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 07-Jul-2021 13:11:00 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/2_msa/Q9NUT2_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/3_mltree/Q9NUT2 --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/Q9NUT2/2_msa/Q9NUT2_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 1570 sites

WARNING: Sequences tr_J3KLC8_J3KLC8_COCIM_246410 and tr_A0A0J6YQI9_A0A0J6YQI9_COCIT_404692 are exactly identical!
WARNING: Sequences tr_H2Q751_H2Q751_PANTR_9598 and sp_Q9NP78_ABCB9_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_H2Q751_H2Q751_PANTR_9598 and tr_A0A2R9CJZ3_A0A2R9CJZ3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F9F932_F9F932_FUSOF_660025 and tr_N4TUX9_N4TUX9_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9F932_F9F932_FUSOF_660025 and tr_X0CAT2_X0CAT2_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9F932_F9F932_FUSOF_660025 and tr_A0A2H3SXP6_A0A2H3SXP6_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_A2QJH1_A2QJH1_ASPNC_425011 and tr_G3Y9P6_G3Y9P6_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_G7XXM7_G7XXM7_ASPKW_1033177 and tr_A0A146FJZ8_A0A146FJZ8_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_B8AK86_B8AK86_ORYSI_39946 and sp_Q9FNU2_AB25B_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_F2SVA7_F2SVA7_TRIRC_559305 and tr_A0A178F6E0_A0A178F6E0_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_G7P213_G7P213_MACFA_9541 and tr_A0A2K6DYQ7_A0A2K6DYQ7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G8F535_G8F535_MACFA_9541 and tr_A0A096N2X5_A0A096N2X5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G8F535_G8F535_MACFA_9541 and tr_A0A2K6CNU3_A0A2K6CNU3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_W2Q091_W2Q091_PHYPN_761204 and tr_W2KW73_W2KW73_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_A0A015K5B3_A0A015K5B3_9GLOM_1432141 and tr_U9T5A5_U9T5A5_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A078HJ41_A0A078HJ41_BRANA_3708 and tr_A0A0D3BZR8_A0A0D3BZR8_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A100IBI3_A0A100IBI3_ASPNG_5061 and tr_A0A1L9MVB1_A0A1L9MVB1_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_A0A1S3XMB9_A0A1S3XMB9_TOBAC_4097 and tr_A0A1U7VW50_A0A1U7VW50_NICSY_4096 are exactly identical!
WARNING: Duplicate sequences found: 18

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/Q9NUT2/3_mltree/Q9NUT2.raxml.reduced.phy

Alignment comprises 1 partitions and 1569 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 1570 / 1569
Gaps: 53.84 %
Invariant sites: 0.96 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/3_mltree/Q9NUT2.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 / 197 / 15760
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -1452199.553731] Initial branch length optimization
[00:00:07 -1242804.218582] Model parameter optimization (eps = 10.000000)
[00:01:12 -1241214.941135] AUTODETECT spr round 1 (radius: 5)
[00:04:34 -913225.971717] AUTODETECT spr round 2 (radius: 10)
[00:08:21 -654410.265918] AUTODETECT spr round 3 (radius: 15)
[00:12:08 -574520.288000] AUTODETECT spr round 4 (radius: 20)
[00:16:54 -537596.624193] AUTODETECT spr round 5 (radius: 25)
[00:22:20 -533911.784227] SPR radius for FAST iterations: 25 (autodetect)
[00:22:20 -533911.784227] Model parameter optimization (eps = 3.000000)
[00:23:04 -532888.161656] FAST spr round 1 (radius: 25)
[00:27:37 -481454.812086] FAST spr round 2 (radius: 25)
[00:30:54 -479799.109685] FAST spr round 3 (radius: 25)
[00:33:43 -479582.930278] FAST spr round 4 (radius: 25)
[00:36:19 -479536.007062] FAST spr round 5 (radius: 25)
[00:38:37 -479527.443298] FAST spr round 6 (radius: 25)
[00:40:49 -479527.443298] Model parameter optimization (eps = 1.000000)
[00:41:08 -479519.618440] SLOW spr round 1 (radius: 5)
[00:44:37 -479417.569483] SLOW spr round 2 (radius: 5)
[00:47:48 -479404.331340] SLOW spr round 3 (radius: 5)
[00:50:53 -479400.536478] SLOW spr round 4 (radius: 5)
[00:53:52 -479400.536451] SLOW spr round 5 (radius: 10)
[00:56:56 -479400.536451] SLOW spr round 6 (radius: 15)
[01:02:28 -479400.536450] SLOW spr round 7 (radius: 20)
[01:09:39 -479400.536450] SLOW spr round 8 (radius: 25)
[01:19:08 -479400.536450] Model parameter optimization (eps = 0.100000)

[01:19:19] ML tree search #1, logLikelihood: -479400.133621

[01:19:19 -1455877.629407] Initial branch length optimization
[01:19:25 -1243154.682493] Model parameter optimization (eps = 10.000000)
[01:20:12 -1241993.342714] AUTODETECT spr round 1 (radius: 5)
[01:23:30 -915337.701428] AUTODETECT spr round 2 (radius: 10)
[01:27:15 -659765.612805] AUTODETECT spr round 3 (radius: 15)
[01:31:05 -572202.098053] AUTODETECT spr round 4 (radius: 20)
[01:36:00 -533557.536150] AUTODETECT spr round 5 (radius: 25)
[01:41:20 -530273.038616] SPR radius for FAST iterations: 25 (autodetect)
[01:41:20 -530273.038616] Model parameter optimization (eps = 3.000000)
[01:41:48 -529522.272817] FAST spr round 1 (radius: 25)
[01:46:14 -481415.777084] FAST spr round 2 (radius: 25)
[01:49:13 -479620.329826] FAST spr round 3 (radius: 25)
[01:51:49 -479523.380519] FAST spr round 4 (radius: 25)
[01:54:01 -479518.099407] FAST spr round 5 (radius: 25)
[01:56:07 -479518.099382] Model parameter optimization (eps = 1.000000)
[01:56:29 -479498.576486] SLOW spr round 1 (radius: 5)
[01:59:46 -479396.138060] SLOW spr round 2 (radius: 5)
[02:02:52 -479391.685695] SLOW spr round 3 (radius: 5)
[02:05:51 -479390.515027] SLOW spr round 4 (radius: 5)
[02:08:46 -479390.514994] SLOW spr round 5 (radius: 10)
[02:11:42 -479390.514984] SLOW spr round 6 (radius: 15)
[02:17:08 -479390.514978] SLOW spr round 7 (radius: 20)
[02:24:23 -479390.514975] SLOW spr round 8 (radius: 25)
[02:34:00 -479390.514972] Model parameter optimization (eps = 0.100000)

[02:34:11] ML tree search #2, logLikelihood: -479390.320055

[02:34:11 -1458666.621503] Initial branch length optimization
[02:34:17 -1246089.844350] Model parameter optimization (eps = 10.000000)
[02:35:42 -1244464.668922] AUTODETECT spr round 1 (radius: 5)
[02:39:00 -916324.587470] AUTODETECT spr round 2 (radius: 10)
[02:42:56 -666330.794715] AUTODETECT spr round 3 (radius: 15)
[02:46:50 -556717.623737] AUTODETECT spr round 4 (radius: 20)
[02:52:00 -531552.655392] AUTODETECT spr round 5 (radius: 25)
[02:58:35 -530774.731906] SPR radius for FAST iterations: 25 (autodetect)
[02:58:35 -530774.731906] Model parameter optimization (eps = 3.000000)
[02:59:05 -529491.695838] FAST spr round 1 (radius: 25)
[03:03:33 -481490.022491] FAST spr round 2 (radius: 25)
[03:06:52 -479770.519295] FAST spr round 3 (radius: 25)
[03:09:34 -479589.700085] FAST spr round 4 (radius: 25)
[03:11:54 -479556.527492] FAST spr round 5 (radius: 25)
[03:14:06 -479556.527448] Model parameter optimization (eps = 1.000000)
[03:14:29 -479533.455728] SLOW spr round 1 (radius: 5)
[03:18:03 -479412.670600] SLOW spr round 2 (radius: 5)
[03:21:14 -479399.388608] SLOW spr round 3 (radius: 5)
[03:24:10 -479399.180393] SLOW spr round 4 (radius: 5)
[03:27:03 -479399.180372] SLOW spr round 5 (radius: 10)
[03:30:02 -479399.180372] SLOW spr round 6 (radius: 15)
[03:35:28 -479399.180372] SLOW spr round 7 (radius: 20)
[03:42:42 -479399.180371] SLOW spr round 8 (radius: 25)
[03:52:15 -479399.180371] Model parameter optimization (eps = 0.100000)

[03:52:34] ML tree search #3, logLikelihood: -479398.546414

[03:52:34 -1453285.432615] Initial branch length optimization
[03:52:40 -1243986.534895] Model parameter optimization (eps = 10.000000)
[03:54:01 -1242574.330609] AUTODETECT spr round 1 (radius: 5)
[03:57:17 -920444.787392] AUTODETECT spr round 2 (radius: 10)
[04:01:02 -689155.463912] AUTODETECT spr round 3 (radius: 15)
[04:04:56 -572041.575806] AUTODETECT spr round 4 (radius: 20)
[04:09:50 -543112.840615] AUTODETECT spr round 5 (radius: 25)
[04:15:11 -539037.499521] SPR radius for FAST iterations: 25 (autodetect)
[04:15:11 -539037.499521] Model parameter optimization (eps = 3.000000)
[04:15:47 -537827.338717] FAST spr round 1 (radius: 25)
[04:20:26 -482257.939539] FAST spr round 2 (radius: 25)
[04:23:36 -479700.695110] FAST spr round 3 (radius: 25)
[04:26:20 -479529.937965] FAST spr round 4 (radius: 25)
[04:28:39 -479520.629075] FAST spr round 5 (radius: 25)
[04:30:50 -479513.305890] FAST spr round 6 (radius: 25)
[04:33:04 -479497.593551] FAST spr round 7 (radius: 25)
[04:35:07 -479497.593492] Model parameter optimization (eps = 1.000000)
[04:35:24 -479493.738655] SLOW spr round 1 (radius: 5)
[04:38:48 -479408.379778] SLOW spr round 2 (radius: 5)
[04:41:51 -479401.169767] SLOW spr round 3 (radius: 5)
[04:44:47 -479401.169581] SLOW spr round 4 (radius: 10)
[04:47:44 -479397.895236] SLOW spr round 5 (radius: 5)
[04:51:33 -479397.895195] SLOW spr round 6 (radius: 10)
[04:54:52 -479397.895192] SLOW spr round 7 (radius: 15)
[04:59:44 -479397.895190] SLOW spr round 8 (radius: 20)
[05:07:09 -479397.895189] SLOW spr round 9 (radius: 25)
[05:16:34 -479397.895189] Model parameter optimization (eps = 0.100000)

[05:16:52] ML tree search #4, logLikelihood: -479397.417202

[05:16:52 -1462125.294404] Initial branch length optimization
[05:16:59 -1248010.052774] Model parameter optimization (eps = 10.000000)
[05:17:49 -1246444.042426] AUTODETECT spr round 1 (radius: 5)
[05:21:07 -923084.337754] AUTODETECT spr round 2 (radius: 10)
[05:24:56 -661114.268187] AUTODETECT spr round 3 (radius: 15)
[05:28:51 -569146.993606] AUTODETECT spr round 4 (radius: 20)
[05:33:27 -537311.762421] AUTODETECT spr round 5 (radius: 25)
[05:38:37 -530986.044668] SPR radius for FAST iterations: 25 (autodetect)
[05:38:37 -530986.044668] Model parameter optimization (eps = 3.000000)
[05:39:14 -529720.281169] FAST spr round 1 (radius: 25)
[05:43:51 -481197.013958] FAST spr round 2 (radius: 25)
[05:47:04 -479651.280152] FAST spr round 3 (radius: 25)
[05:49:51 -479538.009785] FAST spr round 4 (radius: 25)
[05:52:07 -479523.324619] FAST spr round 5 (radius: 25)
[05:54:18 -479512.969889] FAST spr round 6 (radius: 25)
[05:56:22 -479512.969850] Model parameter optimization (eps = 1.000000)
[05:56:44 -479504.057865] SLOW spr round 1 (radius: 5)
[06:00:07 -479403.127197] SLOW spr round 2 (radius: 5)
[06:03:10 -479401.201434] SLOW spr round 3 (radius: 5)
[06:06:06 -479401.201291] SLOW spr round 4 (radius: 10)
[06:09:05 -479395.154532] SLOW spr round 5 (radius: 5)
[06:12:57 -479390.510057] SLOW spr round 6 (radius: 5)
[06:16:14 -479390.509758] SLOW spr round 7 (radius: 10)
[06:19:18 -479390.509753] SLOW spr round 8 (radius: 15)
[06:24:27 -479390.509751] SLOW spr round 9 (radius: 20)
[06:31:46 -479390.509749] SLOW spr round 10 (radius: 25)
[06:41:21 -479390.509748] Model parameter optimization (eps = 0.100000)

[06:41:28] ML tree search #5, logLikelihood: -479390.410488

[06:41:28 -1459626.467818] Initial branch length optimization
[06:41:33 -1246461.010043] Model parameter optimization (eps = 10.000000)
[06:42:36 -1244706.643649] AUTODETECT spr round 1 (radius: 5)
[06:45:55 -915197.969092] AUTODETECT spr round 2 (radius: 10)
[06:49:46 -661428.455473] AUTODETECT spr round 3 (radius: 15)
[06:53:49 -568406.803146] AUTODETECT spr round 4 (radius: 20)
[06:59:28 -538859.499187] AUTODETECT spr round 5 (radius: 25)
[07:05:48 -536571.221380] SPR radius for FAST iterations: 25 (autodetect)
[07:05:48 -536571.221380] Model parameter optimization (eps = 3.000000)
[07:06:23 -535083.005622] FAST spr round 1 (radius: 25)
[07:10:55 -481253.423482] FAST spr round 2 (radius: 25)
[07:14:12 -479657.128044] FAST spr round 3 (radius: 25)
[07:16:52 -479554.833284] FAST spr round 4 (radius: 25)
[07:19:05 -479550.490180] FAST spr round 5 (radius: 25)
[07:21:12 -479550.189758] FAST spr round 6 (radius: 25)
[07:23:16 -479550.189693] Model parameter optimization (eps = 1.000000)
[07:23:35 -479549.084722] SLOW spr round 1 (radius: 5)
[07:26:51 -479399.547299] SLOW spr round 2 (radius: 5)
[07:29:58 -479390.946277] SLOW spr round 3 (radius: 5)
[07:32:55 -479390.772699] SLOW spr round 4 (radius: 5)
[07:35:49 -479390.772599] SLOW spr round 5 (radius: 10)
[07:38:47 -479388.832266] SLOW spr round 6 (radius: 5)
[07:42:37 -479388.832186] SLOW spr round 7 (radius: 10)
[07:45:59 -479388.832179] SLOW spr round 8 (radius: 15)
[07:50:57 -479388.832175] SLOW spr round 9 (radius: 20)
[07:58:29 -479388.832171] SLOW spr round 10 (radius: 25)
[08:07:59 -479388.832169] Model parameter optimization (eps = 0.100000)

[08:08:15] ML tree search #6, logLikelihood: -479388.723469

[08:08:15 -1448484.612954] Initial branch length optimization
[08:08:21 -1243257.986234] Model parameter optimization (eps = 10.000000)
[08:09:12 -1242059.997047] AUTODETECT spr round 1 (radius: 5)
[08:12:28 -923224.137659] AUTODETECT spr round 2 (radius: 10)
[08:16:11 -700595.904592] AUTODETECT spr round 3 (radius: 15)
[08:20:05 -588612.255059] AUTODETECT spr round 4 (radius: 20)
[08:24:39 -554108.692104] AUTODETECT spr round 5 (radius: 25)
[08:30:11 -539577.078280] SPR radius for FAST iterations: 25 (autodetect)
[08:30:11 -539577.078280] Model parameter optimization (eps = 3.000000)
[08:30:39 -538992.880899] FAST spr round 1 (radius: 25)
[08:35:16 -481435.025686] FAST spr round 2 (radius: 25)
[08:38:29 -479666.906156] FAST spr round 3 (radius: 25)
[08:41:11 -479521.775382] FAST spr round 4 (radius: 25)
[08:43:26 -479510.330331] FAST spr round 5 (radius: 25)
[08:45:33 -479510.329611] Model parameter optimization (eps = 1.000000)
[08:45:54 -479507.970975] SLOW spr round 1 (radius: 5)
[08:49:22 -479418.144504] SLOW spr round 2 (radius: 5)
[08:52:29 -479409.499693] SLOW spr round 3 (radius: 5)
[08:55:29 -479407.709736] SLOW spr round 4 (radius: 5)
[08:58:24 -479407.709712] SLOW spr round 5 (radius: 10)
[09:01:22 -479407.709704] SLOW spr round 6 (radius: 15)
[09:06:49 -479407.709699] SLOW spr round 7 (radius: 20)
[09:14:00 -479407.709696] SLOW spr round 8 (radius: 25)
[09:23:30 -479407.709695] Model parameter optimization (eps = 0.100000)

[09:23:45] ML tree search #7, logLikelihood: -479407.249271

[09:23:45 -1447744.916471] Initial branch length optimization
[09:23:51 -1239482.145190] Model parameter optimization (eps = 10.000000)
[09:24:49 -1238179.664746] AUTODETECT spr round 1 (radius: 5)
[09:28:09 -918471.705559] AUTODETECT spr round 2 (radius: 10)
[09:31:45 -677672.188305] AUTODETECT spr round 3 (radius: 15)
[09:35:33 -578845.398477] AUTODETECT spr round 4 (radius: 20)
[09:40:06 -547789.042827] AUTODETECT spr round 5 (radius: 25)
[09:45:38 -544104.108107] SPR radius for FAST iterations: 25 (autodetect)
[09:45:38 -544104.108107] Model parameter optimization (eps = 3.000000)
[09:46:07 -543035.473475] FAST spr round 1 (radius: 25)
[09:51:09 -482358.161812] FAST spr round 2 (radius: 25)
[09:54:23 -479857.736564] FAST spr round 3 (radius: 25)
[09:57:02 -479591.591285] FAST spr round 4 (radius: 25)
[09:59:18 -479556.639074] FAST spr round 5 (radius: 25)
[10:01:26 -479551.179409] FAST spr round 6 (radius: 25)
[10:03:30 -479551.179004] Model parameter optimization (eps = 1.000000)
[10:04:02 -479528.690929] SLOW spr round 1 (radius: 5)
[10:07:22 -479400.005652] SLOW spr round 2 (radius: 5)
[10:10:28 -479396.511341] SLOW spr round 3 (radius: 5)
[10:13:26 -479395.907959] SLOW spr round 4 (radius: 5)
[10:16:20 -479395.907916] SLOW spr round 5 (radius: 10)
[10:19:20 -479394.459835] SLOW spr round 6 (radius: 5)
[10:23:10 -479394.459621] SLOW spr round 7 (radius: 10)
[10:26:32 -479394.459619] SLOW spr round 8 (radius: 15)
[10:31:30 -479394.459618] SLOW spr round 9 (radius: 20)
[10:38:56 -479394.459617] SLOW spr round 10 (radius: 25)
[10:48:26 -479394.459616] Model parameter optimization (eps = 0.100000)

[10:48:41] ML tree search #8, logLikelihood: -479393.766335

[10:48:41 -1449031.407388] Initial branch length optimization
[10:48:47 -1238566.237172] Model parameter optimization (eps = 10.000000)
[10:49:45 -1237198.601679] AUTODETECT spr round 1 (radius: 5)
[10:53:02 -917650.204809] AUTODETECT spr round 2 (radius: 10)
[10:56:45 -688554.157343] AUTODETECT spr round 3 (radius: 15)
[11:00:43 -576344.438599] AUTODETECT spr round 4 (radius: 20)
[11:05:26 -545209.772809] AUTODETECT spr round 5 (radius: 25)
[11:10:17 -540025.441995] SPR radius for FAST iterations: 25 (autodetect)
[11:10:17 -540025.441995] Model parameter optimization (eps = 3.000000)
[11:10:52 -538872.424517] FAST spr round 1 (radius: 25)
[11:15:30 -481287.817886] FAST spr round 2 (radius: 25)
[11:18:49 -479662.398329] FAST spr round 3 (radius: 25)
[11:21:37 -479548.783903] FAST spr round 4 (radius: 25)
[11:23:51 -479545.511850] FAST spr round 5 (radius: 25)
[11:25:59 -479545.244897] FAST spr round 6 (radius: 25)
[11:28:03 -479545.244895] Model parameter optimization (eps = 1.000000)
[11:28:23 -479542.543862] SLOW spr round 1 (radius: 5)
[11:31:47 -479403.969866] SLOW spr round 2 (radius: 5)
[11:34:55 -479394.669926] SLOW spr round 3 (radius: 5)
[11:37:53 -479394.669743] SLOW spr round 4 (radius: 10)
[11:40:53 -479392.724959] SLOW spr round 5 (radius: 5)
[11:44:45 -479392.724856] SLOW spr round 6 (radius: 10)
[11:48:08 -479392.724841] SLOW spr round 7 (radius: 15)
[11:53:06 -479392.724832] SLOW spr round 8 (radius: 20)
[12:00:40 -479392.724827] SLOW spr round 9 (radius: 25)
[12:10:18 -479392.724824] Model parameter optimization (eps = 0.100000)

[12:10:32] ML tree search #9, logLikelihood: -479392.506995

[12:10:32 -1449379.837759] Initial branch length optimization
[12:10:38 -1245783.978461] Model parameter optimization (eps = 10.000000)
[12:11:44 -1244554.826619] AUTODETECT spr round 1 (radius: 5)
[12:15:00 -925578.389347] AUTODETECT spr round 2 (radius: 10)
[12:18:45 -681378.428442] AUTODETECT spr round 3 (radius: 15)
[12:22:47 -572089.062493] AUTODETECT spr round 4 (radius: 20)
[12:28:39 -549770.472431] AUTODETECT spr round 5 (radius: 25)
[12:35:09 -544390.768236] SPR radius for FAST iterations: 25 (autodetect)
[12:35:09 -544390.768236] Model parameter optimization (eps = 3.000000)
[12:35:48 -543522.055384] FAST spr round 1 (radius: 25)
[12:40:32 -482300.588374] FAST spr round 2 (radius: 25)
[12:43:32 -479928.305708] FAST spr round 3 (radius: 25)
[12:46:06 -479543.060758] FAST spr round 4 (radius: 25)
[12:48:20 -479533.544934] FAST spr round 5 (radius: 25)
[12:50:26 -479533.544840] Model parameter optimization (eps = 1.000000)
[12:50:43 -479528.948278] SLOW spr round 1 (radius: 5)
[12:54:06 -479397.669575] SLOW spr round 2 (radius: 5)
[12:57:11 -479380.097101] SLOW spr round 3 (radius: 5)
[13:00:06 -479380.096816] SLOW spr round 4 (radius: 10)
[13:03:04 -479376.967865] SLOW spr round 5 (radius: 5)
[13:06:53 -479375.300799] SLOW spr round 6 (radius: 5)
[13:10:11 -479375.300743] SLOW spr round 7 (radius: 10)
[13:13:14 -479375.300743] SLOW spr round 8 (radius: 15)
[13:18:26 -479375.300743] SLOW spr round 9 (radius: 20)
[13:25:40 -479375.300743] SLOW spr round 10 (radius: 25)
[13:35:00 -479375.300743] Model parameter optimization (eps = 0.100000)

[13:35:11] ML tree search #10, logLikelihood: -479375.141683

[13:35:11 -1444532.046498] Initial branch length optimization
[13:35:18 -1240663.081105] Model parameter optimization (eps = 10.000000)
[13:36:33 -1239161.349364] AUTODETECT spr round 1 (radius: 5)
[13:39:50 -925401.303562] AUTODETECT spr round 2 (radius: 10)
[13:43:27 -703552.860747] AUTODETECT spr round 3 (radius: 15)
[13:47:41 -587674.828368] AUTODETECT spr round 4 (radius: 20)
[13:51:56 -552926.606114] AUTODETECT spr round 5 (radius: 25)
[13:57:23 -547081.353809] SPR radius for FAST iterations: 25 (autodetect)
[13:57:23 -547081.353809] Model parameter optimization (eps = 3.000000)
[13:57:45 -546985.796173] FAST spr round 1 (radius: 25)
[14:02:09 -482013.355699] FAST spr round 2 (radius: 25)
[14:05:16 -480323.256279] FAST spr round 3 (radius: 25)
[14:07:55 -480101.861736] FAST spr round 4 (radius: 25)
[14:10:11 -480073.816316] FAST spr round 5 (radius: 25)
[14:12:17 -480070.332471] FAST spr round 6 (radius: 25)
[14:14:20 -480070.332463] Model parameter optimization (eps = 1.000000)
[14:14:48 -479525.614443] SLOW spr round 1 (radius: 5)
[14:18:10 -479417.931230] SLOW spr round 2 (radius: 5)
[14:21:19 -479398.927527] SLOW spr round 3 (radius: 5)
[14:24:19 -479391.827827] SLOW spr round 4 (radius: 5)
[14:27:14 -479391.827684] SLOW spr round 5 (radius: 10)
[14:30:11 -479390.355382] SLOW spr round 6 (radius: 5)
[14:34:02 -479390.355063] SLOW spr round 7 (radius: 10)
[14:37:22 -479390.355058] SLOW spr round 8 (radius: 15)
[14:42:17 -479390.355055] SLOW spr round 9 (radius: 20)
[14:49:41 -479390.355053] SLOW spr round 10 (radius: 25)
[14:59:05 -479390.355052] Model parameter optimization (eps = 0.100000)

[14:59:17] ML tree search #11, logLikelihood: -479389.862151

[14:59:17 -1455603.240091] Initial branch length optimization
[14:59:23 -1244827.863220] Model parameter optimization (eps = 10.000000)
[15:00:26 -1243542.771223] AUTODETECT spr round 1 (radius: 5)
[15:03:40 -932793.164461] AUTODETECT spr round 2 (radius: 10)
[15:07:21 -695881.675692] AUTODETECT spr round 3 (radius: 15)
[15:11:20 -609851.189083] AUTODETECT spr round 4 (radius: 20)
[15:16:24 -555388.676808] AUTODETECT spr round 5 (radius: 25)
[15:23:12 -536522.330886] SPR radius for FAST iterations: 25 (autodetect)
[15:23:12 -536522.330886] Model parameter optimization (eps = 3.000000)
[15:23:46 -535313.719416] FAST spr round 1 (radius: 25)
[15:28:28 -482076.122221] FAST spr round 2 (radius: 25)
[15:31:41 -479813.497428] FAST spr round 3 (radius: 25)
[15:34:24 -479544.200833] FAST spr round 4 (radius: 25)
[15:36:40 -479528.517082] FAST spr round 5 (radius: 25)
[15:38:49 -479521.096604] FAST spr round 6 (radius: 25)
[15:40:52 -479521.096604] Model parameter optimization (eps = 1.000000)
[15:41:12 -479516.316217] SLOW spr round 1 (radius: 5)
[15:44:36 -479404.441162] SLOW spr round 2 (radius: 5)
[15:47:45 -479387.982456] SLOW spr round 3 (radius: 5)
[15:50:44 -479383.300682] SLOW spr round 4 (radius: 5)
[15:53:40 -479381.899675] SLOW spr round 5 (radius: 5)
[15:56:35 -479381.295468] SLOW spr round 6 (radius: 5)
[15:59:28 -479381.295346] SLOW spr round 7 (radius: 10)
[16:02:28 -479380.980914] SLOW spr round 8 (radius: 5)
[16:06:18 -479378.206387] SLOW spr round 9 (radius: 5)
[16:09:36 -479378.206363] SLOW spr round 10 (radius: 10)
[16:12:39 -479378.206346] SLOW spr round 11 (radius: 15)
[16:17:56 -479378.206335] SLOW spr round 12 (radius: 20)
[16:25:16 -479378.206327] SLOW spr round 13 (radius: 25)
[16:34:56 -479378.206322] Model parameter optimization (eps = 0.100000)

[16:35:07] ML tree search #12, logLikelihood: -479377.937853

[16:35:07 -1467519.280900] Initial branch length optimization
[16:35:15 -1252882.275938] Model parameter optimization (eps = 10.000000)
[16:36:10 -1251118.250637] AUTODETECT spr round 1 (radius: 5)
[16:39:29 -918792.413057] AUTODETECT spr round 2 (radius: 10)
[16:43:14 -668237.401232] AUTODETECT spr round 3 (radius: 15)
[16:47:14 -572565.730241] AUTODETECT spr round 4 (radius: 20)
[16:52:17 -544123.004345] AUTODETECT spr round 5 (radius: 25)
[16:57:53 -536903.797010] SPR radius for FAST iterations: 25 (autodetect)
[16:57:53 -536903.797010] Model parameter optimization (eps = 3.000000)
[16:58:29 -535595.517240] FAST spr round 1 (radius: 25)
[17:02:51 -481693.413383] FAST spr round 2 (radius: 25)
[17:06:00 -479798.276913] FAST spr round 3 (radius: 25)
[17:08:45 -479568.515637] FAST spr round 4 (radius: 25)
[17:11:05 -479539.501414] FAST spr round 5 (radius: 25)
[17:13:11 -479538.110297] FAST spr round 6 (radius: 25)
[17:15:16 -479538.109800] Model parameter optimization (eps = 1.000000)
[17:15:46 -479509.436040] SLOW spr round 1 (radius: 5)
[17:19:07 -479403.001353] SLOW spr round 2 (radius: 5)
[17:22:14 -479390.777639] SLOW spr round 3 (radius: 5)
[17:25:12 -479389.702480] SLOW spr round 4 (radius: 5)
[17:28:04 -479389.702440] SLOW spr round 5 (radius: 10)
[17:31:00 -479387.757711] SLOW spr round 6 (radius: 5)
[17:34:47 -479387.757619] SLOW spr round 7 (radius: 10)
[17:38:12 -479387.757619] SLOW spr round 8 (radius: 15)
[17:43:11 -479387.757619] SLOW spr round 9 (radius: 20)
[17:50:51 -479387.757619] SLOW spr round 10 (radius: 25)
[18:00:29 -479387.757619] Model parameter optimization (eps = 0.100000)

[18:00:36] ML tree search #13, logLikelihood: -479387.742588

[18:00:36 -1448145.040567] Initial branch length optimization
[18:00:43 -1245125.316140] Model parameter optimization (eps = 10.000000)
[18:01:37 -1243919.750233] AUTODETECT spr round 1 (radius: 5)
[18:04:53 -908121.593922] AUTODETECT spr round 2 (radius: 10)
[18:08:40 -677777.521760] AUTODETECT spr round 3 (radius: 15)
[18:12:54 -598371.632000] AUTODETECT spr round 4 (radius: 20)
[18:17:59 -546862.420473] AUTODETECT spr round 5 (radius: 25)
[18:23:27 -545890.848496] SPR radius for FAST iterations: 25 (autodetect)
[18:23:27 -545890.848496] Model parameter optimization (eps = 3.000000)
[18:23:58 -545379.268078] FAST spr round 1 (radius: 25)
[18:28:43 -481874.902170] FAST spr round 2 (radius: 25)
[18:32:03 -479656.600802] FAST spr round 3 (radius: 25)
[18:34:52 -479526.364833] FAST spr round 4 (radius: 25)
[18:37:15 -479502.636576] FAST spr round 5 (radius: 25)
[18:39:26 -479501.977465] FAST spr round 6 (radius: 25)
[18:41:34 -479501.977296] Model parameter optimization (eps = 1.000000)
[18:41:53 -479496.154007] SLOW spr round 1 (radius: 5)
[18:45:17 -479410.373734] SLOW spr round 2 (radius: 5)
[18:48:28 -479394.389989] SLOW spr round 3 (radius: 5)
[18:51:25 -479393.677749] SLOW spr round 4 (radius: 5)
[18:54:19 -479393.677162] SLOW spr round 5 (radius: 10)
[18:57:17 -479393.676801] SLOW spr round 6 (radius: 15)
[19:02:42 -479393.676559] SLOW spr round 7 (radius: 20)
[19:09:50 -479393.676395] SLOW spr round 8 (radius: 25)
[19:19:12 -479393.676284] Model parameter optimization (eps = 0.100000)

[19:19:27] ML tree search #14, logLikelihood: -479393.228096

[19:19:28 -1445177.201123] Initial branch length optimization
[19:19:34 -1241550.388788] Model parameter optimization (eps = 10.000000)
[19:20:53 -1240199.862697] AUTODETECT spr round 1 (radius: 5)
[19:24:13 -934380.151126] AUTODETECT spr round 2 (radius: 10)
[19:27:56 -710163.929036] AUTODETECT spr round 3 (radius: 15)
[19:32:05 -584129.339652] AUTODETECT spr round 4 (radius: 20)
[19:37:15 -552328.405204] AUTODETECT spr round 5 (radius: 25)
[19:42:19 -543806.829856] SPR radius for FAST iterations: 25 (autodetect)
[19:42:19 -543806.829856] Model parameter optimization (eps = 3.000000)
[19:42:35 -543727.420183] FAST spr round 1 (radius: 25)
[19:47:09 -483239.676058] FAST spr round 2 (radius: 25)
[19:50:24 -480665.077911] FAST spr round 3 (radius: 25)
[19:53:13 -480530.364655] FAST spr round 4 (radius: 25)
[19:55:40 -480507.883547] FAST spr round 5 (radius: 25)
[19:57:51 -480500.173797] FAST spr round 6 (radius: 25)
[19:59:59 -480500.173755] Model parameter optimization (eps = 1.000000)
[20:00:28 -479575.325556] SLOW spr round 1 (radius: 5)
[20:04:01 -479405.573228] SLOW spr round 2 (radius: 5)
[20:07:17 -479393.937888] SLOW spr round 3 (radius: 5)
[20:10:17 -479393.937701] SLOW spr round 4 (radius: 10)
[20:13:17 -479393.937640] SLOW spr round 5 (radius: 15)
[20:18:39 -479393.937609] SLOW spr round 6 (radius: 20)
[20:25:40 -479393.937593] SLOW spr round 7 (radius: 25)
[20:34:56 -479393.937584] Model parameter optimization (eps = 0.100000)

[20:35:17] ML tree search #15, logLikelihood: -479391.795633

[20:35:17 -1452016.970570] Initial branch length optimization
[20:35:23 -1242553.395292] Model parameter optimization (eps = 10.000000)
[20:36:16 -1241093.279571] AUTODETECT spr round 1 (radius: 5)
[20:39:31 -919423.387306] AUTODETECT spr round 2 (radius: 10)
[20:43:09 -667842.145157] AUTODETECT spr round 3 (radius: 15)
[20:47:09 -575847.026775] AUTODETECT spr round 4 (radius: 20)
[20:52:34 -543279.972088] AUTODETECT spr round 5 (radius: 25)
[20:59:05 -541376.904840] SPR radius for FAST iterations: 25 (autodetect)
[20:59:05 -541376.904840] Model parameter optimization (eps = 3.000000)
[20:59:37 -540310.862849] FAST spr round 1 (radius: 25)
[21:04:27 -481956.890788] FAST spr round 2 (radius: 25)
[21:07:37 -479719.649744] FAST spr round 3 (radius: 25)
[21:10:19 -479530.031424] FAST spr round 4 (radius: 25)
[21:12:36 -479517.388418] FAST spr round 5 (radius: 25)
[21:14:46 -479517.388193] Model parameter optimization (eps = 1.000000)
[21:15:11 -479494.019395] SLOW spr round 1 (radius: 5)
[21:18:30 -479406.045600] SLOW spr round 2 (radius: 5)
[21:21:38 -479397.409013] SLOW spr round 3 (radius: 5)
[21:24:37 -479397.408981] SLOW spr round 4 (radius: 10)
[21:27:39 -479395.467430] SLOW spr round 5 (radius: 5)
[21:31:29 -479395.467350] SLOW spr round 6 (radius: 10)
[21:34:54 -479395.467350] SLOW spr round 7 (radius: 15)
[21:39:49 -479395.467350] SLOW spr round 8 (radius: 20)
[21:47:12 -479395.467350] SLOW spr round 9 (radius: 25)
[21:56:33 -479395.467350] Model parameter optimization (eps = 0.100000)

[21:56:42] ML tree search #16, logLikelihood: -479395.190178

[21:56:42 -1461326.067728] Initial branch length optimization
[21:56:48 -1248684.334670] Model parameter optimization (eps = 10.000000)
[21:58:00 -1247242.401010] AUTODETECT spr round 1 (radius: 5)
[22:01:25 -918826.871102] AUTODETECT spr round 2 (radius: 10)
[22:05:14 -668221.817328] AUTODETECT spr round 3 (radius: 15)
[22:09:14 -584014.528912] AUTODETECT spr round 4 (radius: 20)
[22:14:13 -555100.616924] AUTODETECT spr round 5 (radius: 25)
[22:19:18 -544314.197967] SPR radius for FAST iterations: 25 (autodetect)
[22:19:18 -544314.197967] Model parameter optimization (eps = 3.000000)
[22:19:33 -544223.329445] FAST spr round 1 (radius: 25)
[22:24:10 -482402.239734] FAST spr round 2 (radius: 25)
[22:27:15 -480695.298717] FAST spr round 3 (radius: 25)
[22:29:58 -480617.669628] FAST spr round 4 (radius: 25)
[22:32:14 -480603.610322] FAST spr round 5 (radius: 25)
[22:34:23 -480602.145729] FAST spr round 6 (radius: 25)
[22:36:28 -480602.145722] Model parameter optimization (eps = 1.000000)
[22:36:55 -479612.544321] SLOW spr round 1 (radius: 5)
[22:40:25 -479430.338761] SLOW spr round 2 (radius: 5)
[22:43:36 -479394.408387] SLOW spr round 3 (radius: 5)
[22:46:38 -479388.202703] SLOW spr round 4 (radius: 5)
[22:49:35 -479388.202670] SLOW spr round 5 (radius: 10)
[22:52:36 -479388.202670] SLOW spr round 6 (radius: 15)
[22:58:08 -479388.202670] SLOW spr round 7 (radius: 20)
[23:05:28 -479388.202670] SLOW spr round 8 (radius: 25)
[23:15:12 -479388.202670] Model parameter optimization (eps = 0.100000)

[23:15:26] ML tree search #17, logLikelihood: -479387.079453

[23:15:26 -1450902.084526] Initial branch length optimization
[23:15:32 -1245846.687324] Model parameter optimization (eps = 10.000000)
[23:16:19 -1244641.096962] AUTODETECT spr round 1 (radius: 5)
[23:19:34 -931732.179743] AUTODETECT spr round 2 (radius: 10)
[23:23:23 -712420.646845] AUTODETECT spr round 3 (radius: 15)
[23:27:41 -611076.772473] AUTODETECT spr round 4 (radius: 20)
[23:32:46 -553095.994663] AUTODETECT spr round 5 (radius: 25)
[23:39:03 -542648.295594] SPR radius for FAST iterations: 25 (autodetect)
[23:39:03 -542648.295594] Model parameter optimization (eps = 3.000000)
[23:39:34 -542076.927877] FAST spr round 1 (radius: 25)
[23:44:07 -481724.038851] FAST spr round 2 (radius: 25)
[23:47:23 -479627.585075] FAST spr round 3 (radius: 25)
[23:50:06 -479510.325803] FAST spr round 4 (radius: 25)
[23:52:28 -479485.668153] FAST spr round 5 (radius: 25)
[23:54:39 -479485.668097] Model parameter optimization (eps = 1.000000)
[23:55:01 -479483.344859] SLOW spr round 1 (radius: 5)
[23:58:31 -479393.980642] SLOW spr round 2 (radius: 5)
[24:01:36 -479390.725252] SLOW spr round 3 (radius: 5)
[24:04:36 -479390.725196] SLOW spr round 4 (radius: 10)
[24:07:34 -479390.725178] SLOW spr round 5 (radius: 15)
[24:12:58 -479390.725167] SLOW spr round 6 (radius: 20)
[24:20:14 -479390.725161] SLOW spr round 7 (radius: 25)
[24:29:53 -479390.725157] Model parameter optimization (eps = 0.100000)

[24:30:06] ML tree search #18, logLikelihood: -479390.577771

[24:30:06 -1451632.377520] Initial branch length optimization
[24:30:12 -1242709.655355] Model parameter optimization (eps = 10.000000)
[24:31:06 -1240943.616438] AUTODETECT spr round 1 (radius: 5)
[24:34:30 -905529.266705] AUTODETECT spr round 2 (radius: 10)
[24:38:14 -643082.615826] AUTODETECT spr round 3 (radius: 15)
[24:42:07 -563794.775802] AUTODETECT spr round 4 (radius: 20)
[24:46:46 -538704.799554] AUTODETECT spr round 5 (radius: 25)
[24:51:38 -535923.335270] SPR radius for FAST iterations: 25 (autodetect)
[24:51:38 -535923.335270] Model parameter optimization (eps = 3.000000)
[24:52:07 -535289.800985] FAST spr round 1 (radius: 25)
[24:56:36 -481158.169830] FAST spr round 2 (radius: 25)
[24:59:48 -479679.458866] FAST spr round 3 (radius: 25)
[25:02:34 -479573.785137] FAST spr round 4 (radius: 25)
[25:04:56 -479573.322537] FAST spr round 5 (radius: 25)
[25:07:12 -479573.322387] Model parameter optimization (eps = 1.000000)
[25:07:43 -479565.512642] SLOW spr round 1 (radius: 5)
[25:11:11 -479418.337549] SLOW spr round 2 (radius: 5)
[25:14:30 -479403.940192] SLOW spr round 3 (radius: 5)
[25:17:37 -479403.939501] SLOW spr round 4 (radius: 10)
[25:20:46 -479402.013705] SLOW spr round 5 (radius: 5)
[25:24:43 -479402.013493] SLOW spr round 6 (radius: 10)
[25:28:13 -479402.013416] SLOW spr round 7 (radius: 15)
[25:33:13 -479402.013364] SLOW spr round 8 (radius: 20)
[25:40:41 -479402.013328] SLOW spr round 9 (radius: 25)
[25:50:16 -479402.013305] Model parameter optimization (eps = 0.100000)

[25:50:31] ML tree search #19, logLikelihood: -479401.468130

[25:50:31 -1453239.403828] Initial branch length optimization
[25:50:37 -1243897.210559] Model parameter optimization (eps = 10.000000)
[25:51:42 -1242421.188172] AUTODETECT spr round 1 (radius: 5)
[25:55:07 -921758.008552] AUTODETECT spr round 2 (radius: 10)
[25:58:58 -673547.179665] AUTODETECT spr round 3 (radius: 15)
[26:03:08 -593689.852414] AUTODETECT spr round 4 (radius: 20)
[26:07:57 -562896.721552] AUTODETECT spr round 5 (radius: 25)
[26:14:02 -543197.764391] SPR radius for FAST iterations: 25 (autodetect)
[26:14:02 -543197.764391] Model parameter optimization (eps = 3.000000)
[26:14:38 -542115.140035] FAST spr round 1 (radius: 25)
[26:19:30 -481232.805423] FAST spr round 2 (radius: 25)
[26:22:57 -479679.358083] FAST spr round 3 (radius: 25)
[26:25:42 -479589.987462] FAST spr round 4 (radius: 25)
[26:28:02 -479586.231556] FAST spr round 5 (radius: 25)
[26:30:15 -479586.229746] Model parameter optimization (eps = 1.000000)
[26:30:41 -479575.021535] SLOW spr round 1 (radius: 5)
[26:34:09 -479437.225131] SLOW spr round 2 (radius: 5)
[26:37:30 -479407.465258] SLOW spr round 3 (radius: 5)
[26:40:39 -479405.437158] SLOW spr round 4 (radius: 5)
[26:43:44 -479405.370262] SLOW spr round 5 (radius: 10)
[26:46:51 -479405.370262] SLOW spr round 6 (radius: 15)
[26:52:28 -479405.370262] SLOW spr round 7 (radius: 20)
[26:59:54 -479405.370262] SLOW spr round 8 (radius: 25)
[27:09:38 -479405.370262] Model parameter optimization (eps = 0.100000)

[27:10:01] ML tree search #20, logLikelihood: -479404.302230


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.106364,0.189495) (0.191461,0.274040) (0.348200,0.812394) (0.353976,1.820751) 
   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: -479375.141683

AIC score: 962760.283366 / AICc score: 9006820.283366 / BIC score: 973504.739317
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=1570).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 21 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/3_mltree/Q9NUT2.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/3_mltree/Q9NUT2.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/3_mltree/Q9NUT2.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/3_mltree/Q9NUT2.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NUT2/3_mltree/Q9NUT2.raxml.log

Analysis started: 07-Jul-2021 13:11:00 / finished: 08-Jul-2021 16:21:02

Elapsed time: 97802.212 seconds