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 13:37:05 as follows: raxml-ng --ancestral --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O43186/2_msa/O43186_nogap_msa.fasta --tree /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O43186/3_mltree/O43186.raxml.bestTree_unrooted --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O43186/4_raxmlng_ancestral/O43186 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622803025 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/O43186/2_msa/O43186_nogap_msa.fasta [00:00:00] Loaded alignment with 999 taxa and 299 sites WARNING: Sequences tr_B4R6K6_B4R6K6_DROSI_7240 and tr_B4IJZ2_B4IJZ2_DROSE_7238 are exactly identical! WARNING: Sequences tr_A0A1I7Q437_A0A1I7Q437_CHICK_9031 and sp_F1NEA7_DMBX1_CHICK_9031 are exactly identical! WARNING: Sequences tr_Q6E236_Q6E236_CHICK_9031 and tr_U3JM64_U3JM64_FICAL_59894 are exactly identical! WARNING: Sequences tr_Q6E236_Q6E236_CHICK_9031 and tr_A0A0Q3U2T2_A0A0Q3U2T2_AMAAE_12930 are exactly identical! WARNING: Sequences tr_Q6E236_Q6E236_CHICK_9031 and tr_A0A226NXU1_A0A226NXU1_COLVI_9014 are exactly identical! WARNING: Sequences sp_Q9PVY0_RX1_CHICK_9031 and tr_A0A226MXA1_A0A226MXA1_CALSU_9009 are exactly identical! WARNING: Sequences tr_R4GG58_R4GG58_CHICK_9031 and tr_A0A226N525_A0A226N525_CALSU_9009 are exactly identical! WARNING: Sequences tr_R4GG58_R4GG58_CHICK_9031 and tr_A0A226PTV5_A0A226PTV5_COLVI_9014 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2I3GB05_A0A2I3GB05_NOMLE_61853 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_G3QTR1_G3QTR1_GORGO_9595 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_H2QPD7_H2QPD7_PANTR_9598 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A0G2JYE6_A0A0G2JYE6_RAT_10116 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and sp_Q99453_PHX2B_HUMAN_9606 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2R8PD18_A0A2R8PD18_CALJA_9483 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A287BRW7_A0A287BRW7_PIG_9823 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_E1BME7_E1BME7_BOVIN_9913 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A337SCW9_A0A337SCW9_FELCA_9685 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A096NPT4_A0A096NPT4_PAPAN_9555 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A0D9RWY9_A0A0D9RWY9_CHLSB_60711 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2K6BFM4_A0A2K6BFM4_MACNE_9545 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2U4ARL5_A0A2U4ARL5_TURTR_9739 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2U3VMC9_A0A2U3VMC9_ODORO_9708 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2Y9MLH6_A0A2Y9MLH6_DELLE_9749 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2Y9TJS7_A0A2Y9TJS7_PHYCD_9755 are exactly identical! WARNING: Sequences sp_Q62066_PHX2A_MOUSE_10090 and tr_A0A1U7QKC9_A0A1U7QKC9_MESAU_10036 are exactly identical! WARNING: Sequences tr_M3Y3F1_M3Y3F1_MUSPF_9669 and tr_A0A2U3VRB9_A0A2U3VRB9_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3Y3F1_M3Y3F1_MUSPF_9669 and tr_A0A2Y9JL57_A0A2Y9JL57_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3Y3H2_M3Y3H2_MUSPF_9669 and tr_F6R430_F6R430_HORSE_9796 are exactly identical! WARNING: Sequences tr_M3Y3H2_M3Y3H2_MUSPF_9669 and tr_F1SSM3_F1SSM3_PIG_9823 are exactly identical! WARNING: Sequences tr_M3Y3H2_M3Y3H2_MUSPF_9669 and tr_E1BNP1_E1BNP1_BOVIN_9913 are exactly identical! WARNING: Sequences tr_M3Y3H2_M3Y3H2_MUSPF_9669 and tr_L5K0M0_L5K0M0_PTEAL_9402 are exactly identical! WARNING: Sequences tr_M3Y3H2_M3Y3H2_MUSPF_9669 and tr_A0A384B089_A0A384B089_BALAS_310752 are exactly identical! WARNING: Sequences tr_M3YCW7_M3YCW7_MUSPF_9669 and tr_A0A2Y9J627_A0A2Y9J627_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3YFJ8_M3YFJ8_MUSPF_9669 and tr_E2R2D3_E2R2D3_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3YFJ8_M3YFJ8_MUSPF_9669 and tr_F6XD52_F6XD52_HORSE_9796 are exactly identical! WARNING: Sequences tr_M3YFJ8_M3YFJ8_MUSPF_9669 and tr_M3W3V9_M3W3V9_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3YFJ8_M3YFJ8_MUSPF_9669 and tr_A0A2U3VBC6_A0A2U3VBC6_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3YFJ8_M3YFJ8_MUSPF_9669 and tr_A0A2Y9L2S7_A0A2Y9L2S7_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3YMX7_M3YMX7_MUSPF_9669 and tr_G1S377_G1S377_NOMLE_61853 are exactly identical! WARNING: Sequences tr_M3YMX7_M3YMX7_MUSPF_9669 and tr_G3R8Q8_G3R8Q8_GORGO_9595 are exactly identical! WARNING: Sequences tr_M3YMX7_M3YMX7_MUSPF_9669 and tr_H0WR96_H0WR96_OTOGA_30611 are exactly identical! WARNING: Sequences tr_M3YMX7_M3YMX7_MUSPF_9669 and tr_A0A2Y9J0A9_A0A2Y9J0A9_ENHLU_391180 are exactly identical! WARNING: Sequences sp_Q9W2Q1_RX_DROME_7227 and tr_B4I7G2_B4I7G2_DROSE_7238 are exactly identical! WARNING: Sequences tr_A0A2I3H9V9_A0A2I3H9V9_NOMLE_61853 and tr_F6QW98_F6QW98_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2I3H9V9_A0A2I3H9V9_NOMLE_61853 and tr_A0A0D9RDG3_A0A0D9RDG3_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I3H9V9_A0A2I3H9V9_NOMLE_61853 and tr_A0A2K6DZR8_A0A2K6DZR8_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3HRU9_G3HRU9_CRIGR_10029 and tr_I3N222_I3N222_ICTTR_43179 are exactly identical! WARNING: Sequences tr_G3HRU9_G3HRU9_CRIGR_10029 and sp_P32243_OTX2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3HRU9_G3HRU9_CRIGR_10029 and tr_A0A1D5QAZ9_A0A1D5QAZ9_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3HRU9_G3HRU9_CRIGR_10029 and tr_A0A096NVA6_A0A096NVA6_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3HRU9_G3HRU9_CRIGR_10029 and tr_A0A2K5NJY6_A0A2K5NJY6_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3HRU9_G3HRU9_CRIGR_10029 and tr_A0A2K6E0Q8_A0A2K6E0Q8_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and tr_A0A2J8XCA9_A0A2J8XCA9_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and tr_A0A2J8N3Q6_A0A2J8N3Q6_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and sp_P32242_OTX1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and tr_F7GZ10_F7GZ10_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and tr_G7PMB0_G7PMB0_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and tr_A0A0D9RQA5_A0A0D9RQA5_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and tr_A0A2K5LT45_A0A2K5LT45_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I2YNC9_A0A2I2YNC9_GORGO_9595 and tr_A0A2R8ZZS9_A0A2R8ZZS9_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3QN58_G3QN58_GORGO_9595 and tr_H2Q8D0_H2Q8D0_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QN58_G3QN58_GORGO_9595 and tr_H0WVC0_H0WVC0_OTOGA_30611 are exactly identical! WARNING: Sequences tr_G3QN58_G3QN58_GORGO_9595 and tr_F7IK95_F7IK95_CALJA_9483 are exactly identical! WARNING: Sequences tr_G3QN58_G3QN58_GORGO_9595 and tr_G7PAC8_G7PAC8_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3QN58_G3QN58_GORGO_9595 and tr_A0A1U7U243_A0A1U7U243_TARSY_1868482 are exactly identical! WARNING: Sequences tr_G3QN58_G3QN58_GORGO_9595 and tr_A0A2R9CE23_A0A2R9CE23_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3QYQ5_G3QYQ5_GORGO_9595 and tr_A0A2J8JGN7_A0A2J8JGN7_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QYQ5_G3QYQ5_GORGO_9595 and tr_A0A2R8ZN19_A0A2R8ZN19_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3RYT0_G3RYT0_GORGO_9595 and sp_O43186_CRX_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RYT0_G3RYT0_GORGO_9595 and tr_G7PY08_G7PY08_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3RYT0_G3RYT0_GORGO_9595 and tr_A0A0A0MV98_A0A0A0MV98_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3RYT0_G3RYT0_GORGO_9595 and tr_A0A2K5NNC1_A0A2K5NNC1_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3RYT0_G3RYT0_GORGO_9595 and tr_A0A2K6BY04_A0A2K6BY04_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3RYT0_G3RYT0_GORGO_9595 and tr_A0A2K5XH63_A0A2K5XH63_MANLE_9568 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_H2R547_H2R547_PANTR_9598 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and sp_O14813_PHX2A_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1NE23_G1NE23_MELGA_9103 and tr_A0A091F2X9_A0A091F2X9_CORBR_85066 are exactly identical! WARNING: Sequences tr_G1NE23_G1NE23_MELGA_9103 and tr_A0A093Q4F8_A0A093Q4F8_9PASS_328815 are exactly identical! WARNING: Sequences tr_G1NE23_G1NE23_MELGA_9103 and tr_A0A087RHN3_A0A087RHN3_APTFO_9233 are exactly identical! WARNING: Sequences tr_Q292R2_Q292R2_DROPS_46245 and tr_B4GCX7_B4GCX7_DROPE_7234 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_D2GVQ2_D2GVQ2_AILME_9646 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A337S5S1_A0A337S5S1_FELCA_9685 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A2U3W9H4_A0A2U3W9H4_ODORO_9708 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A2U3XXC1_A0A2U3XXC1_LEPWE_9713 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A2Y9DAE5_A0A2Y9DAE5_TRIMA_127582 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A2Y9IHR8_A0A2Y9IHR8_ENHLU_391180 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A2Y9NB70_A0A2Y9NB70_DELLE_9749 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A2Y9EGB2_A0A2Y9EGB2_PHYCD_9755 are exactly identical! WARNING: Sequences tr_E2RBA9_E2RBA9_CANLF_9615 and tr_A0A384CZJ4_A0A384CZJ4_URSMA_29073 are exactly identical! WARNING: Sequences tr_E2RMY1_E2RMY1_CANLF_9615 and tr_A0A2K5M3L0_A0A2K5M3L0_CERAT_9531 are exactly identical! WARNING: Sequences tr_H2R4D6_H2R4D6_PANTR_9598 and tr_A0A2R9AW53_A0A2R9AW53_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A3B5Q688_A0A3B5Q688_XIPMA_8083 and tr_A0A087YKF0_A0A087YKF0_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A3B5Q688_A0A3B5Q688_XIPMA_8083 and tr_A0A2I4C6T8_A0A2I4C6T8_9TELE_52670 are exactly identical! WARNING: Sequences tr_A0A088AJ95_A0A088AJ95_APIME_7460 and tr_A0A2A3EUU3_A0A2A3EUU3_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A088AMF9_A0A088AMF9_APIME_7460 and tr_A0A2A3EH84_A0A2A3EH84_APICC_94128 are exactly identical! WARNING: Sequences tr_G8FU54_G8FU54_APIME_7460 and tr_A0A2A3E491_A0A2A3E491_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158NDK3_A0A158NDK3_ATTCE_12957 and tr_A0A195BQN7_A0A195BQN7_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158P0P0_A0A158P0P0_ATTCE_12957 and tr_A0A195B1D4_A0A195B1D4_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158P2G8_A0A158P2G8_ATTCE_12957 and tr_A0A026W9N1_A0A026W9N1_OOCBI_2015173 are exactly identical! WARNING: Sequences tr_H2T173_H2T173_TAKRU_31033 and tr_Q4S3X1_Q4S3X1_TETNG_99883 are exactly identical! WARNING: Sequences tr_Q6W953_Q6W953_TAKRU_31033 and tr_H3DJ24_H3DJ24_TETNG_99883 are exactly identical! WARNING: Sequences tr_A0A0I9N6Z3_A0A0I9N6Z3_BRUMA_6279 and tr_A0A0N4T096_A0A0N4T096_BRUPA_6280 are exactly identical! WARNING: Sequences tr_F6VU17_F6VU17_MACMU_9544 and tr_A0A2K5Y6H4_A0A2K5Y6H4_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7G2L1_F7G2L1_MACMU_9544 and tr_G7NVL5_G7NVL5_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7G2L1_F7G2L1_MACMU_9544 and tr_A0A096NBI1_A0A096NBI1_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7G2L1_F7G2L1_MACMU_9544 and tr_A0A2K5MRH4_A0A2K5MRH4_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7G2L1_F7G2L1_MACMU_9544 and tr_A0A2K6CRF0_A0A2K6CRF0_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7G2L1_F7G2L1_MACMU_9544 and tr_A0A2K5ZLW7_A0A2K5ZLW7_MANLE_9568 are exactly identical! WARNING: Sequences tr_H0YRH0_H0YRH0_TAEGU_59729 and tr_A0A087QMY0_A0A087QMY0_APTFO_9233 are exactly identical! WARNING: Sequences tr_H0ZS49_H0ZS49_TAEGU_59729 and tr_A0A091EVI4_A0A091EVI4_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0ZS49_H0ZS49_TAEGU_59729 and tr_A0A093QKX1_A0A093QKX1_9PASS_328815 are exactly identical! WARNING: Sequences tr_H0ZS49_H0ZS49_TAEGU_59729 and tr_A0A091VTG4_A0A091VTG4_NIPNI_128390 are exactly identical! WARNING: Sequences tr_H0ZS49_H0ZS49_TAEGU_59729 and tr_A0A087QLE2_A0A087QLE2_APTFO_9233 are exactly identical! WARNING: Sequences tr_H0ZS49_H0ZS49_TAEGU_59729 and tr_A0A093H914_A0A093H914_STRCA_441894 are exactly identical! WARNING: Sequences tr_H0ZS49_H0ZS49_TAEGU_59729 and tr_A0A091FZJ5_A0A091FZJ5_9AVES_55661 are exactly identical! WARNING: Sequences tr_H0ZS49_H0ZS49_TAEGU_59729 and tr_A0A093GZG8_A0A093GZG8_DRYPU_118200 are exactly identical! WARNING: Sequences tr_H0ZTN1_H0ZTN1_TAEGU_59729 and tr_U3JUS3_U3JUS3_FICAL_59894 are exactly identical! WARNING: Sequences tr_A0A287ARL1_A0A287ARL1_PIG_9823 and tr_A0A2Y9ESF0_A0A2Y9ESF0_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A287ARL1_A0A287ARL1_PIG_9823 and tr_A0A384AR32_A0A384AR32_BALAS_310752 are exactly identical! WARNING: Sequences tr_A8Y1Z0_A8Y1Z0_CAEBR_6238 and tr_A0A2G5VUC1_A0A2G5VUC1_9PELO_1611254 are exactly identical! WARNING: Sequences tr_E1BDA0_E1BDA0_BOVIN_9913 and tr_A0A2Y9FWZ2_A0A2Y9FWZ2_PHYCD_9755 are exactly identical! WARNING: Sequences tr_E1BDA0_E1BDA0_BOVIN_9913 and tr_A0A383ZUH6_A0A383ZUH6_BALAS_310752 are exactly identical! WARNING: Sequences tr_U3KB15_U3KB15_FICAL_59894 and tr_A0A091EAW0_A0A091EAW0_CORBR_85066 are exactly identical! WARNING: Sequences tr_U3KB15_U3KB15_FICAL_59894 and tr_A0A087QXR2_A0A087QXR2_APTFO_9233 are exactly identical! WARNING: Sequences tr_U3KB15_U3KB15_FICAL_59894 and tr_A0A091G995_A0A091G995_9AVES_55661 are exactly identical! WARNING: Sequences tr_U3KB15_U3KB15_FICAL_59894 and tr_A0A091IAF4_A0A091IAF4_CALAN_9244 are exactly identical! WARNING: Sequences tr_U3KB15_U3KB15_FICAL_59894 and tr_A0A1V4JZK8_A0A1V4JZK8_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A044R227_A0A044R227_ONCVO_6282 and tr_A0A182E8C1_A0A182E8C1_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A2K6WN75_A0A2K6WN75_ONCVO_6282 and tr_A0A182EA90_A0A182EA90_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A087XT14_A0A087XT14_POEFO_48698 and tr_A0A2U9B5B2_A0A2U9B5B2_SCOMX_52904 are exactly identical! WARNING: Sequences tr_A0A096MYH6_A0A096MYH6_PAPAN_9555 and tr_A0A0D9QVW1_A0A0D9QVW1_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A096MYH6_A0A096MYH6_PAPAN_9555 and tr_A0A2K5NYM3_A0A2K5NYM3_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A096MYH6_A0A096MYH6_PAPAN_9555 and tr_A0A2K6CSM3_A0A2K6CSM3_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A0K0FNZ5_A0A0K0FNZ5_STRVS_75913 and tr_A0A0N5BIM3_A0A0N5BIM3_STREA_174720 are exactly identical! WARNING: Sequences tr_A0A0K0DTM5_A0A0K0DTM5_STRER_6248 and tr_A0A090MXV2_A0A090MXV2_STRRB_34506 are exactly identical! WARNING: Sequences tr_A0A0N4TVE4_A0A0N4TVE4_BRUPA_6280 and tr_A0A0R3QTV4_A0A0R3QTV4_9BILA_42155 are exactly identical! WARNING: Sequences tr_A0A0M9AB81_A0A0M9AB81_9HYME_166423 and tr_A0A0L7RCH6_A0A0L7RCH6_9HYME_597456 are exactly identical! WARNING: Sequences tr_A0A0V1D166_A0A0V1D166_TRIBR_45882 and tr_A0A0V0X8G3_A0A0V0X8G3_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V1D166_A0A0V1D166_TRIBR_45882 and tr_A0A0V0UW81_A0A0V0UW81_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V1D166_A0A0V1D166_TRIBR_45882 and tr_A0A0V1L1U9_A0A0V1L1U9_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V1D166_A0A0V1D166_TRIBR_45882 and tr_A0A0V1P295_A0A0V1P295_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1D1B5_A0A0V1D1B5_TRIBR_45882 and tr_A0A0V0X908_A0A0V0X908_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V1D1B5_A0A0V1D1B5_TRIBR_45882 and tr_A0A0V0UVR3_A0A0V0UVR3_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V1D1B5_A0A0V1D1B5_TRIBR_45882 and tr_A0A0V1L2A5_A0A0V1L2A5_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V1D1B5_A0A0V1D1B5_TRIBR_45882 and tr_A0A0V0ZXE0_A0A0V0ZXE0_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V1D1B5_A0A0V1D1B5_TRIBR_45882 and tr_A0A0V1P2Q7_A0A0V1P2Q7_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1D1B5_A0A0V1D1B5_TRIBR_45882 and tr_A0A0V0U7F2_A0A0V0U7F2_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A1S3RR13_A0A1S3RR13_SALSA_8030 and tr_A0A060YC01_A0A060YC01_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A2K5KHQ6_A0A2K5KHQ6_CERAT_9531 and tr_A0A2K5XDC0_A0A2K5XDC0_MANLE_9568 are exactly identical! WARNING: Duplicate sequences found: 149 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/O43186/4_raxmlng_ancestral/O43186.raxml.reduced.phy Alignment comprises 1 partitions and 299 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 299 Gaps: 37.45 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O43186/4_raxmlng_ancestral/O43186.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/O43186/3_mltree/O43186.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 75 / 6000 [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: -205619.250247 [00:00:00 -205619.250247] Initial branch length optimization [00:00:01 -98901.757444] Model parameter optimization (eps = 0.100000) [00:00:26] Tree #1, final logLikelihood: -98818.145062 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.118404,0.080809) (0.122714,0.239192) (0.227951,0.661990) (0.530931,1.525957) 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/O43186/4_raxmlng_ancestral/O43186.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O43186/4_raxmlng_ancestral/O43186.raxml.ancestralStates Node-labeled tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O43186/4_raxmlng_ancestral/O43186.raxml.ancestralTree Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O43186/4_raxmlng_ancestral/O43186.raxml.log Analysis started: 04-Jun-2021 13:37:05 / finished: 04-Jun-2021 13:37:34 Elapsed time: 29.602 seconds