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) CPU E5-2690 v4 @ 2.60GHz, 28 cores, 251 GB RAM RAxML-NG was called at 13-Jul-2021 16:15:40 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/2_msa/O75140_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/3_mltree/O75140 --seed 2 --threads 9 --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 (9 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/2_msa/O75140_trimmed_msa.fasta [00:00:00] Loaded alignment with 787 taxa and 1088 sites WARNING: Sequences tr_B6Q9E6_B6Q9E6_TALMQ_441960 and tr_A0A093VBC4_A0A093VBC4_TALMA_1077442 are exactly identical! WARNING: Sequences tr_B8PJK1_B8PJK1_POSPM_561896 and tr_A0A1X6NAT5_A0A1X6NAT5_9APHY_670580 are exactly identical! WARNING: Sequences tr_A0A2I3SXB8_A0A2I3SXB8_PANTR_9598 and tr_A0A2R9BZG8_A0A2R9BZG8_PANPA_9597 are exactly identical! WARNING: Sequences sp_Q2UMR9_IML1_ASPOR_510516 and tr_A0A1S9D682_A0A1S9D682_ASPOZ_5062 are exactly identical! WARNING: Sequences tr_G7XGC8_G7XGC8_ASPKW_1033177 and tr_A0A146FSQ5_A0A146FSQ5_9EURO_1069201 are exactly identical! WARNING: Sequences tr_F2SQZ4_F2SQZ4_TRIRC_559305 and tr_A0A178EX78_A0A178EX78_TRIRU_5551 are exactly identical! WARNING: Sequences tr_W2PNS8_W2PNS8_PHYPN_761204 and tr_A0A0W8D7U7_A0A0W8D7U7_PHYNI_4790 are exactly identical! WARNING: Sequences tr_W2PNS8_W2PNS8_PHYPN_761204 and tr_W2FXK5_W2FXK5_PHYPR_4792 are exactly identical! WARNING: Sequences tr_A0A015IM02_A0A015IM02_9GLOM_1432141 and tr_U9ULX4_U9ULX4_RHIID_747089 are exactly identical! WARNING: Sequences tr_X0DCU1_X0DCU1_FUSOX_1089458 and tr_A0A2H3HPM5_A0A2H3HPM5_FUSOX_327505 are exactly identical! WARNING: Sequences tr_A0A0F8US61_A0A0F8US61_9EURO_308745 and tr_A0A2T5LUX9_A0A2T5LUX9_9EURO_1392256 are exactly identical! WARNING: Sequences tr_A0A0W8C192_A0A0W8C192_PHYNI_4790 and tr_A0A0W8CE37_A0A0W8CE37_PHYNI_4790 are exactly identical! WARNING: Duplicate sequences found: 12 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/O75140/3_mltree/O75140.raxml.reduced.phy Alignment comprises 1 partitions and 1088 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 1088 / 1088 Gaps: 15.33 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/3_mltree/O75140.raxml.rba Parallelization scheme autoconfig: 1 worker(s) x 9 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 787 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 121 / 9680 [00:00:00] Data distribution: max. searches per worker: 20 Starting ML tree search with 20 distinct starting trees [00:00:00 -1466346.935337] Initial branch length optimization [00:00:04 -1244744.846899] Model parameter optimization (eps = 10.000000) [00:00:49 -1240422.395199] AUTODETECT spr round 1 (radius: 5) [00:02:31 -857564.029015] AUTODETECT spr round 2 (radius: 10) [00:04:23 -618043.128079] AUTODETECT spr round 3 (radius: 15) [00:06:22 -520293.858476] AUTODETECT spr round 4 (radius: 20) [00:08:41 -492249.412100] AUTODETECT spr round 5 (radius: 25) [00:11:33 -483254.692197] SPR radius for FAST iterations: 25 (autodetect) [00:11:33 -483254.692197] Model parameter optimization (eps = 3.000000) [00:11:53 -482947.249145] FAST spr round 1 (radius: 25) [00:14:07 -432755.605159] FAST spr round 2 (radius: 25) [00:16:00 -429504.551778] FAST spr round 3 (radius: 25) [00:17:36 -429365.042416] FAST spr round 4 (radius: 25) [00:18:56 -429353.312234] FAST spr round 5 (radius: 25) [00:20:13 -429347.950765] FAST spr round 6 (radius: 25) [00:21:29 -429347.950702] Model parameter optimization (eps = 1.000000) [00:21:43 -429332.567472] SLOW spr round 1 (radius: 5) [00:23:30 -429264.821213] SLOW spr round 2 (radius: 5) [00:25:12 -429261.917645] SLOW spr round 3 (radius: 5) [00:26:52 -429258.716180] SLOW spr round 4 (radius: 5) [00:28:32 -429258.715915] SLOW spr round 5 (radius: 10) [00:30:25 -429258.715780] SLOW spr round 6 (radius: 15) [00:33:41 -429258.715707] SLOW spr round 7 (radius: 20) [00:38:16 -429258.715667] SLOW spr round 8 (radius: 25) [00:43:37 -429258.715645] Model parameter optimization (eps = 0.100000) [00:43:43] ML tree search #1, logLikelihood: -429258.506322 [00:43:43 -1472752.779207] Initial branch length optimization [00:43:47 -1246982.965814] Model parameter optimization (eps = 10.000000) [00:44:32 -1242591.331629] AUTODETECT spr round 1 (radius: 5) [00:46:12 -868585.618420] AUTODETECT spr round 2 (radius: 10) [00:47:57 -656886.513269] AUTODETECT spr round 3 (radius: 15) [00:49:55 -545385.361197] AUTODETECT spr round 4 (radius: 20) [00:52:24 -489775.281369] AUTODETECT spr round 5 (radius: 25) [00:55:17 -486889.056152] SPR radius for FAST iterations: 25 (autodetect) [00:55:17 -486889.056152] Model parameter optimization (eps = 3.000000) [00:55:33 -486728.748317] FAST spr round 1 (radius: 25) [00:57:55 -430879.773042] FAST spr round 2 (radius: 25) [00:59:44 -429451.842184] FAST spr round 3 (radius: 25) [01:01:19 -429379.679868] FAST spr round 4 (radius: 25) [01:02:36 -429378.160588] FAST spr round 5 (radius: 25) [01:03:51 -429377.368934] FAST spr round 6 (radius: 25) [01:05:04 -429377.368666] Model parameter optimization (eps = 1.000000) [01:05:19 -429361.955988] SLOW spr round 1 (radius: 5) [01:07:10 -429270.353390] SLOW spr round 2 (radius: 5) [01:08:52 -429268.969752] SLOW spr round 3 (radius: 5) [01:10:33 -429268.966445] SLOW spr round 4 (radius: 10) [01:12:29 -429266.850142] SLOW spr round 5 (radius: 5) [01:14:39 -429266.286684] SLOW spr round 6 (radius: 5) [01:16:32 -429266.284896] SLOW spr round 7 (radius: 10) [01:18:34 -429266.284488] SLOW spr round 8 (radius: 15) [01:21:45 -429266.284360] SLOW spr round 9 (radius: 20) [01:26:23 -429266.284314] SLOW spr round 10 (radius: 25) [01:31:43 -429266.284295] Model parameter optimization (eps = 0.100000) [01:31:54] ML tree search #2, logLikelihood: -429265.545930 [01:31:54 -1475163.601930] Initial branch length optimization [01:31:58 -1242206.192204] Model parameter optimization (eps = 10.000000) [01:32:32 -1237859.342701] AUTODETECT spr round 1 (radius: 5) [01:34:12 -883234.076709] AUTODETECT spr round 2 (radius: 10) [01:35:59 -655056.298594] AUTODETECT spr round 3 (radius: 15) [01:38:00 -549363.705701] AUTODETECT spr round 4 (radius: 20) [01:40:28 -497998.569868] AUTODETECT spr round 5 (radius: 25) [01:43:18 -491686.031617] SPR radius for FAST iterations: 25 (autodetect) [01:43:18 -491686.031617] Model parameter optimization (eps = 3.000000) [01:43:40 -491380.517034] FAST spr round 1 (radius: 25) [01:45:58 -431340.946516] FAST spr round 2 (radius: 25) [01:47:44 -429525.167510] FAST spr round 3 (radius: 25) [01:49:17 -429392.134735] FAST spr round 4 (radius: 25) [01:50:39 -429383.807584] FAST spr round 5 (radius: 25) [01:51:56 -429383.806097] Model parameter optimization (eps = 1.000000) [01:52:14 -429374.497748] SLOW spr round 1 (radius: 5) [01:54:06 -429264.025737] SLOW spr round 2 (radius: 5) [01:55:51 -429255.424770] SLOW spr round 3 (radius: 5) [01:57:32 -429255.424628] SLOW spr round 4 (radius: 10) [01:59:26 -429254.463812] SLOW spr round 5 (radius: 5) [02:01:34 -429254.461957] SLOW spr round 6 (radius: 10) [02:03:43 -429254.461181] SLOW spr round 7 (radius: 15) [02:06:47 -429254.460840] SLOW spr round 8 (radius: 20) [02:11:28 -429254.460689] SLOW spr round 9 (radius: 25) [02:16:48 -429254.460621] Model parameter optimization (eps = 0.100000) [02:16:52] ML tree search #3, logLikelihood: -429254.415109 [02:16:52 -1482993.994331] Initial branch length optimization [02:16:56 -1248391.684217] Model parameter optimization (eps = 10.000000) [02:17:43 -1244272.954651] AUTODETECT spr round 1 (radius: 5) [02:19:24 -865314.226242] AUTODETECT spr round 2 (radius: 10) [02:21:12 -633346.179861] AUTODETECT spr round 3 (radius: 15) [02:23:13 -550889.535647] AUTODETECT spr round 4 (radius: 20) [02:25:29 -509902.316164] AUTODETECT spr round 5 (radius: 25) [02:28:03 -491376.456330] SPR radius for FAST iterations: 25 (autodetect) [02:28:03 -491376.456330] Model parameter optimization (eps = 3.000000) [02:28:23 -491100.016873] FAST spr round 1 (radius: 25) [02:30:41 -431063.641764] FAST spr round 2 (radius: 25) [02:32:27 -429451.071072] FAST spr round 3 (radius: 25) [02:33:58 -429350.809684] FAST spr round 4 (radius: 25) [02:35:17 -429350.797732] Model parameter optimization (eps = 1.000000) [02:35:34 -429334.443304] SLOW spr round 1 (radius: 5) [02:37:28 -429253.082816] SLOW spr round 2 (radius: 5) [02:39:14 -429249.465726] SLOW spr round 3 (radius: 5) [02:40:56 -429249.327650] SLOW spr round 4 (radius: 5) [02:42:37 -429249.326648] SLOW spr round 5 (radius: 10) [02:44:32 -429247.944042] SLOW spr round 6 (radius: 5) [02:46:40 -429247.944010] SLOW spr round 7 (radius: 10) [02:48:50 -429247.943993] SLOW spr round 8 (radius: 15) [02:51:58 -429247.943985] SLOW spr round 9 (radius: 20) [02:56:41 -429247.943981] SLOW spr round 10 (radius: 25) [03:02:05 -429247.943979] Model parameter optimization (eps = 0.100000) [03:02:09] ML tree search #4, logLikelihood: -429247.894954 [03:02:09 -1466090.865639] Initial branch length optimization [03:02:14 -1232616.170306] Model parameter optimization (eps = 10.000000) [03:02:59 -1228286.263254] AUTODETECT spr round 1 (radius: 5) [03:04:41 -870732.600009] AUTODETECT spr round 2 (radius: 10) [03:06:29 -661258.755536] AUTODETECT spr round 3 (radius: 15) [03:08:27 -571586.953932] AUTODETECT spr round 4 (radius: 20) [03:10:49 -509810.928710] AUTODETECT spr round 5 (radius: 25) [03:13:45 -502612.343442] SPR radius for FAST iterations: 25 (autodetect) [03:13:45 -502612.343442] Model parameter optimization (eps = 3.000000) [03:14:07 -502368.032074] FAST spr round 1 (radius: 25) [03:16:17 -432689.617901] FAST spr round 2 (radius: 25) [03:18:08 -429508.595941] FAST spr round 3 (radius: 25) [03:19:41 -429352.709342] FAST spr round 4 (radius: 25) [03:21:00 -429347.348779] FAST spr round 5 (radius: 25) [03:22:17 -429347.348775] Model parameter optimization (eps = 1.000000) [03:22:32 -429339.583237] SLOW spr round 1 (radius: 5) [03:24:21 -429264.567528] SLOW spr round 2 (radius: 5) [03:26:05 -429255.946027] SLOW spr round 3 (radius: 5) [03:27:49 -429252.889717] SLOW spr round 4 (radius: 5) [03:29:30 -429252.887930] SLOW spr round 5 (radius: 10) [03:31:26 -429250.789356] SLOW spr round 6 (radius: 5) [03:33:35 -429250.767130] SLOW spr round 7 (radius: 10) [03:35:44 -429250.766524] SLOW spr round 8 (radius: 15) [03:38:52 -429250.766360] SLOW spr round 9 (radius: 20) [03:43:29 -429250.766316] SLOW spr round 10 (radius: 25) [03:48:51 -429250.766304] Model parameter optimization (eps = 0.100000) [03:49:04] ML tree search #5, logLikelihood: -429249.746817 [03:49:04 -1472742.307047] Initial branch length optimization [03:49:08 -1248153.708282] Model parameter optimization (eps = 10.000000) [03:49:58 -1243673.172572] AUTODETECT spr round 1 (radius: 5) [03:51:40 -878158.095588] AUTODETECT spr round 2 (radius: 10) [03:53:27 -658727.211946] AUTODETECT spr round 3 (radius: 15) [03:55:30 -549413.384800] AUTODETECT spr round 4 (radius: 20) [03:57:41 -496924.721517] AUTODETECT spr round 5 (radius: 25) [04:00:12 -493194.840665] SPR radius for FAST iterations: 25 (autodetect) [04:00:12 -493194.840665] Model parameter optimization (eps = 3.000000) [04:00:29 -492871.317077] FAST spr round 1 (radius: 25) [04:02:45 -432349.203351] FAST spr round 2 (radius: 25) [04:04:36 -429614.974394] FAST spr round 3 (radius: 25) [04:06:11 -429406.056064] FAST spr round 4 (radius: 25) [04:07:30 -429405.458954] FAST spr round 5 (radius: 25) [04:08:47 -429405.452282] Model parameter optimization (eps = 1.000000) [04:08:51 -429405.244836] SLOW spr round 1 (radius: 5) [04:10:44 -429312.609142] SLOW spr round 2 (radius: 5) [04:12:30 -429309.670450] SLOW spr round 3 (radius: 5) [04:14:11 -429309.670437] SLOW spr round 4 (radius: 10) [04:16:06 -429308.287522] SLOW spr round 5 (radius: 5) [04:18:15 -429308.287522] SLOW spr round 6 (radius: 10) [04:20:23 -429308.287522] SLOW spr round 7 (radius: 15) [04:23:31 -429308.287522] SLOW spr round 8 (radius: 20) [04:28:09 -429308.287522] SLOW spr round 9 (radius: 25) [04:33:26 -429308.287522] Model parameter optimization (eps = 0.100000) [04:33:39] ML tree search #6, logLikelihood: -429290.939990 [04:33:39 -1459421.623813] Initial branch length optimization [04:33:43 -1231258.444307] Model parameter optimization (eps = 10.000000) [04:34:29 -1226849.285207] AUTODETECT spr round 1 (radius: 5) [04:36:08 -871081.562254] AUTODETECT spr round 2 (radius: 10) [04:37:55 -633613.089597] AUTODETECT spr round 3 (radius: 15) [04:39:54 -549593.881302] AUTODETECT spr round 4 (radius: 20) [04:42:20 -516621.619728] AUTODETECT spr round 5 (radius: 25) [04:45:19 -506702.212734] SPR radius for FAST iterations: 25 (autodetect) [04:45:19 -506702.212734] Model parameter optimization (eps = 3.000000) [04:45:38 -506499.056390] FAST spr round 1 (radius: 25) [04:47:54 -432440.232548] FAST spr round 2 (radius: 25) [04:49:42 -429518.728588] FAST spr round 3 (radius: 25) [04:51:18 -429403.750210] FAST spr round 4 (radius: 25) [04:52:38 -429387.316668] FAST spr round 5 (radius: 25) [04:53:55 -429377.413962] FAST spr round 6 (radius: 25) [04:55:10 -429377.413822] Model parameter optimization (eps = 1.000000) [04:55:24 -429363.404760] SLOW spr round 1 (radius: 5) [04:57:11 -429265.514186] SLOW spr round 2 (radius: 5) [04:58:56 -429260.438400] SLOW spr round 3 (radius: 5) [05:00:38 -429258.841162] SLOW spr round 4 (radius: 5) [05:02:20 -429257.301760] SLOW spr round 5 (radius: 5) [05:04:03 -429257.301389] SLOW spr round 6 (radius: 10) [05:05:59 -429250.489731] SLOW spr round 7 (radius: 5) [05:08:10 -429250.488971] SLOW spr round 8 (radius: 10) [05:10:21 -429250.488703] SLOW spr round 9 (radius: 15) [05:13:28 -429250.488582] SLOW spr round 10 (radius: 20) [05:18:09 -429250.488525] SLOW spr round 11 (radius: 25) [05:23:40 -429250.488498] Model parameter optimization (eps = 0.100000) [05:23:45] ML tree search #7, logLikelihood: -429250.407831 [05:23:45 -1465623.930971] Initial branch length optimization [05:23:49 -1228585.498518] Model parameter optimization (eps = 10.000000) [05:24:36 -1224231.431017] AUTODETECT spr round 1 (radius: 5) [05:26:16 -888851.715581] AUTODETECT spr round 2 (radius: 10) [05:28:02 -620889.438672] AUTODETECT spr round 3 (radius: 15) [05:30:00 -533109.954032] AUTODETECT spr round 4 (radius: 20) [05:32:16 -493714.434030] AUTODETECT spr round 5 (radius: 25) [05:34:40 -486862.740796] SPR radius for FAST iterations: 25 (autodetect) [05:34:40 -486862.740796] Model parameter optimization (eps = 3.000000) [05:34:59 -486587.531056] FAST spr round 1 (radius: 25) [05:37:16 -430630.997132] FAST spr round 2 (radius: 25) [05:39:01 -429465.642924] FAST spr round 3 (radius: 25) [05:40:29 -429411.707766] FAST spr round 4 (radius: 25) [05:41:53 -429392.542495] FAST spr round 5 (radius: 25) [05:43:09 -429389.847944] FAST spr round 6 (radius: 25) [05:44:24 -429389.847702] Model parameter optimization (eps = 1.000000) [05:44:34 -429379.498243] SLOW spr round 1 (radius: 5) [05:46:25 -429269.815038] SLOW spr round 2 (radius: 5) [05:48:11 -429259.452059] SLOW spr round 3 (radius: 5) [05:49:52 -429259.449246] SLOW spr round 4 (radius: 10) [05:51:46 -429258.520332] SLOW spr round 5 (radius: 5) [05:53:55 -429258.518724] SLOW spr round 6 (radius: 10) [05:56:03 -429258.518057] SLOW spr round 7 (radius: 15) [05:59:07 -429258.517767] SLOW spr round 8 (radius: 20) [06:03:47 -429258.517641] SLOW spr round 9 (radius: 25) [06:09:07 -429258.517585] Model parameter optimization (eps = 0.100000) [06:09:19] ML tree search #8, logLikelihood: -429256.876325 [06:09:19 -1471273.471149] Initial branch length optimization [06:09:23 -1247271.885838] Model parameter optimization (eps = 10.000000) [06:10:07 -1243011.238700] AUTODETECT spr round 1 (radius: 5) [06:11:45 -869140.679497] AUTODETECT spr round 2 (radius: 10) [06:13:30 -658161.976337] AUTODETECT spr round 3 (radius: 15) [06:15:31 -538202.311160] AUTODETECT spr round 4 (radius: 20) [06:17:55 -497350.051099] AUTODETECT spr round 5 (radius: 25) [06:20:34 -495346.713409] SPR radius for FAST iterations: 25 (autodetect) [06:20:34 -495346.713409] Model parameter optimization (eps = 3.000000) [06:20:57 -495071.200837] FAST spr round 1 (radius: 25) [06:23:12 -431410.190250] FAST spr round 2 (radius: 25) [06:24:59 -429483.241011] FAST spr round 3 (radius: 25) [06:26:33 -429396.873768] FAST spr round 4 (radius: 25) [06:27:50 -429396.873244] Model parameter optimization (eps = 1.000000) [06:28:05 -429372.475733] SLOW spr round 1 (radius: 5) [06:29:59 -429256.461729] SLOW spr round 2 (radius: 5) [06:31:43 -429251.047757] SLOW spr round 3 (radius: 5) [06:33:23 -429251.046797] SLOW spr round 4 (radius: 10) [06:35:17 -429251.046601] SLOW spr round 5 (radius: 15) [06:38:28 -429251.046528] SLOW spr round 6 (radius: 20) [06:43:00 -429251.046498] SLOW spr round 7 (radius: 25) [06:48:20 -429251.046484] Model parameter optimization (eps = 0.100000) [06:48:29] ML tree search #9, logLikelihood: -429250.777278 [06:48:29 -1470778.536366] Initial branch length optimization [06:48:32 -1235003.615787] Model parameter optimization (eps = 10.000000) [06:49:18 -1230870.083842] AUTODETECT spr round 1 (radius: 5) [06:50:59 -867216.692321] AUTODETECT spr round 2 (radius: 10) [06:52:47 -645369.289383] AUTODETECT spr round 3 (radius: 15) [06:54:50 -508015.313233] AUTODETECT spr round 4 (radius: 20) [06:57:12 -494197.893013] AUTODETECT spr round 5 (radius: 25) [06:59:50 -489678.926051] SPR radius for FAST iterations: 25 (autodetect) [06:59:50 -489678.926051] Model parameter optimization (eps = 3.000000) [07:00:08 -489357.756505] FAST spr round 1 (radius: 25) [07:02:26 -431698.599740] FAST spr round 2 (radius: 25) [07:04:06 -429512.198506] FAST spr round 3 (radius: 25) [07:05:40 -429413.082973] FAST spr round 4 (radius: 25) [07:07:07 -429371.253587] FAST spr round 5 (radius: 25) [07:08:29 -429357.126237] FAST spr round 6 (radius: 25) [07:09:44 -429355.756705] FAST spr round 7 (radius: 25) [07:10:58 -429355.755941] Model parameter optimization (eps = 1.000000) [07:11:14 -429340.706308] SLOW spr round 1 (radius: 5) [07:13:02 -429271.727600] SLOW spr round 2 (radius: 5) [07:14:46 -429266.556674] SLOW spr round 3 (radius: 5) [07:16:26 -429266.555094] SLOW spr round 4 (radius: 10) [07:18:22 -429261.254989] SLOW spr round 5 (radius: 5) [07:20:30 -429261.233948] SLOW spr round 6 (radius: 10) [07:22:41 -429261.233642] SLOW spr round 7 (radius: 15) [07:25:48 -429261.233558] SLOW spr round 8 (radius: 20) [07:30:32 -429261.233535] SLOW spr round 9 (radius: 25) [07:35:52 -429261.233529] Model parameter optimization (eps = 0.100000) [07:35:57] ML tree search #10, logLikelihood: -429261.175524 [07:35:57 -1465856.425808] Initial branch length optimization [07:36:01 -1232388.346184] Model parameter optimization (eps = 10.000000) [07:36:46 -1228048.547526] AUTODETECT spr round 1 (radius: 5) [07:38:24 -865720.566231] AUTODETECT spr round 2 (radius: 10) [07:40:09 -638588.548422] AUTODETECT spr round 3 (radius: 15) [07:42:07 -538563.427850] AUTODETECT spr round 4 (radius: 20) [07:44:21 -507898.647947] AUTODETECT spr round 5 (radius: 25) [07:47:04 -499609.629301] SPR radius for FAST iterations: 25 (autodetect) [07:47:04 -499609.629301] Model parameter optimization (eps = 3.000000) [07:47:24 -499296.113129] FAST spr round 1 (radius: 25) [07:49:47 -431765.694626] FAST spr round 2 (radius: 25) [07:51:36 -429455.369398] FAST spr round 3 (radius: 25) [07:53:03 -429403.248705] FAST spr round 4 (radius: 25) [07:54:19 -429403.246494] Model parameter optimization (eps = 1.000000) [07:54:35 -429380.507871] SLOW spr round 1 (radius: 5) [07:56:22 -429266.224349] SLOW spr round 2 (radius: 5) [07:58:08 -429256.384705] SLOW spr round 3 (radius: 5) [07:59:50 -429255.705161] SLOW spr round 4 (radius: 5) [08:01:30 -429255.704754] SLOW spr round 5 (radius: 10) [08:03:24 -429255.145011] SLOW spr round 6 (radius: 5) [08:05:32 -429255.142996] SLOW spr round 7 (radius: 10) [08:07:41 -429255.142156] SLOW spr round 8 (radius: 15) [08:10:46 -429255.141793] SLOW spr round 9 (radius: 20) [08:15:25 -429255.141634] SLOW spr round 10 (radius: 25) [08:20:41 -429255.141564] Model parameter optimization (eps = 0.100000) [08:20:52] ML tree search #11, logLikelihood: -429254.441863 [08:20:52 -1474900.181879] Initial branch length optimization [08:20:56 -1249301.683443] Model parameter optimization (eps = 10.000000) [08:21:38 -1244797.956843] AUTODETECT spr round 1 (radius: 5) [08:23:17 -874677.824147] AUTODETECT spr round 2 (radius: 10) [08:25:05 -602284.184055] AUTODETECT spr round 3 (radius: 15) [08:27:02 -515680.510473] AUTODETECT spr round 4 (radius: 20) [08:29:10 -486675.788381] AUTODETECT spr round 5 (radius: 25) [08:31:40 -480795.717312] SPR radius for FAST iterations: 25 (autodetect) [08:31:40 -480795.717312] Model parameter optimization (eps = 3.000000) [08:31:57 -480471.237775] FAST spr round 1 (radius: 25) [08:34:06 -432708.246399] FAST spr round 2 (radius: 25) [08:35:48 -429525.394637] FAST spr round 3 (radius: 25) [08:37:20 -429378.680013] FAST spr round 4 (radius: 25) [08:38:38 -429373.106590] FAST spr round 5 (radius: 25) [08:39:53 -429373.104915] Model parameter optimization (eps = 1.000000) [08:40:07 -429368.810494] SLOW spr round 1 (radius: 5) [08:41:55 -429277.735342] SLOW spr round 2 (radius: 5) [08:43:43 -429265.492874] SLOW spr round 3 (radius: 5) [08:45:24 -429264.988465] SLOW spr round 4 (radius: 5) [08:47:04 -429264.988410] SLOW spr round 5 (radius: 10) [08:48:58 -429264.135841] SLOW spr round 6 (radius: 5) [08:51:06 -429264.133873] SLOW spr round 7 (radius: 10) [08:53:15 -429264.133066] SLOW spr round 8 (radius: 15) [08:56:19 -429264.132720] SLOW spr round 9 (radius: 20) [09:01:02 -429264.132570] SLOW spr round 10 (radius: 25) [09:06:21 -429264.132505] Model parameter optimization (eps = 0.100000) [09:06:32] ML tree search #12, logLikelihood: -429263.107125 [09:06:32 -1477587.223890] Initial branch length optimization [09:06:36 -1246312.241145] Model parameter optimization (eps = 10.000000) [09:07:14 -1241967.380019] AUTODETECT spr round 1 (radius: 5) [09:08:54 -854345.652962] AUTODETECT spr round 2 (radius: 10) [09:10:38 -668677.959019] AUTODETECT spr round 3 (radius: 15) [09:12:39 -555182.115803] AUTODETECT spr round 4 (radius: 20) [09:15:04 -501180.200051] AUTODETECT spr round 5 (radius: 25) [09:18:11 -495893.791500] SPR radius for FAST iterations: 25 (autodetect) [09:18:11 -495893.791500] Model parameter optimization (eps = 3.000000) [09:18:29 -495541.148864] FAST spr round 1 (radius: 25) [09:20:54 -431595.685478] FAST spr round 2 (radius: 25) [09:22:43 -429491.214611] FAST spr round 3 (radius: 25) [09:24:11 -429403.687047] FAST spr round 4 (radius: 25) [09:25:28 -429401.810011] FAST spr round 5 (radius: 25) [09:26:43 -429401.797427] Model parameter optimization (eps = 1.000000) [09:26:56 -429385.106701] SLOW spr round 1 (radius: 5) [09:28:47 -429262.352102] SLOW spr round 2 (radius: 5) [09:30:31 -429257.748199] SLOW spr round 3 (radius: 5) [09:32:13 -429256.500814] SLOW spr round 4 (radius: 5) [09:33:53 -429256.481435] SLOW spr round 5 (radius: 10) [09:35:47 -429255.098587] SLOW spr round 6 (radius: 5) [09:37:55 -429255.098488] SLOW spr round 7 (radius: 10) [09:40:04 -429255.098437] SLOW spr round 8 (radius: 15) [09:43:08 -429255.098410] SLOW spr round 9 (radius: 20) [09:47:47 -429255.098396] SLOW spr round 10 (radius: 25) [09:53:10 -429255.098389] Model parameter optimization (eps = 0.100000) [09:53:18] ML tree search #13, logLikelihood: -429254.533990 [09:53:18 -1469271.469575] Initial branch length optimization [09:53:22 -1237321.951886] Model parameter optimization (eps = 10.000000) [09:54:10 -1233133.158061] AUTODETECT spr round 1 (radius: 5) [09:55:48 -855210.982524] AUTODETECT spr round 2 (radius: 10) [09:57:34 -642757.377301] AUTODETECT spr round 3 (radius: 15) [09:59:30 -549492.531808] AUTODETECT spr round 4 (radius: 20) [10:01:45 -497153.358122] AUTODETECT spr round 5 (radius: 25) [10:04:20 -487499.247069] SPR radius for FAST iterations: 25 (autodetect) [10:04:20 -487499.247069] Model parameter optimization (eps = 3.000000) [10:04:39 -487213.418398] FAST spr round 1 (radius: 25) [10:06:53 -431686.892798] FAST spr round 2 (radius: 25) [10:08:37 -429505.182281] FAST spr round 3 (radius: 25) [10:10:06 -429405.236047] FAST spr round 4 (radius: 25) [10:11:22 -429405.235414] Model parameter optimization (eps = 1.000000) [10:11:36 -429380.879765] SLOW spr round 1 (radius: 5) [10:13:31 -429269.712711] SLOW spr round 2 (radius: 5) [10:15:15 -429265.351238] SLOW spr round 3 (radius: 5) [10:16:55 -429265.349879] SLOW spr round 4 (radius: 10) [10:18:49 -429265.349261] SLOW spr round 5 (radius: 15) [10:22:08 -429265.348968] SLOW spr round 6 (radius: 20) [10:26:50 -429265.348826] SLOW spr round 7 (radius: 25) [10:32:13 -429265.348755] Model parameter optimization (eps = 0.100000) [10:32:25] ML tree search #14, logLikelihood: -429264.562955 [10:32:25 -1485862.410939] Initial branch length optimization [10:32:29 -1250378.695897] Model parameter optimization (eps = 10.000000) [10:33:21 -1245909.127968] AUTODETECT spr round 1 (radius: 5) [10:35:00 -866911.750720] AUTODETECT spr round 2 (radius: 10) [10:36:47 -619171.664860] AUTODETECT spr round 3 (radius: 15) [10:38:42 -539352.377583] AUTODETECT spr round 4 (radius: 20) [10:41:19 -497766.360163] AUTODETECT spr round 5 (radius: 25) [10:44:31 -489945.479307] SPR radius for FAST iterations: 25 (autodetect) [10:44:31 -489945.479307] Model parameter optimization (eps = 3.000000) [10:44:52 -489674.075939] FAST spr round 1 (radius: 25) [10:47:07 -431292.065799] FAST spr round 2 (radius: 25) [10:48:55 -429461.635508] FAST spr round 3 (radius: 25) [10:50:24 -429412.437121] FAST spr round 4 (radius: 25) [10:51:44 -429398.258409] FAST spr round 5 (radius: 25) [10:52:59 -429398.258045] Model parameter optimization (eps = 1.000000) [10:53:20 -429376.273593] SLOW spr round 1 (radius: 5) [10:55:13 -429259.451011] SLOW spr round 2 (radius: 5) [10:56:57 -429257.559348] SLOW spr round 3 (radius: 5) [10:58:38 -429257.559110] SLOW spr round 4 (radius: 10) [11:00:32 -429256.176378] SLOW spr round 5 (radius: 5) [11:02:40 -429256.176366] SLOW spr round 6 (radius: 10) [11:04:50 -429256.176361] SLOW spr round 7 (radius: 15) [11:07:58 -429256.176358] SLOW spr round 8 (radius: 20) [11:12:45 -429256.176357] SLOW spr round 9 (radius: 25) [11:18:13 -429256.176357] Model parameter optimization (eps = 0.100000) [11:18:27] ML tree search #15, logLikelihood: -429255.244110 [11:18:27 -1470540.538451] Initial branch length optimization [11:18:31 -1238726.132217] Model parameter optimization (eps = 10.000000) [11:19:18 -1234569.417423] AUTODETECT spr round 1 (radius: 5) [11:20:57 -866555.558394] AUTODETECT spr round 2 (radius: 10) [11:22:45 -619551.686334] AUTODETECT spr round 3 (radius: 15) [11:24:49 -534105.817682] AUTODETECT spr round 4 (radius: 20) [11:26:59 -504778.878311] AUTODETECT spr round 5 (radius: 25) [11:29:20 -502050.083501] SPR radius for FAST iterations: 25 (autodetect) [11:29:20 -502050.083501] Model parameter optimization (eps = 3.000000) [11:29:39 -501763.724762] FAST spr round 1 (radius: 25) [11:31:49 -431251.404017] FAST spr round 2 (radius: 25) [11:33:33 -429599.058981] FAST spr round 3 (radius: 25) [11:35:04 -429378.277432] FAST spr round 4 (radius: 25) [11:36:23 -429358.245088] FAST spr round 5 (radius: 25) [11:37:39 -429348.880833] FAST spr round 6 (radius: 25) [11:38:52 -429348.879282] Model parameter optimization (eps = 1.000000) [11:39:08 -429331.101291] SLOW spr round 1 (radius: 5) [11:40:58 -429256.847318] SLOW spr round 2 (radius: 5) [11:42:44 -429252.283928] SLOW spr round 3 (radius: 5) [11:44:24 -429252.281814] SLOW spr round 4 (radius: 10) [11:46:16 -429252.281377] SLOW spr round 5 (radius: 15) [11:49:30 -429252.281300] SLOW spr round 6 (radius: 20) [11:54:01 -429252.281291] SLOW spr round 7 (radius: 25) [11:59:21 -429252.281290] Model parameter optimization (eps = 0.100000) [11:59:25] ML tree search #16, logLikelihood: -429252.251664 [11:59:25 -1480185.600844] Initial branch length optimization [11:59:29 -1241994.484182] Model parameter optimization (eps = 10.000000) [12:00:10 -1237676.269251] AUTODETECT spr round 1 (radius: 5) [12:01:48 -895565.216140] AUTODETECT spr round 2 (radius: 10) [12:03:33 -688187.937710] AUTODETECT spr round 3 (radius: 15) [12:05:39 -533176.274186] AUTODETECT spr round 4 (radius: 20) [12:07:55 -496527.772051] AUTODETECT spr round 5 (radius: 25) [12:10:37 -492349.598649] SPR radius for FAST iterations: 25 (autodetect) [12:10:37 -492349.598649] Model parameter optimization (eps = 3.000000) [12:10:56 -492050.001526] FAST spr round 1 (radius: 25) [12:13:15 -431244.886139] FAST spr round 2 (radius: 25) [12:15:01 -429611.918036] FAST spr round 3 (radius: 25) [12:16:37 -429416.334530] FAST spr round 4 (radius: 25) [12:17:58 -429383.243148] FAST spr round 5 (radius: 25) [12:19:15 -429372.680488] FAST spr round 6 (radius: 25) [12:20:30 -429364.004816] FAST spr round 7 (radius: 25) [12:21:43 -429364.004657] Model parameter optimization (eps = 1.000000) [12:21:58 -429357.799699] SLOW spr round 1 (radius: 5) [12:23:42 -429268.514944] SLOW spr round 2 (radius: 5) [12:25:23 -429266.477348] SLOW spr round 3 (radius: 5) [12:27:03 -429266.476991] SLOW spr round 4 (radius: 10) [12:28:56 -429266.476855] SLOW spr round 5 (radius: 15) [12:32:15 -429266.476800] SLOW spr round 6 (radius: 20) [12:36:55 -429266.476778] SLOW spr round 7 (radius: 25) [12:42:16 -429266.476769] Model parameter optimization (eps = 0.100000) [12:42:25] ML tree search #17, logLikelihood: -429265.802293 [12:42:25 -1475082.560683] Initial branch length optimization [12:42:29 -1244256.393924] Model parameter optimization (eps = 10.000000) [12:43:16 -1239743.420204] AUTODETECT spr round 1 (radius: 5) [12:44:54 -864714.175852] AUTODETECT spr round 2 (radius: 10) [12:46:39 -680719.119652] AUTODETECT spr round 3 (radius: 15) [12:48:31 -585176.260779] AUTODETECT spr round 4 (radius: 20) [12:51:02 -509455.881771] AUTODETECT spr round 5 (radius: 25) [12:53:36 -502920.026014] SPR radius for FAST iterations: 25 (autodetect) [12:53:36 -502920.026014] Model parameter optimization (eps = 3.000000) [12:53:56 -502654.216132] FAST spr round 1 (radius: 25) [12:56:12 -431769.344346] FAST spr round 2 (radius: 25) [12:57:49 -429448.746771] FAST spr round 3 (radius: 25) [12:59:19 -429377.593925] FAST spr round 4 (radius: 25) [13:00:39 -429366.899077] FAST spr round 5 (radius: 25) [13:01:56 -429355.845423] FAST spr round 6 (radius: 25) [13:03:09 -429355.844841] Model parameter optimization (eps = 1.000000) [13:03:24 -429342.668047] SLOW spr round 1 (radius: 5) [13:05:09 -429263.805789] SLOW spr round 2 (radius: 5) [13:06:54 -429254.851400] SLOW spr round 3 (radius: 5) [13:08:35 -429254.850983] SLOW spr round 4 (radius: 10) [13:10:28 -429254.850803] SLOW spr round 5 (radius: 15) [13:13:51 -429254.850721] SLOW spr round 6 (radius: 20) [13:18:35 -429254.850683] SLOW spr round 7 (radius: 25) [13:23:56 -429254.850666] Model parameter optimization (eps = 0.100000) [13:24:08] ML tree search #18, logLikelihood: -429254.076117 [13:24:08 -1474034.307515] Initial branch length optimization [13:24:14 -1244548.686883] Model parameter optimization (eps = 10.000000) [13:24:49 -1240184.104420] AUTODETECT spr round 1 (radius: 5) [13:26:29 -866565.312942] AUTODETECT spr round 2 (radius: 10) [13:28:14 -663057.260166] AUTODETECT spr round 3 (radius: 15) [13:30:12 -523680.793475] AUTODETECT spr round 4 (radius: 20) [13:32:27 -499299.825693] AUTODETECT spr round 5 (radius: 25) [13:34:51 -487752.545776] SPR radius for FAST iterations: 25 (autodetect) [13:34:51 -487752.545776] Model parameter optimization (eps = 3.000000) [13:35:10 -487562.184752] FAST spr round 1 (radius: 25) [13:37:28 -431600.764839] FAST spr round 2 (radius: 25) [13:39:18 -429601.715546] FAST spr round 3 (radius: 25) [13:40:49 -429389.370976] FAST spr round 4 (radius: 25) [13:42:10 -429375.384756] FAST spr round 5 (radius: 25) [13:43:25 -429372.668375] FAST spr round 6 (radius: 25) [13:44:39 -429372.666305] Model parameter optimization (eps = 1.000000) [13:44:52 -429346.140050] SLOW spr round 1 (radius: 5) [13:46:37 -429280.682706] SLOW spr round 2 (radius: 5) [13:48:22 -429261.000811] SLOW spr round 3 (radius: 5) [13:50:02 -429261.000374] SLOW spr round 4 (radius: 10) [13:51:57 -429257.827834] SLOW spr round 5 (radius: 5) [13:54:05 -429257.805718] SLOW spr round 6 (radius: 10) [13:56:14 -429257.805111] SLOW spr round 7 (radius: 15) [13:59:18 -429257.804945] SLOW spr round 8 (radius: 20) [14:03:50 -429257.804898] SLOW spr round 9 (radius: 25) [14:09:02 -429257.804883] Model parameter optimization (eps = 0.100000) [14:09:07] ML tree search #19, logLikelihood: -429257.710611 [14:09:07 -1470020.570032] Initial branch length optimization [14:09:10 -1239834.585893] Model parameter optimization (eps = 10.000000) [14:09:50 -1235449.643993] AUTODETECT spr round 1 (radius: 5) [14:11:29 -875772.924292] AUTODETECT spr round 2 (radius: 10) [14:13:14 -666754.983366] AUTODETECT spr round 3 (radius: 15) [14:15:13 -505610.829557] AUTODETECT spr round 4 (radius: 20) [14:17:24 -488429.929634] AUTODETECT spr round 5 (radius: 25) [14:19:55 -485743.097929] SPR radius for FAST iterations: 25 (autodetect) [14:19:55 -485743.097929] Model parameter optimization (eps = 3.000000) [14:20:12 -485482.290490] FAST spr round 1 (radius: 25) [14:22:18 -431182.230545] FAST spr round 2 (radius: 25) [14:24:02 -429455.322543] FAST spr round 3 (radius: 25) [14:25:36 -429378.292426] FAST spr round 4 (radius: 25) [14:26:57 -429358.241420] FAST spr round 5 (radius: 25) [14:28:14 -429346.613786] FAST spr round 6 (radius: 25) [14:29:28 -429346.613619] Model parameter optimization (eps = 1.000000) [14:29:40 -429339.127733] SLOW spr round 1 (radius: 5) [14:31:29 -429259.475814] SLOW spr round 2 (radius: 5) [14:33:10 -429259.283899] SLOW spr round 3 (radius: 5) [14:34:51 -429259.283387] SLOW spr round 4 (radius: 10) [14:36:44 -429259.283248] SLOW spr round 5 (radius: 15) [14:40:03 -429259.283204] SLOW spr round 6 (radius: 20) [14:44:44 -429259.283188] SLOW spr round 7 (radius: 25) [14:50:08 -429259.283182] Model parameter optimization (eps = 0.100000) [14:50:17] ML tree search #20, logLikelihood: -429258.842678 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.152993,0.457481) (0.215753,0.482629) (0.338418,0.835799) (0.292836,1.854386) 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: -429247.894954 AIC score: 861649.789907 / AICc score: 5838661.789907 / BIC score: 869522.325973 Free parameters (model + branch lengths): 1577 WARNING: Number of free parameters (K=1577) is larger than alignment size (n=1088). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 37 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/3_mltree/O75140.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/3_mltree/O75140.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/3_mltree/O75140.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/3_mltree/O75140.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75140/3_mltree/O75140.raxml.log Analysis started: 13-Jul-2021 16:15:40 / finished: 14-Jul-2021 07:05:58 Elapsed time: 53417.857 seconds Consumed energy: 3264.652 Wh (= 16 km in an electric car, or 82 km with an e-scooter!)