) [00:07:34 -184811.913824] AUTODETECT spr round 5 (radius: 25) [00:10:00 -182255.820051] SPR radius for FAST iterations: 25 (autodetect) [00:10:00 -182255.820051] Model parameter optimization (eps = 3.000000) [00:10:19 -182079.492845] FAST spr round 1 (radius: 25) [00:12:20 -167754.002053] FAST spr round 2 (radius: 25) [00:13:51 -167149.406260] FAST spr round 3 (radius: 25) [00:15:09 -167116.701591] FAST spr round 4 (radius: 25) [00:16:17 -167111.059629] FAST spr round 5 (radius: 25) [00:17:25 -167106.200262] FAST spr round 6 (radius: 25) [00:18:25 -167106.199781] Model parameter optimization (eps = 1.000000) [00:18:38 -167098.976618] SLOW spr round 1 (radius: 5) [00:20:22 -167066.674955] SLOW spr round 2 (radius: 5) [00:22:02 -167059.394062] SLOW spr round 3 (radius: 5) [00:23:39 -167052.701129] SLOW spr round 4 (radius: 5) [00:25:12 -167052.028268] SLOW spr round 5 (radius: 5) [00:26:43 -167052.028011] SLOW spr round 6 (radius: 10) [00:28:19 -167052.027990] SLOW spr round 7 (radius: 15) [00:31:00 -167052.027986] SLOW spr round 8 (radius: 20) [00:34:48 -167052.027984] SLOW spr round 9 (radius: 25) [00:39:30 -167052.027984] Model parameter optimization (eps = 0.100000) [00:39:50] [worker #0] ML tree search #1, logLikelihood: -167049.440933 [00:39:50 -487245.551977] Initial branch length optimization [00:39:56 -404851.457233] Model parameter optimization (eps = 10.000000) [00:40:29 -402968.087591] AUTODETECT spr round 1 (radius: 5) [00:41:48] [worker #2] ML tree search #3, logLikelihood: -167062.011936 [00:41:50 -280502.101950] AUTODETECT spr round 2 (radius: 10) [00:43:20 -219339.746950] AUTODETECT spr round 3 (radius: 15) [00:45:09 -187853.125143] AUTODETECT spr round 4 (radius: 20) [00:45:56] [worker #1] ML tree search #2, logLikelihood: -167045.388590 [00:47:29 -183432.359391] AUTODETECT spr round 5 (radius: 25) [00:50:08 -181880.229888] SPR radius for FAST iterations: 25 (autodetect) [00:50:08 -181880.229888] Model parameter optimization (eps = 3.000000) [00:50:29 -181741.426181] FAST spr round 1 (radius: 25) [00:52:22 -167698.226938] FAST spr round 2 (radius: 25) [00:53:53 -167186.216083] FAST spr round 3 (radius: 25) [00:55:13 -167114.956024] FAST spr round 4 (radius: 25) [00:56:17 -167114.954135] Model parameter optimization (eps = 1.000000) [00:56:35 -167105.673397] SLOW spr round 1 (radius: 5) [00:58:18 -167071.472828] SLOW spr round 2 (radius: 5) [00:59:59 -167059.562024] SLOW spr round 3 (radius: 5) [01:01:34 -167057.340131] SLOW spr round 4 (radius: 5) [01:03:07 -167057.337686] SLOW spr round 5 (radius: 10) [01:04:44 -167054.153927] SLOW spr round 6 (radius: 5) [01:06:41 -167054.153899] SLOW spr round 7 (radius: 10) [01:08:32 -167053.499959] SLOW spr round 8 (radius: 5) [01:10:27 -167053.499872] SLOW spr round 9 (radius: 10) [01:12:15 -167053.499871] SLOW spr round 10 (radius: 15) [01:14:48 -167053.499871] SLOW spr round 11 (radius: 20) [01:18:29 -167053.499871] SLOW spr round 12 (radius: 25) [01:22:53 -167053.499871] Model parameter optimization (eps = 0.100000) [01:22:57] [worker #0] ML tree search #4, logLikelihood: -167053.468341 [01:22:57 -485095.862944] Initial branch length optimization [01:23:02 -400322.471022] Model parameter optimization (eps = 10.000000) [01:23:49 -398322.444429] AUTODETECT spr round 1 (radius: 5) [01:24:44] [worker #2] ML tree search #6, logLikelihood: -167077.162256 [01:25:11 -286589.414465] AUTODETECT spr round 2 (radius: 10) [01:26:40 -229364.584082] AUTODETECT spr round 3 (radius: 15) [01:27:46] [worker #1] ML tree search #5, logLikelihood: -167044.483199 [01:28:20 -207610.386683] AUTODETECT spr round 4 (radius: 20) [01:30:25 -192817.415859] AUTODETECT spr round 5 (radius: 25) [01:32:41 -188162.276636] SPR radius for FAST iterations: 25 (autodetect) [01:32:41 -188162.276636] Model parameter optimization (eps = 3.000000) [01:33:07 -187980.167514] FAST spr round 1 (radius: 25) [01:35:12 -168053.525602] FAST spr round 2 (radius: 25) [01:36:43 -167181.845563] FAST spr round 3 (radius: 25) [01:38:00 -167126.242317] FAST spr round 4 (radius: 25) [01:39:05 -167122.822355] FAST spr round 5 (radius: 25) [01:40:07 -167122.820930] Model parameter optimization (eps = 1.000000) [01:40:24 -167117.527139] SLOW spr round 1 (radius: 5) [01:42:00 -167080.313588] SLOW spr round 2 (radius: 5) [01:43:37 -167070.517987] SLOW spr round 3 (radius: 5) [01:45:14 -167069.022523] SLOW spr round 4 (radius: 5) [01:46:45 -167069.022037] SLOW spr round 5 (radius: 10) [01:48:24 -167069.021962] SLOW spr round 6 (radius: 15) [01:51:20 -167069.021937] SLOW spr round 7 (radius: 20) [01:55:31 -167069.021928] SLOW spr round 8 (radius: 25) [02:00:24 -167069.021923] Model parameter optimization (eps = 0.100000) [02:00:31] [worker #0] ML tree search #7, logLikelihood: -167068.890515 [02:00:31 -489824.085834] Initial branch length optimization [02:00:36 -407911.460762] Model parameter optimization (eps = 10.000000) [02:01:10 -406009.341179] AUTODETECT spr round 1 (radius: 5) [02:02:32 -288589.162839] AUTODETECT spr round 2 (radius: 10) [02:04:03 -227166.890416] AUTODETECT spr round 3 (radius: 15) [02:05:53 -196430.637449] AUTODETECT spr round 4 (radius: 20) [02:08:05 -188769.689176] AUTODETECT spr round 5 (radius: 25) [02:08:30] [worker #1] ML tree search #8, logLikelihood: -167042.878716 [02:10:54 -187318.073699] SPR radius for FAST iterations: 25 (autodetect) [02:10:54 -187318.073699] Model parameter optimization (eps = 3.000000) [02:11:13 -187102.155591] FAST spr round 1 (radius: 25) [02:13:19 -167626.889538] FAST spr round 2 (radius: 25) [02:13:56] [worker #2] ML tree search #9, logLikelihood: -167054.138488 [02:14:58 -167144.516193] FAST spr round 3 (radius: 25) [02:16:14 -167117.167725] FAST spr round 4 (radius: 25) [02:17:20 -167114.522567] FAST spr round 5 (radius: 25) [02:18:23 -167114.521935] Model parameter optimization (eps = 1.000000) [02:18:37 -167112.188813] SLOW spr round 1 (radius: 5) [02:20:20 -167066.484208] SLOW spr round 2 (radius: 5) [02:22:00 -167056.719084] SLOW spr round 3 (radius: 5) [02:23:36 -167051.045849] SLOW spr round 4 (radius: 5) [02:25:13 -167048.732452] SLOW spr round 5 (radius: 5) [02:26:45 -167048.713290] SLOW spr round 6 (radius: 10) [02:28:23 -167044.731890] SLOW spr round 7 (radius: 5) [02:30:21 -167043.885740] SLOW spr round 8 (radius: 5) [02:32:04 -167043.882750] SLOW spr round 9 (radius: 10) [02:33:46 -167043.881806] SLOW spr round 10 (radius: 15) [02:36:20 -167043.428605] SLOW spr round 11 (radius: 5) [02:38:24 -167043.428543] SLOW spr round 12 (radius: 10) [02:40:21 -167043.428518] SLOW spr round 13 (radius: 15) [02:42:49 -167043.428508] SLOW spr round 14 (radius: 20) [02:46:32 -167043.428504] SLOW spr round 15 (radius: 25) [02:50:57 -167043.428502] Model parameter optimization (eps = 0.100000) [02:51:08] [worker #0] ML tree search #10, logLikelihood: -167042.846890 [02:51:08 -489081.811439] Initial branch length optimization [02:51:13 -408020.313082] Model parameter optimization (eps = 10.000000) [02:51:49 -406208.933141] AUTODETECT spr round 1 (radius: 5) [02:53:13 -279641.624149] AUTODETECT spr round 2 (radius: 10) [02:54:42 -222723.871088] AUTODETECT spr round 3 (radius: 15) [02:56:24 -196737.664078] AUTODETECT spr round 4 (radius: 20) [02:58:26 -186980.775758] AUTODETECT spr round 5 (radius: 25) [02:59:06] [worker #1] ML tree search #11, logLikelihood: -167051.595084 [02:59:50] [worker #2] ML tree search #12, logLikelihood: -167052.608527 [03:00:45 -186869.669650] SPR radius for FAST iterations: 25 (autodetect) [03:00:45 -186869.669650] Model parameter optimization (eps = 3.000000) [03:01:10 -186566.819352] FAST spr round 1 (radius: 25) [03:03:19 -167942.074338] FAST spr round 2 (radius: 25) [03:04:52 -167228.244023] FAST spr round 3 (radius: 25) [03:06:15 -167120.514115] FAST spr round 4 (radius: 25) [03:07:29 -167108.537510] FAST spr round 5 (radius: 25) [03:08:32 -167105.314868] FAST spr round 6 (radius: 25) [03:09:33 -167105.313770] Model parameter optimization (eps = 1.000000) [03:09:44 -167101.912904] SLOW spr round 1 (radius: 5) [03:11:25 -167076.335280] SLOW spr round 2 (radius: 5) [03:13:04 -167067.116775] SLOW spr round 3 (radius: 5) [03:14:38 -167066.390281] SLOW spr round 4 (radius: 5) [03:16:10 -167066.389120] SLOW spr round 5 (radius: 10) [03:17:49 -167063.638351] SLOW spr round 6 (radius: 5) [03:19:47 -167062.358932] SLOW spr round 7 (radius: 5) [03:21:29 -167062.358929] SLOW spr round 8 (radius: 10) [03:23:12 -167061.783283] SLOW spr round 9 (radius: 5) [03:25:09 -167059.031530] SLOW spr round 10 (radius: 5) [03:26:50 -167059.031529] SLOW spr round 11 (radius: 10) [03:28:31 -167059.031528] SLOW spr round 12 (radius: 15) [03:31:13 -167059.031528] SLOW spr round 13 (radius: 20) [03:35:09 -167059.031528] SLOW spr round 14 (radius: 25) [03:39:50 -167059.031528] Model parameter optimization (eps = 0.100000) [03:39:59] [worker #0] ML tree search #13, logLikelihood: -167058.689256 [03:39:59 -484922.893387] Initial branch length optimization [03:40:03 -397979.789392] Model parameter optimization (eps = 10.000000) [03:40:35 -396202.252755] AUTODETECT spr round 1 (radius: 5) [03:41:58 -283501.269970] AUTODETECT spr round 2 (radius: 10) [03:42:39] [worker #1] ML tree search #14, logLikelihood: -167050.831859 [03:43:29 -227368.356444] AUTODETECT spr round 3 (radius: 15) [03:45:15 -203927.167375] AUTODETECT spr round 4 (radius: 20) [03:47:14 -198852.533881] AUTODETECT spr round 5 (radius: 25) [03:48:53] [worker #2] ML tree search #15, logLikelihood: -167044.398559 [03:49:42 -189515.473223] SPR radius for FAST iterations: 25 (autodetect) [03:49:42 -189515.473223] Model parameter optimization (eps = 3.000000) [03:50:05 -189331.442365] FAST spr round 1 (radius: 25) [03:52:11 -168203.396110] FAST spr round 2 (radius: 25) [03:53:47 -167141.839534] FAST spr round 3 (radius: 25) [03:55:10 -167105.711964] FAST spr round 4 (radius: 25) [03:56:17 -167102.462456] FAST spr round 5 (radius: 25) [03:57:19 -167102.459537] Model parameter optimization (eps = 1.000000) [03:57:37 -167091.236877] SLOW spr round 1 (radius: 5) [03:59:24 -167061.924149] SLOW spr round 2 (radius: 5) [04:01:00 -167059.237792] SLOW spr round 3 (radius: 5) [04:02:31 -167059.237769] SLOW spr round 4 (radius: 10) [04:04:11 -167057.235141] SLOW spr round 5 (radius: 5) [04:06:10 -167055.575280] SLOW spr round 6 (radius: 5) [04:07:52 -167055.574822] SLOW spr round 7 (radius: 10) [04:09:36 -167055.574741] SLOW spr round 8 (radius: 15) [04:12:23 -167055.574717] SLOW spr round 9 (radius: 20) [04:16:37 -167055.574709] SLOW spr round 10 (radius: 25) [04:21:46 -167055.574706] Model parameter optimization (eps = 0.100000) [04:21:52] [worker #0] ML tree search #16, logLikelihood: -167055.499982 [04:21:52 -489957.189565] Initial branch length optimization [04:21:56 -402487.075281] Model parameter optimization (eps = 10.000000) [04:22:29 -400686.268229] AUTODETECT spr round 1 (radius: 5) [04:23:53 -283834.659582] AUTODETECT spr round 2 (radius: 10) [04:25:23 -224716.677900] AUTODETECT spr round 3 (radius: 15) [04:25:30] [worker #1] ML tree search #17, logLikelihood: -167047.891167 [04:27:14 -195895.276356] AUTODETECT spr round 4 (radius: 20) [04:29:46 -191657.311208] AUTODETECT spr round 5 (radius: 25) [04:32:49 -188406.414229] SPR radius for FAST iterations: 25 (autodetect) [04:32:49 -188406.414229] Model parameter optimization (eps = 3.000000) [04:33:11 -188175.056600] FAST spr round 1 (radius: 25) [04:35:26 -167962.806526] FAST spr round 2 (radius: 25) [04:37:05 -167155.493021] FAST spr round 3 (radius: 25) [04:37:29] [worker #2] ML tree search #18, logLikelihood: -167055.512126 [04:38:30 -167113.204140] FAST spr round 4 (radius: 25) [04:39:38 -167106.603960] FAST spr round 5 (radius: 25) [04:40:40 -167106.603956] Model parameter optimization (eps = 1.000000) [04:40:55 -167099.617286] SLOW spr round 1 (radius: 5) [04:42:40 -167068.892067] SLOW spr round 2 (radius: 5) [04:44:22 -167056.792094] SLOW spr round 3 (radius: 5) [04:45:59 -167050.474176] SLOW spr round 4 (radius: 5) [04:47:31 -167050.471963] SLOW spr round 5 (radius: 10) [04:49:10 -167050.471188] SLOW spr round 6 (radius: 15) [04:51:59 -167050.470836] SLOW spr round 7 (radius: 20) [04:56:01 -167050.470674] SLOW spr round 8 (radius: 25) [05:00:49 -167050.470598] Model parameter optimization (eps = 0.100000) [05:00:54] [worker #0] ML tree search #19, logLikelihood: -167050.414992 [05:06:16] [worker #1] ML tree search #20, logLikelihood: -167045.850852 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.146151,0.577534) (0.248753,0.604653) (0.354284,0.902881) (0.250812,1.775462) 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: -167042.846890 AIC score: 336371.693780 / AICc score: 2951555.693780 / BIC score: 341227.206786 Free parameters (model + branch lengths): 1143 WARNING: Number of free parameters (K=1143) is larger than alignment size (n=517). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 33 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7.raxml.bestTreeCollapsed Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7.raxml.bestTree All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7.raxml.mlTrees Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7.raxml.bestModel Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9BYV7/3_mltree/Q9BYV7.raxml.log Analysis started: 16-Jul-2021 23:59:41 / finished: 17-Jul-2021 05:05:58 Elapsed time: 18376.690 seconds