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 6258R CPU @ 2.70GHz, 56 cores, 187 GB RAM RAxML-NG was called at 26-Jul-2021 00:26:26 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/2_msa/O14669_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669 --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/250721_run/phylogeny-snakemake/results/O14669/2_msa/O14669_trimmed_msa.fasta [00:00:00] Loaded alignment with 885 taxa and 252 sites WARNING: Sequences tr_M3YJS2_M3YJS2_MUSPF_9669 and tr_A0A2Y9IEH4_A0A2Y9IEH4_ENHLU_391180 are exactly identical! WARNING: Sequences tr_A0A2I3HZV0_A0A2I3HZV0_NOMLE_61853 and tr_A0A2I2YBV6_A0A2I2YBV6_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3HZV0_A0A2I3HZV0_NOMLE_61853 and tr_A0A2I3S031_A0A2I3S031_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3HZV0_A0A2I3HZV0_NOMLE_61853 and tr_A0A2R9C6J1_A0A2R9C6J1_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1QJH1_G1QJH1_NOMLE_61853 and sp_O14668_TMG1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QEB7_G3QEB7_GORGO_9595 and sp_P00740_FA9_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R5N6_G3R5N6_GORGO_9595 and sp_Q5RCB6_TMG1_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3R5N6_G3R5N6_GORGO_9595 and tr_K7D2R6_K7D2R6_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R5N6_G3R5N6_GORGO_9595 and tr_A0A2I3LNY2_A0A2I3LNY2_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3R5N6_G3R5N6_GORGO_9595 and tr_A0A2K6ANW1_A0A2K6ANW1_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3R5N6_G3R5N6_GORGO_9595 and tr_A0A2K5ZYY9_A0A2K5ZYY9_MANLE_9568 are exactly identical! WARNING: Sequences tr_G3R5N6_G3R5N6_GORGO_9595 and tr_A0A2R9BX59_A0A2R9BX59_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1K2D7_G1K2D7_CANLF_9615 and sp_P19540_FA9_CANLF_9615 are exactly identical! WARNING: Sequences tr_H2Q3D2_H2Q3D2_PANTR_9598 and tr_A0A2R8ZAP9_A0A2R8ZAP9_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2Q3I2_H2Q3I2_PANTR_9598 and sp_P00734_THRB_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H2Q3I2_H2Q3I2_PANTR_9598 and tr_A0A2R9C6W7_A0A2R9C6W7_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2Q7T9_H2Q7T9_PANTR_9598 and sp_P00742_FA10_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H2Q7T9_H2Q7T9_PANTR_9598 and tr_A0A2R9B696_A0A2R9B696_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2QGV6_H2QGV6_PANTR_9598 and tr_A0A2R8ZAJ4_A0A2R8ZAJ4_PANPA_9597 are exactly identical! WARNING: Sequences sp_Q2F9P2_FA7_PANTR_9598 and tr_A0A2R9C3T5_A0A2R9C3T5_PANPA_9597 are exactly identical! WARNING: Sequences sp_Q2F9P2_FA7_PANTR_9598 and sp_Q2F9P4_FA7_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0N064_A0N064_MACMU_9544 and tr_G7PQA7_G7PQA7_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6SB17_F6SB17_MACMU_9544 and tr_G7PVR8_G7PVR8_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7GHR4_F7GHR4_MACMU_9544 and tr_G7Q1U2_G7Q1U2_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7GHR4_F7GHR4_MACMU_9544 and tr_A0A2K6ARW6_A0A2K6ARW6_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7GHR4_F7GHR4_MACMU_9544 and tr_A0A2K5XMF6_A0A2K5XMF6_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7GK82_F7GK82_MACMU_9544 and tr_A0A2K6CIE7_A0A2K6CIE7_MACNE_9545 are exactly identical! WARNING: Sequences tr_G7NDN2_G7NDN2_MACMU_9544 and tr_G7PQG6_G7PQG6_MACFA_9541 are exactly identical! WARNING: Sequences tr_G7NDN2_G7NDN2_MACMU_9544 and tr_A0A096N4G3_A0A096N4G3_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G7NDN2_G7NDN2_MACMU_9544 and tr_A0A0D9QYZ3_A0A0D9QYZ3_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G7NDN2_G7NDN2_MACMU_9544 and tr_A0A2K5M1X1_A0A2K5M1X1_CERAT_9531 are exactly identical! WARNING: Sequences tr_G7NDN2_G7NDN2_MACMU_9544 and tr_A0A2K6CH24_A0A2K6CH24_MACNE_9545 are exactly identical! WARNING: Sequences tr_G7NDN2_G7NDN2_MACMU_9544 and tr_A0A2K5ZQ68_A0A2K5ZQ68_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A096NEF0_A0A096NEF0_PAPAN_9555 and tr_A0A2K5KMW6_A0A2K5KMW6_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A0A0MVJ7_A0A0A0MVJ7_PAPAN_9555 and tr_A0A2K6B3C1_A0A2K6B3C1_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3LQK0_A0A2I3LQK0_PAPAN_9555 and tr_A0A2K5KIM8_A0A2K5KIM8_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3LQK0_A0A2I3LQK0_PAPAN_9555 and tr_A0A2K5ZZ38_A0A2K5ZZ38_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3M0V5_A0A2I3M0V5_PAPAN_9555 and tr_A0A2K5XVN4_A0A2K5XVN4_MANLE_9568 are exactly identical! WARNING: Sequences tr_A9X172_A9X172_PAPAN_9555 and tr_A0A2K5NQ25_A0A2K5NQ25_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A226N1Y0_A0A226N1Y0_CALSU_9009 and tr_A0A226P5H0_A0A226P5H0_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2K5LG15_A0A2K5LG15_CERAT_9531 and tr_A0A2K5ZEA4_A0A2K5ZEA4_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2K5MXV4_A0A2K5MXV4_CERAT_9531 and tr_A0A2K6AHF0_A0A2K6AHF0_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2U3V624_A0A2U3V624_TURTR_9739 and tr_A0A2Y9MCP2_A0A2Y9MCP2_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U3V6T0_A0A2U3V6T0_TURTR_9739 and tr_A0A2Y9LSD8_A0A2Y9LSD8_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4C161_A0A2U4C161_TURTR_9739 and tr_A0A2Y9MTE4_A0A2Y9MTE4_DELLE_9749 are exactly identical! WARNING: Duplicate sequences found: 45 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669.raxml.reduced.phy Alignment comprises 1 partitions and 250 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 252 / 250 Gaps: 18.36 % Invariant sites: 1.59 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669.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 885 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 250 / 20000 [00:00:00] Data distribution: max. searches per worker: 4 Starting ML tree search with 20 distinct starting trees [00:00:00 -364038.852365] Initial branch length optimization [00:00:10 -311893.335336] Model parameter optimization (eps = 10.000000) [00:01:20 -311369.896548] AUTODETECT spr round 1 (radius: 5) [00:06:32 -221911.077393] AUTODETECT spr round 2 (radius: 10) [00:12:05 -165321.272102] AUTODETECT spr round 3 (radius: 15) [00:19:01 -137286.570404] AUTODETECT spr round 4 (radius: 20) [00:26:29 -124000.419436] AUTODETECT spr round 5 (radius: 25) [00:35:02 -122357.124372] SPR radius for FAST iterations: 25 (autodetect) [00:35:03 -122357.124372] Model parameter optimization (eps = 3.000000) [00:35:59 -121989.769967] FAST spr round 1 (radius: 25) [00:42:02 -102956.339571] FAST spr round 2 (radius: 25) [00:46:30 -101993.810381] FAST spr round 3 (radius: 25) [00:50:21 -101936.085358] FAST spr round 4 (radius: 25) [00:53:44 -101894.448499] FAST spr round 5 (radius: 25) [00:56:58 -101892.470433] FAST spr round 6 (radius: 25) [01:00:06 -101892.470004] Model parameter optimization (eps = 1.000000) [01:00:34 -101890.410225] SLOW spr round 1 (radius: 5) [01:05:14 -101872.420210] SLOW spr round 2 (radius: 5) [01:09:48 -101866.284917] SLOW spr round 3 (radius: 5) [01:14:08 -101865.134447] SLOW spr round 4 (radius: 5) [01:18:24 -101864.998768] SLOW spr round 5 (radius: 5) [01:22:39 -101864.998649] SLOW spr round 6 (radius: 10) [01:26:57 -101864.044200] SLOW spr round 7 (radius: 5) [01:32:39 -101864.043774] SLOW spr round 8 (radius: 10) [01:37:24 -101864.043770] SLOW spr round 9 (radius: 15) [01:45:17 -101864.043770] SLOW spr round 10 (radius: 20) [02:01:18 -101864.043770] SLOW spr round 11 (radius: 25) [02:02:37] [worker #3] ML tree search #4, logLikelihood: -101848.979702 [02:06:06] [worker #2] ML tree search #3, logLikelihood: -101848.257604 [02:21:30 -101864.043770] Model parameter optimization (eps = 0.100000) [02:21:54] [worker #0] ML tree search #1, logLikelihood: -101863.888363 [02:21:54 -365043.473337] Initial branch length optimization [02:22:06 -313158.887135] Model parameter optimization (eps = 10.000000) [02:23:22 -312754.303366] AUTODETECT spr round 1 (radius: 5) [02:28:28 -219820.451521] AUTODETECT spr round 2 (radius: 10) [02:34:07 -153285.476021] AUTODETECT spr round 3 (radius: 15) [02:35:52] [worker #4] ML tree search #5, logLikelihood: -101854.778667 [02:40:02 -135021.748139] AUTODETECT spr round 4 (radius: 20) [02:47:48 -122094.888812] AUTODETECT spr round 5 (radius: 25) [02:55:48 -118173.074448] SPR radius for FAST iterations: 25 (autodetect) [02:55:49 -118173.074448] Model parameter optimization (eps = 3.000000) [02:56:46 -117974.283479] FAST spr round 1 (radius: 25) [03:02:33 -102696.546956] FAST spr round 2 (radius: 25) [03:06:50 -101990.571444] FAST spr round 3 (radius: 25) [03:10:51 -101923.806803] FAST spr round 4 (radius: 25) [03:14:15 -101914.937616] FAST spr round 5 (radius: 25) [03:17:28 -101914.934817] Model parameter optimization (eps = 1.000000) [03:17:44 -101914.322571] SLOW spr round 1 (radius: 5) [03:19:24] [worker #1] ML tree search #2, logLikelihood: -101853.602036 [03:22:43 -101888.725638] SLOW spr round 2 (radius: 5) [03:27:27 -101879.907592] SLOW spr round 3 (radius: 5) [03:31:50 -101878.709587] SLOW spr round 4 (radius: 5) [03:36:07 -101878.709578] SLOW spr round 5 (radius: 10) [03:40:27 -101870.262973] SLOW spr round 6 (radius: 5) [03:46:15 -101870.261414] SLOW spr round 7 (radius: 10) [03:51:05 -101870.261414] SLOW spr round 8 (radius: 15) [03:58:48 -101870.073535] SLOW spr round 9 (radius: 5) [04:04:53 -101870.073304] SLOW spr round 10 (radius: 10) [04:07:51] [worker #3] ML tree search #9, logLikelihood: -101827.208766 [04:10:04 -101870.073300] SLOW spr round 11 (radius: 15) [04:17:41 -101870.073300] SLOW spr round 12 (radius: 20) [04:32:33 -101870.073300] SLOW spr round 13 (radius: 25) [04:47:44] [worker #2] ML tree search #8, logLikelihood: -101857.497690 [04:51:22 -101870.073300] Model parameter optimization (eps = 0.100000) [04:51:35] [worker #0] ML tree search #6, logLikelihood: -101870.039135 [04:51:36 -364382.072914] Initial branch length optimization [04:51:46 -312394.072469] Model parameter optimization (eps = 10.000000) [04:53:15] [worker #4] ML tree search #10, logLikelihood: -101846.625466 [04:53:24 -311933.393477] AUTODETECT spr round 1 (radius: 5) [04:58:31 -214918.560867] AUTODETECT spr round 2 (radius: 10) [05:03:58 -154514.377190] AUTODETECT spr round 3 (radius: 15) [05:10:07 -132621.466762] AUTODETECT spr round 4 (radius: 20) [05:19:07 -119667.914394] AUTODETECT spr round 5 (radius: 25) [05:31:33 -115922.227162] SPR radius for FAST iterations: 25 (autodetect) [05:31:33 -115922.227162] Model parameter optimization (eps = 3.000000) [05:31:35] [worker #1] ML tree search #7, logLikelihood: -101870.082464 [05:32:18 -115735.357538] FAST spr round 1 (radius: 25) [05:37:48 -102701.668308] FAST spr round 2 (radius: 25) [05:42:06 -101964.652839] FAST spr round 3 (radius: 25) [05:46:00 -101913.275272] FAST spr round 4 (radius: 25) [05:49:24 -101906.491414] FAST spr round 5 (radius: 25) [05:52:36 -101906.491312] Model parameter optimization (eps = 1.000000) [05:53:08 -101902.608549] SLOW spr round 1 (radius: 5) [05:58:05 -101870.204177] SLOW spr round 2 (radius: 5) [06:02:46 -101862.899829] SLOW spr round 3 (radius: 5) [06:07:14 -101861.555448] SLOW spr round 4 (radius: 5) [06:11:33 -101861.555423] SLOW spr round 5 (radius: 10) [06:15:55 -101858.125231] SLOW spr round 6 (radius: 5) [06:21:39 -101858.125209] SLOW spr round 7 (radius: 10) [06:26:29 -101858.125209] SLOW spr round 8 (radius: 15) [06:34:07 -101858.125209] SLOW spr round 9 (radius: 20) [06:49:12 -101858.125209] SLOW spr round 10 (radius: 25) [06:52:50] [worker #3] ML tree search #14, logLikelihood: -101840.606903 [07:07:37] [worker #2] ML tree search #13, logLikelihood: -101827.997584 [07:08:49 -101858.125209] Model parameter optimization (eps = 0.100000) [07:09:01] [worker #0] ML tree search #11, logLikelihood: -101858.083018 [07:09:01 -362255.012006] Initial branch length optimization [07:09:11 -310225.900652] Model parameter optimization (eps = 10.000000) [07:10:32 -309727.676691] AUTODETECT spr round 1 (radius: 5) [07:15:35 -218913.802562] AUTODETECT spr round 2 (radius: 10) [07:21:06 -156003.884364] AUTODETECT spr round 3 (radius: 15) [07:27:34 -125879.756643] AUTODETECT spr round 4 (radius: 20) [07:35:02 -117667.994069] AUTODETECT spr round 5 (radius: 25) [07:40:22] [worker #4] ML tree search #15, logLikelihood: -101868.246958 [07:46:15 -116173.601999] SPR radius for FAST iterations: 25 (autodetect) [07:46:15 -116173.601999] Model parameter optimization (eps = 3.000000) [07:46:56 -116019.587715] FAST spr round 1 (radius: 25) [07:52:27 -102606.599619] FAST spr round 2 (radius: 25) [07:56:48 -101950.118782] FAST spr round 3 (radius: 25) [07:57:40] [worker #1] ML tree search #12, logLikelihood: -101839.946109 [08:00:32 -101894.060227] FAST spr round 4 (radius: 25) [08:03:50 -101886.402620] FAST spr round 5 (radius: 25) [08:07:04 -101885.471967] FAST spr round 6 (radius: 25) [08:10:14 -101885.471782] Model parameter optimization (eps = 1.000000) [08:10:44 -101881.843216] SLOW spr round 1 (radius: 5) [08:15:32 -101853.435396] SLOW spr round 2 (radius: 5) [08:20:00 -101851.580324] SLOW spr round 3 (radius: 5) [08:24:19 -101851.580264] SLOW spr round 4 (radius: 10) [08:28:46 -101848.353492] SLOW spr round 5 (radius: 5) [08:34:42 -101845.858277] SLOW spr round 6 (radius: 5) [08:39:42 -101845.850164] SLOW spr round 7 (radius: 10) [08:44:15 -101843.357974] SLOW spr round 8 (radius: 5) [08:50:03 -101841.654811] SLOW spr round 9 (radius: 5) [08:55:01 -101841.654781] SLOW spr round 10 (radius: 10) [08:59:31 -101839.338817] SLOW spr round 11 (radius: 5) [09:05:15 -101839.338749] SLOW spr round 12 (radius: 10) [09:10:03 -101839.338749] SLOW spr round 13 (radius: 15) [09:17:55 -101839.338749] SLOW spr round 14 (radius: 20) [09:30:59] [worker #3] ML tree search #19, logLikelihood: -101856.445297 [09:33:25 -101839.338749] SLOW spr round 15 (radius: 25) [09:53:16 -101839.338749] Model parameter optimization (eps = 0.100000) [09:53:44] [worker #0] ML tree search #16, logLikelihood: -101839.027513 [10:10:36] [worker #1] ML tree search #17, logLikelihood: -101847.199896 [10:19:03] [worker #4] ML tree search #20, logLikelihood: -101827.425612 [10:23:19] [worker #2] ML tree search #18, logLikelihood: -101874.590683 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.167168,0.464501) (0.162538,0.504252) (0.327094,0.788554) (0.343200,1.697140) 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: -101827.208766 AIC score: 207200.417532 / AICc score: 6497804.417532 / BIC score: 213458.095304 Free parameters (model + branch lengths): 1773 WARNING: Number of free parameters (K=1773) is larger than alignment size (n=252). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 2 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/O14669/3_mltree/O14669.raxml.log Analysis started: 26-Jul-2021 00:26:26 / finished: 26-Jul-2021 10:49:46 Elapsed time: 37399.608 seconds Consumed energy: 2052.313 Wh (= 10 km in an electric car, or 51 km with an e-scooter!)