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 31-Jul-2021 06:02:31 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/2_msa/Q68DD2_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/3_mltree/Q68DD2 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/2_msa/Q68DD2_trimmed_msa.fasta
[00:00:00] Loaded alignment with 732 taxa and 875 sites

WARNING: Sequences tr_H2Q0T0_H2Q0T0_PANTR_9598 and tr_A0A2R9CGU6_A0A2R9CGU6_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F7EEZ1_F7EEZ1_MACMU_9544 and tr_G7NXP4_G7NXP4_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7EEZ1_F7EEZ1_MACMU_9544 and tr_A0A2K6D6G7_A0A2K6D6G7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A0A1NR99_A0A0A1NR99_9FUNG_58291 and tr_A0A367JDZ0_A0A367JDZ0_9FUNG_86630 are exactly identical!
WARNING: Sequences tr_A0A1S4C9Q2_A0A1S4C9Q2_TOBAC_4097 and tr_A0A1U7WNI8_A0A1U7WNI8_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A2K5L649_A0A2K5L649_CERAT_9531 and tr_A0A2K5YG94_A0A2K5YG94_MANLE_9568 are exactly identical!
WARNING: Duplicate sequences found: 6

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/Q68DD2/3_mltree/Q68DD2.raxml.reduced.phy

Alignment comprises 1 partitions and 875 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 875 / 875
Gaps: 31.39 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/3_mltree/Q68DD2.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 732 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 98 / 7840
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -892496.413890] Initial branch length optimization
[00:00:03 -755694.226590] Model parameter optimization (eps = 10.000000)
[00:00:38 -752336.418078] AUTODETECT spr round 1 (radius: 5)
[00:01:46 -508532.564028] AUTODETECT spr round 2 (radius: 10)
[00:02:58 -359597.967043] AUTODETECT spr round 3 (radius: 15)
[00:04:20 -307061.501864] AUTODETECT spr round 4 (radius: 20)
[00:06:04 -290782.897252] AUTODETECT spr round 5 (radius: 25)
[00:08:22 -288026.573010] SPR radius for FAST iterations: 25 (autodetect)
[00:08:22 -288026.573010] Model parameter optimization (eps = 3.000000)
[00:08:40 -287643.194838] FAST spr round 1 (radius: 25)
[00:10:09 -259406.282371] FAST spr round 2 (radius: 25)
[00:11:20 -258594.528741] FAST spr round 3 (radius: 25)
[00:12:25 -258516.045913] FAST spr round 4 (radius: 25)
[00:13:23 -258501.742552] FAST spr round 5 (radius: 25)
[00:14:18 -258494.599930] FAST spr round 6 (radius: 25)
[00:15:14 -258483.397553] FAST spr round 7 (radius: 25)
[00:16:06 -258483.397050] Model parameter optimization (eps = 1.000000)
[00:16:13 -258482.377974] SLOW spr round 1 (radius: 5)
[00:17:32 -258420.655524] SLOW spr round 2 (radius: 5)
[00:18:45 -258418.044921] SLOW spr round 3 (radius: 5)
[00:19:56 -258418.044060] SLOW spr round 4 (radius: 10)
[00:21:10 -258418.043896] SLOW spr round 5 (radius: 15)
[00:23:41 -258418.043850] SLOW spr round 6 (radius: 20)
[00:27:59 -258418.043837] SLOW spr round 7 (radius: 25)
[00:33:24 -258418.043833] Model parameter optimization (eps = 0.100000)

[00:33:30] ML tree search #1, logLikelihood: -258417.960108

[00:33:30 -892508.387377] Initial branch length optimization
[00:33:33 -754333.082793] Model parameter optimization (eps = 10.000000)
[00:34:10 -750745.175374] AUTODETECT spr round 1 (radius: 5)
[00:35:19 -493660.980716] AUTODETECT spr round 2 (radius: 10)
[00:36:33 -358662.604302] AUTODETECT spr round 3 (radius: 15)
[00:37:54 -315594.425898] AUTODETECT spr round 4 (radius: 20)
[00:39:42 -293354.914826] AUTODETECT spr round 5 (radius: 25)
[00:42:01 -289594.725970] SPR radius for FAST iterations: 25 (autodetect)
[00:42:01 -289594.725970] Model parameter optimization (eps = 3.000000)
[00:42:18 -289294.062737] FAST spr round 1 (radius: 25)
[00:43:45 -259700.659237] FAST spr round 2 (radius: 25)
[00:44:57 -258608.425045] FAST spr round 3 (radius: 25)
[00:46:01 -258500.031620] FAST spr round 4 (radius: 25)
[00:46:58 -258471.374400] FAST spr round 5 (radius: 25)
[00:47:52 -258466.583245] FAST spr round 6 (radius: 25)
[00:48:45 -258466.583134] Model parameter optimization (eps = 1.000000)
[00:48:56 -258459.495130] SLOW spr round 1 (radius: 5)
[00:50:15 -258415.045520] SLOW spr round 2 (radius: 5)
[00:51:29 -258412.456231] SLOW spr round 3 (radius: 5)
[00:52:40 -258412.455420] SLOW spr round 4 (radius: 10)
[00:53:54 -258412.455279] SLOW spr round 5 (radius: 15)
[00:56:22 -258412.455237] SLOW spr round 6 (radius: 20)
[01:00:32 -258412.455219] SLOW spr round 7 (radius: 25)
[01:05:54 -258412.455211] Model parameter optimization (eps = 0.100000)

[01:05:59] ML tree search #2, logLikelihood: -258412.285228

[01:05:59 -901937.421211] Initial branch length optimization
[01:06:02 -762836.260792] Model parameter optimization (eps = 10.000000)
[01:06:38 -759522.908724] AUTODETECT spr round 1 (radius: 5)
[01:07:47 -512259.286624] AUTODETECT spr round 2 (radius: 10)
[01:09:01 -367722.126861] AUTODETECT spr round 3 (radius: 15)
[01:10:23 -306267.147390] AUTODETECT spr round 4 (radius: 20)
[01:12:06 -295271.367839] AUTODETECT spr round 5 (radius: 25)
[01:14:03 -289523.436969] SPR radius for FAST iterations: 25 (autodetect)
[01:14:03 -289523.436969] Model parameter optimization (eps = 3.000000)
[01:14:21 -289096.879067] FAST spr round 1 (radius: 25)
[01:15:54 -259907.579598] FAST spr round 2 (radius: 25)
[01:17:10 -258648.184808] FAST spr round 3 (radius: 25)
[01:18:17 -258544.640580] FAST spr round 4 (radius: 25)
[01:19:16 -258500.832305] FAST spr round 5 (radius: 25)
[01:20:09 -258500.830980] Model parameter optimization (eps = 1.000000)
[01:20:22 -258492.281848] SLOW spr round 1 (radius: 5)
[01:21:43 -258436.517229] SLOW spr round 2 (radius: 5)
[01:22:58 -258426.958472] SLOW spr round 3 (radius: 5)
[01:24:10 -258423.860010] SLOW spr round 4 (radius: 5)
[01:25:22 -258423.859953] SLOW spr round 5 (radius: 10)
[01:26:37 -258409.041865] SLOW spr round 6 (radius: 5)
[01:28:12 -258409.041846] SLOW spr round 7 (radius: 10)
[01:29:38 -258409.041845] SLOW spr round 8 (radius: 15)
[01:31:52 -258409.041845] SLOW spr round 9 (radius: 20)
[01:36:16 -258409.041845] SLOW spr round 10 (radius: 25)
[01:41:42 -258409.041845] Model parameter optimization (eps = 0.100000)

[01:41:45] ML tree search #3, logLikelihood: -258409.023939

[01:41:45 -900433.854367] Initial branch length optimization
[01:41:48 -759419.610635] Model parameter optimization (eps = 10.000000)
[01:42:29 -756048.195984] AUTODETECT spr round 1 (radius: 5)
[01:43:37 -511288.215520] AUTODETECT spr round 2 (radius: 10)
[01:44:51 -359732.849971] AUTODETECT spr round 3 (radius: 15)
[01:46:19 -304608.807022] AUTODETECT spr round 4 (radius: 20)
[01:48:01 -292998.231903] AUTODETECT spr round 5 (radius: 25)
[01:50:11 -292629.323327] SPR radius for FAST iterations: 25 (autodetect)
[01:50:11 -292629.323327] Model parameter optimization (eps = 3.000000)
[01:50:30 -292186.802010] FAST spr round 1 (radius: 25)
[01:52:05 -260207.513859] FAST spr round 2 (radius: 25)
[01:53:21 -258616.931322] FAST spr round 3 (radius: 25)
[01:54:29 -258532.198626] FAST spr round 4 (radius: 25)
[01:55:28 -258508.677857] FAST spr round 5 (radius: 25)
[01:56:21 -258508.677808] Model parameter optimization (eps = 1.000000)
[01:56:33 -258481.775140] SLOW spr round 1 (radius: 5)
[01:57:52 -258435.339922] SLOW spr round 2 (radius: 5)
[01:59:08 -258425.511240] SLOW spr round 3 (radius: 5)
[02:00:20 -258425.508154] SLOW spr round 4 (radius: 10)
[02:01:35 -258422.869296] SLOW spr round 5 (radius: 5)
[02:03:10 -258421.907492] SLOW spr round 6 (radius: 5)
[02:04:33 -258421.907439] SLOW spr round 7 (radius: 10)
[02:05:51 -258421.907419] SLOW spr round 8 (radius: 15)
[02:08:11 -258421.907410] SLOW spr round 9 (radius: 20)
[02:12:24 -258421.907405] SLOW spr round 10 (radius: 25)
[02:17:48 -258421.907402] Model parameter optimization (eps = 0.100000)

[02:17:53] ML tree search #4, logLikelihood: -258421.792527

[02:17:53 -885853.706128] Initial branch length optimization
[02:17:56 -747420.687402] Model parameter optimization (eps = 10.000000)
[02:18:32 -744326.588304] AUTODETECT spr round 1 (radius: 5)
[02:19:40 -513091.633744] AUTODETECT spr round 2 (radius: 10)
[02:20:55 -374373.079949] AUTODETECT spr round 3 (radius: 15)
[02:22:25 -312657.169197] AUTODETECT spr round 4 (radius: 20)
[02:24:21 -295477.440057] AUTODETECT spr round 5 (radius: 25)
[02:26:44 -294070.159766] SPR radius for FAST iterations: 25 (autodetect)
[02:26:44 -294070.159766] Model parameter optimization (eps = 3.000000)
[02:27:01 -293578.610341] FAST spr round 1 (radius: 25)
[02:28:34 -259992.131555] FAST spr round 2 (radius: 25)
[02:29:49 -258604.947974] FAST spr round 3 (radius: 25)
[02:30:56 -258511.546554] FAST spr round 4 (radius: 25)
[02:31:54 -258498.311750] FAST spr round 5 (radius: 25)
[02:32:49 -258489.964628] FAST spr round 6 (radius: 25)
[02:33:42 -258489.964589] Model parameter optimization (eps = 1.000000)
[02:33:53 -258471.455351] SLOW spr round 1 (radius: 5)
[02:35:13 -258442.225100] SLOW spr round 2 (radius: 5)
[02:36:30 -258434.117392] SLOW spr round 3 (radius: 5)
[02:37:43 -258433.777685] SLOW spr round 4 (radius: 5)
[02:38:54 -258433.776385] SLOW spr round 5 (radius: 10)
[02:40:09 -258433.776145] SLOW spr round 6 (radius: 15)
[02:42:34 -258433.776084] SLOW spr round 7 (radius: 20)
[02:46:43 -258433.776055] SLOW spr round 8 (radius: 25)
[02:52:04 -258433.776031] Model parameter optimization (eps = 0.100000)

[02:52:08] ML tree search #5, logLikelihood: -258433.763050

[02:52:08 -896042.002244] Initial branch length optimization
[02:52:11 -757830.858268] Model parameter optimization (eps = 10.000000)
[02:52:43 -754634.225010] AUTODETECT spr round 1 (radius: 5)
[02:53:52 -499648.099110] AUTODETECT spr round 2 (radius: 10)
[02:55:07 -368580.786556] AUTODETECT spr round 3 (radius: 15)
[02:56:32 -323389.276744] AUTODETECT spr round 4 (radius: 20)
[02:58:13 -294043.344425] AUTODETECT spr round 5 (radius: 25)
[03:00:27 -290561.371068] SPR radius for FAST iterations: 25 (autodetect)
[03:00:27 -290561.371068] Model parameter optimization (eps = 3.000000)
[03:00:45 -289985.033693] FAST spr round 1 (radius: 25)
[03:02:15 -259946.090283] FAST spr round 2 (radius: 25)
[03:03:28 -258569.337668] FAST spr round 3 (radius: 25)
[03:04:33 -258532.729585] FAST spr round 4 (radius: 25)
[03:05:29 -258520.981909] FAST spr round 5 (radius: 25)
[03:06:22 -258520.980060] Model parameter optimization (eps = 1.000000)
[03:06:33 -258506.069130] SLOW spr round 1 (radius: 5)
[03:07:55 -258453.376558] SLOW spr round 2 (radius: 5)
[03:09:14 -258443.250729] SLOW spr round 3 (radius: 5)
[03:10:26 -258443.244484] SLOW spr round 4 (radius: 10)
[03:11:42 -258440.901048] SLOW spr round 5 (radius: 5)
[03:13:17 -258439.934069] SLOW spr round 6 (radius: 5)
[03:14:40 -258439.933915] SLOW spr round 7 (radius: 10)
[03:15:59 -258439.933892] SLOW spr round 8 (radius: 15)
[03:18:25 -258439.933885] SLOW spr round 9 (radius: 20)
[03:22:42 -258439.933883] SLOW spr round 10 (radius: 25)
[03:28:05 -258439.933883] Model parameter optimization (eps = 0.100000)

[03:28:10] ML tree search #6, logLikelihood: -258439.903002

[03:28:10 -896394.064135] Initial branch length optimization
[03:28:12 -756949.673625] Model parameter optimization (eps = 10.000000)
[03:28:45 -753593.686937] AUTODETECT spr round 1 (radius: 5)
[03:29:54 -494172.233111] AUTODETECT spr round 2 (radius: 10)
[03:31:09 -357991.016861] AUTODETECT spr round 3 (radius: 15)
[03:32:36 -314497.904152] AUTODETECT spr round 4 (radius: 20)
[03:34:22 -294079.785136] AUTODETECT spr round 5 (radius: 25)
[03:36:26 -290974.438797] SPR radius for FAST iterations: 25 (autodetect)
[03:36:26 -290974.438797] Model parameter optimization (eps = 3.000000)
[03:36:41 -290546.057054] FAST spr round 1 (radius: 25)
[03:38:11 -259544.824075] FAST spr round 2 (radius: 25)
[03:39:22 -258586.005825] FAST spr round 3 (radius: 25)
[03:40:26 -258529.944917] FAST spr round 4 (radius: 25)
[03:41:21 -258522.863512] FAST spr round 5 (radius: 25)
[03:42:15 -258520.398012] FAST spr round 6 (radius: 25)
[03:43:08 -258520.397461] Model parameter optimization (eps = 1.000000)
[03:43:19 -258510.427462] SLOW spr round 1 (radius: 5)
[03:44:40 -258431.502578] SLOW spr round 2 (radius: 5)
[03:45:54 -258421.863870] SLOW spr round 3 (radius: 5)
[03:47:06 -258421.862601] SLOW spr round 4 (radius: 10)
[03:48:21 -258420.679962] SLOW spr round 5 (radius: 5)
[03:49:56 -258420.679802] SLOW spr round 6 (radius: 10)
[03:51:21 -258420.679745] SLOW spr round 7 (radius: 15)
[03:53:33 -258420.679717] SLOW spr round 8 (radius: 20)
[03:57:52 -258420.679703] SLOW spr round 9 (radius: 25)
[04:03:12 -258420.679696] Model parameter optimization (eps = 0.100000)

[04:03:19] ML tree search #7, logLikelihood: -258420.533352

[04:03:19 -901311.885939] Initial branch length optimization
[04:03:22 -759655.473420] Model parameter optimization (eps = 10.000000)
[04:04:13 -756406.023241] AUTODETECT spr round 1 (radius: 5)
[04:05:22 -497633.428303] AUTODETECT spr round 2 (radius: 10)
[04:06:38 -349133.279346] AUTODETECT spr round 3 (radius: 15)
[04:08:08 -300343.541214] AUTODETECT spr round 4 (radius: 20)
[04:10:00 -291986.978683] AUTODETECT spr round 5 (radius: 25)
[04:12:33 -287424.999420] SPR radius for FAST iterations: 25 (autodetect)
[04:12:33 -287424.999420] Model parameter optimization (eps = 3.000000)
[04:12:53 -287025.063057] FAST spr round 1 (radius: 25)
[04:14:26 -259376.774942] FAST spr round 2 (radius: 25)
[04:15:39 -258527.232769] FAST spr round 3 (radius: 25)
[04:16:41 -258494.745974] FAST spr round 4 (radius: 25)
[04:17:37 -258490.961931] FAST spr round 5 (radius: 25)
[04:18:32 -258479.590912] FAST spr round 6 (radius: 25)
[04:19:25 -258473.196976] FAST spr round 7 (radius: 25)
[04:20:18 -258473.196544] Model parameter optimization (eps = 1.000000)
[04:20:29 -258456.448107] SLOW spr round 1 (radius: 5)
[04:21:47 -258420.941949] SLOW spr round 2 (radius: 5)
[04:23:01 -258419.046482] SLOW spr round 3 (radius: 5)
[04:24:13 -258419.045333] SLOW spr round 4 (radius: 10)
[04:25:28 -258418.379027] SLOW spr round 5 (radius: 5)
[04:27:03 -258418.378683] SLOW spr round 6 (radius: 10)
[04:28:29 -258418.378460] SLOW spr round 7 (radius: 15)
[04:30:38 -258418.378304] SLOW spr round 8 (radius: 20)
[04:34:50 -258418.378191] SLOW spr round 9 (radius: 25)
[04:40:08 -258418.378108] Model parameter optimization (eps = 0.100000)

[04:40:15] ML tree search #8, logLikelihood: -258418.268174

[04:40:15 -899381.022432] Initial branch length optimization
[04:40:18 -759359.955547] Model parameter optimization (eps = 10.000000)
[04:41:03 -755973.286318] AUTODETECT spr round 1 (radius: 5)
[04:42:12 -504720.351069] AUTODETECT spr round 2 (radius: 10)
[04:43:26 -367228.900615] AUTODETECT spr round 3 (radius: 15)
[04:44:52 -306665.337617] AUTODETECT spr round 4 (radius: 20)
[04:46:55 -286992.603257] AUTODETECT spr round 5 (radius: 25)
[04:49:20 -286078.160375] SPR radius for FAST iterations: 25 (autodetect)
[04:49:20 -286078.160375] Model parameter optimization (eps = 3.000000)
[04:49:37 -285605.625204] FAST spr round 1 (radius: 25)
[04:51:08 -259216.198907] FAST spr round 2 (radius: 25)
[04:52:21 -258550.764191] FAST spr round 3 (radius: 25)
[04:53:26 -258508.000469] FAST spr round 4 (radius: 25)
[04:54:22 -258482.675853] FAST spr round 5 (radius: 25)
[04:55:16 -258482.675838] Model parameter optimization (eps = 1.000000)
[04:55:28 -258477.564515] SLOW spr round 1 (radius: 5)
[04:56:49 -258436.747243] SLOW spr round 2 (radius: 5)
[04:58:04 -258433.689918] SLOW spr round 3 (radius: 5)
[04:59:18 -258433.109494] SLOW spr round 4 (radius: 5)
[05:00:30 -258433.108099] SLOW spr round 5 (radius: 10)
[05:01:46 -258433.107772] SLOW spr round 6 (radius: 15)
[05:04:14 -258433.107692] SLOW spr round 7 (radius: 20)
[05:08:26 -258433.107672] SLOW spr round 8 (radius: 25)
[05:13:51 -258433.107667] Model parameter optimization (eps = 0.100000)

[05:13:54] ML tree search #9, logLikelihood: -258433.068289

[05:13:55 -901056.158073] Initial branch length optimization
[05:13:58 -757033.860942] Model parameter optimization (eps = 10.000000)
[05:14:37 -753781.895596] AUTODETECT spr round 1 (radius: 5)
[05:15:45 -501623.600587] AUTODETECT spr round 2 (radius: 10)
[05:17:00 -371263.716860] AUTODETECT spr round 3 (radius: 15)
[05:18:30 -311572.923861] AUTODETECT spr round 4 (radius: 20)
[05:20:26 -293915.545898] AUTODETECT spr round 5 (radius: 25)
[05:22:50 -292382.061680] SPR radius for FAST iterations: 25 (autodetect)
[05:22:50 -292382.061680] Model parameter optimization (eps = 3.000000)
[05:23:08 -291881.320081] FAST spr round 1 (radius: 25)
[05:24:40 -261287.174507] FAST spr round 2 (radius: 25)
[05:25:54 -258610.223273] FAST spr round 3 (radius: 25)
[05:27:02 -258462.952939] FAST spr round 4 (radius: 25)
[05:28:00 -258456.189786] FAST spr round 5 (radius: 25)
[05:28:54 -258452.686514] FAST spr round 6 (radius: 25)
[05:29:47 -258452.686279] Model parameter optimization (eps = 1.000000)
[05:29:58 -258446.790537] SLOW spr round 1 (radius: 5)
[05:31:14 -258423.504450] SLOW spr round 2 (radius: 5)
[05:32:29 -258418.018398] SLOW spr round 3 (radius: 5)
[05:33:42 -258418.016985] SLOW spr round 4 (radius: 10)
[05:34:56 -258418.016551] SLOW spr round 5 (radius: 15)
[05:37:23 -258418.016394] SLOW spr round 6 (radius: 20)
[05:41:31 -258418.016323] SLOW spr round 7 (radius: 25)
[05:46:56 -258418.016280] Model parameter optimization (eps = 0.100000)

[05:46:59] ML tree search #10, logLikelihood: -258417.976783

[05:46:59 -899654.192175] Initial branch length optimization
[05:47:03 -761027.490710] Model parameter optimization (eps = 10.000000)
[05:47:39 -757581.962434] AUTODETECT spr round 1 (radius: 5)
[05:48:48 -504888.763447] AUTODETECT spr round 2 (radius: 10)
[05:50:03 -357637.921001] AUTODETECT spr round 3 (radius: 15)
[05:51:29 -309287.453517] AUTODETECT spr round 4 (radius: 20)
[05:53:29 -291608.639982] AUTODETECT spr round 5 (radius: 25)
[05:55:48 -290659.243422] SPR radius for FAST iterations: 25 (autodetect)
[05:55:48 -290659.243422] Model parameter optimization (eps = 3.000000)
[05:56:08 -290233.559897] FAST spr round 1 (radius: 25)
[05:57:43 -259725.323166] FAST spr round 2 (radius: 25)
[05:58:58 -258570.600018] FAST spr round 3 (radius: 25)
[06:00:04 -258478.480574] FAST spr round 4 (radius: 25)
[06:01:01 -258473.755101] FAST spr round 5 (radius: 25)
[06:01:54 -258473.744349] Model parameter optimization (eps = 1.000000)
[06:02:05 -258462.224155] SLOW spr round 1 (radius: 5)
[06:03:25 -258409.303371] SLOW spr round 2 (radius: 5)
[06:04:39 -258406.278747] SLOW spr round 3 (radius: 5)
[06:05:52 -258406.277340] SLOW spr round 4 (radius: 10)
[06:07:07 -258406.276969] SLOW spr round 5 (radius: 15)
[06:09:34 -258406.276857] SLOW spr round 6 (radius: 20)
[06:13:41 -258406.276812] SLOW spr round 7 (radius: 25)
[06:19:03 -258406.276783] Model parameter optimization (eps = 0.100000)

[06:19:09] ML tree search #11, logLikelihood: -258406.021832

[06:19:09 -898604.055978] Initial branch length optimization
[06:19:13 -763176.585742] Model parameter optimization (eps = 10.000000)
[06:19:58 -759689.415557] AUTODETECT spr round 1 (radius: 5)
[06:21:07 -503953.046540] AUTODETECT spr round 2 (radius: 10)
[06:22:21 -361007.957189] AUTODETECT spr round 3 (radius: 15)
[06:23:49 -310574.165043] AUTODETECT spr round 4 (radius: 20)
[06:25:37 -293841.541067] AUTODETECT spr round 5 (radius: 25)
[06:27:56 -288256.723439] SPR radius for FAST iterations: 25 (autodetect)
[06:27:56 -288256.723439] Model parameter optimization (eps = 3.000000)
[06:28:14 -287863.001226] FAST spr round 1 (radius: 25)
[06:29:51 -259574.848199] FAST spr round 2 (radius: 25)
[06:31:06 -258592.045769] FAST spr round 3 (radius: 25)
[06:32:13 -258520.280075] FAST spr round 4 (radius: 25)
[06:33:09 -258509.150809] FAST spr round 5 (radius: 25)
[06:34:03 -258509.148695] Model parameter optimization (eps = 1.000000)
[06:34:14 -258493.362029] SLOW spr round 1 (radius: 5)
[06:35:34 -258437.050844] SLOW spr round 2 (radius: 5)
[06:36:48 -258428.992368] SLOW spr round 3 (radius: 5)
[06:38:00 -258428.991773] SLOW spr round 4 (radius: 10)
[06:39:16 -258428.991589] SLOW spr round 5 (radius: 15)
[06:41:44 -258428.991517] SLOW spr round 6 (radius: 20)
[06:46:01 -258428.991489] SLOW spr round 7 (radius: 25)
[06:51:27 -258428.991478] Model parameter optimization (eps = 0.100000)

[06:51:33] ML tree search #12, logLikelihood: -258428.799843

[06:51:33 -904944.544202] Initial branch length optimization
[06:51:36 -762391.439820] Model parameter optimization (eps = 10.000000)
[06:52:15 -759210.055019] AUTODETECT spr round 1 (radius: 5)
[06:53:24 -488853.215023] AUTODETECT spr round 2 (radius: 10)
[06:54:38 -353857.342874] AUTODETECT spr round 3 (radius: 15)
[06:56:01 -307545.955646] AUTODETECT spr round 4 (radius: 20)
[06:57:51 -292487.763319] AUTODETECT spr round 5 (radius: 25)
[07:00:50 -291159.239059] SPR radius for FAST iterations: 25 (autodetect)
[07:00:50 -291159.239059] Model parameter optimization (eps = 3.000000)
[07:01:07 -290644.158349] FAST spr round 1 (radius: 25)
[07:02:40 -261072.070407] FAST spr round 2 (radius: 25)
[07:03:54 -258861.804741] FAST spr round 3 (radius: 25)
[07:05:00 -258513.169317] FAST spr round 4 (radius: 25)
[07:05:59 -258482.495110] FAST spr round 5 (radius: 25)
[07:06:55 -258471.722505] FAST spr round 6 (radius: 25)
[07:07:47 -258471.722341] Model parameter optimization (eps = 1.000000)
[07:08:00 -258465.113505] SLOW spr round 1 (radius: 5)
[07:09:19 -258410.244788] SLOW spr round 2 (radius: 5)
[07:10:33 -258409.404759] SLOW spr round 3 (radius: 5)
[07:11:46 -258408.232405] SLOW spr round 4 (radius: 5)
[07:12:58 -258408.232107] SLOW spr round 5 (radius: 10)
[07:14:12 -258408.231957] SLOW spr round 6 (radius: 15)
[07:16:37 -258408.231872] SLOW spr round 7 (radius: 20)
[07:20:46 -258408.231818] SLOW spr round 8 (radius: 25)
[07:26:10 -258408.231779] Model parameter optimization (eps = 0.100000)

[07:26:13] ML tree search #13, logLikelihood: -258408.196703

[07:26:13 -894673.166128] Initial branch length optimization
[07:26:17 -755188.627858] Model parameter optimization (eps = 10.000000)
[07:27:07 -751987.575481] AUTODETECT spr round 1 (radius: 5)
[07:28:14 -517241.833226] AUTODETECT spr round 2 (radius: 10)
[07:29:28 -392788.725407] AUTODETECT spr round 3 (radius: 15)
[07:30:55 -318704.570334] AUTODETECT spr round 4 (radius: 20)
[07:32:50 -296504.163869] AUTODETECT spr round 5 (radius: 25)
[07:34:57 -293559.649230] SPR radius for FAST iterations: 25 (autodetect)
[07:34:57 -293559.649230] Model parameter optimization (eps = 3.000000)
[07:35:13 -293075.778955] FAST spr round 1 (radius: 25)
[07:36:44 -260033.992796] FAST spr round 2 (radius: 25)
[07:37:57 -258557.977542] FAST spr round 3 (radius: 25)
[07:39:03 -258493.358500] FAST spr round 4 (radius: 25)
[07:39:57 -258488.267115] FAST spr round 5 (radius: 25)
[07:40:50 -258488.267093] Model parameter optimization (eps = 1.000000)
[07:41:01 -258470.963094] SLOW spr round 1 (radius: 5)
[07:42:22 -258422.955387] SLOW spr round 2 (radius: 5)
[07:43:39 -258410.716997] SLOW spr round 3 (radius: 5)
[07:44:51 -258410.496508] SLOW spr round 4 (radius: 5)
[07:46:03 -258410.494622] SLOW spr round 5 (radius: 10)
[07:47:17 -258410.494063] SLOW spr round 6 (radius: 15)
[07:49:41 -258410.493891] SLOW spr round 7 (radius: 20)
[07:53:48 -258410.493838] SLOW spr round 8 (radius: 25)
[07:59:09 -258410.493821] Model parameter optimization (eps = 0.100000)

[07:59:14] ML tree search #14, logLikelihood: -258410.388510

[07:59:15 -898446.863061] Initial branch length optimization
[07:59:18 -757618.025527] Model parameter optimization (eps = 10.000000)
[07:59:53 -754439.967747] AUTODETECT spr round 1 (radius: 5)
[08:01:01 -517515.164775] AUTODETECT spr round 2 (radius: 10)
[08:02:16 -356987.783910] AUTODETECT spr round 3 (radius: 15)
[08:03:47 -308370.139520] AUTODETECT spr round 4 (radius: 20)
[08:05:49 -294693.710246] AUTODETECT spr round 5 (radius: 25)
[08:08:11 -290948.175777] SPR radius for FAST iterations: 25 (autodetect)
[08:08:11 -290948.175777] Model parameter optimization (eps = 3.000000)
[08:08:29 -290533.513902] FAST spr round 1 (radius: 25)
[08:09:57 -260069.371235] FAST spr round 2 (radius: 25)
[08:11:08 -258553.455354] FAST spr round 3 (radius: 25)
[08:12:11 -258527.563962] FAST spr round 4 (radius: 25)
[08:13:08 -258521.028205] FAST spr round 5 (radius: 25)
[08:14:01 -258521.028164] Model parameter optimization (eps = 1.000000)
[08:14:15 -258512.836848] SLOW spr round 1 (radius: 5)
[08:15:35 -258435.665979] SLOW spr round 2 (radius: 5)
[08:16:50 -258429.819202] SLOW spr round 3 (radius: 5)
[08:18:02 -258429.792567] SLOW spr round 4 (radius: 10)
[08:19:17 -258429.789455] SLOW spr round 5 (radius: 15)
[08:21:38 -258429.788828] SLOW spr round 6 (radius: 20)
[08:25:42 -258429.788676] SLOW spr round 7 (radius: 25)
[08:31:00 -258429.788619] Model parameter optimization (eps = 0.100000)

[08:31:06] ML tree search #15, logLikelihood: -258429.623075

[08:31:06 -903419.390394] Initial branch length optimization
[08:31:09 -760746.811380] Model parameter optimization (eps = 10.000000)
[08:31:43 -757361.253345] AUTODETECT spr round 1 (radius: 5)
[08:32:50 -506094.710123] AUTODETECT spr round 2 (radius: 10)
[08:34:05 -364292.788122] AUTODETECT spr round 3 (radius: 15)
[08:35:35 -307132.105907] AUTODETECT spr round 4 (radius: 20)
[08:37:27 -291813.801637] AUTODETECT spr round 5 (radius: 25)
[08:39:44 -290867.352669] SPR radius for FAST iterations: 25 (autodetect)
[08:39:44 -290867.352669] Model parameter optimization (eps = 3.000000)
[08:40:01 -290323.164797] FAST spr round 1 (radius: 25)
[08:41:30 -259370.821786] FAST spr round 2 (radius: 25)
[08:42:44 -258560.361716] FAST spr round 3 (radius: 25)
[08:43:49 -258509.206407] FAST spr round 4 (radius: 25)
[08:44:45 -258503.387020] FAST spr round 5 (radius: 25)
[08:45:39 -258492.998826] FAST spr round 6 (radius: 25)
[08:46:32 -258492.998810] Model parameter optimization (eps = 1.000000)
[08:46:44 -258483.276708] SLOW spr round 1 (radius: 5)
[08:48:05 -258437.833136] SLOW spr round 2 (radius: 5)
[08:49:22 -258423.813069] SLOW spr round 3 (radius: 5)
[08:50:34 -258423.812806] SLOW spr round 4 (radius: 10)
[08:51:48 -258423.812806] SLOW spr round 5 (radius: 15)
[08:54:15 -258423.812806] SLOW spr round 6 (radius: 20)
[08:58:23 -258423.812806] SLOW spr round 7 (radius: 25)
[09:03:43 -258423.812806] Model parameter optimization (eps = 0.100000)

[09:03:47] ML tree search #16, logLikelihood: -258423.760473

[09:03:47 -891943.312130] Initial branch length optimization
[09:03:50 -751074.394563] Model parameter optimization (eps = 10.000000)
[09:04:33 -747774.441020] AUTODETECT spr round 1 (radius: 5)
[09:05:41 -508386.867451] AUTODETECT spr round 2 (radius: 10)
[09:06:55 -374313.473100] AUTODETECT spr round 3 (radius: 15)
[09:08:22 -326254.929867] AUTODETECT spr round 4 (radius: 20)
[09:10:08 -302804.744879] AUTODETECT spr round 5 (radius: 25)
[09:12:10 -297738.016954] SPR radius for FAST iterations: 25 (autodetect)
[09:12:10 -297738.016954] Model parameter optimization (eps = 3.000000)
[09:12:26 -297219.663875] FAST spr round 1 (radius: 25)
[09:13:58 -259885.450464] FAST spr round 2 (radius: 25)
[09:15:06 -258643.958177] FAST spr round 3 (radius: 25)
[09:16:10 -258503.125412] FAST spr round 4 (radius: 25)
[09:17:05 -258494.103944] FAST spr round 5 (radius: 25)
[09:17:58 -258494.103804] Model parameter optimization (eps = 1.000000)
[09:18:06 -258490.154858] SLOW spr round 1 (radius: 5)
[09:19:24 -258428.647152] SLOW spr round 2 (radius: 5)
[09:20:38 -258421.555663] SLOW spr round 3 (radius: 5)
[09:21:50 -258421.555336] SLOW spr round 4 (radius: 10)
[09:23:05 -258421.555241] SLOW spr round 5 (radius: 15)
[09:25:37 -258421.555196] SLOW spr round 6 (radius: 20)
[09:29:54 -258421.555166] SLOW spr round 7 (radius: 25)
[09:35:20 -258421.555141] Model parameter optimization (eps = 0.100000)

[09:35:26] ML tree search #17, logLikelihood: -258421.532509

[09:35:26 -901186.504218] Initial branch length optimization
[09:35:29 -760290.756343] Model parameter optimization (eps = 10.000000)
[09:36:06 -757081.143327] AUTODETECT spr round 1 (radius: 5)
[09:37:14 -523228.212833] AUTODETECT spr round 2 (radius: 10)
[09:38:31 -372612.507064] AUTODETECT spr round 3 (radius: 15)
[09:39:55 -311052.405309] AUTODETECT spr round 4 (radius: 20)
[09:41:45 -289883.240343] AUTODETECT spr round 5 (radius: 25)
[09:44:07 -286996.713543] SPR radius for FAST iterations: 25 (autodetect)
[09:44:07 -286996.713543] Model parameter optimization (eps = 3.000000)
[09:44:22 -286558.391142] FAST spr round 1 (radius: 25)
[09:45:55 -260296.219441] FAST spr round 2 (radius: 25)
[09:47:10 -258591.790682] FAST spr round 3 (radius: 25)
[09:48:19 -258489.736912] FAST spr round 4 (radius: 25)
[09:49:14 -258489.736357] Model parameter optimization (eps = 1.000000)
[09:49:25 -258475.897045] SLOW spr round 1 (radius: 5)
[09:50:48 -258413.262114] SLOW spr round 2 (radius: 5)
[09:52:02 -258407.197074] SLOW spr round 3 (radius: 5)
[09:53:15 -258407.196256] SLOW spr round 4 (radius: 10)
[09:54:29 -258407.195922] SLOW spr round 5 (radius: 15)
[09:56:51 -258407.195731] SLOW spr round 6 (radius: 20)
[10:00:53 -258407.195614] SLOW spr round 7 (radius: 25)
[10:06:12 -258407.195536] Model parameter optimization (eps = 0.100000)

[10:06:16] ML tree search #18, logLikelihood: -258407.181855

[10:06:16 -896704.241277] Initial branch length optimization
[10:06:19 -756806.023543] Model parameter optimization (eps = 10.000000)
[10:06:54 -753487.126300] AUTODETECT spr round 1 (radius: 5)
[10:08:03 -496331.779318] AUTODETECT spr round 2 (radius: 10)
[10:09:16 -374859.773559] AUTODETECT spr round 3 (radius: 15)
[10:10:47 -319493.587374] AUTODETECT spr round 4 (radius: 20)
[10:12:41 -293399.250927] AUTODETECT spr round 5 (radius: 25)
[10:14:55 -289422.652938] SPR radius for FAST iterations: 25 (autodetect)
[10:14:55 -289422.652938] Model parameter optimization (eps = 3.000000)
[10:15:14 -289041.585353] FAST spr round 1 (radius: 25)
[10:16:46 -259758.626633] FAST spr round 2 (radius: 25)
[10:18:00 -258624.953797] FAST spr round 3 (radius: 25)
[10:19:08 -258491.303995] FAST spr round 4 (radius: 25)
[10:20:08 -258483.770830] FAST spr round 5 (radius: 25)
[10:21:02 -258482.675145] FAST spr round 6 (radius: 25)
[10:21:55 -258482.672688] Model parameter optimization (eps = 1.000000)
[10:22:07 -258469.577782] SLOW spr round 1 (radius: 5)
[10:23:27 -258412.298352] SLOW spr round 2 (radius: 5)
[10:24:40 -258411.814053] SLOW spr round 3 (radius: 5)
[10:25:52 -258411.813930] SLOW spr round 4 (radius: 10)
[10:27:06 -258411.813924] SLOW spr round 5 (radius: 15)
[10:29:32 -258411.813922] SLOW spr round 6 (radius: 20)
[10:33:40 -258411.813921] SLOW spr round 7 (radius: 25)
[10:39:01 -258411.813921] Model parameter optimization (eps = 0.100000)

[10:39:04] ML tree search #19, logLikelihood: -258411.789347

[10:39:05 -900306.353105] Initial branch length optimization
[10:39:08 -761698.690151] Model parameter optimization (eps = 10.000000)
[10:39:57 -758354.746822] AUTODETECT spr round 1 (radius: 5)
[10:41:06 -502958.235445] AUTODETECT spr round 2 (radius: 10)
[10:42:21 -361972.033068] AUTODETECT spr round 3 (radius: 15)
[10:43:52 -315080.538317] AUTODETECT spr round 4 (radius: 20)
[10:45:33 -296563.888135] AUTODETECT spr round 5 (radius: 25)
[10:47:24 -291573.010214] SPR radius for FAST iterations: 25 (autodetect)
[10:47:24 -291573.010214] Model parameter optimization (eps = 3.000000)
[10:47:42 -291128.632016] FAST spr round 1 (radius: 25)
[10:49:14 -260522.021168] FAST spr round 2 (radius: 25)
[10:50:28 -258579.612375] FAST spr round 3 (radius: 25)
[10:51:30 -258505.213878] FAST spr round 4 (radius: 25)
[10:52:26 -258498.153668] FAST spr round 5 (radius: 25)
[10:53:19 -258498.153257] Model parameter optimization (eps = 1.000000)
[10:53:32 -258490.700525] SLOW spr round 1 (radius: 5)
[10:54:50 -258441.660087] SLOW spr round 2 (radius: 5)
[10:56:04 -258428.034225] SLOW spr round 3 (radius: 5)
[10:57:15 -258428.033368] SLOW spr round 4 (radius: 10)
[10:58:29 -258428.033071] SLOW spr round 5 (radius: 15)
[11:00:51 -258428.032948] SLOW spr round 6 (radius: 20)
[11:04:54 -258428.032883] SLOW spr round 7 (radius: 25)
[11:10:06 -258428.032841] Model parameter optimization (eps = 0.100000)

[11:10:11] ML tree search #20, logLikelihood: -258428.005939


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.139781,0.550595) (0.118057,0.540535) (0.360389,0.755580) (0.381774,1.537352) 
   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: -258406.021832

AIC score: 519746.043665 / AICc score: 4826858.043665 / BIC score: 526749.830106
Free parameters (model + branch lengths): 1467

WARNING: Number of free parameters (K=1467) is larger than alignment size (n=875).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 29 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/3_mltree/Q68DD2.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/3_mltree/Q68DD2.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/3_mltree/Q68DD2.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/3_mltree/Q68DD2.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q68DD2/3_mltree/Q68DD2.raxml.log

Analysis started: 31-Jul-2021 06:02:31 / finished: 31-Jul-2021 17:12:43

Elapsed time: 40211.818 seconds