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 13-Jul-2021 14:12:24 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/2_msa/Q8IXB3_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/3_mltree/Q8IXB3 --seed 2 --threads 1 --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), NONE/sequential

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/2_msa/Q8IXB3_trimmed_msa.fasta
[00:00:00] Loaded alignment with 298 taxa and 29 sites

WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_H2L5W3_H2L5W3_ORYLA_8090 are exactly identical!
WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_I3J870_I3J870_ORENI_8128 are exactly identical!
WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_H2THU7_H2THU7_TAKRU_31033 are exactly identical!
WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_G3PHT9_G3PHT9_GASAC_69293 are exactly identical!
WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_W5KB10_W5KB10_ASTMX_7994 are exactly identical!
WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_A0A087Y873_A0A087Y873_POEFO_48698 are exactly identical!
WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_A0A1S3T341_A0A1S3T341_SALSA_8030 are exactly identical!
WARNING: Sequences tr_Q1LVM2_Q1LVM2_DANRE_7955 and tr_A0A2U9B3R7_A0A2U9B3R7_SCOMX_52904 are exactly identical!
WARNING: Sequences tr_A0A1D5P1G0_A0A1D5P1G0_CHICK_9031 and tr_A0A091F7E5_A0A091F7E5_CORBR_85066 are exactly identical!
WARNING: Sequences tr_A0A1D5P1G0_A0A1D5P1G0_CHICK_9031 and tr_A0A093QEK1_A0A093QEK1_9PASS_328815 are exactly identical!
WARNING: Sequences tr_A0A1D5P1G0_A0A1D5P1G0_CHICK_9031 and tr_A0A226MKX5_A0A226MKX5_CALSU_9009 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_M3YM04_M3YM04_MUSPF_9669 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2I3G3P3_A0A2I3G3P3_NOMLE_61853 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_G1Q595_G1Q595_MYOLU_59463 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2I2YQ23_A0A2I2YQ23_GORGO_9595 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_H2NQM0_H2NQM0_PONAB_9601 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and sp_Q5RAC1_PRRT2_PONAB_9601 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_G1T498_G1T498_RABIT_9986 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_E2RRX8_E2RRX8_CANLF_9615 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2I3T6U6_A0A2I3T6U6_PANTR_9598 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_F6Z1R7_F6Z1R7_HORSE_9796 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_W5P632_W5P632_SHEEP_9940 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and sp_D3ZFB6_PRRT2_RAT_10116 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_I3LYM8_I3LYM8_ICTTR_43179 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_H0UWD6_H0UWD6_CAVPO_10141 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and sp_Q7Z6L0_PRRT2_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_F6YBL7_F6YBL7_MACMU_9544 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_G5BYM6_G5BYM6_HETGA_10181 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_G3UNP7_G3UNP7_LOXAF_9785 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_F7BIC3_F7BIC3_CALJA_9483 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_I3LFE5_I3LFE5_PIG_9823 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_D2HX33_D2HX33_AILME_9646 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_G7Q0V1_G7Q0V1_MACFA_9541 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_G3N2W2_G3N2W2_BOVIN_9913 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_L5KI14_L5KI14_PTEAL_9402 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2I2UVK9_A0A2I2UVK9_FELCA_9685 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A096NMJ3_A0A096NMJ3_PAPAN_9555 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A091DZ05_A0A091DZ05_FUKDA_885580 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A0D9R1C2_A0A0D9R1C2_CHLSB_60711 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A1S3ERC2_A0A1S3ERC2_DIPOR_10020 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A3Q0EHE8_A0A3Q0EHE8_TARSY_1868482 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A1U7Q2M1_A0A1U7Q2M1_MESAU_10036 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2K5NTP8_A0A2K5NTP8_CERAT_9531 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2K6DA04_A0A2K6DA04_MACNE_9545 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2K5ZFT8_A0A2K5ZFT8_MANLE_9568 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2R9C8Z9_A0A2R9C8Z9_PANPA_9597 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2U3VQ11_A0A2U3VQ11_ODORO_9708 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2U3Y2X6_A0A2U3Y2X6_LEPWE_9713 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2Y9L875_A0A2Y9L875_ENHLU_391180 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A2Y9SL54_A0A2Y9SL54_PHYCD_9755 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A384BMZ9_A0A384BMZ9_URSMA_29073 are exactly identical!
WARNING: Sequences sp_E9PUL5_PRRT2_MOUSE_10090 and tr_A0A384AGU4_A0A384AGU4_BALAS_310752 are exactly identical!
WARNING: Sequences sp_Q8C838_TARG1_MOUSE_10090 and tr_G3HR91_G3HR91_CRIGR_10029 are exactly identical!
WARNING: Sequences sp_Q8C838_TARG1_MOUSE_10090 and sp_Q2MHH0_TARG1_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q8C838_TARG1_MOUSE_10090 and tr_H0VW98_H0VW98_CAVPO_10141 are exactly identical!
WARNING: Sequences sp_Q8C838_TARG1_MOUSE_10090 and tr_A0A3Q0CMR8_A0A3Q0CMR8_MESAU_10036 are exactly identical!
WARNING: Sequences tr_M3YAQ8_M3YAQ8_MUSPF_9669 and tr_D2I618_D2I618_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3YAQ8_M3YAQ8_MUSPF_9669 and tr_A0A2U3W6K2_A0A2U3W6K2_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_G1U061_G1U061_RABIT_9986 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_F6X548_F6X548_CANLF_9615 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_F6YT55_F6YT55_HORSE_9796 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_G1LAX1_G1LAX1_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_A0A3Q0DRY3_A0A3Q0DRY3_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_A0A2U3W7J8_A0A2U3W7J8_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_A0A2U3XT15_A0A2U3XT15_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_A0A2Y9K7S5_A0A2Y9K7S5_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3YQV0_M3YQV0_MUSPF_9669 and tr_A0A384CGJ4_A0A384CGJ4_URSMA_29073 are exactly identical!
WARNING: Sequences tr_A0A3B3HIA6_A0A3B3HIA6_ORYLA_8090 and tr_M4AVW2_M4AVW2_XIPMA_8083 are exactly identical!
WARNING: Sequences tr_A0A3B3HIA6_A0A3B3HIA6_ORYLA_8090 and tr_A0A3B5KWP9_A0A3B5KWP9_TAKRU_31033 are exactly identical!
WARNING: Sequences tr_A0A3B3HIA6_A0A3B3HIA6_ORYLA_8090 and tr_A0A096MGI4_A0A096MGI4_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A3B3HIA6_A0A3B3HIA6_ORYLA_8090 and tr_A0A2I4BNX2_A0A2I4BNX2_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A3B3HIA6_A0A3B3HIA6_ORYLA_8090 and tr_A0A2U9CM05_A0A2U9CM05_SCOMX_52904 are exactly identical!
WARNING: Sequences tr_A0A3B3HL99_A0A3B3HL99_ORYLA_8090 and tr_A0A3B5R1H9_A0A3B5R1H9_XIPMA_8083 are exactly identical!
WARNING: Sequences tr_A0A3B3HL99_A0A3B3HL99_ORYLA_8090 and tr_A0A087XW22_A0A087XW22_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A3B3HL99_A0A3B3HL99_ORYLA_8090 and tr_A0A2I4D0T1_A0A2I4D0T1_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A2I3HQG0_A0A2I3HQG0_NOMLE_61853 and tr_G3RZD9_G3RZD9_GORGO_9595 are exactly identical!
WARNING: Sequences tr_A0A2I3HQG0_A0A2I3HQG0_NOMLE_61853 and tr_H2RF92_H2RF92_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2I3HQG0_A0A2I3HQG0_NOMLE_61853 and sp_B4DJY2_TM233_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3HQG0_A0A2I3HQG0_NOMLE_61853 and tr_A0A1U7UFL9_A0A1U7UFL9_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_A0A2I3HQG0_A0A2I3HQG0_NOMLE_61853 and tr_A0A2R9A5H0_A0A2R9A5H0_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G1QIM1_G1QIM1_NOMLE_61853 and tr_G3QUW3_G3QUW3_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1QIM1_G1QIM1_NOMLE_61853 and tr_H2NS45_H2NS45_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G1QIM1_G1QIM1_NOMLE_61853 and tr_H2RBV5_H2RBV5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1QIM1_G1QIM1_NOMLE_61853 and sp_Q8IXB3_TARG1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1QIM1_G1QIM1_NOMLE_61853 and tr_A0A2R9ACJ5_A0A2R9ACJ5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_H2P183_H2P183_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_F6Z8R1_F6Z8R1_HORSE_9796 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_K7FNQ7_K7FNQ7_PELSI_13735 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_D2I2H4_D2I2H4_AILME_9646 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_A0A0P7U055_A0A0P7U055_9TELE_113540 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_A0A060YF25_A0A060YF25_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_A0A2Y9R0W4_A0A2Y9R0W4_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_G1PL53_G1PL53_MYOLU_59463 and tr_A0A2Y9PSR4_A0A2Y9PSR4_DELLE_9749 are exactly identical!
WARNING: Sequences tr_G3GU66_G3GU66_CRIGR_10029 and tr_A0A1U8CHR6_A0A1U8CHR6_MESAU_10036 are exactly identical!
WARNING: Sequences tr_J9P2R0_J9P2R0_CANLF_9615 and tr_G1MC62_G1MC62_AILME_9646 are exactly identical!
WARNING: Sequences tr_J9P2R0_J9P2R0_CANLF_9615 and tr_L5KVS7_L5KVS7_PTEAL_9402 are exactly identical!
WARNING: Sequences tr_J9P2R0_J9P2R0_CANLF_9615 and tr_A0A2U3VNP2_A0A2U3VNP2_ODORO_9708 are exactly identical!
WARNING: Sequences tr_J9P2R0_J9P2R0_CANLF_9615 and tr_A0A2Y9KNA1_A0A2Y9KNA1_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_J9P2R0_J9P2R0_CANLF_9615 and tr_A0A384DFZ0_A0A384DFZ0_URSMA_29073 are exactly identical!
WARNING: Sequences tr_K7ED89_K7ED89_ORNAN_9258 and tr_A0A2I0LZ73_A0A2I0LZ73_COLLI_8932 are exactly identical!
WARNING: Sequences tr_W5PMV3_W5PMV3_SHEEP_9940 and tr_A4IFD6_A4IFD6_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_A0A3B5Q1S5_A0A3B5Q1S5_XIPMA_8083 and tr_A0A087XUU2_A0A087XUU2_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A3B5Q1S5_A0A3B5Q1S5_XIPMA_8083 and tr_A0A096LYG3_A0A096LYG3_POEFO_48698 are exactly identical!
WARNING: Sequences tr_M3ZRG4_M3ZRG4_XIPMA_8083 and tr_A0A2I4CKT6_A0A2I4CKT6_9TELE_52670 are exactly identical!
WARNING: Sequences tr_M3ZRG4_M3ZRG4_XIPMA_8083 and tr_A0A2D0QQA7_A0A2D0QQA7_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_M4A210_M4A210_XIPMA_8083 and tr_A0A087XHF1_A0A087XHF1_POEFO_48698 are exactly identical!
WARNING: Sequences tr_M4A210_M4A210_XIPMA_8083 and tr_A0A096M4H1_A0A096M4H1_POEFO_48698 are exactly identical!
WARNING: Sequences tr_I3NAV6_I3NAV6_ICTTR_43179 and tr_L5JRC6_L5JRC6_PTEAL_9402 are exactly identical!
WARNING: Sequences tr_I3NAV6_I3NAV6_ICTTR_43179 and tr_A0A1S2ZK05_A0A1S2ZK05_ERIEU_9365 are exactly identical!
WARNING: Sequences tr_I3NAV6_I3NAV6_ICTTR_43179 and tr_A0A1S3F780_A0A1S3F780_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_A0A1D5Q5C8_A0A1D5Q5C8_MACMU_9544 and tr_A0A2I3LSL1_A0A2I3LSL1_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5Q5C8_A0A1D5Q5C8_MACMU_9544 and tr_A0A0D9S4F6_A0A0D9S4F6_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A1D5Q5C8_A0A1D5Q5C8_MACMU_9544 and tr_A0A2K5MHJ9_A0A2K5MHJ9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5Q5C8_A0A1D5Q5C8_MACMU_9544 and tr_A0A2K6ASF3_A0A2K6ASF3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5Q5C8_A0A1D5Q5C8_MACMU_9544 and tr_A0A2K5XGD0_A0A2K5XGD0_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A1D5Q694_A0A1D5Q694_MACMU_9544 and tr_G7PSZ0_G7PSZ0_MACFA_9541 are exactly identical!
WARNING: Sequences tr_A0A1D5Q694_A0A1D5Q694_MACMU_9544 and tr_A0A2I3MED7_A0A2I3MED7_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5Q694_A0A1D5Q694_MACMU_9544 and tr_A0A0D9RNN0_A0A0D9RNN0_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A1D5Q694_A0A1D5Q694_MACMU_9544 and tr_A0A2K5N630_A0A2K5N630_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A1D5Q694_A0A1D5Q694_MACMU_9544 and tr_A0A2K6AZJ5_A0A2K6AZJ5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5Q694_A0A1D5Q694_MACMU_9544 and tr_A0A2K6AEY0_A0A2K6AEY0_MANLE_9568 are exactly identical!
WARNING: Sequences tr_W4Y0F5_W4Y0F5_STRPU_7668 and tr_W4Y3S8_W4Y3S8_STRPU_7668 are exactly identical!
WARNING: Sequences tr_G3TM22_G3TM22_LOXAF_9785 and tr_A0A2Y9QXH3_A0A2Y9QXH3_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_H3BFR0_H3BFR0_LATCH_7897 and tr_W5NA57_W5NA57_LEPOC_7918 are exactly identical!
WARNING: Sequences tr_A0A0Q3PBP4_A0A0Q3PBP4_AMAAE_12930 and tr_A0A226MWB7_A0A226MWB7_CALSU_9009 are exactly identical!
WARNING: Sequences tr_A0A0Q3PBP4_A0A0Q3PBP4_AMAAE_12930 and tr_A0A226NZX6_A0A226NZX6_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A091JE66_A0A091JE66_EGRGA_188379 and tr_A0A087RHZ4_A0A087RHZ4_APTFO_9233 are exactly identical!
WARNING: Sequences tr_A0A091JE66_A0A091JE66_EGRGA_188379 and tr_A0A0A0AQG2_A0A0A0AQG2_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A091JE66_A0A091JE66_EGRGA_188379 and tr_A0A091IGW0_A0A091IGW0_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A1S3LAC7_A0A1S3LAC7_SALSA_8030 and tr_A0A060WIK5_A0A060WIK5_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3NHM3_A0A1S3NHM3_SALSA_8030 and tr_A0A060X8Q4_A0A060X8Q4_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3NSJ6_A0A1S3NSJ6_SALSA_8030 and tr_A0A060YWV9_A0A060YWV9_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3P936_A0A1S3P936_SALSA_8030 and tr_A0A1S3R7T9_A0A1S3R7T9_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A1S3P936_A0A1S3P936_SALSA_8030 and tr_A0A060WV68_A0A060WV68_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3SZX9_A0A1S3SZX9_SALSA_8030 and tr_A0A060XBW2_A0A060XBW2_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1L8F3Z8_A0A1L8F3Z8_XENLA_8355 and tr_A0A1L8F8X7_A0A1L8F8X7_XENLA_8355 are exactly identical!
WARNING: Sequences tr_A0A1L8H4X1_A0A1L8H4X1_XENLA_8355 and tr_A0A1L8HD21_A0A1L8HD21_XENLA_8355 are exactly identical!
WARNING: Sequences tr_A0A1L8HQ60_A0A1L8HQ60_XENLA_8355 and tr_A0A1L8I091_A0A1L8I091_XENLA_8355 are exactly identical!
WARNING: Sequences tr_A0A1V4JRA1_A0A1V4JRA1_PATFA_372326 and tr_A0A226NW14_A0A226NW14_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A226NL17_A0A226NL17_CALSU_9009 and tr_A0A226PMV5_A0A226PMV5_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2U4APJ4_A0A2U4APJ4_TURTR_9739 and tr_A0A2Y9Q802_A0A2Y9Q802_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4APJ4_A0A2U4APJ4_TURTR_9739 and tr_A0A2Y9FK92_A0A2Y9FK92_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_A0A2U4APJ4_A0A2U4APJ4_TURTR_9739 and tr_A0A384A996_A0A384A996_BALAS_310752 are exactly identical!
WARNING: Sequences tr_A0A2U4CJF2_A0A2U4CJF2_TURTR_9739 and tr_A0A2Y9QEG3_A0A2Y9QEG3_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4CJF2_A0A2U4CJF2_TURTR_9739 and tr_A0A2Y9FFX5_A0A2Y9FFX5_PHYCD_9755 are exactly identical!
WARNING: Duplicate sequences found: 145

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/Q8IXB3/3_mltree/Q8IXB3.raxml.reduced.phy

Alignment comprises 1 partitions and 29 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 29 / 29
Gaps: 0.72 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/3_mltree/Q8IXB3.raxml.rba

Parallelization scheme autoconfig: 1 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 298 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 29 / 2320
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -12516.304081] Initial branch length optimization
[00:00:00 -10296.596114] Model parameter optimization (eps = 10.000000)
[00:00:08 -10001.044318] AUTODETECT spr round 1 (radius: 5)
[00:00:14 -6118.417281] AUTODETECT spr round 2 (radius: 10)
[00:00:22 -4009.943129] AUTODETECT spr round 3 (radius: 15)
[00:00:31 -3617.613471] AUTODETECT spr round 4 (radius: 20)
[00:00:40 -3160.787668] AUTODETECT spr round 5 (radius: 25)
[00:00:49 -3075.588767] SPR radius for FAST iterations: 25 (autodetect)
[00:00:49 -3075.588767] Model parameter optimization (eps = 3.000000)
[00:00:56 -3064.495212] FAST spr round 1 (radius: 25)
[00:01:03 -2668.355295] FAST spr round 2 (radius: 25)
[00:01:10 -2629.427078] FAST spr round 3 (radius: 25)
[00:01:17 -2627.377598] FAST spr round 4 (radius: 25)
[00:01:23 -2623.773954] FAST spr round 5 (radius: 25)
[00:01:30 -2623.773944] Model parameter optimization (eps = 1.000000)
[00:01:32 -2623.138376] SLOW spr round 1 (radius: 5)
[00:01:40 -2622.638445] SLOW spr round 2 (radius: 5)
[00:01:47 -2622.638415] SLOW spr round 3 (radius: 10)
[00:01:55 -2617.869928] SLOW spr round 4 (radius: 5)
[00:02:04 -2617.829279] SLOW spr round 5 (radius: 10)
[00:02:12 -2617.829264] SLOW spr round 6 (radius: 15)
[00:02:21 -2613.553688] SLOW spr round 7 (radius: 5)
[00:02:31 -2611.672307] SLOW spr round 8 (radius: 5)
[00:02:40 -2611.528398] SLOW spr round 9 (radius: 5)
[00:02:47 -2611.528369] SLOW spr round 10 (radius: 10)
[00:02:55 -2611.528367] SLOW spr round 11 (radius: 15)
[00:03:03 -2611.528367] SLOW spr round 12 (radius: 20)
[00:03:13 -2611.528367] SLOW spr round 13 (radius: 25)
[00:03:25 -2603.966925] SLOW spr round 14 (radius: 5)
[00:03:36 -2603.966925] SLOW spr round 15 (radius: 10)
[00:03:44 -2603.966925] SLOW spr round 16 (radius: 15)
[00:03:53 -2603.432459] SLOW spr round 17 (radius: 5)
[00:04:03 -2603.432459] SLOW spr round 18 (radius: 10)
[00:04:11 -2603.432459] SLOW spr round 19 (radius: 15)
[00:04:19 -2603.432459] SLOW spr round 20 (radius: 20)
[00:04:30 -2603.432459] SLOW spr round 21 (radius: 25)
[00:04:42 -2603.432459] Model parameter optimization (eps = 0.100000)

[00:04:46] ML tree search #1, logLikelihood: -2603.084016

[00:04:47 -12563.242628] Initial branch length optimization
[00:04:47 -10285.789440] Model parameter optimization (eps = 10.000000)
[00:04:51 -10241.235652] AUTODETECT spr round 1 (radius: 5)
[00:04:57 -6005.383602] AUTODETECT spr round 2 (radius: 10)
[00:05:04 -4090.267513] AUTODETECT spr round 3 (radius: 15)
[00:05:13 -3361.891257] AUTODETECT spr round 4 (radius: 20)
[00:05:23 -3215.436867] AUTODETECT spr round 5 (radius: 25)
[00:05:33 -3177.308900] SPR radius for FAST iterations: 25 (autodetect)
[00:05:33 -3177.308900] Model parameter optimization (eps = 3.000000)
[00:05:39 -3120.140421] FAST spr round 1 (radius: 25)
[00:05:46 -2702.709571] FAST spr round 2 (radius: 25)
[00:05:53 -2674.373196] FAST spr round 3 (radius: 25)
[00:06:00 -2671.202050] FAST spr round 4 (radius: 25)
[00:06:06 -2671.202027] Model parameter optimization (eps = 1.000000)
[00:06:09 -2670.358666] SLOW spr round 1 (radius: 5)
[00:06:16 -2668.276609] SLOW spr round 2 (radius: 5)
[00:06:23 -2668.276567] SLOW spr round 3 (radius: 10)
[00:06:32 -2642.913123] SLOW spr round 4 (radius: 5)
[00:06:41 -2642.801167] SLOW spr round 5 (radius: 5)
[00:06:49 -2642.799223] SLOW spr round 6 (radius: 10)
[00:06:57 -2642.798680] SLOW spr round 7 (radius: 15)
[00:07:06 -2641.382406] SLOW spr round 8 (radius: 5)
[00:07:17 -2641.381112] SLOW spr round 9 (radius: 10)
[00:07:25 -2635.212594] SLOW spr round 10 (radius: 5)
[00:07:35 -2635.210870] SLOW spr round 11 (radius: 10)
[00:07:43 -2635.210049] SLOW spr round 12 (radius: 15)
[00:07:52 -2635.209600] SLOW spr round 13 (radius: 20)
[00:08:05 -2635.209349] SLOW spr round 14 (radius: 25)
[00:08:19 -2607.941707] SLOW spr round 15 (radius: 5)
[00:08:30 -2598.179590] SLOW spr round 16 (radius: 5)
[00:08:39 -2598.179098] SLOW spr round 17 (radius: 10)
[00:08:47 -2597.568990] SLOW spr round 18 (radius: 5)
[00:08:56 -2597.568971] SLOW spr round 19 (radius: 10)
[00:09:04 -2597.568968] SLOW spr round 20 (radius: 15)
[00:09:14 -2597.568966] SLOW spr round 21 (radius: 20)
[00:09:27 -2596.605937] SLOW spr round 22 (radius: 5)
[00:09:38 -2596.598725] SLOW spr round 23 (radius: 10)
[00:09:46 -2596.598650] SLOW spr round 24 (radius: 15)
[00:09:56 -2596.598600] SLOW spr round 25 (radius: 20)
[00:10:09 -2596.598594] SLOW spr round 26 (radius: 25)
[00:10:23 -2596.598594] Model parameter optimization (eps = 0.100000)

[00:10:27] ML tree search #2, logLikelihood: -2595.820423

[00:10:27 -12658.456329] Initial branch length optimization
[00:10:27 -10238.870567] Model parameter optimization (eps = 10.000000)
[00:10:32 -10178.158993] AUTODETECT spr round 1 (radius: 5)
[00:10:37 -5909.309656] AUTODETECT spr round 2 (radius: 10)
[00:10:46 -3980.708006] AUTODETECT spr round 3 (radius: 15)
[00:10:54 -3343.387888] AUTODETECT spr round 4 (radius: 20)
[00:11:04 -3068.133528] AUTODETECT spr round 5 (radius: 25)
[00:11:15 -3064.094561] SPR radius for FAST iterations: 25 (autodetect)
[00:11:15 -3064.094561] Model parameter optimization (eps = 3.000000)
[00:11:19 -3033.049995] FAST spr round 1 (radius: 25)
[00:11:26 -2740.626640] FAST spr round 2 (radius: 25)
[00:11:33 -2724.261494] FAST spr round 3 (radius: 25)
[00:11:39 -2723.385648] FAST spr round 4 (radius: 25)
[00:11:45 -2721.630800] FAST spr round 5 (radius: 25)
[00:11:52 -2721.630799] Model parameter optimization (eps = 1.000000)
[00:11:53 -2720.634010] SLOW spr round 1 (radius: 5)
[00:12:01 -2719.622448] SLOW spr round 2 (radius: 5)
[00:12:09 -2718.962466] SLOW spr round 3 (radius: 5)
[00:12:16 -2718.962450] SLOW spr round 4 (radius: 10)
[00:12:24 -2691.939045] SLOW spr round 5 (radius: 5)
[00:12:34 -2683.352570] SLOW spr round 6 (radius: 5)
[00:12:42 -2682.001280] SLOW spr round 7 (radius: 5)
[00:12:50 -2681.172296] SLOW spr round 8 (radius: 5)
[00:12:57 -2681.172291] SLOW spr round 9 (radius: 10)
[00:13:05 -2679.120679] SLOW spr round 10 (radius: 5)
[00:13:14 -2679.120401] SLOW spr round 11 (radius: 10)
[00:13:21 -2679.120372] SLOW spr round 12 (radius: 15)
[00:13:31 -2650.162574] SLOW spr round 13 (radius: 5)
[00:13:41 -2643.184540] SLOW spr round 14 (radius: 5)
[00:13:50 -2643.184328] SLOW spr round 15 (radius: 10)
[00:13:57 -2641.351533] SLOW spr round 16 (radius: 5)
[00:14:07 -2638.403052] SLOW spr round 17 (radius: 5)
[00:14:15 -2637.588200] SLOW spr round 18 (radius: 5)
[00:14:23 -2637.588093] SLOW spr round 19 (radius: 10)
[00:14:30 -2637.588078] SLOW spr round 20 (radius: 15)
[00:14:40 -2637.588077] SLOW spr round 21 (radius: 20)
[00:14:51 -2633.320043] SLOW spr round 22 (radius: 5)
[00:15:02 -2632.088688] SLOW spr round 23 (radius: 5)
[00:15:10 -2631.616520] SLOW spr round 24 (radius: 5)
[00:15:18 -2631.569394] SLOW spr round 25 (radius: 10)
[00:15:26 -2631.569378] SLOW spr round 26 (radius: 15)
[00:15:35 -2631.569378] SLOW spr round 27 (radius: 20)
[00:15:46 -2631.569375] SLOW spr round 28 (radius: 25)
[00:15:59 -2631.569375] Model parameter optimization (eps = 0.100000)

[00:16:01] ML tree search #3, logLikelihood: -2630.917097

[00:16:01 -12302.930328] Initial branch length optimization
[00:16:01 -10012.288998] Model parameter optimization (eps = 10.000000)
[00:16:07 -9835.440341] AUTODETECT spr round 1 (radius: 5)
[00:16:13 -5971.887460] AUTODETECT spr round 2 (radius: 10)
[00:16:20 -4006.024928] AUTODETECT spr round 3 (radius: 15)
[00:16:29 -3504.987847] AUTODETECT spr round 4 (radius: 20)
[00:16:40 -3165.279710] AUTODETECT spr round 5 (radius: 25)
[00:16:51 -3095.601654] SPR radius for FAST iterations: 25 (autodetect)
[00:16:51 -3095.601654] Model parameter optimization (eps = 3.000000)
[00:16:55 -3084.624732] FAST spr round 1 (radius: 25)
[00:17:02 -2676.105203] FAST spr round 2 (radius: 25)
[00:17:09 -2660.223481] FAST spr round 3 (radius: 25)
[00:17:15 -2656.529562] FAST spr round 4 (radius: 25)
[00:17:21 -2656.529526] Model parameter optimization (eps = 1.000000)
[00:17:28 -2645.401371] SLOW spr round 1 (radius: 5)
[00:17:35 -2641.107054] SLOW spr round 2 (radius: 5)
[00:17:43 -2635.070329] SLOW spr round 3 (radius: 5)
[00:17:51 -2635.070286] SLOW spr round 4 (radius: 10)
[00:17:59 -2610.524584] SLOW spr round 5 (radius: 5)
[00:18:08 -2610.524564] SLOW spr round 6 (radius: 10)
[00:18:16 -2608.207223] SLOW spr round 7 (radius: 5)
[00:18:25 -2608.206438] SLOW spr round 8 (radius: 10)
[00:18:33 -2608.206424] SLOW spr round 9 (radius: 15)
[00:18:42 -2608.206416] SLOW spr round 10 (radius: 20)
[00:18:54 -2608.206413] SLOW spr round 11 (radius: 25)
[00:19:07 -2607.898004] SLOW spr round 12 (radius: 5)
[00:19:18 -2607.482956] SLOW spr round 13 (radius: 5)
[00:19:27 -2607.027101] SLOW spr round 14 (radius: 5)
[00:19:34 -2607.026998] SLOW spr round 15 (radius: 10)
[00:19:42 -2607.026989] SLOW spr round 16 (radius: 15)
[00:19:52 -2604.077067] SLOW spr round 17 (radius: 5)
[00:20:03 -2604.077051] SLOW spr round 18 (radius: 10)
[00:20:11 -2604.077050] SLOW spr round 19 (radius: 15)
[00:20:21 -2604.077047] SLOW spr round 20 (radius: 20)
[00:20:32 -2604.077032] SLOW spr round 21 (radius: 25)
[00:20:46 -2604.077032] Model parameter optimization (eps = 0.100000)

[00:20:49] ML tree search #4, logLikelihood: -2603.885617

[00:20:49 -12618.797065] Initial branch length optimization
[00:20:49 -10197.488447] Model parameter optimization (eps = 10.000000)
[00:20:55 -10009.209287] AUTODETECT spr round 1 (radius: 5)
[00:21:01 -6204.259335] AUTODETECT spr round 2 (radius: 10)
[00:21:08 -3607.973331] AUTODETECT spr round 3 (radius: 15)
[00:21:17 -3112.347815] AUTODETECT spr round 4 (radius: 20)
[00:21:26 -3015.558627] AUTODETECT spr round 5 (radius: 25)
[00:21:36 -2979.720698] SPR radius for FAST iterations: 25 (autodetect)
[00:21:36 -2979.720698] Model parameter optimization (eps = 3.000000)
[00:21:41 -2970.932287] FAST spr round 1 (radius: 25)
[00:21:49 -2655.217562] FAST spr round 2 (radius: 25)
[00:21:56 -2644.549992] FAST spr round 3 (radius: 25)
[00:22:02 -2644.548837] Model parameter optimization (eps = 1.000000)
[00:22:06 -2642.614217] SLOW spr round 1 (radius: 5)
[00:22:13 -2641.136380] SLOW spr round 2 (radius: 5)
[00:22:21 -2641.135888] SLOW spr round 3 (radius: 10)
[00:22:28 -2629.942834] SLOW spr round 4 (radius: 5)
[00:22:38 -2627.848906] SLOW spr round 5 (radius: 5)
[00:22:46 -2627.848479] SLOW spr round 6 (radius: 10)
[00:22:54 -2627.848465] SLOW spr round 7 (radius: 15)
[00:23:04 -2618.357836] SLOW spr round 8 (radius: 5)
[00:23:15 -2618.357459] SLOW spr round 9 (radius: 10)
[00:23:23 -2618.031011] SLOW spr round 10 (radius: 5)
[00:23:32 -2618.031009] SLOW spr round 11 (radius: 10)
[00:23:40 -2618.031008] SLOW spr round 12 (radius: 15)
[00:23:50 -2618.031008] SLOW spr round 13 (radius: 20)
[00:24:02 -2618.031008] SLOW spr round 14 (radius: 25)
[00:24:16 -2618.031008] Model parameter optimization (eps = 0.100000)

[00:24:18] ML tree search #5, logLikelihood: -2617.758076

[00:24:18 -12640.933871] Initial branch length optimization
[00:24:18 -10322.374161] Model parameter optimization (eps = 10.000000)
[00:24:24 -10124.456132] AUTODETECT spr round 1 (radius: 5)
[00:24:30 -6071.737254] AUTODETECT spr round 2 (radius: 10)
[00:24:37 -4498.533072] AUTODETECT spr round 3 (radius: 15)
[00:24:47 -3377.487659] AUTODETECT spr round 4 (radius: 20)
[00:24:55 -3254.701081] AUTODETECT spr round 5 (radius: 25)
[00:25:04 -3145.894202] SPR radius for FAST iterations: 25 (autodetect)
[00:25:04 -3145.894202] Model parameter optimization (eps = 3.000000)
[00:25:09 -3136.557905] FAST spr round 1 (radius: 25)
[00:25:16 -2712.888171] FAST spr round 2 (radius: 25)
[00:25:23 -2671.489507] FAST spr round 3 (radius: 25)
[00:25:30 -2671.489486] Model parameter optimization (eps = 1.000000)
[00:25:32 -2670.495581] SLOW spr round 1 (radius: 5)
[00:25:40 -2669.723736] SLOW spr round 2 (radius: 5)
[00:25:47 -2669.723246] SLOW spr round 3 (radius: 10)
[00:25:55 -2664.773751] SLOW spr round 4 (radius: 5)
[00:26:05 -2663.335767] SLOW spr round 5 (radius: 5)
[00:26:13 -2663.335462] SLOW spr round 6 (radius: 10)
[00:26:21 -2661.132586] SLOW spr round 7 (radius: 5)
[00:26:31 -2642.614896] SLOW spr round 8 (radius: 5)
[00:26:39 -2640.433824] SLOW spr round 9 (radius: 5)
[00:26:46 -2640.433627] SLOW spr round 10 (radius: 10)
[00:26:54 -2640.433616] SLOW spr round 11 (radius: 15)
[00:27:03 -2634.015238] SLOW spr round 12 (radius: 5)
[00:27:13 -2634.015201] SLOW spr round 13 (radius: 10)
[00:27:22 -2633.635248] SLOW spr round 14 (radius: 5)
[00:27:31 -2633.635241] SLOW spr round 15 (radius: 10)
[00:27:39 -2633.635236] SLOW spr round 16 (radius: 15)
[00:27:48 -2633.635232] SLOW spr round 17 (radius: 20)
[00:27:58 -2633.635229] SLOW spr round 18 (radius: 25)
[00:28:09 -2633.635226] Model parameter optimization (eps = 0.100000)

[00:28:12] ML tree search #6, logLikelihood: -2633.381908

[00:28:12 -12553.083478] Initial branch length optimization
[00:28:13 -10272.357237] Model parameter optimization (eps = 10.000000)
[00:28:18 -10095.243694] AUTODETECT spr round 1 (radius: 5)
[00:28:24 -5722.339216] AUTODETECT spr round 2 (radius: 10)
[00:28:32 -3940.958159] AUTODETECT spr round 3 (radius: 15)
[00:28:41 -3176.323911] AUTODETECT spr round 4 (radius: 20)
[00:28:51 -3019.473146] AUTODETECT spr round 5 (radius: 25)
[00:29:02 -2899.736904] SPR radius for FAST iterations: 25 (autodetect)
[00:29:02 -2899.736904] Model parameter optimization (eps = 3.000000)
[00:29:05 -2896.072538] FAST spr round 1 (radius: 25)
[00:29:12 -2709.046659] FAST spr round 2 (radius: 25)
[00:29:19 -2662.240799] FAST spr round 3 (radius: 25)
[00:29:25 -2661.967866] FAST spr round 4 (radius: 25)
[00:29:32 -2661.967623] Model parameter optimization (eps = 1.000000)
[00:29:40 -2652.942343] SLOW spr round 1 (radius: 5)
[00:29:48 -2651.124030] SLOW spr round 2 (radius: 5)
[00:29:55 -2651.123883] SLOW spr round 3 (radius: 10)
[00:30:03 -2616.717819] SLOW spr round 4 (radius: 5)
[00:30:13 -2610.853110] SLOW spr round 5 (radius: 5)
[00:30:20 -2609.993208] SLOW spr round 6 (radius: 5)
[00:30:28 -2609.991718] SLOW spr round 7 (radius: 10)
[00:30:35 -2608.539013] SLOW spr round 8 (radius: 5)
[00:30:44 -2608.538443] SLOW spr round 9 (radius: 10)
[00:30:52 -2608.538089] SLOW spr round 10 (radius: 15)
[00:31:01 -2608.537959] SLOW spr round 11 (radius: 20)
[00:31:12 -2606.567522] SLOW spr round 12 (radius: 5)
[00:31:23 -2606.567521] SLOW spr round 13 (radius: 10)
[00:31:31 -2606.567521] SLOW spr round 14 (radius: 15)
[00:31:40 -2606.567521] SLOW spr round 15 (radius: 20)
[00:31:51 -2606.567521] SLOW spr round 16 (radius: 25)
[00:32:04 -2600.128269] SLOW spr round 17 (radius: 5)
[00:32:14 -2600.128243] SLOW spr round 18 (radius: 10)
[00:32:23 -2600.128243] SLOW spr round 19 (radius: 15)
[00:32:32 -2600.128243] SLOW spr round 20 (radius: 20)
[00:32:43 -2600.128243] SLOW spr round 21 (radius: 25)
[00:32:56 -2600.128243] Model parameter optimization (eps = 0.100000)

[00:32:57] ML tree search #7, logLikelihood: -2600.074639

[00:32:57 -12571.506903] Initial branch length optimization
[00:32:57 -10200.146491] Model parameter optimization (eps = 10.000000)
[00:33:03 -10012.826163] AUTODETECT spr round 1 (radius: 5)
[00:33:09 -6039.541230] AUTODETECT spr round 2 (radius: 10)
[00:33:17 -4024.741754] AUTODETECT spr round 3 (radius: 15)
[00:33:26 -3372.964897] AUTODETECT spr round 4 (radius: 20)
[00:33:36 -3232.214518] AUTODETECT spr round 5 (radius: 25)
[00:33:46 -3162.797388] SPR radius for FAST iterations: 25 (autodetect)
[00:33:46 -3162.797388] Model parameter optimization (eps = 3.000000)
[00:33:52 -3125.692052] FAST spr round 1 (radius: 25)
[00:33:59 -2736.800063] FAST spr round 2 (radius: 25)
[00:34:06 -2645.925641] FAST spr round 3 (radius: 25)
[00:34:13 -2633.481337] FAST spr round 4 (radius: 25)
[00:34:19 -2633.481174] Model parameter optimization (eps = 1.000000)
[00:34:21 -2633.008351] SLOW spr round 1 (radius: 5)
[00:34:29 -2631.404943] SLOW spr round 2 (radius: 5)
[00:34:36 -2631.404854] SLOW spr round 3 (radius: 10)
[00:34:44 -2629.377577] SLOW spr round 4 (radius: 5)
[00:34:53 -2628.440044] SLOW spr round 5 (radius: 5)
[00:35:01 -2628.439857] SLOW spr round 6 (radius: 10)
[00:35:09 -2616.945304] SLOW spr round 7 (radius: 5)
[00:35:18 -2610.405051] SLOW spr round 8 (radius: 5)
[00:35:26 -2610.404887] SLOW spr round 9 (radius: 10)
[00:35:34 -2610.404868] SLOW spr round 10 (radius: 15)
[00:35:42 -2608.034830] SLOW spr round 11 (radius: 5)
[00:35:52 -2607.814431] SLOW spr round 12 (radius: 5)
[00:36:01 -2607.814419] SLOW spr round 13 (radius: 10)
[00:36:08 -2607.814419] SLOW spr round 14 (radius: 15)
[00:36:17 -2601.462605] SLOW spr round 15 (radius: 5)
[00:36:27 -2600.299337] SLOW spr round 16 (radius: 5)
[00:36:36 -2600.299295] SLOW spr round 17 (radius: 10)
[00:36:43 -2600.299294] SLOW spr round 18 (radius: 15)
[00:36:52 -2600.299290] SLOW spr round 19 (radius: 20)
[00:37:04 -2600.299290] SLOW spr round 20 (radius: 25)
[00:37:17 -2600.299290] Model parameter optimization (eps = 0.100000)

[00:37:19] ML tree search #8, logLikelihood: -2599.922602

[00:37:20 -12396.044344] Initial branch length optimization
[00:37:20 -10091.406880] Model parameter optimization (eps = 10.000000)
[00:37:28 -9897.066183] AUTODETECT spr round 1 (radius: 5)
[00:37:34 -6233.942568] AUTODETECT spr round 2 (radius: 10)
[00:37:42 -3956.706327] AUTODETECT spr round 3 (radius: 15)
[00:37:50 -3207.438506] AUTODETECT spr round 4 (radius: 20)
[00:38:01 -3037.470406] AUTODETECT spr round 5 (radius: 25)
[00:38:12 -3033.566888] SPR radius for FAST iterations: 25 (autodetect)
[00:38:12 -3033.566888] Model parameter optimization (eps = 3.000000)
[00:38:21 -3007.947602] FAST spr round 1 (radius: 25)
[00:38:28 -2622.098679] FAST spr round 2 (radius: 25)
[00:38:35 -2612.216082] FAST spr round 3 (radius: 25)
[00:38:41 -2612.215996] Model parameter optimization (eps = 1.000000)
[00:38:46 -2608.873695] SLOW spr round 1 (radius: 5)
[00:38:53 -2608.760806] SLOW spr round 2 (radius: 5)
[00:39:01 -2608.758631] SLOW spr round 3 (radius: 10)
[00:39:09 -2605.973297] SLOW spr round 4 (radius: 5)
[00:39:18 -2603.613007] SLOW spr round 5 (radius: 5)
[00:39:27 -2603.612891] SLOW spr round 6 (radius: 10)
[00:39:34 -2603.612891] SLOW spr round 7 (radius: 15)
[00:39:44 -2603.612891] SLOW spr round 8 (radius: 20)
[00:39:56 -2603.612891] SLOW spr round 9 (radius: 25)
[00:40:09 -2603.612891] Model parameter optimization (eps = 0.100000)

[00:40:13] ML tree search #9, logLikelihood: -2603.186122

[00:40:13 -12503.579945] Initial branch length optimization
[00:40:13 -10135.403996] Model parameter optimization (eps = 10.000000)
[00:40:23 -9892.569367] AUTODETECT spr round 1 (radius: 5)
[00:40:29 -6133.470090] AUTODETECT spr round 2 (radius: 10)
[00:40:37 -3525.977856] AUTODETECT spr round 3 (radius: 15)
[00:40:47 -3151.300323] AUTODETECT spr round 4 (radius: 20)
[00:40:57 -3115.733395] AUTODETECT spr round 5 (radius: 25)
[00:41:08 -3115.731540] SPR radius for FAST iterations: 20 (autodetect)
[00:41:08 -3115.731540] Model parameter optimization (eps = 3.000000)
[00:41:11 -3109.603624] FAST spr round 1 (radius: 20)
[00:41:18 -2692.816847] FAST spr round 2 (radius: 20)
[00:41:25 -2653.410928] FAST spr round 3 (radius: 20)
[00:41:31 -2653.409282] Model parameter optimization (eps = 1.000000)
[00:41:36 -2651.649602] SLOW spr round 1 (radius: 5)
[00:41:44 -2651.153308] SLOW spr round 2 (radius: 5)
[00:41:51 -2651.152885] SLOW spr round 3 (radius: 10)
[00:41:59 -2631.572911] SLOW spr round 4 (radius: 5)
[00:42:09 -2613.058987] SLOW spr round 5 (radius: 5)
[00:42:17 -2611.587896] SLOW spr round 6 (radius: 5)
[00:42:25 -2611.395991] SLOW spr round 7 (radius: 5)
[00:42:32 -2611.395823] SLOW spr round 8 (radius: 10)
[00:42:40 -2610.126466] SLOW spr round 9 (radius: 5)
[00:42:49 -2610.126428] SLOW spr round 10 (radius: 10)
[00:42:57 -2610.126428] SLOW spr round 11 (radius: 15)
[00:43:07 -2610.126417] SLOW spr round 12 (radius: 20)
[00:43:18 -2610.126417] SLOW spr round 13 (radius: 25)
[00:43:32 -2610.126417] Model parameter optimization (eps = 0.100000)

[00:43:35] ML tree search #10, logLikelihood: -2609.654246

[00:43:35 -12498.408232] Initial branch length optimization
[00:43:36 -10156.294995] Model parameter optimization (eps = 10.000000)
[00:43:40 -10116.559168] AUTODETECT spr round 1 (radius: 5)
[00:43:46 -6323.418655] AUTODETECT spr round 2 (radius: 10)
[00:43:53 -4337.589942] AUTODETECT spr round 3 (radius: 15)
[00:44:02 -3222.269584] AUTODETECT spr round 4 (radius: 20)
[00:44:12 -3093.983599] AUTODETECT spr round 5 (radius: 25)
[00:44:23 -3073.010004] SPR radius for FAST iterations: 25 (autodetect)
[00:44:23 -3073.010004] Model parameter optimization (eps = 3.000000)
[00:44:28 -3057.348490] FAST spr round 1 (radius: 25)
[00:44:35 -2664.905200] FAST spr round 2 (radius: 25)
[00:44:42 -2644.704133] FAST spr round 3 (radius: 25)
[00:44:48 -2642.071306] FAST spr round 4 (radius: 25)
[00:44:54 -2640.150836] FAST spr round 5 (radius: 25)
[00:45:01 -2639.041354] FAST spr round 6 (radius: 25)
[00:45:07 -2639.041262] Model parameter optimization (eps = 1.000000)
[00:45:10 -2637.239520] SLOW spr round 1 (radius: 5)
[00:45:18 -2637.233721] SLOW spr round 2 (radius: 10)
[00:45:26 -2626.888557] SLOW spr round 3 (radius: 5)
[00:45:36 -2623.097311] SLOW spr round 4 (radius: 5)
[00:45:44 -2623.097279] SLOW spr round 5 (radius: 10)
[00:45:52 -2621.674009] SLOW spr round 6 (radius: 5)
[00:46:02 -2619.045968] SLOW spr round 7 (radius: 5)
[00:46:10 -2619.045943] SLOW spr round 8 (radius: 10)
[00:46:17 -2619.045941] SLOW spr round 9 (radius: 15)
[00:46:27 -2619.045941] SLOW spr round 10 (radius: 20)
[00:46:38 -2619.045941] SLOW spr round 11 (radius: 25)
[00:46:51 -2619.045941] Model parameter optimization (eps = 0.100000)

[00:46:52] ML tree search #11, logLikelihood: -2618.960751

[00:46:52 -12451.106088] Initial branch length optimization
[00:46:52 -10219.420724] Model parameter optimization (eps = 10.000000)
[00:47:03 -9987.248956] AUTODETECT spr round 1 (radius: 5)
[00:47:09 -6113.069231] AUTODETECT spr round 2 (radius: 10)
[00:47:16 -4004.969641] AUTODETECT spr round 3 (radius: 15)
[00:47:26 -3140.355417] AUTODETECT spr round 4 (radius: 20)
[00:47:35 -3058.680334] AUTODETECT spr round 5 (radius: 25)
[00:47:44 -3055.329153] SPR radius for FAST iterations: 25 (autodetect)
[00:47:44 -3055.329153] Model parameter optimization (eps = 3.000000)
[00:47:50 -3048.438982] FAST spr round 1 (radius: 25)
[00:47:58 -2681.866233] FAST spr round 2 (radius: 25)
[00:48:04 -2651.622996] FAST spr round 3 (radius: 25)
[00:48:11 -2648.089706] FAST spr round 4 (radius: 25)
[00:48:17 -2648.089546] Model parameter optimization (eps = 1.000000)
[00:48:19 -2647.310885] SLOW spr round 1 (radius: 5)
[00:48:26 -2646.953644] SLOW spr round 2 (radius: 5)
[00:48:34 -2645.771003] SLOW spr round 3 (radius: 5)
[00:48:41 -2645.768660] SLOW spr round 4 (radius: 10)
[00:48:49 -2639.329122] SLOW spr round 5 (radius: 5)
[00:48:59 -2639.167073] SLOW spr round 6 (radius: 5)
[00:49:07 -2638.998073] SLOW spr round 7 (radius: 5)
[00:49:14 -2638.997335] SLOW spr round 8 (radius: 10)
[00:49:22 -2638.996962] SLOW spr round 9 (radius: 15)
[00:49:32 -2628.946913] SLOW spr round 10 (radius: 5)
[00:49:42 -2620.104574] SLOW spr round 11 (radius: 5)
[00:49:51 -2620.104523] SLOW spr round 12 (radius: 10)
[00:49:58 -2620.104521] SLOW spr round 13 (radius: 15)
[00:50:09 -2618.437060] SLOW spr round 14 (radius: 5)
[00:50:19 -2618.433087] SLOW spr round 15 (radius: 10)
[00:50:27 -2618.432626] SLOW spr round 16 (radius: 15)
[00:50:37 -2618.432609] SLOW spr round 17 (radius: 20)
[00:50:50 -2617.532696] SLOW spr round 18 (radius: 5)
[00:51:01 -2617.489537] SLOW spr round 19 (radius: 10)
[00:51:10 -2617.485096] SLOW spr round 20 (radius: 15)
[00:51:20 -2617.482764] SLOW spr round 21 (radius: 20)
[00:51:33 -2617.482759] SLOW spr round 22 (radius: 25)
[00:51:49 -2617.482759] Model parameter optimization (eps = 0.100000)

[00:51:51] ML tree search #12, logLikelihood: -2617.209852

[00:51:51 -12471.232511] Initial branch length optimization
[00:51:52 -10209.624232] Model parameter optimization (eps = 10.000000)
[00:51:55 -10166.035813] AUTODETECT spr round 1 (radius: 5)
[00:52:01 -5809.853570] AUTODETECT spr round 2 (radius: 10)
[00:52:09 -3852.437863] AUTODETECT spr round 3 (radius: 15)
[00:52:17 -3293.326133] AUTODETECT spr round 4 (radius: 20)
[00:52:27 -3256.839864] AUTODETECT spr round 5 (radius: 25)
[00:52:36 -3229.883629] SPR radius for FAST iterations: 25 (autodetect)
[00:52:36 -3229.883629] Model parameter optimization (eps = 3.000000)
[00:52:40 -3203.089321] FAST spr round 1 (radius: 25)
[00:52:47 -2766.225386] FAST spr round 2 (radius: 25)
[00:52:54 -2714.276970] FAST spr round 3 (radius: 25)
[00:53:01 -2689.157799] FAST spr round 4 (radius: 25)
[00:53:07 -2686.732936] FAST spr round 5 (radius: 25)
[00:53:13 -2686.730196] Model parameter optimization (eps = 1.000000)
[00:53:15 -2686.052987] SLOW spr round 1 (radius: 5)
[00:53:22 -2685.361447] SLOW spr round 2 (radius: 5)
[00:53:30 -2676.055369] SLOW spr round 3 (radius: 5)
[00:53:37 -2675.212751] SLOW spr round 4 (radius: 5)
[00:53:44 -2675.212741] SLOW spr round 5 (radius: 10)
[00:53:52 -2674.684054] SLOW spr round 6 (radius: 5)
[00:54:01 -2672.194903] SLOW spr round 7 (radius: 5)
[00:54:09 -2672.194726] SLOW spr round 8 (radius: 10)
[00:54:17 -2670.558762] SLOW spr round 9 (radius: 5)
[00:54:26 -2670.558762] SLOW spr round 10 (radius: 10)
[00:54:34 -2670.558762] SLOW spr round 11 (radius: 15)
[00:54:45 -2653.716289] SLOW spr round 12 (radius: 5)
[00:54:55 -2653.491199] SLOW spr round 13 (radius: 5)
[00:55:04 -2652.796539] SLOW spr round 14 (radius: 5)
[00:55:12 -2651.034184] SLOW spr round 15 (radius: 5)
[00:55:20 -2651.034102] SLOW spr round 16 (radius: 10)
[00:55:27 -2651.034094] SLOW spr round 17 (radius: 15)
[00:55:37 -2651.034090] SLOW spr round 18 (radius: 20)
[00:55:50 -2651.034090] SLOW spr round 19 (radius: 25)
[00:56:04 -2651.034090] Model parameter optimization (eps = 0.100000)

[00:56:06] ML tree search #13, logLikelihood: -2650.770897

[00:56:06 -12532.960841] Initial branch length optimization
[00:56:06 -10099.942849] Model parameter optimization (eps = 10.000000)
[00:56:12 -9930.503283] AUTODETECT spr round 1 (radius: 5)
[00:56:18 -6005.393714] AUTODETECT spr round 2 (radius: 10)
[00:56:25 -4297.823214] AUTODETECT spr round 3 (radius: 15)
[00:56:34 -3700.348493] AUTODETECT spr round 4 (radius: 20)
[00:56:45 -3315.527059] AUTODETECT spr round 5 (radius: 25)
[00:56:57 -3203.057785] SPR radius for FAST iterations: 25 (autodetect)
[00:56:57 -3203.057785] Model parameter optimization (eps = 3.000000)
[00:57:01 -3180.353096] FAST spr round 1 (radius: 25)
[00:57:09 -2760.622438] FAST spr round 2 (radius: 25)
[00:57:16 -2682.694284] FAST spr round 3 (radius: 25)
[00:57:22 -2682.693952] Model parameter optimization (eps = 1.000000)
[00:57:24 -2681.874646] SLOW spr round 1 (radius: 5)
[00:57:32 -2679.134490] SLOW spr round 2 (radius: 5)
[00:57:40 -2679.134243] SLOW spr round 3 (radius: 10)
[00:57:48 -2617.982334] SLOW spr round 4 (radius: 5)
[00:57:58 -2611.843914] SLOW spr round 5 (radius: 5)
[00:58:06 -2609.708847] SLOW spr round 6 (radius: 5)
[00:58:14 -2608.524572] SLOW spr round 7 (radius: 5)
[00:58:21 -2608.523722] SLOW spr round 8 (radius: 10)
[00:58:29 -2608.010550] SLOW spr round 9 (radius: 5)
[00:58:39 -2607.344918] SLOW spr round 10 (radius: 5)
[00:58:47 -2607.343803] SLOW spr round 11 (radius: 10)
[00:58:54 -2606.637795] SLOW spr round 12 (radius: 5)
[00:59:04 -2604.805132] SLOW spr round 13 (radius: 5)
[00:59:12 -2604.455938] SLOW spr round 14 (radius: 5)
[00:59:19 -2604.455832] SLOW spr round 15 (radius: 10)
[00:59:27 -2604.455764] SLOW spr round 16 (radius: 15)
[00:59:36 -2604.455690] SLOW spr round 17 (radius: 20)
[00:59:47 -2604.455638] SLOW spr round 18 (radius: 25)
[01:00:00 -2604.455591] Model parameter optimization (eps = 0.100000)

[01:00:01] ML tree search #14, logLikelihood: -2604.357909

[01:00:01 -12497.224599] Initial branch length optimization
[01:00:01 -10138.827739] Model parameter optimization (eps = 10.000000)
[01:00:07 -10092.689708] AUTODETECT spr round 1 (radius: 5)
[01:00:13 -5800.442565] AUTODETECT spr round 2 (radius: 10)
[01:00:21 -4049.161675] AUTODETECT spr round 3 (radius: 15)
[01:00:30 -3424.010305] AUTODETECT spr round 4 (radius: 20)
[01:00:41 -3329.432682] AUTODETECT spr round 5 (radius: 25)
[01:00:52 -3202.076037] SPR radius for FAST iterations: 25 (autodetect)
[01:00:52 -3202.076037] Model parameter optimization (eps = 3.000000)
[01:00:56 -3183.323257] FAST spr round 1 (radius: 25)
[01:01:03 -2690.653659] FAST spr round 2 (radius: 25)
[01:01:10 -2670.314918] FAST spr round 3 (radius: 25)
[01:01:17 -2666.303754] FAST spr round 4 (radius: 25)
[01:01:23 -2665.960253] FAST spr round 5 (radius: 25)
[01:01:29 -2665.959923] Model parameter optimization (eps = 1.000000)
[01:01:34 -2661.650543] SLOW spr round 1 (radius: 5)
[01:01:41 -2661.100444] SLOW spr round 2 (radius: 5)
[01:01:49 -2658.880350] SLOW spr round 3 (radius: 5)
[01:01:56 -2658.880335] SLOW spr round 4 (radius: 10)
[01:02:04 -2654.071532] SLOW spr round 5 (radius: 5)
[01:02:13 -2653.224891] SLOW spr round 6 (radius: 5)
[01:02:21 -2653.224891] SLOW spr round 7 (radius: 10)
[01:02:29 -2649.896316] SLOW spr round 8 (radius: 5)
[01:02:39 -2648.469969] SLOW spr round 9 (radius: 5)
[01:02:47 -2648.469969] SLOW spr round 10 (radius: 10)
[01:02:54 -2648.469969] SLOW spr round 11 (radius: 15)
[01:03:05 -2640.878129] SLOW spr round 12 (radius: 5)
[01:03:16 -2638.560885] SLOW spr round 13 (radius: 5)
[01:03:25 -2637.774303] SLOW spr round 14 (radius: 5)
[01:03:32 -2637.773934] SLOW spr round 15 (radius: 10)
[01:03:40 -2637.773930] SLOW spr round 16 (radius: 15)
[01:03:50 -2636.446038] SLOW spr round 17 (radius: 5)
[01:04:01 -2634.395859] SLOW spr round 18 (radius: 5)
[01:04:10 -2634.302424] SLOW spr round 19 (radius: 10)
[01:04:18 -2634.183162] SLOW spr round 20 (radius: 5)
[01:04:27 -2634.183117] SLOW spr round 21 (radius: 10)
[01:04:36 -2634.151180] SLOW spr round 22 (radius: 15)
[01:04:45 -2634.151180] SLOW spr round 23 (radius: 20)
[01:04:57 -2634.151180] SLOW spr round 24 (radius: 25)
[01:05:10 -2634.151180] Model parameter optimization (eps = 0.100000)

[01:05:12] ML tree search #15, logLikelihood: -2633.837933

[01:05:12 -12493.431771] Initial branch length optimization
[01:05:13 -10137.416021] Model parameter optimization (eps = 10.000000)
[01:05:17 -10079.792802] AUTODETECT spr round 1 (radius: 5)
[01:05:23 -5961.981355] AUTODETECT spr round 2 (radius: 10)
[01:05:31 -3590.956013] AUTODETECT spr round 3 (radius: 15)
[01:05:40 -3129.369605] AUTODETECT spr round 4 (radius: 20)
[01:05:49 -3050.961393] AUTODETECT spr round 5 (radius: 25)
[01:05:59 -2994.627861] SPR radius for FAST iterations: 25 (autodetect)
[01:05:59 -2994.627861] Model parameter optimization (eps = 3.000000)
[01:06:03 -2965.432517] FAST spr round 1 (radius: 25)
[01:06:10 -2688.271406] FAST spr round 2 (radius: 25)
[01:06:17 -2661.121682] FAST spr round 3 (radius: 25)
[01:06:24 -2660.334202] FAST spr round 4 (radius: 25)
[01:06:30 -2660.334183] Model parameter optimization (eps = 1.000000)
[01:06:32 -2659.484463] SLOW spr round 1 (radius: 5)
[01:06:39 -2656.490295] SLOW spr round 2 (radius: 5)
[01:06:47 -2655.351928] SLOW spr round 3 (radius: 5)
[01:06:55 -2655.351828] SLOW spr round 4 (radius: 10)
[01:07:03 -2654.007622] SLOW spr round 5 (radius: 5)
[01:07:12 -2654.007620] SLOW spr round 6 (radius: 10)
[01:07:20 -2654.007620] SLOW spr round 7 (radius: 15)
[01:07:29 -2651.742605] SLOW spr round 8 (radius: 5)
[01:07:40 -2650.025943] SLOW spr round 9 (radius: 5)
[01:07:49 -2649.090761] SLOW spr round 10 (radius: 5)
[01:07:57 -2649.089692] SLOW spr round 11 (radius: 10)
[01:08:05 -2649.051708] SLOW spr round 12 (radius: 15)
[01:08:14 -2646.934128] SLOW spr round 13 (radius: 5)
[01:08:25 -2646.933395] SLOW spr round 14 (radius: 10)
[01:08:33 -2645.327852] SLOW spr round 15 (radius: 5)
[01:08:43 -2645.327777] SLOW spr round 16 (radius: 10)
[01:08:50 -2645.327775] SLOW spr round 17 (radius: 15)
[01:09:00 -2643.355081] SLOW spr round 18 (radius: 5)
[01:09:11 -2643.354457] SLOW spr round 19 (radius: 10)
[01:09:19 -2643.354425] SLOW spr round 20 (radius: 15)
[01:09:29 -2643.354425] SLOW spr round 21 (radius: 20)
[01:09:40 -2643.354425] SLOW spr round 22 (radius: 25)
[01:09:53 -2643.354425] Model parameter optimization (eps = 0.100000)

[01:09:55] ML tree search #16, logLikelihood: -2643.039222

[01:09:55 -12468.764361] Initial branch length optimization
[01:09:55 -10216.547748] Model parameter optimization (eps = 10.000000)
[01:10:01 -10008.489497] AUTODETECT spr round 1 (radius: 5)
[01:10:07 -5979.150259] AUTODETECT spr round 2 (radius: 10)
[01:10:15 -3732.134949] AUTODETECT spr round 3 (radius: 15)
[01:10:24 -3042.401807] AUTODETECT spr round 4 (radius: 20)
[01:10:35 -3014.319539] AUTODETECT spr round 5 (radius: 25)
[01:10:46 -3013.207623] SPR radius for FAST iterations: 25 (autodetect)
[01:10:46 -3013.207623] Model parameter optimization (eps = 3.000000)
[01:10:50 -3005.127942] FAST spr round 1 (radius: 25)
[01:10:58 -2685.182512] FAST spr round 2 (radius: 25)
[01:11:05 -2642.252372] FAST spr round 3 (radius: 25)
[01:11:11 -2641.835163] FAST spr round 4 (radius: 25)
[01:11:17 -2641.834288] Model parameter optimization (eps = 1.000000)
[01:11:21 -2639.242617] SLOW spr round 1 (radius: 5)
[01:11:28 -2638.034363] SLOW spr round 2 (radius: 5)
[01:11:36 -2635.703697] SLOW spr round 3 (radius: 5)
[01:11:43 -2635.703411] SLOW spr round 4 (radius: 10)
[01:11:51 -2634.354804] SLOW spr round 5 (radius: 5)
[01:12:01 -2627.330110] SLOW spr round 6 (radius: 5)
[01:12:09 -2626.698715] SLOW spr round 7 (radius: 5)
[01:12:16 -2626.697828] SLOW spr round 8 (radius: 10)
[01:12:24 -2622.543730] SLOW spr round 9 (radius: 5)
[01:12:34 -2622.067846] SLOW spr round 10 (radius: 5)
[01:12:42 -2621.890401] SLOW spr round 11 (radius: 5)
[01:12:49 -2621.890363] SLOW spr round 12 (radius: 10)
[01:12:56 -2621.890359] SLOW spr round 13 (radius: 15)
[01:13:06 -2619.545403] SLOW spr round 14 (radius: 5)
[01:13:16 -2619.545374] SLOW spr round 15 (radius: 10)
[01:13:25 -2616.192929] SLOW spr round 16 (radius: 5)
[01:13:34 -2614.915881] SLOW spr round 17 (radius: 5)
[01:13:42 -2614.915757] SLOW spr round 18 (radius: 10)
[01:13:49 -2614.915749] SLOW spr round 19 (radius: 15)
[01:13:58 -2614.915749] SLOW spr round 20 (radius: 20)
[01:14:09 -2614.915749] SLOW spr round 21 (radius: 25)
[01:14:21 -2613.928666] SLOW spr round 22 (radius: 5)
[01:14:31 -2613.618601] SLOW spr round 23 (radius: 5)
[01:14:40 -2612.254901] SLOW spr round 24 (radius: 5)
[01:14:48 -2612.237633] SLOW spr round 25 (radius: 10)
[01:14:55 -2612.237625] SLOW spr round 26 (radius: 15)
[01:15:04 -2612.237625] SLOW spr round 27 (radius: 20)
[01:15:14 -2612.237625] SLOW spr round 28 (radius: 25)
[01:15:25 -2612.237625] Model parameter optimization (eps = 0.100000)

[01:15:30] ML tree search #17, logLikelihood: -2608.620720

[01:15:30 -12629.958095] Initial branch length optimization
[01:15:30 -10311.816347] Model parameter optimization (eps = 10.000000)
[01:15:37 -10090.919568] AUTODETECT spr round 1 (radius: 5)
[01:15:42 -6109.487726] AUTODETECT spr round 2 (radius: 10)
[01:15:50 -4079.201292] AUTODETECT spr round 3 (radius: 15)
[01:15:57 -3360.027397] AUTODETECT spr round 4 (radius: 20)
[01:16:07 -3113.586132] AUTODETECT spr round 5 (radius: 25)
[01:16:18 -3106.298789] SPR radius for FAST iterations: 25 (autodetect)
[01:16:18 -3106.298789] Model parameter optimization (eps = 3.000000)
[01:16:24 -3093.928020] FAST spr round 1 (radius: 25)
[01:16:32 -2682.312401] FAST spr round 2 (radius: 25)
[01:16:39 -2650.636007] FAST spr round 3 (radius: 25)
[01:16:45 -2647.091220] FAST spr round 4 (radius: 25)
[01:16:51 -2647.090637] Model parameter optimization (eps = 1.000000)
[01:16:57 -2640.449899] SLOW spr round 1 (radius: 5)
[01:17:04 -2636.472672] SLOW spr round 2 (radius: 5)
[01:17:12 -2635.380532] SLOW spr round 3 (radius: 5)
[01:17:19 -2635.380416] SLOW spr round 4 (radius: 10)
[01:17:27 -2630.366739] SLOW spr round 5 (radius: 5)
[01:17:36 -2629.280679] SLOW spr round 6 (radius: 5)
[01:17:44 -2629.279933] SLOW spr round 7 (radius: 10)
[01:17:52 -2626.731791] SLOW spr round 8 (radius: 5)
[01:18:01 -2626.731290] SLOW spr round 9 (radius: 10)
[01:18:09 -2625.779763] SLOW spr round 10 (radius: 5)
[01:18:18 -2625.779161] SLOW spr round 11 (radius: 10)
[01:18:26 -2625.779150] SLOW spr round 12 (radius: 15)
[01:18:34 -2625.299813] SLOW spr round 13 (radius: 5)
[01:18:44 -2622.888425] SLOW spr round 14 (radius: 5)
[01:18:53 -2619.025805] SLOW spr round 15 (radius: 5)
[01:19:00 -2619.025761] SLOW spr round 16 (radius: 10)
[01:19:07 -2617.418384] SLOW spr round 17 (radius: 5)
[01:19:16 -2617.418306] SLOW spr round 18 (radius: 10)
[01:19:24 -2617.418301] SLOW spr round 19 (radius: 15)
[01:19:33 -2617.418301] SLOW spr round 20 (radius: 20)
[01:19:43 -2617.418301] SLOW spr round 21 (radius: 25)
[01:19:55 -2610.646255] SLOW spr round 22 (radius: 5)
[01:20:05 -2609.839446] SLOW spr round 23 (radius: 5)
[01:20:14 -2608.806026] SLOW spr round 24 (radius: 5)
[01:20:22 -2608.805957] SLOW spr round 25 (radius: 10)
[01:20:29 -2599.227734] SLOW spr round 26 (radius: 5)
[01:20:38 -2599.227730] SLOW spr round 27 (radius: 10)
[01:20:46 -2599.227730] SLOW spr round 28 (radius: 15)
[01:20:54 -2599.227730] SLOW spr round 29 (radius: 20)
[01:21:04 -2599.227730] SLOW spr round 30 (radius: 25)
[01:21:16 -2599.227730] Model parameter optimization (eps = 0.100000)

[01:21:17] ML tree search #18, logLikelihood: -2599.138514

[01:21:17 -12546.502474] Initial branch length optimization
[01:21:17 -10162.325597] Model parameter optimization (eps = 10.000000)
[01:21:24 -9979.288956] AUTODETECT spr round 1 (radius: 5)
[01:21:30 -5997.851433] AUTODETECT spr round 2 (radius: 10)
[01:21:37 -3787.617628] AUTODETECT spr round 3 (radius: 15)
[01:21:46 -3204.189879] AUTODETECT spr round 4 (radius: 20)
[01:21:55 -3062.851708] AUTODETECT spr round 5 (radius: 25)
[01:22:05 -2968.911687] SPR radius for FAST iterations: 25 (autodetect)
[01:22:05 -2968.911687] Model parameter optimization (eps = 3.000000)
[01:22:12 -2945.828209] FAST spr round 1 (radius: 25)
[01:22:19 -2632.822414] FAST spr round 2 (radius: 25)
[01:22:26 -2629.586050] FAST spr round 3 (radius: 25)
[01:22:32 -2628.849508] FAST spr round 4 (radius: 25)
[01:22:38 -2627.047042] FAST spr round 5 (radius: 25)
[01:22:44 -2627.046187] Model parameter optimization (eps = 1.000000)
[01:22:46 -2626.393461] SLOW spr round 1 (radius: 5)
[01:22:54 -2626.375478] SLOW spr round 2 (radius: 10)
[01:23:02 -2617.195102] SLOW spr round 3 (radius: 5)
[01:23:11 -2615.562522] SLOW spr round 4 (radius: 5)
[01:23:19 -2615.562399] SLOW spr round 5 (radius: 10)
[01:23:27 -2615.562298] SLOW spr round 6 (radius: 15)
[01:23:36 -2609.124294] SLOW spr round 7 (radius: 5)
[01:23:46 -2606.683620] SLOW spr round 8 (radius: 5)
[01:23:55 -2606.683405] SLOW spr round 9 (radius: 10)
[01:24:03 -2604.204371] SLOW spr round 10 (radius: 5)
[01:24:11 -2603.270223] SLOW spr round 11 (radius: 5)
[01:24:20 -2603.231614] SLOW spr round 12 (radius: 10)
[01:24:27 -2602.243421] SLOW spr round 13 (radius: 5)
[01:24:36 -2602.242741] SLOW spr round 14 (radius: 10)
[01:24:43 -2602.242343] SLOW spr round 15 (radius: 15)
[01:24:52 -2602.242100] SLOW spr round 16 (radius: 20)
[01:25:04 -2602.241936] SLOW spr round 17 (radius: 25)
[01:25:16 -2602.241834] Model parameter optimization (eps = 0.100000)

[01:25:18] ML tree search #19, logLikelihood: -2602.162306

[01:25:18 -12702.241508] Initial branch length optimization
[01:25:18 -10375.295343] Model parameter optimization (eps = 10.000000)
[01:25:23 -10326.383922] AUTODETECT spr round 1 (radius: 5)
[01:25:29 -5972.779091] AUTODETECT spr round 2 (radius: 10)
[01:25:37 -4342.453544] AUTODETECT spr round 3 (radius: 15)
[01:25:45 -3789.790442] AUTODETECT spr round 4 (radius: 20)
[01:25:54 -3193.294842] AUTODETECT spr round 5 (radius: 25)
[01:26:05 -3156.028741] SPR radius for FAST iterations: 25 (autodetect)
[01:26:05 -3156.028741] Model parameter optimization (eps = 3.000000)
[01:26:09 -3134.046054] FAST spr round 1 (radius: 25)
[01:26:17 -2763.999901] FAST spr round 2 (radius: 25)
[01:26:24 -2695.041977] FAST spr round 3 (radius: 25)
[01:26:30 -2693.812349] FAST spr round 4 (radius: 25)
[01:26:36 -2692.059753] FAST spr round 5 (radius: 25)
[01:26:42 -2692.059750] Model parameter optimization (eps = 1.000000)
[01:26:45 -2690.157857] SLOW spr round 1 (radius: 5)
[01:26:52 -2687.322945] SLOW spr round 2 (radius: 5)
[01:27:00 -2682.576785] SLOW spr round 3 (radius: 5)
[01:27:07 -2681.994266] SLOW spr round 4 (radius: 5)
[01:27:15 -2681.994095] SLOW spr round 5 (radius: 10)
[01:27:23 -2679.311898] SLOW spr round 6 (radius: 5)
[01:27:32 -2679.307720] SLOW spr round 7 (radius: 10)
[01:27:40 -2678.601515] SLOW spr round 8 (radius: 5)
[01:27:49 -2678.093136] SLOW spr round 9 (radius: 5)
[01:27:57 -2678.091862] SLOW spr round 10 (radius: 10)
[01:28:04 -2678.091360] SLOW spr round 11 (radius: 15)
[01:28:14 -2657.230101] SLOW spr round 12 (radius: 5)
[01:28:24 -2653.563590] SLOW spr round 13 (radius: 5)
[01:28:32 -2651.310923] SLOW spr round 14 (radius: 5)
[01:28:39 -2651.310886] SLOW spr round 15 (radius: 10)
[01:28:46 -2651.310866] SLOW spr round 16 (radius: 15)
[01:28:55 -2649.813852] SLOW spr round 17 (radius: 5)
[01:29:05 -2649.813832] SLOW spr round 18 (radius: 10)
[01:29:13 -2649.446952] SLOW spr round 19 (radius: 5)
[01:29:22 -2649.344852] SLOW spr round 20 (radius: 5)
[01:29:30 -2649.344789] SLOW spr round 21 (radius: 10)
[01:29:37 -2649.344789] SLOW spr round 22 (radius: 15)
[01:29:46 -2649.344789] SLOW spr round 23 (radius: 20)
[01:29:56 -2649.344788] SLOW spr round 24 (radius: 25)
[01:30:07 -2649.344788] Model parameter optimization (eps = 0.100000)

[01:30:09] ML tree search #20, logLikelihood: -2648.640993


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.227597,0.607395) (0.263553,1.167082) (0.439877,0.614838) (0.068973,4.113451) 
   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: -2595.820423

AIC score: 6389.640847 / AICc score: 725189.640847 / BIC score: 7208.651049
Free parameters (model + branch lengths): 599

WARNING: Number of free parameters (K=599) is larger than alignment size (n=29).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 174 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/3_mltree/Q8IXB3.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/3_mltree/Q8IXB3.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/3_mltree/Q8IXB3.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/3_mltree/Q8IXB3.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q8IXB3/3_mltree/Q8IXB3.raxml.log

Analysis started: 13-Jul-2021 14:12:24 / finished: 13-Jul-2021 15:42:34

Elapsed time: 5409.891 seconds