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 05:31:14 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/2_msa/Q5TCS8_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/3_mltree/Q5TCS8 --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/Q5TCS8/2_msa/Q5TCS8_trimmed_msa.fasta [00:00:00] Loaded alignment with 472 taxa and 261 sites WARNING: Sequences tr_G1S6W2_G1S6W2_NOMLE_61853 and tr_A0A1D5RED3_A0A1D5RED3_MACMU_9544 are exactly identical! WARNING: Sequences tr_G1S6W2_G1S6W2_NOMLE_61853 and tr_G8F558_G8F558_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1S6W2_G1S6W2_NOMLE_61853 and tr_A0A2I3MCP8_A0A2I3MCP8_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1S6W2_G1S6W2_NOMLE_61853 and tr_A0A2K6DVX3_A0A2K6DVX3_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1S6W2_G1S6W2_NOMLE_61853 and tr_A0A2K5ZFW9_A0A2K5ZFW9_MANLE_9568 are exactly identical! WARNING: Sequences tr_B2WFL8_B2WFL8_PYRTR_426418 and tr_A0A2W1DIY6_A0A2W1DIY6_9PLEO_45151 are exactly identical! WARNING: Sequences tr_A0A2I2YKU8_A0A2I2YKU8_GORGO_9595 and sp_P00568_KAD1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I2YKU8_A0A2I2YKU8_GORGO_9595 and tr_A0A2R9AYN7_A0A2R9AYN7_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2PK10_H2PK10_PONAB_9601 and tr_F6ZMM1_F6ZMM1_HORSE_9796 are exactly identical! WARNING: Sequences tr_H2PK10_H2PK10_PONAB_9601 and tr_H0XDF7_H0XDF7_OTOGA_30611 are exactly identical! WARNING: Sequences tr_H2PK10_H2PK10_PONAB_9601 and tr_G7P3P0_G7P3P0_MACFA_9541 are exactly identical! WARNING: Sequences tr_H2QTJ3_H2QTJ3_PANTR_9598 and sp_Q5TCS8_KAD9_HUMAN_9606 are exactly identical! WARNING: Sequences sp_P27144_KAD4_HUMAN_9606 and tr_A0A2R9BKT1_A0A2R9BKT1_PANPA_9597 are exactly identical! WARNING: Sequences tr_H0ZPC8_H0ZPC8_TAEGU_59729 and tr_A0A091F153_A0A091F153_CORBR_85066 are exactly identical! WARNING: Sequences tr_F6TK54_F6TK54_XENTR_8364 and tr_A0A1L8F1P8_A0A1L8F1P8_XENLA_8355 are exactly identical! WARNING: Sequences tr_M4F447_M4F447_BRARP_51351 and tr_A0A078FVA9_A0A078FVA9_BRANA_3708 are exactly identical! WARNING: Sequences tr_W2PCQ6_W2PCQ6_PHYPN_761204 and tr_A0A0W8D2Y1_A0A0W8D2Y1_PHYNI_4790 are exactly identical! WARNING: Sequences tr_W2RGD1_W2RGD1_PHYPN_761204 and tr_A0A0W8DNJ6_A0A0W8DNJ6_PHYNI_4790 are exactly identical! WARNING: Sequences tr_W2RGD1_W2RGD1_PHYPN_761204 and tr_W2M1N8_W2M1N8_PHYPR_4792 are exactly identical! WARNING: Sequences tr_A0A096N247_A0A096N247_PAPAN_9555 and tr_A0A2K5MVT9_A0A2K5MVT9_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A078IB90_A0A078IB90_BRANA_3708 and tr_A0A0D3E211_A0A0D3E211_BRAOL_109376 are exactly identical! WARNING: Sequences tr_A0A151MFP2_A0A151MFP2_ALLMI_8496 and tr_A0A1U7RVA4_A0A1U7RVA4_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A091UXB3_A0A091UXB3_NIPNI_128390 and tr_A0A2I0MUB0_A0A2I0MUB0_COLLI_8932 are exactly identical! WARNING: Sequences tr_A0A091UXB3_A0A091UXB3_NIPNI_128390 and tr_A0A226NRJ9_A0A226NRJ9_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A0V1CMI3_A0A0V1CMI3_TRIBR_45882 and tr_A0A0V0Z9W8_A0A0V0Z9W8_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V0X778_A0A0V0X778_9BILA_92179 and tr_A0A0V1LC84_A0A0V1LC84_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0X778_A0A0V0X778_9BILA_92179 and tr_A0A0V1P4G1_A0A0V1P4G1_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0X778_A0A0V0X778_9BILA_92179 and tr_A0A0V0TY14_A0A0V0TY14_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V0UUD6_A0A0V0UUD6_9BILA_181606 and tr_A0A0V1KRZ2_A0A0V1KRZ2_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0UUD6_A0A0V0UUD6_9BILA_181606 and tr_A0A0V1PEU9_A0A0V1PEU9_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A226N5F0_A0A226N5F0_CALSU_9009 and tr_A0A226PL12_A0A226PL12_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2Y9NP45_A0A2Y9NP45_DELLE_9749 and tr_A0A2Y9EJD9_A0A2Y9EJD9_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A2Y9NP45_A0A2Y9NP45_DELLE_9749 and tr_A0A383YNH3_A0A383YNH3_BALAS_310752 are exactly identical! WARNING: Duplicate sequences found: 33 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/Q5TCS8/3_mltree/Q5TCS8.raxml.reduced.phy Alignment comprises 1 partitions and 261 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 261 / 261 Gaps: 26.70 % Invariant sites: 0.38 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/3_mltree/Q5TCS8.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 472 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 261 / 20880 [00:00:00] Data distribution: max. searches per worker: 4 Starting ML tree search with 20 distinct starting trees [00:00:00 -196067.887510] Initial branch length optimization [00:00:03 -163545.390185] Model parameter optimization (eps = 10.000000) [00:00:27 -162599.996343] AUTODETECT spr round 1 (radius: 5) [00:01:17 -115030.844564] AUTODETECT spr round 2 (radius: 10) [00:02:16 -92036.439759] AUTODETECT spr round 3 (radius: 15) [00:03:28 -79105.887067] AUTODETECT spr round 4 (radius: 20) [00:04:56 -74328.704204] AUTODETECT spr round 5 (radius: 25) [00:06:27 -74127.262777] SPR radius for FAST iterations: 25 (autodetect) [00:06:27 -74127.262777] Model parameter optimization (eps = 3.000000) [00:06:46 -74067.044737] FAST spr round 1 (radius: 25) [00:08:10 -67675.921349] FAST spr round 2 (radius: 25) [00:09:09 -67446.771289] FAST spr round 3 (radius: 25) [00:09:59 -67409.646148] FAST spr round 4 (radius: 25) [00:10:42 -67400.521044] FAST spr round 5 (radius: 25) [00:11:21 -67400.518800] Model parameter optimization (eps = 1.000000) [00:11:26 -67399.865044] SLOW spr round 1 (radius: 5) [00:12:28 -67387.029801] SLOW spr round 2 (radius: 5) [00:13:30 -67385.928260] SLOW spr round 3 (radius: 5) [00:14:30 -67385.508207] SLOW spr round 4 (radius: 5) [00:15:26 -67385.507577] SLOW spr round 5 (radius: 10) [00:16:27 -67385.507368] SLOW spr round 6 (radius: 15) [00:17:51 -67385.374819] SLOW spr round 7 (radius: 5) [00:19:08 -67385.369605] SLOW spr round 8 (radius: 10) [00:20:17 -67385.369498] SLOW spr round 9 (radius: 15) [00:21:43 -67385.369463] SLOW spr round 10 (radius: 20) [00:23:35 -67385.369442] SLOW spr round 11 (radius: 25) [00:25:43 -67385.348641] Model parameter optimization (eps = 0.100000) [00:25:52] [worker #0] ML tree search #1, logLikelihood: -67385.179001 [00:25:52 -198914.518313] Initial branch length optimization [00:25:55 -166754.580716] Model parameter optimization (eps = 10.000000) [00:26:25 -165868.443422] AUTODETECT spr round 1 (radius: 5) [00:27:15 -113402.191884] AUTODETECT spr round 2 (radius: 10) [00:28:13 -89298.961707] AUTODETECT spr round 3 (radius: 15) [00:29:24 -77498.018258] AUTODETECT spr round 4 (radius: 20) [00:30:51 -74358.194860] AUTODETECT spr round 5 (radius: 25) [00:32:23 -74230.364012] SPR radius for FAST iterations: 25 (autodetect) [00:32:23 -74230.364012] Model parameter optimization (eps = 3.000000) [00:32:36 -74173.114919] FAST spr round 1 (radius: 25) [00:34:00 -67682.872143] FAST spr round 2 (radius: 25) [00:34:56 -67413.641025] FAST spr round 3 (radius: 25) [00:35:43 -67400.763127] FAST spr round 4 (radius: 25) [00:36:26 -67396.582111] FAST spr round 5 (radius: 25) [00:36:37] [worker #2] ML tree search #3, logLikelihood: -67393.102904 [00:37:06 -67396.366838] FAST spr round 6 (radius: 25) [00:37:44 -67396.363746] Model parameter optimization (eps = 1.000000) [00:37:56 -67395.298765] SLOW spr round 1 (radius: 5) [00:39:01 -67372.261482] SLOW spr round 2 (radius: 5) [00:40:03 -67369.099740] SLOW spr round 3 (radius: 5) [00:41:02 -67368.801355] SLOW spr round 4 (radius: 5) [00:41:58 -67368.799959] SLOW spr round 5 (radius: 10) [00:43:01 -67363.005770] SLOW spr round 6 (radius: 5) [00:44:18 -67363.005458] SLOW spr round 7 (radius: 10) [00:44:56] [worker #3] ML tree search #4, logLikelihood: -67408.716052 [00:45:23 -67363.005255] SLOW spr round 8 (radius: 15) [00:46:32] [worker #4] ML tree search #5, logLikelihood: -67352.233964 [00:46:48 -67362.816494] SLOW spr round 9 (radius: 5) [00:47:16] [worker #1] ML tree search #2, logLikelihood: -67383.616462 [00:48:11 -67362.816162] SLOW spr round 10 (radius: 10) [00:49:21 -67362.816032] SLOW spr round 11 (radius: 15) [00:50:37 -67362.815926] SLOW spr round 12 (radius: 20) [00:52:14 -67362.815836] SLOW spr round 13 (radius: 25) [00:54:03 -67362.815757] Model parameter optimization (eps = 0.100000) [00:54:08] [worker #0] ML tree search #6, logLikelihood: -67362.598349 [00:54:08 -196950.761428] Initial branch length optimization [00:54:10 -163815.911499] Model parameter optimization (eps = 10.000000) [00:54:31 -163073.212406] AUTODETECT spr round 1 (radius: 5) [00:55:16 -109022.714359] AUTODETECT spr round 2 (radius: 10) [00:56:07 -87028.345771] AUTODETECT spr round 3 (radius: 15) [00:57:03 -79036.234340] AUTODETECT spr round 4 (radius: 20) [00:58:12 -73097.504584] AUTODETECT spr round 5 (radius: 25) [00:59:21 -72377.935062] SPR radius for FAST iterations: 25 (autodetect) [00:59:21 -72377.935062] Model parameter optimization (eps = 3.000000) [00:59:30 -72345.290362] FAST spr round 1 (radius: 25) [01:00:09] [worker #2] ML tree search #8, logLikelihood: -67373.835561 [01:00:39 -67870.266671] FAST spr round 2 (radius: 25) [01:01:34 -67475.362931] FAST spr round 3 (radius: 25) [01:02:21 -67393.252402] FAST spr round 4 (radius: 25) [01:02:57 -67386.075109] FAST spr round 5 (radius: 25) [01:03:31 -67386.054185] Model parameter optimization (eps = 1.000000) [01:03:41 -67383.892442] SLOW spr round 1 (radius: 5) [01:04:34 -67372.288430] SLOW spr round 2 (radius: 5) [01:05:27 -67371.087652] SLOW spr round 3 (radius: 5) [01:06:19 -67371.067240] SLOW spr round 4 (radius: 10) [01:07:12 -67363.356241] SLOW spr round 5 (radius: 5) [01:08:20 -67363.356047] SLOW spr round 6 (radius: 10) [01:09:17 -67363.356014] SLOW spr round 7 (radius: 15) [01:10:32 -67363.022960] SLOW spr round 8 (radius: 5) [01:11:44 -67362.440161] SLOW spr round 9 (radius: 5) [01:12:44 -67362.440083] SLOW spr round 10 (radius: 10) [01:13:38 -67362.440056] SLOW spr round 11 (radius: 15) [01:14:53 -67362.440040] SLOW spr round 12 (radius: 20) [01:16:27 -67362.440028] SLOW spr round 13 (radius: 25) [01:18:16 -67359.491575] SLOW spr round 14 (radius: 5) [01:19:30 -67359.490165] SLOW spr round 15 (radius: 10) [01:20:32 -67359.489869] SLOW spr round 16 (radius: 15) [01:21:47 -67359.489745] SLOW spr round 17 (radius: 20) [01:23:20 -67359.223017] SLOW spr round 18 (radius: 5) [01:23:56] [worker #4] ML tree search #10, logLikelihood: -67399.499287 [01:24:35 -67359.058834] SLOW spr round 19 (radius: 5) [01:25:37 -67359.033455] SLOW spr round 20 (radius: 10) [01:26:32 -67358.237142] SLOW spr round 21 (radius: 5) [01:27:39 -67358.208279] SLOW spr round 22 (radius: 10) [01:28:17] [worker #1] ML tree search #7, logLikelihood: -67358.849309 [01:28:36 -67358.190704] SLOW spr round 23 (radius: 15) [01:29:52 -67358.188123] SLOW spr round 24 (radius: 20) [01:30:07] [worker #3] ML tree search #9, logLikelihood: -67354.963091 [01:31:27 -67358.186251] SLOW spr round 25 (radius: 25) [01:33:13 -67358.185032] Model parameter optimization (eps = 0.100000) [01:33:16] [worker #0] ML tree search #11, logLikelihood: -67358.112998 [01:33:16 -197944.197506] Initial branch length optimization [01:33:18 -165028.134444] Model parameter optimization (eps = 10.000000) [01:33:21] [worker #2] ML tree search #13, logLikelihood: -67371.110849 [01:33:40 -164225.216234] AUTODETECT spr round 1 (radius: 5) [01:34:23 -112702.424594] AUTODETECT spr round 2 (radius: 10) [01:35:14 -90742.246081] AUTODETECT spr round 3 (radius: 15) [01:36:13 -77892.135771] AUTODETECT spr round 4 (radius: 20) [01:37:29 -76232.563454] AUTODETECT spr round 5 (radius: 25) [01:38:53 -74948.652035] SPR radius for FAST iterations: 25 (autodetect) [01:38:53 -74948.652035] Model parameter optimization (eps = 3.000000) [01:39:06 -74893.863716] FAST spr round 1 (radius: 25) [01:40:27 -67851.640031] FAST spr round 2 (radius: 25) [01:41:19 -67470.794623] FAST spr round 3 (radius: 25) [01:42:04 -67429.351595] FAST spr round 4 (radius: 25) [01:42:40 -67425.428208] FAST spr round 5 (radius: 25) [01:43:14 -67425.427907] Model parameter optimization (eps = 1.000000) [01:43:22 -67421.382537] SLOW spr round 1 (radius: 5) [01:44:16 -67395.188519] SLOW spr round 2 (radius: 5) [01:45:10 -67381.180646] SLOW spr round 3 (radius: 5) [01:46:04 -67380.567792] SLOW spr round 4 (radius: 5) [01:46:55 -67380.565304] SLOW spr round 5 (radius: 10) [01:47:49 -67370.291577] SLOW spr round 6 (radius: 5) [01:48:57 -67366.759203] SLOW spr round 7 (radius: 5) [01:49:55 -67366.758836] SLOW spr round 8 (radius: 10) [01:49:59] [worker #3] ML tree search #14, logLikelihood: -67361.171463 [01:50:49 -67366.758742] SLOW spr round 9 (radius: 15) [01:52:06 -67366.625507] SLOW spr round 10 (radius: 5) [01:53:22 -67366.625346] SLOW spr round 11 (radius: 10) [01:54:28 -67366.625333] SLOW spr round 12 (radius: 15) [01:55:49 -67366.520292] SLOW spr round 13 (radius: 5) [01:57:06 -67366.520278] SLOW spr round 14 (radius: 10) [01:57:15] [worker #2] ML tree search #18, logLikelihood: -67372.284943 [01:58:12 -67366.520272] SLOW spr round 15 (radius: 15) [01:59:32 -67366.447933] SLOW spr round 16 (radius: 20) [02:01:15 -67364.136116] SLOW spr round 17 (radius: 5) [02:02:13] [worker #4] ML tree search #15, logLikelihood: -67374.561205 [02:02:35 -67364.083850] SLOW spr round 18 (radius: 10) [02:03:42 -67364.081268] SLOW spr round 19 (radius: 15) [02:05:01 -67363.877030] SLOW spr round 20 (radius: 5) [02:06:18 -67363.876461] SLOW spr round 21 (radius: 10) [02:07:23 -67363.876239] SLOW spr round 22 (radius: 15) [02:08:42 -67363.876081] SLOW spr round 23 (radius: 20) [02:10:26 -67363.875946] SLOW spr round 24 (radius: 25) [02:11:21] [worker #1] ML tree search #12, logLikelihood: -67437.178685 [02:12:21 -67363.875821] Model parameter optimization (eps = 0.100000) [02:12:26] [worker #0] ML tree search #16, logLikelihood: -67363.767494 [02:17:31] [worker #3] ML tree search #19, logLikelihood: -67357.008456 [02:34:08] [worker #4] ML tree search #20, logLikelihood: -67374.105199 [02:50:06] [worker #1] ML tree search #17, logLikelihood: -67369.261312 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.116478,0.424413) (0.191578,0.497611) (0.303531,0.807074) (0.388414,1.571165) 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: -67352.233964 AIC score: 136598.467928 / AICc score: 1932110.467928 / BIC score: 139974.068754 Free parameters (model + branch lengths): 947 WARNING: Number of free parameters (K=947) is larger than alignment size (n=261). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 65 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/3_mltree/Q5TCS8.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/3_mltree/Q5TCS8.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/3_mltree/Q5TCS8.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/3_mltree/Q5TCS8.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q5TCS8/3_mltree/Q5TCS8.raxml.log Analysis started: 03-Jul-2021 05:31:14 / finished: 03-Jul-2021 08:21:21 Elapsed time: 10207.073 seconds Consumed energy: 679.077 Wh (= 3 km in an electric car, or 17 km with an e-scooter!)