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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 04-Jun-2021 13:35:19 as follows: raxml-ng --ancestral --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/2_msa/P63252_nogap_msa.fasta --tree /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/3_mltree/P63252.raxml.bestTree_unrooted --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/4_raxmlng_ancestral/P63252 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622802919 tip-inner: ON pattern compression: OFF per-rate scalers: OFF site repeats: OFF 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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/2_msa/P63252_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 427 sites WARNING: Sequences sp_F1NHE9_KCJ12_CHICK_9031 and tr_G1NR98_G1NR98_MELGA_9103 are exactly identical! WARNING: Sequences sp_F1NHE9_KCJ12_CHICK_9031 and tr_R0LKG5_R0LKG5_ANAPL_8839 are exactly identical! WARNING: Sequences sp_F1NHE9_KCJ12_CHICK_9031 and tr_A0A226NIR2_A0A226NIR2_CALSU_9009 are exactly identical! WARNING: Sequences sp_F1NHE9_KCJ12_CHICK_9031 and tr_A0A226PTH5_A0A226PTH5_COLVI_9014 are exactly identical! WARNING: Sequences tr_O42229_O42229_CHICK_9031 and tr_G1N4D0_G1N4D0_MELGA_9103 are exactly identical! WARNING: Sequences tr_O42229_O42229_CHICK_9031 and tr_A0A226NB26_A0A226NB26_CALSU_9009 are exactly identical! WARNING: Sequences tr_R4GJD4_R4GJD4_CHICK_9031 and tr_G1NLM3_G1NLM3_MELGA_9103 are exactly identical! WARNING: Sequences sp_P63250_KCNJ3_MOUSE_10090 and sp_P63251_KCNJ3_RAT_10116 are exactly identical! WARNING: Sequences sp_P63250_KCNJ3_MOUSE_10090 and tr_A0A3Q0CI01_A0A3Q0CI01_MESAU_10036 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_G1QYC3_G1QYC3_NOMLE_61853 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_G3R0Q9_G3R0Q9_GORGO_9595 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_A0A2J8XXN3_A0A2J8XXN3_PONAB_9601 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_J9NU52_J9NU52_CANLF_9615 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_H2Q5L2_H2Q5L2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and sp_Q15842_KCNJ8_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_D2I1F0_D2I1F0_AILME_9646 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_A0A0D9R6G0_A0A0D9R6G0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_A0A2R9BZP7_A0A2R9BZP7_PANPA_9597 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_A0A2U3WAZ8_A0A2U3WAZ8_ODORO_9708 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_A0A2U3XC07_A0A2U3XC07_LEPWE_9713 are exactly identical! WARNING: Sequences tr_G9K6T8_G9K6T8_MUSPF_9669 and tr_A0A384C8X8_A0A384C8X8_URSMA_29073 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_G1RKZ8_G1RKZ8_NOMLE_61853 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_G3SFZ4_G3SFZ4_GORGO_9595 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_F1PW11_F1PW11_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_H2QIU3_H2QIU3_PANTR_9598 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and sp_P48549_KCNJ3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_F7ERG6_F7ERG6_MACMU_9544 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_F7AN67_F7AN67_CALJA_9483 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A096MVP9_A0A096MVP9_PAPAN_9555 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A0D9RTV7_A0A0D9RTV7_CHLSB_60711 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2K5KUQ0_A0A2K5KUQ0_CERAT_9531 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2K6DSK6_A0A2K6DSK6_MACNE_9545 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2K5ZAX7_A0A2K5ZAX7_MANLE_9568 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2U3VJ14_A0A2U3VJ14_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2Y9IVJ5_A0A2Y9IVJ5_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2I2YHE6_A0A2I2YHE6_GORGO_9595 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_E2RIA0_E2RIA0_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and sp_P48051_KCNJ6_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_F7DHW8_F7DHW8_MACMU_9544 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_G7P104_G7P104_MACFA_9541 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A096NJ31_A0A096NJ31_PAPAN_9555 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2K5MR77_A0A2K5MR77_CERAT_9531 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2K6CT00_A0A2K6CT00_MACNE_9545 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2K5XDZ3_A0A2K5XDZ3_MANLE_9568 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2R9ASG2_A0A2R9ASG2_PANPA_9597 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2U3WXJ9_A0A2U3WXJ9_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2Y9KKA6_A0A2Y9KKA6_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3Z6N3_M3Z6N3_MUSPF_9669 and tr_D2I1B0_D2I1B0_AILME_9646 are exactly identical! WARNING: Sequences tr_M3Z6N3_M3Z6N3_MUSPF_9669 and tr_K4LR19_K4LR19_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3Z6N3_M3Z6N3_MUSPF_9669 and tr_A0A2Y9IM75_A0A2Y9IM75_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3Z874_M3Z874_MUSPF_9669 and tr_D2HP90_D2HP90_AILME_9646 are exactly identical! WARNING: Sequences tr_M3Z874_M3Z874_MUSPF_9669 and tr_A0A2Y9KWR6_A0A2Y9KWR6_ENHLU_391180 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_A0A2I2Z844_A0A2I2Z844_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_A0A2J8XZW9_A0A2J8XZW9_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_H2QDR5_H2QDR5_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and sp_P63252_KCNJ2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and sp_P63253_KCNJ2_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_G7PVA0_G7PVA0_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_A0A096MS42_A0A096MS42_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_A0A0D9S9D1_A0A0D9S9D1_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_A0A2K5L2F8_A0A2K5L2F8_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_A0A2K5XVX4_A0A2K5XVX4_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3GE09_A0A2I3GE09_NOMLE_61853 and tr_A0A2R8ZA76_A0A2R8ZA76_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1RSV1_G1RSV1_NOMLE_61853 and sp_Q14500_KCJ12_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QE59_G3QE59_GORGO_9595 and tr_H2P4D4_H2P4D4_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3QE59_G3QE59_GORGO_9595 and tr_A0A2I3S9P0_A0A2I3S9P0_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QE59_G3QE59_GORGO_9595 and sp_P48050_KCNJ4_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QE59_G3QE59_GORGO_9595 and tr_A0A2R8ZJL9_A0A2R8ZJL9_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3RTV2_G3RTV2_GORGO_9595 and tr_H2N556_H2N556_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3RTV2_G3RTV2_GORGO_9595 and tr_H2Q0D9_H2Q0D9_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RTV2_G3RTV2_GORGO_9595 and sp_Q92806_KCNJ9_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RTV2_G3RTV2_GORGO_9595 and tr_A0A096N4D9_A0A096N4D9_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3RTV2_G3RTV2_GORGO_9595 and tr_A0A0D9S3U0_A0A0D9S3U0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G3RTV2_G3RTV2_GORGO_9595 and tr_A0A2K5L6M1_A0A2K5L6M1_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3RTV2_G3RTV2_GORGO_9595 and tr_A0A2R9B157_A0A2R9B157_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3S2K8_G3S2K8_GORGO_9595 and tr_A0A2J8N158_A0A2J8N158_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3S2K8_G3S2K8_GORGO_9595 and tr_A0A2R9B4F1_A0A2R9B4F1_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1TTQ7_G1TTQ7_RABIT_9986 and tr_G1LG75_G1LG75_AILME_9646 are exactly identical! WARNING: Sequences tr_E2RA29_E2RA29_CANLF_9615 and tr_A0A2U3WNZ6_A0A2U3WNZ6_ODORO_9708 are exactly identical! WARNING: Sequences tr_E2RA29_E2RA29_CANLF_9615 and tr_A0A2U3YUW8_A0A2U3YUW8_LEPWE_9713 are exactly identical! WARNING: Sequences tr_W5QGC8_W5QGC8_SHEEP_9940 and tr_Q2KHY6_Q2KHY6_BOVIN_9913 are exactly identical! WARNING: Sequences tr_W5QGC8_W5QGC8_SHEEP_9940 and tr_A0A2U4BKN5_A0A2U4BKN5_TURTR_9739 are exactly identical! WARNING: Sequences tr_W5QGC8_W5QGC8_SHEEP_9940 and tr_A0A2Y9NIL3_A0A2Y9NIL3_DELLE_9749 are exactly identical! WARNING: Sequences tr_W5QGC8_W5QGC8_SHEEP_9940 and tr_A0A384B5G9_A0A384B5G9_BALAS_310752 are exactly identical! WARNING: Sequences sp_Q63511_KCNJ9_RAT_10116 and tr_A0A1U7QG30_A0A1U7QG30_MESAU_10036 are exactly identical! WARNING: Sequences tr_M4AA02_M4AA02_XIPMA_8083 and tr_A0A087XES4_A0A087XES4_POEFO_48698 are exactly identical! WARNING: Sequences tr_H0WRP8_H0WRP8_OTOGA_30611 and tr_A0A2U4AAB5_A0A2U4AAB5_TURTR_9739 are exactly identical! WARNING: Sequences tr_H0VZA6_H0VZA6_CAVPO_10141 and tr_F1SKP8_F1SKP8_PIG_9823 are exactly identical! WARNING: Sequences tr_H0VZA6_H0VZA6_CAVPO_10141 and tr_A0A091DX50_A0A091DX50_FUKDA_885580 are exactly identical! WARNING: Sequences tr_H0VZA6_H0VZA6_CAVPO_10141 and tr_A0A2Y9EZD7_A0A2Y9EZD7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_H0VZA6_H0VZA6_CAVPO_10141 and tr_A0A384AP28_A0A384AP28_BALAS_310752 are exactly identical! WARNING: Sequences sp_P52185_KCNJ2_CAVPO_10141 and tr_A0A2I2UW36_A0A2I2UW36_FELCA_9685 are exactly identical! WARNING: Sequences sp_P52185_KCNJ2_CAVPO_10141 and tr_A0A1S2ZU01_A0A1S2ZU01_ERIEU_9365 are exactly identical! WARNING: Sequences sp_Q9UNX9_KCJ14_HUMAN_9606 and tr_F7GGT0_F7GGT0_MACMU_9544 are exactly identical! WARNING: Sequences sp_Q9UNX9_KCJ14_HUMAN_9606 and tr_G7PY21_G7PY21_MACFA_9541 are exactly identical! WARNING: Sequences sp_Q9UNX9_KCJ14_HUMAN_9606 and tr_A0A0A0MX50_A0A0A0MX50_PAPAN_9555 are exactly identical! WARNING: Sequences sp_Q9UNX9_KCJ14_HUMAN_9606 and tr_A0A2K5NFC6_A0A2K5NFC6_CERAT_9531 are exactly identical! WARNING: Sequences sp_Q9UNX9_KCJ14_HUMAN_9606 and tr_A0A2K6ARG9_A0A2K6ARG9_MACNE_9545 are exactly identical! WARNING: Sequences sp_Q9UNX9_KCJ14_HUMAN_9606 and tr_A0A2K6ACS0_A0A2K6ACS0_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A1D5RE55_A0A1D5RE55_MACMU_9544 and tr_A0A096NK17_A0A096NK17_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A1D5RE55_A0A1D5RE55_MACMU_9544 and tr_A0A0D9SD50_A0A0D9SD50_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A1D5RE55_A0A1D5RE55_MACMU_9544 and tr_A0A2K5KZ19_A0A2K5KZ19_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A1D5RE55_A0A1D5RE55_MACMU_9544 and tr_A0A2K6AM97_A0A2K6AM97_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A1D5RE55_A0A1D5RE55_MACMU_9544 and tr_A0A2K5XTD1_A0A2K5XTD1_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7GLZ2_F7GLZ2_MACMU_9544 and tr_G7PTV6_G7PTV6_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7GLZ2_F7GLZ2_MACMU_9544 and tr_A0A0D9S9A5_A0A0D9S9A5_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7GLZ2_F7GLZ2_MACMU_9544 and tr_A0A2K5KTW1_A0A2K5KTW1_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7GLZ2_F7GLZ2_MACMU_9544 and tr_A0A2K6AXS8_A0A2K6AXS8_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7H7S9_F7H7S9_MACMU_9544 and tr_G8F4D1_G8F4D1_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7H7S9_F7H7S9_MACMU_9544 and tr_A0A096MT83_A0A096MT83_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7H7S9_F7H7S9_MACMU_9544 and tr_A0A2K5KTE8_A0A2K5KTE8_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7H7S9_F7H7S9_MACMU_9544 and tr_A0A2K6BSQ1_A0A2K6BSQ1_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7H7S9_F7H7S9_MACMU_9544 and tr_A0A2K5XP45_A0A2K5XP45_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7HFY6_F7HFY6_MACMU_9544 and tr_G7PQM5_G7PQM5_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7HFY6_F7HFY6_MACMU_9544 and tr_A0A0D9SD94_A0A0D9SD94_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7HFY6_F7HFY6_MACMU_9544 and tr_A0A2K5L435_A0A2K5L435_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7HFY6_F7HFY6_MACMU_9544 and tr_A0A2K6B1C1_A0A2K6B1C1_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7HFY6_F7HFY6_MACMU_9544 and tr_A0A2K5XDY7_A0A2K5XDY7_MANLE_9568 are exactly identical! WARNING: Sequences tr_G3SZM5_G3SZM5_LOXAF_9785 and tr_F1SGV4_F1SGV4_PIG_9823 are exactly identical! WARNING: Sequences tr_G3SZM5_G3SZM5_LOXAF_9785 and tr_A0A2U4AA11_A0A2U4AA11_TURTR_9739 are exactly identical! WARNING: Sequences tr_G3SZM5_G3SZM5_LOXAF_9785 and tr_A0A2Y9LNQ9_A0A2Y9LNQ9_DELLE_9749 are exactly identical! WARNING: Sequences tr_H0YXD8_H0YXD8_TAEGU_59729 and tr_A0A091E8Y8_A0A091E8Y8_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0YXD8_H0YXD8_TAEGU_59729 and tr_A0A218UWW0_A0A218UWW0_9PASE_299123 are exactly identical! WARNING: Sequences tr_H0Z3J1_H0Z3J1_TAEGU_59729 and tr_A0A091FFH8_A0A091FFH8_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0Z3J1_H0Z3J1_TAEGU_59729 and tr_A0A087R963_A0A087R963_APTFO_9233 are exactly identical! WARNING: Sequences tr_H0Z3J1_H0Z3J1_TAEGU_59729 and tr_A0A0A0AWL3_A0A0A0AWL3_CHAVO_50402 are exactly identical! WARNING: Sequences tr_H0Z3J1_H0Z3J1_TAEGU_59729 and tr_A0A093GM83_A0A093GM83_DRYPU_118200 are exactly identical! WARNING: Sequences tr_H0ZJG7_H0ZJG7_TAEGU_59729 and tr_A0A091FIS2_A0A091FIS2_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0ZJG7_H0ZJG7_TAEGU_59729 and tr_A0A0A0A7W2_A0A0A0A7W2_CHAVO_50402 are exactly identical! WARNING: Sequences tr_U3DMC4_U3DMC4_CALJA_9483 and tr_M3WS09_M3WS09_FELCA_9685 are exactly identical! WARNING: Sequences tr_U3DMC4_U3DMC4_CALJA_9483 and tr_A0A1U7UDS8_A0A1U7UDS8_TARSY_1868482 are exactly identical! WARNING: Sequences tr_D2GUX9_D2GUX9_AILME_9646 and tr_A0A384BVA9_A0A384BVA9_URSMA_29073 are exactly identical! WARNING: Sequences tr_D2HRL2_D2HRL2_AILME_9646 and tr_A0A384DJD8_A0A384DJD8_URSMA_29073 are exactly identical! WARNING: Sequences tr_G7PPP1_G7PPP1_MACFA_9541 and tr_A0A096N0B8_A0A096N0B8_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G7PPP1_G7PPP1_MACFA_9541 and tr_A0A2K6A8X0_A0A2K6A8X0_MANLE_9568 are exactly identical! WARNING: Sequences sp_E1BNE9_KCNJ3_BOVIN_9913 and tr_A0A2Y9MU28_A0A2Y9MU28_DELLE_9749 are exactly identical! WARNING: Sequences sp_E1BNE9_KCNJ3_BOVIN_9913 and tr_A0A2Y9FVH3_A0A2Y9FVH3_PHYCD_9755 are exactly identical! WARNING: Sequences sp_E1BNE9_KCNJ3_BOVIN_9913 and tr_A0A384A729_A0A384A729_BALAS_310752 are exactly identical! WARNING: Sequences tr_A0A2I2UIL2_A0A2I2UIL2_FELCA_9685 and tr_A0A2U3WGR3_A0A2U3WGR3_ODORO_9708 are exactly identical! WARNING: Sequences tr_A0A2I2UIL2_A0A2I2UIL2_FELCA_9685 and tr_A0A2Y9IDY2_A0A2Y9IDY2_ENHLU_391180 are exactly identical! WARNING: Sequences tr_U3KDM6_U3KDM6_FICAL_59894 and tr_A0A0Q3T6U4_A0A0Q3T6U4_AMAAE_12930 are exactly identical! WARNING: Sequences tr_U3KH93_U3KH93_FICAL_59894 and tr_A0A218UX38_A0A218UX38_9PASE_299123 are exactly identical! WARNING: Sequences tr_R0KE04_R0KE04_ANAPL_8839 and tr_A0A0Q3TMI9_A0A0Q3TMI9_AMAAE_12930 are exactly identical! WARNING: Sequences tr_R0LBG7_R0LBG7_ANAPL_8839 and tr_A0A091IRT3_A0A091IRT3_EGRGA_188379 are exactly identical! WARNING: Sequences tr_R0LBG7_R0LBG7_ANAPL_8839 and tr_A0A091V110_A0A091V110_NIPNI_128390 are exactly identical! WARNING: Sequences tr_R0LBG7_R0LBG7_ANAPL_8839 and tr_A0A0A0A497_A0A0A0A497_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A044TT43_A0A044TT43_ONCVO_6282 and tr_A0A182DYK2_A0A182DYK2_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A0D9S4L3_A0A0D9S4L3_CHLSB_60711 and tr_A0A2K5KQK9_A0A2K5KQK9_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A0D9S4L3_A0A0D9S4L3_CHLSB_60711 and tr_A0A2K6BDV3_A0A2K6BDV3_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A151M0G0_A0A151M0G0_ALLMI_8496 and tr_A0A1U7RSY7_A0A1U7RSY7_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A151MPJ8_A0A151MPJ8_ALLMI_8496 and tr_A0A3Q0HIC0_A0A3Q0HIC0_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A091V172_A0A091V172_NIPNI_128390 and tr_A0A093HBC7_A0A093HBC7_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091V172_A0A091V172_NIPNI_128390 and tr_A0A091FWT7_A0A091FWT7_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A091V172_A0A091V172_NIPNI_128390 and tr_A0A093ICR3_A0A093ICR3_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A091V172_A0A091V172_NIPNI_128390 and tr_A0A091IGW2_A0A091IGW2_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A087RG08_A0A087RG08_APTFO_9233 and tr_A0A091XT04_A0A091XT04_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A087RG08_A0A087RG08_APTFO_9233 and tr_A0A091GAC2_A0A091GAC2_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A087RG08_A0A087RG08_APTFO_9233 and tr_A0A093FX99_A0A093FX99_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A087RG08_A0A087RG08_APTFO_9233 and tr_A0A091IZ05_A0A091IZ05_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A093H9L2_A0A093H9L2_STRCA_441894 and tr_A0A099YYF5_A0A099YYF5_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A2I0M104_A0A2I0M104_COLLI_8932 and tr_A0A1V4KSF9_A0A1V4KSF9_PATFA_372326 are exactly identical! WARNING: Sequences tr_Q9PUE1_Q9PUE1_COLLI_8932 and tr_A0A1V4KWY7_A0A1V4KWY7_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A1S3L5A4_A0A1S3L5A4_SALSA_8030 and tr_A0A1S3QK76_A0A1S3QK76_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A1U7Q2Z9_A0A1U7Q2Z9_MESAU_10036 and sp_P49658_KCNJ6_MESAU_10036 are exactly identical! WARNING: Sequences tr_A0A226ML79_A0A226ML79_CALSU_9009 and tr_A0A226NWT4_A0A226NWT4_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A226MSF5_A0A226MSF5_CALSU_9009 and tr_A0A226PNG3_A0A226PNG3_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A226MSQ8_A0A226MSQ8_CALSU_9009 and tr_A0A226P487_A0A226P487_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2Y9T4D4_A0A2Y9T4D4_PHYCD_9755 and tr_A0A383ZHA9_A0A383ZHA9_BALAS_310752 are exactly identical! WARNING: Duplicate sequences found: 168 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/4_raxmlng_ancestral/P63252.raxml.reduced.phy Alignment comprises 1 partitions and 427 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 427 Gaps: 10.20 % Invariant sites: 4.22 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/4_raxmlng_ancestral/P63252.raxml.rba Parallelization scheme autoconfig: 1 worker(s) x 4 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Loading user starting tree(s) from: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/3_mltree/P63252.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 107 / 8560 [00:00:00] Data distribution: max. searches per worker: 1 Starting ML tree search with 1 distinct starting trees [00:00:00] Tree #1, initial LogLikelihood: -81229.527750 [00:00:00 -81229.527750] Initial branch length optimization [00:00:01 -76498.808742] Model parameter optimization (eps = 0.100000) [00:00:43] Tree #1, final logLikelihood: -76234.089042 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.240297,0.228810) (0.274244,0.269332) (0.250345,0.997641) (0.235114,2.642974) 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 Marginal ancestral probabilities saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/4_raxmlng_ancestral/P63252.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/4_raxmlng_ancestral/P63252.raxml.ancestralStates Node-labeled tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/4_raxmlng_ancestral/P63252.raxml.ancestralTree Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P63252/4_raxmlng_ancestral/P63252.raxml.log Analysis started: 04-Jun-2021 13:35:19 / finished: 04-Jun-2021 13:36:07 Elapsed time: 48.354 seconds