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 03-Jul-2021 03:13:57 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/2_msa/P0C264_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/3_mltree/P0C264 --seed 2 --threads 2 --tree rand{20} pars{20} Analysis options: run mode: ML tree search start tree(s): random (20) random seed: 2 tip-inner: OFF pattern compression: ON per-rate scalers: OFF site repeats: ON fast spr radius: AUTO spr subtree cutoff: 1.000000 branch lengths: proportional (ML estimate, algorithm: NR-FAST) SIMD kernels: AVX2 parallelization: coarse-grained (auto), PTHREADS (2 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/2_msa/P0C264_trimmed_msa.fasta [00:00:00] Loaded alignment with 862 taxa and 91 sites WARNING: Sequences tr_B4Q513_B4Q513_DROSI_7240 and tr_B4HXX3_B4HXX3_DROSE_7238 are exactly identical! WARNING: Sequences tr_B4QI05_B4QI05_DROSI_7240 and tr_A1ZAH6_A1ZAH6_DROME_7227 are exactly identical! WARNING: Sequences tr_B4QI05_B4QI05_DROSI_7240 and tr_B4HT58_B4HT58_DROSE_7238 are exactly identical! WARNING: Sequences tr_B4QI05_B4QI05_DROSI_7240 and tr_A0A0R3NTW3_A0A0R3NTW3_DROPS_46245 are exactly identical! WARNING: Sequences tr_B4QI05_B4QI05_DROSI_7240 and tr_B4GA92_B4GA92_DROPE_7234 are exactly identical! WARNING: Sequences tr_B4QI05_B4QI05_DROSI_7240 and tr_A0A0M3QV31_A0A0M3QV31_DROBS_30019 are exactly identical! WARNING: Sequences tr_B4QI05_B4QI05_DROSI_7240 and tr_A0A1W4UYG4_A0A1W4UYG4_DROFC_30025 are exactly identical! WARNING: Sequences tr_A0A2R8QDD3_A0A2R8QDD3_DANRE_7955 and tr_E7F7I3_E7F7I3_DANRE_7955 are exactly identical! WARNING: Sequences tr_E7F368_E7F368_DANRE_7955 and tr_A0A1S3Q660_A0A1S3Q660_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A1L1RYN7_A0A1L1RYN7_CHICK_9031 and tr_G1NEN7_G1NEN7_MELGA_9103 are exactly identical! WARNING: Sequences tr_E1BXS6_E1BXS6_CHICK_9031 and tr_G1N335_G1N335_MELGA_9103 are exactly identical! WARNING: Sequences tr_H9L0G1_H9L0G1_CHICK_9031 and tr_H9H0R1_H9H0R1_MELGA_9103 are exactly identical! WARNING: Sequences tr_H9L0G1_H9L0G1_CHICK_9031 and tr_K7GJX5_K7GJX5_PELSI_13735 are exactly identical! WARNING: Sequences tr_H9L0G1_H9L0G1_CHICK_9031 and tr_A0A226P4H5_A0A226P4H5_COLVI_9014 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_K7G4F8_K7G4F8_PELSI_13735 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_H0ZM45_H0ZM45_TAEGU_59729 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_U3JSA8_U3JSA8_FICAL_59894 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A151MNL2_A0A151MNL2_ALLMI_8496 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A0Q3PJC7_A0A0Q3PJC7_AMAAE_12930 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A091E8R4_A0A091E8R4_CORBR_85066 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A091IUM9_A0A091IUM9_EGRGA_188379 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A093SZV9_A0A093SZV9_9PASS_328815 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A091VML7_A0A091VML7_NIPNI_128390 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A087QI42_A0A087QI42_APTFO_9233 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A093JGR0_A0A093JGR0_STRCA_441894 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A091WKH8_A0A091WKH8_OPIHO_30419 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A099ZL43_A0A099ZL43_TINGU_94827 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A0A0AIK0_A0A0A0AIK0_CHAVO_50402 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A2I0MXW9_A0A2I0MXW9_COLLI_8932 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A093ITM9_A0A093ITM9_DRYPU_118200 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A091IHZ3_A0A091IHZ3_CALAN_9244 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A1U7SE31_A0A1U7SE31_ALLSI_38654 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A1V4KGL5_A0A1V4KGL5_PATFA_372326 are exactly identical! WARNING: Sequences tr_Q5ZJQ4_Q5ZJQ4_CHICK_9031 and tr_A0A218VC76_A0A218VC76_9PASE_299123 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G1S4U2_G1S4U2_NOMLE_61853 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G1P8G3_G1P8G3_MYOLU_59463 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G3R8H1_G3R8H1_GORGO_9595 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_H2P6C3_H2P6C3_PONAB_9601 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G1NCZ2_G1NCZ2_MELGA_9103 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_H9G8C8_H9G8C8_ANOCA_28377 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G1T644_G1T644_RABIT_9986 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and sp_P10830_KPCE_RABIT_9986 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_F1PMX4_F1PMX4_CANLF_9615 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_K7CBH8_K7CBH8_PANTR_9598 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_W5P771_W5P771_SHEEP_9940 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_H0VV11_H0VV11_CAVPO_10141 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and sp_Q02156_KPCE_HUMAN_9606 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_F7BIC2_F7BIC2_MACMU_9544 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G5C9T7_G5C9T7_HETGA_10181 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_K7FXV6_K7FXV6_PELSI_13735 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G3SWS9_G3SWS9_LOXAF_9785 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_U3FXN4_U3FXN4_CALJA_9483 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_F1S5K7_F1S5K7_PIG_9823 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G1LHE1_G1LHE1_AILME_9646 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_G7PM48_G7PM48_MACFA_9541 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_F1MDC9_F1MDC9_BOVIN_9913 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_L5KV88_L5KV88_PTEAL_9402 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2I2USU9_A0A2I2USU9_FELCA_9685 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_U3KES8_U3KES8_FICAL_59894 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2I3LQL3_A0A2I3LQL3_PAPAN_9555 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A091CL19_A0A091CL19_FUKDA_885580 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A0D9RLN1_A0A0D9RLN1_CHLSB_60711 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A151NWR5_A0A151NWR5_ALLMI_8496 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A0Q3RAB7_A0A0Q3RAB7_AMAAE_12930 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A093QJC5_A0A093QJC5_9PASS_328815 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A093JTU0_A0A093JTU0_STRCA_441894 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A091WFJ8_A0A091WFJ8_OPIHO_30419 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2I0MAM9_A0A2I0MAM9_COLLI_8932 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A091I6E4_A0A091I6E4_CALAN_9244 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A1S2ZRE6_A0A1S2ZRE6_ERIEU_9365 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A1S3FAS7_A0A1S3FAS7_DIPOR_10020 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A3Q0GLF7_A0A3Q0GLF7_ALLSI_38654 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A1V4JJL9_A0A1V4JJL9_PATFA_372326 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2K5NF50_A0A2K5NF50_CERAT_9531 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2K6BZK0_A0A2K6BZK0_MACNE_9545 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2K5YJ45_A0A2K5YJ45_MANLE_9568 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2R9AUU7_A0A2R9AUU7_PANPA_9597 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2U4BY98_A0A2U4BY98_TURTR_9739 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2U3W5N5_A0A2U3W5N5_ODORO_9708 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2U3YAB8_A0A2U3YAB8_LEPWE_9713 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2Y9D8M7_A0A2Y9D8M7_TRIMA_127582 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2Y9N5V7_A0A2Y9N5V7_DELLE_9749 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A2Y9SAE3_A0A2Y9SAE3_PHYCD_9755 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A384CTB2_A0A384CTB2_URSMA_29073 are exactly identical! WARNING: Sequences sp_P16054_KPCE_MOUSE_10090 and tr_A0A384ARX2_A0A384ARX2_BALAS_310752 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_M3Y544_M3Y544_MUSPF_9669 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_G1P016_G1P016_MYOLU_59463 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_E2RGU7_E2RGU7_CANLF_9615 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_F7BA26_F7BA26_HORSE_9796 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and sp_Q64617_KPCL_RAT_10116 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_I3MDT2_I3MDT2_ICTTR_43179 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_H0XEN0_H0XEN0_OTOGA_30611 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_G1L8P0_G1L8P0_AILME_9646 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_A0A1U7UIQ9_A0A1U7UIQ9_TARSY_1868482 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_A0A3Q0CPG8_A0A3Q0CPG8_MESAU_10036 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_A0A2Y9QRM4_A0A2Y9QRM4_TRIMA_127582 are exactly identical! WARNING: Sequences sp_P23298_KPCL_MOUSE_10090 and tr_A0A2Y9L4T2_A0A2Y9L4T2_ENHLU_391180 are exactly identical! WARNING: Sequences sp_Q8QZX0_SBK1_MOUSE_10090 and tr_G3I7N0_G3I7N0_CRIGR_10029 are exactly identical! WARNING: Sequences sp_Q8QZX0_SBK1_MOUSE_10090 and sp_Q9Z335_SBK1_RAT_10116 are exactly identical! WARNING: Sequences sp_Q8QZX0_SBK1_MOUSE_10090 and tr_A0A1U7QEK6_A0A1U7QEK6_MESAU_10036 are exactly identical! WARNING: Sequences tr_M3Y7I3_M3Y7I3_MUSPF_9669 and tr_A0A2Y9IFU0_A0A2Y9IFU0_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3Z7H1_M3Z7H1_MUSPF_9669 and tr_G1TVM4_G1TVM4_RABIT_9986 are exactly identical! WARNING: Sequences tr_M3Z7H1_M3Z7H1_MUSPF_9669 and tr_J9NXW6_J9NXW6_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3Z7H1_M3Z7H1_MUSPF_9669 and tr_A0A1S3G4V9_A0A1S3G4V9_DIPOR_10020 are exactly identical! WARNING: Sequences tr_M3Z7H1_M3Z7H1_MUSPF_9669 and tr_A0A2Y9IZW1_A0A2Y9IZW1_ENHLU_391180 are exactly identical! WARNING: Sequences tr_H2LTL8_H2LTL8_ORYLA_8090 and tr_A0A1S3NGJ4_A0A1S3NGJ4_SALSA_8030 are exactly identical! WARNING: Sequences tr_H2LTL8_H2LTL8_ORYLA_8090 and tr_A0A060YMD7_A0A060YMD7_ONCMY_8022 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and sp_P0C264_SBK3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and tr_F6RUJ7_F6RUJ7_MACMU_9544 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and tr_G7PYZ6_G7PYZ6_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and tr_A0A0A0MXH1_A0A0A0MXH1_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and tr_A0A0D9S610_A0A0D9S610_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and tr_A0A2K6BZ85_A0A2K6BZ85_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and tr_A0A2K5Y3E4_A0A2K5Y3E4_MANLE_9568 are exactly identical! WARNING: Sequences tr_G1RHW0_G1RHW0_NOMLE_61853 and tr_A0A2R8ZKQ4_A0A2R8ZKQ4_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_G3QE74_G3QE74_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_H2NQH7_H2NQH7_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_E2RB08_E2RB08_CANLF_9615 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2I3TQ93_A0A2I3TQ93_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_F7BT29_F7BT29_HORSE_9796 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_W5NSK9_W5NSK9_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_H0XSB7_H0XSB7_OTOGA_30611 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and sp_Q52WX2_SBK1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_F6YB20_F6YB20_MACMU_9544 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_G3UGS0_G3UGS0_LOXAF_9785 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2R8MBQ8_A0A2R8MBQ8_CALJA_9483 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A286ZHW7_A0A286ZHW7_PIG_9823 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_G3N1M5_G3N1M5_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_L5KH74_L5KH74_PTEAL_9402 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2I3MCH1_A0A2I3MCH1_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A0D9R231_A0A0D9R231_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A1S3A228_A0A1S3A228_ERIEU_9365 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2K5LSZ2_A0A2K5LSZ2_CERAT_9531 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2K6D5M3_A0A2K6D5M3_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2R9ADP1_A0A2R9ADP1_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2U3VPV9_A0A2U3VPV9_ODORO_9708 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2U3XRF3_A0A2U3XRF3_LEPWE_9713 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2Y9E435_A0A2Y9E435_TRIMA_127582 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2Y9L7V1_A0A2Y9L7V1_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G1RL98_G1RL98_NOMLE_61853 and tr_A0A2Y9PB17_A0A2Y9PB17_DELLE_9749 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_G1PR60_G1PR60_MYOLU_59463 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_G3RL25_G3RL25_GORGO_9595 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A0A0MXS6_A0A0A0MXS6_PONAB_9601 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and sp_Q5R7A7_SGK3_PONAB_9601 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_D7NGX9_D7NGX9_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_H2QW93_H2QW93_PANTR_9598 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_F6ZST3_F6ZST3_ORNAN_9258 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_F7GIB9_F7GIB9_MONDO_13616 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_W5Q8T6_W5Q8T6_SHEEP_9940 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and sp_Q96BR1_SGK3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_G3T9P4_G3T9P4_LOXAF_9785 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_G3W1V9_G3W1V9_SARHA_9305 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_F1RTZ8_F1RTZ8_PIG_9823 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_D2H423_D2H423_AILME_9646 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_F1MSV4_F1MSV4_BOVIN_9913 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_L5JTK4_L5JTK4_PTEAL_9402 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A341ZMI8_A0A341ZMI8_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A096MSU4_A0A096MSU4_PAPAN_9555 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A0D9RNU8_A0A0D9RNU8_CHLSB_60711 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A1S3GM84_A0A1S3GM84_DIPOR_10020 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A1U7UJU9_A0A1U7UJU9_TARSY_1868482 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A3Q0CJP5_A0A3Q0CJP5_MESAU_10036 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A2K6E607_A0A2K6E607_MACNE_9545 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A2K6A2S7_A0A2K6A2S7_MANLE_9568 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A2R9BP29_A0A2R9BP29_PANPA_9597 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A2U3W2S8_A0A2U3W2S8_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A2U3XSR0_A0A2U3XSR0_LEPWE_9713 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A2Y9KIE1_A0A2Y9KIE1_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3ZA25_M3ZA25_NOMLE_61853 and tr_A0A384DDR2_A0A384DDR2_URSMA_29073 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_H2Q8F2_H2Q8F2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_W5QJ13_W5QJ13_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and sp_P24723_KPCL_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_F7BUZ8_F7BUZ8_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_F7HD36_F7HD36_CALJA_9483 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_G7PAH0_G7PAH0_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_F1MY82_F1MY82_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A096NVI4_A0A096NVI4_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A0D9RNR0_A0A0D9RNR0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A1S2ZH90_A0A1S2ZH90_ERIEU_9365 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A2K5KX36_A0A2K5KX36_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A2K6DL10_A0A2K6DL10_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A2K6A797_A0A2K6A797_MANLE_9568 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A2R9AS27_A0A2R9AS27_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A2U4ACH7_A0A2U4ACH7_TURTR_9739 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A2Y9NA69_A0A2Y9NA69_DELLE_9749 are exactly identical! WARNING: Sequences tr_G3QZ70_G3QZ70_GORGO_9595 and tr_A0A2Y9SBW7_A0A2Y9SBW7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_H2R688_H2R688_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and sp_Q9BXA6_TSSK6_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_G7NNH2_G7NNH2_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_G7PX18_G7PX18_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_A0A0A0MVT0_A0A0A0MVT0_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_A0A0D9SB00_A0A0D9SB00_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_A0A2K5KJ37_A0A2K5KJ37_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_A0A2K6AS74_A0A2K6AS74_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_A0A2K5XGV3_A0A2K5XGV3_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2J8T5E1_A0A2J8T5E1_PONAB_9601 and tr_A0A2R8ZN56_A0A2R8ZN56_PANPA_9597 are exactly identical! WARNING: Sequences tr_H9G520_H9G520_ANOCA_28377 and tr_A0A099ZV13_A0A099ZV13_TINGU_94827 are exactly identical! WARNING: Sequences tr_Q29P14_Q29P14_DROPS_46245 and tr_B4GJX3_B4GJX3_DROPE_7234 are exactly identical! WARNING: Sequences tr_F6YEF7_F6YEF7_HORSE_9796 and tr_H0VA84_H0VA84_CAVPO_10141 are exactly identical! WARNING: Sequences tr_A0A0G2JZW9_A0A0G2JZW9_RAT_10116 and tr_F7EN76_F7EN76_RAT_10116 are exactly identical! WARNING: Sequences tr_D3ZEK4_D3ZEK4_RAT_10116 and tr_A0A1U7R594_A0A1U7R594_MESAU_10036 are exactly identical! WARNING: Sequences tr_Q4WRX0_Q4WRX0_ASPFU_330879 and tr_A2QAV5_A2QAV5_ASPNC_425011 are exactly identical! WARNING: Sequences tr_G4ZBR2_G4ZBR2_PHYSP_1094619 and tr_D0MUH5_D0MUH5_PHYIT_403677 are exactly identical! WARNING: Sequences tr_G4ZBR2_G4ZBR2_PHYSP_1094619 and tr_W2PCT4_W2PCT4_PHYPN_761204 are exactly identical! WARNING: Sequences tr_G4ZBR2_G4ZBR2_PHYSP_1094619 and tr_A0A0W8DXJ2_A0A0W8DXJ2_PHYNI_4790 are exactly identical! WARNING: Sequences tr_G4ZBR2_G4ZBR2_PHYSP_1094619 and tr_W2LXY5_W2LXY5_PHYPR_4792 are exactly identical! WARNING: Sequences tr_G4ZBR2_G4ZBR2_PHYSP_1094619 and tr_A0A329SVA8_A0A329SVA8_9STRA_29920 are exactly identical! WARNING: Sequences tr_A0A3B5PZH7_A0A3B5PZH7_XIPMA_8083 and tr_A0A087YNL3_A0A087YNL3_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A3B5R3Q9_A0A3B5R3Q9_XIPMA_8083 and tr_A0A087YLP5_A0A087YLP5_POEFO_48698 are exactly identical! WARNING: Sequences tr_M4AX50_M4AX50_XIPMA_8083 and tr_A0A087Y8I8_A0A087Y8I8_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_A0A158NEX0_A0A158NEX0_ATTCE_12957 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_F4W450_F4W450_ACREC_103372 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_A0A0M9A8G7_A0A0M9A8G7_9HYME_166423 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_A0A195E5L2_A0A195E5L2_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_A0A195B402_A0A195B402_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_A0A195EUB5_A0A195EUB5_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_A0A195CLL5_A0A195CLL5_9HYME_456900 are exactly identical! WARNING: Sequences tr_A0A088APP3_A0A088APP3_APIME_7460 and tr_A0A2A3EAF4_A0A2A3EAF4_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158NT63_A0A158NT63_ATTCE_12957 and tr_F4WXR7_F4WXR7_ACREC_103372 are exactly identical! WARNING: Sequences tr_A0A158NT63_A0A158NT63_ATTCE_12957 and tr_A0A151WTI7_A0A151WTI7_9HYME_64791 are exactly identical! WARNING: Sequences tr_A0A158NT63_A0A158NT63_ATTCE_12957 and tr_A0A195EJ23_A0A195EJ23_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A158NT63_A0A158NT63_ATTCE_12957 and tr_A0A195BW31_A0A195BW31_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158NT63_A0A158NT63_ATTCE_12957 and tr_A0A195F5Q6_A0A195F5Q6_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A287DE40_A0A287DE40_ICTTR_43179 and tr_F7DVL1_F7DVL1_XENTR_8364 are exactly identical! WARNING: Sequences tr_A0A287DE40_A0A287DE40_ICTTR_43179 and tr_A0A2U4C879_A0A2U4C879_TURTR_9739 are exactly identical! WARNING: Sequences tr_I3M1T3_I3M1T3_ICTTR_43179 and tr_G5AQN5_G5AQN5_HETGA_10181 are exactly identical! WARNING: Sequences tr_I3M1T3_I3M1T3_ICTTR_43179 and tr_A0A1S2ZZP9_A0A1S2ZZP9_ERIEU_9365 are exactly identical! WARNING: Sequences tr_I3M1T3_I3M1T3_ICTTR_43179 and tr_A0A2U4AJ07_A0A2U4AJ07_TURTR_9739 are exactly identical! WARNING: Sequences tr_I3M1T3_I3M1T3_ICTTR_43179 and tr_A0A2Y9QW41_A0A2Y9QW41_TRIMA_127582 are exactly identical! WARNING: Sequences tr_I3M1T3_I3M1T3_ICTTR_43179 and tr_A0A2Y9PVS8_A0A2Y9PVS8_DELLE_9749 are exactly identical! WARNING: Sequences tr_I3M1T3_I3M1T3_ICTTR_43179 and tr_A0A2Y9T1N5_A0A2Y9T1N5_PHYCD_9755 are exactly identical! WARNING: Sequences tr_H0Y2L2_H0Y2L2_OTOGA_30611 and tr_G3U1X0_G3U1X0_LOXAF_9785 are exactly identical! WARNING: Sequences tr_H0Y2L2_H0Y2L2_OTOGA_30611 and tr_A0A2Y9DZM1_A0A2Y9DZM1_TRIMA_127582 are exactly identical! WARNING: Sequences tr_H2V4G6_H2V4G6_TAKRU_31033 and tr_H3CET3_H3CET3_TETNG_99883 are exactly identical! WARNING: Sequences tr_H2V4G6_H2V4G6_TAKRU_31033 and tr_A0A0P7ZAG9_A0A0P7ZAG9_9TELE_113540 are exactly identical! WARNING: Sequences tr_A0A286XQD4_A0A286XQD4_CAVPO_10141 and tr_G5BRB5_G5BRB5_HETGA_10181 are exactly identical! WARNING: Sequences tr_A0A0E0JC43_A0A0E0JC43_ORYNI_4536 and tr_A0A0E0FDX3_A0A0E0FDX3_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_A0A0E0JC43_A0A0E0JC43_ORYNI_4536 and tr_A0A0E0RJP8_A0A0E0RJP8_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0JC43_A0A0E0JC43_ORYNI_4536 and tr_A0A0D3HWI4_A0A0D3HWI4_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_A0A0E0JC43_A0A0E0JC43_ORYNI_4536 and tr_A0A0E0BUY1_A0A0E0BUY1_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0JC43_A0A0E0JC43_ORYNI_4536 and sp_Q2QMI0_CIPK4_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_G7XA75_G7XA75_ASPKW_1033177 and tr_A0A146FAC4_A0A146FAC4_9EURO_1069201 are exactly identical! WARNING: Sequences tr_H0ZB91_H0ZB91_TAEGU_59729 and tr_A0A218UHF4_A0A218UHF4_9PASE_299123 are exactly identical! WARNING: Sequences tr_B3MD92_B3MD92_DROAN_7217 and tr_B4KSR1_B4KSR1_DROMO_7230 are exactly identical! WARNING: Sequences tr_A0A1B8XTC0_A0A1B8XTC0_XENTR_8364 and tr_F6ZIA8_F6ZIA8_XENTR_8364 are exactly identical! WARNING: Sequences tr_A0A1B8XTC0_A0A1B8XTC0_XENTR_8364 and tr_F7AWP8_F7AWP8_XENTR_8364 are exactly identical! WARNING: Sequences tr_F6U1L8_F6U1L8_XENTR_8364 and tr_A0A1L8EYT7_A0A1L8EYT7_XENLA_8355 are exactly identical! WARNING: Sequences tr_E7A3G7_E7A3G7_SPORE_999809 and tr_A0A0F7S917_A0A0F7S917_9BASI_49012 are exactly identical! WARNING: Sequences tr_G1LAX8_G1LAX8_AILME_9646 and tr_A0A384DM23_A0A384DM23_URSMA_29073 are exactly identical! WARNING: Sequences tr_G1LAY4_G1LAY4_AILME_9646 and tr_A0A2U3W9U7_A0A2U3W9U7_ODORO_9708 are exactly identical! WARNING: Sequences tr_G1LAY4_G1LAY4_AILME_9646 and tr_A0A384DLW8_A0A384DLW8_URSMA_29073 are exactly identical! WARNING: Sequences tr_G0R7Z7_G0R7Z7_HYPJQ_431241 and tr_A0A2T4CCL3_A0A2T4CCL3_TRILO_983965 are exactly identical! WARNING: Sequences tr_G0R7Z7_G0R7Z7_HYPJQ_431241 and tr_A0A2T4BDL7_A0A2T4BDL7_9HYPO_58853 are exactly identical! WARNING: Sequences tr_L0PAR1_L0PAR1_PNEJ8_1209962 and tr_A0A0W4ZGI8_A0A0W4ZGI8_PNEJ7_1408657 are exactly identical! WARNING: Sequences tr_M0WX94_M0WX94_HORVV_112509 and tr_A0A3B6KGG3_A0A3B6KGG3_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M0WX94_M0WX94_HORVV_112509 and tr_A0A3B6LMK4_A0A3B6LMK4_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M0ZBK2_M0ZBK2_HORVV_112509 and tr_A0A3B6KAI7_A0A3B6KAI7_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M0ZBK2_M0ZBK2_HORVV_112509 and tr_A0A3B6LGL2_A0A3B6LGL2_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M0ZBK2_M0ZBK2_HORVV_112509 and tr_A0A3B6ML54_A0A3B6ML54_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A337SAI3_A0A337SAI3_FELCA_9685 and tr_A0A2Y9SLW9_A0A2Y9SLW9_PHYCD_9755 are exactly identical! WARNING: Sequences tr_M3WKI0_M3WKI0_FELCA_9685 and tr_A0A2Y9F9V7_A0A2Y9F9V7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_S2IWR4_S2IWR4_MUCC1_1220926 and tr_A0A0C9M5J9_A0A0C9M5J9_9FUNG_91626 are exactly identical! WARNING: Sequences tr_S2IWR4_S2IWR4_MUCC1_1220926 and tr_A0A168K953_A0A168K953_MUCCL_747725 are exactly identical! WARNING: Sequences tr_T1IL53_T1IL53_STRMM_126957 and tr_T1JKP5_T1JKP5_STRMM_126957 are exactly identical! WARNING: Sequences tr_R7TDJ6_R7TDJ6_CAPTE_283909 and tr_R7U5X2_R7U5X2_CAPTE_283909 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A091URD7_A0A091URD7_NIPNI_128390 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A087QIB4_A0A087QIB4_APTFO_9233 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A091GAM8_A0A091GAM8_9AVES_55661 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A2I0LP36_A0A2I0LP36_COLLI_8932 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A093GA77_A0A093GA77_DRYPU_118200 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A091I6L0_A0A091I6L0_CALAN_9244 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A1V4KTD4_A0A1V4KTD4_PATFA_372326 are exactly identical! WARNING: Sequences tr_U3JPB2_U3JPB2_FICAL_59894 and tr_A0A218UFL1_A0A218UFL1_9PASE_299123 are exactly identical! WARNING: Sequences tr_U3J059_U3J059_ANAPL_8839 and tr_A0A2I0MWB3_A0A2I0MWB3_COLLI_8932 are exactly identical! WARNING: Sequences tr_U3J059_U3J059_ANAPL_8839 and tr_A0A1V4JW94_A0A1V4JW94_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A3B6ENT3_A0A3B6ENT3_WHEAT_4565 and tr_A0A3B6H4B4_A0A3B6H4B4_WHEAT_4565 are exactly identical! WARNING: Sequences tr_V4TZX6_V4TZX6_9ROSI_85681 and tr_A0A2H5PC79_A0A2H5PC79_CITUN_55188 are exactly identical! WARNING: Sequences tr_A0A067D2F5_A0A067D2F5_SAPPC_695850 and tr_T0RP00_T0RP00_9STRA_1156394 are exactly identical! WARNING: Sequences tr_A0A067D2F5_A0A067D2F5_SAPPC_695850 and tr_A0A1V9Z9G9_A0A1V9Z9G9_9STRA_1202772 are exactly identical! WARNING: Sequences tr_A0A0A1NR63_A0A0A1NR63_9FUNG_58291 and tr_A0A367JCE0_A0A367JCE0_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A0A1NR63_A0A0A1NR63_9FUNG_58291 and tr_A0A367K9E2_A0A367K9E2_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A151N6B6_A0A151N6B6_ALLMI_8496 and tr_A0A3Q0FNZ6_A0A3Q0FNZ6_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A0N0BJH0_A0A0N0BJH0_9HYME_166423 and tr_A0A0L7RCL0_A0A0L7RCL0_9HYME_597456 are exactly identical! WARNING: Sequences tr_A0A0N0BJH0_A0A0N0BJH0_9HYME_166423 and tr_A0A2A3ENT7_A0A2A3ENT7_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A091JWK7_A0A091JWK7_EGRGA_188379 and tr_A0A091WU60_A0A091WU60_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091JWK7_A0A091JWK7_EGRGA_188379 and tr_A0A087QXK4_A0A087QXK4_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091JWK7_A0A091JWK7_EGRGA_188379 and tr_A0A091FM88_A0A091FM88_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A093GBJ6_A0A093GBJ6_DRYPU_118200 and tr_A0A226ND71_A0A226ND71_CALSU_9009 are exactly identical! WARNING: Sequences tr_A0A093GBJ6_A0A093GBJ6_DRYPU_118200 and tr_A0A226NR35_A0A226NR35_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A0C9YPI7_A0A0C9YPI7_9HOMO_765257 and tr_A0A0C3GH01_A0A0C3GH01_9HOMO_765440 are exactly identical! WARNING: Sequences tr_A0A0C9YPI7_A0A0C9YPI7_9HOMO_765257 and tr_A0A0C3NSP1_A0A0C3NSP1_PISTI_870435 are exactly identical! WARNING: Sequences tr_A0A0V1KBB2_A0A0V1KBB2_TRIPS_6337 and tr_A0A0V1MQG4_A0A0V1MQG4_9BILA_268474 are exactly identical! WARNING: Sequences tr_A0A0V1KBB2_A0A0V1KBB2_TRIPS_6337 and tr_A0A0V1GXE3_A0A0V1GXE3_9BILA_268475 are exactly identical! WARNING: Sequences tr_A0A164WW65_A0A164WW65_9HOMO_1314777 and tr_A0A166EPF0_A0A166EPF0_9HOMO_1314776 are exactly identical! WARNING: Sequences tr_A0A1S3MLV9_A0A1S3MLV9_SALSA_8030 and tr_A0A060VSR1_A0A060VSR1_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1S3NB98_A0A1S3NB98_SALSA_8030 and tr_A0A060YFY8_A0A060YFY8_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1S3P2P6_A0A1S3P2P6_SALSA_8030 and tr_A0A060WZ28_A0A060WZ28_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1S3RBN9_A0A1S3RBN9_SALSA_8030 and tr_A0A1S3S396_A0A1S3S396_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A1S3RBN9_A0A1S3RBN9_SALSA_8030 and tr_A0A060WUM7_A0A060WUM7_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1R3RPY0_A0A1R3RPY0_ASPC5_602072 and tr_A0A319FG56_A0A319FG56_9EURO_1448318 are exactly identical! WARNING: Sequences tr_A0A2I4BRH9_A0A2I4BRH9_9TELE_52670 and tr_A0A2U9CKW5_A0A2U9CKW5_SCOMX_52904 are exactly identical! WARNING: Sequences tr_A0A2H3E5M8_A0A2H3E5M8_ARMGA_47427 and tr_A0A2H3AQ65_A0A2H3AQ65_9AGAR_1076256 are exactly identical! WARNING: Sequences tr_A0A2H3E5M8_A0A2H3E5M8_ARMGA_47427 and tr_A0A284RRG4_A0A284RRG4_9AGAR_47428 are exactly identical! WARNING: Sequences tr_A0A2D0QC44_A0A2D0QC44_ICTPU_7998 and tr_A0A2D0QDS2_A0A2D0QDS2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2U3X4I8_A0A2U3X4I8_ODORO_9708 and tr_A0A384CND3_A0A384CND3_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A2Y9FHK3_A0A2Y9FHK3_PHYCD_9755 and tr_A0A384B0D8_A0A384B0D8_BALAS_310752 are exactly identical! WARNING: Duplicate sequences found: 306 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/P0C264/3_mltree/P0C264.raxml.reduced.phy Alignment comprises 1 partitions and 91 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 91 / 91 Gaps: 0.51 % Invariant sites: 1.10 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/3_mltree/P0C264.raxml.rba Parallelization scheme autoconfig: 2 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 862 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 91 / 7280 [00:00:00] Data distribution: max. searches per worker: 10 Starting ML tree search with 20 distinct starting trees [00:00:00 -146937.659446] Initial branch length optimization [00:00:01 -120770.339543] Model parameter optimization (eps = 10.000000) [00:00:25 -120491.960353] AUTODETECT spr round 1 (radius: 5) [00:01:34 -75366.429150] AUTODETECT spr round 2 (radius: 10) [00:02:47 -51347.340771] AUTODETECT spr round 3 (radius: 15) [00:04:04 -42329.506023] AUTODETECT spr round 4 (radius: 20) [00:05:29 -36509.409370] AUTODETECT spr round 5 (radius: 25) [00:07:04 -34451.875452] SPR radius for FAST iterations: 25 (autodetect) [00:07:04 -34451.875452] Model parameter optimization (eps = 3.000000) [00:07:16 -34441.804301] FAST spr round 1 (radius: 25) [00:08:27 -27561.366917] FAST spr round 2 (radius: 25) [00:09:27 -27203.049426] FAST spr round 3 (radius: 25) [00:10:20 -27158.390818] FAST spr round 4 (radius: 25) [00:11:11 -27152.223314] FAST spr round 5 (radius: 25) [00:12:00 -27152.220834] Model parameter optimization (eps = 1.000000) [00:12:09 -27144.356505] SLOW spr round 1 (radius: 5) [00:13:06 -27138.202046] SLOW spr round 2 (radius: 5) [00:14:01 -27137.168310] SLOW spr round 3 (radius: 5) [00:14:55 -27137.120681] SLOW spr round 4 (radius: 10) [00:15:54 -27137.012656] SLOW spr round 5 (radius: 5) [00:17:03 -27137.008249] SLOW spr round 6 (radius: 10) [00:18:08 -27137.007172] SLOW spr round 7 (radius: 15) [00:19:33 -27135.555755] SLOW spr round 8 (radius: 5) [00:20:47 -27135.555590] SLOW spr round 9 (radius: 10) [00:21:55 -27135.555576] SLOW spr round 10 (radius: 15) [00:23:19 -27135.555572] SLOW spr round 11 (radius: 20) [00:25:31 -27135.555572] SLOW spr round 12 (radius: 25) [00:28:13 -27135.555571] Model parameter optimization (eps = 0.100000) [00:28:15] [worker #0] ML tree search #1, logLikelihood: -27135.551371 [00:28:15 -146166.521052] Initial branch length optimization [00:28:17 -119674.669487] Model parameter optimization (eps = 10.000000) [00:28:42 -119328.535494] AUTODETECT spr round 1 (radius: 5) [00:29:50 -74877.686815] AUTODETECT spr round 2 (radius: 10) [00:31:02 -53213.014082] AUTODETECT spr round 3 (radius: 15) [00:31:51] [worker #1] ML tree search #2, logLikelihood: -27102.740099 [00:32:21 -42885.265387] AUTODETECT spr round 4 (radius: 20) [00:33:43 -36141.394382] AUTODETECT spr round 5 (radius: 25) [00:35:21 -33580.976016] SPR radius for FAST iterations: 25 (autodetect) [00:35:21 -33580.976016] Model parameter optimization (eps = 3.000000) [00:35:27 -33579.464305] FAST spr round 1 (radius: 25) [00:36:32 -27604.554773] FAST spr round 2 (radius: 25) [00:37:29 -27184.232452] FAST spr round 3 (radius: 25) [00:38:21 -27136.426779] FAST spr round 4 (radius: 25) [00:39:13 -27131.529531] FAST spr round 5 (radius: 25) [00:40:03 -27131.528584] Model parameter optimization (eps = 1.000000) [00:40:16 -27127.920346] SLOW spr round 1 (radius: 5) [00:41:13 -27123.617674] SLOW spr round 2 (radius: 5) [00:42:10 -27122.478503] SLOW spr round 3 (radius: 5) [00:43:06 -27121.929818] SLOW spr round 4 (radius: 5) [00:44:01 -27121.928757] SLOW spr round 5 (radius: 10) [00:45:03 -27118.065461] SLOW spr round 6 (radius: 5) [00:46:13 -27117.808363] SLOW spr round 7 (radius: 5) [00:47:16 -27117.808254] SLOW spr round 8 (radius: 10) [00:48:19 -27114.478595] SLOW spr round 9 (radius: 5) [00:49:28 -27114.478455] SLOW spr round 10 (radius: 10) [00:50:32 -27114.478431] SLOW spr round 11 (radius: 15) [00:51:55 -27114.478379] SLOW spr round 12 (radius: 20) [00:53:52 -27114.478379] SLOW spr round 13 (radius: 25) [00:56:16 -27114.478378] Model parameter optimization (eps = 0.100000) [00:56:24] [worker #0] ML tree search #3, logLikelihood: -27113.774989 [00:56:24 -146686.704315] Initial branch length optimization [00:56:26 -120675.152398] Model parameter optimization (eps = 10.000000) [00:56:49 -120434.215828] AUTODETECT spr round 1 (radius: 5) [00:57:57 -75903.415510] AUTODETECT spr round 2 (radius: 10) [00:59:09 -53376.057182] AUTODETECT spr round 3 (radius: 15) [01:00:26 -42652.315820] AUTODETECT spr round 4 (radius: 20) [01:01:48 -38721.512795] AUTODETECT spr round 5 (radius: 25) [01:01:56] [worker #1] ML tree search #4, logLikelihood: -27095.764710 [01:03:26 -34293.893312] SPR radius for FAST iterations: 25 (autodetect) [01:03:26 -34293.893312] Model parameter optimization (eps = 3.000000) [01:03:38 -34289.101228] FAST spr round 1 (radius: 25) [01:04:48 -27717.032898] FAST spr round 2 (radius: 25) [01:05:46 -27242.926151] FAST spr round 3 (radius: 25) [01:06:40 -27172.910604] FAST spr round 4 (radius: 25) [01:07:31 -27133.316855] FAST spr round 5 (radius: 25) [01:08:22 -27132.774107] FAST spr round 6 (radius: 25) [01:09:11 -27132.771603] Model parameter optimization (eps = 1.000000) [01:09:21 -27130.458781] SLOW spr round 1 (radius: 5) [01:10:17 -27120.593424] SLOW spr round 2 (radius: 5) [01:11:14 -27119.206862] SLOW spr round 3 (radius: 5) [01:12:09 -27118.389190] SLOW spr round 4 (radius: 5) [01:13:04 -27118.389142] SLOW spr round 5 (radius: 10) [01:14:04 -27112.382123] SLOW spr round 6 (radius: 5) [01:15:15 -27111.468311] SLOW spr round 7 (radius: 5) [01:16:19 -27111.468052] SLOW spr round 8 (radius: 10) [01:17:20 -27111.468046] SLOW spr round 9 (radius: 15) [01:18:45 -27109.331363] SLOW spr round 10 (radius: 5) [01:20:01 -27108.578717] SLOW spr round 11 (radius: 5) [01:21:06 -27108.529922] SLOW spr round 12 (radius: 10) [01:22:08 -27108.529576] SLOW spr round 13 (radius: 15) [01:23:31 -27108.529531] SLOW spr round 14 (radius: 20) [01:25:36 -27108.529525] SLOW spr round 15 (radius: 25) [01:28:08 -27108.529524] Model parameter optimization (eps = 0.100000) [01:28:13] [worker #0] ML tree search #5, logLikelihood: -27108.488972 [01:28:13 -147322.109580] Initial branch length optimization [01:28:15 -120384.489020] Model parameter optimization (eps = 10.000000) [01:28:38 -120092.330073] AUTODETECT spr round 1 (radius: 5) [01:29:45 -78160.584358] AUTODETECT spr round 2 (radius: 10) [01:31:01 -50869.473268] AUTODETECT spr round 3 (radius: 15) [01:32:06] [worker #1] ML tree search #6, logLikelihood: -27104.712989 [01:32:15 -40388.000830] AUTODETECT spr round 4 (radius: 20) [01:33:34 -34280.488894] AUTODETECT spr round 5 (radius: 25) [01:35:06 -32707.869781] SPR radius for FAST iterations: 25 (autodetect) [01:35:06 -32707.869781] Model parameter optimization (eps = 3.000000) [01:35:17 -32682.039905] FAST spr round 1 (radius: 25) [01:36:27 -27596.274506] FAST spr round 2 (radius: 25) [01:37:27 -27206.149323] FAST spr round 3 (radius: 25) [01:38:19 -27136.242817] FAST spr round 4 (radius: 25) [01:39:11 -27131.001849] FAST spr round 5 (radius: 25) [01:40:01 -27131.001746] Model parameter optimization (eps = 1.000000) [01:40:12 -27125.414227] SLOW spr round 1 (radius: 5) [01:41:09 -27116.761303] SLOW spr round 2 (radius: 5) [01:42:07 -27112.845286] SLOW spr round 3 (radius: 5) [01:43:02 -27112.845276] SLOW spr round 4 (radius: 10) [01:44:04 -27109.138656] SLOW spr round 5 (radius: 5) [01:45:14 -27108.863280] SLOW spr round 6 (radius: 5) [01:46:16 -27108.863280] SLOW spr round 7 (radius: 10) [01:47:18 -27108.863278] SLOW spr round 8 (radius: 15) [01:48:48 -27108.626767] SLOW spr round 9 (radius: 5) [01:50:03 -27108.626766] SLOW spr round 10 (radius: 10) [01:51:12 -27108.626764] SLOW spr round 11 (radius: 15) [01:52:39 -27108.626763] SLOW spr round 12 (radius: 20) [01:54:58 -27108.626763] SLOW spr round 13 (radius: 25) [01:57:43 -27108.626763] Model parameter optimization (eps = 0.100000) [01:57:47] [worker #0] ML tree search #7, logLikelihood: -27108.564862 [01:57:48 -146498.627639] Initial branch length optimization [01:57:50 -120724.177792] Model parameter optimization (eps = 10.000000) [01:58:14 -120408.105717] AUTODETECT spr round 1 (radius: 5) [01:59:21 -73827.413201] AUTODETECT spr round 2 (radius: 10) [02:00:30] [worker #1] ML tree search #8, logLikelihood: -27096.576561 [02:00:33 -50842.091071] AUTODETECT spr round 3 (radius: 15) [02:01:51 -41493.151342] AUTODETECT spr round 4 (radius: 20) [02:03:15 -35705.632769] AUTODETECT spr round 5 (radius: 25) [02:04:50 -33284.857747] SPR radius for FAST iterations: 25 (autodetect) [02:04:50 -33284.857747] Model parameter optimization (eps = 3.000000) [02:05:01 -33269.052529] FAST spr round 1 (radius: 25) [02:06:10 -27574.435667] FAST spr round 2 (radius: 25) [02:07:06 -27180.190745] FAST spr round 3 (radius: 25) [02:08:02 -27142.745010] FAST spr round 4 (radius: 25) [02:08:54 -27135.742158] FAST spr round 5 (radius: 25) [02:09:43 -27133.841206] FAST spr round 6 (radius: 25) [02:10:32 -27133.840474] Model parameter optimization (eps = 1.000000) [02:10:44 -27132.666768] SLOW spr round 1 (radius: 5) [02:11:41 -27121.264540] SLOW spr round 2 (radius: 5) [02:12:38 -27120.135533] SLOW spr round 3 (radius: 5) [02:13:35 -27119.465076] SLOW spr round 4 (radius: 5) [02:14:30 -27119.464538] SLOW spr round 5 (radius: 10) [02:15:32 -27113.604790] SLOW spr round 6 (radius: 5) [02:16:44 -27111.292069] SLOW spr round 7 (radius: 5) [02:17:48 -27108.933773] SLOW spr round 8 (radius: 5) [02:18:49 -27105.942034] SLOW spr round 9 (radius: 5) [02:19:45 -27105.940513] SLOW spr round 10 (radius: 10) [02:20:45 -27105.940445] SLOW spr round 11 (radius: 15) [02:22:10 -27101.897118] SLOW spr round 12 (radius: 5) [02:23:25 -27100.478209] SLOW spr round 13 (radius: 5) [02:24:30 -27100.056885] SLOW spr round 14 (radius: 5) [02:25:29 -27100.056884] SLOW spr round 15 (radius: 10) [02:26:30 -27100.056884] SLOW spr round 16 (radius: 15) [02:27:53 -27100.056884] SLOW spr round 17 (radius: 20) [02:29:52 -27100.056884] SLOW spr round 18 (radius: 25) [02:32:18 -27100.056884] Model parameter optimization (eps = 0.100000) [02:32:32] [worker #0] ML tree search #9, logLikelihood: -27098.385005 [02:32:32 -147393.882154] Initial branch length optimization [02:32:35 -121494.149622] Model parameter optimization (eps = 10.000000) [02:32:54 -121379.534864] AUTODETECT spr round 1 (radius: 5) [02:34:04 -76364.789413] AUTODETECT spr round 2 (radius: 10) [02:35:18 -53129.260771] AUTODETECT spr round 3 (radius: 15) [02:36:37 -41555.292422] AUTODETECT spr round 4 (radius: 20) [02:38:04 -37991.074894] AUTODETECT spr round 5 (radius: 25) [02:39:54 -34552.498737] SPR radius for FAST iterations: 25 (autodetect) [02:39:54 -34552.498737] Model parameter optimization (eps = 3.000000) [02:40:02 -34544.789882] FAST spr round 1 (radius: 25) [02:40:43] [worker #1] ML tree search #10, logLikelihood: -27108.391148 [02:41:13 -27888.450537] FAST spr round 2 (radius: 25) [02:42:12 -27498.528099] FAST spr round 3 (radius: 25) [02:43:06 -27454.961538] FAST spr round 4 (radius: 25) [02:44:01 -27193.082722] FAST spr round 5 (radius: 25) [02:44:54 -27148.335178] FAST spr round 6 (radius: 25) [02:45:44 -27139.564853] FAST spr round 7 (radius: 25) [02:46:33 -27137.790459] FAST spr round 8 (radius: 25) [02:47:22 -27136.191177] FAST spr round 9 (radius: 25) [02:48:10 -27136.189514] Model parameter optimization (eps = 1.000000) [02:48:19 -27133.402063] SLOW spr round 1 (radius: 5) [02:49:15 -27124.703435] SLOW spr round 2 (radius: 5) [02:50:12 -27120.826201] SLOW spr round 3 (radius: 5) [02:51:10 -27120.825894] SLOW spr round 4 (radius: 10) [02:52:14 -27117.500807] SLOW spr round 5 (radius: 5) [02:53:26 -27116.566125] SLOW spr round 6 (radius: 5) [02:54:31 -27116.565199] SLOW spr round 7 (radius: 10) [02:55:36 -27116.564907] SLOW spr round 8 (radius: 15) [02:57:01 -27116.349883] SLOW spr round 9 (radius: 5) [02:58:17 -27116.349393] SLOW spr round 10 (radius: 10) [02:59:26 -27116.349219] SLOW spr round 11 (radius: 15) [03:00:48 -27116.349092] SLOW spr round 12 (radius: 20) [03:02:49 -27116.348989] SLOW spr round 13 (radius: 25) [03:05:17 -27116.348905] Model parameter optimization (eps = 0.100000) [03:05:21] [worker #0] ML tree search #11, logLikelihood: -27116.316528 [03:05:21 -146145.117685] Initial branch length optimization [03:05:23 -119747.117455] Model parameter optimization (eps = 10.000000) [03:05:43 -119449.804473] AUTODETECT spr round 1 (radius: 5) [03:06:53 -76320.225065] AUTODETECT spr round 2 (radius: 10) [03:08:06 -55663.427994] AUTODETECT spr round 3 (radius: 15) [03:09:25 -40525.127144] AUTODETECT spr round 4 (radius: 20) [03:10:50 -34935.301851] AUTODETECT spr round 5 (radius: 25) [03:12:26 -33555.126840] SPR radius for FAST iterations: 25 (autodetect) [03:12:26 -33555.126840] Model parameter optimization (eps = 3.000000) [03:12:40 -33530.694607] FAST spr round 1 (radius: 25) [03:13:51 -27517.410230] FAST spr round 2 (radius: 25) [03:14:49 -27168.871346] FAST spr round 3 (radius: 25) [03:15:43 -27117.281966] FAST spr round 4 (radius: 25) [03:16:33 -27107.613860] FAST spr round 5 (radius: 25) [03:17:21 -27107.613723] Model parameter optimization (eps = 1.000000) [03:17:26 -27106.995315] SLOW spr round 1 (radius: 5) [03:18:23 -27097.475116] SLOW spr round 2 (radius: 5) [03:19:19 -27096.893816] SLOW spr round 3 (radius: 5) [03:20:16 -27096.893266] SLOW spr round 4 (radius: 10) [03:21:17 -27096.893243] SLOW spr round 5 (radius: 15) [03:22:45 -27096.893236] SLOW spr round 6 (radius: 20) [03:24:50 -27096.893235] SLOW spr round 7 (radius: 25) [03:26:35] [worker #1] ML tree search #12, logLikelihood: -27099.993410 [03:27:28 -27096.893235] Model parameter optimization (eps = 0.100000) [03:27:31] [worker #0] ML tree search #13, logLikelihood: -27096.868999 [03:27:31 -148345.404025] Initial branch length optimization [03:27:33 -121243.005739] Model parameter optimization (eps = 10.000000) [03:27:54 -120880.765341] AUTODETECT spr round 1 (radius: 5) [03:29:09 -75511.372585] AUTODETECT spr round 2 (radius: 10) [03:30:28 -54078.695836] AUTODETECT spr round 3 (radius: 15) [03:31:51 -44574.302678] AUTODETECT spr round 4 (radius: 20) [03:33:26 -36764.737965] AUTODETECT spr round 5 (radius: 25) [03:35:08 -33704.166979] SPR radius for FAST iterations: 25 (autodetect) [03:35:08 -33704.166979] Model parameter optimization (eps = 3.000000) [03:35:19 -33695.808406] FAST spr round 1 (radius: 25) [03:36:37 -27784.974776] FAST spr round 2 (radius: 25) [03:37:44 -27200.562184] FAST spr round 3 (radius: 25) [03:38:44 -27131.170547] FAST spr round 4 (radius: 25) [03:39:42 -27112.824392] FAST spr round 5 (radius: 25) [03:40:39 -27111.165893] FAST spr round 6 (radius: 25) [03:41:35 -27108.706591] FAST spr round 7 (radius: 25) [03:42:29 -27108.706277] Model parameter optimization (eps = 1.000000) [03:42:36 -27107.471663] SLOW spr round 1 (radius: 5) [03:43:38 -27100.987942] SLOW spr round 2 (radius: 5) [03:44:40 -27100.987447] SLOW spr round 3 (radius: 10) [03:45:47 -27098.478031] SLOW spr round 4 (radius: 5) [03:47:04 -27098.094353] SLOW spr round 5 (radius: 5) [03:48:15 -27097.316870] SLOW spr round 6 (radius: 5) [03:49:20 -27097.316855] SLOW spr round 7 (radius: 10) [03:50:27 -27095.645401] SLOW spr round 8 (radius: 5) [03:51:00] [worker #1] ML tree search #14, logLikelihood: -27097.690614 [03:51:43 -27095.645380] SLOW spr round 9 (radius: 10) [03:52:54 -27095.645369] SLOW spr round 10 (radius: 15) [03:54:24 -27095.645365] SLOW spr round 11 (radius: 20) [03:56:36 -27095.645365] SLOW spr round 12 (radius: 25) [03:59:18 -27095.645365] Model parameter optimization (eps = 0.100000) [03:59:22] [worker #0] ML tree search #15, logLikelihood: -27095.624338 [03:59:22 -146454.131606] Initial branch length optimization [03:59:24 -119967.320289] Model parameter optimization (eps = 10.000000) [03:59:49 -119657.805218] AUTODETECT spr round 1 (radius: 5) [04:01:03 -77693.939109] AUTODETECT spr round 2 (radius: 10) [04:02:21 -53419.002969] AUTODETECT spr round 3 (radius: 15) [04:03:41 -42269.518946] AUTODETECT spr round 4 (radius: 20) [04:05:08 -37004.577239] AUTODETECT spr round 5 (radius: 25) [04:06:47 -34706.078273] SPR radius for FAST iterations: 25 (autodetect) [04:06:47 -34706.078273] Model parameter optimization (eps = 3.000000) [04:06:57 -34704.562167] FAST spr round 1 (radius: 25) [04:08:08 -27755.810148] FAST spr round 2 (radius: 25) [04:09:09 -27230.397871] FAST spr round 3 (radius: 25) [04:10:07 -27146.999656] FAST spr round 4 (radius: 25) [04:11:05 -27137.368450] FAST spr round 5 (radius: 25) [04:12:00 -27135.758433] FAST spr round 6 (radius: 25) [04:12:54 -27135.757364] Model parameter optimization (eps = 1.000000) [04:13:07 -27130.167243] SLOW spr round 1 (radius: 5) [04:14:09 -27121.372485] SLOW spr round 2 (radius: 5) [04:15:11 -27119.207249] SLOW spr round 3 (radius: 5) [04:16:11 -27119.204097] SLOW spr round 4 (radius: 10) [04:17:18 -27118.161396] SLOW spr round 5 (radius: 5) [04:18:35 -27116.177938] SLOW spr round 6 (radius: 5) [04:19:43 -27116.177788] SLOW spr round 7 (radius: 10) [04:20:50 -27113.949580] SLOW spr round 8 (radius: 5) [04:22:06 -27108.141598] SLOW spr round 9 (radius: 5) [04:23:15 -27105.900992] SLOW spr round 10 (radius: 5) [04:24:21 -27101.583786] SLOW spr round 11 (radius: 5) [04:25:23 -27101.269163] SLOW spr round 12 (radius: 5) [04:26:23 -27101.268875] SLOW spr round 13 (radius: 10) [04:27:27 -27101.268801] SLOW spr round 14 (radius: 15) [04:28:57 -27101.268751] SLOW spr round 15 (radius: 20) [04:31:00 -27101.268726] SLOW spr round 16 (radius: 25) [04:33:33 -27101.268709] Model parameter optimization (eps = 0.100000) [04:33:38] [worker #0] ML tree search #17, logLikelihood: -27101.121289 [04:33:38 -145550.678626] Initial branch length optimization [04:33:40 -119072.920693] Model parameter optimization (eps = 10.000000) [04:34:04 -118814.827979] AUTODETECT spr round 1 (radius: 5) [04:35:18 -75317.141856] AUTODETECT spr round 2 (radius: 10) [04:36:37 -50029.566416] AUTODETECT spr round 3 (radius: 15) [04:37:57 -41734.528507] AUTODETECT spr round 4 (radius: 20) [04:39:27 -37552.093122] AUTODETECT spr round 5 (radius: 25) [04:41:23 -34060.009266] SPR radius for FAST iterations: 25 (autodetect) [04:41:23 -34060.009266] Model parameter optimization (eps = 3.000000) [04:41:36 -34034.197773] FAST spr round 1 (radius: 25) [04:42:48 -27833.229657] FAST spr round 2 (radius: 25) [04:43:34] [worker #1] ML tree search #16, logLikelihood: -27097.390966 [04:43:49 -27227.480929] FAST spr round 3 (radius: 25) [04:44:46 -27149.614249] FAST spr round 4 (radius: 25) [04:45:41 -27149.613842] Model parameter optimization (eps = 1.000000) [04:45:50 -27146.454976] SLOW spr round 1 (radius: 5) [04:46:52 -27137.240406] SLOW spr round 2 (radius: 5) [04:47:55 -27136.011082] SLOW spr round 3 (radius: 5) [04:48:54 -27136.010137] SLOW spr round 4 (radius: 10) [04:50:00 -27129.593194] SLOW spr round 5 (radius: 5) [04:51:18 -27125.503665] SLOW spr round 6 (radius: 5) [04:52:26 -27125.503647] SLOW spr round 7 (radius: 10) [04:53:33 -27125.347802] SLOW spr round 8 (radius: 5) [04:54:47 -27125.347777] SLOW spr round 9 (radius: 10) [04:55:57 -27125.347776] SLOW spr round 10 (radius: 15) [04:57:28 -27125.347776] SLOW spr round 11 (radius: 20) [04:59:49 -27125.347776] SLOW spr round 12 (radius: 25) [05:02:48 -27125.347776] Model parameter optimization (eps = 0.100000) [05:02:59] [worker #0] ML tree search #19, logLikelihood: -27122.500895 [05:17:41] [worker #1] ML tree search #18, logLikelihood: -27101.747911 [05:58:45] [worker #1] ML tree search #20, logLikelihood: -27120.001256 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.110044,0.251910) (0.420799,0.543270) (0.337208,1.178342) (0.131949,2.624686) 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: -27095.624338 AIC score: 57645.248676 / AICc score: 6026157.248676 / BIC score: 61981.503044 Free parameters (model + branch lengths): 1727 WARNING: Number of free parameters (K=1727) is larger than alignment size (n=91). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 321 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/3_mltree/P0C264.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/3_mltree/P0C264.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/3_mltree/P0C264.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/3_mltree/P0C264.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P0C264/3_mltree/P0C264.raxml.log Analysis started: 03-Jul-2021 03:13:57 / finished: 03-Jul-2021 09:12:42 Elapsed time: 21525.468 seconds Consumed energy: 1315.226 Wh (= 7 km in an electric car, or 33 km with an e-scooter!)