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 07-Jul-2021 14:04:36 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/2_msa/Q9BZV2_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/3_mltree/Q9BZV2 --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: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/2_msa/Q9BZV2_trimmed_msa.fasta [00:00:00] Loaded alignment with 560 taxa and 398 sites WARNING: Sequences tr_G1RY86_G1RY86_NOMLE_61853 and tr_G3SC76_G3SC76_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1RY86_G1RY86_NOMLE_61853 and tr_H2Q0K3_H2Q0K3_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1RY86_G1RY86_NOMLE_61853 and sp_O60779_S19A2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1RY86_G1RY86_NOMLE_61853 and tr_A0A2R9CL39_A0A2R9CL39_PANPA_9597 are exactly identical! WARNING: Sequences tr_Q294A4_Q294A4_DROPS_46245 and tr_B4GLC6_B4GLC6_DROPE_7234 are exactly identical! WARNING: Sequences sp_Q53S99_CB083_HUMAN_9606 and tr_A0A2R9A1T7_A0A2R9A1T7_PANPA_9597 are exactly identical! WARNING: Sequences tr_F6ZJI1_F6ZJI1_MACMU_9544 and tr_G7PK82_G7PK82_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6ZJI1_F6ZJI1_MACMU_9544 and tr_A0A2K6DTT4_A0A2K6DTT4_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6ZJJ1_F6ZJJ1_MACMU_9544 and tr_A0A2K6CHV9_A0A2K6CHV9_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7HA50_F7HA50_MACMU_9544 and tr_A0A2K6CK68_A0A2K6CK68_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A096N216_A0A096N216_PAPAN_9555 and tr_A0A2K5LYI6_A0A2K5LYI6_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A096N216_A0A096N216_PAPAN_9555 and tr_A0A2K5XBG0_A0A2K5XBG0_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A0V1CNY6_A0A0V1CNY6_TRIBR_45882 and tr_A0A0V0UTT8_A0A0V0UTT8_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V1CNY6_A0A0V1CNY6_TRIBR_45882 and tr_A0A0V0ZNI0_A0A0V0ZNI0_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V1CNY6_A0A0V1CNY6_TRIBR_45882 and tr_A0A0V1P2A1_A0A0V1P2A1_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1CNY6_A0A0V1CNY6_TRIBR_45882 and tr_A0A0V0UB30_A0A0V0UB30_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A2U3V7T4_A0A2U3V7T4_TURTR_9739 and tr_A0A2Y9M154_A0A2Y9M154_DELLE_9749 are exactly identical! WARNING: Duplicate sequences found: 17 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/Q9BZV2/3_mltree/Q9BZV2.raxml.reduced.phy Alignment comprises 1 partitions and 398 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 398 / 398 Gaps: 10.27 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/3_mltree/Q9BZV2.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 560 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 199 / 15920 [00:00:00] Data distribution: max. searches per worker: 7 Starting ML tree search with 20 distinct starting trees [00:00:00 -357199.087232] Initial branch length optimization [00:00:03 -297719.199397] Model parameter optimization (eps = 10.000000) [00:00:49 -295584.932189] AUTODETECT spr round 1 (radius: 5) [00:01:56 -214910.957787] AUTODETECT spr round 2 (radius: 10) [00:03:06 -160949.721458] AUTODETECT spr round 3 (radius: 15) [00:04:27 -134316.062427] AUTODETECT spr round 4 (radius: 20) [00:06:16 -132215.997979] AUTODETECT spr round 5 (radius: 25) [00:08:20 -132122.686579] SPR radius for FAST iterations: 25 (autodetect) [00:08:20 -132122.686579] Model parameter optimization (eps = 3.000000) [00:08:44 -131893.577251] FAST spr round 1 (radius: 25) [00:10:07 -116095.154952] FAST spr round 2 (radius: 25) [00:11:13 -115478.294984] FAST spr round 3 (radius: 25) [00:12:10 -115439.635420] FAST spr round 4 (radius: 25) [00:13:00 -115432.473206] FAST spr round 5 (radius: 25) [00:13:48 -115432.472699] Model parameter optimization (eps = 1.000000) [00:13:58 -115428.272829] SLOW spr round 1 (radius: 5) [00:15:17 -115413.798104] SLOW spr round 2 (radius: 5) [00:16:30 -115409.623425] SLOW spr round 3 (radius: 5) [00:17:41 -115409.102526] SLOW spr round 4 (radius: 5) [00:18:51 -115408.239286] SLOW spr round 5 (radius: 5) [00:20:00 -115408.239039] SLOW spr round 6 (radius: 10) [00:21:16 -115408.238925] SLOW spr round 7 (radius: 15) [00:23:44 -115404.275074] SLOW spr round 8 (radius: 5) [00:25:27 -115404.273501] SLOW spr round 9 (radius: 10) [00:27:02 -115404.273344] SLOW spr round 10 (radius: 15) [00:27:21] [worker #2] ML tree search #3, logLikelihood: -115401.598366 [00:29:17 -115404.273290] SLOW spr round 11 (radius: 20) [00:32:59 -115404.273250] SLOW spr round 12 (radius: 25) [00:37:08 -115404.273218] Model parameter optimization (eps = 0.100000) [00:37:16] [worker #0] ML tree search #1, logLikelihood: -115403.849197 [00:37:16 -358548.134075] Initial branch length optimization [00:37:19 -297673.293392] Model parameter optimization (eps = 10.000000) [00:37:50 -295440.884919] AUTODETECT spr round 1 (radius: 5) [00:38:57 -209903.440816] AUTODETECT spr round 2 (radius: 10) [00:40:14 -156036.555130] AUTODETECT spr round 3 (radius: 15) [00:41:26] [worker #1] ML tree search #2, logLikelihood: -115394.104620 [00:41:50 -133017.109855] AUTODETECT spr round 4 (radius: 20) [00:43:58 -129077.114365] AUTODETECT spr round 5 (radius: 25) [00:46:21 -128948.786985] SPR radius for FAST iterations: 25 (autodetect) [00:46:21 -128948.786985] Model parameter optimization (eps = 3.000000) [00:46:40 -128716.262137] FAST spr round 1 (radius: 25) [00:48:07 -116033.675063] FAST spr round 2 (radius: 25) [00:49:09 -115479.833542] FAST spr round 3 (radius: 25) [00:50:04 -115423.375033] FAST spr round 4 (radius: 25) [00:50:50 -115421.022940] FAST spr round 5 (radius: 25) [00:51:35 -115421.021403] Model parameter optimization (eps = 1.000000) [00:51:41 -115420.134081] SLOW spr round 1 (radius: 5) [00:52:53 -115407.332888] SLOW spr round 2 (radius: 5) [00:54:03 -115406.473410] SLOW spr round 3 (radius: 5) [00:55:15 -115406.473298] SLOW spr round 4 (radius: 10) [00:56:31 -115406.186579] SLOW spr round 5 (radius: 5) [00:58:11 -115405.986747] SLOW spr round 6 (radius: 5) [00:59:30 -115405.985545] SLOW spr round 7 (radius: 10) [01:00:48 -115405.985366] SLOW spr round 8 (radius: 15) [01:03:07 -115405.985262] SLOW spr round 9 (radius: 20) [01:03:51] [worker #2] ML tree search #6, logLikelihood: -115403.323673 [01:06:26 -115405.985196] SLOW spr round 10 (radius: 25) [01:10:13 -115405.985132] Model parameter optimization (eps = 0.100000) [01:10:18] [worker #0] ML tree search #4, logLikelihood: -115405.964745 [01:10:18 -358578.835852] Initial branch length optimization [01:10:22 -298251.315767] Model parameter optimization (eps = 10.000000) [01:10:57 -296090.232125] AUTODETECT spr round 1 (radius: 5) [01:12:04 -216561.458308] AUTODETECT spr round 2 (radius: 10) [01:12:27] [worker #1] ML tree search #5, logLikelihood: -115467.393735 [01:13:21 -160522.318069] AUTODETECT spr round 3 (radius: 15) [01:14:57 -135262.378380] AUTODETECT spr round 4 (radius: 20) [01:16:58 -130297.608648] AUTODETECT spr round 5 (radius: 25) [01:19:26 -129803.251310] SPR radius for FAST iterations: 25 (autodetect) [01:19:27 -129803.251310] Model parameter optimization (eps = 3.000000) [01:19:49 -129481.958976] FAST spr round 1 (radius: 25) [01:21:13 -115835.827517] FAST spr round 2 (radius: 25) [01:22:15 -115451.356175] FAST spr round 3 (radius: 25) [01:23:11 -115430.246663] FAST spr round 4 (radius: 25) [01:23:59 -115425.753282] FAST spr round 5 (radius: 25) [01:24:46 -115425.753189] Model parameter optimization (eps = 1.000000) [01:24:58 -115424.344588] SLOW spr round 1 (radius: 5) [01:26:17 -115396.872435] SLOW spr round 2 (radius: 5) [01:27:27 -115396.872198] SLOW spr round 3 (radius: 10) [01:28:44 -115396.231688] SLOW spr round 4 (radius: 5) [01:30:21 -115396.203900] SLOW spr round 5 (radius: 10) [01:31:52 -115396.200625] SLOW spr round 6 (radius: 15) [01:34:09] [worker #2] ML tree search #9, logLikelihood: -115391.867720 [01:34:14 -115395.209419] SLOW spr round 7 (radius: 5) [01:36:00 -115393.554727] SLOW spr round 8 (radius: 5) [01:37:26 -115393.554631] SLOW spr round 9 (radius: 10) [01:38:52 -115393.554603] SLOW spr round 10 (radius: 15) [01:41:20 -115393.554586] SLOW spr round 11 (radius: 20) [01:45:08 -115393.554573] SLOW spr round 12 (radius: 25) [01:46:37] [worker #1] ML tree search #8, logLikelihood: -115389.178233 [01:49:28 -115393.554561] Model parameter optimization (eps = 0.100000) [01:49:38] [worker #0] ML tree search #7, logLikelihood: -115393.458658 [01:49:38 -353946.543018] Initial branch length optimization [01:49:41 -295431.043408] Model parameter optimization (eps = 10.000000) [01:50:29 -293324.985124] AUTODETECT spr round 1 (radius: 5) [01:51:37 -209267.950842] AUTODETECT spr round 2 (radius: 10) [01:52:52 -165577.541494] AUTODETECT spr round 3 (radius: 15) [01:54:21 -149222.894134] AUTODETECT spr round 4 (radius: 20) [01:56:21 -136571.161932] AUTODETECT spr round 5 (radius: 25) [01:58:38 -133523.223135] SPR radius for FAST iterations: 25 (autodetect) [01:58:38 -133523.223135] Model parameter optimization (eps = 3.000000) [01:58:59 -133292.683847] FAST spr round 1 (radius: 25) [02:00:27 -116671.757184] FAST spr round 2 (radius: 25) [02:01:32 -115650.860655] FAST spr round 3 (radius: 25) [02:02:33 -115476.283220] FAST spr round 4 (radius: 25) [02:03:21 -115476.280641] Model parameter optimization (eps = 1.000000) [02:03:30 -115474.933912] SLOW spr round 1 (radius: 5) [02:04:49 -115449.165412] SLOW spr round 2 (radius: 5) [02:06:00 -115448.657126] SLOW spr round 3 (radius: 5) [02:07:09 -115448.656455] SLOW spr round 4 (radius: 10) [02:08:24 -115448.656388] SLOW spr round 5 (radius: 15) [02:10:42] [worker #2] ML tree search #12, logLikelihood: -115390.011573 [02:10:44 -115448.656362] SLOW spr round 6 (radius: 20) [02:14:04 -115448.656353] SLOW spr round 7 (radius: 25) [02:18:02 -115448.656345] Model parameter optimization (eps = 0.100000) [02:18:06] [worker #0] ML tree search #10, logLikelihood: -115448.645480 [02:18:06 -353732.705108] Initial branch length optimization [02:18:10 -292919.431707] Model parameter optimization (eps = 10.000000) [02:18:37 -290886.950410] AUTODETECT spr round 1 (radius: 5) [02:19:43 -211959.097112] AUTODETECT spr round 2 (radius: 10) [02:20:54 -165855.489467] AUTODETECT spr round 3 (radius: 15) [02:21:06] [worker #1] ML tree search #11, logLikelihood: -115400.717309 [02:22:28 -139656.692364] AUTODETECT spr round 4 (radius: 20) [02:24:46 -134800.500017] AUTODETECT spr round 5 (radius: 25) [02:27:38 -134617.326580] SPR radius for FAST iterations: 25 (autodetect) [02:27:38 -134617.326580] Model parameter optimization (eps = 3.000000) [02:28:01 -134225.279804] FAST spr round 1 (radius: 25) [02:29:29 -116369.536285] FAST spr round 2 (radius: 25) [02:30:37 -115544.820601] FAST spr round 3 (radius: 25) [02:31:41 -115447.513887] FAST spr round 4 (radius: 25) [02:32:32 -115435.687341] FAST spr round 5 (radius: 25) [02:33:20 -115435.685116] Model parameter optimization (eps = 1.000000) [02:33:30 -115433.743941] SLOW spr round 1 (radius: 5) [02:34:49 -115407.701062] SLOW spr round 2 (radius: 5) [02:36:05 -115399.686940] SLOW spr round 3 (radius: 5) [02:37:20 -115391.621029] SLOW spr round 4 (radius: 5) [02:38:31 -115391.103780] SLOW spr round 5 (radius: 5) [02:39:40 -115391.103635] SLOW spr round 6 (radius: 10) [02:40:57 -115391.103616] SLOW spr round 7 (radius: 15) [02:43:15 -115391.044421] SLOW spr round 8 (radius: 20) [02:46:34 -115391.044403] SLOW spr round 9 (radius: 25) [02:50:37 -115391.044399] Model parameter optimization (eps = 0.100000) [02:50:41] [worker #0] ML tree search #13, logLikelihood: -115391.021373 [02:50:41 -358740.921957] Initial branch length optimization [02:50:44 -297286.510000] Model parameter optimization (eps = 10.000000) [02:50:56] [worker #2] ML tree search #15, logLikelihood: -115397.150140 [02:51:15 -295246.604503] AUTODETECT spr round 1 (radius: 5) [02:52:05] [worker #1] ML tree search #14, logLikelihood: -115388.768070 [02:52:22 -215094.070938] AUTODETECT spr round 2 (radius: 10) [02:53:36 -163342.637469] AUTODETECT spr round 3 (radius: 15) [02:55:00 -149359.356847] AUTODETECT spr round 4 (radius: 20) [02:56:36 -137800.401772] AUTODETECT spr round 5 (radius: 25) [02:58:37 -135315.796040] SPR radius for FAST iterations: 25 (autodetect) [02:58:37 -135315.796040] Model parameter optimization (eps = 3.000000) [02:58:59 -135029.311596] FAST spr round 1 (radius: 25) [03:00:34 -116252.371351] FAST spr round 2 (radius: 25) [03:01:42 -115469.551617] FAST spr round 3 (radius: 25) [03:02:44 -115440.673168] FAST spr round 4 (radius: 25) [03:03:34 -115436.181712] FAST spr round 5 (radius: 25) [03:04:23 -115435.864315] FAST spr round 6 (radius: 25) [03:05:10 -115435.863812] Model parameter optimization (eps = 1.000000) [03:05:20 -115429.741064] SLOW spr round 1 (radius: 5) [03:06:39 -115409.219093] SLOW spr round 2 (radius: 5) [03:07:51 -115408.974550] SLOW spr round 3 (radius: 5) [03:09:00 -115408.974127] SLOW spr round 4 (radius: 10) [03:10:15 -115407.710221] SLOW spr round 5 (radius: 5) [03:11:51 -115407.704386] SLOW spr round 6 (radius: 10) [03:13:19 -115407.702511] SLOW spr round 7 (radius: 15) [03:15:23 -115407.499243] SLOW spr round 8 (radius: 5) [03:17:08 -115405.294217] SLOW spr round 9 (radius: 5) [03:18:35 -115402.924068] SLOW spr round 10 (radius: 5) [03:19:53 -115397.843701] SLOW spr round 11 (radius: 5) [03:21:05 -115396.857634] SLOW spr round 12 (radius: 5) [03:22:15 -115396.857625] SLOW spr round 13 (radius: 10) [03:23:30 -115396.857621] SLOW spr round 14 (radius: 15) [03:25:44 -115395.177914] SLOW spr round 15 (radius: 5) [03:26:36] [worker #2] ML tree search #18, logLikelihood: -115390.339688 [03:27:27 -115395.177757] SLOW spr round 16 (radius: 10) [03:29:00 -115395.177751] SLOW spr round 17 (radius: 15) [03:29:14] [worker #1] ML tree search #17, logLikelihood: -115404.298733 [03:31:04 -115395.177746] SLOW spr round 18 (radius: 20) [03:34:23 -115395.177742] SLOW spr round 19 (radius: 25) [03:38:20 -115395.177737] Model parameter optimization (eps = 0.100000) [03:38:25] [worker #0] ML tree search #16, logLikelihood: -115395.127284 [03:38:25 -359295.867192] Initial branch length optimization [03:38:29 -298900.806159] Model parameter optimization (eps = 10.000000) [03:39:04 -296422.272511] AUTODETECT spr round 1 (radius: 5) [03:40:10 -212435.064788] AUTODETECT spr round 2 (radius: 10) [03:41:24 -157067.310545] AUTODETECT spr round 3 (radius: 15) [03:42:54 -139971.853320] AUTODETECT spr round 4 (radius: 20) [03:45:05 -132252.365599] AUTODETECT spr round 5 (radius: 25) [03:47:19 -131981.225279] SPR radius for FAST iterations: 25 (autodetect) [03:47:19 -131981.225279] Model parameter optimization (eps = 3.000000) [03:47:41 -131664.313010] FAST spr round 1 (radius: 25) [03:49:02 -116245.181927] FAST spr round 2 (radius: 25) [03:50:06 -115527.566743] FAST spr round 3 (radius: 25) [03:51:04 -115494.068263] FAST spr round 4 (radius: 25) [03:51:53 -115486.360894] FAST spr round 5 (radius: 25) [03:52:42 -115479.064072] FAST spr round 6 (radius: 25) [03:53:31 -115476.645733] FAST spr round 7 (radius: 25) [03:54:16 -115476.629513] Model parameter optimization (eps = 1.000000) [03:54:29 -115473.275645] SLOW spr round 1 (radius: 5) [03:55:45 -115440.681206] SLOW spr round 2 (radius: 5) [03:56:56 -115439.412660] SLOW spr round 3 (radius: 5) [03:58:06 -115439.227721] SLOW spr round 4 (radius: 5) [03:59:15 -115439.227596] SLOW spr round 5 (radius: 10) [04:00:31 -115418.162227] SLOW spr round 6 (radius: 5) [04:02:10 -115398.073369] SLOW spr round 7 (radius: 5) [04:03:32 -115398.073136] SLOW spr round 8 (radius: 10) [04:04:52 -115396.914839] SLOW spr round 9 (radius: 5) [04:06:28 -115393.761047] SLOW spr round 10 (radius: 5) [04:07:50 -115393.760972] SLOW spr round 11 (radius: 10) [04:09:10 -115393.760899] SLOW spr round 12 (radius: 15) [04:09:16] [worker #1] ML tree search #20, logLikelihood: -115393.045749 [04:11:27 -115393.760800] SLOW spr round 13 (radius: 20) [04:14:46 -115393.760795] SLOW spr round 14 (radius: 25) [04:18:40 -115393.760794] Model parameter optimization (eps = 0.100000) [04:18:44] [worker #0] ML tree search #19, logLikelihood: -115393.757524 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.287491,0.608225) (0.278058,1.146802) (0.316254,0.807950) (0.118198,2.121412) 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: -115388.768070 AIC score: 233023.536141 / AICc score: 2757527.536141 / BIC score: 237500.321743 Free parameters (model + branch lengths): 1123 WARNING: Number of free parameters (K=1123) is larger than alignment size (n=398). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 23 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/3_mltree/Q9BZV2.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/3_mltree/Q9BZV2.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/3_mltree/Q9BZV2.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/3_mltree/Q9BZV2.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9BZV2/3_mltree/Q9BZV2.raxml.log Analysis started: 07-Jul-2021 14:04:36 / finished: 07-Jul-2021 18:23:20 Elapsed time: 15524.416 seconds Consumed energy: 1476.022 Wh (= 7 km in an electric car, or 37 km with an e-scooter!)