RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6258R CPU @ 2.70GHz, 56 cores, 187 GB RAM RAxML-NG was called at 04-Jun-2021 17:15:01 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/2_msa/P29597_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/3_mltree/P29597 --seed 2 --threads 5 --tree rand{20} pars{20} Analysis options: run mode: ML tree search start tree(s): random (20) random seed: 2 tip-inner: OFF pattern compression: ON per-rate scalers: OFF site repeats: ON fast spr radius: AUTO spr subtree cutoff: 1.000000 branch lengths: proportional (ML estimate, algorithm: NR-FAST) SIMD kernels: AVX2 parallelization: coarse-grained (auto), PTHREADS (5 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/2_msa/P29597_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 271 sites WARNING: Sequences tr_F1NMJ9_F1NMJ9_CHICK_9031 and tr_A0A226PRN9_A0A226PRN9_COLVI_9014 are exactly identical! WARNING: Sequences tr_F1NQU4_F1NQU4_CHICK_9031 and sp_Q75R65_JAK2_CHICK_9031 are exactly identical! WARNING: Sequences tr_F1NQU4_F1NQU4_CHICK_9031 and tr_U3K7L6_U3K7L6_FICAL_59894 are exactly identical! WARNING: Sequences tr_F1NQU4_F1NQU4_CHICK_9031 and tr_A0A091EJU9_A0A091EJU9_CORBR_85066 are exactly identical! WARNING: Sequences tr_F1NQU4_F1NQU4_CHICK_9031 and tr_A0A093PY01_A0A093PY01_9PASS_328815 are exactly identical! WARNING: Sequences tr_Q5ZMB9_Q5ZMB9_CHICK_9031 and tr_A0A226NGR7_A0A226NGR7_CALSU_9009 are exactly identical! WARNING: Sequences tr_Q5ZMB9_Q5ZMB9_CHICK_9031 and tr_A0A226NY66_A0A226NY66_COLVI_9014 are exactly identical! WARNING: Sequences sp_Q91044_NTRK3_CHICK_9031 and tr_A0A1V4JEG2_A0A1V4JEG2_PATFA_372326 are exactly identical! WARNING: Sequences sp_Q91044_NTRK3_CHICK_9031 and tr_A0A218UPU0_A0A218UPU0_9PASE_299123 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_K7F6R3_K7F6R3_PELSI_13735 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_U3IR79_U3IR79_ANAPL_8839 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_A0A091IVP5_A0A091IVP5_EGRGA_188379 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_A0A087QHE2_A0A087QHE2_APTFO_9233 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_A0A093GX78_A0A093GX78_STRCA_441894 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_A0A099ZDJ5_A0A099ZDJ5_TINGU_94827 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_A0A2I0MFS4_A0A2I0MFS4_COLLI_8932 are exactly identical! WARNING: Sequences sp_Q91987_NTRK2_CHICK_9031 and tr_A0A1V4KD70_A0A1V4KD70_PATFA_372326 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_F1PQ05_F1PQ05_CANLF_9615 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_F6T440_F6T440_HORSE_9796 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_W5QD60_W5QD60_SHEEP_9940 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_F1SSQ9_F1SSQ9_PIG_9823 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_A0A337S8Z7_A0A337S8Z7_FELCA_9685 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_A0A1S3ERE6_A0A1S3ERE6_DIPOR_10020 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_A0A1U7T888_A0A1U7T888_TARSY_1868482 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_A0A1U7QBV4_A0A1U7QBV4_MESAU_10036 are exactly identical! WARNING: Sequences sp_Q61527_ERBB4_MOUSE_10090 and tr_A0A2Y9MQV3_A0A2Y9MQV3_DELLE_9749 are exactly identical! WARNING: Sequences sp_Q6VNS1_NTRK3_MOUSE_10090 and tr_A0A1U7QFB5_A0A1U7QFB5_MESAU_10036 are exactly identical! WARNING: Sequences tr_G9K914_G9K914_MUSPF_9669 and tr_G1L4Q2_G1L4Q2_AILME_9646 are exactly identical! WARNING: Sequences tr_G9K914_G9K914_MUSPF_9669 and tr_A0A2U3WXZ8_A0A2U3WXZ8_ODORO_9708 are exactly identical! WARNING: Sequences tr_G9K914_G9K914_MUSPF_9669 and tr_A0A2Y9KDK4_A0A2Y9KDK4_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3XNR7_M3XNR7_MUSPF_9669 and tr_G1M9G8_G1M9G8_AILME_9646 are exactly identical! WARNING: Sequences tr_M3XNR7_M3XNR7_MUSPF_9669 and tr_A0A2Y9ITG3_A0A2Y9ITG3_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3XNR7_M3XNR7_MUSPF_9669 and tr_A0A384C3J0_A0A384C3J0_URSMA_29073 are exactly identical! WARNING: Sequences tr_M3Y0T4_M3Y0T4_MUSPF_9669 and tr_E2RPW6_E2RPW6_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3Y0T4_M3Y0T4_MUSPF_9669 and tr_D2HMR9_D2HMR9_AILME_9646 are exactly identical! WARNING: Sequences tr_M3Y0T4_M3Y0T4_MUSPF_9669 and tr_A0A337SUR0_A0A337SUR0_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3Y0T4_M3Y0T4_MUSPF_9669 and tr_A0A2U3WH50_A0A2U3WH50_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3Y0T4_M3Y0T4_MUSPF_9669 and tr_A0A2U3Y110_A0A2U3Y110_LEPWE_9713 are exactly identical! WARNING: Sequences tr_M3Y0T4_M3Y0T4_MUSPF_9669 and tr_A0A384C412_A0A384C412_URSMA_29073 are exactly identical! WARNING: Sequences tr_G1QKJ0_G1QKJ0_NOMLE_61853 and tr_F7BV42_F7BV42_MACMU_9544 are exactly identical! WARNING: Sequences tr_G1QKJ0_G1QKJ0_NOMLE_61853 and tr_G7PBV3_G7PBV3_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1QKJ0_G1QKJ0_NOMLE_61853 and tr_A0A096MX07_A0A096MX07_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1QKJ0_G1QKJ0_NOMLE_61853 and tr_A0A0D9RQ35_A0A0D9RQ35_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1QKJ0_G1QKJ0_NOMLE_61853 and tr_A0A2K6DNJ8_A0A2K6DNJ8_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_G3REH2_G3REH2_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_H2PSJ2_H2PSJ2_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_A0A2J8MRU2_A0A2J8MRU2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and sp_Q16620_NTRK2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_F7DGW1_F7DGW1_MACMU_9544 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_F6T4E4_F6T4E4_CALJA_9483 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_G7PSM1_G7PSM1_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_A0A2I3MH64_A0A2I3MH64_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_A0A1S3GCJ1_A0A1S3GCJ1_DIPOR_10020 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_A0A2K5NCA1_A0A2K5NCA1_CERAT_9531 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_A0A2K6BIB6_A0A2K6BIB6_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1QU92_G1QU92_NOMLE_61853 and tr_A0A2R9BIL6_A0A2R9BIL6_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1RCI3_G1RCI3_NOMLE_61853 and tr_H2PS83_H2PS83_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1RCI3_G1RCI3_NOMLE_61853 and sp_Q5RB23_JAK2_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_E2RKA1_E2RKA1_CANLF_9615 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_F6QQD0_F6QQD0_HORSE_9796 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_I3LTV7_I3LTV7_PIG_9823 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_G1LBG1_G1LBG1_AILME_9646 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_M3WAS3_M3WAS3_FELCA_9685 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_A0A1S3ADJ0_A0A1S3ADJ0_ERIEU_9365 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_A0A2U4BS11_A0A2U4BS11_TURTR_9739 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_A0A2U3WG37_A0A2U3WG37_ODORO_9708 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_A0A2Y9KA38_A0A2Y9KA38_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_A0A2Y9MAX3_A0A2Y9MAX3_DELLE_9749 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_A0A2Y9TCL8_A0A2Y9TCL8_PHYCD_9755 are exactly identical! WARNING: Sequences tr_G1PVC8_G1PVC8_MYOLU_59463 and tr_A0A383ZPG7_A0A383ZPG7_BALAS_310752 are exactly identical! WARNING: Sequences tr_G3GSM6_G3GSM6_CRIGR_10029 and tr_A0A3Q0CSY6_A0A3Q0CSY6_MESAU_10036 are exactly identical! WARNING: Sequences tr_G3HY52_G3HY52_CRIGR_10029 and tr_A0A1U7R5X2_A0A1U7R5X2_MESAU_10036 are exactly identical! WARNING: Sequences tr_G3QSH5_G3QSH5_GORGO_9595 and tr_A0A2J8LTH4_A0A2J8LTH4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QSH5_G3QSH5_GORGO_9595 and sp_P52333_JAK3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_A0A2I3TMU8_A0A2I3TMU8_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_A0A287CZE4_A0A287CZE4_ICTTR_43179 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_H0X1B9_H0X1B9_OTOGA_30611 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and sp_Q07912_ACK1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_F6SXS7_F6SXS7_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_G7NZ43_G7NZ43_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_A0A0D9R851_A0A0D9R851_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_A0A3Q0DT52_A0A3Q0DT52_TARSY_1868482 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_A0A2K5P604_A0A2K5P604_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3R096_G3R096_GORGO_9595 and tr_A0A2K6DLP3_A0A2K6DLP3_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3R9U2_G3R9U2_GORGO_9595 and tr_H2PQC0_H2PQC0_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3R9U2_G3R9U2_GORGO_9595 and tr_H2R453_H2R453_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R9U2_G3R9U2_GORGO_9595 and sp_P07948_LYN_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R9U2_G3R9U2_GORGO_9595 and tr_A0A2R9AHH9_A0A2R9AHH9_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3RFH4_G3RFH4_GORGO_9595 and tr_A0A2J8JQU4_A0A2J8JQU4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RFH4_G3RFH4_GORGO_9595 and sp_P42679_MATK_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RFH4_G3RFH4_GORGO_9595 and tr_A0A2R8ZAP1_A0A2R8ZAP1_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3RK14_G3RK14_GORGO_9595 and tr_H2N755_H2N755_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3RK14_G3RK14_GORGO_9595 and tr_H2PZ66_H2PZ66_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RK14_G3RK14_GORGO_9595 and sp_P23458_JAK1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RK14_G3RK14_GORGO_9595 and tr_A0A2R8ZF74_A0A2R8ZF74_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1N747_G1N747_MELGA_9103 and tr_A0A226MPW5_A0A226MPW5_CALSU_9009 are exactly identical! WARNING: Sequences tr_G1SIY6_G1SIY6_RABIT_9986 and tr_E2RBB8_E2RBB8_CANLF_9615 are exactly identical! WARNING: Sequences tr_G1SIY6_G1SIY6_RABIT_9986 and tr_W5PZG6_W5PZG6_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G1SIY6_G1SIY6_RABIT_9986 and tr_A0A287D7G8_A0A287D7G8_ICTTR_43179 are exactly identical! WARNING: Sequences tr_G1SIY6_G1SIY6_RABIT_9986 and tr_F1N261_F1N261_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G1SIY6_G1SIY6_RABIT_9986 and tr_M3WF65_M3WF65_FELCA_9685 are exactly identical! WARNING: Sequences tr_G1SIY6_G1SIY6_RABIT_9986 and tr_A0A1S3A9J6_A0A1S3A9J6_ERIEU_9365 are exactly identical! WARNING: Sequences tr_E2RFP7_E2RFP7_CANLF_9615 and tr_A0A2U3VBQ4_A0A2U3VBQ4_ODORO_9708 are exactly identical! WARNING: Sequences tr_A0A2I3SYV7_A0A2I3SYV7_PANTR_9598 and tr_A0A2R8ZP32_A0A2R8ZP32_PANPA_9597 are exactly identical! WARNING: Sequences tr_F6WH53_F6WH53_MONDO_13616 and tr_G3WQ34_G3WQ34_SARHA_9305 are exactly identical! WARNING: Sequences tr_H9H626_H9H626_MONDO_13616 and tr_A0A2U3Z702_A0A2U3Z702_LEPWE_9713 are exactly identical! WARNING: Sequences tr_F6QD54_F6QD54_HORSE_9796 and tr_H0Y0E3_H0Y0E3_OTOGA_30611 are exactly identical! WARNING: Sequences tr_F6QD54_F6QD54_HORSE_9796 and tr_G3TER2_G3TER2_LOXAF_9785 are exactly identical! WARNING: Sequences tr_F6QD54_F6QD54_HORSE_9796 and tr_A0A2U4C7U7_A0A2U4C7U7_TURTR_9739 are exactly identical! WARNING: Sequences tr_F6QD54_F6QD54_HORSE_9796 and tr_A0A384B469_A0A384B469_BALAS_310752 are exactly identical! WARNING: Sequences tr_W5PGI4_W5PGI4_SHEEP_9940 and tr_E1BCQ4_E1BCQ4_BOVIN_9913 are exactly identical! WARNING: Sequences tr_W5PVH1_W5PVH1_SHEEP_9940 and tr_E1BCP6_E1BCP6_BOVIN_9913 are exactly identical! WARNING: Sequences tr_W5QGF3_W5QGF3_SHEEP_9940 and tr_F1MSL0_F1MSL0_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A3B5QZY9_A0A3B5QZY9_XIPMA_8083 and tr_A0A087YHL0_A0A087YHL0_POEFO_48698 are exactly identical! WARNING: Sequences tr_H0WTI9_H0WTI9_OTOGA_30611 and tr_G3SZM0_G3SZM0_LOXAF_9785 are exactly identical! WARNING: Sequences tr_H0WTI9_H0WTI9_OTOGA_30611 and tr_A0A2Y9FY81_A0A2Y9FY81_TRIMA_127582 are exactly identical! WARNING: Sequences sp_Q14289_FAK2_HUMAN_9606 and tr_A0A2R9BL74_A0A2R9BL74_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A0K0J668_A0A0K0J668_BRUMA_6279 and tr_A0A0R3QQM9_A0A0R3QQM9_9BILA_42155 are exactly identical! WARNING: Sequences tr_F6YLX1_F6YLX1_MACMU_9544 and tr_G7NW22_G7NW22_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6YLX1_F6YLX1_MACMU_9544 and tr_A0A2I3LGP0_A0A2I3LGP0_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F6YLX1_F6YLX1_MACMU_9544 and tr_A0A0D9S727_A0A0D9S727_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F6YLX1_F6YLX1_MACMU_9544 and tr_A0A2K5NHQ0_A0A2K5NHQ0_CERAT_9531 are exactly identical! WARNING: Sequences tr_F6YLX1_F6YLX1_MACMU_9544 and tr_A0A2K6ARR6_A0A2K6ARR6_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6YLX1_F6YLX1_MACMU_9544 and tr_A0A2K5ZKJ8_A0A2K5ZKJ8_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7GT47_F7GT47_MACMU_9544 and tr_A0A0D9R8Z9_A0A0D9R8Z9_CHLSB_60711 are exactly identical! WARNING: Sequences tr_H0YQ82_H0YQ82_TAEGU_59729 and tr_A0A218UQF1_A0A218UQF1_9PASE_299123 are exactly identical! WARNING: Sequences tr_H0YY17_H0YY17_TAEGU_59729 and tr_U3KDA7_U3KDA7_FICAL_59894 are exactly identical! WARNING: Sequences tr_H0YY17_H0YY17_TAEGU_59729 and tr_A0A091F0K8_A0A091F0K8_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0YY17_H0YY17_TAEGU_59729 and tr_A0A093PJF5_A0A093PJF5_9PASS_328815 are exactly identical! WARNING: Sequences tr_H0Z3Y5_H0Z3Y5_TAEGU_59729 and tr_A0A218VAM0_A0A218VAM0_9PASE_299123 are exactly identical! WARNING: Sequences tr_H0ZLG0_H0ZLG0_TAEGU_59729 and tr_A0A091EDF2_A0A091EDF2_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0ZLG0_H0ZLG0_TAEGU_59729 and tr_A0A091IMK1_A0A091IMK1_EGRGA_188379 are exactly identical! WARNING: Sequences tr_H0ZLG0_H0ZLG0_TAEGU_59729 and tr_A0A091VSQ5_A0A091VSQ5_NIPNI_128390 are exactly identical! WARNING: Sequences tr_H0ZLG0_H0ZLG0_TAEGU_59729 and tr_A0A087QKG2_A0A087QKG2_APTFO_9233 are exactly identical! WARNING: Sequences tr_H0ZLG0_H0ZLG0_TAEGU_59729 and tr_A0A091WCC3_A0A091WCC3_OPIHO_30419 are exactly identical! WARNING: Sequences tr_H0ZLG0_H0ZLG0_TAEGU_59729 and tr_A0A0A0AZZ7_A0A0A0AZZ7_CHAVO_50402 are exactly identical! WARNING: Sequences tr_H0ZLG0_H0ZLG0_TAEGU_59729 and tr_A0A218VBI1_A0A218VBI1_9PASE_299123 are exactly identical! WARNING: Sequences tr_G7PZ76_G7PZ76_MACFA_9541 and tr_A0A2K6D4H6_A0A2K6D4H6_MACNE_9545 are exactly identical! WARNING: Sequences tr_G7PZ76_G7PZ76_MACFA_9541 and tr_A0A2K5XZM0_A0A2K5XZM0_MANLE_9568 are exactly identical! WARNING: Sequences tr_F1N6J0_F1N6J0_BOVIN_9913 and tr_A0A091DR13_A0A091DR13_FUKDA_885580 are exactly identical! WARNING: Sequences tr_L5L1T1_L5L1T1_PTEAL_9402 and tr_A0A2I2UU89_A0A2I2UU89_FELCA_9685 are exactly identical! WARNING: Sequences tr_L5L1T1_L5L1T1_PTEAL_9402 and tr_A0A2Y9MXZ0_A0A2Y9MXZ0_DELLE_9749 are exactly identical! WARNING: Sequences tr_L5L1T1_L5L1T1_PTEAL_9402 and tr_A0A2Y9EYP9_A0A2Y9EYP9_PHYCD_9755 are exactly identical! WARNING: Sequences tr_L5L1T1_L5L1T1_PTEAL_9402 and tr_A0A383Z9E1_A0A383Z9E1_BALAS_310752 are exactly identical! WARNING: Sequences tr_U3K8U1_U3K8U1_FICAL_59894 and tr_A0A218UB11_A0A218UB11_9PASE_299123 are exactly identical! WARNING: Sequences tr_U3KEW3_U3KEW3_FICAL_59894 and tr_A0A091UJ37_A0A091UJ37_NIPNI_128390 are exactly identical! WARNING: Sequences tr_U3KEW3_U3KEW3_FICAL_59894 and tr_A0A2I0MIN8_A0A2I0MIN8_COLLI_8932 are exactly identical! WARNING: Sequences tr_U3IEV3_U3IEV3_ANAPL_8839 and tr_A0A091FK40_A0A091FK40_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A0A0MVD8_A0A0A0MVD8_PAPAN_9555 and tr_A0A2K5L3H2_A0A2K5L3H2_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A0A0MVD8_A0A0A0MVD8_PAPAN_9555 and tr_A0A2K5YYN4_A0A2K5YYN4_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A151N0Y0_A0A151N0Y0_ALLMI_8496 and tr_A0A1U8D4W6_A0A1U8D4W6_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A151NJE5_A0A151NJE5_ALLMI_8496 and tr_A0A1U7RXD8_A0A1U7RXD8_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A151NWA6_A0A151NWA6_ALLMI_8496 and tr_A0A3Q0FMM4_A0A3Q0FMM4_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A091IV20_A0A091IV20_EGRGA_188379 and tr_A0A093HE63_A0A093HE63_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091IV20_A0A091IV20_EGRGA_188379 and tr_A0A091XF04_A0A091XF04_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A091IV20_A0A091IV20_EGRGA_188379 and tr_A0A099ZDF1_A0A099ZDF1_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A091IV20_A0A091IV20_EGRGA_188379 and tr_A0A226PM45_A0A226PM45_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A091W9L5_A0A091W9L5_OPIHO_30419 and tr_A0A091GRI4_A0A091GRI4_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A2I0M6D0_A0A2I0M6D0_COLLI_8932 and tr_A0A1V4J5M0_A0A1V4J5M0_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A2I0M6K5_A0A2I0M6K5_COLLI_8932 and tr_A0A1V4JCZ7_A0A1V4JCZ7_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A2I0MVY9_A0A2I0MVY9_COLLI_8932 and tr_A0A1V4KGA9_A0A1V4KGA9_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A093J4U8_A0A093J4U8_DRYPU_118200 and tr_A0A091ID17_A0A091ID17_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A0V1CPJ3_A0A0V1CPJ3_TRIBR_45882 and tr_A0A0V0UXY2_A0A0V0UXY2_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V1CPJ3_A0A0V1CPJ3_TRIBR_45882 and tr_A0A0V1A3N2_A0A0V1A3N2_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A1S3ICI8_A0A1S3ICI8_LINUN_7574 and tr_A0A1S3IDL8_A0A1S3IDL8_LINUN_7574 are exactly identical! WARNING: Sequences tr_A0A1S3MBP8_A0A1S3MBP8_SALSA_8030 and tr_C0HA59_C0HA59_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A226MU43_A0A226MU43_CALSU_9009 and tr_A0A226PI71_A0A226PI71_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A226N071_A0A226N071_CALSU_9009 and tr_A0A226PFV9_A0A226PFV9_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2D0SR82_A0A2D0SR82_ICTPU_7998 and tr_A0A2D0SSC0_A0A2D0SSC0_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T7X8_A0A2D0T7X8_ICTPU_7998 and tr_A0A2D0T7Y0_A0A2D0T7Y0_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T7X8_A0A2D0T7X8_ICTPU_7998 and tr_A0A2D0T813_A0A2D0T813_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T7X8_A0A2D0T7X8_ICTPU_7998 and tr_A0A2D0T8L0_A0A2D0T8L0_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2K5L5N3_A0A2K5L5N3_CERAT_9531 and tr_A0A2K6BRT5_A0A2K6BRT5_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2U4AJ04_A0A2U4AJ04_TURTR_9739 and tr_A0A2Y9LZZ2_A0A2Y9LZZ2_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U3XR92_A0A2U3XR92_LEPWE_9713 and tr_A0A384BU71_A0A384BU71_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A2U3XR92_A0A2U3XR92_LEPWE_9713 and tr_A0A384AKS3_A0A384AKS3_BALAS_310752 are exactly identical! WARNING: Sequences tr_A0A2Y9M4G7_A0A2Y9M4G7_DELLE_9749 and tr_A0A2Y9F7X6_A0A2Y9F7X6_PHYCD_9755 are exactly identical! WARNING: Duplicate sequences found: 177 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/3_mltree/P29597.raxml.reduced.phy Alignment comprises 1 partitions and 271 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 271 / 271 Gaps: 4.94 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/3_mltree/P29597.raxml.rba Parallelization scheme autoconfig: 5 worker(s) x 1 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 1001 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 271 / 21680 [00:00:00] Data distribution: max. searches per worker: 4 Starting ML tree search with 20 distinct starting trees [00:00:00 -469676.497373] Initial branch length optimization [00:00:07 -385943.926539] Model parameter optimization (eps = 10.000000) [00:01:00 -384990.196418] AUTODETECT spr round 1 (radius: 5) [00:04:59 -231896.176668] AUTODETECT spr round 2 (radius: 10) [00:09:11 -160550.569439] AUTODETECT spr round 3 (radius: 15) [00:13:38 -117142.111138] AUTODETECT spr round 4 (radius: 20) [00:18:37 -103186.832935] AUTODETECT spr round 5 (radius: 25) [00:26:21 -97003.226993] SPR radius for FAST iterations: 25 (autodetect) [00:26:21 -97003.226993] Model parameter optimization (eps = 3.000000) [00:26:52 -96940.380973] FAST spr round 1 (radius: 25) [00:30:46 -83229.744199] FAST spr round 2 (radius: 25) [00:33:38 -82607.575441] FAST spr round 3 (radius: 25) [00:36:18 -82464.567608] FAST spr round 4 (radius: 25) [00:38:50 -82463.573996] FAST spr round 5 (radius: 25) [00:41:16 -82463.416452] FAST spr round 6 (radius: 25) [00:43:29 -82463.416107] Model parameter optimization (eps = 1.000000) [00:44:05 -82444.152053] SLOW spr round 1 (radius: 5) [00:46:59 -82429.892306] SLOW spr round 2 (radius: 5) [00:49:52 -82426.536135] SLOW spr round 3 (radius: 5) [00:52:46 -82425.977917] SLOW spr round 4 (radius: 5) [00:55:38 -82424.217319] SLOW spr round 5 (radius: 5) [00:58:26 -82423.543155] SLOW spr round 6 (radius: 5) [01:01:11 -82423.543071] SLOW spr round 7 (radius: 10) [01:04:10 -82422.386633] SLOW spr round 8 (radius: 5) [01:07:50 -82422.385926] SLOW spr round 9 (radius: 10) [01:11:10 -82422.385752] SLOW spr round 10 (radius: 15) [01:15:42 -82422.385646] SLOW spr round 11 (radius: 20) [01:25:04 -82422.385577] SLOW spr round 12 (radius: 25) [01:27:49] [worker #3] ML tree search #4, logLikelihood: -82422.687226 [01:31:34] [worker #2] ML tree search #3, logLikelihood: -82416.613768 [01:38:02 -82422.385527] Model parameter optimization (eps = 0.100000) [01:38:19] [worker #0] ML tree search #1, logLikelihood: -82420.975810 [01:38:19 -469420.985829] Initial branch length optimization [01:38:27 -389409.329086] Model parameter optimization (eps = 10.000000) [01:39:00] [worker #1] ML tree search #2, logLikelihood: -82429.372554 [01:39:37 -388701.615649] AUTODETECT spr round 1 (radius: 5) [01:41:07] [worker #4] ML tree search #5, logLikelihood: -82461.080654 [01:43:41 -234825.168053] AUTODETECT spr round 2 (radius: 10) [01:47:54 -166090.176189] AUTODETECT spr round 3 (radius: 15) [01:52:09 -138149.970439] AUTODETECT spr round 4 (radius: 20) [01:57:05 -113154.108470] AUTODETECT spr round 5 (radius: 25) [02:02:45 -100842.769391] SPR radius for FAST iterations: 25 (autodetect) [02:02:45 -100842.769391] Model parameter optimization (eps = 3.000000) [02:03:12 -100751.756771] FAST spr round 1 (radius: 25) [02:07:17 -83809.237114] FAST spr round 2 (radius: 25) [02:10:19 -82572.520058] FAST spr round 3 (radius: 25) [02:12:52 -82514.481275] FAST spr round 4 (radius: 25) [02:15:18 -82477.083865] FAST spr round 5 (radius: 25) [02:17:34 -82475.369373] FAST spr round 6 (radius: 25) [02:19:44 -82475.368691] Model parameter optimization (eps = 1.000000) [02:20:01 -82474.257127] SLOW spr round 1 (radius: 5) [02:23:04 -82456.493597] SLOW spr round 2 (radius: 5) [02:25:59 -82451.020143] SLOW spr round 3 (radius: 5) [02:28:45 -82451.020016] SLOW spr round 4 (radius: 10) [02:31:40 -82451.019869] SLOW spr round 5 (radius: 15) [02:36:31 -82450.824365] SLOW spr round 6 (radius: 5) [02:40:29 -82450.824242] SLOW spr round 7 (radius: 10) [02:43:58 -82450.824123] SLOW spr round 8 (radius: 15) [02:48:33 -82450.824003] SLOW spr round 9 (radius: 20) [02:57:17 -82450.823884] SLOW spr round 10 (radius: 25) [02:57:43] [worker #3] ML tree search #9, logLikelihood: -82417.774806 [03:08:46] [worker #2] ML tree search #8, logLikelihood: -82455.053556 [03:08:51 -82450.823766] Model parameter optimization (eps = 0.100000) [03:09:05] [worker #0] ML tree search #6, logLikelihood: -82450.688044 [03:09:05 -470126.085543] Initial branch length optimization [03:09:14 -389285.464882] Model parameter optimization (eps = 10.000000) [03:10:05 -388598.421494] AUTODETECT spr round 1 (radius: 5) [03:14:05 -226954.641745] AUTODETECT spr round 2 (radius: 10) [03:15:16] [worker #4] ML tree search #10, logLikelihood: -82478.368479 [03:18:25 -156244.493484] AUTODETECT spr round 3 (radius: 15) [03:22:34 -123019.374241] AUTODETECT spr round 4 (radius: 20) [03:27:20 -107226.568857] AUTODETECT spr round 5 (radius: 25) [03:28:29] [worker #1] ML tree search #7, logLikelihood: -82438.750520 [03:32:58 -100099.960677] SPR radius for FAST iterations: 25 (autodetect) [03:32:58 -100099.960677] Model parameter optimization (eps = 3.000000) [03:33:26 -99967.037601] FAST spr round 1 (radius: 25) [03:37:12 -83436.532798] FAST spr round 2 (radius: 25) [03:40:09 -82633.279551] FAST spr round 3 (radius: 25) [03:42:41 -82499.869130] FAST spr round 4 (radius: 25) [03:45:00 -82488.646089] FAST spr round 5 (radius: 25) [03:47:15 -82488.645181] Model parameter optimization (eps = 1.000000) [03:47:31 -82487.283660] SLOW spr round 1 (radius: 5) [03:50:31 -82473.636999] SLOW spr round 2 (radius: 5) [03:53:29 -82466.748800] SLOW spr round 3 (radius: 5) [03:56:14 -82466.748613] SLOW spr round 4 (radius: 10) [03:59:19 -82461.811220] SLOW spr round 5 (radius: 5) [04:03:04 -82458.810765] SLOW spr round 6 (radius: 5) [04:06:16 -82458.810313] SLOW spr round 7 (radius: 10) [04:09:23 -82458.521650] SLOW spr round 8 (radius: 5) [04:12:55 -82458.521246] SLOW spr round 9 (radius: 10) [04:16:18 -82458.521084] SLOW spr round 10 (radius: 15) [04:21:03 -82458.520923] SLOW spr round 11 (radius: 20) [04:30:32 -82458.520762] SLOW spr round 12 (radius: 25) [04:30:36] [worker #3] ML tree search #14, logLikelihood: -82425.612424 [04:43:21 -82458.520601] Model parameter optimization (eps = 0.100000) [04:43:34] [worker #0] ML tree search #11, logLikelihood: -82458.411995 [04:43:34 -472339.750818] Initial branch length optimization [04:43:40 -391457.720235] Model parameter optimization (eps = 10.000000) [04:44:36 -390694.372471] AUTODETECT spr round 1 (radius: 5) [04:48:28 -236380.698657] AUTODETECT spr round 2 (radius: 10) [04:49:25] [worker #4] ML tree search #15, logLikelihood: -82468.135613 [04:52:44 -165582.715262] AUTODETECT spr round 3 (radius: 15) [04:56:59 -127044.814527] AUTODETECT spr round 4 (radius: 20) [04:57:21] [worker #2] ML tree search #13, logLikelihood: -82416.832601 [05:00:30] [worker #1] ML tree search #12, logLikelihood: -82441.761567 [05:02:40 -99333.004318] AUTODETECT spr round 5 (radius: 25) [05:08:04 -95760.560443] SPR radius for FAST iterations: 25 (autodetect) [05:08:04 -95760.560443] Model parameter optimization (eps = 3.000000) [05:08:35 -95636.703240] FAST spr round 1 (radius: 25) [05:12:26 -83223.650585] FAST spr round 2 (radius: 25) [05:15:14 -82601.089233] FAST spr round 3 (radius: 25) [05:17:50 -82529.523756] FAST spr round 4 (radius: 25) [05:20:17 -82513.092214] FAST spr round 5 (radius: 25) [05:22:34 -82508.225519] FAST spr round 6 (radius: 25) [05:24:44 -82507.224351] FAST spr round 7 (radius: 25) [05:26:53 -82507.224206] Model parameter optimization (eps = 1.000000) [05:27:09 -82505.682095] SLOW spr round 1 (radius: 5) [05:30:06 -82489.597160] SLOW spr round 2 (radius: 5) [05:33:07 -82487.759984] SLOW spr round 3 (radius: 5) [05:35:58 -82487.759258] SLOW spr round 4 (radius: 10) [05:39:07 -82478.806749] SLOW spr round 5 (radius: 5) [05:42:58 -82474.844820] SLOW spr round 6 (radius: 5) [05:46:12 -82474.836735] SLOW spr round 7 (radius: 10) [05:49:22 -82474.640948] SLOW spr round 8 (radius: 5) [05:52:58 -82474.640424] SLOW spr round 9 (radius: 10) [05:56:18 -82474.639939] SLOW spr round 10 (radius: 15) [06:00:47 -82474.577016] SLOW spr round 11 (radius: 20) [06:09:37 -82474.576484] SLOW spr round 12 (radius: 25) [06:18:00] [worker #4] ML tree search #20, logLikelihood: -82465.455775 [06:18:27] [worker #3] ML tree search #19, logLikelihood: -82463.678690 [06:21:36 -82474.575948] Model parameter optimization (eps = 0.100000) [06:21:47] [worker #0] ML tree search #16, logLikelihood: -82474.360700 [06:28:49] [worker #1] ML tree search #17, logLikelihood: -82453.774989 [06:44:23] [worker #2] ML tree search #18, logLikelihood: -82409.441956 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.244965,0.338216) (0.217709,0.531009) (0.290627,0.939449) (0.246699,2.142345) 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: -82409.441956 AIC score: 168828.883911 / AICc score: 8212888.883911 / BIC score: 176051.132147 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=271). This might lead to overfitting and compromise tree inference results! Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/3_mltree/P29597.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/3_mltree/P29597.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/3_mltree/P29597.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P29597/3_mltree/P29597.raxml.log Analysis started: 04-Jun-2021 17:15:01 / finished: 04-Jun-2021 23:59:24 Elapsed time: 24263.546 seconds Consumed energy: 2601.541 Wh (= 13 km in an electric car, or 65 km with an e-scooter!)