RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 05-Jul-2021 03:17:55 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/2_msa/Q02880_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880 --seed 2 --threads 8 --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 (8 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/2_msa/Q02880_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 1334 sites WARNING: Sequences tr_A0A0E1S0L0_A0A0E1S0L0_COCIM_246410 and tr_A0A0J6Y6M2_A0A0J6Y6M2_COCIT_404692 are exactly identical! WARNING: Sequences tr_K7CLW1_K7CLW1_PANTR_9598 and sp_Q02880_TOP2B_HUMAN_9606 are exactly identical! WARNING: Sequences tr_F7E5A9_F7E5A9_MACMU_9544 and tr_A0A0D9RBI7_A0A0D9RBI7_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7E5A9_F7E5A9_MACMU_9544 and tr_A0A2K6BXX5_A0A2K6BXX5_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7EVK2_F7EVK2_MACMU_9544 and tr_A0A2K6BNE0_A0A2K6BNE0_MACNE_9545 are exactly identical! WARNING: Sequences tr_I1P3D3_I1P3D3_ORYGL_4538 and tr_A0A0D3F9B3_A0A0D3F9B3_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_L0P818_L0P818_PNEJ8_1209962 and tr_A0A0W4ZTQ2_A0A0W4ZTQ2_PNEJ7_1408657 are exactly identical! WARNING: Sequences tr_N4U6N1_N4U6N1_FUSC1_1229664 and tr_X0BR85_X0BR85_FUSOX_1089458 are exactly identical! WARNING: Sequences tr_N4U6N1_N4U6N1_FUSC1_1229664 and tr_A0A2H3TBS7_A0A2H3TBS7_FUSOX_5507 are exactly identical! WARNING: Sequences tr_A0A015LQG0_A0A015LQG0_9GLOM_1432141 and tr_A0A2H5UHE0_A0A2H5UHE0_RHIID_747089 are exactly identical! WARNING: Sequences tr_A0A2D0S3I8_A0A2D0S3I8_ICTPU_7998 and tr_W5USP5_W5USP5_ICTPU_7998 are exactly identical! WARNING: Duplicate sequences found: 11 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880.raxml.reduced.phy Alignment comprises 1 partitions and 1332 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 1334 / 1332 Gaps: 5.94 % Invariant sites: 2.92 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880.raxml.rba Parallelization scheme autoconfig: 1 worker(s) x 8 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 1001 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 167 / 13360 [00:00:00] Data distribution: max. searches per worker: 20 Starting ML tree search with 20 distinct starting trees [00:00:00 -1857929.555643] Initial branch length optimization [00:00:11 -1627760.868518] Model parameter optimization (eps = 10.000000) [00:00:50 -1623823.444913] AUTODETECT spr round 1 (radius: 5) [00:04:09 -1156053.509678] AUTODETECT spr round 2 (radius: 10) [00:07:30 -865774.414510] AUTODETECT spr round 3 (radius: 15) [00:11:06 -743712.018543] AUTODETECT spr round 4 (radius: 20) [00:14:59 -692188.011465] AUTODETECT spr round 5 (radius: 25) [00:19:24 -688205.411838] SPR radius for FAST iterations: 25 (autodetect) [00:19:24 -688205.411838] Model parameter optimization (eps = 3.000000) [00:19:45 -688160.104546] FAST spr round 1 (radius: 25) [00:23:45 -598776.196666] FAST spr round 2 (radius: 25) [00:26:47 -595973.158456] FAST spr round 3 (radius: 25) [00:29:34 -595797.218774] FAST spr round 4 (radius: 25) [00:31:52 -595784.730496] FAST spr round 5 (radius: 25) [00:34:03 -595784.730231] Model parameter optimization (eps = 1.000000) [00:34:21 -595781.974282] SLOW spr round 1 (radius: 5) [00:37:50 -595603.077613] SLOW spr round 2 (radius: 5) [00:41:01 -595567.235549] SLOW spr round 3 (radius: 5) [00:44:03 -595566.971393] SLOW spr round 4 (radius: 5) [00:47:01 -595566.971378] SLOW spr round 5 (radius: 10) [00:50:17 -595564.396647] SLOW spr round 6 (radius: 5) [00:54:09 -595564.396495] SLOW spr round 7 (radius: 10) [00:57:49 -595564.396495] SLOW spr round 8 (radius: 15) [01:03:09 -595564.396495] SLOW spr round 9 (radius: 20) [01:12:58 -595564.396495] SLOW spr round 10 (radius: 25) [01:24:49 -595564.396495] Model parameter optimization (eps = 0.100000) [01:25:04] ML tree search #1, logLikelihood: -595563.988432 [01:25:04 -1848805.311147] Initial branch length optimization [01:25:10 -1618335.991955] Model parameter optimization (eps = 10.000000) [01:25:53 -1614459.873942] AUTODETECT spr round 1 (radius: 5) [01:29:47 -1187720.745772] AUTODETECT spr round 2 (radius: 10) [01:33:11 -897543.527778] AUTODETECT spr round 3 (radius: 15) [01:36:59 -745977.602061] AUTODETECT spr round 4 (radius: 20) [01:41:28 -697806.112245] AUTODETECT spr round 5 (radius: 25) [01:46:48 -693673.857296] SPR radius for FAST iterations: 25 (autodetect) [01:46:48 -693673.857296] Model parameter optimization (eps = 3.000000) [01:47:15 -693579.212542] FAST spr round 1 (radius: 25) [01:51:35 -599157.356532] FAST spr round 2 (radius: 25) [01:54:34 -596046.698569] FAST spr round 3 (radius: 25) [01:57:08 -595806.228453] FAST spr round 4 (radius: 25) [01:59:22 -595802.978825] FAST spr round 5 (radius: 25) [02:01:31 -595802.978806] Model parameter optimization (eps = 1.000000) [02:01:48 -595788.134030] SLOW spr round 1 (radius: 5) [02:05:00 -595594.896347] SLOW spr round 2 (radius: 5) [02:08:13 -595564.486295] SLOW spr round 3 (radius: 5) [02:11:11 -595563.760534] SLOW spr round 4 (radius: 5) [02:14:06 -595563.760519] SLOW spr round 5 (radius: 10) [02:17:22 -595559.122826] SLOW spr round 6 (radius: 5) [02:21:12 -595556.383753] SLOW spr round 7 (radius: 5) [02:24:32 -595556.383751] SLOW spr round 8 (radius: 10) [02:27:52 -595556.383751] SLOW spr round 9 (radius: 15) [02:33:18 -595556.383751] SLOW spr round 10 (radius: 20) [02:43:05 -595556.383751] SLOW spr round 11 (radius: 25) [02:56:32 -595556.383751] Model parameter optimization (eps = 0.100000) [02:56:45] ML tree search #2, logLikelihood: -595555.771786 [02:56:45 -1855482.578530] Initial branch length optimization [02:56:52 -1629264.529020] Model parameter optimization (eps = 10.000000) [02:57:31 -1625162.746270] AUTODETECT spr round 1 (radius: 5) [03:00:41 -1149100.766096] AUTODETECT spr round 2 (radius: 10) [03:04:07 -844324.841231] AUTODETECT spr round 3 (radius: 15) [03:07:43 -707692.789349] AUTODETECT spr round 4 (radius: 20) [03:12:16 -679876.903870] AUTODETECT spr round 5 (radius: 25) [03:17:34 -675719.016707] SPR radius for FAST iterations: 25 (autodetect) [03:17:34 -675719.016707] Model parameter optimization (eps = 3.000000) [03:17:57 -675601.276583] FAST spr round 1 (radius: 25) [03:22:03 -598936.679112] FAST spr round 2 (radius: 25) [03:24:58 -595880.183256] FAST spr round 3 (radius: 25) [03:27:40 -595717.802516] FAST spr round 4 (radius: 25) [03:29:53 -595717.801947] Model parameter optimization (eps = 1.000000) [03:30:12 -595711.454130] SLOW spr round 1 (radius: 5) [03:33:39 -595544.141607] SLOW spr round 2 (radius: 5) [03:36:40 -595535.431204] SLOW spr round 3 (radius: 5) [03:39:35 -595529.607716] SLOW spr round 4 (radius: 5) [03:42:27 -595525.871159] SLOW spr round 5 (radius: 5) [03:45:17 -595525.871157] SLOW spr round 6 (radius: 10) [03:48:27 -595523.340034] SLOW spr round 7 (radius: 5) [03:52:15 -595522.318387] SLOW spr round 8 (radius: 5) [03:55:36 -595520.345084] SLOW spr round 9 (radius: 5) [03:58:39 -595520.319953] SLOW spr round 10 (radius: 10) [04:01:51 -595520.319952] SLOW spr round 11 (radius: 15) [04:07:24 -595520.319952] SLOW spr round 12 (radius: 20) [04:16:54 -595520.319952] SLOW spr round 13 (radius: 25) [04:28:17 -595520.319952] Model parameter optimization (eps = 0.100000) [04:28:29] ML tree search #3, logLikelihood: -595519.677100 [04:28:29 -1862129.397959] Initial branch length optimization [04:28:38 -1633052.281510] Model parameter optimization (eps = 10.000000) [04:29:14 -1629211.771891] AUTODETECT spr round 1 (radius: 5) [04:32:16 -1162502.681482] AUTODETECT spr round 2 (radius: 10) [04:35:35 -933110.661836] AUTODETECT spr round 3 (radius: 15) [04:39:17 -837744.320539] AUTODETECT spr round 4 (radius: 20) [04:43:18 -736585.230193] AUTODETECT spr round 5 (radius: 25) [04:48:11 -709189.070646] SPR radius for FAST iterations: 25 (autodetect) [04:48:11 -709189.070646] Model parameter optimization (eps = 3.000000) [04:48:38 -709137.374726] FAST spr round 1 (radius: 25) [04:52:57 -598808.736384] FAST spr round 2 (radius: 25) [04:56:06 -596073.277767] FAST spr round 3 (radius: 25) [04:58:50 -595838.447216] FAST spr round 4 (radius: 25) [05:01:19 -595766.588714] FAST spr round 5 (radius: 25) [05:03:26 -595755.354713] FAST spr round 6 (radius: 25) [05:05:29 -595755.354681] Model parameter optimization (eps = 1.000000) [05:05:47 -595743.892154] SLOW spr round 1 (radius: 5) [05:09:02 -595572.915457] SLOW spr round 2 (radius: 5) [05:12:06 -595548.272296] SLOW spr round 3 (radius: 5) [05:15:01 -595547.614913] SLOW spr round 4 (radius: 5) [05:17:54 -595547.614910] SLOW spr round 5 (radius: 10) [05:21:08 -595540.193691] SLOW spr round 6 (radius: 5) [05:25:02 -595536.795168] SLOW spr round 7 (radius: 5) [05:28:25 -595536.795135] SLOW spr round 8 (radius: 10) [05:31:45 -595536.795135] SLOW spr round 9 (radius: 15) [05:37:19 -595536.795135] SLOW spr round 10 (radius: 20) [05:47:01 -595536.795135] SLOW spr round 11 (radius: 25) [05:59:01 -595536.795135] Model parameter optimization (eps = 0.100000) [05:59:13] ML tree search #4, logLikelihood: -595536.600357 [05:59:13 -1858662.983821] Initial branch length optimization [05:59:20 -1629089.220292] Model parameter optimization (eps = 10.000000) [05:59:57 -1625028.658527] AUTODETECT spr round 1 (radius: 5) [06:03:02 -1151650.559547] AUTODETECT spr round 2 (radius: 10) [06:06:20 -844281.255228] AUTODETECT spr round 3 (radius: 15) [06:09:55 -767470.008107] AUTODETECT spr round 4 (radius: 20) [06:14:29 -748218.156496] AUTODETECT spr round 5 (radius: 25) [06:19:55 -732843.970926] SPR radius for FAST iterations: 25 (autodetect) [06:19:55 -732843.970926] Model parameter optimization (eps = 3.000000) [06:20:05 -732840.687178] FAST spr round 1 (radius: 25) [06:24:29 -602182.319180] FAST spr round 2 (radius: 25) [06:27:37 -596206.813541] FAST spr round 3 (radius: 25) [06:30:15 -595891.805326] FAST spr round 4 (radius: 25) [06:32:39 -595824.101242] FAST spr round 5 (radius: 25) [06:34:51 -595813.408540] FAST spr round 6 (radius: 25) [06:36:59 -595787.308396] FAST spr round 7 (radius: 25) [06:39:03 -595785.667127] FAST spr round 8 (radius: 25) [06:41:04 -595785.667067] Model parameter optimization (eps = 1.000000) [06:41:10 -595784.803941] SLOW spr round 1 (radius: 5) [06:44:23 -595639.875242] SLOW spr round 2 (radius: 5) [06:47:25 -595629.534967] SLOW spr round 3 (radius: 5) [06:50:19 -595629.534962] SLOW spr round 4 (radius: 10) [06:53:29 -595625.332040] SLOW spr round 5 (radius: 5) [06:57:22 -595619.745427] SLOW spr round 6 (radius: 5) [07:00:43 -595619.744547] SLOW spr round 7 (radius: 10) [07:04:03 -595619.744427] SLOW spr round 8 (radius: 15) [07:09:39 -595619.744412] SLOW spr round 9 (radius: 20) [07:19:00 -595619.744410] SLOW spr round 10 (radius: 25) [07:30:17 -595619.744410] Model parameter optimization (eps = 0.100000) [07:30:19] ML tree search #5, logLikelihood: -595619.743721 [07:30:19 -1855302.456785] Initial branch length optimization [07:30:28 -1628513.694211] Model parameter optimization (eps = 10.000000) [07:31:29 -1624602.723614] AUTODETECT spr round 1 (radius: 5) [07:34:34 -1154682.788067] AUTODETECT spr round 2 (radius: 10) [07:37:59 -851558.170284] AUTODETECT spr round 3 (radius: 15) [07:41:38 -716139.787719] AUTODETECT spr round 4 (radius: 20) [07:46:22 -686855.223413] AUTODETECT spr round 5 (radius: 25) [07:51:13 -680902.677369] SPR radius for FAST iterations: 25 (autodetect) [07:51:13 -680902.677369] Model parameter optimization (eps = 3.000000) [07:51:23 -680898.577707] FAST spr round 1 (radius: 25) [07:55:22 -597835.929896] FAST spr round 2 (radius: 25) [07:58:23 -595885.056737] FAST spr round 3 (radius: 25) [08:00:53 -595821.638443] FAST spr round 4 (radius: 25) [08:03:04 -595817.678625] FAST spr round 5 (radius: 25) [08:05:09 -595817.678624] Model parameter optimization (eps = 1.000000) [08:05:17 -595816.723150] SLOW spr round 1 (radius: 5) [08:08:42 -595647.889116] SLOW spr round 2 (radius: 5) [08:11:44 -595637.598506] SLOW spr round 3 (radius: 5) [08:14:37 -595636.671194] SLOW spr round 4 (radius: 5) [08:17:30 -595636.671193] SLOW spr round 5 (radius: 10) [08:20:43 -595622.145883] SLOW spr round 6 (radius: 5) [08:24:36 -595615.082148] SLOW spr round 7 (radius: 5) [08:28:00 -595613.455223] SLOW spr round 8 (radius: 5) [08:31:03 -595613.454861] SLOW spr round 9 (radius: 10) [08:34:16 -595613.454858] SLOW spr round 10 (radius: 15) [08:39:53 -595613.454858] SLOW spr round 11 (radius: 20) [08:49:48 -595613.454858] SLOW spr round 12 (radius: 25) [09:01:52 -595613.454858] Model parameter optimization (eps = 0.100000) [09:02:10] ML tree search #6, logLikelihood: -595560.828773 [09:02:10 -1859715.000933] Initial branch length optimization [09:02:18 -1629182.689551] Model parameter optimization (eps = 10.000000) [09:03:00 -1625056.127428] AUTODETECT spr round 1 (radius: 5) [09:06:09 -1136033.228017] AUTODETECT spr round 2 (radius: 10) [09:09:31 -842452.804192] AUTODETECT spr round 3 (radius: 15) [09:13:07 -760769.537384] AUTODETECT spr round 4 (radius: 20) [09:17:32 -716859.468738] AUTODETECT spr round 5 (radius: 25) [09:22:43 -697828.178415] SPR radius for FAST iterations: 25 (autodetect) [09:22:44 -697828.178415] Model parameter optimization (eps = 3.000000) [09:23:05 -697757.828344] FAST spr round 1 (radius: 25) [09:27:17 -598849.658911] FAST spr round 2 (radius: 25) [09:30:22 -595978.140696] FAST spr round 3 (radius: 25) [09:33:03 -595859.640699] FAST spr round 4 (radius: 25) [09:35:14 -595842.031681] FAST spr round 5 (radius: 25) [09:37:21 -595842.031677] Model parameter optimization (eps = 1.000000) [09:37:36 -595834.876191] SLOW spr round 1 (radius: 5) [09:41:00 -595652.658533] SLOW spr round 2 (radius: 5) [09:44:15 -595585.034780] SLOW spr round 3 (radius: 5) [09:47:14 -595560.090630] SLOW spr round 4 (radius: 5) [09:50:14 -595538.712250] SLOW spr round 5 (radius: 5) [09:53:11 -595537.063620] SLOW spr round 6 (radius: 5) [09:56:06 -595537.063616] SLOW spr round 7 (radius: 10) [09:59:21 -595537.063616] SLOW spr round 8 (radius: 15) [10:05:00 -595537.063616] SLOW spr round 9 (radius: 20) [10:14:47 -595537.063616] SLOW spr round 10 (radius: 25) [10:26:47 -595537.063616] Model parameter optimization (eps = 0.100000) [10:26:59] ML tree search #7, logLikelihood: -595536.576785 [10:26:59 -1850219.961899] Initial branch length optimization [10:27:08 -1620379.294318] Model parameter optimization (eps = 10.000000) [10:27:48 -1616588.959765] AUTODETECT spr round 1 (radius: 5) [10:30:53 -1138748.314698] AUTODETECT spr round 2 (radius: 10) [10:34:17 -859845.941433] AUTODETECT spr round 3 (radius: 15) [10:37:55 -730282.189072] AUTODETECT spr round 4 (radius: 20) [10:42:11 -684332.270208] AUTODETECT spr round 5 (radius: 25) [10:47:07 -681712.287357] SPR radius for FAST iterations: 25 (autodetect) [10:47:07 -681712.287357] Model parameter optimization (eps = 3.000000) [10:47:32 -681654.256725] FAST spr round 1 (radius: 25) [10:51:30 -598554.080486] FAST spr round 2 (radius: 25) [10:54:28 -595820.111575] FAST spr round 3 (radius: 25) [10:57:04 -595740.119878] FAST spr round 4 (radius: 25) [10:59:24 -595724.066051] FAST spr round 5 (radius: 25) [11:01:29 -595724.066032] Model parameter optimization (eps = 1.000000) [11:01:55 -595714.547111] SLOW spr round 1 (radius: 5) [11:05:16 -595594.361749] SLOW spr round 2 (radius: 5) [11:08:14 -595587.532624] SLOW spr round 3 (radius: 5) [11:11:07 -595587.532556] SLOW spr round 4 (radius: 10) [11:14:16 -595585.956629] SLOW spr round 5 (radius: 5) [11:18:04 -595582.989812] SLOW spr round 6 (radius: 5) [11:21:24 -595582.989725] SLOW spr round 7 (radius: 10) [11:24:48 -595582.989724] SLOW spr round 8 (radius: 15) [11:30:19 -595582.989724] SLOW spr round 9 (radius: 20) [11:40:00 -595582.989724] SLOW spr round 10 (radius: 25) [11:51:43 -595582.989724] Model parameter optimization (eps = 0.100000) [11:51:58] ML tree search #8, logLikelihood: -595581.979354 [11:51:58 -1847777.489889] Initial branch length optimization [11:52:04 -1627802.376511] Model parameter optimization (eps = 10.000000) [11:53:14 -1623681.989837] AUTODETECT spr round 1 (radius: 5) [11:56:20 -1171147.220761] AUTODETECT spr round 2 (radius: 10) [11:59:38 -852061.672949] AUTODETECT spr round 3 (radius: 15) [12:03:16 -712602.069178] AUTODETECT spr round 4 (radius: 20) [12:07:05 -686453.989827] AUTODETECT spr round 5 (radius: 25) [12:12:03 -685021.935859] SPR radius for FAST iterations: 25 (autodetect) [12:12:03 -685021.935859] Model parameter optimization (eps = 3.000000) [12:12:11 -685019.169109] FAST spr round 1 (radius: 25) [12:16:19 -598496.156375] FAST spr round 2 (radius: 25) [12:19:23 -596040.199496] FAST spr round 3 (radius: 25) [12:22:07 -595874.786531] FAST spr round 4 (radius: 25) [12:24:18 -595872.212420] FAST spr round 5 (radius: 25) [12:26:24 -595872.211982] Model parameter optimization (eps = 1.000000) [12:26:44 -595821.727159] SLOW spr round 1 (radius: 5) [12:30:09 -595647.480570] SLOW spr round 2 (radius: 5) [12:33:10 -595635.322487] SLOW spr round 3 (radius: 5) [12:36:04 -595630.844931] SLOW spr round 4 (radius: 5) [12:38:55 -595630.844922] SLOW spr round 5 (radius: 10) [12:42:05 -595622.327851] SLOW spr round 6 (radius: 5) [12:45:58 -595601.948062] SLOW spr round 7 (radius: 5) [12:49:16 -595601.947970] SLOW spr round 8 (radius: 10) [12:52:33 -595601.947969] SLOW spr round 9 (radius: 15) [12:57:56 -595601.947969] SLOW spr round 10 (radius: 20) [13:07:37 -595601.947969] SLOW spr round 11 (radius: 25) [13:19:29 -595601.947969] Model parameter optimization (eps = 0.100000) [13:19:44] ML tree search #9, logLikelihood: -595601.170011 [13:19:45 -1870127.148387] Initial branch length optimization [13:19:53 -1633183.402104] Model parameter optimization (eps = 10.000000) [13:20:37 -1629105.279600] AUTODETECT spr round 1 (radius: 5) [13:23:37 -1174300.124103] AUTODETECT spr round 2 (radius: 10) [14:03:21 -875767.783653] AUTODETECT spr round 3 (radius: 15) [14:13:11 -721799.041552] AUTODETECT spr round 4 (radius: 20) [14:17:24 -680269.925465] AUTODETECT spr round 5 (radius: 25) [14:22:33 -678011.549611] SPR radius for FAST iterations: 25 (autodetect) [14:22:33 -678011.549611] Model parameter optimization (eps = 3.000000) [14:22:47 -678006.738372] FAST spr round 1 (radius: 25) [14:26:47 -598620.202541] FAST spr round 2 (radius: 25) [14:29:52 -595907.428328] FAST spr round 3 (radius: 25) [14:32:26 -595735.809816] FAST spr round 4 (radius: 25) [14:34:50 -595720.797584] FAST spr round 5 (radius: 25) [15:13:56 -595718.321469] FAST spr round 6 (radius: 25) [15:52:26 -595718.321435] Model parameter optimization (eps = 1.000000) [15:55:11 -595694.678996] SLOW spr round 1 (radius: 5) [22:53:28 -595542.461968] SLOW spr round 2 (radius: 5) [22:59:15 -595537.640588] SLOW spr round 3 (radius: 5) [23:05:41 -595537.640571] SLOW spr round 4 (radius: 10) [23:12:21 -595537.640571] SLOW spr round 5 (radius: 15) [23:24:59 -595537.640571] SLOW spr round 6 (radius: 20) [23:49:52 -595537.640571] SLOW spr round 7 (radius: 25) [24:21:07 -595537.640571] Model parameter optimization (eps = 0.100000) [24:21:23] ML tree search #10, logLikelihood: -595537.560372 [24:21:24 -1858554.403205] Initial branch length optimization [24:21:57 -1625254.691510] Model parameter optimization (eps = 10.000000) [24:23:03 -1621288.202735] AUTODETECT spr round 1 (radius: 5) [24:33:11 -1141283.693913] AUTODETECT spr round 2 (radius: 10) [24:43:06 -877678.508571] AUTODETECT spr round 3 (radius: 15) [24:52:03 -778117.099921] AUTODETECT spr round 4 (radius: 20) [25:05:27 -744374.895541] AUTODETECT spr round 5 (radius: 25) [25:18:57 -708050.830618] SPR radius for FAST iterations: 25 (autodetect) [25:18:57 -708050.830618] Model parameter optimization (eps = 3.000000) [25:19:05 -708047.918506] FAST spr round 1 (radius: 25) [25:30:25 -599047.836680] FAST spr round 2 (radius: 25) [25:38:20 -595972.166743] FAST spr round 3 (radius: 25) [25:46:30 -595839.122343] FAST spr round 4 (radius: 25) [25:52:53 -595832.308687] FAST spr round 5 (radius: 25) [25:59:51 -595832.306041] Model parameter optimization (eps = 1.000000) [26:00:03 -595831.515917] SLOW spr round 1 (radius: 5) [26:09:49 -595632.159775] SLOW spr round 2 (radius: 5) [26:17:46 -595611.434650] SLOW spr round 3 (radius: 5) [26:25:08 -595605.928453] SLOW spr round 4 (radius: 5) [26:33:29 -595605.928404] SLOW spr round 5 (radius: 10) [26:42:52 -595605.928403] SLOW spr round 6 (radius: 15) [26:58:23 -595605.928403] SLOW spr round 7 (radius: 20) [27:23:44 -595605.928403] SLOW spr round 8 (radius: 25) [27:55:22 -595605.928403] Model parameter optimization (eps = 0.100000) [27:55:49] ML tree search #11, logLikelihood: -595537.440282 [27:55:50 -1851726.658320] Initial branch length optimization [27:56:30 -1625988.366314] Model parameter optimization (eps = 10.000000) [27:57:37 -1622303.452725] AUTODETECT spr round 1 (radius: 5) [28:05:21 -1166024.973822] AUTODETECT spr round 2 (radius: 10) [28:14:37 -929185.899533] AUTODETECT spr round 3 (radius: 15) [28:23:28 -755653.048931] AUTODETECT spr round 4 (radius: 20) [28:34:07 -693274.444315] AUTODETECT spr round 5 (radius: 25) [28:48:17 -678350.998738] SPR radius for FAST iterations: 25 (autodetect) [28:48:17 -678350.998738] Model parameter optimization (eps = 3.000000) [28:48:28 -678348.104318] FAST spr round 1 (radius: 25) [29:01:01 -599052.732316] FAST spr round 2 (radius: 25) [29:08:29 -595874.282327] FAST spr round 3 (radius: 25) [29:16:16 -595774.977297] FAST spr round 4 (radius: 25) [29:21:35 -595729.554505] FAST spr round 5 (radius: 25) [29:27:31 -595729.554182] Model parameter optimization (eps = 1.000000) [29:28:05 -595711.338325] SLOW spr round 1 (radius: 5) [29:36:29 -595580.971590] SLOW spr round 2 (radius: 5) [29:44:21 -595556.898941] SLOW spr round 3 (radius: 5) [29:50:44 -595543.795888] SLOW spr round 4 (radius: 5) [29:58:14 -595543.795797] SLOW spr round 5 (radius: 10) [30:07:47 -595540.896100] SLOW spr round 6 (radius: 5) [30:17:15 -595540.895977] SLOW spr round 7 (radius: 10) [30:28:02 -595540.895977] SLOW spr round 8 (radius: 15) [30:36:49 -595540.895977] SLOW spr round 9 (radius: 20) [33:24:33 -595540.895977] SLOW spr round 10 (radius: 25) [34:35:52 -595540.895977] Model parameter optimization (eps = 0.100000) [34:36:04] ML tree search #12, logLikelihood: -595540.579223 [34:36:05 -1865357.176882] Initial branch length optimization [34:36:15 -1638810.460509] Model parameter optimization (eps = 10.000000) [34:36:55 -1634542.223204] AUTODETECT spr round 1 (radius: 5) [35:29:37 -1151228.402435] AUTODETECT spr round 2 (radius: 10) [38:08:40 -853324.208052] AUTODETECT spr round 3 (radius: 15) [38:22:18 -713050.452655] AUTODETECT spr round 4 (radius: 20) [38:29:06 -668267.028414] AUTODETECT spr round 5 (radius: 25) [38:35:07 -666387.978845] SPR radius for FAST iterations: 25 (autodetect) [38:35:07 -666387.978845] Model parameter optimization (eps = 3.000000) [38:35:13 -666385.951008] FAST spr round 1 (radius: 25) [38:39:50 -597902.757867] FAST spr round 2 (radius: 25) [38:43:43 -595878.249700] FAST spr round 3 (radius: 25) [38:52:15 -595787.625659] FAST spr round 4 (radius: 25) [39:02:25 -595773.487724] FAST spr round 5 (radius: 25) [39:43:57 -595773.487631] Model parameter optimization (eps = 1.000000) [39:44:57 -595710.425085] SLOW spr round 1 (radius: 5) [39:48:31 -595610.778636] SLOW spr round 2 (radius: 5) [40:02:01 -595604.876784] SLOW spr round 3 (radius: 5) [40:04:57 -595604.876736] SLOW spr round 4 (radius: 10) [40:08:09 -595604.876735] SLOW spr round 5 (radius: 15) [40:14:07 -595604.876735] SLOW spr round 6 (radius: 20) [40:27:51 -595604.876735] SLOW spr round 7 (radius: 25) [40:40:09 -595604.876735] Model parameter optimization (eps = 0.100000) [40:40:26] ML tree search #13, logLikelihood: -595604.079583 [40:40:26 -1855517.110734] Initial branch length optimization [40:40:35 -1624995.833185] Model parameter optimization (eps = 10.000000) [40:41:21 -1620997.819299] AUTODETECT spr round 1 (radius: 5) [40:44:28 -1164133.823059] AUTODETECT spr round 2 (radius: 10) [40:47:50 -855801.324055] AUTODETECT spr round 3 (radius: 15) [40:51:28 -713043.413808] AUTODETECT spr round 4 (radius: 20) [40:55:39 -679643.374463] AUTODETECT spr round 5 (radius: 25) [41:01:05 -674260.190604] SPR radius for FAST iterations: 25 (autodetect) [41:01:05 -674260.190604] Model parameter optimization (eps = 3.000000) [41:01:27 -674173.312830] FAST spr round 1 (radius: 25) [41:05:33 -597728.773560] FAST spr round 2 (radius: 25) [41:08:33 -595952.853332] FAST spr round 3 (radius: 25) [41:11:13 -595764.451356] FAST spr round 4 (radius: 25) [41:13:36 -595722.620001] FAST spr round 5 (radius: 25) [41:15:45 -595722.619955] Model parameter optimization (eps = 1.000000) [41:16:03 -595718.214361] SLOW spr round 1 (radius: 5) [41:19:26 -595564.956641] SLOW spr round 2 (radius: 5) [41:22:29 -595546.510786] SLOW spr round 3 (radius: 5) [41:25:25 -595546.510760] SLOW spr round 4 (radius: 10) [41:28:38 -595543.254607] SLOW spr round 5 (radius: 5) [41:32:27 -595541.006600] SLOW spr round 6 (radius: 5) [41:35:48 -595538.516202] SLOW spr round 7 (radius: 5) [41:38:53 -595538.516113] SLOW spr round 8 (radius: 10) [41:42:07 -595538.516113] SLOW spr round 9 (radius: 15) [41:47:53 -595538.516113] SLOW spr round 10 (radius: 20) [41:57:35 -595538.516113] SLOW spr round 11 (radius: 25) [42:09:33 -595538.516113] Model parameter optimization (eps = 0.100000) [42:09:45] ML tree search #14, logLikelihood: -595538.259139 [42:09:45 -1847777.762073] Initial branch length optimization [42:09:55 -1621745.302229] Model parameter optimization (eps = 10.000000) [42:10:35 -1617860.060209] AUTODETECT spr round 1 (radius: 5) [42:13:42 -1149022.624536] AUTODETECT spr round 2 (radius: 10) [42:17:00 -893567.082495] AUTODETECT spr round 3 (radius: 15) [42:20:52 -732456.793099] AUTODETECT spr round 4 (radius: 20) [42:25:05 -694444.949494] AUTODETECT spr round 5 (radius: 25) [42:30:09 -690462.895010] SPR radius for FAST iterations: 25 (autodetect) [42:30:09 -690462.895010] Model parameter optimization (eps = 3.000000) [42:30:34 -690409.034525] FAST spr round 1 (radius: 25) [42:34:42 -598055.810268] FAST spr round 2 (radius: 25) [42:37:42 -595876.567475] FAST spr round 3 (radius: 25) [42:40:16 -595762.027376] FAST spr round 4 (radius: 25) [42:42:33 -595738.094188] FAST spr round 5 (radius: 25) [42:44:39 -595738.094126] Model parameter optimization (eps = 1.000000) [42:44:57 -595723.697011] SLOW spr round 1 (radius: 5) [42:48:16 -595588.420767] SLOW spr round 2 (radius: 5) [42:51:20 -595576.994950] SLOW spr round 3 (radius: 5) [42:54:18 -595568.131777] SLOW spr round 4 (radius: 5) [42:57:14 -595566.777861] SLOW spr round 5 (radius: 5) [43:00:09 -595566.777855] SLOW spr round 6 (radius: 10) [43:03:27 -595554.196551] SLOW spr round 7 (radius: 5) [43:07:22 -595553.406151] SLOW spr round 8 (radius: 5) [43:10:43 -595553.406134] SLOW spr round 9 (radius: 10) [43:14:10 -595552.836458] SLOW spr round 10 (radius: 5) [43:18:06 -595545.431855] SLOW spr round 11 (radius: 5) [43:21:27 -595545.431838] SLOW spr round 12 (radius: 10) [43:24:48 -595545.431838] SLOW spr round 13 (radius: 15) [43:30:31 -595545.431838] SLOW spr round 14 (radius: 20) [43:40:28 -595545.431838] SLOW spr round 15 (radius: 25) [43:51:43 -595545.431838] Model parameter optimization (eps = 0.100000) [43:51:55] ML tree search #15, logLikelihood: -595545.191855 [43:51:55 -1857615.810485] Initial branch length optimization [43:52:03 -1628999.626282] Model parameter optimization (eps = 10.000000) [43:52:41 -1624929.356313] AUTODETECT spr round 1 (radius: 5) [43:55:49 -1155658.985946] AUTODETECT spr round 2 (radius: 10) [43:59:12 -846344.516559] AUTODETECT spr round 3 (radius: 15) [44:02:52 -710099.123774] AUTODETECT spr round 4 (radius: 20) [44:07:39 -674315.250347] AUTODETECT spr round 5 (radius: 25) [44:13:08 -668254.440218] SPR radius for FAST iterations: 25 (autodetect) [44:13:08 -668254.440218] Model parameter optimization (eps = 3.000000) [44:13:29 -668153.377485] FAST spr round 1 (radius: 25) [44:17:33 -598020.778609] FAST spr round 2 (radius: 25) [44:20:35 -595909.816258] FAST spr round 3 (radius: 25) [44:23:10 -595814.507564] FAST spr round 4 (radius: 25) [44:25:24 -595786.106954] FAST spr round 5 (radius: 25) [44:27:36 -595768.541904] FAST spr round 6 (radius: 25) [44:29:46 -595768.541875] Model parameter optimization (eps = 1.000000) [44:30:03 -595761.781535] SLOW spr round 1 (radius: 5) [44:33:20 -595590.656718] SLOW spr round 2 (radius: 5) [44:36:28 -595564.376639] SLOW spr round 3 (radius: 5) [44:39:24 -595554.187460] SLOW spr round 4 (radius: 5) [44:42:16 -595554.187455] SLOW spr round 5 (radius: 10) [44:45:25 -595554.187455] SLOW spr round 6 (radius: 15) [44:51:01 -595554.187455] SLOW spr round 7 (radius: 20) [45:00:36 -595554.187455] SLOW spr round 8 (radius: 25) [45:12:19 -595554.187455] Model parameter optimization (eps = 0.100000) [45:12:30] ML tree search #16, logLikelihood: -595554.043306 [45:12:30 -1858390.388443] Initial branch length optimization [45:12:39 -1630627.486329] Model parameter optimization (eps = 10.000000) [45:13:34 -1626593.565625] AUTODETECT spr round 1 (radius: 5) [45:16:44 -1152902.673832] AUTODETECT spr round 2 (radius: 10) [45:20:00 -897254.641576] AUTODETECT spr round 3 (radius: 15) [45:23:36 -747586.417133] AUTODETECT spr round 4 (radius: 20) [45:27:38 -694787.817801] AUTODETECT spr round 5 (radius: 25) [45:32:33 -691641.967631] SPR radius for FAST iterations: 25 (autodetect) [45:32:33 -691641.967631] Model parameter optimization (eps = 3.000000) [45:32:43 -691638.213566] FAST spr round 1 (radius: 25) [45:36:45 -599024.128692] FAST spr round 2 (radius: 25) [45:39:49 -595902.735215] FAST spr round 3 (radius: 25) [45:42:26 -595808.841407] FAST spr round 4 (radius: 25) [45:44:45 -595782.707252] FAST spr round 5 (radius: 25) [45:46:58 -595770.928877] FAST spr round 6 (radius: 25) [45:49:08 -595767.969363] FAST spr round 7 (radius: 25) [45:51:16 -595767.969298] Model parameter optimization (eps = 1.000000) [45:51:35 -595740.648510] SLOW spr round 1 (radius: 5) [45:55:00 -595588.536926] SLOW spr round 2 (radius: 5) [45:58:18 -595550.096596] SLOW spr round 3 (radius: 5) [46:01:17 -595549.384708] SLOW spr round 4 (radius: 5) [46:04:15 -595549.384706] SLOW spr round 5 (radius: 10) [46:07:38 -595547.299987] SLOW spr round 6 (radius: 5) [46:11:29 -595547.299910] SLOW spr round 7 (radius: 10) [46:15:04 -595547.299909] SLOW spr round 8 (radius: 15) [46:20:23 -595547.299909] SLOW spr round 9 (radius: 20) [46:30:38 -595547.299909] SLOW spr round 10 (radius: 25) [46:42:45 -595547.299909] Model parameter optimization (eps = 0.100000) [46:42:59] ML tree search #17, logLikelihood: -595546.186837 [46:42:59 -1852114.464231] Initial branch length optimization [46:43:08 -1627117.956447] Model parameter optimization (eps = 10.000000) [46:43:51 -1623266.218482] AUTODETECT spr round 1 (radius: 5) [46:46:55 -1166661.099616] AUTODETECT spr round 2 (radius: 10) [46:50:13 -874094.022698] AUTODETECT spr round 3 (radius: 15) [46:53:44 -789985.123057] AUTODETECT spr round 4 (radius: 20) [46:57:59 -722183.932822] AUTODETECT spr round 5 (radius: 25) [47:02:44 -698293.328734] SPR radius for FAST iterations: 25 (autodetect) [47:02:44 -698293.328734] Model parameter optimization (eps = 3.000000) [47:03:06 -698249.251274] FAST spr round 1 (radius: 25) [47:07:15 -598771.026240] FAST spr round 2 (radius: 25) [47:10:20 -595915.042525] FAST spr round 3 (radius: 25) [47:13:00 -595708.255924] FAST spr round 4 (radius: 25) [47:15:13 -595704.431282] FAST spr round 5 (radius: 25) [47:17:22 -595704.431266] Model parameter optimization (eps = 1.000000) [47:17:39 -595698.357804] SLOW spr round 1 (radius: 5) [47:21:06 -595559.822803] SLOW spr round 2 (radius: 5) [47:24:13 -595546.609233] SLOW spr round 3 (radius: 5) [47:27:11 -595546.609231] SLOW spr round 4 (radius: 10) [47:30:25 -595543.110358] SLOW spr round 5 (radius: 5) [47:34:24 -595543.110065] SLOW spr round 6 (radius: 10) [47:38:06 -595543.110064] SLOW spr round 7 (radius: 15) [47:43:37 -595543.110064] SLOW spr round 8 (radius: 20) [47:53:39 -595543.110064] SLOW spr round 9 (radius: 25) [48:06:40 -595543.110064] Model parameter optimization (eps = 0.100000) [48:06:46] ML tree search #18, logLikelihood: -595543.056179 [48:06:47 -1865333.914939] Initial branch length optimization [48:06:53 -1635600.285979] Model parameter optimization (eps = 10.000000) [48:07:33 -1631482.482013] AUTODETECT spr round 1 (radius: 5) [48:10:42 -1135250.006766] AUTODETECT spr round 2 (radius: 10) [48:14:09 -887134.450505] AUTODETECT spr round 3 (radius: 15) [48:17:58 -701843.847287] AUTODETECT spr round 4 (radius: 20) [48:22:07 -680771.263425] AUTODETECT spr round 5 (radius: 25) [48:27:20 -676575.672174] SPR radius for FAST iterations: 25 (autodetect) [48:27:20 -676575.672174] Model parameter optimization (eps = 3.000000) [48:27:27 -676572.808594] FAST spr round 1 (radius: 25) [48:31:29 -597897.224782] FAST spr round 2 (radius: 25) [48:34:35 -595935.131143] FAST spr round 3 (radius: 25) [48:37:22 -595769.643678] FAST spr round 4 (radius: 25) [48:39:38 -595758.041298] FAST spr round 5 (radius: 25) [48:41:47 -595758.041272] Model parameter optimization (eps = 1.000000) [48:41:56 -595757.049983] SLOW spr round 1 (radius: 5) [48:45:26 -595640.340874] SLOW spr round 2 (radius: 5) [48:48:30 -595633.481599] SLOW spr round 3 (radius: 5) [48:51:25 -595633.481137] SLOW spr round 4 (radius: 10) [48:54:38 -595625.427067] SLOW spr round 5 (radius: 5) [48:58:27 -595625.427016] SLOW spr round 6 (radius: 10) [49:02:03 -595625.427016] SLOW spr round 7 (radius: 15) [49:07:18 -595625.427016] SLOW spr round 8 (radius: 20) [49:17:05 -595625.427016] SLOW spr round 9 (radius: 25) [49:31:02 -595625.427016] Model parameter optimization (eps = 0.100000) [49:31:08] ML tree search #19, logLikelihood: -595625.387174 [49:31:08 -1857757.634731] Initial branch length optimization [49:31:15 -1631444.147171] Model parameter optimization (eps = 10.000000) [49:33:02 -1626960.123520] AUTODETECT spr round 1 (radius: 5) [49:39:13 -1147936.158521] AUTODETECT spr round 2 (radius: 10) [49:45:38 -876299.403723] AUTODETECT spr round 3 (radius: 15) [49:52:40 -769515.730769] AUTODETECT spr round 4 (radius: 20) [50:00:55 -716260.400023] AUTODETECT spr round 5 (radius: 25) [50:09:29 -695535.149300] SPR radius for FAST iterations: 25 (autodetect) [50:09:29 -695535.149300] Model parameter optimization (eps = 3.000000) [50:09:40 -695532.023705] FAST spr round 1 (radius: 25) [50:17:22 -600843.368892] FAST spr round 2 (radius: 25) [50:20:29 -595983.660530] FAST spr round 3 (radius: 25) [50:23:07 -595808.543925] FAST spr round 4 (radius: 25) [50:25:24 -595796.977251] FAST spr round 5 (radius: 25) [50:27:30 -595796.977251] Model parameter optimization (eps = 1.000000) [50:27:55 -595751.085347] SLOW spr round 1 (radius: 5) [50:31:17 -595561.972968] SLOW spr round 2 (radius: 5) [50:34:25 -595547.490890] SLOW spr round 3 (radius: 5) [50:37:27 -595544.466854] SLOW spr round 4 (radius: 5) [50:40:24 -595541.921684] SLOW spr round 5 (radius: 5) [54:33:40 -595541.921567] SLOW spr round 6 (radius: 10) [78:48:44 -595538.529760] SLOW spr round 7 (radius: 5) [99:54:08 -595538.529619] SLOW spr round 8 (radius: 10) [105:54:21 -595538.529618] SLOW spr round 9 (radius: 15) [106:19:09 -595538.529618] SLOW spr round 10 (radius: 20) [107:04:03 -595538.529618] SLOW spr round 11 (radius: 25) [107:46:29 -595538.529618] Model parameter optimization (eps = 0.100000) [107:46:47] ML tree search #20, logLikelihood: -595538.235351 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.210028,0.222249) (0.246991,0.383346) (0.251975,0.961357) (0.291006,2.118170) 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: -595519.677100 AIC score: 1195049.354201 / AICc score: 9239109.354201 / BIC score: 1205467.208340 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=1334). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 32 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880.raxml.bestTreeCollapsed Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880.raxml.bestTree All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880.raxml.mlTrees Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880.raxml.bestModel Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q02880/3_mltree/Q02880.raxml.log Analysis started: 05-Jul-2021 03:17:55 / finished: 09-Jul-2021 15:04:43 Elapsed time: 388007.433 seconds