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 6258R CPU @ 2.70GHz, 56 cores, 187 GB RAM

RAxML-NG was called at 26-Jul-2021 00:10:22 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/2_msa/A6NKL6_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/3_mltree/A6NKL6 --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: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/2_msa/A6NKL6_trimmed_msa.fasta
[00:00:00] Loaded alignment with 254 taxa and 42 sites

WARNING: Sequences tr_E7FAA8_E7FAA8_DANRE_7955 and tr_A0A3B1J0U6_A0A3B1J0U6_ASTMX_7994 are exactly identical!
WARNING: Sequences tr_E7FAA8_E7FAA8_DANRE_7955 and tr_W5M5B1_W5M5B1_LEPOC_7918 are exactly identical!
WARNING: Sequences tr_E7FAA8_E7FAA8_DANRE_7955 and tr_A0A1S3Q9T3_A0A1S3Q9T3_SALSA_8030 are exactly identical!
WARNING: Sequences tr_E7FAA8_E7FAA8_DANRE_7955 and tr_A0A060WRH4_A0A060WRH4_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_E7FAA8_E7FAA8_DANRE_7955 and tr_A0A2D0SRM4_A0A2D0SRM4_ICTPU_7998 are exactly identical!
WARNING: Sequences sp_Q5RGQ8_T200A_DANRE_7955 and tr_W5LRP5_W5LRP5_ASTMX_7994 are exactly identical!
WARNING: Sequences sp_Q5RGQ8_T200A_DANRE_7955 and tr_A0A0N8JYU2_A0A0N8JYU2_9TELE_113540 are exactly identical!
WARNING: Sequences sp_Q5RGQ8_T200A_DANRE_7955 and tr_A0A1S3M9G3_A0A1S3M9G3_SALSA_8030 are exactly identical!
WARNING: Sequences sp_Q5RGQ8_T200A_DANRE_7955 and tr_A0A1S3S877_A0A1S3S877_SALSA_8030 are exactly identical!
WARNING: Sequences sp_Q5RGQ8_T200A_DANRE_7955 and tr_A0A060VWU8_A0A060VWU8_ONCMY_8022 are exactly identical!
WARNING: Sequences sp_Q5RGQ8_T200A_DANRE_7955 and tr_A0A060W588_A0A060W588_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_G1NAV7_G1NAV7_MELGA_9103 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_G1KJF4_G1KJF4_ANOCA_28377 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_H0ZI71_H0ZI71_TAEGU_59729 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_U3KIF3_U3KIF3_FICAL_59894 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_U3IYC8_U3IYC8_ANAPL_8839 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A0Q3XA98_A0A0Q3XA98_AMAAE_12930 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A091EX89_A0A091EX89_CORBR_85066 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A093SHY6_A0A093SHY6_9PASS_328815 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A093H3L7_A0A093H3L7_STRCA_441894 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A091VTH4_A0A091VTH4_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A099YRF3_A0A099YRF3_TINGU_94827 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A091GJ88_A0A091GJ88_9AVES_55661 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A0A0A5C9_A0A0A0A5C9_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A2I0MXN3_A0A2I0MXN3_COLLI_8932 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A093G6Q2_A0A093G6Q2_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A091HME2_A0A091HME2_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A218UTW4_A0A218UTW4_9PASE_299123 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A226NG41_A0A226NG41_CALSU_9009 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A226P0I1_A0A226P0I1_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A1D5NYL2_A0A1D5NYL2_CHICK_9031 and tr_A0A2Y9IQX2_A0A2Y9IQX2_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_A0A1L1RKE6_A0A1L1RKE6_CHICK_9031 and tr_G1MTW8_G1MTW8_MELGA_9103 are exactly identical!
WARNING: Sequences tr_A0A1L1RKE6_A0A1L1RKE6_CHICK_9031 and tr_A0A226MFH0_A0A226MFH0_CALSU_9009 are exactly identical!
WARNING: Sequences tr_A0A1L1RKE6_A0A1L1RKE6_CHICK_9031 and tr_A0A226PEK4_A0A226PEK4_COLVI_9014 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and sp_Q8C817_T200A_MOUSE_10090 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_M3Z573_M3Z573_MUSPF_9669 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2I3HHI4_A0A2I3HHI4_NOMLE_61853 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G1Q6E1_G1Q6E1_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G3IP88_G3IP88_CRIGR_10029 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G3RBN2_G3RBN2_GORGO_9595 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2J8X8Z7_A0A2J8X8Z7_PONAB_9601 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G1NRT3_G1NRT3_MELGA_9103 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G1TI22_G1TI22_RABIT_9986 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_F1PVX7_F1PVX7_CANLF_9615 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_H2QTQ7_H2QTQ7_PANTR_9598 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_F7FTT2_F7FTT2_ORNAN_9258 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_F6Y6T7_F6Y6T7_MONDO_13616 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_F7DA31_F7DA31_HORSE_9796 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_W5QFJ4_W5QFJ4_SHEEP_9940 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_D3Z9K1_D3Z9K1_RAT_10116 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_I3N5E8_I3N5E8_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_H0WJ16_H0WJ16_OTOGA_30611 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and sp_Q86VY9_T200A_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_F7GYN1_F7GYN1_MACMU_9544 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_K7F043_K7F043_PELSI_13735 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G3TVS6_G3TVS6_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G3X103_G3X103_SARHA_9305 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_H0ZN84_H0ZN84_TAEGU_59729 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_F7HRG4_F7HRG4_CALJA_9483 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_F1S3M7_F1S3M7_PIG_9823 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_D2HLW9_D2HLW9_AILME_9646 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G7P364_G7P364_MACFA_9541 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_G3MXC0_G3MXC0_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_L5JPN6_L5JPN6_PTEAL_9402 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_M3WWZ1_M3WWZ1_FELCA_9685 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_U3KLM8_U3KLM8_FICAL_59894 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_R0LSD4_R0LSD4_ANAPL_8839 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A096NEF5_A0A096NEF5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A091D9C1_A0A091D9C1_FUKDA_885580 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A0D9SC94_A0A0D9SC94_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A151M3H3_A0A151M3H3_ALLMI_8496 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A0Q3UQU1_A0A0Q3UQU1_AMAAE_12930 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A091F0L5_A0A091F0L5_CORBR_85066 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A091K9Z8_A0A091K9Z8_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A093PWZ4_A0A093PWZ4_9PASS_328815 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A091VVH5_A0A091VVH5_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A087R6E6_A0A087R6E6_APTFO_9233 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A093KE06_A0A093KE06_STRCA_441894 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A091VXX4_A0A091VXX4_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A099ZFY3_A0A099ZFY3_TINGU_94827 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A091GU40_A0A091GU40_9AVES_55661 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A0A0A5S9_A0A0A0A5S9_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2I0MU54_A0A2I0MU54_COLLI_8932 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A091I8W0_A0A091I8W0_CALAN_9244 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A1S3G2K0_A0A1S3G2K0_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A1U7SRA9_A0A1U7SRA9_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A1U7S4T5_A0A1U7S4T5_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A1U8D401_A0A1U8D401_MESAU_10036 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A1V4JLL7_A0A1V4JLL7_PATFA_372326 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A218V6P8_A0A218V6P8_9PASE_299123 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A226NAH1_A0A226NAH1_CALSU_9009 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A226NWA1_A0A226NWA1_COLVI_9014 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2K5KPR4_A0A2K5KPR4_CERAT_9531 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2K6ALT3_A0A2K6ALT3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2K5XWS7_A0A2K5XWS7_MANLE_9568 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2R8ZMD5_A0A2R8ZMD5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2U3W041_A0A2U3W041_ODORO_9708 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2U3XZ55_A0A2U3XZ55_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2Y9D771_A0A2Y9D771_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A2Y9JF49_A0A2Y9JF49_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_E1BT36_E1BT36_CHICK_9031 and tr_A0A384C4H6_A0A384C4H6_URSMA_29073 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_M3Z839_M3Z839_MUSPF_9669 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_G1R5G3_G1R5G3_NOMLE_61853 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_G3HT48_G3HT48_CRIGR_10029 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2J8XGX8_A0A2J8XGX8_PONAB_9601 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_G1TLJ0_G1TLJ0_RABIT_9986 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_H2R6U0_H2R6U0_PANTR_9598 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_F7EYB3_F7EYB3_MONDO_13616 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_M0R5E3_M0R5E3_RAT_10116 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_I3MZQ7_I3MZQ7_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_H0Y0D6_H0Y0D6_OTOGA_30611 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A286XDG3_A0A286XDG3_CAVPO_10141 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and sp_A6NKL6_T200C_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A1D5QV31_A0A1D5QV31_MACMU_9544 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_G3TCD3_G3TCD3_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_G3WFF8_G3WFF8_SARHA_9305 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_U3D7K8_U3D7K8_CALJA_9483 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A287BP26_A0A287BP26_PIG_9823 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_G7PWE8_G7PWE8_MACFA_9541 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_L5K5H6_L5K5H6_PTEAL_9402 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A096MUW4_A0A096MUW4_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A0D9SB70_A0A0D9SB70_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A1U7SRH0_A0A1U7SRH0_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A1U8CR14_A0A1U8CR14_MESAU_10036 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2K5L0U5_A0A2K5L0U5_CERAT_9531 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2K6ASB7_A0A2K6ASB7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2K5Z3W0_A0A2K5Z3W0_MANLE_9568 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2R8ZQD2_A0A2R8ZQD2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2U4A5Y3_A0A2U4A5Y3_TURTR_9739 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2U3WRD0_A0A2U3WRD0_ODORO_9708 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2U3YEF4_A0A2U3YEF4_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2Y9LJF9_A0A2Y9LJF9_DELLE_9749 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A2Y9SKN7_A0A2Y9SKN7_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A384C7I8_A0A384C7I8_URSMA_29073 are exactly identical!
WARNING: Sequences tr_J3QK46_J3QK46_MOUSE_10090 and tr_A0A384BAS2_A0A384BAS2_BALAS_310752 are exactly identical!
WARNING: Sequences tr_H2MRU7_H2MRU7_ORYLA_8090 and tr_A0A3B5Q6M2_A0A3B5Q6M2_XIPMA_8083 are exactly identical!
WARNING: Sequences tr_H2MRU7_H2MRU7_ORYLA_8090 and tr_I3IWA2_I3IWA2_ORENI_8128 are exactly identical!
WARNING: Sequences tr_H2MRU7_H2MRU7_ORYLA_8090 and tr_H2UEX6_H2UEX6_TAKRU_31033 are exactly identical!
WARNING: Sequences tr_H2MRU7_H2MRU7_ORYLA_8090 and tr_H3D047_H3D047_TETNG_99883 are exactly identical!
WARNING: Sequences tr_H2MRU7_H2MRU7_ORYLA_8090 and tr_A0A087Y0S9_A0A087Y0S9_POEFO_48698 are exactly identical!
WARNING: Sequences tr_H2MRU7_H2MRU7_ORYLA_8090 and tr_A0A2I4BI03_A0A2I4BI03_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_K7B6W0_K7B6W0_PANTR_9598 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_A0A287D009_A0A287D009_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_H0W7T3_H0W7T3_CAVPO_10141 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and sp_Q69YZ2_T200B_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_F6W832_F6W832_MACMU_9544 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_A0A0D9S912_A0A0D9S912_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_A0A1S3GYP1_A0A1S3GYP1_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_A0A2K5KK09_A0A2K5KK09_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I2Y523_A0A2I2Y523_GORGO_9595 and tr_A0A2K6B257_A0A2K6B257_MACNE_9545 are exactly identical!
WARNING: Sequences tr_W5PLG8_W5PLG8_SHEEP_9940 and tr_G3MZJ8_G3MZJ8_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_D3Z9B6_D3Z9B6_RAT_10116 and tr_A0A1U8C8C9_A0A1U8C8C9_MESAU_10036 are exactly identical!
WARNING: Sequences tr_A0A3B5R521_A0A3B5R521_XIPMA_8083 and tr_I3KD31_I3KD31_ORENI_8128 are exactly identical!
WARNING: Sequences tr_A0A3B5R521_A0A3B5R521_XIPMA_8083 and tr_A0A087XUG7_A0A087XUG7_POEFO_48698 are exactly identical!
WARNING: Sequences tr_I3KQ83_I3KQ83_ORENI_8128 and tr_G3PWM7_G3PWM7_GASAC_69293 are exactly identical!
WARNING: Sequences tr_I3KQ83_I3KQ83_ORENI_8128 and tr_W5KY66_W5KY66_ASTMX_7994 are exactly identical!
WARNING: Sequences tr_I3KQ83_I3KQ83_ORENI_8128 and tr_A0A087YQJ8_A0A087YQJ8_POEFO_48698 are exactly identical!
WARNING: Sequences tr_I3KQ83_I3KQ83_ORENI_8128 and tr_A0A2I4D338_A0A2I4D338_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A3B5JZ29_A0A3B5JZ29_TAKRU_31033 and tr_A0A2U9BI65_A0A2U9BI65_SCOMX_52904 are exactly identical!
WARNING: Sequences tr_G5B1L1_G5B1L1_HETGA_10181 and tr_A0A1S3G1D9_A0A1S3G1D9_DIPOR_10020 are exactly identical!
WARNING: Sequences tr_G3PIC0_G3PIC0_GASAC_69293 and tr_A0A2U9CUM1_A0A2U9CUM1_SCOMX_52904 are exactly identical!
WARNING: Sequences tr_H0YR45_H0YR45_TAEGU_59729 and tr_U3JF56_U3JF56_FICAL_59894 are exactly identical!
WARNING: Sequences tr_H0YR45_H0YR45_TAEGU_59729 and tr_A0A218URJ9_A0A218URJ9_9PASE_299123 are exactly identical!
WARNING: Sequences tr_F6VQP4_F6VQP4_XENTR_8364 and tr_W5NMX7_W5NMX7_LEPOC_7918 are exactly identical!
WARNING: Sequences tr_F6VQP4_F6VQP4_XENTR_8364 and tr_A0A1L8G8G9_A0A1L8G8G9_XENLA_8355 are exactly identical!
WARNING: Sequences tr_F6ZD58_F6ZD58_XENTR_8364 and tr_A0A1L8FYJ8_A0A1L8FYJ8_XENLA_8355 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_L5JU83_L5JU83_PTEAL_9402 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_M3WXB4_M3WXB4_FELCA_9685 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_A0A1S3WAG3_A0A1S3WAG3_ERIEU_9365 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_A0A2U4BL87_A0A2U4BL87_TURTR_9739 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_A0A2U3VIZ6_A0A2U3VIZ6_ODORO_9708 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_A0A2U3XFQ7_A0A2U3XFQ7_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_A0A2Y9LQZ0_A0A2Y9LQZ0_DELLE_9749 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_A0A2Y9SW07_A0A2Y9SW07_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_G5E6J0_G5E6J0_BOVIN_9913 and tr_A0A383Z621_A0A383Z621_BALAS_310752 are exactly identical!
WARNING: Sequences tr_A0A151PG60_A0A151PG60_ALLMI_8496 and tr_A0A3Q0GDJ7_A0A3Q0GDJ7_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A0Q3XA75_A0A0Q3XA75_AMAAE_12930 and tr_A0A2I0LS08_A0A2I0LS08_COLLI_8932 are exactly identical!
WARNING: Sequences tr_A0A0Q3XA75_A0A0Q3XA75_AMAAE_12930 and tr_A0A1V4JI66_A0A1V4JI66_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A1S3NIH1_A0A1S3NIH1_SALSA_8030 and tr_A0A060XMW6_A0A060XMW6_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3RZD8_A0A1S3RZD8_SALSA_8030 and tr_A0A1S3S002_A0A1S3S002_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A2U3UYN9_A0A2U3UYN9_TURTR_9739 and tr_A0A2Y9LS62_A0A2Y9LS62_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U3UYN9_A0A2U3UYN9_TURTR_9739 and tr_A0A2Y9EWJ1_A0A2Y9EWJ1_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_A0A2U3UYN9_A0A2U3UYN9_TURTR_9739 and tr_A0A384AU38_A0A384AU38_BALAS_310752 are exactly identical!
WARNING: Duplicate sequences found: 183

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/3_mltree/A6NKL6.raxml.reduced.phy

Alignment comprises 1 partitions and 42 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 42 / 42
Gaps: 0.69 %
Invariant sites: 28.57 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/3_mltree/A6NKL6.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 254 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 42 / 3360
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -9140.427063] Initial branch length optimization
[00:00:00 -6235.842327] Model parameter optimization (eps = 10.000000)
[00:00:07 -6223.246989] AUTODETECT spr round 1 (radius: 5)
[00:00:16 -2750.584605] AUTODETECT spr round 2 (radius: 10)
[00:00:27 -1779.602852] AUTODETECT spr round 3 (radius: 15)
[00:00:38 -1467.996712] AUTODETECT spr round 4 (radius: 20)
[00:00:50 -1206.207387] AUTODETECT spr round 5 (radius: 25)
[00:01:04 -1187.784644] SPR radius for FAST iterations: 25 (autodetect)
[00:01:04 -1187.784644] Model parameter optimization (eps = 3.000000)
[00:01:09 -1183.806544] FAST spr round 1 (radius: 25)
[00:01:22 -1002.929261] FAST spr round 2 (radius: 25)
[00:01:35 -990.545663] FAST spr round 3 (radius: 25)
[00:01:46 -990.030597] FAST spr round 4 (radius: 25)
[00:01:57 -990.030587] Model parameter optimization (eps = 1.000000)
[00:02:02 -988.119411] SLOW spr round 1 (radius: 5)
[00:02:14 -987.884503] SLOW spr round 2 (radius: 5)
[00:02:26 -987.770746] SLOW spr round 3 (radius: 5)
[00:02:38 -986.743736] SLOW spr round 4 (radius: 5)
[00:02:50 -986.743595] SLOW spr round 5 (radius: 10)
[00:03:03 -986.743533] SLOW spr round 6 (radius: 15)
[00:03:17 -986.743443] SLOW spr round 7 (radius: 20)
[00:03:34 -985.248990] SLOW spr round 8 (radius: 5)
[00:03:49 -984.995221] SLOW spr round 9 (radius: 5)
[00:04:01 -984.995209] SLOW spr round 10 (radius: 10)
[00:04:14 -984.995180] SLOW spr round 11 (radius: 15)
[00:04:28 -984.995140] SLOW spr round 12 (radius: 20)
[00:04:44 -984.995122] SLOW spr round 13 (radius: 25)
[00:05:03 -984.995122] Model parameter optimization (eps = 0.100000)

[00:05:04] ML tree search #1, logLikelihood: -984.923221

[00:05:04 -9064.422259] Initial branch length optimization
[00:05:05 -6149.466723] Model parameter optimization (eps = 10.000000)
[00:05:12 -6134.884962] AUTODETECT spr round 1 (radius: 5)
[00:05:20 -2795.794143] AUTODETECT spr round 2 (radius: 10)
[00:05:31 -1934.925417] AUTODETECT spr round 3 (radius: 15)
[00:05:43 -1600.297569] AUTODETECT spr round 4 (radius: 20)
[00:05:58 -1229.381833] AUTODETECT spr round 5 (radius: 25)
[00:06:13 -1143.647724] SPR radius for FAST iterations: 25 (autodetect)
[00:06:13 -1143.647724] Model parameter optimization (eps = 3.000000)
[00:06:15 -1140.931980] FAST spr round 1 (radius: 25)
[00:06:28 -1005.317813] FAST spr round 2 (radius: 25)
[00:06:40 -997.539602] FAST spr round 3 (radius: 25)
[00:06:52 -997.539359] Model parameter optimization (eps = 1.000000)
[00:06:54 -996.810567] SLOW spr round 1 (radius: 5)
[00:07:06 -996.809999] SLOW spr round 2 (radius: 10)
[00:07:18 -996.809972] SLOW spr round 3 (radius: 15)
[00:07:35 -987.727676] SLOW spr round 4 (radius: 5)
[00:07:50 -986.042343] SLOW spr round 5 (radius: 5)
[00:08:02 -985.067097] SLOW spr round 6 (radius: 5)
[00:08:14 -985.067053] SLOW spr round 7 (radius: 10)
[00:08:26 -985.067052] SLOW spr round 8 (radius: 15)
[00:08:40 -985.067052] SLOW spr round 9 (radius: 20)
[00:08:58 -985.067052] SLOW spr round 10 (radius: 25)
[00:09:16 -984.937051] SLOW spr round 11 (radius: 5)
[00:09:31 -984.929646] SLOW spr round 12 (radius: 10)
[00:09:44 -984.929175] SLOW spr round 13 (radius: 15)
[00:10:00 -984.781609] SLOW spr round 14 (radius: 5)
[00:10:14 -984.781605] SLOW spr round 15 (radius: 10)
[00:10:27 -984.781603] SLOW spr round 16 (radius: 15)
[00:10:41 -984.781603] SLOW spr round 17 (radius: 20)
[00:11:00 -984.781603] SLOW spr round 18 (radius: 25)
[00:11:19 -984.781603] Model parameter optimization (eps = 0.100000)

[00:11:21] ML tree search #2, logLikelihood: -984.662891

[00:11:21 -9076.380820] Initial branch length optimization
[00:11:21 -6201.846862] Model parameter optimization (eps = 10.000000)
[00:11:29 -6180.768196] AUTODETECT spr round 1 (radius: 5)
[00:11:38 -3076.160436] AUTODETECT spr round 2 (radius: 10)
[00:11:49 -1966.899647] AUTODETECT spr round 3 (radius: 15)
[00:12:00 -1618.800044] AUTODETECT spr round 4 (radius: 20)
[00:12:13 -1497.115945] AUTODETECT spr round 5 (radius: 25)
[00:12:26 -1365.822526] SPR radius for FAST iterations: 25 (autodetect)
[00:12:26 -1365.822526] Model parameter optimization (eps = 3.000000)
[00:12:38 -1362.174794] FAST spr round 1 (radius: 25)
[00:12:51 -1090.004732] FAST spr round 2 (radius: 25)
[00:13:04 -1044.680631] FAST spr round 3 (radius: 25)
[00:13:16 -998.995505] FAST spr round 4 (radius: 25)
[00:13:28 -998.992625] Model parameter optimization (eps = 1.000000)
[00:13:31 -995.381812] SLOW spr round 1 (radius: 5)
[00:13:43 -995.380105] SLOW spr round 2 (radius: 10)
[00:13:56 -994.894997] SLOW spr round 3 (radius: 5)
[00:14:09 -994.894962] SLOW spr round 4 (radius: 10)
[00:14:23 -994.894957] SLOW spr round 5 (radius: 15)
[00:14:37 -992.226280] SLOW spr round 6 (radius: 5)
[00:14:52 -992.226228] SLOW spr round 7 (radius: 10)
[00:15:05 -992.226226] SLOW spr round 8 (radius: 15)
[00:15:20 -992.226225] SLOW spr round 9 (radius: 20)
[00:15:36 -989.399525] SLOW spr round 10 (radius: 5)
[00:15:51 -989.399525] SLOW spr round 11 (radius: 10)
[00:16:05 -989.399525] SLOW spr round 12 (radius: 15)
[00:16:19 -989.399525] SLOW spr round 13 (radius: 20)
[00:16:35 -989.399525] SLOW spr round 14 (radius: 25)
[00:16:52 -989.399525] Model parameter optimization (eps = 0.100000)

[00:16:54] ML tree search #3, logLikelihood: -989.379592

[00:16:54 -8985.005543] Initial branch length optimization
[00:16:54 -6136.121478] Model parameter optimization (eps = 10.000000)
[00:17:02 -6123.594131] AUTODETECT spr round 1 (radius: 5)
[00:17:11 -3083.674306] AUTODETECT spr round 2 (radius: 10)
[00:17:22 -1835.524919] AUTODETECT spr round 3 (radius: 15)
[00:17:33 -1475.783442] AUTODETECT spr round 4 (radius: 20)
[00:17:46 -1427.963314] AUTODETECT spr round 5 (radius: 25)
[00:18:00 -1179.748482] SPR radius for FAST iterations: 25 (autodetect)
[00:18:00 -1179.748482] Model parameter optimization (eps = 3.000000)
[00:18:03 -1176.357704] FAST spr round 1 (radius: 25)
[00:18:17 -1041.799630] FAST spr round 2 (radius: 25)
[00:18:31 -1032.410225] FAST spr round 3 (radius: 25)
[00:18:43 -1032.345681] Model parameter optimization (eps = 1.000000)
[00:18:46 -1031.356414] SLOW spr round 1 (radius: 5)
[00:18:58 -1030.866362] SLOW spr round 2 (radius: 5)
[00:19:09 -1030.865627] SLOW spr round 3 (radius: 10)
[00:19:23 -1026.258249] SLOW spr round 4 (radius: 5)
[00:19:36 -1025.914995] SLOW spr round 5 (radius: 5)
[00:19:48 -1025.340033] SLOW spr round 6 (radius: 5)
[00:20:00 -1025.339866] SLOW spr round 7 (radius: 10)
[00:20:13 -1025.339862] SLOW spr round 8 (radius: 15)
[00:20:27 -1025.137348] SLOW spr round 9 (radius: 5)
[00:20:40 -1025.137244] SLOW spr round 10 (radius: 10)
[00:20:53 -1025.137235] SLOW spr round 11 (radius: 15)
[00:21:07 -1025.137233] SLOW spr round 12 (radius: 20)
[00:21:23 -1007.896215] SLOW spr round 13 (radius: 5)
[00:21:38 -987.830144] SLOW spr round 14 (radius: 5)
[00:21:50 -987.829676] SLOW spr round 15 (radius: 10)
[00:22:02 -987.820241] SLOW spr round 16 (radius: 15)
[00:22:16 -987.820225] SLOW spr round 17 (radius: 20)
[00:22:31 -987.820223] SLOW spr round 18 (radius: 25)
[00:22:48 -986.598311] SLOW spr round 19 (radius: 5)
[00:23:03 -986.598067] SLOW spr round 20 (radius: 10)
[00:23:16 -986.598044] SLOW spr round 21 (radius: 15)
[00:23:30 -986.598041] SLOW spr round 22 (radius: 20)
[00:23:46 -986.598040] SLOW spr round 23 (radius: 25)
[00:24:01 -986.598040] Model parameter optimization (eps = 0.100000)

[00:24:04] ML tree search #4, logLikelihood: -986.311051

[00:24:04 -8956.871930] Initial branch length optimization
[00:24:04 -6085.992664] Model parameter optimization (eps = 10.000000)
[00:24:14 -6070.019128] AUTODETECT spr round 1 (radius: 5)
[00:24:23 -2910.976954] AUTODETECT spr round 2 (radius: 10)
[00:24:33 -2145.568347] AUTODETECT spr round 3 (radius: 15)
[00:24:46 -1598.151855] AUTODETECT spr round 4 (radius: 20)
[00:24:59 -1423.171888] AUTODETECT spr round 5 (radius: 25)
[00:25:13 -1292.911819] SPR radius for FAST iterations: 25 (autodetect)
[00:25:13 -1292.911819] Model parameter optimization (eps = 3.000000)
[00:25:16 -1290.762200] FAST spr round 1 (radius: 25)
[00:25:29 -1068.522607] FAST spr round 2 (radius: 25)
[00:25:42 -1030.325218] FAST spr round 3 (radius: 25)
[00:25:54 -1030.323705] Model parameter optimization (eps = 1.000000)
[00:25:56 -1029.984929] SLOW spr round 1 (radius: 5)
[00:26:08 -1025.302047] SLOW spr round 2 (radius: 5)
[00:26:20 -1025.300562] SLOW spr round 3 (radius: 10)
[00:26:34 -1025.300392] SLOW spr round 4 (radius: 15)
[00:26:50 -1004.217527] SLOW spr round 5 (radius: 5)
[00:27:04 -987.500708] SLOW spr round 6 (radius: 5)
[00:27:16 -987.500605] SLOW spr round 7 (radius: 10)
[00:27:29 -987.500588] SLOW spr round 8 (radius: 15)
[00:27:44 -987.112835] SLOW spr round 9 (radius: 5)
[00:27:58 -987.111683] SLOW spr round 10 (radius: 10)
[00:28:12 -987.111517] SLOW spr round 11 (radius: 15)
[00:28:26 -987.111489] SLOW spr round 12 (radius: 20)
[00:28:42 -986.753018] SLOW spr round 13 (radius: 5)
[00:28:57 -986.617531] SLOW spr round 14 (radius: 5)
[00:29:09 -986.617499] SLOW spr round 15 (radius: 10)
[00:29:21 -986.617494] SLOW spr round 16 (radius: 15)
[00:29:35 -986.617493] SLOW spr round 17 (radius: 20)
[00:29:50 -986.617493] SLOW spr round 18 (radius: 25)
[00:30:05 -986.617493] Model parameter optimization (eps = 0.100000)

[00:30:09] ML tree search #5, logLikelihood: -986.035810

[00:30:09 -9173.777311] Initial branch length optimization
[00:30:09 -6224.081570] Model parameter optimization (eps = 10.000000)
[00:30:18 -6209.805998] AUTODETECT spr round 1 (radius: 5)
[00:30:27 -2822.606856] AUTODETECT spr round 2 (radius: 10)
[00:30:37 -2020.874489] AUTODETECT spr round 3 (radius: 15)
[00:30:50 -1474.071392] AUTODETECT spr round 4 (radius: 20)
[00:31:03 -1164.623378] AUTODETECT spr round 5 (radius: 25)
[00:31:16 -1140.253384] SPR radius for FAST iterations: 25 (autodetect)
[00:31:16 -1140.253384] Model parameter optimization (eps = 3.000000)
[00:31:21 -1136.579652] FAST spr round 1 (radius: 25)
[00:31:34 -1008.482825] FAST spr round 2 (radius: 25)
[00:31:46 -999.571243] FAST spr round 3 (radius: 25)
[00:31:57 -999.570871] Model parameter optimization (eps = 1.000000)
[00:32:01 -997.836196] SLOW spr round 1 (radius: 5)
[00:32:13 -997.835639] SLOW spr round 2 (radius: 10)
[00:32:27 -993.898000] SLOW spr round 3 (radius: 5)
[00:32:40 -991.987086] SLOW spr round 4 (radius: 5)
[00:32:52 -990.004719] SLOW spr round 5 (radius: 5)
[00:33:03 -989.263299] SLOW spr round 6 (radius: 5)
[00:33:15 -989.263113] SLOW spr round 7 (radius: 10)
[00:33:27 -989.263076] SLOW spr round 8 (radius: 15)
[00:33:44 -989.263025] SLOW spr round 9 (radius: 20)
[00:34:02 -989.112598] SLOW spr round 10 (radius: 5)
[00:34:17 -987.598972] SLOW spr round 11 (radius: 5)
[00:34:29 -987.598823] SLOW spr round 12 (radius: 10)
[00:34:42 -987.598801] SLOW spr round 13 (radius: 15)
[00:34:56 -987.598777] SLOW spr round 14 (radius: 20)
[00:35:14 -987.598762] SLOW spr round 15 (radius: 25)
[00:35:31 -987.598762] Model parameter optimization (eps = 0.100000)

[00:35:35] ML tree search #6, logLikelihood: -987.161626

[00:35:35 -9226.822557] Initial branch length optimization
[00:35:35 -6306.064010] Model parameter optimization (eps = 10.000000)
[00:35:42 -6290.280696] AUTODETECT spr round 1 (radius: 5)
[00:35:51 -2990.580053] AUTODETECT spr round 2 (radius: 10)
[00:36:01 -2005.604746] AUTODETECT spr round 3 (radius: 15)
[00:36:14 -1339.914135] AUTODETECT spr round 4 (radius: 20)
[00:36:29 -1178.941891] AUTODETECT spr round 5 (radius: 25)
[00:36:42 -1176.237618] SPR radius for FAST iterations: 25 (autodetect)
[00:36:42 -1176.237618] Model parameter optimization (eps = 3.000000)
[00:36:47 -1173.804801] FAST spr round 1 (radius: 25)
[00:37:00 -1019.228028] FAST spr round 2 (radius: 25)
[00:37:12 -999.398110] FAST spr round 3 (radius: 25)
[00:37:25 -993.033794] FAST spr round 4 (radius: 25)
[00:37:36 -993.033682] Model parameter optimization (eps = 1.000000)
[00:37:40 -991.437358] SLOW spr round 1 (radius: 5)
[00:37:52 -991.387788] SLOW spr round 2 (radius: 10)
[00:38:04 -986.930342] SLOW spr round 3 (radius: 5)
[00:38:17 -986.929390] SLOW spr round 4 (radius: 10)
[00:38:29 -986.929241] SLOW spr round 5 (radius: 15)
[00:38:42 -986.317477] SLOW spr round 6 (radius: 5)
[00:38:56 -986.317371] SLOW spr round 7 (radius: 10)
[00:39:08 -986.317366] SLOW spr round 8 (radius: 15)
[00:39:22 -986.317366] SLOW spr round 9 (radius: 20)
[00:39:37 -984.737483] SLOW spr round 10 (radius: 5)
[00:39:51 -984.737056] SLOW spr round 11 (radius: 10)
[00:40:04 -984.737040] SLOW spr round 12 (radius: 15)
[00:40:16 -984.737040] SLOW spr round 13 (radius: 20)
[00:40:31 -984.737040] SLOW spr round 14 (radius: 25)
[00:40:45 -984.737040] Model parameter optimization (eps = 0.100000)

[00:40:47] ML tree search #7, logLikelihood: -984.687311

[00:40:47 -8933.041439] Initial branch length optimization
[00:40:47 -5994.673540] Model parameter optimization (eps = 10.000000)
[00:40:54 -5982.205651] AUTODETECT spr round 1 (radius: 5)
[00:41:03 -2937.484276] AUTODETECT spr round 2 (radius: 10)
[00:41:14 -1865.446629] AUTODETECT spr round 3 (radius: 15)
[00:41:27 -1573.564710] AUTODETECT spr round 4 (radius: 20)
[00:41:40 -1225.237637] AUTODETECT spr round 5 (radius: 25)
[00:41:53 -1181.993489] SPR radius for FAST iterations: 25 (autodetect)
[00:41:53 -1181.993489] Model parameter optimization (eps = 3.000000)
[00:41:56 -1179.319280] FAST spr round 1 (radius: 25)
[00:42:09 -1021.909998] FAST spr round 2 (radius: 25)
[00:42:21 -1013.830090] FAST spr round 3 (radius: 25)
[00:42:33 -1013.829956] Model parameter optimization (eps = 1.000000)
[00:42:36 -1013.095266] SLOW spr round 1 (radius: 5)
[00:42:48 -1013.093501] SLOW spr round 2 (radius: 10)
[00:43:02 -1010.320534] SLOW spr round 3 (radius: 5)
[00:43:15 -1009.532333] SLOW spr round 4 (radius: 5)
[00:43:26 -1009.532316] SLOW spr round 5 (radius: 10)
[00:43:40 -1009.532307] SLOW spr round 6 (radius: 15)
[00:43:55 -1002.538067] SLOW spr round 7 (radius: 5)
[00:44:10 -990.678038] SLOW spr round 8 (radius: 5)
[00:44:22 -989.126872] SLOW spr round 9 (radius: 5)
[00:44:34 -989.126483] SLOW spr round 10 (radius: 10)
[00:44:48 -989.126423] SLOW spr round 11 (radius: 15)
[00:45:03 -986.414277] SLOW spr round 12 (radius: 5)
[00:45:17 -986.414227] SLOW spr round 13 (radius: 10)
[00:45:32 -986.414219] SLOW spr round 14 (radius: 15)
[00:45:46 -986.414219] SLOW spr round 15 (radius: 20)
[00:46:05 -986.270151] SLOW spr round 16 (radius: 5)
[00:46:20 -986.270150] SLOW spr round 17 (radius: 10)
[00:46:35 -986.270150] SLOW spr round 18 (radius: 15)
[00:46:49 -986.270150] SLOW spr round 19 (radius: 20)
[00:47:08 -986.270150] SLOW spr round 20 (radius: 25)
[00:47:28 -986.270150] Model parameter optimization (eps = 0.100000)

[00:47:30] ML tree search #8, logLikelihood: -986.237871

[00:47:30 -9285.927695] Initial branch length optimization
[00:47:30 -6413.055803] Model parameter optimization (eps = 10.000000)
[00:47:37 -6400.014997] AUTODETECT spr round 1 (radius: 5)
[00:47:46 -2944.075656] AUTODETECT spr round 2 (radius: 10)
[00:47:57 -2062.337590] AUTODETECT spr round 3 (radius: 15)
[00:48:10 -1509.128092] AUTODETECT spr round 4 (radius: 20)
[00:48:24 -1190.534108] AUTODETECT spr round 5 (radius: 25)
[00:48:37 -1187.372274] SPR radius for FAST iterations: 25 (autodetect)
[00:48:37 -1187.372274] Model parameter optimization (eps = 3.000000)
[00:48:41 -1183.781522] FAST spr round 1 (radius: 25)
[00:48:54 -1024.526105] FAST spr round 2 (radius: 25)
[00:49:07 -997.397135] FAST spr round 3 (radius: 25)
[00:49:18 -993.543837] FAST spr round 4 (radius: 25)
[00:49:30 -993.543821] Model parameter optimization (eps = 1.000000)
[00:49:33 -991.293126] SLOW spr round 1 (radius: 5)
[00:49:45 -991.268746] SLOW spr round 2 (radius: 10)
[00:50:00 -990.085024] SLOW spr round 3 (radius: 5)
[00:50:13 -990.084874] SLOW spr round 4 (radius: 10)
[00:50:27 -985.590075] SLOW spr round 5 (radius: 5)
[00:50:40 -985.589969] SLOW spr round 6 (radius: 10)
[00:50:53 -985.589929] SLOW spr round 7 (radius: 15)
[00:51:09 -985.589887] SLOW spr round 8 (radius: 20)
[00:51:27 -985.197663] SLOW spr round 9 (radius: 5)
[00:51:42 -985.197584] SLOW spr round 10 (radius: 10)
[00:51:55 -985.197551] SLOW spr round 11 (radius: 15)
[00:52:10 -985.197523] SLOW spr round 12 (radius: 20)
[00:52:27 -985.197518] SLOW spr round 13 (radius: 25)
[00:52:45 -985.197518] Model parameter optimization (eps = 0.100000)

[00:52:46] ML tree search #9, logLikelihood: -985.149270

[00:52:46 -8995.416801] Initial branch length optimization
[00:52:47 -6092.419406] Model parameter optimization (eps = 10.000000)
[00:52:55 -6064.545308] AUTODETECT spr round 1 (radius: 5)
[00:53:03 -2759.080733] AUTODETECT spr round 2 (radius: 10)
[00:53:13 -1980.573942] AUTODETECT spr round 3 (radius: 15)
[00:53:25 -1529.073793] AUTODETECT spr round 4 (radius: 20)
[00:53:39 -1246.481231] AUTODETECT spr round 5 (radius: 25)
[00:53:55 -1204.115516] SPR radius for FAST iterations: 25 (autodetect)
[00:53:55 -1204.115516] Model parameter optimization (eps = 3.000000)
[00:54:00 -1199.664223] FAST spr round 1 (radius: 25)
[00:54:13 -1043.048197] FAST spr round 2 (radius: 25)
[00:54:27 -1032.058930] FAST spr round 3 (radius: 25)
[00:54:39 -1027.526152] FAST spr round 4 (radius: 25)
[00:54:51 -1027.526121] Model parameter optimization (eps = 1.000000)
[00:54:55 -1025.872989] SLOW spr round 1 (radius: 5)
[00:55:07 -1025.871801] SLOW spr round 2 (radius: 10)
[00:55:20 -1019.365174] SLOW spr round 3 (radius: 5)
[00:55:33 -1018.862880] SLOW spr round 4 (radius: 5)
[00:55:45 -1018.848373] SLOW spr round 5 (radius: 10)
[00:55:59 -1018.848151] SLOW spr round 6 (radius: 15)
[00:56:12 -1018.199290] SLOW spr round 7 (radius: 5)
[00:56:27 -1018.199007] SLOW spr round 8 (radius: 10)
[00:56:41 -1017.624190] SLOW spr round 9 (radius: 5)
[00:56:53 -1017.624181] SLOW spr round 10 (radius: 10)
[00:57:07 -1017.624145] SLOW spr round 11 (radius: 15)
[00:57:21 -1017.624115] SLOW spr round 12 (radius: 20)
[00:57:38 -989.362151] SLOW spr round 13 (radius: 5)
[00:57:53 -987.518900] SLOW spr round 14 (radius: 5)
[00:58:05 -987.518798] SLOW spr round 15 (radius: 10)
[00:58:19 -987.518788] SLOW spr round 16 (radius: 15)
[00:58:33 -987.518788] SLOW spr round 17 (radius: 20)
[00:58:50 -987.518788] SLOW spr round 18 (radius: 25)
[00:59:06 -987.518788] Model parameter optimization (eps = 0.100000)

[00:59:08] ML tree search #10, logLikelihood: -987.444828

[00:59:08 -9169.725147] Initial branch length optimization
[00:59:08 -6256.801724] Model parameter optimization (eps = 10.000000)
[00:59:16 -6242.075682] AUTODETECT spr round 1 (radius: 5)
[00:59:25 -2873.380796] AUTODETECT spr round 2 (radius: 10)
[00:59:35 -1895.342171] AUTODETECT spr round 3 (radius: 15)
[00:59:48 -1569.690195] AUTODETECT spr round 4 (radius: 20)
[01:00:02 -1303.032294] AUTODETECT spr round 5 (radius: 25)
[01:00:15 -1235.846605] SPR radius for FAST iterations: 25 (autodetect)
[01:00:15 -1235.846605] Model parameter optimization (eps = 3.000000)
[01:00:19 -1233.127067] FAST spr round 1 (radius: 25)
[01:00:32 -1038.550754] FAST spr round 2 (radius: 25)
[01:00:44 -1008.049033] FAST spr round 3 (radius: 25)
[01:00:56 -1007.435842] FAST spr round 4 (radius: 25)
[01:01:08 -1007.435236] Model parameter optimization (eps = 1.000000)
[01:01:13 -1003.359630] SLOW spr round 1 (radius: 5)
[01:01:25 -1003.355581] SLOW spr round 2 (radius: 10)
[01:01:38 -997.343615] SLOW spr round 3 (radius: 5)
[01:01:52 -994.584226] SLOW spr round 4 (radius: 5)
[01:02:03 -994.584189] SLOW spr round 5 (radius: 10)
[01:02:16 -994.098103] SLOW spr round 6 (radius: 5)
[01:02:29 -994.098103] SLOW spr round 7 (radius: 10)
[01:02:41 -994.098103] SLOW spr round 8 (radius: 15)
[01:02:56 -991.315131] SLOW spr round 9 (radius: 5)
[01:03:10 -990.511042] SLOW spr round 10 (radius: 5)
[01:03:22 -990.507494] SLOW spr round 11 (radius: 10)
[01:03:35 -990.506481] SLOW spr round 12 (radius: 15)
[01:03:49 -990.506225] SLOW spr round 13 (radius: 20)
[01:04:04 -990.506163] SLOW spr round 14 (radius: 25)
[01:04:21 -985.653043] SLOW spr round 15 (radius: 5)
[01:04:35 -985.647306] SLOW spr round 16 (radius: 10)
[01:04:48 -985.647204] SLOW spr round 17 (radius: 15)
[01:05:02 -985.647194] SLOW spr round 18 (radius: 20)
[01:05:17 -985.647193] SLOW spr round 19 (radius: 25)
[01:05:32 -985.647193] Model parameter optimization (eps = 0.100000)

[01:05:35] ML tree search #11, logLikelihood: -984.829549

[01:05:35 -8877.277627] Initial branch length optimization
[01:05:35 -6075.967613] Model parameter optimization (eps = 10.000000)
[01:05:42 -6061.255505] AUTODETECT spr round 1 (radius: 5)
[01:05:51 -2482.403482] AUTODETECT spr round 2 (radius: 10)
[01:06:01 -1875.458374] AUTODETECT spr round 3 (radius: 15)
[01:06:14 -1384.042923] AUTODETECT spr round 4 (radius: 20)
[01:06:27 -1214.419837] AUTODETECT spr round 5 (radius: 25)
[01:06:42 -1171.778090] SPR radius for FAST iterations: 25 (autodetect)
[01:06:42 -1171.778090] Model parameter optimization (eps = 3.000000)
[01:06:46 -1167.661041] FAST spr round 1 (radius: 25)
[01:06:59 -1029.570303] FAST spr round 2 (radius: 25)
[01:07:11 -998.060023] FAST spr round 3 (radius: 25)
[01:07:23 -989.540558] FAST spr round 4 (radius: 25)
[01:07:34 -989.540292] Model parameter optimization (eps = 1.000000)
[01:07:39 -986.912973] SLOW spr round 1 (radius: 5)
[01:07:50 -986.909813] SLOW spr round 2 (radius: 10)
[01:08:03 -986.123059] SLOW spr round 3 (radius: 5)
[01:08:16 -986.122962] SLOW spr round 4 (radius: 10)
[01:08:29 -986.122953] SLOW spr round 5 (radius: 15)
[01:08:43 -985.974483] SLOW spr round 6 (radius: 5)
[01:08:58 -985.973408] SLOW spr round 7 (radius: 10)
[01:09:11 -985.973332] SLOW spr round 8 (radius: 15)
[01:09:24 -985.973325] SLOW spr round 9 (radius: 20)
[01:09:42 -985.973324] SLOW spr round 10 (radius: 25)
[01:09:59 -985.283634] SLOW spr round 11 (radius: 5)
[01:10:13 -985.283534] SLOW spr round 12 (radius: 10)
[01:10:26 -985.283520] SLOW spr round 13 (radius: 15)
[01:10:40 -985.283518] SLOW spr round 14 (radius: 20)
[01:10:56 -985.239209] SLOW spr round 15 (radius: 25)
[01:11:13 -985.238592] Model parameter optimization (eps = 0.100000)

[01:11:16] ML tree search #12, logLikelihood: -985.007542

[01:11:16 -9033.237296] Initial branch length optimization
[01:11:16 -6105.620337] Model parameter optimization (eps = 10.000000)
[01:11:24 -6091.040567] AUTODETECT spr round 1 (radius: 5)
[01:11:33 -2682.970009] AUTODETECT spr round 2 (radius: 10)
[01:11:43 -1798.226139] AUTODETECT spr round 3 (radius: 15)
[01:11:55 -1304.128896] AUTODETECT spr round 4 (radius: 20)
[01:12:07 -1124.938331] AUTODETECT spr round 5 (radius: 25)
[01:12:19 -1120.626962] SPR radius for FAST iterations: 25 (autodetect)
[01:12:19 -1120.626962] Model parameter optimization (eps = 3.000000)
[01:12:23 -1115.962876] FAST spr round 1 (radius: 25)
[01:12:36 -1006.319611] FAST spr round 2 (radius: 25)
[01:12:48 -1001.944593] FAST spr round 3 (radius: 25)
[01:12:59 -1001.813416] FAST spr round 4 (radius: 25)
[01:13:11 -1001.346772] FAST spr round 5 (radius: 25)
[01:13:22 -1001.346753] Model parameter optimization (eps = 1.000000)
[01:13:25 -1000.699149] SLOW spr round 1 (radius: 5)
[01:13:37 -1000.682542] SLOW spr round 2 (radius: 10)
[01:13:50 -1000.680555] SLOW spr round 3 (radius: 15)
[01:14:04 -999.446139] SLOW spr round 4 (radius: 5)
[01:14:18 -999.443791] SLOW spr round 5 (radius: 10)
[01:14:32 -998.583325] SLOW spr round 6 (radius: 5)
[01:14:44 -998.582689] SLOW spr round 7 (radius: 10)
[01:14:57 -998.582670] SLOW spr round 8 (radius: 15)
[01:15:10 -996.566154] SLOW spr round 9 (radius: 5)
[01:15:24 -994.733202] SLOW spr round 10 (radius: 5)
[01:15:36 -994.510124] SLOW spr round 11 (radius: 5)
[01:15:48 -994.509955] SLOW spr round 12 (radius: 10)
[01:16:01 -994.509946] SLOW spr round 13 (radius: 15)
[01:16:14 -994.509944] SLOW spr round 14 (radius: 20)
[01:16:29 -992.940833] SLOW spr round 15 (radius: 5)
[01:16:43 -992.940810] SLOW spr round 16 (radius: 10)
[01:16:56 -992.940809] SLOW spr round 17 (radius: 15)
[01:17:10 -992.940809] SLOW spr round 18 (radius: 20)
[01:17:23 -992.940804] SLOW spr round 19 (radius: 25)
[01:17:40 -992.940801] Model parameter optimization (eps = 0.100000)

[01:17:44] ML tree search #13, logLikelihood: -990.047460

[01:17:44 -9061.461969] Initial branch length optimization
[01:17:45 -6185.652702] Model parameter optimization (eps = 10.000000)
[01:17:53 -6171.195627] AUTODETECT spr round 1 (radius: 5)
[01:18:01 -2886.411544] AUTODETECT spr round 2 (radius: 10)
[01:18:12 -1933.278496] AUTODETECT spr round 3 (radius: 15)
[01:18:24 -1472.130902] AUTODETECT spr round 4 (radius: 20)
[01:18:36 -1371.301895] AUTODETECT spr round 5 (radius: 25)
[01:18:49 -1190.016215] SPR radius for FAST iterations: 25 (autodetect)
[01:18:49 -1190.016215] Model parameter optimization (eps = 3.000000)
[01:18:54 -1186.290361] FAST spr round 1 (radius: 25)
[01:19:07 -1029.079415] FAST spr round 2 (radius: 25)
[01:19:20 -993.272134] FAST spr round 3 (radius: 25)
[01:19:32 -993.272030] Model parameter optimization (eps = 1.000000)
[01:19:36 -991.943873] SLOW spr round 1 (radius: 5)
[01:19:48 -991.943480] SLOW spr round 2 (radius: 10)
[01:20:01 -991.943406] SLOW spr round 3 (radius: 15)
[01:20:19 -988.748658] SLOW spr round 4 (radius: 5)
[01:20:34 -988.748344] SLOW spr round 5 (radius: 10)
[01:20:48 -988.748309] SLOW spr round 6 (radius: 15)
[01:21:03 -987.960553] SLOW spr round 7 (radius: 5)
[01:21:17 -987.960496] SLOW spr round 8 (radius: 10)
[01:21:31 -987.960471] SLOW spr round 9 (radius: 15)
[01:21:46 -987.960445] SLOW spr round 10 (radius: 20)
[01:22:04 -986.277343] SLOW spr round 11 (radius: 5)
[01:22:18 -986.274483] SLOW spr round 12 (radius: 10)
[01:22:31 -986.274191] SLOW spr round 13 (radius: 15)
[01:22:44 -985.950341] SLOW spr round 14 (radius: 5)
[01:22:58 -985.949979] SLOW spr round 15 (radius: 10)
[01:23:11 -985.949960] SLOW spr round 16 (radius: 15)
[01:23:24 -985.949959] SLOW spr round 17 (radius: 20)
[01:23:38 -985.807760] SLOW spr round 18 (radius: 5)
[01:23:52 -985.807757] SLOW spr round 19 (radius: 10)
[01:24:04 -985.807757] SLOW spr round 20 (radius: 15)
[01:24:17 -985.807757] SLOW spr round 21 (radius: 20)
[01:24:32 -985.807757] SLOW spr round 22 (radius: 25)
[01:24:45 -985.807757] Model parameter optimization (eps = 0.100000)

[01:24:47] ML tree search #14, logLikelihood: -985.756498

[01:24:47 -9130.802460] Initial branch length optimization
[01:24:47 -6219.984040] Model parameter optimization (eps = 10.000000)
[01:24:55 -6204.629449] AUTODETECT spr round 1 (radius: 5)
[01:25:04 -2927.335021] AUTODETECT spr round 2 (radius: 10)
[01:25:14 -1814.953833] AUTODETECT spr round 3 (radius: 15)
[01:25:27 -1448.783473] AUTODETECT spr round 4 (radius: 20)
[01:25:40 -1347.947646] AUTODETECT spr round 5 (radius: 25)
[01:25:53 -1332.274999] SPR radius for FAST iterations: 25 (autodetect)
[01:25:53 -1332.274999] Model parameter optimization (eps = 3.000000)
[01:26:04 -1327.804054] FAST spr round 1 (radius: 25)
[01:26:16 -1135.838663] FAST spr round 2 (radius: 25)
[01:26:29 -1071.656241] FAST spr round 3 (radius: 25)
[01:26:40 -1064.492283] FAST spr round 4 (radius: 25)
[01:26:52 -1064.090945] FAST spr round 5 (radius: 25)
[01:27:03 -1062.348901] FAST spr round 6 (radius: 25)
[01:27:14 -1062.348722] Model parameter optimization (eps = 1.000000)
[01:27:18 -1060.218640] SLOW spr round 1 (radius: 5)
[01:27:29 -1060.211737] SLOW spr round 2 (radius: 10)
[01:27:42 -1060.209196] SLOW spr round 3 (radius: 15)
[01:27:56 -1016.332748] SLOW spr round 4 (radius: 5)
[01:28:10 -989.538689] SLOW spr round 5 (radius: 5)
[01:28:23 -987.410229] SLOW spr round 6 (radius: 5)
[01:28:35 -986.459661] SLOW spr round 7 (radius: 5)
[01:28:46 -986.459616] SLOW spr round 8 (radius: 10)
[01:28:59 -986.459613] SLOW spr round 9 (radius: 15)
[01:29:13 -986.459613] SLOW spr round 10 (radius: 20)
[01:29:27 -986.459613] SLOW spr round 11 (radius: 25)
[01:29:41 -986.459613] Model parameter optimization (eps = 0.100000)

[01:29:44] ML tree search #15, logLikelihood: -986.270814

[01:29:44 -8997.495593] Initial branch length optimization
[01:29:44 -6120.128278] Model parameter optimization (eps = 10.000000)
[01:29:52 -6107.601512] AUTODETECT spr round 1 (radius: 5)
[01:30:00 -2708.924696] AUTODETECT spr round 2 (radius: 10)
[01:30:11 -1710.244677] AUTODETECT spr round 3 (radius: 15)
[01:30:23 -1395.609543] AUTODETECT spr round 4 (radius: 20)
[01:30:35 -1249.042570] AUTODETECT spr round 5 (radius: 25)
[01:30:48 -1230.953519] SPR radius for FAST iterations: 25 (autodetect)
[01:30:48 -1230.953519] Model parameter optimization (eps = 3.000000)
[01:31:02 -1227.303402] FAST spr round 1 (radius: 25)
[01:31:15 -999.917305] FAST spr round 2 (radius: 25)
[01:31:27 -993.846252] FAST spr round 3 (radius: 25)
[01:31:39 -993.217284] FAST spr round 4 (radius: 25)
[01:31:51 -993.216939] Model parameter optimization (eps = 1.000000)
[01:31:56 -988.696901] SLOW spr round 1 (radius: 5)
[01:32:08 -988.696507] SLOW spr round 2 (radius: 10)
[01:32:20 -988.696451] SLOW spr round 3 (radius: 15)
[01:32:35 -987.205865] SLOW spr round 4 (radius: 5)
[01:32:50 -986.756007] SLOW spr round 5 (radius: 5)
[01:33:02 -986.755119] SLOW spr round 6 (radius: 10)
[01:33:15 -986.755018] SLOW spr round 7 (radius: 15)
[01:33:29 -986.603284] SLOW spr round 8 (radius: 5)
[01:33:43 -986.602383] SLOW spr round 9 (radius: 10)
[01:33:57 -986.602323] SLOW spr round 10 (radius: 15)
[01:34:11 -986.602318] SLOW spr round 11 (radius: 20)
[01:34:28 -986.602318] SLOW spr round 12 (radius: 25)
[01:34:44 -986.602317] Model parameter optimization (eps = 0.100000)

[01:34:45] ML tree search #16, logLikelihood: -986.586336

[01:34:45 -9042.266866] Initial branch length optimization
[01:34:46 -6134.383283] Model parameter optimization (eps = 10.000000)
[01:34:54 -6120.931184] AUTODETECT spr round 1 (radius: 5)
[01:35:03 -2833.930810] AUTODETECT spr round 2 (radius: 10)
[01:35:13 -2014.841124] AUTODETECT spr round 3 (radius: 15)
[01:35:26 -1655.206805] AUTODETECT spr round 4 (radius: 20)
[01:35:38 -1356.324566] AUTODETECT spr round 5 (radius: 25)
[01:35:52 -1141.418906] SPR radius for FAST iterations: 25 (autodetect)
[01:35:52 -1141.418906] Model parameter optimization (eps = 3.000000)
[01:35:56 -1138.000123] FAST spr round 1 (radius: 25)
[01:36:08 -1067.860208] FAST spr round 2 (radius: 25)
[01:36:21 -1012.378757] FAST spr round 3 (radius: 25)
[01:36:32 -1012.378698] Model parameter optimization (eps = 1.000000)
[01:36:38 -1011.678773] SLOW spr round 1 (radius: 5)
[01:36:50 -1010.080044] SLOW spr round 2 (radius: 5)
[01:37:02 -1007.644410] SLOW spr round 3 (radius: 5)
[01:37:14 -1007.111172] SLOW spr round 4 (radius: 5)
[01:37:25 -1006.624385] SLOW spr round 5 (radius: 5)
[01:37:37 -1006.624385] SLOW spr round 6 (radius: 10)
[01:37:51 -1006.566747] SLOW spr round 7 (radius: 15)
[01:38:07 -1006.566648] SLOW spr round 8 (radius: 20)
[01:38:24 -1000.580343] SLOW spr round 9 (radius: 5)
[01:38:39 -1000.573788] SLOW spr round 10 (radius: 10)
[01:38:52 -988.938069] SLOW spr round 11 (radius: 5)
[01:39:04 -988.937961] SLOW spr round 12 (radius: 10)
[01:39:17 -988.937955] SLOW spr round 13 (radius: 15)
[01:39:31 -988.937952] SLOW spr round 14 (radius: 20)
[01:39:47 -988.536483] SLOW spr round 15 (radius: 5)
[01:40:02 -988.536261] SLOW spr round 16 (radius: 10)
[01:40:15 -988.536256] SLOW spr round 17 (radius: 15)
[01:40:29 -988.536255] SLOW spr round 18 (radius: 20)
[01:40:47 -988.536255] SLOW spr round 19 (radius: 25)
[01:41:02 -988.221247] SLOW spr round 20 (radius: 5)
[01:41:16 -988.221230] SLOW spr round 21 (radius: 10)
[01:41:29 -988.221229] SLOW spr round 22 (radius: 15)
[01:41:43 -988.221229] SLOW spr round 23 (radius: 20)
[01:42:00 -988.221229] SLOW spr round 24 (radius: 25)
[01:42:16 -988.221229] Model parameter optimization (eps = 0.100000)

[01:42:19] ML tree search #17, logLikelihood: -987.741368

[01:42:19 -9214.554884] Initial branch length optimization
[01:42:19 -6308.788365] Model parameter optimization (eps = 10.000000)
[01:42:26 -6295.396986] AUTODETECT spr round 1 (radius: 5)
[01:42:35 -2995.050796] AUTODETECT spr round 2 (radius: 10)
[01:42:45 -1878.632089] AUTODETECT spr round 3 (radius: 15)
[01:42:58 -1550.803818] AUTODETECT spr round 4 (radius: 20)
[01:43:11 -1266.313602] AUTODETECT spr round 5 (radius: 25)
[01:43:24 -1265.171449] SPR radius for FAST iterations: 25 (autodetect)
[01:43:24 -1265.171449] Model parameter optimization (eps = 3.000000)
[01:43:28 -1263.871513] FAST spr round 1 (radius: 25)
[01:43:41 -1000.766976] FAST spr round 2 (radius: 25)
[01:43:54 -993.875863] FAST spr round 3 (radius: 25)
[01:44:06 -993.874828] Model parameter optimization (eps = 1.000000)
[01:44:10 -991.251424] SLOW spr round 1 (radius: 5)
[01:44:21 -991.248850] SLOW spr round 2 (radius: 10)
[01:44:35 -989.824039] SLOW spr round 3 (radius: 5)
[01:44:47 -989.823931] SLOW spr round 4 (radius: 10)
[01:45:00 -989.823919] SLOW spr round 5 (radius: 15)
[01:45:14 -989.823914] SLOW spr round 6 (radius: 20)
[01:45:31 -989.516341] SLOW spr round 7 (radius: 5)
[01:45:45 -989.516143] SLOW spr round 8 (radius: 10)
[01:45:58 -989.492910] SLOW spr round 9 (radius: 15)
[01:46:12 -989.492904] SLOW spr round 10 (radius: 20)
[01:46:27 -989.492899] SLOW spr round 11 (radius: 25)
[01:46:44 -987.864674] SLOW spr round 12 (radius: 5)
[01:46:58 -987.864446] SLOW spr round 13 (radius: 10)
[01:47:12 -987.864420] SLOW spr round 14 (radius: 15)
[01:47:26 -987.864417] SLOW spr round 15 (radius: 20)
[01:47:40 -987.864416] SLOW spr round 16 (radius: 25)
[01:47:54 -987.864412] Model parameter optimization (eps = 0.100000)

[01:47:56] ML tree search #18, logLikelihood: -987.771121

[01:47:56 -9161.939406] Initial branch length optimization
[01:47:56 -6137.904629] Model parameter optimization (eps = 10.000000)
[01:48:04 -6124.474966] AUTODETECT spr round 1 (radius: 5)
[01:48:12 -3025.674924] AUTODETECT spr round 2 (radius: 10)
[01:48:23 -1717.721073] AUTODETECT spr round 3 (radius: 15)
[01:48:35 -1380.085471] AUTODETECT spr round 4 (radius: 20)
[01:48:46 -1340.239599] AUTODETECT spr round 5 (radius: 25)
[01:48:59 -1263.488313] SPR radius for FAST iterations: 25 (autodetect)
[01:48:59 -1263.488313] Model parameter optimization (eps = 3.000000)
[01:49:04 -1257.749626] FAST spr round 1 (radius: 25)
[01:49:18 -1081.685199] FAST spr round 2 (radius: 25)
[01:49:31 -1013.507041] FAST spr round 3 (radius: 25)
[01:49:43 -1005.830828] FAST spr round 4 (radius: 25)
[01:49:55 -1005.830713] Model parameter optimization (eps = 1.000000)
[01:49:58 -1004.652151] SLOW spr round 1 (radius: 5)
[01:50:10 -1004.627182] SLOW spr round 2 (radius: 10)
[01:50:23 -987.007852] SLOW spr round 3 (radius: 5)
[01:50:36 -987.007639] SLOW spr round 4 (radius: 10)
[01:50:50 -987.007511] SLOW spr round 5 (radius: 15)
[01:51:05 -986.477484] SLOW spr round 6 (radius: 5)
[01:51:20 -986.477420] SLOW spr round 7 (radius: 10)
[01:51:34 -986.477359] SLOW spr round 8 (radius: 15)
[01:51:49 -986.477318] SLOW spr round 9 (radius: 20)
[01:52:05 -986.477294] SLOW spr round 10 (radius: 25)
[01:52:21 -986.099445] SLOW spr round 11 (radius: 5)
[01:52:36 -986.099344] SLOW spr round 12 (radius: 10)
[01:52:49 -985.859131] SLOW spr round 13 (radius: 5)
[01:53:01 -985.858871] SLOW spr round 14 (radius: 10)
[01:53:13 -985.858856] SLOW spr round 15 (radius: 15)
[01:53:27 -985.858852] SLOW spr round 16 (radius: 20)
[01:53:42 -985.858852] SLOW spr round 17 (radius: 25)
[01:53:57 -985.858850] Model parameter optimization (eps = 0.100000)

[01:54:00] ML tree search #19, logLikelihood: -985.756465

[01:54:00 -9168.674071] Initial branch length optimization
[01:54:00 -6222.528044] Model parameter optimization (eps = 10.000000)
[01:54:09 -6209.374016] AUTODETECT spr round 1 (radius: 5)
[01:54:18 -2629.165167] AUTODETECT spr round 2 (radius: 10)
[01:54:28 -1603.554158] AUTODETECT spr round 3 (radius: 15)
[01:54:40 -1234.587798] AUTODETECT spr round 4 (radius: 20)
[01:54:53 -1168.061802] AUTODETECT spr round 5 (radius: 25)
[01:55:07 -1111.396483] SPR radius for FAST iterations: 25 (autodetect)
[01:55:07 -1111.396483] Model parameter optimization (eps = 3.000000)
[01:55:12 -1108.397976] FAST spr round 1 (radius: 25)
[01:55:24 -1032.887927] FAST spr round 2 (radius: 25)
[01:55:36 -1026.655790] FAST spr round 3 (radius: 25)
[01:55:48 -1026.655652] Model parameter optimization (eps = 1.000000)
[01:55:51 -1025.544919] SLOW spr round 1 (radius: 5)
[01:56:02 -1025.544791] SLOW spr round 2 (radius: 10)
[01:56:15 -1025.544783] SLOW spr round 3 (radius: 15)
[01:56:30 -994.362502] SLOW spr round 4 (radius: 5)
[01:56:44 -985.060840] SLOW spr round 5 (radius: 5)
[01:56:56 -985.040483] SLOW spr round 6 (radius: 10)
[01:57:09 -985.040332] SLOW spr round 7 (radius: 15)
[01:57:24 -985.040312] SLOW spr round 8 (radius: 20)
[01:57:41 -985.040310] SLOW spr round 9 (radius: 25)
[01:57:59 -985.040309] Model parameter optimization (eps = 0.100000)

[01:58:02] ML tree search #20, logLikelihood: -984.806552


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.348244,0.449390) (0.376273,0.794346) (0.275134,1.970432) (0.000348,7.114630) 
   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: -984.662891

AIC score: 2991.325782 / AICc score: 526255.325782 / BIC score: 3879.274956
Free parameters (model + branch lengths): 511

WARNING: Number of free parameters (K=511) is larger than alignment size (n=42).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/3_mltree/A6NKL6.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/3_mltree/A6NKL6.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/3_mltree/A6NKL6.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/250721_run/phylogeny-snakemake/results/A6NKL6/3_mltree/A6NKL6.raxml.log

Analysis started: 26-Jul-2021 00:10:22 / finished: 26-Jul-2021 02:08:24

Elapsed time: 7082.106 seconds

Consumed energy: 402.699 Wh (= 2 km in an electric car, or 10 km with an e-scooter!)