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 02-Jul-2021 14:52:15 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/2_msa/Q4ZIN3_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/3_mltree/Q4ZIN3 --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/Q4ZIN3/2_msa/Q4ZIN3_trimmed_msa.fasta
[00:00:00] Loaded alignment with 253 taxa and 227 sites

WARNING: Sequences tr_E1BT98_E1BT98_CHICK_9031 and tr_G1MX72_G1MX72_MELGA_9103 are exactly identical!
WARNING: Sequences tr_E1BT98_E1BT98_CHICK_9031 and tr_A0A099ZLJ0_A0A099ZLJ0_TINGU_94827 are exactly identical!
WARNING: Sequences tr_E1BT98_E1BT98_CHICK_9031 and tr_A0A091G9N9_A0A091G9N9_9AVES_55661 are exactly identical!
WARNING: Sequences tr_E1BT98_E1BT98_CHICK_9031 and tr_A0A0A0ARM7_A0A0A0ARM7_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_E1BT98_E1BT98_CHICK_9031 and tr_A0A218UFH2_A0A218UFH2_9PASE_299123 are exactly identical!
WARNING: Sequences tr_E1BT98_E1BT98_CHICK_9031 and tr_A0A226NTA9_A0A226NTA9_COLVI_9014 are exactly identical!
WARNING: Sequences tr_G3R6I2_G3R6I2_GORGO_9595 and tr_A0A2I3SRK8_A0A2I3SRK8_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3R6I2_G3R6I2_GORGO_9595 and sp_Q4ZIN3_MBRL_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_C3YT08_C3YT08_BRAFL_7739 and tr_C3YTI9_C3YTI9_BRAFL_7739 are exactly identical!
WARNING: Sequences tr_Q28XG8_Q28XG8_DROPS_46245 and tr_B4GG42_B4GG42_DROPE_7234 are exactly identical!
WARNING: Sequences tr_W5PKW7_W5PKW7_SHEEP_9940 and tr_A0A287AVN2_A0A287AVN2_PIG_9823 are exactly identical!
WARNING: Sequences tr_A0A158Q195_A0A158Q195_BRUMA_6279 and tr_A0A0R3QML0_A0A0R3QML0_9BILA_42155 are exactly identical!
WARNING: Sequences tr_E5SL40_E5SL40_TRISP_6334 and tr_A0A0V0SI84_A0A0V0SI84_9BILA_6336 are exactly identical!
WARNING: Sequences tr_E5SL40_E5SL40_TRISP_6334 and tr_A0A0V0ZNX3_A0A0V0ZNX3_9BILA_990121 are exactly identical!
WARNING: Sequences tr_Q0VA72_Q0VA72_XENTR_8364 and tr_A0A1L8HWI5_A0A1L8HWI5_XENLA_8355 are exactly identical!
WARNING: Sequences tr_B3S401_B3S401_TRIAD_10228 and tr_A0A369S9U0_A0A369S9U0_9METZ_287889 are exactly identical!
WARNING: Sequences tr_A0A2I3LUR5_A0A2I3LUR5_PAPAN_9555 and tr_A0A0D9RJ76_A0A0D9RJ76_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A2I3LUR5_A0A2I3LUR5_PAPAN_9555 and tr_A0A2K5MTH7_A0A2K5MTH7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I3LUR5_A0A2I3LUR5_PAPAN_9555 and tr_A0A2K6DWM9_A0A2K6DWM9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A151P0R3_A0A151P0R3_ALLMI_8496 and tr_A0A1U8DT44_A0A1U8DT44_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A194QEU5_A0A194QEU5_PAPXU_66420 and tr_A0A2A4J6E0_A0A2A4J6E0_HELVI_7102 are exactly identical!
WARNING: Sequences tr_A0A194QEU5_A0A194QEU5_PAPXU_66420 and tr_A0A2P8ZKJ2_A0A2P8ZKJ2_BLAGE_6973 are exactly identical!
WARNING: Sequences tr_A0A0V1CH27_A0A0V1CH27_TRIBR_45882 and tr_A0A0V0UYY1_A0A0V0UYY1_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1CH27_A0A0V1CH27_TRIBR_45882 and tr_A0A0V0TN99_A0A0V0TN99_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V0WBG0_A0A0V0WBG0_9BILA_92179 and tr_A0A0V1L434_A0A0V1L434_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A1S3IK15_A0A1S3IK15_LINUN_7574 and tr_A0A1S3IKD0_A0A1S3IKD0_LINUN_7574 are exactly identical!
WARNING: Sequences tr_A0A2D0RRN0_A0A2D0RRN0_ICTPU_7998 and tr_A0A2D0RRN4_A0A2D0RRN4_ICTPU_7998 are exactly identical!
WARNING: Duplicate sequences found: 27

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/Q4ZIN3/3_mltree/Q4ZIN3.raxml.reduced.phy

Alignment comprises 1 partitions and 227 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 227 / 227
Gaps: 17.99 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/3_mltree/Q4ZIN3.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 253 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 227 / 18160
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -54201.698236] Initial branch length optimization
[00:00:00 -41584.290174] Model parameter optimization (eps = 10.000000)
[00:00:12 -41464.982161] AUTODETECT spr round 1 (radius: 5)
[00:00:28 -35348.589380] AUTODETECT spr round 2 (radius: 10)
[00:00:48 -29730.931094] AUTODETECT spr round 3 (radius: 15)
[00:01:15 -24226.895880] AUTODETECT spr round 4 (radius: 20)
[00:01:45 -23803.009158] AUTODETECT spr round 5 (radius: 25)
[00:02:13 -23602.758149] SPR radius for FAST iterations: 25 (autodetect)
[00:02:13 -23602.758149] Model parameter optimization (eps = 3.000000)
[00:02:27 -23322.370764] FAST spr round 1 (radius: 25)
[00:02:51 -21338.259054] FAST spr round 2 (radius: 25)
[00:03:09 -21215.079334] FAST spr round 3 (radius: 25)
[00:03:26 -20817.493612] FAST spr round 4 (radius: 25)
[00:03:41 -20815.677055] FAST spr round 5 (radius: 25)
[00:03:55 -20815.647889] Model parameter optimization (eps = 1.000000)
[00:04:05 -20809.005903] SLOW spr round 1 (radius: 5)
[00:04:28 -20803.959338] SLOW spr round 2 (radius: 5)
[00:04:53 -20801.452488] SLOW spr round 3 (radius: 5)
[00:05:19 -20798.112450] SLOW spr round 4 (radius: 5)
[00:05:42 -20798.111839] SLOW spr round 5 (radius: 10)
[00:06:06 -20797.286060] SLOW spr round 6 (radius: 5)
[00:06:39 -20796.726017] SLOW spr round 7 (radius: 5)
[00:07:08 -20791.023508] SLOW spr round 8 (radius: 5)
[00:07:33 -20790.270913] SLOW spr round 9 (radius: 5)
[00:07:57 -20790.268120] SLOW spr round 10 (radius: 10)
[00:08:21 -20790.267811] SLOW spr round 11 (radius: 15)
[00:08:32] [worker #4] ML tree search #5, logLikelihood: -20790.975307
[00:09:03 -20790.267665] SLOW spr round 12 (radius: 20)
[00:09:33] [worker #3] ML tree search #4, logLikelihood: -20797.235528
[00:09:52 -20790.267595] SLOW spr round 13 (radius: 25)
[00:10:37 -20790.267561] Model parameter optimization (eps = 0.100000)

[00:10:43] [worker #0] ML tree search #1, logLikelihood: -20789.642719

[00:10:43 -53763.807542] Initial branch length optimization
[00:10:44 -41524.898516] Model parameter optimization (eps = 10.000000)
[00:10:58 -41232.434917] AUTODETECT spr round 1 (radius: 5)
[00:11:13 -34615.722272] AUTODETECT spr round 2 (radius: 10)
[00:11:32 -30128.927779] AUTODETECT spr round 3 (radius: 15)
[00:11:56 -26138.996914] AUTODETECT spr round 4 (radius: 20)
[00:12:20 -23308.652244] AUTODETECT spr round 5 (radius: 25)
[00:12:49 -23036.930076] SPR radius for FAST iterations: 25 (autodetect)
[00:12:49 -23036.930076] Model parameter optimization (eps = 3.000000)
[00:13:00 -22918.901594] FAST spr round 1 (radius: 25)
[00:13:22 -20988.443675] FAST spr round 2 (radius: 25)
[00:13:41 -20824.149726] FAST spr round 3 (radius: 25)
[00:13:57 -20822.510326] FAST spr round 4 (radius: 25)
[00:14:11 -20822.220473] FAST spr round 5 (radius: 25)
[00:14:25 -20822.134031] Model parameter optimization (eps = 1.000000)
[00:14:28] [worker #2] ML tree search #3, logLikelihood: -20779.031219
[00:14:42 -20815.511597] SLOW spr round 1 (radius: 5)
[00:15:07 -20802.571281] SLOW spr round 2 (radius: 5)
[00:15:33 -20802.089197] SLOW spr round 3 (radius: 5)
[00:15:57 -20802.087667] SLOW spr round 4 (radius: 10)
[00:16:22 -20801.199177] SLOW spr round 5 (radius: 5)
[00:16:55 -20800.970121] SLOW spr round 6 (radius: 5)
[00:16:59] [worker #1] ML tree search #2, logLikelihood: -20790.138797
[00:17:22 -20800.969363] SLOW spr round 7 (radius: 10)
[00:17:50 -20797.964528] SLOW spr round 8 (radius: 5)
[00:18:23 -20795.156126] SLOW spr round 9 (radius: 5)
[00:18:50 -20795.155593] SLOW spr round 10 (radius: 10)
[00:19:17 -20795.155365] SLOW spr round 11 (radius: 15)
[00:19:50] [worker #4] ML tree search #10, logLikelihood: -20779.076035
[00:20:00 -20795.155345] SLOW spr round 12 (radius: 20)
[00:20:11] [worker #3] ML tree search #9, logLikelihood: -20786.643086
[00:20:46 -20790.541889] SLOW spr round 13 (radius: 5)
[00:21:22 -20790.539189] SLOW spr round 14 (radius: 10)
[00:21:56 -20789.783944] SLOW spr round 15 (radius: 5)
[00:22:27 -20789.781821] SLOW spr round 16 (radius: 10)
[00:22:57 -20789.505078] SLOW spr round 17 (radius: 5)
[00:23:28 -20789.503743] SLOW spr round 18 (radius: 10)
[00:23:58 -20789.503720] SLOW spr round 19 (radius: 15)
[00:24:39 -20789.503718] SLOW spr round 20 (radius: 20)
[00:25:27 -20789.503716] SLOW spr round 21 (radius: 25)
[00:26:12 -20789.503715] Model parameter optimization (eps = 0.100000)

[00:26:18] [worker #0] ML tree search #6, logLikelihood: -20788.496267

[00:26:18 -53540.692173] Initial branch length optimization
[00:26:19 -41218.466501] Model parameter optimization (eps = 10.000000)
[00:26:32 -40941.774237] AUTODETECT spr round 1 (radius: 5)
[00:26:47 -33867.293199] AUTODETECT spr round 2 (radius: 10)
[00:27:09 -27492.573515] AUTODETECT spr round 3 (radius: 15)
[00:27:10] [worker #2] ML tree search #8, logLikelihood: -20788.465831
[00:27:38 -22879.091234] AUTODETECT spr round 4 (radius: 20)
[00:28:08 -22565.596835] AUTODETECT spr round 5 (radius: 25)
[00:28:38 -22558.021867] SPR radius for FAST iterations: 25 (autodetect)
[00:28:38 -22558.021867] Model parameter optimization (eps = 3.000000)
[00:28:50 -22452.632889] FAST spr round 1 (radius: 25)
[00:29:14] [worker #1] ML tree search #7, logLikelihood: -20796.590444
[00:29:14 -20971.730984] FAST spr round 2 (radius: 25)
[00:29:33 -20910.649069] FAST spr round 3 (radius: 25)
[00:29:50 -20901.985934] FAST spr round 4 (radius: 25)
[00:30:04 -20901.985290] Model parameter optimization (eps = 1.000000)
[00:30:10 -20899.742708] SLOW spr round 1 (radius: 5)
[00:30:36 -20890.914885] SLOW spr round 2 (radius: 5)
[00:31:01 -20890.516936] SLOW spr round 3 (radius: 5)
[00:31:27 -20889.586822] SLOW spr round 4 (radius: 5)
[00:31:53 -20888.940879] SLOW spr round 5 (radius: 5)
[00:32:18 -20888.939964] SLOW spr round 6 (radius: 10)
[00:32:43 -20883.812324] SLOW spr round 7 (radius: 5)
[00:33:17 -20883.540885] SLOW spr round 8 (radius: 5)
[00:33:45 -20883.532143] SLOW spr round 9 (radius: 10)
[00:34:11 -20883.528503] SLOW spr round 10 (radius: 15)
[00:34:51 -20883.305389] SLOW spr round 11 (radius: 5)
[00:35:24 -20883.301015] SLOW spr round 12 (radius: 10)
[00:35:41] [worker #4] ML tree search #15, logLikelihood: -20776.829577
[00:35:56 -20883.299360] SLOW spr round 13 (radius: 15)
[00:36:12] [worker #2] ML tree search #13, logLikelihood: -20803.857854
[00:36:35 -20883.298512] SLOW spr round 14 (radius: 20)
[00:37:22 -20878.849958] SLOW spr round 15 (radius: 5)
[00:37:40] [worker #3] ML tree search #14, logLikelihood: -20792.478106
[00:37:57 -20878.344083] SLOW spr round 16 (radius: 5)
[00:38:27 -20878.343533] SLOW spr round 17 (radius: 10)
[00:38:53 -20878.343468] SLOW spr round 18 (radius: 15)
[00:39:09] [worker #1] ML tree search #12, logLikelihood: -20789.079985
[00:39:33 -20878.343446] SLOW spr round 19 (radius: 20)
[00:40:17 -20878.343438] SLOW spr round 20 (radius: 25)
[00:40:59 -20878.343434] Model parameter optimization (eps = 0.100000)

[00:41:03] [worker #0] ML tree search #11, logLikelihood: -20878.285009

[00:41:03 -53548.507500] Initial branch length optimization
[00:41:03 -41574.800810] Model parameter optimization (eps = 10.000000)
[00:41:20 -41272.469786] AUTODETECT spr round 1 (radius: 5)
[00:41:35 -33281.807524] AUTODETECT spr round 2 (radius: 10)
[00:41:54 -29697.877417] AUTODETECT spr round 3 (radius: 15)
[00:42:17 -27037.541675] AUTODETECT spr round 4 (radius: 20)
[00:42:44 -24567.180726] AUTODETECT spr round 5 (radius: 25)
[00:43:10 -24072.640704] SPR radius for FAST iterations: 25 (autodetect)
[00:43:10 -24072.640704] Model parameter optimization (eps = 3.000000)
[00:43:23 -23983.079670] FAST spr round 1 (radius: 25)
[00:43:45 -20918.812527] FAST spr round 2 (radius: 25)
[00:44:03 -20830.329175] FAST spr round 3 (radius: 25)
[00:44:21 -20822.254106] FAST spr round 4 (radius: 25)
[00:44:36 -20819.535142] FAST spr round 5 (radius: 25)
[00:44:49 -20817.570125] FAST spr round 6 (radius: 25)
[00:45:03 -20817.569715] Model parameter optimization (eps = 1.000000)
[00:45:13 -20806.454381] SLOW spr round 1 (radius: 5)
[00:45:37 -20795.010484] SLOW spr round 2 (radius: 5)
[00:45:49] [worker #2] ML tree search #18, logLikelihood: -20790.310128
[00:46:03 -20794.824596] SLOW spr round 3 (radius: 5)
[00:46:28 -20794.824091] SLOW spr round 4 (radius: 10)
[00:46:34] [worker #4] ML tree search #20, logLikelihood: -20781.764296
[00:46:54 -20792.135494] SLOW spr round 5 (radius: 5)
[00:47:28 -20789.098857] SLOW spr round 6 (radius: 5)
[00:47:56 -20788.958058] SLOW spr round 7 (radius: 5)
[00:48:20] [worker #3] ML tree search #19, logLikelihood: -20779.431858
[00:48:22 -20788.957382] SLOW spr round 8 (radius: 10)
[00:48:47 -20788.585083] SLOW spr round 9 (radius: 5)
[00:49:19 -20788.579849] SLOW spr round 10 (radius: 10)
[00:49:50 -20788.577905] SLOW spr round 11 (radius: 15)
[00:50:32 -20785.624609] SLOW spr round 12 (radius: 5)
[00:51:06 -20785.620363] SLOW spr round 13 (radius: 10)
[00:51:38 -20785.619766] SLOW spr round 14 (radius: 15)
[00:52:19 -20785.619638] SLOW spr round 15 (radius: 20)
[00:52:52] [worker #1] ML tree search #17, logLikelihood: -20781.672109
[00:53:10 -20785.619597] SLOW spr round 16 (radius: 25)
[00:53:53 -20785.619577] Model parameter optimization (eps = 0.100000)

[00:53:58] [worker #0] ML tree search #16, logLikelihood: -20785.224983


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.243569,0.437569) (0.251590,1.695648) (0.384598,0.613502) (0.120243,1.919961) 
   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: -20776.829577

AIC score: 42571.659154 / AICc score: 561751.659154 / BIC score: 44314.958713
Free parameters (model + branch lengths): 509

WARNING: Number of free parameters (K=509) is larger than alignment size (n=227).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 1 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/3_mltree/Q4ZIN3.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/3_mltree/Q4ZIN3.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/3_mltree/Q4ZIN3.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/3_mltree/Q4ZIN3.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q4ZIN3/3_mltree/Q4ZIN3.raxml.log

Analysis started: 02-Jul-2021 14:52:15 / finished: 02-Jul-2021 15:46:14

Elapsed time: 3238.982 seconds