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 14:05:05 as follows: raxml-ng --ancestral --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P78508/2_msa/P78508_nogap_msa.fasta --tree /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P78508/3_mltree/P78508.raxml.bestTree_unrooted --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P78508/4_raxmlng_ancestral/P78508 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622804705 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/P78508/2_msa/P78508_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 379 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_A0A091V5S9_A0A091V5S9_NIPNI_128390 are exactly identical! WARNING: Sequences tr_O42229_O42229_CHICK_9031 and tr_Q9PUE1_Q9PUE1_COLLI_8932 are exactly identical! WARNING: Sequences tr_O42229_O42229_CHICK_9031 and tr_A0A1V4KWY7_A0A1V4KWY7_PATFA_372326 are exactly identical! WARNING: Sequences tr_O42229_O42229_CHICK_9031 and tr_A0A226NB26_A0A226NB26_CALSU_9009 are exactly identical! WARNING: Sequences sp_P52187_KCJ12_MOUSE_10090 and tr_A0A3Q0CL94_A0A3Q0CL94_MESAU_10036 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_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_H2QIU3_H2QIU3_PANTR_9598 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_I3MMV2_I3MMV2_ICTTR_43179 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_H0WRP8_H0WRP8_OTOGA_30611 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 sp_E1BNE9_KCNJ3_BOVIN_9913 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_A0A1U7TYQ4_A0A1U7TYQ4_TARSY_1868482 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_A0A2U4AAB5_A0A2U4AAB5_TURTR_9739 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_A0A2U3XLA4_A0A2U3XLA4_LEPWE_9713 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2Y9IVJ5_A0A2Y9IVJ5_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2Y9MU28_A0A2Y9MU28_DELLE_9749 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A2Y9FVH3_A0A2Y9FVH3_PHYCD_9755 are exactly identical! WARNING: Sequences tr_M3XMY0_M3XMY0_MUSPF_9669 and tr_A0A384A729_A0A384A729_BALAS_310752 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 tr_W5PYC7_W5PYC7_SHEEP_9940 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A287D982_A0A287D982_ICTTR_43179 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_G3SZM5_G3SZM5_LOXAF_9785 are exactly identical! WARNING: Sequences tr_M3YAP9_M3YAP9_MUSPF_9669 and tr_F1SGV4_F1SGV4_PIG_9823 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_A0A1U7V164_A0A1U7V164_TARSY_1868482 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_A0A2U4AA11_A0A2U4AA11_TURTR_9739 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_M3YAP9_M3YAP9_MUSPF_9669 and tr_A0A2Y9LNQ9_A0A2Y9LNQ9_DELLE_9749 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_G3H7Y8_G3H7Y8_CRIGR_10029 and tr_A0A3Q0CZJ0_A0A3Q0CZJ0_MESAU_10036 are exactly identical! WARNING: Sequences tr_G3HVA5_G3HVA5_CRIGR_10029 and sp_Q91ZF1_KCJ15_RAT_10116 are exactly identical! WARNING: Sequences tr_A0A2I2Y3R9_A0A2I2Y3R9_GORGO_9595 and tr_A0A2I3TNW3_A0A2I3TNW3_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I2Y3R9_A0A2I2Y3R9_GORGO_9595 and tr_A0A2R9BL01_A0A2R9BL01_PANPA_9597 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_G3QQD3_G3QQD3_GORGO_9595 and sp_P48048_KCNJ1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R0D2_G3R0D2_GORGO_9595 and tr_A0A2J8NEW2_A0A2J8NEW2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R0D2_G3R0D2_GORGO_9595 and tr_A0A2R9AFS4_A0A2R9AFS4_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_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_G3S8U4_G3S8U4_GORGO_9595 and tr_A0A2J8VHM1_A0A2J8VHM1_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3S8U4_G3S8U4_GORGO_9595 and sp_P78508_KCJ10_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3S8U4_G3S8U4_GORGO_9595 and tr_F6V197_F6V197_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3S8U4_G3S8U4_GORGO_9595 and tr_G7NWC2_G7NWC2_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3S8U4_G3S8U4_GORGO_9595 and tr_A0A0D9SAL7_A0A0D9SAL7_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1NIL6_G1NIL6_MELGA_9103 and tr_U3J4D4_U3J4D4_ANAPL_8839 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_H0XTJ3_H0XTJ3_OTOGA_30611 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_H2QL11_H2QL11_PANTR_9598 and sp_Q99712_KCJ15_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H2QL11_H2QL11_PANTR_9598 and tr_A0A2R9AKM3_A0A2R9AKM3_PANPA_9597 are exactly identical! WARNING: Sequences tr_F7C3Q3_F7C3Q3_HORSE_9796 and tr_G3SZK9_G3SZK9_LOXAF_9785 are exactly identical! WARNING: Sequences tr_M4AA02_M4AA02_XIPMA_8083 and tr_I3JQZ5_I3JQZ5_ORENI_8128 are exactly identical! WARNING: Sequences tr_M4AA02_M4AA02_XIPMA_8083 and tr_A0A087XES4_A0A087XES4_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A286XA13_A0A286XA13_CAVPO_10141 and sp_O70339_KCJ15_CAVPO_10141 are exactly identical! WARNING: Sequences tr_H0VZA6_H0VZA6_CAVPO_10141 and tr_A0A091DX50_A0A091DX50_FUKDA_885580 are exactly identical! WARNING: Sequences sp_P52185_KCNJ2_CAVPO_10141 and sp_O18839_KCNJ2_PIG_9823 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_P52185_KCNJ2_CAVPO_10141 and tr_A0A2Y9DGM9_A0A2Y9DGM9_TRIMA_127582 are exactly identical! WARNING: Sequences tr_A0A1D5RE55_A0A1D5RE55_MACMU_9544 and tr_U3CS14_U3CS14_CALJA_9483 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_F7CZK1_F7CZK1_MACMU_9544 and tr_G7P102_G7P102_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7CZK1_F7CZK1_MACMU_9544 and tr_A0A096N871_A0A096N871_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7CZK1_F7CZK1_MACMU_9544 and tr_A0A0D9SBJ6_A0A0D9SBJ6_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7CZK1_F7CZK1_MACMU_9544 and tr_A0A2K5L2V8_A0A2K5L2V8_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7CZK1_F7CZK1_MACMU_9544 and tr_A0A2K6AU96_A0A2K6AU96_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7CZK1_F7CZK1_MACMU_9544 and tr_A0A2K5XUX7_A0A2K5XUX7_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_H3DGD8_H3DGD8_TETNG_99883 and tr_A0A2I4BWM6_A0A2I4BWM6_9TELE_52670 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_H0Z3J2_H0Z3J2_TAEGU_59729 and tr_A0A218USE8_A0A218USE8_9PASE_299123 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_A0A093H9L2_A0A093H9L2_STRCA_441894 are exactly identical! WARNING: Sequences tr_H0ZJG7_H0ZJG7_TAEGU_59729 and tr_A0A091WCK5_A0A091WCK5_OPIHO_30419 are exactly identical! WARNING: Sequences tr_H0ZJG7_H0ZJG7_TAEGU_59729 and tr_A0A099YYF5_A0A099YYF5_TINGU_94827 are exactly identical! WARNING: Sequences tr_H0ZJG7_H0ZJG7_TAEGU_59729 and tr_A0A0A0A7W2_A0A0A0A7W2_CHAVO_50402 are exactly identical! WARNING: Sequences tr_H0ZV77_H0ZV77_TAEGU_59729 and tr_A0A218UB84_A0A218UB84_9PASE_299123 are exactly identical! WARNING: Sequences tr_F7HX41_F7HX41_CALJA_9483 and tr_A0A2Y9FSB6_A0A2Y9FSB6_PHYCD_9755 are exactly identical! WARNING: Sequences tr_F1SKP8_F1SKP8_PIG_9823 and tr_A0A2Y9EZD7_A0A2Y9EZD7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_F1SKP8_F1SKP8_PIG_9823 and tr_A0A384AP28_A0A384AP28_BALAS_310752 are exactly identical! WARNING: Sequences tr_D2GUX9_D2GUX9_AILME_9646 and tr_A0A384BVA9_A0A384BVA9_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 tr_A2VDS5_A2VDS5_BOVIN_9913 and sp_Q4TZY1_KCJ12_BOVIN_9913 are exactly identical! WARNING: Sequences tr_L5KF86_L5KF86_PTEAL_9402 and tr_A0A1U7UGD3_A0A1U7UGD3_TARSY_1868482 are exactly identical! WARNING: Sequences tr_U3KDM6_U3KDM6_FICAL_59894 and tr_A0A0Q3T6U4_A0A0Q3T6U4_AMAAE_12930 are exactly identical! WARNING: Sequences tr_U3KDM6_U3KDM6_FICAL_59894 and tr_A0A218UZ01_A0A218UZ01_9PASE_299123 are exactly identical! WARNING: Sequences tr_U3KH93_U3KH93_FICAL_59894 and tr_A0A2I0M104_A0A2I0M104_COLLI_8932 are exactly identical! WARNING: Sequences tr_U3KH93_U3KH93_FICAL_59894 and tr_A0A1V4KSF9_A0A1V4KSF9_PATFA_372326 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_A0A096N4D9_A0A096N4D9_PAPAN_9555 and tr_A0A0D9S3U0_A0A0D9S3U0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A096N4D9_A0A096N4D9_PAPAN_9555 and tr_A0A2K5L6M1_A0A2K5L6M1_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A096N8F3_A0A096N8F3_PAPAN_9555 and tr_A0A2K5LWR6_A0A2K5LWR6_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A096N8F3_A0A096N8F3_PAPAN_9555 and tr_A0A2K5XVK0_A0A2K5XVK0_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3M0Z4_A0A2I3M0Z4_PAPAN_9555 and tr_A0A2K6C583_A0A2K6C583_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A0D9S4L3_A0A0D9S4L3_CHLSB_60711 and tr_A0A2K5KQK9_A0A2K5KQK9_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A151M0G0_A0A151M0G0_ALLMI_8496 and tr_A0A1U7RSY7_A0A1U7RSY7_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A151MEA1_A0A151MEA1_ALLMI_8496 and tr_A0A3Q0GSN4_A0A3Q0GSN4_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A151MPJ8_A0A151MPJ8_ALLMI_8496 and tr_A0A3Q0HIC0_A0A3Q0HIC0_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A151NIU3_A0A151NIU3_ALLMI_8496 and tr_A0A1U8D9U4_A0A1U8D9U4_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A091IPG6_A0A091IPG6_EGRGA_188379 and tr_A0A091VZV1_A0A091VZV1_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A093PR03_A0A093PR03_9PASS_328815 and tr_A0A091FUG1_A0A091FUG1_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A093PR03_A0A093PR03_9PASS_328815 and tr_A0A0A0A1A6_A0A0A0A1A6_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A093PR03_A0A093PR03_9PASS_328815 and tr_A0A093GEJ8_A0A093GEJ8_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A093QKB3_A0A093QKB3_9PASS_328815 and tr_A0A087RG08_A0A087RG08_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A093QKB3_A0A093QKB3_9PASS_328815 and tr_A0A091XT04_A0A091XT04_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A093QKB3_A0A093QKB3_9PASS_328815 and tr_A0A091GAC2_A0A091GAC2_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A093QKB3_A0A093QKB3_9PASS_328815 and tr_A0A093FX99_A0A093FX99_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A093QKB3_A0A093QKB3_9PASS_328815 and tr_A0A091IZ05_A0A091IZ05_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A093SSL1_A0A093SSL1_9PASS_328815 and tr_A0A091VFT7_A0A091VFT7_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A093SSL1_A0A093SSL1_9PASS_328815 and tr_A0A0A0AWN4_A0A0A0AWN4_CHAVO_50402 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_A0A091WE17_A0A091WE17_NIPNI_128390 and tr_A0A099YR81_A0A099YR81_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A091WE17_A0A091WE17_NIPNI_128390 and tr_A0A0A0ASY3_A0A0A0ASY3_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A093HP01_A0A093HP01_STRCA_441894 and tr_A0A099ZQ32_A0A099ZQ32_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A1U7Q2Z9_A0A1U7Q2Z9_MESAU_10036 and sp_P49658_KCNJ6_MESAU_10036 are exactly identical! WARNING: Sequences tr_A0A226MSA6_A0A226MSA6_CALSU_9009 and tr_A0A226PPE3_A0A226PPE3_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A226NLN6_A0A226NLN6_CALSU_9009 and tr_A0A226PJA8_A0A226PJA8_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2K5NAR3_A0A2K5NAR3_CERAT_9531 and tr_A0A2K6A3B0_A0A2K6A3B0_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2U3WS08_A0A2U3WS08_ODORO_9708 and tr_A0A2U3XIT5_A0A2U3XIT5_LEPWE_9713 are exactly identical! WARNING: Sequences tr_A0A2U3YVL5_A0A2U3YVL5_LEPWE_9713 and tr_A0A384D051_A0A384D051_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A2Y9T4D4_A0A2Y9T4D4_PHYCD_9755 and tr_A0A383ZHA9_A0A383ZHA9_BALAS_310752 are exactly identical! WARNING: Duplicate sequences found: 182 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/P78508/4_raxmlng_ancestral/P78508.raxml.reduced.phy Alignment comprises 1 partitions and 379 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 379 Gaps: 9.95 % Invariant sites: 2.90 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P78508/4_raxmlng_ancestral/P78508.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/P78508/3_mltree/P78508.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 95 / 7600 [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: -68741.769010 [00:00:00 -68741.769010] Initial branch length optimization [00:00:00 -68244.696471] Model parameter optimization (eps = 0.100000) [00:00:27] Tree #1, final logLikelihood: -67950.564521 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.226494,0.268842) (0.300669,0.326235) (0.298757,1.104791) (0.174081,2.935168) 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/P78508/4_raxmlng_ancestral/P78508.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P78508/4_raxmlng_ancestral/P78508.raxml.ancestralStates Node-labeled tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P78508/4_raxmlng_ancestral/P78508.raxml.ancestralTree Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P78508/4_raxmlng_ancestral/P78508.raxml.log Analysis started: 04-Jun-2021 14:05:05 / finished: 04-Jun-2021 14:05:35 Elapsed time: 30.426 seconds