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 04-Jul-2021 00:14:29 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/2_msa/Q9P2R6_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/3_mltree/Q9P2R6 --seed 2 --threads 3 --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 (3 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/2_msa/Q9P2R6_trimmed_msa.fasta [00:00:00] Loaded alignment with 487 taxa and 129 sites WARNING: Sequences tr_A0A1D5P0K8_A0A1D5P0K8_CHICK_9031 and tr_U3IQV0_U3IQV0_ANAPL_8839 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_G1N028_G1N028_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_H1A3M9_H1A3M9_TAEGU_59729 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_U3JLT6_U3JLT6_FICAL_59894 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_U3J6W6_U3J6W6_ANAPL_8839 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_A0A151NSM9_A0A151NSM9_ALLMI_8496 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_A0A0Q3LW03_A0A0Q3LW03_AMAAE_12930 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_A0A093HEK0_A0A093HEK0_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_A0A091WH69_A0A091WH69_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_A0A1V4JYC9_A0A1V4JYC9_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_A0A218V4P8_A0A218V4P8_9PASE_299123 are exactly identical! WARNING: Sequences tr_A0A1D5PQ86_A0A1D5PQ86_CHICK_9031 and tr_A0A226MR47_A0A226MR47_CALSU_9009 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_G1RC82_G1RC82_NOMLE_61853 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_G3I9C9_G3I9C9_CRIGR_10029 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_H2N984_H2N984_PONAB_9601 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_H2PXY0_H2PXY0_PANTR_9598 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_F6Q1S6_F6Q1S6_HORSE_9796 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and sp_Q62901_RERE_RAT_10116 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and sp_Q9P2R6_RERE_HUMAN_9606 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_F7GDU0_F7GDU0_MACMU_9544 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_G3SR00_G3SR00_LOXAF_9785 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_U3DEX4_U3DEX4_CALJA_9483 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A337S0N0_A0A337S0N0_FELCA_9685 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A096NQY8_A0A096NQY8_PAPAN_9555 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A0D9S8Q8_A0A0D9S8Q8_CHLSB_60711 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A1U7TRV1_A0A1U7TRV1_TARSY_1868482 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A1U8C7N5_A0A1U8C7N5_MESAU_10036 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A2K5KJU2_A0A2K5KJU2_CERAT_9531 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A2K6C955_A0A2K6C955_MACNE_9545 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A2K6AFA5_A0A2K6AFA5_MANLE_9568 are exactly identical! WARNING: Sequences sp_Q80TZ9_RERE_MOUSE_10090 and tr_A0A2Y9E2X6_A0A2Y9E2X6_TRIMA_127582 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2I3HY09_A0A2I3HY09_NOMLE_61853 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_G3RCK9_G3RCK9_GORGO_9595 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_G1SW10_G1SW10_RABIT_9986 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_E2R655_E2R655_CANLF_9615 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2I3S626_A0A2I3S626_PANTR_9598 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_B2GV01_B2GV01_RAT_10116 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_H0VQP4_H0VQP4_CAVPO_10141 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and sp_O94776_MTA2_HUMAN_9606 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_F7EC89_F7EC89_MACMU_9544 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_G3UH97_G3UH97_LOXAF_9785 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_U3DCV0_U3DCV0_CALJA_9483 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_G1LJG9_G1LJG9_AILME_9646 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_G7PPU2_G7PPU2_MACFA_9541 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_M3WAC7_M3WAC7_FELCA_9685 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2I3MQH2_A0A2I3MQH2_PAPAN_9555 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A0D9R2L9_A0A0D9R2L9_CHLSB_60711 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A1S2ZY72_A0A1S2ZY72_ERIEU_9365 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A1U7U5T9_A0A1U7U5T9_TARSY_1868482 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2K5MQ75_A0A2K5MQ75_CERAT_9531 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2K6DLC3_A0A2K6DLC3_MACNE_9545 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2U3WWL1_A0A2U3WWL1_ODORO_9708 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2U3XG07_A0A2U3XG07_LEPWE_9713 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2Y9DZD0_A0A2Y9DZD0_TRIMA_127582 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A2Y9JRC5_A0A2Y9JRC5_ENHLU_391180 are exactly identical! WARNING: Sequences sp_Q9R190_MTA2_MOUSE_10090 and tr_A0A384DG33_A0A384DG33_URSMA_29073 are exactly identical! WARNING: Sequences tr_M3Y4U6_M3Y4U6_MUSPF_9669 and tr_G1LAR3_G1LAR3_AILME_9646 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A2I2ZME1_A0A2I2ZME1_GORGO_9595 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_F1PP42_F1PP42_CANLF_9615 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A2I3T0Q2_A0A2I3T0Q2_PANTR_9598 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_H9GZV4_H9GZV4_HORSE_9796 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and sp_Q13330_MTA1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A1D5Q2E5_A0A1D5Q2E5_MACMU_9544 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_U3EMS6_U3EMS6_CALJA_9483 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_G7P8Y6_G7P8Y6_MACFA_9541 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_G3MXY7_G3MXY7_BOVIN_9913 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A337SW87_A0A337SW87_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A096NK80_A0A096NK80_PAPAN_9555 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A2K5MLF0_A0A2K5MLF0_CERAT_9531 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A2K6EAA3_A0A2K6EAA3_MACNE_9545 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A2K5YVL4_A0A2K5YVL4_MANLE_9568 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A2R9C6U4_A0A2R9C6U4_PANPA_9597 are exactly identical! WARNING: Sequences tr_M3Y9U1_M3Y9U1_MUSPF_9669 and tr_A0A2U3VL43_A0A2U3VL43_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_A0A2I3GAL9_A0A2I3GAL9_NOMLE_61853 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_H2NGA9_H2NGA9_PONAB_9601 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_G1TNE9_G1TNE9_RABIT_9986 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and sp_Q5IS70_ATN1_PANTR_9598 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_I3N3A4_I3N3A4_ICTTR_43179 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_H0WVA9_H0WVA9_OTOGA_30611 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and sp_P54259_ATN1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_G3TAL7_G3TAL7_LOXAF_9785 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_F7E3X5_F7E3X5_CALJA_9483 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_I3L8Y8_I3L8Y8_PIG_9823 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_M3X9R4_M3X9R4_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_A0A1S3AM17_A0A1S3AM17_ERIEU_9365 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_A0A2U3WWQ3_A0A2U3WWQ3_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_A0A2U3Y2K1_A0A2U3Y2K1_LEPWE_9713 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_A0A2Y9T835_A0A2Y9T835_PHYCD_9755 are exactly identical! WARNING: Sequences tr_M3YZA3_M3YZA3_MUSPF_9669 and tr_A0A383Z5N2_A0A383Z5N2_BALAS_310752 are exactly identical! WARNING: Sequences tr_M9PHT1_M9PHT1_DROME_7227 and tr_A0A0R3P4T8_A0A0R3P4T8_DROPS_46245 are exactly identical! WARNING: Sequences tr_M9PHT1_M9PHT1_DROME_7227 and tr_A0A0Q9WTM4_A0A0Q9WTM4_DROVI_7244 are exactly identical! WARNING: Sequences tr_M9PHT1_M9PHT1_DROME_7227 and tr_B4KZ40_B4KZ40_DROMO_7230 are exactly identical! WARNING: Sequences tr_M9PHT1_M9PHT1_DROME_7227 and tr_A0A1W4UF26_A0A1W4UF26_DROFC_30025 are exactly identical! WARNING: Sequences tr_H2LLW6_H2LLW6_ORYLA_8090 and tr_I3J2C8_I3J2C8_ORENI_8128 are exactly identical! WARNING: Sequences tr_H2LLW6_H2LLW6_ORYLA_8090 and tr_A0A2I4C7B1_A0A2I4C7B1_9TELE_52670 are exactly identical! WARNING: Sequences tr_B4IWN6_B4IWN6_DROGR_7222 and tr_A0A0M4ED56_A0A0M4ED56_DROBS_30019 are exactly identical! WARNING: Sequences tr_G1NT46_G1NT46_MYOLU_59463 and tr_W5Q159_W5Q159_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G1NT46_G1NT46_MYOLU_59463 and tr_H0WHA8_H0WHA8_OTOGA_30611 are exactly identical! WARNING: Sequences tr_G1NT46_G1NT46_MYOLU_59463 and tr_Q1RMW3_Q1RMW3_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G1NT46_G1NT46_MYOLU_59463 and tr_A0A2Y9PKM2_A0A2Y9PKM2_DELLE_9749 are exactly identical! WARNING: Sequences tr_G1NT46_G1NT46_MYOLU_59463 and tr_A0A2Y9TJZ5_A0A2Y9TJZ5_PHYCD_9755 are exactly identical! WARNING: Sequences tr_G1NT46_G1NT46_MYOLU_59463 and tr_A0A383ZHA3_A0A383ZHA3_BALAS_310752 are exactly identical! WARNING: Sequences tr_G3H3B1_G3H3B1_CRIGR_10029 and tr_A0A1U8BKE6_A0A1U8BKE6_MESAU_10036 are exactly identical! WARNING: Sequences tr_G3I069_G3I069_CRIGR_10029 and tr_A0A3Q0CGV2_A0A3Q0CGV2_MESAU_10036 are exactly identical! WARNING: Sequences tr_G1MX27_G1MX27_MELGA_9103 and tr_A0A0Q3LZE3_A0A0Q3LZE3_AMAAE_12930 are exactly identical! WARNING: Sequences tr_G1MX27_G1MX27_MELGA_9103 and tr_A0A093Q8Y8_A0A093Q8Y8_9PASS_328815 are exactly identical! WARNING: Sequences tr_G1MX27_G1MX27_MELGA_9103 and tr_A0A091WNK1_A0A091WNK1_OPIHO_30419 are exactly identical! WARNING: Sequences tr_G1MX27_G1MX27_MELGA_9103 and tr_A0A218UHU3_A0A218UHU3_9PASE_299123 are exactly identical! WARNING: Sequences tr_H2RGA8_H2RGA8_PANTR_9598 and tr_A0A2R9CCF9_A0A2R9CCF9_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A3B5REB2_A0A3B5REB2_XIPMA_8083 and tr_A0A087Y938_A0A087Y938_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A158P366_A0A158P366_ATTCE_12957 and tr_A0A195DN62_A0A195DN62_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A158P366_A0A158P366_ATTCE_12957 and tr_A0A195BHC7_A0A195BHC7_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158P366_A0A158P366_ATTCE_12957 and tr_A0A195CDB4_A0A195CDB4_9HYME_456900 are exactly identical! WARNING: Sequences tr_A0A287D1C7_A0A287D1C7_ICTTR_43179 and tr_A0A2U3VQY1_A0A2U3VQY1_ODORO_9708 are exactly identical! WARNING: Sequences tr_A0A287D1C7_A0A287D1C7_ICTTR_43179 and tr_A0A2Y9KEY0_A0A2Y9KEY0_ENHLU_391180 are exactly identical! WARNING: Sequences tr_A0A287D1C7_A0A287D1C7_ICTTR_43179 and tr_A0A384CE92_A0A384CE92_URSMA_29073 are exactly identical! WARNING: Sequences tr_H2U626_H2U626_TAKRU_31033 and tr_H3CG45_H3CG45_TETNG_99883 are exactly identical! WARNING: Sequences tr_H0VUI7_H0VUI7_CAVPO_10141 and tr_A0A091CW01_A0A091CW01_FUKDA_885580 are exactly identical! WARNING: Sequences tr_F7G4Z0_F7G4Z0_MACMU_9544 and tr_A0A096MVL8_A0A096MVL8_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7G4Z0_F7G4Z0_MACMU_9544 and tr_A0A0D9RCS4_A0A0D9RCS4_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7G4Z0_F7G4Z0_MACMU_9544 and tr_A0A2K5KR54_A0A2K5KR54_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7G4Z0_F7G4Z0_MACMU_9544 and tr_A0A2K6CWD9_A0A2K6CWD9_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7G4Z0_F7G4Z0_MACMU_9544 and tr_A0A2K5XVX6_A0A2K5XVX6_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A286ZKS0_A0A286ZKS0_PIG_9823 and tr_F1MGR3_F1MGR3_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A286ZKS0_A0A286ZKS0_PIG_9823 and tr_A0A2Y9QA14_A0A2Y9QA14_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A286ZKS0_A0A286ZKS0_PIG_9823 and tr_A0A2Y9ST77_A0A2Y9ST77_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A286ZKS0_A0A286ZKS0_PIG_9823 and tr_A0A383Z506_A0A383Z506_BALAS_310752 are exactly identical! WARNING: Sequences tr_L5KGV4_L5KGV4_PTEAL_9402 and tr_A0A2U9AXN0_A0A2U9AXN0_SCOMX_52904 are exactly identical! WARNING: Sequences tr_U3JPZ9_U3JPZ9_FICAL_59894 and tr_A0A218VDT3_A0A218VDT3_9PASE_299123 are exactly identical! WARNING: Sequences tr_A0A0V0RKL6_A0A0V0RKL6_9BILA_6336 and tr_A0A0V1CVQ9_A0A0V1CVQ9_TRIBR_45882 are exactly identical! WARNING: Sequences tr_A0A0V0RKL6_A0A0V0RKL6_9BILA_6336 and tr_A0A0V0WX24_A0A0V0WX24_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V0RKL6_A0A0V0RKL6_9BILA_6336 and tr_A0A0V0VA85_A0A0V0VA85_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V0RKL6_A0A0V0RKL6_9BILA_6336 and tr_A0A0V1LIC2_A0A0V1LIC2_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0RKL6_A0A0V0RKL6_9BILA_6336 and tr_A0A0V1PB70_A0A0V1PB70_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0RKL6_A0A0V0RKL6_9BILA_6336 and tr_A0A0V0TNE4_A0A0V0TNE4_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A1S3GE83_A0A1S3GE83_DIPOR_10020 and tr_A0A3Q0FMI4_A0A3Q0FMI4_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A1S3GNZ9_A0A1S3GNZ9_DIPOR_10020 and tr_A0A2U3XTE3_A0A2U3XTE3_LEPWE_9713 are exactly identical! WARNING: Sequences tr_A0A1S3LA53_A0A1S3LA53_SALSA_8030 and tr_A0A060WYN7_A0A060WYN7_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1S3P6Y5_A0A1S3P6Y5_SALSA_8030 and tr_A0A060W835_A0A060W835_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A060YCD1_A0A060YCD1_ONCMY_8022 and tr_A0A060Z357_A0A060Z357_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A226MYQ8_A0A226MYQ8_CALSU_9009 and tr_A0A226P8C0_A0A226P8C0_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2D0QRT0_A0A2D0QRT0_ICTPU_7998 and tr_A0A2D0QS84_A0A2D0QS84_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2Y9NF86_A0A2Y9NF86_DELLE_9749 and tr_A0A2Y9TDE6_A0A2Y9TDE6_PHYCD_9755 are exactly identical! WARNING: Duplicate sequences found: 143 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/Q9P2R6/3_mltree/Q9P2R6.raxml.reduced.phy Alignment comprises 1 partitions and 129 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 129 / 129 Gaps: 13.90 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/3_mltree/Q9P2R6.raxml.rba Parallelization scheme autoconfig: 3 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 487 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 129 / 10320 [00:00:00] Data distribution: max. searches per worker: 7 Starting ML tree search with 20 distinct starting trees [00:00:00 -88660.738111] Initial branch length optimization [00:00:01 -69765.078475] Model parameter optimization (eps = 10.000000) [00:00:21 -68723.995402] AUTODETECT spr round 1 (radius: 5) [00:00:52 -38033.499585] AUTODETECT spr round 2 (radius: 10) [00:01:28 -23649.411147] AUTODETECT spr round 3 (radius: 15) [00:02:10 -18980.816091] AUTODETECT spr round 4 (radius: 20) [00:02:58 -17198.636461] AUTODETECT spr round 5 (radius: 25) [00:03:49 -16382.509168] SPR radius for FAST iterations: 25 (autodetect) [00:03:49 -16382.509168] Model parameter optimization (eps = 3.000000) [00:04:04 -16315.162584] FAST spr round 1 (radius: 25) [00:04:47 -14508.086027] FAST spr round 2 (radius: 25) [00:05:22 -14402.080744] FAST spr round 3 (radius: 25) [00:05:51 -14395.531656] FAST spr round 4 (radius: 25) [00:06:18 -14395.117309] FAST spr round 5 (radius: 25) [00:06:45 -14394.543212] FAST spr round 6 (radius: 25) [00:07:11 -14394.483126] Model parameter optimization (eps = 1.000000) [00:07:19 -14390.581453] SLOW spr round 1 (radius: 5) [00:07:52 -14386.618495] SLOW spr round 2 (radius: 5) [00:08:26 -14386.617319] SLOW spr round 3 (radius: 10) [00:09:04 -14386.354056] SLOW spr round 4 (radius: 5) [00:09:48 -14385.125210] SLOW spr round 5 (radius: 5) [00:10:26 -14385.124018] SLOW spr round 6 (radius: 10) [00:11:06 -14377.291336] SLOW spr round 7 (radius: 5) [00:11:49 -14376.594547] SLOW spr round 8 (radius: 5) [00:12:28 -14376.306415] SLOW spr round 9 (radius: 5) [00:13:01 -14376.306247] SLOW spr round 10 (radius: 10) [00:13:37 -14376.306231] SLOW spr round 11 (radius: 15) [00:14:28 -14376.306224] SLOW spr round 12 (radius: 20) [00:15:30 -14376.306222] SLOW spr round 13 (radius: 25) [00:16:43 -14376.306221] Model parameter optimization (eps = 0.100000) [00:16:49] [worker #0] ML tree search #1, logLikelihood: -14376.095684 [00:16:49 -88690.752917] Initial branch length optimization [00:16:51 -70690.782369] Model parameter optimization (eps = 10.000000) [00:17:05 -69695.795107] AUTODETECT spr round 1 (radius: 5) [00:17:20] [worker #1] ML tree search #2, logLikelihood: -14372.283626 [00:17:36 -37722.109634] AUTODETECT spr round 2 (radius: 10) [00:18:11 -25949.618700] AUTODETECT spr round 3 (radius: 15) [00:18:54 -19793.792461] AUTODETECT spr round 4 (radius: 20) [00:19:46 -17044.472928] AUTODETECT spr round 5 (radius: 25) [00:20:15] [worker #2] ML tree search #3, logLikelihood: -14372.288278 [00:20:44 -16354.157471] SPR radius for FAST iterations: 25 (autodetect) [00:20:44 -16354.157471] Model parameter optimization (eps = 3.000000) [00:20:57 -16294.389623] FAST spr round 1 (radius: 25) [00:21:36 -14696.320190] FAST spr round 2 (radius: 25) [00:22:09 -14458.397152] FAST spr round 3 (radius: 25) [00:22:38 -14452.218107] FAST spr round 4 (radius: 25) [00:23:05 -14449.170370] FAST spr round 5 (radius: 25) [00:23:32 -14449.170031] Model parameter optimization (eps = 1.000000) [00:23:37 -14448.639621] SLOW spr round 1 (radius: 5) [00:24:12 -14446.573860] SLOW spr round 2 (radius: 5) [00:24:45 -14446.573651] SLOW spr round 3 (radius: 10) [00:25:21 -14441.495543] SLOW spr round 4 (radius: 5) [00:26:05 -14441.413544] SLOW spr round 5 (radius: 10) [00:26:50 -14408.123359] SLOW spr round 6 (radius: 5) [00:27:34 -14400.716845] SLOW spr round 7 (radius: 5) [00:28:12 -14399.766577] SLOW spr round 8 (radius: 5) [00:28:46 -14399.765213] SLOW spr round 9 (radius: 10) [00:29:22 -14399.765170] SLOW spr round 10 (radius: 15) [00:30:21 -14395.305398] SLOW spr round 11 (radius: 5) [00:31:08 -14395.140086] SLOW spr round 12 (radius: 5) [00:31:48 -14395.137475] SLOW spr round 13 (radius: 10) [00:32:28 -14395.137101] SLOW spr round 14 (radius: 15) [00:33:22 -14395.137049] SLOW spr round 15 (radius: 20) [00:34:33 -14395.137041] SLOW spr round 16 (radius: 25) [00:35:05] [worker #2] ML tree search #6, logLikelihood: -14396.295802 [00:35:45 -14395.137038] Model parameter optimization (eps = 0.100000) [00:35:51] [worker #0] ML tree search #4, logLikelihood: -14394.766259 [00:35:51 -87991.136206] Initial branch length optimization [00:35:52 -70101.031603] Model parameter optimization (eps = 10.000000) [00:36:12 -69148.567434] AUTODETECT spr round 1 (radius: 5) [00:36:43 -39115.814045] AUTODETECT spr round 2 (radius: 10) [00:37:20 -23457.947974] AUTODETECT spr round 3 (radius: 15) [00:38:06 -16757.010467] AUTODETECT spr round 4 (radius: 20) [00:38:16] [worker #1] ML tree search #5, logLikelihood: -14373.701487 [00:39:02 -15988.798029] AUTODETECT spr round 5 (radius: 25) [00:40:02 -15921.535770] SPR radius for FAST iterations: 25 (autodetect) [00:40:02 -15921.535770] Model parameter optimization (eps = 3.000000) [00:40:19 -15860.545188] FAST spr round 1 (radius: 25) [00:41:01 -14442.270588] FAST spr round 2 (radius: 25) [00:41:34 -14395.259207] FAST spr round 3 (radius: 25) [00:42:04 -14392.457211] FAST spr round 4 (radius: 25) [00:42:32 -14392.454487] Model parameter optimization (eps = 1.000000) [00:42:43 -14385.075262] SLOW spr round 1 (radius: 5) [00:43:17 -14379.607778] SLOW spr round 2 (radius: 5) [00:43:52 -14378.582719] SLOW spr round 3 (radius: 5) [00:44:26 -14378.581683] SLOW spr round 4 (radius: 10) [00:45:03 -14378.581007] SLOW spr round 5 (radius: 15) [00:46:02 -14375.634235] SLOW spr round 6 (radius: 5) [00:46:49 -14374.360630] SLOW spr round 7 (radius: 5) [00:47:29 -14374.358844] SLOW spr round 8 (radius: 10) [00:48:11 -14372.823806] SLOW spr round 9 (radius: 5) [00:48:54 -14372.822872] SLOW spr round 10 (radius: 10) [00:49:37 -14372.822835] SLOW spr round 11 (radius: 15) [00:50:31 -14372.822827] SLOW spr round 12 (radius: 20) [00:51:40 -14372.822825] SLOW spr round 13 (radius: 25) [00:52:51 -14372.822824] Model parameter optimization (eps = 0.100000) [00:52:57] [worker #0] ML tree search #7, logLikelihood: -14372.383894 [00:52:57 -88809.077553] Initial branch length optimization [00:52:58 -70894.073596] Model parameter optimization (eps = 10.000000) [00:53:11 -69883.869633] AUTODETECT spr round 1 (radius: 5) [00:53:42 -37548.358700] AUTODETECT spr round 2 (radius: 10) [00:54:18 -26281.766340] AUTODETECT spr round 3 (radius: 15) [00:54:54] [worker #2] ML tree search #9, logLikelihood: -14378.393087 [00:54:59 -22016.522686] AUTODETECT spr round 4 (radius: 20) [00:55:49 -18490.965506] AUTODETECT spr round 5 (radius: 25) [00:56:47 -16141.222148] SPR radius for FAST iterations: 25 (autodetect) [00:56:47 -16141.222148] Model parameter optimization (eps = 3.000000) [00:56:59 -16091.557828] FAST spr round 1 (radius: 25) [00:57:37 -14621.177905] FAST spr round 2 (radius: 25) [00:58:12 -14413.983449] FAST spr round 3 (radius: 25) [00:58:42 -14399.327096] FAST spr round 4 (radius: 25) [00:59:10 -14393.967046] FAST spr round 5 (radius: 25) [00:59:37 -14392.584702] FAST spr round 6 (radius: 25) [01:00:03 -14392.584343] Model parameter optimization (eps = 1.000000) [01:00:14 -14387.842623] SLOW spr round 1 (radius: 5) [01:00:48 -14381.063802] SLOW spr round 2 (radius: 5) [01:01:21 -14381.036407] SLOW spr round 3 (radius: 10) [01:01:58 -14379.597854] SLOW spr round 4 (radius: 5) [01:02:44 -14376.656232] SLOW spr round 5 (radius: 5) [01:03:23 -14376.652413] SLOW spr round 6 (radius: 10) [01:04:02 -14376.652384] SLOW spr round 7 (radius: 15) [01:04:57 -14376.408312] SLOW spr round 8 (radius: 5) [01:05:42 -14376.408283] SLOW spr round 9 (radius: 10) [01:06:29 -14375.784863] SLOW spr round 10 (radius: 5) [01:07:12 -14375.289601] SLOW spr round 11 (radius: 5) [01:07:49 -14375.288285] SLOW spr round 12 (radius: 10) [01:08:27 -14375.288164] SLOW spr round 13 (radius: 15) [01:09:18] [worker #1] ML tree search #8, logLikelihood: -14361.752537 [01:09:21 -14375.288151] SLOW spr round 14 (radius: 20) [01:10:27 -14375.288149] SLOW spr round 15 (radius: 25) [01:11:32 -14375.288148] Model parameter optimization (eps = 0.100000) [01:11:36] [worker #0] ML tree search #10, logLikelihood: -14375.223426 [01:11:36 -85857.322499] Initial branch length optimization [01:11:37 -67707.797969] Model parameter optimization (eps = 10.000000) [01:11:50 -66880.964926] AUTODETECT spr round 1 (radius: 5) [01:12:21 -37851.433553] AUTODETECT spr round 2 (radius: 10) [01:12:56 -25812.849923] AUTODETECT spr round 3 (radius: 15) [01:13:41 -18907.167768] AUTODETECT spr round 4 (radius: 20) [01:14:28 -18017.156053] AUTODETECT spr round 5 (radius: 25) [01:14:41] [worker #2] ML tree search #12, logLikelihood: -14371.944990 [01:15:22 -16975.470503] SPR radius for FAST iterations: 25 (autodetect) [01:15:22 -16975.470503] Model parameter optimization (eps = 3.000000) [01:15:39 -16925.306734] FAST spr round 1 (radius: 25) [01:16:18 -14556.461958] FAST spr round 2 (radius: 25) [01:16:48 -14397.265817] FAST spr round 3 (radius: 25) [01:17:16 -14390.994465] FAST spr round 4 (radius: 25) [01:17:44 -14390.790318] FAST spr round 5 (radius: 25) [01:18:10 -14390.790235] Model parameter optimization (eps = 1.000000) [01:18:18 -14383.983102] SLOW spr round 1 (radius: 5) [01:18:51 -14380.746769] SLOW spr round 2 (radius: 5) [01:19:25 -14380.431514] SLOW spr round 3 (radius: 5) [01:19:56 -14380.416647] SLOW spr round 4 (radius: 10) [01:20:33 -14380.412546] SLOW spr round 5 (radius: 15) [01:21:26 -14378.809687] SLOW spr round 6 (radius: 5) [01:22:12 -14377.451686] SLOW spr round 7 (radius: 5) [01:22:50 -14377.451108] SLOW spr round 8 (radius: 10) [01:23:30 -14377.097367] SLOW spr round 9 (radius: 5) [01:24:11 -14377.097362] SLOW spr round 10 (radius: 10) [01:24:53 -14377.097361] SLOW spr round 11 (radius: 15) [01:25:44 -14377.097360] SLOW spr round 12 (radius: 20) [01:26:50 -14377.097360] SLOW spr round 13 (radius: 25) [01:27:39] [worker #1] ML tree search #11, logLikelihood: -14379.164203 [01:28:05 -14377.097359] Model parameter optimization (eps = 0.100000) [01:28:09] [worker #0] ML tree search #13, logLikelihood: -14377.075559 [01:28:09 -87975.894209] Initial branch length optimization [01:28:09 -69912.733865] Model parameter optimization (eps = 10.000000) [01:28:24 -68943.084043] AUTODETECT spr round 1 (radius: 5) [01:28:55 -38577.119308] AUTODETECT spr round 2 (radius: 10) [01:29:31 -26390.962544] AUTODETECT spr round 3 (radius: 15) [01:30:12 -21606.742572] AUTODETECT spr round 4 (radius: 20) [01:31:09 -17980.048372] AUTODETECT spr round 5 (radius: 25) [01:32:07 -16671.727129] SPR radius for FAST iterations: 25 (autodetect) [01:32:07 -16671.727129] Model parameter optimization (eps = 3.000000) [01:32:22 -16601.155236] FAST spr round 1 (radius: 25) [01:33:03 -14518.309821] FAST spr round 2 (radius: 25) [01:33:35 -14405.221449] FAST spr round 3 (radius: 25) [01:33:39] [worker #2] ML tree search #15, logLikelihood: -14379.488803 [01:34:05 -14388.174811] FAST spr round 4 (radius: 25) [01:34:32 -14388.174024] Model parameter optimization (eps = 1.000000) [01:34:40 -14386.260763] SLOW spr round 1 (radius: 5) [01:35:15 -14383.102592] SLOW spr round 2 (radius: 5) [01:35:49 -14383.102140] SLOW spr round 3 (radius: 10) [01:36:26 -14381.985816] SLOW spr round 4 (radius: 5) [01:37:12 -14379.931072] SLOW spr round 5 (radius: 5) [01:37:53 -14379.431078] SLOW spr round 6 (radius: 5) [01:38:30 -14379.423486] SLOW spr round 7 (radius: 10) [01:39:08 -14376.839261] SLOW spr round 8 (radius: 5) [01:39:53 -14376.838528] SLOW spr round 9 (radius: 10) [01:40:37 -14376.838498] SLOW spr round 10 (radius: 15) [01:41:29 -14374.278381] SLOW spr round 11 (radius: 5) [01:41:47] [worker #1] ML tree search #14, logLikelihood: -14379.965930 [01:42:16 -14374.274795] SLOW spr round 12 (radius: 10) [01:43:02 -14374.274403] SLOW spr round 13 (radius: 15) [01:43:54 -14374.274368] SLOW spr round 14 (radius: 20) [01:45:05 -14374.274364] SLOW spr round 15 (radius: 25) [01:46:25 -14374.274360] Model parameter optimization (eps = 0.100000) [01:46:34] [worker #0] ML tree search #16, logLikelihood: -14372.137950 [01:46:34 -87838.159064] Initial branch length optimization [01:46:35 -70131.397688] Model parameter optimization (eps = 10.000000) [01:46:59 -69256.912292] AUTODETECT spr round 1 (radius: 5) [01:47:29 -37674.325116] AUTODETECT spr round 2 (radius: 10) [01:48:05 -27151.362249] AUTODETECT spr round 3 (radius: 15) [01:48:49 -20404.055743] AUTODETECT spr round 4 (radius: 20) [01:49:34 -17897.655552] AUTODETECT spr round 5 (radius: 25) [01:50:29 -16875.442636] SPR radius for FAST iterations: 25 (autodetect) [01:50:29 -16875.442636] Model parameter optimization (eps = 3.000000) [01:50:44 -16796.732401] FAST spr round 1 (radius: 25) [01:51:24 -14491.290473] FAST spr round 2 (radius: 25) [01:51:57 -14391.745001] FAST spr round 3 (radius: 25) [01:52:28 -14377.565463] FAST spr round 4 (radius: 25) [01:52:55 -14376.269218] FAST spr round 5 (radius: 25) [01:53:22 -14373.476625] FAST spr round 6 (radius: 25) [01:53:48 -14373.476061] Model parameter optimization (eps = 1.000000) [01:53:55 -14369.476543] SLOW spr round 1 (radius: 5) [01:54:28 -14367.403083] SLOW spr round 2 (radius: 5) [01:55:02 -14367.302894] SLOW spr round 3 (radius: 5) [01:55:34 -14367.302085] SLOW spr round 4 (radius: 10) [01:56:10 -14363.582915] SLOW spr round 5 (radius: 5) [01:56:54 -14363.352659] SLOW spr round 6 (radius: 5) [01:57:26] [worker #2] ML tree search #18, logLikelihood: -14370.898345 [01:57:33 -14363.214108] SLOW spr round 7 (radius: 5) [01:58:06 -14363.214022] SLOW spr round 8 (radius: 10) [01:58:14] [worker #1] ML tree search #17, logLikelihood: -14389.414305 [01:58:42 -14363.213963] SLOW spr round 9 (radius: 15) [01:59:37 -14363.213944] SLOW spr round 10 (radius: 20) [02:00:45 -14363.213926] SLOW spr round 11 (radius: 25) [02:01:57 -14363.213909] Model parameter optimization (eps = 0.100000) [02:02:01] [worker #0] ML tree search #19, logLikelihood: -14363.162693 [02:19:07] [worker #1] ML tree search #20, logLikelihood: -14382.242405 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.165232,0.602011) (0.086024,1.127190) (0.462676,0.775485) (0.286067,1.554754) 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: -14361.752537 AIC score: 30677.505073 / AICc score: 1941689.505073 / BIC score: 33471.541793 Free parameters (model + branch lengths): 977 WARNING: Number of free parameters (K=977) is larger than alignment size (n=129). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 254 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/3_mltree/Q9P2R6.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/3_mltree/Q9P2R6.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/3_mltree/Q9P2R6.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/3_mltree/Q9P2R6.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q9P2R6/3_mltree/Q9P2R6.raxml.log Analysis started: 04-Jul-2021 00:14:29 / finished: 04-Jul-2021 02:33:36 Elapsed time: 8347.680 seconds Consumed energy: 729.948 Wh (= 4 km in an electric car, or 18 km with an e-scooter!)