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 03-Jul-2021 02:22:18 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/2_msa/B2RNN3_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/3_mltree/B2RNN3 --seed 2 --threads 5 --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 (5 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/2_msa/B2RNN3_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 248 sites

WARNING: Sequences tr_G1QSI7_G1QSI7_NOMLE_61853 and tr_G3SKQ7_G3SKQ7_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1QSI7_G1QSI7_NOMLE_61853 and tr_H2QT85_H2QT85_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3IID2_G3IID2_CRIGR_10029 and tr_A0A1U8BXJ7_A0A1U8BXJ7_MESAU_10036 are exactly identical!
WARNING: Sequences tr_G3QSG2_G3QSG2_GORGO_9595 and tr_H2QRX8_H2QRX8_PANTR_9598 are exactly identical!
WARNING: Sequences tr_H2PCY3_H2PCY3_PONAB_9601 and tr_A0A0D9RV09_A0A0D9RV09_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A2I3S1X9_A0A2I3S1X9_PANTR_9598 and sp_A6NHN0_OTOL1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3SKI3_A0A2I3SKI3_PANTR_9598 and tr_A0A2R8Z6A0_A0A2R8Z6A0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2J8K450_A0A2J8K450_PANTR_9598 and tr_A0A2R9A2B8_A0A2R9A2B8_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F6VWB8_F6VWB8_MACMU_9544 and tr_A0A096MVD2_A0A096MVD2_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F6VWB8_F6VWB8_MACMU_9544 and tr_A0A2K5LUF6_A0A2K5LUF6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F6VWB8_F6VWB8_MACMU_9544 and tr_A0A2K6BMA7_A0A2K6BMA7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6VWB8_F6VWB8_MACMU_9544 and tr_A0A2K5ZRM9_A0A2K5ZRM9_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F6ZZB7_F6ZZB7_MACMU_9544 and tr_A0A2K5LWE8_A0A2K5LWE8_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F6ZZB7_F6ZZB7_MACMU_9544 and tr_A0A2K6DXC5_A0A2K6DXC5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7FPW3_F7FPW3_MACMU_9544 and tr_A0A096MV21_A0A096MV21_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7FPW3_F7FPW3_MACMU_9544 and tr_A0A2K5MIM6_A0A2K5MIM6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7FPW3_F7FPW3_MACMU_9544 and tr_A0A2K6B809_A0A2K6B809_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7FPW3_F7FPW3_MACMU_9544 and tr_A0A2K5YA30_A0A2K5YA30_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7FYZ2_F7FYZ2_MACMU_9544 and tr_A0A2K5M5S7_A0A2K5M5S7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7FYZ2_F7FYZ2_MACMU_9544 and tr_A0A2K6CSK8_A0A2K6CSK8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7FYZ2_F7FYZ2_MACMU_9544 and tr_A0A2K5ZT07_A0A2K5ZT07_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7HEL0_F7HEL0_MACMU_9544 and tr_G7NVT9_G7NVT9_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7HEL0_F7HEL0_MACMU_9544 and tr_A0A2I3NGK8_A0A2I3NGK8_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7HEL0_F7HEL0_MACMU_9544 and tr_A0A2K6AVT3_A0A2K6AVT3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7HEL0_F7HEL0_MACMU_9544 and tr_A0A2K5XR64_A0A2K5XR64_MANLE_9568 are exactly identical!
WARNING: Sequences tr_H0ZHQ9_H0ZHQ9_TAEGU_59729 and tr_A0A093QBJ6_A0A093QBJ6_9PASS_328815 are exactly identical!
WARNING: Sequences tr_H0ZHQ9_H0ZHQ9_TAEGU_59729 and tr_A0A091W0M3_A0A091W0M3_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_G1LJ22_G1LJ22_AILME_9646 and tr_A0A384C518_A0A384C518_URSMA_29073 are exactly identical!
WARNING: Sequences tr_G7NYN2_G7NYN2_MACFA_9541 and tr_A0A2K5YSV0_A0A2K5YSV0_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A096MPN1_A0A096MPN1_PAPAN_9555 and tr_A0A2K5KRK7_A0A2K5KRK7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A096MPN1_A0A096MPN1_PAPAN_9555 and tr_A0A2K6B4J0_A0A2K6B4J0_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3LW74_A0A2I3LW74_PAPAN_9555 and tr_A0A0D9RA24_A0A0D9RA24_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A2I3MS05_A0A2I3MS05_PAPAN_9555 and tr_A0A2K5KTZ0_A0A2K5KTZ0_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I0LW41_A0A2I0LW41_COLLI_8932 and tr_A0A1V4K457_A0A1V4K457_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A2I0MNB7_A0A2I0MNB7_COLLI_8932 and tr_A0A1V4JFL7_A0A1V4JFL7_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A1S3S808_A0A1S3S808_SALSA_8030 and tr_A0A060WI83_A0A060WI83_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A226MET6_A0A226MET6_CALSU_9009 and tr_A0A226PS21_A0A226PS21_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2U3W3R4_A0A2U3W3R4_ODORO_9708 and tr_A0A2U3YXT5_A0A2U3YXT5_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_A0A2Y9Q643_A0A2Y9Q643_DELLE_9749 and tr_A0A383Z8I6_A0A383Z8I6_BALAS_310752 are exactly identical!
WARNING: Duplicate sequences found: 39

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/B2RNN3/3_mltree/B2RNN3.raxml.reduced.phy

Alignment comprises 1 partitions and 248 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 248 / 248
Gaps: 15.57 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/3_mltree/B2RNN3.raxml.rba

Parallelization scheme autoconfig: 5 worker(s) x 1 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 / 248 / 19840
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -421443.713005] Initial branch length optimization
[00:00:05 -349813.458614] Model parameter optimization (eps = 10.000000)
[00:01:29 -349354.639822] AUTODETECT spr round 1 (radius: 5)
[00:05:16 -245542.265437] AUTODETECT spr round 2 (radius: 10)
[00:09:11 -190451.214119] AUTODETECT spr round 3 (radius: 15)
[00:13:24 -160607.609540] AUTODETECT spr round 4 (radius: 20)
[00:18:31 -152024.387740] AUTODETECT spr round 5 (radius: 25)
[00:24:41 -139577.576781] SPR radius for FAST iterations: 25 (autodetect)
[00:24:41 -139577.576781] Model parameter optimization (eps = 3.000000)
[00:25:13 -139104.573794] FAST spr round 1 (radius: 25)
[00:30:03 -119559.603774] FAST spr round 2 (radius: 25)
[00:33:24 -118639.517800] FAST spr round 3 (radius: 25)
[00:36:18 -118563.522364] FAST spr round 4 (radius: 25)
[00:38:51 -118552.902484] FAST spr round 5 (radius: 25)
[00:41:13 -118550.919575] FAST spr round 6 (radius: 25)
[00:43:31 -118550.918575] Model parameter optimization (eps = 1.000000)
[00:43:52 -118545.929505] SLOW spr round 1 (radius: 5)
[00:47:05 -118517.350979] SLOW spr round 2 (radius: 5)
[00:50:18 -118510.361287] SLOW spr round 3 (radius: 5)
[00:53:21 -118510.361128] SLOW spr round 4 (radius: 10)
[00:56:35 -118504.228309] SLOW spr round 5 (radius: 5)
[01:00:28 -118502.836071] SLOW spr round 6 (radius: 5)
[01:03:52 -118502.836067] SLOW spr round 7 (radius: 10)
[01:07:11 -118501.677087] SLOW spr round 8 (radius: 5)
[01:11:05 -118495.178901] SLOW spr round 9 (radius: 5)
[01:14:31 -118490.008630] SLOW spr round 10 (radius: 5)
[01:17:42 -118489.270590] SLOW spr round 11 (radius: 5)
[01:20:46 -118489.270445] SLOW spr round 12 (radius: 10)
[01:23:59 -118488.885326] SLOW spr round 13 (radius: 5)
[01:27:50 -118488.885205] SLOW spr round 14 (radius: 10)
[01:31:26 -118488.885205] SLOW spr round 15 (radius: 15)
[01:35:25] [worker #4] ML tree search #5, logLikelihood: -118482.309297
[01:37:03 -118486.530379] SLOW spr round 16 (radius: 5)
[01:41:10 -118486.135856] SLOW spr round 17 (radius: 5)
[01:44:40 -118486.135819] SLOW spr round 18 (radius: 10)
[01:48:00 -118486.135817] SLOW spr round 19 (radius: 15)
[01:51:00] [worker #1] ML tree search #2, logLikelihood: -118489.032129
[01:53:34 -118485.410884] SLOW spr round 20 (radius: 5)
[01:57:36 -118485.410776] SLOW spr round 21 (radius: 10)
[02:01:22 -118485.410776] SLOW spr round 22 (radius: 15)
[02:06:43 -118485.410776] SLOW spr round 23 (radius: 20)
[02:15:49 -118485.410776] SLOW spr round 24 (radius: 25)
[02:20:35] [worker #3] ML tree search #4, logLikelihood: -118488.534616
[02:28:20 -118485.410776] Model parameter optimization (eps = 0.100000)

[02:28:36] [worker #0] ML tree search #1, logLikelihood: -118485.283102

[02:28:36 -421783.477369] Initial branch length optimization
[02:28:51 -348894.439051] Model parameter optimization (eps = 10.000000)
[02:29:50 -348460.968828] AUTODETECT spr round 1 (radius: 5)
[02:32:12] [worker #2] ML tree search #3, logLikelihood: -118494.207178
[02:33:45 -249090.236498] AUTODETECT spr round 2 (radius: 10)
[02:37:51 -194514.693785] AUTODETECT spr round 3 (radius: 15)
[02:42:18 -165377.153033] AUTODETECT spr round 4 (radius: 20)
[02:47:35 -151451.973939] AUTODETECT spr round 5 (radius: 25)
[02:54:01 -143707.900913] SPR radius for FAST iterations: 25 (autodetect)
[02:54:01 -143707.900913] Model parameter optimization (eps = 3.000000)
[02:54:55 -143267.062487] FAST spr round 1 (radius: 25)
[02:59:56 -120075.500192] FAST spr round 2 (radius: 25)
[03:03:34 -118641.599826] FAST spr round 3 (radius: 25)
[03:06:27 -118548.186109] FAST spr round 4 (radius: 25)
[03:09:06 -118535.038796] FAST spr round 5 (radius: 25)
[03:11:33 -118532.245908] FAST spr round 6 (radius: 25)
[03:13:56 -118531.787408] FAST spr round 7 (radius: 25)
[03:16:17 -118531.786163] Model parameter optimization (eps = 1.000000)
[03:16:44 -118526.751866] SLOW spr round 1 (radius: 5)
[03:20:02 -118500.903257] SLOW spr round 2 (radius: 5)
[03:23:09 -118498.209427] SLOW spr round 3 (radius: 5)
[03:26:13 -118498.208895] SLOW spr round 4 (radius: 10)
[03:29:24 -118496.748156] SLOW spr round 5 (radius: 5)
[03:29:40] [worker #4] ML tree search #10, logLikelihood: -118500.776826
[03:33:16 -118496.748025] SLOW spr round 6 (radius: 10)
[03:36:49 -118496.655293] SLOW spr round 7 (radius: 15)
[03:40:42] [worker #1] ML tree search #7, logLikelihood: -118496.618605
[03:42:40 -118496.655293] SLOW spr round 8 (radius: 20)
[03:52:34 -118496.655293] SLOW spr round 9 (radius: 25)
[04:05:39 -118496.655293] Model parameter optimization (eps = 0.100000)

[04:05:54] [worker #0] ML tree search #6, logLikelihood: -118496.652170

[04:05:54 -421486.528528] Initial branch length optimization
[04:06:03 -348128.921831] Model parameter optimization (eps = 10.000000)
[04:07:16 -347525.879618] AUTODETECT spr round 1 (radius: 5)
[04:11:13 -256659.555798] AUTODETECT spr round 2 (radius: 10)
[04:15:16 -194036.015092] AUTODETECT spr round 3 (radius: 15)
[04:19:46 -154654.220291] AUTODETECT spr round 4 (radius: 20)
[04:24:35 -138544.015218] AUTODETECT spr round 5 (radius: 25)
[04:24:47] [worker #3] ML tree search #9, logLikelihood: -118499.243329
[04:30:06 -136622.364195] SPR radius for FAST iterations: 25 (autodetect)
[04:30:06 -136622.364195] Model parameter optimization (eps = 3.000000)
[04:30:50 -136198.343234] FAST spr round 1 (radius: 25)
[04:31:02] [worker #2] ML tree search #8, logLikelihood: -118501.938308
[04:35:30 -119334.768155] FAST spr round 2 (radius: 25)
[04:38:55 -118634.235487] FAST spr round 3 (radius: 25)
[04:41:53 -118562.418995] FAST spr round 4 (radius: 25)
[04:44:28 -118552.148669] FAST spr round 5 (radius: 25)
[04:46:52 -118552.148579] Model parameter optimization (eps = 1.000000)
[04:47:15 -118538.504871] SLOW spr round 1 (radius: 5)
[04:50:33 -118505.478282] SLOW spr round 2 (radius: 5)
[04:53:51 -118497.128972] SLOW spr round 3 (radius: 5)
[04:56:58 -118496.308966] SLOW spr round 4 (radius: 5)
[05:00:04 -118496.308955] SLOW spr round 5 (radius: 10)
[05:03:25 -118490.762284] SLOW spr round 6 (radius: 5)
[05:07:26 -118489.071743] SLOW spr round 7 (radius: 5)
[05:10:53 -118489.018338] SLOW spr round 8 (radius: 10)
[05:11:42] [worker #4] ML tree search #15, logLikelihood: -118485.913729
[05:14:13 -118488.381553] SLOW spr round 9 (radius: 5)
[05:18:03 -118488.380041] SLOW spr round 10 (radius: 10)
[05:21:38 -118488.379846] SLOW spr round 11 (radius: 15)
[05:27:15 -118487.837565] SLOW spr round 12 (radius: 5)
[05:31:20 -118487.835772] SLOW spr round 13 (radius: 10)
[05:32:09] [worker #1] ML tree search #12, logLikelihood: -118501.305745
[05:35:08 -118487.835583] SLOW spr round 14 (radius: 15)
[05:40:37 -118487.835561] SLOW spr round 15 (radius: 20)
[05:49:33 -118487.835557] SLOW spr round 16 (radius: 25)
[06:02:00 -118487.329030] SLOW spr round 17 (radius: 5)
[06:06:16 -118487.326987] SLOW spr round 18 (radius: 10)
[06:10:16 -118487.326866] SLOW spr round 19 (radius: 15)
[06:15:45 -118487.326854] SLOW spr round 20 (radius: 20)
[06:24:45 -118487.326851] SLOW spr round 21 (radius: 25)
[06:37:12 -118487.326849] Model parameter optimization (eps = 0.100000)

[06:37:25] [worker #0] ML tree search #11, logLikelihood: -118486.985072

[06:37:25 -419894.090601] Initial branch length optimization
[06:37:33 -346759.801181] Model parameter optimization (eps = 10.000000)
[06:38:26 -346216.129164] AUTODETECT spr round 1 (radius: 5)
[06:42:18 -249954.414494] AUTODETECT spr round 2 (radius: 10)
[06:46:20 -192924.078772] AUTODETECT spr round 3 (radius: 15)
[06:51:00 -167069.563109] AUTODETECT spr round 4 (radius: 20)
[06:56:03 -149166.511090] AUTODETECT spr round 5 (radius: 25)
[07:01:57] [worker #2] ML tree search #13, logLikelihood: -118481.911683
[07:02:17 -137213.310417] SPR radius for FAST iterations: 25 (autodetect)
[07:02:17 -137213.310417] Model parameter optimization (eps = 3.000000)
[07:02:54 -136763.551850] FAST spr round 1 (radius: 25)
[07:07:26 -119631.908865] FAST spr round 2 (radius: 25)
[07:08:49] [worker #3] ML tree search #14, logLikelihood: -118498.984307
[07:11:00 -118632.343583] FAST spr round 3 (radius: 25)
[07:13:58 -118577.546379] FAST spr round 4 (radius: 25)
[07:16:33 -118553.610360] FAST spr round 5 (radius: 25)
[07:19:00 -118550.712316] FAST spr round 6 (radius: 25)
[07:21:22 -118550.711023] Model parameter optimization (eps = 1.000000)
[07:21:43 -118543.685489] SLOW spr round 1 (radius: 5)
[07:25:04 -118500.246926] SLOW spr round 2 (radius: 5)
[07:28:22 -118488.776503] SLOW spr round 3 (radius: 5)
[07:31:36 -118485.369704] SLOW spr round 4 (radius: 5)
[07:34:46 -118485.149926] SLOW spr round 5 (radius: 5)
[07:37:51 -118485.149656] SLOW spr round 6 (radius: 10)
[07:41:04 -118483.930825] SLOW spr round 7 (radius: 5)
[07:45:00 -118482.171840] SLOW spr round 8 (radius: 5)
[07:48:26 -118482.170625] SLOW spr round 9 (radius: 10)
[07:51:46 -118482.170496] SLOW spr round 10 (radius: 15)
[07:58:00 -118482.076934] SLOW spr round 11 (radius: 20)
[07:59:51] [worker #4] ML tree search #20, logLikelihood: -118483.940733
[08:04:38] [worker #1] ML tree search #17, logLikelihood: -118499.676473
[08:08:12 -118482.076929] SLOW spr round 12 (radius: 25)
[08:21:46 -118482.076924] Model parameter optimization (eps = 0.100000)

[08:21:59] [worker #0] ML tree search #16, logLikelihood: -118481.781413

[09:01:10] [worker #3] ML tree search #19, logLikelihood: -118490.150811
[09:10:08] [worker #2] ML tree search #18, logLikelihood: -118481.501449

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.098663,0.600368) (0.196709,0.547182) (0.325881,0.695720) (0.378747,1.601089) 
   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: -118481.501449

AIC score: 240973.002898 / AICc score: 8285033.002898 / BIC score: 248017.427534
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=248).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 87 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/3_mltree/B2RNN3.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/3_mltree/B2RNN3.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/3_mltree/B2RNN3.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/3_mltree/B2RNN3.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/B2RNN3/3_mltree/B2RNN3.raxml.log

Analysis started: 03-Jul-2021 02:22:18 / finished: 03-Jul-2021 11:32:27

Elapsed time: 33008.792 seconds