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 02-Jul-2021 10:09:50 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/2_msa/Q8TF21_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/3_mltree/Q8TF21 --seed 2 --threads 4 --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 (4 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/2_msa/Q8TF21_trimmed_msa.fasta [00:00:00] Loaded alignment with 999 taxa and 219 sites WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_H0Z4Z3_H0Z4Z3_TAEGU_59729 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_U3IMQ3_U3IMQ3_ANAPL_8839 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A091J0E4_A0A091J0E4_EGRGA_188379 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A093PI22_A0A093PI22_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A091V5K1_A0A091V5K1_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A087QMQ3_A0A087QMQ3_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A091W8C1_A0A091W8C1_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A091G5N7_A0A091G5N7_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A0A0ATB8_A0A0A0ATB8_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A2I0MFN2_A0A2I0MFN2_COLLI_8932 are exactly identical! WARNING: Sequences tr_A0A1D5PIW9_A0A1D5PIW9_CHICK_9031 and tr_A0A093GWV9_A0A093GWV9_DRYPU_118200 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_G1NEG1_G1NEG1_MELGA_9103 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_U3I471_U3I471_ANAPL_8839 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A087RJY1_A0A087RJY1_APTFO_9233 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A093JU25_A0A093JU25_STRCA_441894 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A091WEG1_A0A091WEG1_OPIHO_30419 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A099ZA30_A0A099ZA30_TINGU_94827 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A091G422_A0A091G422_9AVES_55661 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A0A0ATJ5_A0A0A0ATJ5_CHAVO_50402 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A091HY46_A0A091HY46_CALAN_9244 are exactly identical! WARNING: Sequences tr_E1C2Z8_E1C2Z8_CHICK_9031 and tr_A0A1V4KC98_A0A1V4KC98_PATFA_372326 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_H2PBD8_H2PBD8_PONAB_9601 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_G1SVF7_G1SVF7_RABIT_9986 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_J9NS42_J9NS42_CANLF_9615 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_F7CKK3_F7CKK3_HORSE_9796 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A287CT52_A0A287CT52_ICTTR_43179 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A286XW93_A0A286XW93_CAVPO_10141 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and sp_O15084_ANR28_HUMAN_9606 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_F7E5S7_F7E5S7_MACMU_9544 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_F7H6C7_F7H6C7_CALJA_9483 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_G7NY15_G7NY15_MACFA_9541 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_M3WEV6_M3WEV6_FELCA_9685 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A0D9RCK6_A0A0D9RCK6_CHLSB_60711 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A3Q0CYG5_A0A3Q0CYG5_MESAU_10036 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A2U4B9V8_A0A2U4B9V8_TURTR_9739 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A2U3WK18_A0A2U3WK18_ODORO_9708 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A2U3YM41_A0A2U3YM41_LEPWE_9713 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A2Y9E1T6_A0A2Y9E1T6_TRIMA_127582 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A2Y9KGW3_A0A2Y9KGW3_ENHLU_391180 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A2Y9MJZ7_A0A2Y9MJZ7_DELLE_9749 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A2Y9EGI9_A0A2Y9EGI9_PHYCD_9755 are exactly identical! WARNING: Sequences sp_Q505D1_ANR28_MOUSE_10090 and tr_A0A383YVZ4_A0A383YVZ4_BALAS_310752 are exactly identical! WARNING: Sequences tr_M3Y8S1_M3Y8S1_MUSPF_9669 and tr_A0A2Y9J2E2_A0A2Y9J2E2_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G1RTL1_G1RTL1_NOMLE_61853 and tr_G3RDH4_G3RDH4_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1RTL1_G1RTL1_NOMLE_61853 and tr_H2NNM4_H2NNM4_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1RTL1_G1RTL1_NOMLE_61853 and tr_A0A2R8ZWK6_A0A2R8ZWK6_PANPA_9597 are exactly identical! WARNING: Sequences tr_M3ZAF0_M3ZAF0_NOMLE_61853 and tr_H0WTY2_H0WTY2_OTOGA_30611 are exactly identical! WARNING: Sequences tr_M3ZAF0_M3ZAF0_NOMLE_61853 and sp_Q8N8A2_ANR44_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3ZAF0_M3ZAF0_NOMLE_61853 and tr_A0A1D5Q9C1_A0A1D5Q9C1_MACMU_9544 are exactly identical! WARNING: Sequences tr_M3ZAF0_M3ZAF0_NOMLE_61853 and tr_F6TGZ4_F6TGZ4_CALJA_9483 are exactly identical! WARNING: Sequences tr_M3ZAF0_M3ZAF0_NOMLE_61853 and tr_G7PL37_G7PL37_MACFA_9541 are exactly identical! WARNING: Sequences tr_M3ZAF0_M3ZAF0_NOMLE_61853 and tr_A0A0D9RGJ7_A0A0D9RGJ7_CHLSB_60711 are exactly identical! WARNING: Sequences tr_M3ZAF0_M3ZAF0_NOMLE_61853 and tr_A0A2K6DYB2_A0A2K6DYB2_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3RC69_G3RC69_GORGO_9595 and tr_A0A2I3RMR5_A0A2I3RMR5_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RC69_G3RC69_GORGO_9595 and tr_A0A2R9CSI9_A0A2R9CSI9_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_H2PSW4_H2PSW4_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and sp_Q6JAN1_INVS_CANLF_9615 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_H2QXL0_H2QXL0_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_W5PMK1_W5PMK1_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and sp_Q9Y283_INVS_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0JN59_A0JN59_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_L5KPW4_L5KPW4_PTEAL_9402 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_M3WMZ3_M3WMZ3_FELCA_9685 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0A2R9A267_A0A2R9A267_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0A2U4CGA6_A0A2U4CGA6_TURTR_9739 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0A2U3VCU2_A0A2U3VCU2_ODORO_9708 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0A2Y9JBX4_A0A2Y9JBX4_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0A2Y9QKW7_A0A2Y9QKW7_DELLE_9749 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0A384DGF6_A0A384DGF6_URSMA_29073 are exactly identical! WARNING: Sequences tr_G3RMV7_G3RMV7_GORGO_9595 and tr_A0A384BBN5_A0A384BBN5_BALAS_310752 are exactly identical! WARNING: Sequences tr_H2PFB0_H2PFB0_PONAB_9601 and tr_F6RNW6_F6RNW6_MACMU_9544 are exactly identical! WARNING: Sequences tr_H2PFB0_H2PFB0_PONAB_9601 and tr_A0A2K6B7X1_A0A2K6B7X1_MACNE_9545 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_W5P2C2_W5P2C2_SHEEP_9940 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and sp_Q12955_ANK3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_F7EBU2_F7EBU2_MACMU_9544 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_F7D3K5_F7D3K5_CALJA_9483 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_G1L9X1_G1L9X1_AILME_9646 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_G7PDE9_G7PDE9_MACFA_9541 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_E1BNC9_E1BNC9_BOVIN_9913 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_M3XEN9_M3XEN9_FELCA_9685 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_A0A3Q0E3J7_A0A3Q0E3J7_TARSY_1868482 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_A0A2K5N412_A0A2K5N412_CERAT_9531 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_A0A2K6CI25_A0A2K6CI25_MACNE_9545 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_A0A2K6ACH1_A0A2K6ACH1_MANLE_9568 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_A0A2U3WCI4_A0A2U3WCI4_ODORO_9708 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_A0A2Y9J2Q3_A0A2Y9J2Q3_ENHLU_391180 are exactly identical! WARNING: Sequences tr_F1PJ98_F1PJ98_CANLF_9615 and tr_A0A384CIA2_A0A384CIA2_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A0E0GU17_A0A0E0GU17_ORYNI_4536 and tr_A0A0E0P1K0_A0A0E0P1K0_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A1D5QXG6_A0A1D5QXG6_MACMU_9544 and tr_G7P905_G7P905_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A1D5QXG6_A0A1D5QXG6_MACMU_9544 and tr_A0A096NMK4_A0A096NMK4_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A1D5QXG6_A0A1D5QXG6_MACMU_9544 and tr_A0A2K5NHQ1_A0A2K5NHQ1_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A1D5QXG6_A0A1D5QXG6_MACMU_9544 and tr_A0A2K6CHC1_A0A2K6CHC1_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A1D5QXG6_A0A1D5QXG6_MACMU_9544 and tr_A0A2K5Z5C9_A0A2K5Z5C9_MANLE_9568 are exactly identical! WARNING: Sequences tr_F6YHE0_F6YHE0_MACMU_9544 and tr_A0A2K6E964_A0A2K6E964_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7GC65_F7GC65_MACMU_9544 and tr_A0A096P112_A0A096P112_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7GC65_F7GC65_MACMU_9544 and tr_A0A0D9RFE1_A0A0D9RFE1_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7GC65_F7GC65_MACMU_9544 and tr_A0A2K5KK30_A0A2K5KK30_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7GC65_F7GC65_MACMU_9544 and tr_A0A2K6DHJ9_A0A2K6DHJ9_MACNE_9545 are exactly identical! WARNING: Sequences tr_B8AK75_B8AK75_ORYSI_39946 and tr_Q9AUW0_Q9AUW0_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_G3T982_G3T982_LOXAF_9785 and tr_A0A287BAC0_A0A287BAC0_PIG_9823 are exactly identical! WARNING: Sequences tr_H0YY27_H0YY27_TAEGU_59729 and tr_U3K3R3_U3K3R3_FICAL_59894 are exactly identical! WARNING: Sequences tr_H0YY27_H0YY27_TAEGU_59729 and tr_A0A218VE59_A0A218VE59_9PASE_299123 are exactly identical! WARNING: Sequences tr_G1M5K8_G1M5K8_AILME_9646 and tr_A0A337SLG1_A0A337SLG1_FELCA_9685 are exactly identical! WARNING: Sequences tr_G7NX83_G7NX83_MACFA_9541 and tr_A0A2K5LZW8_A0A2K5LZW8_CERAT_9531 are exactly identical! WARNING: Sequences tr_G7NX83_G7NX83_MACFA_9541 and tr_A0A2K6BVH3_A0A2K6BVH3_MACNE_9545 are exactly identical! WARNING: Sequences tr_U3I536_U3I536_ANAPL_8839 and tr_A0A091E3R1_A0A091E3R1_CORBR_85066 are exactly identical! WARNING: Sequences tr_U3I536_U3I536_ANAPL_8839 and tr_A0A093J439_A0A093J439_STRCA_441894 are exactly identical! WARNING: Sequences tr_U3I536_U3I536_ANAPL_8839 and tr_A0A0A0AS26_A0A0A0AS26_CHAVO_50402 are exactly identical! WARNING: Sequences tr_V2XAL4_V2XAL4_MONRO_1381753 and tr_A0A0W0FS22_A0A0W0FS22_9AGAR_221103 are exactly identical! WARNING: Sequences tr_A0A2I3LIB0_A0A2I3LIB0_PAPAN_9555 and tr_A0A2K5KS21_A0A2K5KS21_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A094DXL1_A0A094DXL1_9PEZI_1420912 and tr_A0A1B8GM41_A0A1B8GM41_9PEZI_342668 are exactly identical! WARNING: Sequences tr_A0A151MQQ6_A0A151MQQ6_ALLMI_8496 and tr_A0A1U7RGI2_A0A1U7RGI2_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A093HMW5_A0A093HMW5_STRCA_441894 and tr_A0A0A0ACY5_A0A0A0ACY5_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A0A0AIS2_A0A0A0AIS2_CHAVO_50402 and tr_R7VRE8_R7VRE8_COLLI_8932 are exactly identical! WARNING: Sequences tr_A0A0A0AIS2_A0A0A0AIS2_CHAVO_50402 and tr_A0A091ISW6_A0A091ISW6_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A0A0AIS2_A0A0A0AIS2_CHAVO_50402 and tr_A0A1V4J8T0_A0A1V4J8T0_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A0A0AIS2_A0A0A0AIS2_CHAVO_50402 and tr_A0A226PL31_A0A226PL31_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A1S4APP5_A0A1S4APP5_TOBAC_4097 and tr_A0A1U7VUI0_A0A1U7VUI0_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1S3HB53_A0A1S3HB53_LINUN_7574 and tr_A0A1S3HDR8_A0A1S3HDR8_LINUN_7574 are exactly identical! WARNING: Sequences tr_A0A218UAV3_A0A218UAV3_9PASE_299123 and tr_A0A218UBT9_A0A218UBT9_9PASE_299123 are exactly identical! WARNING: Sequences tr_A0A2D0PPC4_A0A2D0PPC4_ICTPU_7998 and tr_A0A2D0PQB6_A0A2D0PQB6_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0PQ81_A0A2D0PQ81_ICTPU_7998 and tr_A0A2D0PRT2_A0A2D0PRT2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0PQ81_A0A2D0PQ81_ICTPU_7998 and tr_A0A2D0PRV3_A0A2D0PRV3_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0PQ81_A0A2D0PQ81_ICTPU_7998 and tr_A0A2D0PUF5_A0A2D0PUF5_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0QAF5_A0A2D0QAF5_ICTPU_7998 and tr_A0A2D0QBC9_A0A2D0QBC9_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T015_A0A2D0T015_ICTPU_7998 and tr_A0A2D0T0F5_A0A2D0T0F5_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T015_A0A2D0T015_ICTPU_7998 and tr_A0A2D0T0Z2_A0A2D0T0Z2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2U3UZB7_A0A2U3UZB7_TURTR_9739 and tr_A0A2Y9NWS3_A0A2Y9NWS3_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2Y9M5I2_A0A2Y9M5I2_DELLE_9749 and tr_A0A2Y9S215_A0A2Y9S215_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A2Y9M5I2_A0A2Y9M5I2_DELLE_9749 and tr_A0A383Z7Q5_A0A383Z7Q5_BALAS_310752 are exactly identical! WARNING: Duplicate sequences found: 130 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/Q8TF21/3_mltree/Q8TF21.raxml.reduced.phy Alignment comprises 1 partitions and 219 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 219 / 219 Gaps: 9.03 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/3_mltree/Q8TF21.raxml.rba Parallelization scheme autoconfig: 4 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 999 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 219 / 17520 [00:00:00] Data distribution: max. searches per worker: 5 Starting ML tree search with 20 distinct starting trees [00:00:00 -422679.106613] Initial branch length optimization [00:00:05 -356934.448950] Model parameter optimization (eps = 10.000000) [00:00:45 -355701.077011] AUTODETECT spr round 1 (radius: 5) [00:03:38 -220857.641901] AUTODETECT spr round 2 (radius: 10) [00:06:37 -168481.595036] AUTODETECT spr round 3 (radius: 15) [00:09:44 -145992.974830] AUTODETECT spr round 4 (radius: 20) [00:13:21 -132916.944716] AUTODETECT spr round 5 (radius: 25) [00:17:31 -127854.463029] SPR radius for FAST iterations: 25 (autodetect) [00:17:31 -127854.463029] Model parameter optimization (eps = 3.000000) [00:17:54 -127611.742608] FAST spr round 1 (radius: 25) [00:22:03 -115600.537730] FAST spr round 2 (radius: 25) [00:25:13 -115106.556501] FAST spr round 3 (radius: 25) [00:28:03 -115021.308730] FAST spr round 4 (radius: 25) [00:30:41 -114989.947885] FAST spr round 5 (radius: 25) [00:33:07 -114971.103601] FAST spr round 6 (radius: 25) [00:35:23 -114970.205852] FAST spr round 7 (radius: 25) [00:37:29 -114970.194549] Model parameter optimization (eps = 1.000000) [00:37:47 -114966.588581] SLOW spr round 1 (radius: 5) [00:40:29 -114935.158032] SLOW spr round 2 (radius: 5) [00:43:07 -114932.808842] SLOW spr round 3 (radius: 5) [00:45:42 -114932.808681] SLOW spr round 4 (radius: 10) [00:48:21 -114927.620634] SLOW spr round 5 (radius: 5) [00:51:34 -114925.318399] SLOW spr round 6 (radius: 5) [00:54:24 -114925.318019] SLOW spr round 7 (radius: 10) [00:57:08 -114920.639150] SLOW spr round 8 (radius: 5) [01:00:19 -114919.806808] SLOW spr round 9 (radius: 5) [01:03:09 -114919.805804] SLOW spr round 10 (radius: 10) [01:05:53 -114919.106284] SLOW spr round 11 (radius: 5) [01:09:03 -114919.106181] SLOW spr round 12 (radius: 10) [01:12:03 -114919.106181] SLOW spr round 13 (radius: 15) [01:16:01 -114913.312934] SLOW spr round 14 (radius: 5) [01:19:24 -114907.345218] SLOW spr round 15 (radius: 5) [01:22:23 -114904.309410] SLOW spr round 16 (radius: 5) [01:25:06 -114904.309200] SLOW spr round 17 (radius: 10) [01:27:45 -114904.309194] SLOW spr round 18 (radius: 15) [01:31:52 -114900.668105] SLOW spr round 19 (radius: 5) [01:35:14 -114896.962513] SLOW spr round 20 (radius: 5) [01:38:13 -114895.125685] SLOW spr round 21 (radius: 5) [01:40:57 -114895.124929] SLOW spr round 22 (radius: 10) [01:43:37 -114891.898095] SLOW spr round 23 (radius: 5) [01:46:51 -114890.554781] SLOW spr round 24 (radius: 5) [01:49:41 -114890.554546] SLOW spr round 25 (radius: 10) [01:52:22 -114890.554521] SLOW spr round 26 (radius: 15) [01:56:27 -114890.554517] SLOW spr round 27 (radius: 20) [02:01:29 -114890.554516] SLOW spr round 28 (radius: 25) [02:07:59 -114890.554515] Model parameter optimization (eps = 0.100000) [02:08:18] [worker #0] ML tree search #1, logLikelihood: -114890.275811 [02:08:18 -423815.639920] Initial branch length optimization [02:08:27 -359336.291033] Model parameter optimization (eps = 10.000000) [02:09:09 -358047.834501] AUTODETECT spr round 1 (radius: 5) [02:12:08 -222539.462112] AUTODETECT spr round 2 (radius: 10) [02:15:08 -166153.000098] AUTODETECT spr round 3 (radius: 15) [02:15:54] [worker #1] ML tree search #2, logLikelihood: -114861.539934 [02:18:14 -147956.643118] AUTODETECT spr round 4 (radius: 20) [02:21:45 -132574.132842] AUTODETECT spr round 5 (radius: 25) [02:25:53 -128659.170597] SPR radius for FAST iterations: 25 (autodetect) [02:25:53 -128659.170597] Model parameter optimization (eps = 3.000000) [02:26:07 -128583.325668] FAST spr round 1 (radius: 25) [02:30:17 -115805.673794] FAST spr round 2 (radius: 25) [02:33:34 -115202.259699] FAST spr round 3 (radius: 25) [02:36:17 -115131.650467] FAST spr round 4 (radius: 25) [02:38:38 -115099.466457] FAST spr round 5 (radius: 25) [02:40:50 -115095.570806] FAST spr round 6 (radius: 25) [02:42:58 -115093.619411] FAST spr round 7 (radius: 25) [02:43:55] [worker #3] ML tree search #4, logLikelihood: -114863.388419 [02:45:03 -115092.459479] FAST spr round 8 (radius: 25) [02:47:07 -115092.447744] Model parameter optimization (eps = 1.000000) [02:47:12 -115092.238289] SLOW spr round 1 (radius: 5) [02:49:58 -115068.086717] SLOW spr round 2 (radius: 5) [02:52:41 -115063.559513] SLOW spr round 3 (radius: 5) [02:55:21 -115063.558857] SLOW spr round 4 (radius: 10) [02:58:09 -115057.699532] SLOW spr round 5 (radius: 5) [03:01:39 -115051.659700] SLOW spr round 6 (radius: 5) [03:04:42 -115051.062366] SLOW spr round 7 (radius: 5) [03:07:25 -115051.062106] SLOW spr round 8 (radius: 10) [03:10:06 -115051.061837] SLOW spr round 9 (radius: 15) [03:14:10 -115049.257045] SLOW spr round 10 (radius: 5) [03:17:32 -115044.458955] SLOW spr round 11 (radius: 5) [03:20:34 -115036.280308] SLOW spr round 12 (radius: 5) [03:23:22 -115033.433597] SLOW spr round 13 (radius: 5) [03:24:49] [worker #2] ML tree search #3, logLikelihood: -114918.477434 [03:26:00 -115033.433082] SLOW spr round 14 (radius: 10) [03:28:41 -115032.177904] SLOW spr round 15 (radius: 5) [03:31:56 -115031.259408] SLOW spr round 16 (radius: 5) [03:34:51 -115031.258498] SLOW spr round 17 (radius: 10) [03:37:38 -115031.258013] SLOW spr round 18 (radius: 15) [03:41:38 -115031.257745] SLOW spr round 19 (radius: 20) [03:46:51 -115029.374257] SLOW spr round 20 (radius: 5) [03:50:18 -115029.373883] SLOW spr round 21 (radius: 10) [03:53:42 -115029.373840] SLOW spr round 22 (radius: 15) [03:57:31 -115029.373816] SLOW spr round 23 (radius: 20) [04:02:52 -115028.192642] SLOW spr round 24 (radius: 5) [04:06:16 -115028.157094] SLOW spr round 25 (radius: 10) [04:09:38 -115028.153442] SLOW spr round 26 (radius: 15) [04:13:22 -115028.152142] SLOW spr round 27 (radius: 20) [04:18:35 -115028.151690] SLOW spr round 28 (radius: 25) [04:19:39] [worker #1] ML tree search #6, logLikelihood: -115073.856580 [04:24:49 -115028.151535] Model parameter optimization (eps = 0.100000) [04:24:53] [worker #0] ML tree search #5, logLikelihood: -115028.149164 [04:24:53 -420951.356036] Initial branch length optimization [04:24:59 -354512.247795] Model parameter optimization (eps = 10.000000) [04:25:38 -353135.651571] AUTODETECT spr round 1 (radius: 5) [04:28:34 -227517.777223] AUTODETECT spr round 2 (radius: 10) [04:31:32 -170180.032342] AUTODETECT spr round 3 (radius: 15) [04:34:49 -147253.912514] AUTODETECT spr round 4 (radius: 20) [04:38:40 -137607.621993] AUTODETECT spr round 5 (radius: 25) [04:42:54 -129213.641002] SPR radius for FAST iterations: 25 (autodetect) [04:42:54 -129213.641002] Model parameter optimization (eps = 3.000000) [04:43:20 -128997.971080] FAST spr round 1 (radius: 25) [04:47:33 -116619.357036] FAST spr round 2 (radius: 25) [04:50:36 -115245.952696] FAST spr round 3 (radius: 25) [04:53:19 -115048.311948] FAST spr round 4 (radius: 25) [04:55:49 -115007.233674] FAST spr round 5 (radius: 25) [04:58:01 -114990.981769] FAST spr round 6 (radius: 25) [05:00:03 -114990.980620] Model parameter optimization (eps = 1.000000) [05:00:22 -114982.416535] SLOW spr round 1 (radius: 5) [05:03:05 -114946.265979] SLOW spr round 2 (radius: 5) [05:05:46 -114935.401334] SLOW spr round 3 (radius: 5) [05:06:45] [worker #3] ML tree search #8, logLikelihood: -114884.381714 [05:08:24 -114928.817672] SLOW spr round 4 (radius: 5) [05:10:55 -114927.975905] SLOW spr round 5 (radius: 5) [05:13:26 -114927.600744] SLOW spr round 6 (radius: 5) [05:15:55 -114927.600682] SLOW spr round 7 (radius: 10) [05:18:30 -114926.871208] SLOW spr round 8 (radius: 5) [05:21:42 -114921.701277] SLOW spr round 9 (radius: 5) [05:24:32 -114921.700851] SLOW spr round 10 (radius: 10) [05:27:12 -114921.700836] SLOW spr round 11 (radius: 15) [05:31:27 -114917.983169] SLOW spr round 12 (radius: 5) [05:34:41 -114916.654911] SLOW spr round 13 (radius: 5) [05:37:37 -114916.654847] SLOW spr round 14 (radius: 10) [05:40:20 -114916.654846] SLOW spr round 15 (radius: 15) [05:44:30 -114916.654846] SLOW spr round 16 (radius: 20) [05:50:33 -114916.557559] SLOW spr round 17 (radius: 25) [05:58:16 -114916.070513] SLOW spr round 18 (radius: 5) [06:02:01 -114914.252062] SLOW spr round 19 (radius: 5) [06:05:18 -114914.251860] SLOW spr round 20 (radius: 10) [06:08:12 -114913.967813] SLOW spr round 21 (radius: 5) [06:08:50] [worker #2] ML tree search #7, logLikelihood: -114833.332645 [06:11:20 -114913.967739] SLOW spr round 22 (radius: 10) [06:14:12 -114913.967705] SLOW spr round 23 (radius: 15) [06:18:16 -114913.967688] SLOW spr round 24 (radius: 20) [06:24:46 -114913.967679] SLOW spr round 25 (radius: 25) [06:32:46 -114913.967675] Model parameter optimization (eps = 0.100000) [06:32:55] [worker #0] ML tree search #9, logLikelihood: -114913.752888 [06:32:55 -423626.175315] Initial branch length optimization [06:33:03 -356344.735005] Model parameter optimization (eps = 10.000000) [06:33:45 -354890.831505] AUTODETECT spr round 1 (radius: 5) [06:36:44 -224243.539422] AUTODETECT spr round 2 (radius: 10) [06:39:47 -169038.460426] AUTODETECT spr round 3 (radius: 15) [06:43:09 -146658.221148] AUTODETECT spr round 4 (radius: 20) [06:46:43 -131984.580360] AUTODETECT spr round 5 (radius: 25) [06:51:03 -126486.833792] SPR radius for FAST iterations: 25 (autodetect) [06:51:03 -126486.833792] Model parameter optimization (eps = 3.000000) [06:51:29 -126253.983148] FAST spr round 1 (radius: 25) [06:55:52 -115693.230108] FAST spr round 2 (radius: 25) [06:59:06 -115035.570600] FAST spr round 3 (radius: 25) [07:01:43 -114958.714737] FAST spr round 4 (radius: 25) [07:04:05 -114947.518031] FAST spr round 5 (radius: 25) [07:06:17 -114939.300618] FAST spr round 6 (radius: 25) [07:08:27 -114924.527256] FAST spr round 7 (radius: 25) [07:10:29 -114924.125207] FAST spr round 8 (radius: 25) [07:12:34 -114916.881621] FAST spr round 9 (radius: 25) [07:14:33 -114916.571414] FAST spr round 10 (radius: 25) [07:16:33 -114916.571303] Model parameter optimization (eps = 1.000000) [07:16:43 -114914.427230] SLOW spr round 1 (radius: 5) [07:19:22 -114875.428791] SLOW spr round 2 (radius: 5) [07:22:01 -114863.509669] SLOW spr round 3 (radius: 5) [07:24:33 -114863.509082] SLOW spr round 4 (radius: 10) [07:24:53] [worker #1] ML tree search #10, logLikelihood: -114812.164687 [07:27:18 -114862.072288] SLOW spr round 5 (radius: 5) [07:30:47 -114851.231547] SLOW spr round 6 (radius: 5) [07:33:42 -114850.102193] SLOW spr round 7 (radius: 5) [07:36:25 -114850.102178] SLOW spr round 8 (radius: 10) [07:39:07 -114850.102178] SLOW spr round 9 (radius: 15) [07:43:21 -114848.173974] SLOW spr round 10 (radius: 5) [07:46:40 -114846.046876] SLOW spr round 11 (radius: 5) [07:49:35 -114846.046868] SLOW spr round 12 (radius: 10) [07:52:19 -114843.871351] SLOW spr round 13 (radius: 5) [07:55:28 -114843.676617] SLOW spr round 14 (radius: 5) [07:58:16 -114843.675823] SLOW spr round 15 (radius: 10) [08:00:56 -114843.675816] SLOW spr round 16 (radius: 15) [08:05:07 -114841.847271] SLOW spr round 17 (radius: 5) [08:08:25 -114841.847166] SLOW spr round 18 (radius: 10) [08:11:36 -114839.645996] SLOW spr round 19 (radius: 5) [08:14:47 -114833.256806] SLOW spr round 20 (radius: 5) [08:17:34 -114832.827608] SLOW spr round 21 (radius: 5) [08:20:11 -114832.827600] SLOW spr round 22 (radius: 10) [08:22:47 -114832.827599] SLOW spr round 23 (radius: 15) [08:27:03 -114832.827599] SLOW spr round 24 (radius: 20) [08:32:27 -114830.662217] SLOW spr round 25 (radius: 5) [08:35:53 -114830.489797] SLOW spr round 26 (radius: 5) [08:38:52 -114830.489767] SLOW spr round 27 (radius: 10) [08:41:35 -114830.489767] SLOW spr round 28 (radius: 15) [08:45:37 -114830.489767] SLOW spr round 29 (radius: 20) [08:50:56 -114829.460298] SLOW spr round 30 (radius: 5) [08:54:24 -114822.931327] SLOW spr round 31 (radius: 5) [08:54:36] [worker #3] ML tree search #12, logLikelihood: -114798.406371 [08:57:32 -114822.748072] SLOW spr round 32 (radius: 5) [09:00:16 -114822.747811] SLOW spr round 33 (radius: 10) [09:02:55 -114822.747804] SLOW spr round 34 (radius: 15) [09:07:07 -114822.747803] SLOW spr round 35 (radius: 20) [09:07:25] [worker #2] ML tree search #11, logLikelihood: -114809.055379 [09:12:21 -114822.747803] SLOW spr round 36 (radius: 25) [09:13:31] [worker #1] ML tree search #14, logLikelihood: -114990.093328 [09:18:48 -114822.747803] Model parameter optimization (eps = 0.100000) [09:18:58] [worker #0] ML tree search #13, logLikelihood: -114822.679265 [09:18:58 -424592.955810] Initial branch length optimization [09:19:04 -357032.991234] Model parameter optimization (eps = 10.000000) [09:19:56 -355836.853444] AUTODETECT spr round 1 (radius: 5) [09:22:58 -225691.959697] AUTODETECT spr round 2 (radius: 10) [09:26:03 -169475.120357] AUTODETECT spr round 3 (radius: 15) [09:29:30 -137205.038948] AUTODETECT spr round 4 (radius: 20) [09:33:09 -129679.612586] AUTODETECT spr round 5 (radius: 25) [09:37:12 -124836.982127] SPR radius for FAST iterations: 25 (autodetect) [09:37:12 -124836.982127] Model parameter optimization (eps = 3.000000) [09:37:33 -124596.364555] FAST spr round 1 (radius: 25) [09:41:34 -115711.179453] FAST spr round 2 (radius: 25) [09:44:38 -115038.834271] FAST spr round 3 (radius: 25) [09:47:20 -114946.053426] FAST spr round 4 (radius: 25) [09:49:49 -114905.736456] FAST spr round 5 (radius: 25) [09:52:08 -114897.582131] FAST spr round 6 (radius: 25) [09:54:16 -114895.233245] FAST spr round 7 (radius: 25) [09:56:21 -114894.049283] FAST spr round 8 (radius: 25) [09:58:22 -114894.048934] Model parameter optimization (eps = 1.000000) [09:58:39 -114889.661416] SLOW spr round 1 (radius: 5) [10:01:19 -114852.062041] SLOW spr round 2 (radius: 5) [10:03:59 -114848.085531] SLOW spr round 3 (radius: 5) [10:06:41 -114844.806267] SLOW spr round 4 (radius: 5) [10:09:31 -114843.819087] SLOW spr round 5 (radius: 5) [10:12:17 -114843.658595] SLOW spr round 6 (radius: 5) [10:15:03 -114843.658574] SLOW spr round 7 (radius: 10) [10:17:56 -114837.979902] SLOW spr round 8 (radius: 5) [10:21:29 -114837.161308] SLOW spr round 9 (radius: 5) [10:24:36 -114837.161294] SLOW spr round 10 (radius: 10) [10:27:31 -114832.596223] SLOW spr round 11 (radius: 5) [10:31:00 -114831.362961] SLOW spr round 12 (radius: 5) [10:33:52 -114831.015232] SLOW spr round 13 (radius: 5) [10:36:31 -114831.014772] SLOW spr round 14 (radius: 10) [10:39:06 -114831.014767] SLOW spr round 15 (radius: 15) [10:43:19 -114821.826518] SLOW spr round 16 (radius: 5) [10:46:39 -114817.189823] SLOW spr round 17 (radius: 5) [10:49:35 -114817.073479] SLOW spr round 18 (radius: 5) [10:51:40] [worker #2] ML tree search #15, logLikelihood: -114901.538290 [10:52:18 -114817.072964] SLOW spr round 19 (radius: 10) [10:54:56 -114817.072950] SLOW spr round 20 (radius: 15) [10:56:02] [worker #3] ML tree search #16, logLikelihood: -114872.869367 [10:59:06 -114815.063563] SLOW spr round 21 (radius: 5) [11:02:27 -114814.686521] SLOW spr round 22 (radius: 5) [11:05:23 -114814.685974] SLOW spr round 23 (radius: 10) [11:08:06 -114814.685960] SLOW spr round 24 (radius: 15) [11:12:09 -114814.685958] SLOW spr round 25 (radius: 20) [11:17:43 -114814.266846] SLOW spr round 26 (radius: 5) [11:21:04 -114814.064282] SLOW spr round 27 (radius: 5) [11:24:03 -114814.064280] SLOW spr round 28 (radius: 10) [11:26:47 -114814.064280] SLOW spr round 29 (radius: 15) [11:30:46 -114814.064279] SLOW spr round 30 (radius: 20) [11:36:13 -114813.702981] SLOW spr round 31 (radius: 5) [11:39:52 -114805.613050] SLOW spr round 32 (radius: 5) [11:43:08 -114804.843893] SLOW spr round 33 (radius: 5) [11:46:05 -114804.843315] SLOW spr round 34 (radius: 10) [11:48:56 -114804.843210] SLOW spr round 35 (radius: 15) [11:53:20 -114804.843189] SLOW spr round 36 (radius: 20) [11:59:13 -114802.264204] SLOW spr round 37 (radius: 5) [12:02:51 -114801.430696] SLOW spr round 38 (radius: 5) [12:06:08 -114800.908342] SLOW spr round 39 (radius: 5) [12:09:07 -114800.907479] SLOW spr round 40 (radius: 10) [12:11:58 -114800.906962] SLOW spr round 41 (radius: 15) [12:16:19 -114800.906613] SLOW spr round 42 (radius: 20) [12:21:36] [worker #1] ML tree search #18, logLikelihood: -114840.961576 [12:22:09 -114800.906378] SLOW spr round 43 (radius: 25) [12:29:32 -114798.250359] SLOW spr round 44 (radius: 5) [12:33:10 -114795.660976] SLOW spr round 45 (radius: 5) [12:36:23 -114795.660902] SLOW spr round 46 (radius: 10) [12:39:20 -114795.660866] SLOW spr round 47 (radius: 15) [12:43:37 -114795.660842] SLOW spr round 48 (radius: 20) [12:49:31 -114795.660825] SLOW spr round 49 (radius: 25) [12:56:52 -114795.660814] Model parameter optimization (eps = 0.100000) [12:56:58] [worker #0] ML tree search #17, logLikelihood: -114795.653978 [13:08:07] [worker #3] ML tree search #20, logLikelihood: -114849.960570 [13:37:33] [worker #2] ML tree search #19, logLikelihood: -114829.237334 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.135478,0.444564) (0.192694,0.467542) (0.387570,0.929174) (0.284258,1.722235) 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: -114795.653978 AIC score: 233593.307956 / AICc score: 8245597.307956 / BIC score: 240374.840488 Free parameters (model + branch lengths): 2001 WARNING: Number of free parameters (K=2001) is larger than alignment size (n=219). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 211 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/3_mltree/Q8TF21.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/3_mltree/Q8TF21.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/3_mltree/Q8TF21.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/3_mltree/Q8TF21.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q8TF21/3_mltree/Q8TF21.raxml.log Analysis started: 02-Jul-2021 10:09:50 / finished: 02-Jul-2021 23:47:23 Elapsed time: 49053.531 seconds Consumed energy: 4016.637 Wh (= 20 km in an electric car, or 100 km with an e-scooter!)