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 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM

RAxML-NG was called at 07-Jul-2021 02:11:07 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/2_msa/Q9Y618_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618 --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/300621_run/phylogeny-snakemake/results/Q9Y618/2_msa/Q9Y618_trimmed_msa.fasta
[00:00:00] Loaded alignment with 502 taxa and 47 sites

WARNING: Sequences tr_Q1MTF5_Q1MTF5_DANRE_7955 and tr_W5KM25_W5KM25_ASTMX_7994 are exactly identical!
WARNING: Sequences tr_Q1MTF5_Q1MTF5_DANRE_7955 and tr_A0A1S3R7B6_A0A1S3R7B6_SALSA_8030 are exactly identical!
WARNING: Sequences tr_Q1MTF5_Q1MTF5_DANRE_7955 and tr_A0A060W7Y9_A0A060W7Y9_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_Q1MTF5_Q1MTF5_DANRE_7955 and tr_A0A2D0RPG2_A0A2D0RPG2_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_G1N3W7_G1N3W7_MELGA_9103 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_F7B061_F7B061_ORNAN_9258 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_K7FDN7_K7FDN7_PELSI_13735 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_H0Z8S7_H0Z8S7_TAEGU_59729 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_U3JUB4_U3JUB4_FICAL_59894 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_U3IIX6_U3IIX6_ANAPL_8839 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A151NBD5_A0A151NBD5_ALLMI_8496 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A0Q3URH2_A0A0Q3URH2_AMAAE_12930 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A091EKR1_A0A091EKR1_CORBR_85066 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A091IX37_A0A091IX37_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A091V2K8_A0A091V2K8_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A087QZY6_A0A087QZY6_APTFO_9233 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A093JN99_A0A093JN99_STRCA_441894 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A091VSN4_A0A091VSN4_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A091FZX4_A0A091FZX4_9AVES_55661 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A2I0LYL1_A0A2I0LYL1_COLLI_8932 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A093GRP8_A0A093GRP8_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A091I3C7_A0A091I3C7_CALAN_9244 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A3Q0HJK0_A0A3Q0HJK0_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A1V4K3W1_A0A1V4K3W1_PATFA_372326 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A218UUR1_A0A218UUR1_9PASE_299123 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A226MW50_A0A226MW50_CALSU_9009 are exactly identical!
WARNING: Sequences tr_E1BSW5_E1BSW5_CHICK_9031 and tr_A0A226NZV2_A0A226NZV2_COLVI_9014 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_K7EE33_K7EE33_ORNAN_9258 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_H0Z3T6_H0Z3T6_TAEGU_59729 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_U3K414_U3K414_FICAL_59894 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_U3J1T6_U3J1T6_ANAPL_8839 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_A0A151NRX5_A0A151NRX5_ALLMI_8496 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_A0A2I0M865_A0A2I0M865_COLLI_8932 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_A0A3Q0G2D5_A0A3Q0G2D5_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_A0A1V4JSG8_A0A1V4JSG8_PATFA_372326 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_A0A218UM70_A0A218UM70_9PASE_299123 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_A0A226N948_A0A226N948_CALSU_9009 are exactly identical!
WARNING: Sequences tr_E1C3T2_E1C3T2_CHICK_9031 and tr_A0A226PZ79_A0A226PZ79_COLVI_9014 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_M3YFK9_M3YFK9_MUSPF_9669 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_G1RXL1_G1RXL1_NOMLE_61853 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_G1NWX4_G1NWX4_MYOLU_59463 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2I2YVA5_A0A2I2YVA5_GORGO_9595 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_H2NSU7_H2NSU7_PONAB_9601 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_G1SZC7_G1SZC7_RABIT_9986 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_E2RKW5_E2RKW5_CANLF_9615 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_K7CCK0_K7CCK0_PANTR_9598 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_F6UFZ1_F6UFZ1_HORSE_9796 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_W5Q6R7_W5Q6R7_SHEEP_9940 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A287D4A3_A0A287D4A3_ICTTR_43179 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_H0WZX5_H0WZX5_OTOGA_30611 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_H0UUV6_H0UUV6_CAVPO_10141 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and sp_O75376_NCOR1_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A1D5Q208_A0A1D5Q208_MACMU_9544 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_G5BEV1_G5BEV1_HETGA_10181 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2R8ML96_A0A2R8ML96_CALJA_9483 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_F1SDC8_F1SDC8_PIG_9823 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_G1LDH3_G1LDH3_AILME_9646 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_G7PTR2_G7PTR2_MACFA_9541 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_F1MGM4_F1MGM4_BOVIN_9913 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2I2ULM7_A0A2I2ULM7_FELCA_9685 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A096P306_A0A096P306_PAPAN_9555 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A091E2K2_A0A091E2K2_FUKDA_885580 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A0D9R8B4_A0A0D9R8B4_CHLSB_60711 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A1S2ZXQ8_A0A1S2ZXQ8_ERIEU_9365 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A1S3F584_A0A1S3F584_DIPOR_10020 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A1U7TWJ3_A0A1U7TWJ3_TARSY_1868482 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A3Q0CL80_A0A3Q0CL80_MESAU_10036 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2K5LXF1_A0A2K5LXF1_CERAT_9531 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2K6CDZ3_A0A2K6CDZ3_MACNE_9545 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2K5YVM6_A0A2K5YVM6_MANLE_9568 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2R8ZQ84_A0A2R8ZQ84_PANPA_9597 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2U4C2I0_A0A2U4C2I0_TURTR_9739 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2U3WZQ5_A0A2U3WZQ5_ODORO_9708 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2U3XXC7_A0A2U3XXC7_LEPWE_9713 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2Y9IN17_A0A2Y9IN17_ENHLU_391180 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2Y9M4G4_A0A2Y9M4G4_DELLE_9749 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A2Y9T6C7_A0A2Y9T6C7_PHYCD_9755 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A384BQ33_A0A384BQ33_URSMA_29073 are exactly identical!
WARNING: Sequences sp_Q60974_NCOR1_MOUSE_10090 and tr_A0A383ZH24_A0A383ZH24_BALAS_310752 are exactly identical!
WARNING: Sequences sp_Q9WU42_NCOR2_MOUSE_10090 and tr_G3HX52_G3HX52_CRIGR_10029 are exactly identical!
WARNING: Sequences sp_Q9WU42_NCOR2_MOUSE_10090 and tr_D3ZXN9_D3ZXN9_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q9WU42_NCOR2_MOUSE_10090 and tr_A0A1U8CL05_A0A1U8CL05_MESAU_10036 are exactly identical!
WARNING: Sequences tr_W5JPP2_W5JPP2_ANODA_43151 and tr_A0NFH8_A0NFH8_ANOGA_7165 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_G1QPK6_G1QPK6_NOMLE_61853 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2I2Z768_A0A2I2Z768_GORGO_9595 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_H2NJ31_H2NJ31_PONAB_9601 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_F1PQQ7_F1PQQ7_CANLF_9615 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2I3TH75_A0A2I3TH75_PANTR_9598 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_W5NQD7_W5NQD7_SHEEP_9940 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A287CTU4_A0A287CTU4_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_H0WHM8_H0WHM8_OTOGA_30611 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_H0VWW4_H0VWW4_CAVPO_10141 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and sp_Q9Y618_NCOR2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A1D5RHE4_A0A1D5RHE4_MACMU_9544 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_G3TPP4_G3TPP4_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2R8MBW6_A0A2R8MBW6_CALJA_9483 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_F1RFN3_F1RFN3_PIG_9823 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_G1MAI5_G1MAI5_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_G3X7K5_G3X7K5_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_M3XCB6_M3XCB6_FELCA_9685 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2I3M059_A0A2I3M059_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A0D9S5A8_A0A0D9S5A8_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2K5NPH7_A0A2K5NPH7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2K6DKF4_A0A2K6DKF4_MACNE_9545 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2K5Z7V5_A0A2K5Z7V5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2R9C350_A0A2R9C350_PANPA_9597 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2U3VLV1_A0A2U3VLV1_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2U3Z5L7_A0A2U3Z5L7_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2Y9E0W3_A0A2Y9E0W3_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2Y9KVB2_A0A2Y9KVB2_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A2Y9SIZ7_A0A2Y9SIZ7_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A384BX58_A0A384BX58_URSMA_29073 are exactly identical!
WARNING: Sequences tr_M3XQQ5_M3XQQ5_MUSPF_9669 and tr_A0A384AQS7_A0A384AQS7_BALAS_310752 are exactly identical!
WARNING: Sequences tr_M9PGZ8_M9PGZ8_DROME_7227 and tr_B4IGI8_B4IGI8_DROSE_7238 are exactly identical!
WARNING: Sequences tr_M9PGZ8_M9PGZ8_DROME_7227 and tr_B4NE90_B4NE90_DROWI_7260 are exactly identical!
WARNING: Sequences tr_M9PGZ8_M9PGZ8_DROME_7227 and tr_B3MS08_B3MS08_DROAN_7217 are exactly identical!
WARNING: Sequences tr_M9PGZ8_M9PGZ8_DROME_7227 and tr_A0A1W4VKK1_A0A1W4VKK1_DROFC_30025 are exactly identical!
WARNING: Sequences tr_H2MG30_H2MG30_ORYLA_8090 and tr_H2U1K7_H2U1K7_TAKRU_31033 are exactly identical!
WARNING: Sequences tr_H2MG30_H2MG30_ORYLA_8090 and tr_G3PFG0_G3PFG0_GASAC_69293 are exactly identical!
WARNING: Sequences tr_H2MG30_H2MG30_ORYLA_8090 and tr_A0A1S3PI04_A0A1S3PI04_SALSA_8030 are exactly identical!
WARNING: Sequences tr_H2MG30_H2MG30_ORYLA_8090 and tr_A0A2I4C9Z5_A0A2I4C9Z5_9TELE_52670 are exactly identical!
WARNING: Sequences tr_H2MG30_H2MG30_ORYLA_8090 and tr_A0A060YEN1_A0A060YEN1_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_H2MG30_H2MG30_ORYLA_8090 and tr_A0A2U9BSU4_A0A2U9BSU4_SCOMX_52904 are exactly identical!
WARNING: Sequences tr_B4JK20_B4JK20_DROGR_7222 and tr_A0A0Q9W733_A0A0Q9W733_DROVI_7244 are exactly identical!
WARNING: Sequences tr_B4JX15_B4JX15_DROGR_7222 and tr_A0A1W4VTZ5_A0A1W4VTZ5_DROFC_30025 are exactly identical!
WARNING: Sequences tr_G2XAC5_G2XAC5_VERDV_498257 and tr_C9SKQ1_C9SKQ1_VERA1_526221 are exactly identical!
WARNING: Sequences tr_G2XAC5_G2XAC5_VERDV_498257 and tr_A0A0G4KH35_A0A0G4KH35_9PEZI_100787 are exactly identical!
WARNING: Sequences tr_G3US98_G3US98_MELGA_9103 and tr_A0A3Q0E6H7_A0A3Q0E6H7_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_H9GIV3_H9GIV3_ANOCA_28377 and tr_K7FH70_K7FH70_PELSI_13735 are exactly identical!
WARNING: Sequences tr_F7CD12_F7CD12_ORNAN_9258 and tr_A0A091W243_A0A091W243_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_F7CD12_F7CD12_ORNAN_9258 and tr_A0A2I0MAI4_A0A2I0MAI4_COLLI_8932 are exactly identical!
WARNING: Sequences tr_F7CD12_F7CD12_ORNAN_9258 and tr_A0A1S3WLF1_A0A1S3WLF1_ERIEU_9365 are exactly identical!
WARNING: Sequences tr_F7CD12_F7CD12_ORNAN_9258 and tr_A0A226MU13_A0A226MU13_CALSU_9009 are exactly identical!
WARNING: Sequences tr_F7CD12_F7CD12_ORNAN_9258 and tr_A0A226NYK4_A0A226NYK4_COLVI_9014 are exactly identical!
WARNING: Sequences tr_F7E2P8_F7E2P8_ORNAN_9258 and tr_G3SWE5_G3SWE5_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_F7E2P8_F7E2P8_ORNAN_9258 and tr_A0A2U4AFI3_A0A2U4AFI3_TURTR_9739 are exactly identical!
WARNING: Sequences tr_F7E2P8_F7E2P8_ORNAN_9258 and tr_A0A2Y9NQW9_A0A2Y9NQW9_DELLE_9749 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and sp_Q5FWT8_RCOR2_RAT_10116 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and tr_F7C1C4_F7C1C4_MACMU_9544 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and tr_D2H4V2_D2H4V2_AILME_9646 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and tr_G7PV69_G7PV69_MACFA_9541 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and tr_A0A2I3M6G3_A0A2I3M6G3_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and tr_A0A2K5M255_A0A2K5M255_CERAT_9531 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and tr_A0A2K6D044_A0A2K6D044_MACNE_9545 are exactly identical!
WARNING: Sequences tr_W5P115_W5P115_SHEEP_9940 and tr_A0A384DJY7_A0A384DJY7_URSMA_29073 are exactly identical!
WARNING: Sequences tr_A0A3B5QSK1_A0A3B5QSK1_XIPMA_8083 and tr_A0A096LXF9_A0A096LXF9_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A088ANL5_A0A088ANL5_APIME_7460 and tr_A0A0M8ZXK0_A0A0M8ZXK0_9HYME_166423 are exactly identical!
WARNING: Sequences tr_A0A088ANL5_A0A088ANL5_APIME_7460 and tr_A0A0L7R4N3_A0A0L7R4N3_9HYME_597456 are exactly identical!
WARNING: Sequences tr_A0A088ANL5_A0A088ANL5_APIME_7460 and tr_A0A2A3EHQ8_A0A2A3EHQ8_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A088ANL6_A0A088ANL6_APIME_7460 and tr_A0A2A3EGC7_A0A2A3EGC7_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A088ANL6_A0A088ANL6_APIME_7460 and tr_A0A2A3EH72_A0A2A3EH72_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A158N9W0_A0A158N9W0_ATTCE_12957 and tr_F4WTR8_F4WTR8_ACREC_103372 are exactly identical!
WARNING: Sequences tr_A0A158N9W0_A0A158N9W0_ATTCE_12957 and tr_A0A151XGJ2_A0A151XGJ2_9HYME_64791 are exactly identical!
WARNING: Sequences tr_A0A158N9W0_A0A158N9W0_ATTCE_12957 and tr_A0A151IT01_A0A151IT01_9HYME_471704 are exactly identical!
WARNING: Sequences tr_A0A158N9W0_A0A158N9W0_ATTCE_12957 and tr_A0A195BNK6_A0A195BNK6_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A158N9W0_A0A158N9W0_ATTCE_12957 and tr_A0A195F7S1_A0A195F7S1_9HYME_34720 are exactly identical!
WARNING: Sequences tr_A0A158N9W0_A0A158N9W0_ATTCE_12957 and tr_A0A151ID50_A0A151ID50_9HYME_456900 are exactly identical!
WARNING: Sequences tr_I3JY88_I3JY88_ORENI_8128 and tr_A0A2D0R0B1_A0A2D0R0B1_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_I3K4U8_I3K4U8_ORENI_8128 and tr_H2RNG5_H2RNG5_TAKRU_31033 are exactly identical!
WARNING: Sequences tr_I3K4U8_I3K4U8_ORENI_8128 and tr_H3CSZ3_H3CSZ3_TETNG_99883 are exactly identical!
WARNING: Sequences tr_I3K7D7_I3K7D7_ORENI_8128 and tr_H3D8I8_H3D8I8_TETNG_99883 are exactly identical!
WARNING: Sequences tr_I3K7D7_I3K7D7_ORENI_8128 and tr_G3Q8J7_G3Q8J7_GASAC_69293 are exactly identical!
WARNING: Sequences tr_I3K7D7_I3K7D7_ORENI_8128 and tr_W5KW29_W5KW29_ASTMX_7994 are exactly identical!
WARNING: Sequences tr_I3K7D7_I3K7D7_ORENI_8128 and tr_A0A0P7U9A5_A0A0P7U9A5_9TELE_113540 are exactly identical!
WARNING: Sequences tr_I3K7D7_I3K7D7_ORENI_8128 and tr_A0A2I4C3F8_A0A2I4C3F8_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A158Q252_A0A158Q252_BRUMA_6279 and tr_A0A0R3QZX8_A0A0R3QZX8_9BILA_42155 are exactly identical!
WARNING: Sequences tr_A0A158Q252_A0A158Q252_BRUMA_6279 and tr_A0A1I7VA19_A0A1I7VA19_LOALO_7209 are exactly identical!
WARNING: Sequences tr_H3CHK5_H3CHK5_TETNG_99883 and tr_W5KB31_W5KB31_ASTMX_7994 are exactly identical!
WARNING: Sequences tr_H3CHK5_H3CHK5_TETNG_99883 and tr_A0A1S3L6V6_A0A1S3L6V6_SALSA_8030 are exactly identical!
WARNING: Sequences tr_H3CHK5_H3CHK5_TETNG_99883 and tr_A0A060VRY9_A0A060VRY9_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_F6U1T2_F6U1T2_XENTR_8364 and tr_A0A1L8HQL4_A0A1L8HQL4_XENLA_8355 are exactly identical!
WARNING: Sequences tr_F6U1T2_F6U1T2_XENTR_8364 and tr_A0A1L8I100_A0A1L8I100_XENLA_8355 are exactly identical!
WARNING: Sequences tr_B3SAN1_B3SAN1_TRIAD_10228 and tr_A0A369RTN3_A0A369RTN3_9METZ_287889 are exactly identical!
WARNING: Sequences tr_U3J2M9_U3J2M9_ANAPL_8839 and tr_A0A0P7W7P1_A0A0P7W7P1_9TELE_113540 are exactly identical!
WARNING: Sequences tr_W5MFZ2_W5MFZ2_LEPOC_7918 and tr_A0A0P7V9W7_A0A0P7V9W7_9TELE_113540 are exactly identical!
WARNING: Sequences tr_A0A044VDK5_A0A044VDK5_ONCVO_6282 and tr_A0A182EH12_A0A182EH12_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A067DZP5_A0A067DZP5_CITSI_2711 and tr_V4VB50_V4VB50_9ROSI_85681 are exactly identical!
WARNING: Sequences tr_A0A067DZP5_A0A067DZP5_CITSI_2711 and tr_A0A2H5PB25_A0A2H5PB25_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A078GRF6_A0A078GRF6_BRANA_3708 and tr_A0A0D3DE47_A0A0D3DE47_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A0A0KU04_A0A0A0KU04_CUCSA_3659 and tr_A0A1S3CQW3_A0A1S3CQW3_CUCME_3656 are exactly identical!
WARNING: Sequences tr_A0A0D2VR78_A0A0D2VR78_GOSRA_29730 and tr_A0A1U8KIP6_A0A1U8KIP6_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A1S3DM28_A0A1S3DM28_DIACI_121845 and tr_A0A3Q0IY68_A0A3Q0IY68_DIACI_121845 are exactly identical!
WARNING: Sequences tr_A0A1S3LS24_A0A1S3LS24_SALSA_8030 and tr_A0A1S3RM04_A0A1S3RM04_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A1S3LS24_A0A1S3LS24_SALSA_8030 and tr_A0A060WU05_A0A060WU05_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3LS24_A0A1S3LS24_SALSA_8030 and tr_A0A060YGE2_A0A060YGE2_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3NK35_A0A1S3NK35_SALSA_8030 and tr_A0A060VN52_A0A060VN52_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3SQL4_A0A1S3SQL4_SALSA_8030 and tr_A0A060WWZ0_A0A060WWZ0_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A2A4K398_A0A2A4K398_HELVI_7102 and tr_A0A2A4K3A0_A0A2A4K3A0_HELVI_7102 are exactly identical!
WARNING: Sequences tr_A0A2U4BWQ9_A0A2U4BWQ9_TURTR_9739 and tr_A0A2Y9QDI0_A0A2Y9QDI0_DELLE_9749 are exactly identical!
WARNING: Duplicate sequences found: 189

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618.raxml.reduced.phy

Alignment comprises 1 partitions and 47 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 47 / 47
Gaps: 3.58 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618.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 502 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 47 / 3760
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -37343.901053] Initial branch length optimization
[00:00:00 -29120.635600] Model parameter optimization (eps = 10.000000)
[00:00:09 -28983.169680] AUTODETECT spr round 1 (radius: 5)
[00:00:26 -20625.214978] AUTODETECT spr round 2 (radius: 10)
[00:00:46 -16475.136187] AUTODETECT spr round 3 (radius: 15)
[00:01:09 -14548.388947] AUTODETECT spr round 4 (radius: 20)
[00:01:39 -11837.079789] AUTODETECT spr round 5 (radius: 25)
[00:02:06 -11773.327077] SPR radius for FAST iterations: 25 (autodetect)
[00:02:06 -11773.327077] Model parameter optimization (eps = 3.000000)
[00:02:15 -11722.887983] FAST spr round 1 (radius: 25)
[00:02:35 -10235.564409] FAST spr round 2 (radius: 25)
[00:02:54 -10017.331580] FAST spr round 3 (radius: 25)
[00:03:12 -9969.866952] FAST spr round 4 (radius: 25)
[00:03:28 -9968.699455] FAST spr round 5 (radius: 25)
[00:03:44 -9968.414820] FAST spr round 6 (radius: 25)
[00:04:01 -9965.867896] FAST spr round 7 (radius: 25)
[00:04:17 -9964.228383] FAST spr round 8 (radius: 25)
[00:04:33 -9964.228297] Model parameter optimization (eps = 1.000000)
[00:04:38 -9960.686644] SLOW spr round 1 (radius: 5)
[00:04:57 -9958.724739] SLOW spr round 2 (radius: 5)
[00:05:16 -9955.305703] SLOW spr round 3 (radius: 5)
[00:05:35 -9953.896118] SLOW spr round 4 (radius: 5)
[00:05:54 -9953.895546] SLOW spr round 5 (radius: 10)
[00:06:14 -9951.458053] SLOW spr round 6 (radius: 5)
[00:06:38 -9949.492826] SLOW spr round 7 (radius: 5)
[00:06:59 -9949.491729] SLOW spr round 8 (radius: 10)
[00:07:20 -9948.469782] SLOW spr round 9 (radius: 5)
[00:07:43 -9948.468958] SLOW spr round 10 (radius: 10)
[00:08:04 -9948.468799] SLOW spr round 11 (radius: 15)
[00:08:31 -9937.276240] SLOW spr round 12 (radius: 5)
[00:08:55 -9937.275577] SLOW spr round 13 (radius: 10)
[00:09:17 -9937.275410] SLOW spr round 14 (radius: 15)
[00:09:42 -9937.275286] SLOW spr round 15 (radius: 20)
[00:10:13 -9847.656675] SLOW spr round 16 (radius: 5)
[00:10:39 -9794.828366] SLOW spr round 17 (radius: 5)
[00:11:00 -9793.258510] SLOW spr round 18 (radius: 5)
[00:11:19 -9793.258285] SLOW spr round 19 (radius: 10)
[00:11:39 -9793.258169] SLOW spr round 20 (radius: 15)
[00:12:04 -9792.367437] SLOW spr round 21 (radius: 5)
[00:12:28 -9792.197201] SLOW spr round 22 (radius: 5)
[00:12:49 -9792.196575] SLOW spr round 23 (radius: 10)
[00:13:08 -9792.196429] SLOW spr round 24 (radius: 15)
[00:13:34 -9791.057188] SLOW spr round 25 (radius: 5)
[00:13:58 -9791.056262] SLOW spr round 26 (radius: 10)
[00:14:19 -9791.056232] SLOW spr round 27 (radius: 15)
[00:14:43 -9789.953256] SLOW spr round 28 (radius: 5)
[00:15:07 -9789.953070] SLOW spr round 29 (radius: 10)
[00:15:28 -9789.953066] SLOW spr round 30 (radius: 15)
[00:15:53 -9789.953066] SLOW spr round 31 (radius: 20)
[00:16:25 -9789.839187] SLOW spr round 32 (radius: 5)
[00:16:49 -9789.839003] SLOW spr round 33 (radius: 10)
[00:17:11 -9789.838988] SLOW spr round 34 (radius: 15)
[00:17:35 -9789.838987] SLOW spr round 35 (radius: 20)
[00:18:08 -9789.838987] SLOW spr round 36 (radius: 25)
[00:18:43 -9789.838986] Model parameter optimization (eps = 0.100000)

[00:18:45] ML tree search #1, logLikelihood: -9789.760568

[00:18:46 -37618.384207] Initial branch length optimization
[00:18:46 -29181.049830] Model parameter optimization (eps = 10.000000)
[00:18:54 -29104.962271] AUTODETECT spr round 1 (radius: 5)
[00:19:11 -21183.115346] AUTODETECT spr round 2 (radius: 10)
[00:19:31 -15841.774868] AUTODETECT spr round 3 (radius: 15)
[00:19:53 -13005.305346] AUTODETECT spr round 4 (radius: 20)
[00:20:19 -11791.470216] AUTODETECT spr round 5 (radius: 25)
[00:20:51 -11520.951950] SPR radius for FAST iterations: 25 (autodetect)
[00:20:51 -11520.951950] Model parameter optimization (eps = 3.000000)
[00:20:58 -11492.212817] FAST spr round 1 (radius: 25)
[00:21:19 -9947.778830] FAST spr round 2 (radius: 25)
[00:21:38 -9823.130870] FAST spr round 3 (radius: 25)
[00:21:55 -9810.798345] FAST spr round 4 (radius: 25)
[00:22:11 -9810.795844] Model parameter optimization (eps = 1.000000)
[00:22:13 -9810.444380] SLOW spr round 1 (radius: 5)
[00:22:31 -9807.929587] SLOW spr round 2 (radius: 5)
[00:22:49 -9805.121763] SLOW spr round 3 (radius: 5)
[00:23:07 -9805.095651] SLOW spr round 4 (radius: 10)
[00:23:27 -9801.638933] SLOW spr round 5 (radius: 5)
[00:23:50 -9795.151052] SLOW spr round 6 (radius: 5)
[00:24:10 -9794.779246] SLOW spr round 7 (radius: 5)
[00:24:29 -9794.755454] SLOW spr round 8 (radius: 10)
[00:24:48 -9794.113803] SLOW spr round 9 (radius: 5)
[00:25:10 -9794.113794] SLOW spr round 10 (radius: 10)
[00:25:30 -9793.838191] SLOW spr round 11 (radius: 5)
[00:25:52 -9793.838191] SLOW spr round 12 (radius: 10)
[00:26:12 -9793.838191] SLOW spr round 13 (radius: 15)
[00:26:39 -9793.591977] SLOW spr round 14 (radius: 5)
[00:27:03 -9793.567126] SLOW spr round 15 (radius: 10)
[00:27:24 -9793.567064] SLOW spr round 16 (radius: 15)
[00:27:50 -9793.567062] SLOW spr round 17 (radius: 20)
[00:28:26 -9792.744161] SLOW spr round 18 (radius: 5)
[00:28:50 -9792.744106] SLOW spr round 19 (radius: 10)
[00:29:13 -9792.744105] SLOW spr round 20 (radius: 15)
[00:29:39 -9792.744105] SLOW spr round 21 (radius: 20)
[00:30:15 -9792.744105] SLOW spr round 22 (radius: 25)
[00:30:57 -9792.744105] Model parameter optimization (eps = 0.100000)

[00:31:01] ML tree search #2, logLikelihood: -9792.588457

[00:31:01 -37706.829417] Initial branch length optimization
[00:31:01 -29469.426316] Model parameter optimization (eps = 10.000000)
[00:31:11 -29343.741699] AUTODETECT spr round 1 (radius: 5)
[00:31:28 -20792.792860] AUTODETECT spr round 2 (radius: 10)
[00:31:49 -16840.425189] AUTODETECT spr round 3 (radius: 15)
[00:32:12 -14456.379950] AUTODETECT spr round 4 (radius: 20)
[00:32:38 -13534.568788] AUTODETECT spr round 5 (radius: 25)
[00:33:06 -13060.999791] SPR radius for FAST iterations: 25 (autodetect)
[00:33:06 -13060.999791] Model parameter optimization (eps = 3.000000)
[00:33:15 -12972.482698] FAST spr round 1 (radius: 25)
[00:33:37 -10679.405029] FAST spr round 2 (radius: 25)
[00:33:56 -10021.929772] FAST spr round 3 (radius: 25)
[00:34:14 -9952.679746] FAST spr round 4 (radius: 25)
[00:34:31 -9946.996337] FAST spr round 5 (radius: 25)
[00:34:47 -9946.704530] FAST spr round 6 (radius: 25)
[00:35:04 -9946.704487] Model parameter optimization (eps = 1.000000)
[00:35:07 -9942.902671] SLOW spr round 1 (radius: 5)
[00:35:27 -9935.714512] SLOW spr round 2 (radius: 5)
[00:35:46 -9931.637876] SLOW spr round 3 (radius: 5)
[00:36:04 -9931.637663] SLOW spr round 4 (radius: 10)
[00:36:24 -9929.755138] SLOW spr round 5 (radius: 5)
[00:36:49 -9929.025251] SLOW spr round 6 (radius: 5)
[00:37:10 -9929.024365] SLOW spr round 7 (radius: 10)
[00:37:30 -9929.024270] SLOW spr round 8 (radius: 15)
[00:37:57 -9920.373210] SLOW spr round 9 (radius: 5)
[00:38:23 -9911.149380] SLOW spr round 10 (radius: 5)
[00:38:46 -9910.314587] SLOW spr round 11 (radius: 5)
[00:39:06 -9910.208689] SLOW spr round 12 (radius: 5)
[00:39:25 -9910.208317] SLOW spr round 13 (radius: 10)
[00:39:45 -9909.808439] SLOW spr round 14 (radius: 5)
[00:40:08 -9909.808216] SLOW spr round 15 (radius: 10)
[00:40:29 -9899.772772] SLOW spr round 16 (radius: 5)
[00:40:52 -9898.923243] SLOW spr round 17 (radius: 5)
[00:41:13 -9898.923183] SLOW spr round 18 (radius: 10)
[00:41:33 -9898.923178] SLOW spr round 19 (radius: 15)
[00:42:01 -9898.923175] SLOW spr round 20 (radius: 20)
[00:42:35 -9897.584102] SLOW spr round 21 (radius: 5)
[00:43:00 -9897.584085] SLOW spr round 22 (radius: 10)
[00:43:23 -9897.584083] SLOW spr round 23 (radius: 15)
[00:43:50 -9897.584081] SLOW spr round 24 (radius: 20)
[00:44:23 -9897.584080] SLOW spr round 25 (radius: 25)
[00:45:03 -9809.966428] SLOW spr round 26 (radius: 5)
[00:45:29 -9790.763283] SLOW spr round 27 (radius: 5)
[00:45:51 -9790.762996] SLOW spr round 28 (radius: 10)
[00:46:12 -9790.762971] SLOW spr round 29 (radius: 15)
[00:46:39 -9790.762969] SLOW spr round 30 (radius: 20)
[00:47:12 -9790.762968] SLOW spr round 31 (radius: 25)
[00:47:51 -9790.762968] Model parameter optimization (eps = 0.100000)

[00:47:53] ML tree search #3, logLikelihood: -9790.751619

[00:47:53 -37364.426777] Initial branch length optimization
[00:47:54 -28959.505848] Model parameter optimization (eps = 10.000000)
[00:48:01 -28833.865396] AUTODETECT spr round 1 (radius: 5)
[00:48:18 -20971.695740] AUTODETECT spr round 2 (radius: 10)
[00:48:39 -16377.249934] AUTODETECT spr round 3 (radius: 15)
[00:49:02 -13974.418426] AUTODETECT spr round 4 (radius: 20)
[00:49:28 -13321.871149] AUTODETECT spr round 5 (radius: 25)
[00:49:59 -12143.389628] SPR radius for FAST iterations: 25 (autodetect)
[00:49:59 -12143.389628] Model parameter optimization (eps = 3.000000)
[00:50:07 -12066.112368] FAST spr round 1 (radius: 25)
[00:50:29 -10161.055076] FAST spr round 2 (radius: 25)
[00:50:48 -9978.147340] FAST spr round 3 (radius: 25)
[00:51:06 -9927.491761] FAST spr round 4 (radius: 25)
[00:51:23 -9925.721309] FAST spr round 5 (radius: 25)
[00:51:39 -9925.331120] FAST spr round 6 (radius: 25)
[00:51:55 -9924.563987] FAST spr round 7 (radius: 25)
[00:52:11 -9924.563173] Model parameter optimization (eps = 1.000000)
[00:52:15 -9921.683369] SLOW spr round 1 (radius: 5)
[00:52:34 -9921.451120] SLOW spr round 2 (radius: 5)
[00:52:53 -9921.423846] SLOW spr round 3 (radius: 10)
[00:53:12 -9917.132701] SLOW spr round 4 (radius: 5)
[00:53:36 -9916.373510] SLOW spr round 5 (radius: 5)
[00:53:57 -9916.372951] SLOW spr round 6 (radius: 10)
[00:54:17 -9915.766188] SLOW spr round 7 (radius: 5)
[00:54:40 -9915.766020] SLOW spr round 8 (radius: 10)
[00:55:01 -9915.766008] SLOW spr round 9 (radius: 15)
[00:55:28 -9914.776267] SLOW spr round 10 (radius: 5)
[00:55:52 -9914.765114] SLOW spr round 11 (radius: 10)
[00:56:14 -9914.765113] SLOW spr round 12 (radius: 15)
[00:56:41 -9914.765098] SLOW spr round 13 (radius: 20)
[00:57:16 -9913.548436] SLOW spr round 14 (radius: 5)
[00:57:41 -9913.547443] SLOW spr round 15 (radius: 10)
[00:58:04 -9913.459770] SLOW spr round 16 (radius: 15)
[00:58:30 -9913.459748] SLOW spr round 17 (radius: 20)
[00:59:05 -9913.459746] SLOW spr round 18 (radius: 25)
[00:59:46 -9834.620862] SLOW spr round 19 (radius: 5)
[01:00:12 -9823.094779] SLOW spr round 20 (radius: 5)
[01:00:35 -9821.069212] SLOW spr round 21 (radius: 5)
[01:00:55 -9821.066359] SLOW spr round 22 (radius: 10)
[01:01:15 -9820.971609] SLOW spr round 23 (radius: 15)
[01:01:43 -9810.564653] SLOW spr round 24 (radius: 5)
[01:02:09 -9805.137336] SLOW spr round 25 (radius: 5)
[01:02:30 -9805.136620] SLOW spr round 26 (radius: 10)
[01:02:51 -9805.136607] SLOW spr round 27 (radius: 15)
[01:03:19 -9801.793615] SLOW spr round 28 (radius: 5)
[01:03:44 -9799.033015] SLOW spr round 29 (radius: 5)
[01:04:05 -9797.415464] SLOW spr round 30 (radius: 5)
[01:04:25 -9797.415418] SLOW spr round 31 (radius: 10)
[01:04:45 -9796.399116] SLOW spr round 32 (radius: 5)
[01:05:09 -9795.906001] SLOW spr round 33 (radius: 5)
[01:05:29 -9795.905981] SLOW spr round 34 (radius: 10)
[01:05:49 -9795.905981] SLOW spr round 35 (radius: 15)
[01:06:16 -9795.905981] SLOW spr round 36 (radius: 20)
[01:06:50 -9794.782194] SLOW spr round 37 (radius: 5)
[01:07:14 -9793.782208] SLOW spr round 38 (radius: 5)
[01:07:36 -9793.782179] SLOW spr round 39 (radius: 10)
[01:07:56 -9793.782178] SLOW spr round 40 (radius: 15)
[01:08:23 -9793.782178] SLOW spr round 41 (radius: 20)
[01:08:57 -9793.782178] SLOW spr round 42 (radius: 25)
[01:09:39 -9789.656756] SLOW spr round 43 (radius: 5)
[01:10:04 -9789.656643] SLOW spr round 44 (radius: 10)
[01:10:27 -9789.260527] SLOW spr round 45 (radius: 5)
[01:10:49 -9789.260527] SLOW spr round 46 (radius: 10)
[01:11:10 -9789.260527] SLOW spr round 47 (radius: 15)
[01:11:37 -9789.260527] SLOW spr round 48 (radius: 20)
[01:12:11 -9789.260527] SLOW spr round 49 (radius: 25)
[01:12:52 -9789.260527] Model parameter optimization (eps = 0.100000)

[01:12:55] ML tree search #4, logLikelihood: -9789.027522

[01:12:55 -37968.936007] Initial branch length optimization
[01:12:55 -29464.866507] Model parameter optimization (eps = 10.000000)
[01:13:02 -29317.738049] AUTODETECT spr round 1 (radius: 5)
[01:13:19 -20700.738921] AUTODETECT spr round 2 (radius: 10)
[01:13:39 -16104.938382] AUTODETECT spr round 3 (radius: 15)
[01:14:02 -14200.066307] AUTODETECT spr round 4 (radius: 20)
[01:14:29 -11974.259400] AUTODETECT spr round 5 (radius: 25)
[01:14:53 -11932.395568] SPR radius for FAST iterations: 25 (autodetect)
[01:14:53 -11932.395568] Model parameter optimization (eps = 3.000000)
[01:15:05 -11857.537742] FAST spr round 1 (radius: 25)
[01:15:26 -10493.155643] FAST spr round 2 (radius: 25)
[01:15:44 -10328.804407] FAST spr round 3 (radius: 25)
[01:16:02 -10321.668270] FAST spr round 4 (radius: 25)
[01:16:19 -10269.989026] FAST spr round 5 (radius: 25)
[01:16:36 -10263.398402] FAST spr round 6 (radius: 25)
[01:16:52 -10262.106053] FAST spr round 7 (radius: 25)
[01:17:08 -10262.104694] Model parameter optimization (eps = 1.000000)
[01:17:13 -10260.080911] SLOW spr round 1 (radius: 5)
[01:17:32 -10258.676845] SLOW spr round 2 (radius: 5)
[01:17:51 -10258.676084] SLOW spr round 3 (radius: 10)
[01:18:11 -10256.658132] SLOW spr round 4 (radius: 5)
[01:18:35 -10253.913194] SLOW spr round 5 (radius: 5)
[01:18:57 -10253.409594] SLOW spr round 6 (radius: 5)
[01:19:16 -10253.409393] SLOW spr round 7 (radius: 10)
[01:19:36 -10253.409312] SLOW spr round 8 (radius: 15)
[01:20:03 -10253.406408] SLOW spr round 9 (radius: 20)
[01:20:33 -10253.406384] SLOW spr round 10 (radius: 25)
[01:21:07 -10248.251009] SLOW spr round 11 (radius: 5)
[01:21:32 -10248.043207] SLOW spr round 12 (radius: 5)
[01:21:54 -10248.042348] SLOW spr round 13 (radius: 10)
[01:22:14 -10247.574490] SLOW spr round 14 (radius: 5)
[01:22:37 -10247.572664] SLOW spr round 15 (radius: 10)
[01:22:58 -10247.572520] SLOW spr round 16 (radius: 15)
[01:23:26 -10233.557357] SLOW spr round 17 (radius: 5)
[01:23:51 -10231.812841] SLOW spr round 18 (radius: 5)
[01:24:12 -10231.811099] SLOW spr round 19 (radius: 10)
[01:24:32 -10231.810990] SLOW spr round 20 (radius: 15)
[01:25:00 -10230.658941] SLOW spr round 21 (radius: 5)
[01:25:24 -10229.215032] SLOW spr round 22 (radius: 5)
[01:25:46 -10229.214303] SLOW spr round 23 (radius: 10)
[01:26:06 -10229.214291] SLOW spr round 24 (radius: 15)
[01:26:33 -10229.214289] SLOW spr round 25 (radius: 20)
[01:27:05 -10229.214289] SLOW spr round 26 (radius: 25)
[01:27:42 -10154.945833] SLOW spr round 27 (radius: 5)
[01:28:08 -10078.143261] SLOW spr round 28 (radius: 5)
[01:28:30 -10078.143238] SLOW spr round 29 (radius: 10)
[01:28:50 -10078.143235] SLOW spr round 30 (radius: 15)
[01:29:17 -10078.143234] SLOW spr round 31 (radius: 20)
[01:29:49 -10078.143234] SLOW spr round 32 (radius: 25)
[01:30:23 -10078.143234] Model parameter optimization (eps = 0.100000)

[01:30:26] ML tree search #5, logLikelihood: -10077.880831

[01:30:26 -37338.433135] Initial branch length optimization
[01:30:26 -29020.175492] Model parameter optimization (eps = 10.000000)
[01:30:34 -28879.201582] AUTODETECT spr round 1 (radius: 5)
[01:30:51 -21512.334776] AUTODETECT spr round 2 (radius: 10)
[01:31:10 -16765.847493] AUTODETECT spr round 3 (radius: 15)
[01:31:34 -13522.524967] AUTODETECT spr round 4 (radius: 20)
[01:32:00 -11622.205129] AUTODETECT spr round 5 (radius: 25)
[01:32:28 -11283.574454] SPR radius for FAST iterations: 25 (autodetect)
[01:32:28 -11283.574454] Model parameter optimization (eps = 3.000000)
[01:32:35 -11202.406955] FAST spr round 1 (radius: 25)
[01:32:55 -9902.172541] FAST spr round 2 (radius: 25)
[01:33:13 -9816.735891] FAST spr round 3 (radius: 25)
[01:33:30 -9799.390855] FAST spr round 4 (radius: 25)
[01:33:47 -9797.106107] FAST spr round 5 (radius: 25)
[01:34:03 -9796.007665] FAST spr round 6 (radius: 25)
[01:34:19 -9796.003004] Model parameter optimization (eps = 1.000000)
[01:34:25 -9794.226700] SLOW spr round 1 (radius: 5)
[01:34:44 -9792.050403] SLOW spr round 2 (radius: 5)
[01:35:02 -9792.049486] SLOW spr round 3 (radius: 10)
[01:35:21 -9787.973327] SLOW spr round 4 (radius: 5)
[01:35:44 -9787.586647] SLOW spr round 5 (radius: 5)
[01:36:05 -9787.586537] SLOW spr round 6 (radius: 10)
[01:36:25 -9787.586536] SLOW spr round 7 (radius: 15)
[01:36:51 -9785.152465] SLOW spr round 8 (radius: 5)
[01:37:16 -9785.151287] SLOW spr round 9 (radius: 10)
[01:37:38 -9783.289270] SLOW spr round 10 (radius: 5)
[01:38:00 -9783.289163] SLOW spr round 11 (radius: 10)
[01:38:21 -9783.289159] SLOW spr round 12 (radius: 15)
[01:38:47 -9783.289159] SLOW spr round 13 (radius: 20)
[01:39:23 -9783.289158] SLOW spr round 14 (radius: 25)
[01:40:04 -9782.404630] SLOW spr round 15 (radius: 5)
[01:40:30 -9781.675960] SLOW spr round 16 (radius: 5)
[01:40:52 -9781.675711] SLOW spr round 17 (radius: 10)
[01:41:13 -9781.675682] SLOW spr round 18 (radius: 15)
[01:41:40 -9781.675679] SLOW spr round 19 (radius: 20)
[01:42:15 -9781.675677] SLOW spr round 20 (radius: 25)
[01:42:56 -9781.675677] Model parameter optimization (eps = 0.100000)

[01:42:58] ML tree search #6, logLikelihood: -9781.437148

[01:42:58 -37548.999628] Initial branch length optimization
[01:42:58 -29120.020607] Model parameter optimization (eps = 10.000000)
[01:43:10 -28983.634627] AUTODETECT spr round 1 (radius: 5)
[01:43:28 -20709.415753] AUTODETECT spr round 2 (radius: 10)
[01:43:48 -15481.145845] AUTODETECT spr round 3 (radius: 15)
[01:44:12 -14006.986556] AUTODETECT spr round 4 (radius: 20)
[01:44:38 -12509.660570] AUTODETECT spr round 5 (radius: 25)
[01:45:08 -11656.250069] SPR radius for FAST iterations: 25 (autodetect)
[01:45:08 -11656.250069] Model parameter optimization (eps = 3.000000)
[01:45:17 -11643.557036] FAST spr round 1 (radius: 25)
[01:45:37 -10120.197002] FAST spr round 2 (radius: 25)
[01:45:56 -9875.061194] FAST spr round 3 (radius: 25)
[01:46:13 -9839.227280] FAST spr round 4 (radius: 25)
[01:46:31 -9822.663782] FAST spr round 5 (radius: 25)
[01:46:47 -9791.601587] FAST spr round 6 (radius: 25)
[01:47:04 -9790.176304] FAST spr round 7 (radius: 25)
[01:47:20 -9790.176304] Model parameter optimization (eps = 1.000000)
[01:47:23 -9788.481240] SLOW spr round 1 (radius: 5)
[01:47:42 -9788.352392] SLOW spr round 2 (radius: 5)
[01:48:00 -9788.351894] SLOW spr round 3 (radius: 10)
[01:48:20 -9787.340703] SLOW spr round 4 (radius: 5)
[01:48:43 -9787.340393] SLOW spr round 5 (radius: 10)
[01:49:04 -9787.191172] SLOW spr round 6 (radius: 5)
[01:49:27 -9787.191069] SLOW spr round 7 (radius: 10)
[01:49:48 -9787.191066] SLOW spr round 8 (radius: 15)
[01:50:15 -9786.335975] SLOW spr round 9 (radius: 5)
[01:50:40 -9782.564685] SLOW spr round 10 (radius: 5)
[01:51:02 -9782.564616] SLOW spr round 11 (radius: 10)
[01:51:22 -9782.564612] SLOW spr round 12 (radius: 15)
[01:51:49 -9782.564612] SLOW spr round 13 (radius: 20)
[01:52:21 -9782.375999] SLOW spr round 14 (radius: 5)
[01:52:46 -9782.375999] SLOW spr round 15 (radius: 10)
[01:53:08 -9782.375999] SLOW spr round 16 (radius: 15)
[01:53:35 -9782.375999] SLOW spr round 17 (radius: 20)
[01:54:07 -9782.375999] SLOW spr round 18 (radius: 25)
[01:54:44 -9779.135795] SLOW spr round 19 (radius: 5)
[01:55:09 -9779.135689] SLOW spr round 20 (radius: 10)
[01:55:31 -9779.135689] SLOW spr round 21 (radius: 15)
[01:55:58 -9779.135689] SLOW spr round 22 (radius: 20)
[01:56:29 -9779.135689] SLOW spr round 23 (radius: 25)
[01:57:03 -9779.135689] Model parameter optimization (eps = 0.100000)

[01:57:06] ML tree search #7, logLikelihood: -9778.965068

[01:57:06 -37543.456972] Initial branch length optimization
[01:57:06 -29023.802522] Model parameter optimization (eps = 10.000000)
[01:57:13 -28882.431459] AUTODETECT spr round 1 (radius: 5)
[01:57:30 -21798.508183] AUTODETECT spr round 2 (radius: 10)
[01:57:49 -16680.079579] AUTODETECT spr round 3 (radius: 15)
[01:58:12 -13793.207295] AUTODETECT spr round 4 (radius: 20)
[01:58:38 -12326.481056] AUTODETECT spr round 5 (radius: 25)
[01:59:02 -11840.821319] SPR radius for FAST iterations: 25 (autodetect)
[01:59:02 -11840.821319] Model parameter optimization (eps = 3.000000)
[01:59:11 -11782.821340] FAST spr round 1 (radius: 25)
[01:59:30 -10111.273974] FAST spr round 2 (radius: 25)
[01:59:49 -9874.633446] FAST spr round 3 (radius: 25)
[02:00:06 -9848.558553] FAST spr round 4 (radius: 25)
[02:00:22 -9845.938898] FAST spr round 5 (radius: 25)
[02:00:38 -9845.937768] Model parameter optimization (eps = 1.000000)
[02:00:41 -9842.873286] SLOW spr round 1 (radius: 5)
[02:01:00 -9842.342688] SLOW spr round 2 (radius: 5)
[02:01:18 -9842.342072] SLOW spr round 3 (radius: 10)
[02:01:37 -9840.235383] SLOW spr round 4 (radius: 5)
[02:02:00 -9840.068264] SLOW spr round 5 (radius: 5)
[02:02:21 -9840.068202] SLOW spr round 6 (radius: 10)
[02:02:41 -9840.068195] SLOW spr round 7 (radius: 15)
[02:03:08 -9836.110697] SLOW spr round 8 (radius: 5)
[02:03:33 -9831.508810] SLOW spr round 9 (radius: 5)
[02:03:54 -9831.503880] SLOW spr round 10 (radius: 10)
[02:04:14 -9831.503691] SLOW spr round 11 (radius: 15)
[02:04:41 -9831.503675] SLOW spr round 12 (radius: 20)
[02:05:12 -9830.373863] SLOW spr round 13 (radius: 5)
[02:05:37 -9829.966754] SLOW spr round 14 (radius: 5)
[02:05:58 -9829.966392] SLOW spr round 15 (radius: 10)
[02:06:19 -9827.862645] SLOW spr round 16 (radius: 5)
[02:06:41 -9827.862473] SLOW spr round 17 (radius: 10)
[02:07:01 -9827.862468] SLOW spr round 18 (radius: 15)
[02:07:28 -9827.862468] SLOW spr round 19 (radius: 20)
[02:08:00 -9827.862468] SLOW spr round 20 (radius: 25)
[02:08:32 -9827.862468] Model parameter optimization (eps = 0.100000)

[02:08:35] ML tree search #8, logLikelihood: -9827.840811

[02:08:35 -38191.669037] Initial branch length optimization
[02:08:35 -29584.467897] Model parameter optimization (eps = 10.000000)
[02:08:43 -29440.982535] AUTODETECT spr round 1 (radius: 5)
[02:09:00 -21215.992974] AUTODETECT spr round 2 (radius: 10)
[02:09:20 -15792.937945] AUTODETECT spr round 3 (radius: 15)
[02:09:44 -12570.957153] AUTODETECT spr round 4 (radius: 20)
[02:10:09 -12101.467841] AUTODETECT spr round 5 (radius: 25)
[02:10:38 -11900.082869] SPR radius for FAST iterations: 25 (autodetect)
[02:10:38 -11900.082869] Model parameter optimization (eps = 3.000000)
[02:10:44 -11818.573360] FAST spr round 1 (radius: 25)
[02:11:06 -10665.650249] FAST spr round 2 (radius: 25)
[02:11:25 -10508.667736] FAST spr round 3 (radius: 25)
[02:11:42 -10502.649087] FAST spr round 4 (radius: 25)
[02:11:59 -10500.074692] FAST spr round 5 (radius: 25)
[02:12:15 -10500.036477] Model parameter optimization (eps = 1.000000)
[02:12:21 -10497.506232] SLOW spr round 1 (radius: 5)
[02:12:39 -10496.465627] SLOW spr round 2 (radius: 5)
[02:12:58 -10495.854495] SLOW spr round 3 (radius: 5)
[02:13:17 -10492.130980] SLOW spr round 4 (radius: 5)
[02:13:35 -10491.125062] SLOW spr round 5 (radius: 5)
[02:13:53 -10491.125048] SLOW spr round 6 (radius: 10)
[02:14:13 -10489.408211] SLOW spr round 7 (radius: 5)
[02:14:37 -10486.105924] SLOW spr round 8 (radius: 5)
[02:14:57 -10486.097684] SLOW spr round 9 (radius: 10)
[02:15:18 -10385.042744] SLOW spr round 10 (radius: 5)
[02:15:41 -10384.970925] SLOW spr round 11 (radius: 10)
[02:16:03 -10384.968628] SLOW spr round 12 (radius: 15)
[02:16:32 -10384.945308] SLOW spr round 13 (radius: 20)
[02:17:13 -10273.452800] SLOW spr round 14 (radius: 5)
[02:17:39 -10068.192177] SLOW spr round 15 (radius: 5)
[02:18:02 -10019.470079] SLOW spr round 16 (radius: 5)
[02:18:22 -10018.583623] SLOW spr round 17 (radius: 5)
[02:18:41 -10018.583530] SLOW spr round 18 (radius: 10)
[02:19:00 -10016.990384] SLOW spr round 19 (radius: 5)
[02:19:23 -10016.989986] SLOW spr round 20 (radius: 10)
[02:19:44 -10016.989977] SLOW spr round 21 (radius: 15)
[02:20:11 -10015.975095] SLOW spr round 22 (radius: 5)
[02:20:36 -10014.781164] SLOW spr round 23 (radius: 5)
[02:20:57 -10014.780153] SLOW spr round 24 (radius: 10)
[02:21:18 -10014.779860] SLOW spr round 25 (radius: 15)
[02:21:45 -10014.779769] SLOW spr round 26 (radius: 20)
[02:22:24 -10014.779738] SLOW spr round 27 (radius: 25)
[02:23:09 -10008.914625] SLOW spr round 28 (radius: 5)
[02:23:35 -10007.619216] SLOW spr round 29 (radius: 5)
[02:23:57 -10007.617801] SLOW spr round 30 (radius: 10)
[02:24:18 -10002.598061] SLOW spr round 31 (radius: 5)
[02:24:41 -10001.204562] SLOW spr round 32 (radius: 5)
[02:25:02 -10000.843084] SLOW spr round 33 (radius: 5)
[02:25:21 -10000.838949] SLOW spr round 34 (radius: 10)
[02:25:41 -10000.682599] SLOW spr round 35 (radius: 5)
[02:26:05 -9998.821736] SLOW spr round 36 (radius: 5)
[02:26:25 -9998.645234] SLOW spr round 37 (radius: 5)
[02:26:44 -9998.644948] SLOW spr round 38 (radius: 10)
[02:27:05 -9998.644944] SLOW spr round 39 (radius: 15)
[02:27:33 -9997.794180] SLOW spr round 40 (radius: 5)
[02:27:58 -9997.792997] SLOW spr round 41 (radius: 10)
[02:28:20 -9997.792889] SLOW spr round 42 (radius: 15)
[02:28:48 -9997.792879] SLOW spr round 43 (radius: 20)
[02:29:27 -9978.893523] SLOW spr round 44 (radius: 5)
[02:29:55 -9797.365655] SLOW spr round 45 (radius: 5)
[02:30:18 -9781.415772] SLOW spr round 46 (radius: 5)
[02:30:39 -9775.507926] SLOW spr round 47 (radius: 5)
[02:30:58 -9774.918261] SLOW spr round 48 (radius: 5)
[02:31:16 -9774.918230] SLOW spr round 49 (radius: 10)
[02:31:37 -9774.684960] SLOW spr round 50 (radius: 5)
[02:32:01 -9773.705479] SLOW spr round 51 (radius: 5)
[02:32:21 -9773.705322] SLOW spr round 52 (radius: 10)
[02:32:42 -9773.705310] SLOW spr round 53 (radius: 15)
[02:33:11 -9773.376442] SLOW spr round 54 (radius: 5)
[02:33:36 -9773.160579] SLOW spr round 55 (radius: 5)
[02:33:58 -9773.160188] SLOW spr round 56 (radius: 10)
[02:34:18 -9772.718586] SLOW spr round 57 (radius: 5)
[02:34:41 -9772.718358] SLOW spr round 58 (radius: 10)
[02:35:02 -9772.718277] SLOW spr round 59 (radius: 15)
[02:35:30 -9772.718227] SLOW spr round 60 (radius: 20)
[02:36:08 -9772.366154] SLOW spr round 61 (radius: 5)
[02:36:33 -9772.365277] SLOW spr round 62 (radius: 10)
[02:36:56 -9772.364396] SLOW spr round 63 (radius: 15)
[02:37:23 -9772.363513] SLOW spr round 64 (radius: 20)
[02:38:02 -9772.352520] SLOW spr round 65 (radius: 25)
[02:38:44 -9770.543354] SLOW spr round 66 (radius: 5)
[02:39:09 -9770.542296] SLOW spr round 67 (radius: 10)
[02:39:33 -9770.541335] SLOW spr round 68 (radius: 15)
[02:40:00 -9770.540369] SLOW spr round 69 (radius: 20)
[02:40:38 -9770.539402] SLOW spr round 70 (radius: 25)
[02:41:21 -9769.879643] SLOW spr round 71 (radius: 5)
[02:41:46 -9769.582439] SLOW spr round 72 (radius: 5)
[02:42:09 -9769.581397] SLOW spr round 73 (radius: 10)
[02:42:30 -9769.580396] SLOW spr round 74 (radius: 15)
[02:42:57 -9769.579391] SLOW spr round 75 (radius: 20)
[02:43:36 -9768.808501] SLOW spr round 76 (radius: 5)
[02:44:00 -9768.808061] SLOW spr round 77 (radius: 10)
[02:44:23 -9768.808053] SLOW spr round 78 (radius: 15)
[02:44:50 -9768.808053] SLOW spr round 79 (radius: 20)
[02:45:29 -9768.808053] SLOW spr round 80 (radius: 25)
[02:46:12 -9768.808053] Model parameter optimization (eps = 0.100000)

[02:46:15] ML tree search #9, logLikelihood: -9768.535101

[02:46:15 -37435.886665] Initial branch length optimization
[02:46:16 -29265.855772] Model parameter optimization (eps = 10.000000)
[02:46:24 -29131.026838] AUTODETECT spr round 1 (radius: 5)
[02:46:41 -20772.976412] AUTODETECT spr round 2 (radius: 10)
[02:47:01 -16262.538019] AUTODETECT spr round 3 (radius: 15)
[02:47:26 -13256.496375] AUTODETECT spr round 4 (radius: 20)
[02:47:53 -12225.047298] AUTODETECT spr round 5 (radius: 25)
[02:48:22 -11999.878020] SPR radius for FAST iterations: 25 (autodetect)
[02:48:22 -11999.878020] Model parameter optimization (eps = 3.000000)
[02:48:29 -11928.319581] FAST spr round 1 (radius: 25)
[02:48:51 -10045.794337] FAST spr round 2 (radius: 25)
[02:49:12 -9887.234209] FAST spr round 3 (radius: 25)
[02:49:30 -9820.930856] FAST spr round 4 (radius: 25)
[02:49:47 -9812.731245] FAST spr round 5 (radius: 25)
[02:50:03 -9812.731183] Model parameter optimization (eps = 1.000000)
[02:50:06 -9810.650002] SLOW spr round 1 (radius: 5)
[02:50:25 -9809.271034] SLOW spr round 2 (radius: 5)
[02:50:44 -9809.259368] SLOW spr round 3 (radius: 10)
[02:51:03 -9809.258377] SLOW spr round 4 (radius: 15)
[02:51:31 -9789.821467] SLOW spr round 5 (radius: 5)
[02:51:55 -9789.119650] SLOW spr round 6 (radius: 5)
[02:52:16 -9789.111815] SLOW spr round 7 (radius: 10)
[02:52:36 -9789.111763] SLOW spr round 8 (radius: 15)
[02:53:01 -9789.111743] SLOW spr round 9 (radius: 20)
[02:53:31 -9784.113289] SLOW spr round 10 (radius: 5)
[02:53:55 -9784.111772] SLOW spr round 11 (radius: 10)
[02:54:17 -9784.111706] SLOW spr round 12 (radius: 15)
[02:54:41 -9784.111701] SLOW spr round 13 (radius: 20)
[02:55:12 -9784.111701] SLOW spr round 14 (radius: 25)
[02:55:46 -9781.922687] SLOW spr round 15 (radius: 5)
[02:56:11 -9781.921588] SLOW spr round 16 (radius: 10)
[02:56:34 -9781.921485] SLOW spr round 17 (radius: 15)
[02:56:58 -9780.924756] SLOW spr round 18 (radius: 5)
[02:57:22 -9780.616695] SLOW spr round 19 (radius: 5)
[02:57:43 -9780.616388] SLOW spr round 20 (radius: 10)
[02:58:03 -9780.616379] SLOW spr round 21 (radius: 15)
[02:58:28 -9780.616379] SLOW spr round 22 (radius: 20)
[02:58:58 -9780.616379] SLOW spr round 23 (radius: 25)
[02:59:31 -9780.616379] Model parameter optimization (eps = 0.100000)

[02:59:33] ML tree search #10, logLikelihood: -9780.448714

[02:59:33 -37553.713525] Initial branch length optimization
[02:59:34 -29165.863087] Model parameter optimization (eps = 10.000000)
[02:59:42 -29034.889705] AUTODETECT spr round 1 (radius: 5)
[02:59:59 -21484.084891] AUTODETECT spr round 2 (radius: 10)
[03:00:19 -16122.083985] AUTODETECT spr round 3 (radius: 15)
[03:00:43 -13112.838609] AUTODETECT spr round 4 (radius: 20)
[03:01:11 -12337.174431] AUTODETECT spr round 5 (radius: 25)
[03:01:44 -11629.413911] SPR radius for FAST iterations: 25 (autodetect)
[03:01:44 -11629.413911] Model parameter optimization (eps = 3.000000)
[03:01:51 -11561.873751] FAST spr round 1 (radius: 25)
[03:02:13 -10050.925501] FAST spr round 2 (radius: 25)
[03:02:31 -9817.686896] FAST spr round 3 (radius: 25)
[03:02:48 -9788.550259] FAST spr round 4 (radius: 25)
[03:03:05 -9784.089890] FAST spr round 5 (radius: 25)
[03:03:21 -9784.089588] Model parameter optimization (eps = 1.000000)
[03:03:23 -9783.121786] SLOW spr round 1 (radius: 5)
[03:03:42 -9782.211005] SLOW spr round 2 (radius: 5)
[03:04:00 -9782.210157] SLOW spr round 3 (radius: 10)
[03:04:19 -9781.064475] SLOW spr round 4 (radius: 5)
[03:04:42 -9780.375308] SLOW spr round 5 (radius: 5)
[03:05:02 -9780.375275] SLOW spr round 6 (radius: 10)
[03:05:22 -9780.040597] SLOW spr round 7 (radius: 5)
[03:05:44 -9780.040560] SLOW spr round 8 (radius: 10)
[03:06:04 -9778.379782] SLOW spr round 9 (radius: 5)
[03:06:27 -9777.917777] SLOW spr round 10 (radius: 5)
[03:06:47 -9777.917125] SLOW spr round 11 (radius: 10)
[03:07:06 -9777.917111] SLOW spr round 12 (radius: 15)
[03:07:32 -9777.917111] SLOW spr round 13 (radius: 20)
[03:08:05 -9777.917111] SLOW spr round 14 (radius: 25)
[03:08:44 -9777.917111] Model parameter optimization (eps = 0.100000)

[03:08:45] ML tree search #11, logLikelihood: -9777.889992

[03:08:45 -37530.747599] Initial branch length optimization
[03:08:46 -29236.456440] Model parameter optimization (eps = 10.000000)
[03:08:52 -29085.445630] AUTODETECT spr round 1 (radius: 5)
[03:09:09 -20983.829557] AUTODETECT spr round 2 (radius: 10)
[03:09:28 -15985.201044] AUTODETECT spr round 3 (radius: 15)
[03:09:51 -12955.940416] AUTODETECT spr round 4 (radius: 20)
[03:10:17 -12252.493691] AUTODETECT spr round 5 (radius: 25)
[03:10:45 -11586.516701] SPR radius for FAST iterations: 25 (autodetect)
[03:10:45 -11586.516701] Model parameter optimization (eps = 3.000000)
[03:10:53 -11514.442209] FAST spr round 1 (radius: 25)
[03:11:15 -10008.457963] FAST spr round 2 (radius: 25)
[03:11:33 -9920.930063] FAST spr round 3 (radius: 25)
[03:11:50 -9911.307230] FAST spr round 4 (radius: 25)
[03:12:06 -9906.656000] FAST spr round 5 (radius: 25)
[03:12:21 -9906.654421] Model parameter optimization (eps = 1.000000)
[03:12:25 -9905.498236] SLOW spr round 1 (radius: 5)
[03:12:44 -9904.366589] SLOW spr round 2 (radius: 5)
[03:13:02 -9904.364909] SLOW spr round 3 (radius: 10)
[03:13:21 -9901.057440] SLOW spr round 4 (radius: 5)
[03:13:44 -9900.964636] SLOW spr round 5 (radius: 10)
[03:14:04 -9899.348232] SLOW spr round 6 (radius: 5)
[03:14:27 -9899.347657] SLOW spr round 7 (radius: 10)
[03:14:48 -9899.347371] SLOW spr round 8 (radius: 15)
[03:15:13 -9899.345948] SLOW spr round 9 (radius: 20)
[03:15:44 -9861.896508] SLOW spr round 10 (radius: 5)
[03:16:10 -9861.523907] SLOW spr round 11 (radius: 5)
[03:16:32 -9861.523614] SLOW spr round 12 (radius: 10)
[03:16:52 -9861.523386] SLOW spr round 13 (radius: 15)
[03:17:18 -9859.996396] SLOW spr round 14 (radius: 5)
[03:17:42 -9859.995907] SLOW spr round 15 (radius: 10)
[03:18:04 -9859.995682] SLOW spr round 16 (radius: 15)
[03:18:29 -9859.995460] SLOW spr round 17 (radius: 20)
[03:19:01 -9859.872775] SLOW spr round 18 (radius: 5)
[03:19:26 -9859.871855] SLOW spr round 19 (radius: 10)
[03:19:48 -9859.871593] SLOW spr round 20 (radius: 15)
[03:20:13 -9859.871368] SLOW spr round 21 (radius: 20)
[03:20:46 -9859.871146] SLOW spr round 22 (radius: 25)
[03:21:22 -9856.280694] SLOW spr round 23 (radius: 5)
[03:21:49 -9795.123557] SLOW spr round 24 (radius: 5)
[03:22:12 -9791.885770] SLOW spr round 25 (radius: 5)
[03:22:31 -9791.885286] SLOW spr round 26 (radius: 10)
[03:22:52 -9789.608028] SLOW spr round 27 (radius: 5)
[03:23:14 -9789.606629] SLOW spr round 28 (radius: 10)
[03:23:35 -9789.161643] SLOW spr round 29 (radius: 5)
[03:23:58 -9787.300880] SLOW spr round 30 (radius: 5)
[03:24:19 -9787.300508] SLOW spr round 31 (radius: 10)
[03:24:39 -9787.300488] SLOW spr round 32 (radius: 15)
[03:25:06 -9787.300488] SLOW spr round 33 (radius: 20)
[03:25:38 -9787.300488] SLOW spr round 34 (radius: 25)
[03:26:13 -9787.300488] Model parameter optimization (eps = 0.100000)

[03:26:17] ML tree search #12, logLikelihood: -9787.185652

[03:26:17 -37606.971429] Initial branch length optimization
[03:26:17 -29255.775812] Model parameter optimization (eps = 10.000000)
[03:26:24 -29134.330406] AUTODETECT spr round 1 (radius: 5)
[03:26:42 -20865.831179] AUTODETECT spr round 2 (radius: 10)
[03:27:02 -15405.807830] AUTODETECT spr round 3 (radius: 15)
[03:27:25 -12710.378213] AUTODETECT spr round 4 (radius: 20)
[03:27:50 -11921.810932] AUTODETECT spr round 5 (radius: 25)
[03:28:15 -11797.181577] SPR radius for FAST iterations: 25 (autodetect)
[03:28:15 -11797.181577] Model parameter optimization (eps = 3.000000)
[03:28:24 -11725.503846] FAST spr round 1 (radius: 25)
[03:28:45 -10734.562944] FAST spr round 2 (radius: 25)
[03:29:03 -10637.981132] FAST spr round 3 (radius: 25)
[03:29:21 -10622.784774] FAST spr round 4 (radius: 25)
[03:29:37 -10621.543782] FAST spr round 5 (radius: 25)
[03:29:53 -10621.175100] FAST spr round 6 (radius: 25)
[03:30:10 -10621.173906] Model parameter optimization (eps = 1.000000)
[03:30:12 -10620.907010] SLOW spr round 1 (radius: 5)
[03:30:31 -10619.195370] SLOW spr round 2 (radius: 5)
[03:30:50 -10618.541592] SLOW spr round 3 (radius: 5)
[03:31:08 -10618.541583] SLOW spr round 4 (radius: 10)
[03:31:28 -10616.993346] SLOW spr round 5 (radius: 5)
[03:31:52 -10614.710532] SLOW spr round 6 (radius: 5)
[03:32:13 -10614.707569] SLOW spr round 7 (radius: 10)
[03:32:33 -10613.877427] SLOW spr round 8 (radius: 5)
[03:32:56 -10613.542430] SLOW spr round 9 (radius: 5)
[03:33:17 -10613.541735] SLOW spr round 10 (radius: 10)
[03:33:37 -10613.406515] SLOW spr round 11 (radius: 5)
[03:34:00 -10613.406492] SLOW spr round 12 (radius: 10)
[03:34:21 -10613.406492] SLOW spr round 13 (radius: 15)
[03:34:49 -10611.862140] SLOW spr round 14 (radius: 5)
[03:35:14 -10611.803666] SLOW spr round 15 (radius: 10)
[03:35:35 -10611.802927] SLOW spr round 16 (radius: 15)
[03:36:02 -10611.802391] SLOW spr round 17 (radius: 20)
[03:36:37 -10610.153895] SLOW spr round 18 (radius: 5)
[03:37:02 -10610.153644] SLOW spr round 19 (radius: 10)
[03:37:25 -10610.153635] SLOW spr round 20 (radius: 15)
[03:37:52 -10610.153635] SLOW spr round 21 (radius: 20)
[03:38:27 -10610.153635] SLOW spr round 22 (radius: 25)
[03:39:05 -10607.979129] SLOW spr round 23 (radius: 5)
[03:39:32 -10600.450990] SLOW spr round 24 (radius: 5)
[03:39:54 -10599.774445] SLOW spr round 25 (radius: 5)
[03:40:14 -10599.420144] SLOW spr round 26 (radius: 5)
[03:40:33 -10599.420125] SLOW spr round 27 (radius: 10)
[03:40:53 -10599.420125] SLOW spr round 28 (radius: 15)
[03:41:21 -10598.381756] SLOW spr round 29 (radius: 5)
[03:41:46 -10598.378470] SLOW spr round 30 (radius: 10)
[03:42:08 -10598.377192] SLOW spr round 31 (radius: 15)
[03:42:36 -10598.376715] SLOW spr round 32 (radius: 20)
[03:43:11 -10598.376544] SLOW spr round 33 (radius: 25)
[03:43:49 -10598.159140] SLOW spr round 34 (radius: 5)
[03:44:15 -10488.473179] SLOW spr round 35 (radius: 5)
[03:44:39 -10414.645459] SLOW spr round 36 (radius: 5)
[03:44:59 -10249.951942] SLOW spr round 37 (radius: 5)
[03:45:19 -10218.696017] SLOW spr round 38 (radius: 5)
[03:45:39 -10151.776998] SLOW spr round 39 (radius: 5)
[03:45:57 -10150.439802] SLOW spr round 40 (radius: 5)
[03:46:15 -10150.356115] SLOW spr round 41 (radius: 10)
[03:46:35 -10123.430422] SLOW spr round 42 (radius: 5)
[03:46:59 -10114.535384] SLOW spr round 43 (radius: 5)
[03:47:20 -10112.778488] SLOW spr round 44 (radius: 5)
[03:47:38 -10112.422730] SLOW spr round 45 (radius: 5)
[03:47:57 -10112.422553] SLOW spr round 46 (radius: 10)
[03:48:16 -10110.870842] SLOW spr round 47 (radius: 5)
[03:48:39 -10110.869611] SLOW spr round 48 (radius: 10)
[03:49:00 -10110.869570] SLOW spr round 49 (radius: 15)
[03:49:26 -10110.869563] SLOW spr round 50 (radius: 20)
[03:50:00 -10107.405477] SLOW spr round 51 (radius: 5)
[03:50:24 -10107.405477] SLOW spr round 52 (radius: 10)
[03:50:46 -10107.405477] SLOW spr round 53 (radius: 15)
[03:51:12 -10107.405477] SLOW spr round 54 (radius: 20)
[03:51:46 -10107.405477] SLOW spr round 55 (radius: 25)
[03:52:24 -10030.029733] SLOW spr round 56 (radius: 5)
[03:52:49 -10030.029195] SLOW spr round 57 (radius: 10)
[03:53:11 -10030.029145] SLOW spr round 58 (radius: 15)
[03:53:37 -10030.029140] SLOW spr round 59 (radius: 20)
[03:54:11 -10030.029139] SLOW spr round 60 (radius: 25)
[03:54:48 -10030.029139] Model parameter optimization (eps = 0.100000)

[03:54:53] ML tree search #13, logLikelihood: -10028.176943

[03:54:53 -37886.267893] Initial branch length optimization
[03:54:53 -29512.176770] Model parameter optimization (eps = 10.000000)
[03:55:01 -29373.901011] AUTODETECT spr round 1 (radius: 5)
[03:55:18 -20850.540277] AUTODETECT spr round 2 (radius: 10)
[03:55:38 -16613.144026] AUTODETECT spr round 3 (radius: 15)
[03:56:02 -13462.945308] AUTODETECT spr round 4 (radius: 20)
[03:56:28 -11805.325959] AUTODETECT spr round 5 (radius: 25)
[03:56:57 -11413.514237] SPR radius for FAST iterations: 25 (autodetect)
[03:56:57 -11413.514237] Model parameter optimization (eps = 3.000000)
[03:57:03 -11350.865230] FAST spr round 1 (radius: 25)
[03:57:24 -9904.759730] FAST spr round 2 (radius: 25)
[03:57:42 -9834.408029] FAST spr round 3 (radius: 25)
[03:57:59 -9825.252416] FAST spr round 4 (radius: 25)
[03:58:15 -9825.251305] Model parameter optimization (eps = 1.000000)
[03:58:19 -9824.214094] SLOW spr round 1 (radius: 5)
[03:58:38 -9822.549467] SLOW spr round 2 (radius: 5)
[03:58:57 -9822.462097] SLOW spr round 3 (radius: 10)
[03:59:16 -9821.442216] SLOW spr round 4 (radius: 5)
[03:59:38 -9821.260748] SLOW spr round 5 (radius: 5)
[03:59:58 -9821.260728] SLOW spr round 6 (radius: 10)
[04:00:18 -9820.847398] SLOW spr round 7 (radius: 5)
[04:00:40 -9820.847394] SLOW spr round 8 (radius: 10)
[04:01:01 -9820.847351] SLOW spr round 9 (radius: 15)
[04:01:27 -9820.847351] SLOW spr round 10 (radius: 20)
[04:01:59 -9820.847351] SLOW spr round 11 (radius: 25)
[04:02:35 -9820.847351] Model parameter optimization (eps = 0.100000)

[04:02:37] ML tree search #14, logLikelihood: -9820.789158

[04:02:37 -37705.886552] Initial branch length optimization
[04:02:38 -29380.213389] Model parameter optimization (eps = 10.000000)
[04:02:46 -29251.588584] AUTODETECT spr round 1 (radius: 5)
[04:03:02 -20648.740539] AUTODETECT spr round 2 (radius: 10)
[04:03:22 -16191.213614] AUTODETECT spr round 3 (radius: 15)
[04:03:44 -14822.063683] AUTODETECT spr round 4 (radius: 20)
[04:04:13 -13168.066050] AUTODETECT spr round 5 (radius: 25)
[04:04:52 -12337.969866] SPR radius for FAST iterations: 25 (autodetect)
[04:04:52 -12337.969866] Model parameter optimization (eps = 3.000000)
[04:04:58 -12301.967132] FAST spr round 1 (radius: 25)
[04:05:19 -9999.840247] FAST spr round 2 (radius: 25)
[04:05:37 -9792.194077] FAST spr round 3 (radius: 25)
[04:05:54 -9781.744833] FAST spr round 4 (radius: 25)
[04:06:10 -9777.268955] FAST spr round 5 (radius: 25)
[04:06:26 -9776.901798] FAST spr round 6 (radius: 25)
[04:06:41 -9776.901730] Model parameter optimization (eps = 1.000000)
[04:06:45 -9775.331354] SLOW spr round 1 (radius: 5)
[04:07:04 -9772.084217] SLOW spr round 2 (radius: 5)
[04:07:22 -9770.742757] SLOW spr round 3 (radius: 5)
[04:07:40 -9770.742745] SLOW spr round 4 (radius: 10)
[04:08:00 -9768.302728] SLOW spr round 5 (radius: 5)
[04:08:22 -9767.907701] SLOW spr round 6 (radius: 5)
[04:08:42 -9767.906651] SLOW spr round 7 (radius: 10)
[04:09:02 -9767.676769] SLOW spr round 8 (radius: 5)
[04:09:25 -9767.676664] SLOW spr round 9 (radius: 10)
[04:09:46 -9767.676600] SLOW spr round 10 (radius: 15)
[04:10:11 -9767.676559] SLOW spr round 11 (radius: 20)
[04:10:43 -9765.604634] SLOW spr round 12 (radius: 5)
[04:11:08 -9765.604570] SLOW spr round 13 (radius: 10)
[04:11:30 -9765.604559] SLOW spr round 14 (radius: 15)
[04:11:56 -9765.604552] SLOW spr round 15 (radius: 20)
[04:12:27 -9765.604547] SLOW spr round 16 (radius: 25)
[04:13:04 -9765.604544] Model parameter optimization (eps = 0.100000)

[04:13:06] ML tree search #15, logLikelihood: -9765.506957

[04:13:06 -37211.430022] Initial branch length optimization
[04:13:06 -29192.070853] Model parameter optimization (eps = 10.000000)
[04:13:15 -29056.645113] AUTODETECT spr round 1 (radius: 5)
[04:13:32 -20558.149718] AUTODETECT spr round 2 (radius: 10)
[04:13:52 -16153.310180] AUTODETECT spr round 3 (radius: 15)
[04:14:16 -13611.933608] AUTODETECT spr round 4 (radius: 20)
[04:14:44 -12685.695700] AUTODETECT spr round 5 (radius: 25)
[04:15:14 -11556.076344] SPR radius for FAST iterations: 25 (autodetect)
[04:15:14 -11556.076344] Model parameter optimization (eps = 3.000000)
[04:15:21 -11487.722958] FAST spr round 1 (radius: 25)
[04:15:43 -9907.822445] FAST spr round 2 (radius: 25)
[04:16:02 -9805.751329] FAST spr round 3 (radius: 25)
[04:16:20 -9783.199394] FAST spr round 4 (radius: 25)
[04:16:35 -9783.199351] Model parameter optimization (eps = 1.000000)
[04:16:39 -9781.961571] SLOW spr round 1 (radius: 5)
[04:16:57 -9779.891558] SLOW spr round 2 (radius: 5)
[04:17:17 -9776.825562] SLOW spr round 3 (radius: 5)
[04:17:35 -9776.796025] SLOW spr round 4 (radius: 10)
[04:17:55 -9775.078495] SLOW spr round 5 (radius: 5)
[04:18:18 -9771.623565] SLOW spr round 6 (radius: 5)
[04:18:39 -9771.621609] SLOW spr round 7 (radius: 10)
[04:18:59 -9771.621464] SLOW spr round 8 (radius: 15)
[04:19:26 -9771.621429] SLOW spr round 9 (radius: 20)
[04:20:02 -9771.621411] SLOW spr round 10 (radius: 25)
[04:20:43 -9771.291718] SLOW spr round 11 (radius: 5)
[04:21:09 -9771.291585] SLOW spr round 12 (radius: 10)
[04:21:32 -9771.291570] SLOW spr round 13 (radius: 15)
[04:21:58 -9769.534697] SLOW spr round 14 (radius: 5)
[04:22:22 -9769.534694] SLOW spr round 15 (radius: 10)
[04:22:44 -9769.534694] SLOW spr round 16 (radius: 15)
[04:23:10 -9769.534694] SLOW spr round 17 (radius: 20)
[04:23:46 -9769.534694] SLOW spr round 18 (radius: 25)
[04:24:28 -9769.534694] Model parameter optimization (eps = 0.100000)

[04:24:30] ML tree search #16, logLikelihood: -9769.457957

[04:24:30 -37325.002298] Initial branch length optimization
[04:24:30 -29012.139681] Model parameter optimization (eps = 10.000000)
[04:24:38 -28899.366878] AUTODETECT spr round 1 (radius: 5)
[04:24:55 -21333.911048] AUTODETECT spr round 2 (radius: 10)
[04:25:15 -15963.106097] AUTODETECT spr round 3 (radius: 15)
[04:25:38 -13559.458635] AUTODETECT spr round 4 (radius: 20)
[04:26:03 -12316.729045] AUTODETECT spr round 5 (radius: 25)
[04:26:31 -11650.014435] SPR radius for FAST iterations: 25 (autodetect)
[04:26:31 -11650.014435] Model parameter optimization (eps = 3.000000)
[04:26:37 -11610.136101] FAST spr round 1 (radius: 25)
[04:26:58 -9926.767002] FAST spr round 2 (radius: 25)
[04:27:18 -9870.350463] FAST spr round 3 (radius: 25)
[04:27:35 -9789.940061] FAST spr round 4 (radius: 25)
[04:27:51 -9789.617951] FAST spr round 5 (radius: 25)
[04:28:07 -9789.617709] Model parameter optimization (eps = 1.000000)
[04:28:12 -9788.200122] SLOW spr round 1 (radius: 5)
[04:28:31 -9784.579807] SLOW spr round 2 (radius: 5)
[04:28:50 -9783.439341] SLOW spr round 3 (radius: 5)
[04:29:09 -9780.429269] SLOW spr round 4 (radius: 5)
[04:29:27 -9780.424346] SLOW spr round 5 (radius: 10)
[04:29:48 -9772.893815] SLOW spr round 6 (radius: 5)
[04:30:11 -9771.794986] SLOW spr round 7 (radius: 5)
[04:30:32 -9771.794152] SLOW spr round 8 (radius: 10)
[04:30:52 -9771.745740] SLOW spr round 9 (radius: 15)
[04:31:18 -9771.745614] SLOW spr round 10 (radius: 20)
[04:31:52 -9771.745561] SLOW spr round 11 (radius: 25)
[04:32:29 -9771.518846] SLOW spr round 12 (radius: 5)
[04:32:54 -9771.513211] SLOW spr round 13 (radius: 10)
[04:33:17 -9771.511638] SLOW spr round 14 (radius: 15)
[04:33:42 -9771.511466] SLOW spr round 15 (radius: 20)
[04:34:16 -9771.273947] SLOW spr round 16 (radius: 5)
[04:34:41 -9771.273932] SLOW spr round 17 (radius: 10)
[04:35:03 -9771.273932] SLOW spr round 18 (radius: 15)
[04:35:28 -9771.273932] SLOW spr round 19 (radius: 20)
[04:36:02 -9771.273932] SLOW spr round 20 (radius: 25)
[04:36:39 -9771.064655] SLOW spr round 21 (radius: 5)
[04:37:05 -9770.341635] SLOW spr round 22 (radius: 5)
[04:37:26 -9770.341628] SLOW spr round 23 (radius: 10)
[04:37:47 -9770.341628] SLOW spr round 24 (radius: 15)
[04:38:13 -9770.341628] SLOW spr round 25 (radius: 20)
[04:38:46 -9770.341628] SLOW spr round 26 (radius: 25)
[04:39:22 -9770.341628] Model parameter optimization (eps = 0.100000)

[04:39:26] ML tree search #17, logLikelihood: -9770.028643

[04:39:26 -37599.784163] Initial branch length optimization
[04:39:27 -29343.116865] Model parameter optimization (eps = 10.000000)
[04:39:35 -29188.110774] AUTODETECT spr round 1 (radius: 5)
[04:39:52 -21267.930515] AUTODETECT spr round 2 (radius: 10)
[04:40:12 -16255.766687] AUTODETECT spr round 3 (radius: 15)
[04:40:37 -12993.515597] AUTODETECT spr round 4 (radius: 20)
[04:41:07 -12063.035291] AUTODETECT spr round 5 (radius: 25)
[04:41:38 -11606.771839] SPR radius for FAST iterations: 25 (autodetect)
[04:41:38 -11606.771839] Model parameter optimization (eps = 3.000000)
[04:41:43 -11595.273281] FAST spr round 1 (radius: 25)
[04:42:03 -9994.859386] FAST spr round 2 (radius: 25)
[04:42:22 -9917.149449] FAST spr round 3 (radius: 25)
[04:42:39 -9857.691813] FAST spr round 4 (radius: 25)
[04:42:56 -9852.781740] FAST spr round 5 (radius: 25)
[04:43:12 -9852.781441] Model parameter optimization (eps = 1.000000)
[04:43:17 -9851.290911] SLOW spr round 1 (radius: 5)
[04:43:36 -9850.494220] SLOW spr round 2 (radius: 5)
[04:43:55 -9848.676741] SLOW spr round 3 (radius: 5)
[04:44:14 -9843.945672] SLOW spr round 4 (radius: 5)
[04:44:33 -9843.945431] SLOW spr round 5 (radius: 10)
[04:44:53 -9843.392957] SLOW spr round 6 (radius: 5)
[04:45:16 -9843.392701] SLOW spr round 7 (radius: 10)
[04:45:37 -9806.209624] SLOW spr round 8 (radius: 5)
[04:46:00 -9789.532850] SLOW spr round 9 (radius: 5)
[04:46:21 -9789.531443] SLOW spr round 10 (radius: 10)
[04:46:41 -9789.531367] SLOW spr round 11 (radius: 15)
[04:47:08 -9788.997395] SLOW spr round 12 (radius: 5)
[04:47:32 -9788.996707] SLOW spr round 13 (radius: 10)
[04:47:54 -9788.996016] SLOW spr round 14 (radius: 15)
[04:48:20 -9788.995325] SLOW spr round 15 (radius: 20)
[04:48:55 -9788.994621] SLOW spr round 16 (radius: 25)
[04:49:36 -9787.714435] SLOW spr round 17 (radius: 5)
[04:50:02 -9787.713540] SLOW spr round 18 (radius: 10)
[04:50:25 -9787.712780] SLOW spr round 19 (radius: 15)
[04:50:51 -9787.712021] SLOW spr round 20 (radius: 20)
[04:51:26 -9787.711260] SLOW spr round 21 (radius: 25)
[04:52:06 -9787.710488] Model parameter optimization (eps = 0.100000)

[04:52:09] ML tree search #18, logLikelihood: -9787.634279

[04:52:09 -37633.003362] Initial branch length optimization
[04:52:09 -29467.386720] Model parameter optimization (eps = 10.000000)
[04:52:18 -29327.435131] AUTODETECT spr round 1 (radius: 5)
[04:52:35 -21339.999752] AUTODETECT spr round 2 (radius: 10)
[04:52:55 -16235.989926] AUTODETECT spr round 3 (radius: 15)
[04:53:16 -14690.971502] AUTODETECT spr round 4 (radius: 20)
[04:53:44 -12801.190845] AUTODETECT spr round 5 (radius: 25)
[04:54:12 -12000.540867] SPR radius for FAST iterations: 25 (autodetect)
[04:54:12 -12000.540867] Model parameter optimization (eps = 3.000000)
[04:54:19 -11989.920732] FAST spr round 1 (radius: 25)
[04:54:39 -10196.456762] FAST spr round 2 (radius: 25)
[04:54:57 -10084.486354] FAST spr round 3 (radius: 25)
[04:55:15 -10078.378432] FAST spr round 4 (radius: 25)
[04:55:31 -10076.726934] FAST spr round 5 (radius: 25)
[04:55:48 -10076.725446] Model parameter optimization (eps = 1.000000)
[04:55:53 -10073.290631] SLOW spr round 1 (radius: 5)
[04:56:12 -10071.022867] SLOW spr round 2 (radius: 5)
[04:56:30 -10071.020794] SLOW spr round 3 (radius: 10)
[04:56:50 -10071.019450] SLOW spr round 4 (radius: 15)
[04:57:17 -10067.900919] SLOW spr round 5 (radius: 5)
[04:57:43 -10064.179571] SLOW spr round 6 (radius: 5)
[04:58:04 -10064.178192] SLOW spr round 7 (radius: 10)
[04:58:25 -10063.711481] SLOW spr round 8 (radius: 5)
[04:58:47 -10063.711432] SLOW spr round 9 (radius: 10)
[04:59:08 -10063.711403] SLOW spr round 10 (radius: 15)
[04:59:36 -10062.891377] SLOW spr round 11 (radius: 5)
[05:00:01 -10058.375531] SLOW spr round 12 (radius: 5)
[05:00:23 -10057.003326] SLOW spr round 13 (radius: 5)
[05:00:43 -10057.003257] SLOW spr round 14 (radius: 10)
[05:01:03 -10057.003248] SLOW spr round 15 (radius: 15)
[05:01:29 -10057.003240] SLOW spr round 16 (radius: 20)
[05:02:00 -10054.928766] SLOW spr round 17 (radius: 5)
[05:02:25 -10054.928757] SLOW spr round 18 (radius: 10)
[05:02:48 -10054.928750] SLOW spr round 19 (radius: 15)
[05:03:13 -10054.928742] SLOW spr round 20 (radius: 20)
[05:03:45 -10054.928735] SLOW spr round 21 (radius: 25)
[05:04:19 -10054.928727] Model parameter optimization (eps = 0.100000)

[05:04:22] ML tree search #19, logLikelihood: -10054.844053

[05:04:22 -37145.722096] Initial branch length optimization
[05:04:22 -29192.439009] Model parameter optimization (eps = 10.000000)
[05:04:30 -29045.440701] AUTODETECT spr round 1 (radius: 5)
[05:04:47 -20573.322326] AUTODETECT spr round 2 (radius: 10)
[05:05:08 -15802.680455] AUTODETECT spr round 3 (radius: 15)
[05:05:31 -13306.143305] AUTODETECT spr round 4 (radius: 20)
[05:05:57 -12091.252018] AUTODETECT spr round 5 (radius: 25)
[05:06:24 -11921.329055] SPR radius for FAST iterations: 25 (autodetect)
[05:06:24 -11921.329055] Model parameter optimization (eps = 3.000000)
[05:06:31 -11848.875754] FAST spr round 1 (radius: 25)
[05:06:53 -10048.021457] FAST spr round 2 (radius: 25)
[05:07:11 -9836.765763] FAST spr round 3 (radius: 25)
[05:07:30 -9800.376615] FAST spr round 4 (radius: 25)
[05:07:46 -9798.734766] FAST spr round 5 (radius: 25)
[05:08:02 -9798.391403] FAST spr round 6 (radius: 25)
[05:08:18 -9798.390486] Model parameter optimization (eps = 1.000000)
[05:08:21 -9797.454046] SLOW spr round 1 (radius: 5)
[05:08:40 -9794.410162] SLOW spr round 2 (radius: 5)
[05:08:59 -9790.228276] SLOW spr round 3 (radius: 5)
[05:09:17 -9790.228235] SLOW spr round 4 (radius: 10)
[05:09:37 -9790.150527] SLOW spr round 5 (radius: 15)
[05:10:04 -9790.150526] SLOW spr round 6 (radius: 20)
[05:10:38 -9789.130574] SLOW spr round 7 (radius: 5)
[05:11:03 -9786.987376] SLOW spr round 8 (radius: 5)
[05:11:25 -9786.987373] SLOW spr round 9 (radius: 10)
[05:11:45 -9782.639547] SLOW spr round 10 (radius: 5)
[05:12:08 -9782.639496] SLOW spr round 11 (radius: 10)
[05:12:29 -9782.591634] SLOW spr round 12 (radius: 15)
[05:12:56 -9782.591631] SLOW spr round 13 (radius: 20)
[05:13:29 -9779.935666] SLOW spr round 14 (radius: 5)
[05:13:54 -9779.935579] SLOW spr round 15 (radius: 10)
[05:14:16 -9779.935577] SLOW spr round 16 (radius: 15)
[05:14:43 -9779.935577] SLOW spr round 17 (radius: 20)
[05:15:17 -9778.979433] SLOW spr round 18 (radius: 5)
[05:15:42 -9778.978492] SLOW spr round 19 (radius: 10)
[05:16:04 -9778.978467] SLOW spr round 20 (radius: 15)
[05:16:31 -9778.978466] SLOW spr round 21 (radius: 20)
[05:17:05 -9778.934788] SLOW spr round 22 (radius: 25)
[05:17:45 -9778.784575] SLOW spr round 23 (radius: 5)
[05:18:10 -9778.784498] SLOW spr round 24 (radius: 10)
[05:18:33 -9778.377491] SLOW spr round 25 (radius: 5)
[05:18:55 -9778.377474] SLOW spr round 26 (radius: 10)
[05:19:16 -9778.377474] SLOW spr round 27 (radius: 15)
[05:19:43 -9778.377474] SLOW spr round 28 (radius: 20)
[05:20:18 -9778.377474] SLOW spr round 29 (radius: 25)
[05:20:57 -9778.377474] Model parameter optimization (eps = 0.100000)

[05:20:58] ML tree search #20, logLikelihood: -9778.296101


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.191425,0.366281) (0.255357,0.620686) (0.403403,1.153755) (0.149816,2.042244) 
   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: -9765.506957

AIC score: 21545.013915 / AICc score: 2051657.013915 / BIC score: 23408.112550
Free parameters (model + branch lengths): 1007

WARNING: Number of free parameters (K=1007) is larger than alignment size (n=47).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 66 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9Y618/3_mltree/Q9Y618.raxml.log

Analysis started: 07-Jul-2021 02:11:07 / finished: 07-Jul-2021 07:32:06

Elapsed time: 19258.895 seconds

Consumed energy: 1637.822 Wh (= 8 km in an electric car, or 41 km with an e-scooter!)