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 6258R CPU @ 2.70GHz, 56 cores, 187 GB RAM RAxML-NG was called at 04-Jun-2021 03:53:03 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/2_msa/P41181_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181 --seed 2 --threads 4 --tree rand{20} pars{20} Analysis options: run mode: ML tree search start tree(s): random (20) random seed: 2 tip-inner: OFF pattern compression: ON per-rate scalers: OFF site repeats: ON fast spr radius: AUTO spr subtree cutoff: 1.000000 branch lengths: proportional (ML estimate, algorithm: NR-FAST) SIMD kernels: AVX2 parallelization: coarse-grained (auto), PTHREADS (4 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/2_msa/P41181_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 202 sites WARNING: Sequences tr_B4Q8B5_B4Q8B5_DROSI_7240 and sp_P23645_BIB_DROME_7227 are exactly identical! WARNING: Sequences tr_B4QBL5_B4QBL5_DROSI_7240 and tr_D3DMU9_D3DMU9_DROME_7227 are exactly identical! WARNING: Sequences tr_B4QBL5_B4QBL5_DROSI_7240 and tr_B4HNI2_B4HNI2_DROSE_7238 are exactly identical! WARNING: Sequences tr_A0A1D5P9U9_A0A1D5P9U9_CHICK_9031 and tr_G1NDY2_G1NDY2_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5P9U9_A0A1D5P9U9_CHICK_9031 and tr_A0A226NS40_A0A226NS40_COLVI_9014 are exactly identical! WARNING: Sequences tr_F1NTP3_F1NTP3_CHICK_9031 and tr_G1ND84_G1ND84_MELGA_9103 are exactly identical! WARNING: Sequences tr_F1NTP3_F1NTP3_CHICK_9031 and tr_A0A226ND65_A0A226ND65_CALSU_9009 are exactly identical! WARNING: Sequences tr_Q2MCJ7_Q2MCJ7_CHICK_9031 and tr_G1MSG4_G1MSG4_MELGA_9103 are exactly identical! WARNING: Sequences tr_M3Y5D3_M3Y5D3_MUSPF_9669 and tr_A0A2Y9ISE7_A0A2Y9ISE7_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G1S800_G1S800_NOMLE_61853 and tr_A0A2I3S3K4_A0A2I3S3K4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1S800_G1S800_NOMLE_61853 and tr_A0A2R9CFL8_A0A2R9CFL8_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3HX61_G3HX61_CRIGR_10029 and tr_A0A1U7QGW4_A0A1U7QGW4_MESAU_10036 are exactly identical! WARNING: Sequences tr_G3QSX6_G3QSX6_GORGO_9595 and tr_H2NH89_H2NH89_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3QSX6_G3QSX6_GORGO_9595 and tr_H2Q5W2_H2Q5W2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QSX6_G3QSX6_GORGO_9595 and sp_P55064_AQP5_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QSX6_G3QSX6_GORGO_9595 and tr_A0A2K5LEW0_A0A2K5LEW0_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3QSX6_G3QSX6_GORGO_9595 and tr_A0A2K6BZN0_A0A2K6BZN0_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3QSX8_G3QSX8_GORGO_9595 and tr_A0A2R9CJB3_A0A2R9CJB3_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3R332_G3R332_GORGO_9595 and tr_H2QUD6_H2QUD6_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R332_G3R332_GORGO_9595 and sp_P29972_AQP1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R332_G3R332_GORGO_9595 and tr_A0A0D9RQJ5_A0A0D9RQJ5_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G3R332_G3R332_GORGO_9595 and tr_A0A2R9B319_A0A2R9B319_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_H2QED7_H2QED7_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and sp_P55087_AQP4_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_A0A1D5RFU8_A0A1D5RFU8_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_F7IQC1_F7IQC1_CALJA_9483 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_G7PWJ7_G7PWJ7_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_A0A096NGN8_A0A096NGN8_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_A0A0D9RZ01_A0A0D9RZ01_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_A0A2K5NVA4_A0A2K5NVA4_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_A0A2K6A5T4_A0A2K6A5T4_MANLE_9568 are exactly identical! WARNING: Sequences tr_G3R4L3_G3R4L3_GORGO_9595 and tr_A0A2R9AJM5_A0A2R9AJM5_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3RKA2_G3RKA2_GORGO_9595 and tr_H2NHQ4_H2NHQ4_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3RKA2_G3RKA2_GORGO_9595 and tr_H2Q690_H2Q690_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RKA2_G3RKA2_GORGO_9595 and sp_P30301_MIP_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RKA2_G3RKA2_GORGO_9595 and tr_A0A2R9CLF0_A0A2R9CLF0_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2NH88_H2NH88_PONAB_9601 and tr_F6W6H1_F6W6H1_MACMU_9544 are exactly identical! WARNING: Sequences tr_H2NH88_H2NH88_PONAB_9601 and tr_A0A096MRJ3_A0A096MRJ3_PAPAN_9555 are exactly identical! WARNING: Sequences tr_H2NH88_H2NH88_PONAB_9601 and tr_A0A2K5MEU2_A0A2K5MEU2_CERAT_9531 are exactly identical! WARNING: Sequences tr_H2NH88_H2NH88_PONAB_9601 and tr_A0A2K6D532_A0A2K6D532_MACNE_9545 are exactly identical! WARNING: Sequences tr_H2NH88_H2NH88_PONAB_9601 and tr_A0A2K5ZUN0_A0A2K5ZUN0_MANLE_9568 are exactly identical! WARNING: Sequences tr_Q29NF9_Q29NF9_DROPS_46245 and tr_B4G7T7_B4G7T7_DROPE_7234 are exactly identical! WARNING: Sequences tr_A0A0A0MPA8_A0A0A0MPA8_CANLF_9615 and sp_A2IBY8_MIP_CANLF_9615 are exactly identical! WARNING: Sequences tr_A0A0A0MPA8_A0A0A0MPA8_CANLF_9615 and tr_I3M052_I3M052_ICTTR_43179 are exactly identical! WARNING: Sequences tr_A0A0A0MPA8_A0A0A0MPA8_CANLF_9615 and tr_L5KVQ9_L5KVQ9_PTEAL_9402 are exactly identical! WARNING: Sequences tr_A0A0A0MPA8_A0A0A0MPA8_CANLF_9615 and tr_A0A2U3YBV5_A0A2U3YBV5_LEPWE_9713 are exactly identical! WARNING: Sequences tr_F7FSF9_F7FSF9_MONDO_13616 and tr_G3WQD1_G3WQD1_SARHA_9305 are exactly identical! WARNING: Sequences tr_F6SPF1_F6SPF1_HORSE_9796 and tr_A0A287AVU9_A0A287AVU9_PIG_9823 are exactly identical! WARNING: Sequences tr_F6SPF1_F6SPF1_HORSE_9796 and tr_A0A2Y9SH67_A0A2Y9SH67_PHYCD_9755 are exactly identical! WARNING: Sequences sp_Q866S3_AQP5_SHEEP_9940 and tr_W5Q9W1_W5Q9W1_SHEEP_9940 are exactly identical! WARNING: Sequences tr_W5Q9W7_W5Q9W7_SHEEP_9940 and sp_P79099_AQP2_BOVIN_9913 are exactly identical! WARNING: Sequences tr_K4AZL0_K4AZL0_SOLLC_4081 and tr_M0ZG68_M0ZG68_SOLTU_4113 are exactly identical! WARNING: Sequences tr_A0A087ZR22_A0A087ZR22_APIME_7460 and tr_A0A2A3E7I3_A0A2A3E7I3_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158NES3_A0A158NES3_ATTCE_12957 and tr_A0A195AV93_A0A195AV93_9HYME_520822 are exactly identical! WARNING: Sequences tr_I3MKS2_I3MKS2_ICTTR_43179 and tr_A0A286XDA1_A0A286XDA1_CAVPO_10141 are exactly identical! WARNING: Sequences tr_I3MKS2_I3MKS2_ICTTR_43179 and tr_A0A1S3F0Z1_A0A1S3F0Z1_DIPOR_10020 are exactly identical! WARNING: Sequences sp_Q8LAA6_PIP15_ARATH_3702 and tr_D7MDU0_D7MDU0_ARALL_81972 are exactly identical! WARNING: Sequences tr_A0A0E0GA04_A0A0E0GA04_ORYNI_4536 and tr_A2X7G8_A2X7G8_ORYSI_39946 are exactly identical! WARNING: Sequences tr_A0A0E0GA04_A0A0E0GA04_ORYNI_4536 and tr_I1P2F0_I1P2F0_ORYGL_4538 are exactly identical! WARNING: Sequences tr_A0A0E0GA04_A0A0E0GA04_ORYNI_4536 and tr_A0A0E0NI29_A0A0E0NI29_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0GA04_A0A0E0GA04_ORYNI_4536 and tr_A0A0D3F7W2_A0A0D3F7W2_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_A0A0E0GA04_A0A0E0GA04_ORYNI_4536 and tr_A0A0D9YVA3_A0A0D9YVA3_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0GA04_A0A0E0GA04_ORYNI_4536 and tr_A0A0E0K2N0_A0A0E0K2N0_ORYPU_4537 are exactly identical! WARNING: Sequences tr_A0A0E0GY26_A0A0E0GY26_ORYNI_4536 and tr_A2XPH9_A2XPH9_ORYSI_39946 are exactly identical! WARNING: Sequences tr_A0A0E0GY26_A0A0E0GY26_ORYNI_4536 and tr_A0A0E0DBR2_A0A0E0DBR2_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_A0A0E0GY26_A0A0E0GY26_ORYNI_4536 and tr_A0A0E0P696_A0A0E0P696_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0GY26_A0A0E0GY26_ORYNI_4536 and tr_A0A0D3FTC2_A0A0D3FTC2_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_A0A0E0GY26_A0A0E0GY26_ORYNI_4536 and tr_A0A0D9ZHR9_A0A0D9ZHR9_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0GY26_A0A0E0GY26_ORYNI_4536 and sp_Q7XLR1_PIP26_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0H393_A0A0E0H393_ORYNI_4536 and tr_A2XVL4_A2XVL4_ORYSI_39946 are exactly identical! WARNING: Sequences tr_A0A0E0H393_A0A0E0H393_ORYNI_4536 and tr_I1PN39_I1PN39_ORYGL_4538 are exactly identical! WARNING: Sequences tr_A0A0E0H393_A0A0E0H393_ORYNI_4536 and tr_A0A0E0DG74_A0A0E0DG74_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_A0A0E0H393_A0A0E0H393_ORYNI_4536 and tr_A0A0E0PBN7_A0A0E0PBN7_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0H393_A0A0E0H393_ORYNI_4536 and tr_A0A0D9Y8R6_A0A0D9Y8R6_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A0E0H393_A0A0E0H393_ORYNI_4536 and sp_Q7XUA6_PIP23_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A0E0IN21_A0A0E0IN21_ORYNI_4536 and tr_A2Z3L2_A2Z3L2_ORYSI_39946 are exactly identical! WARNING: Sequences tr_A0A0E0IN21_A0A0E0IN21_ORYNI_4536 and tr_A0A0E0QUH8_A0A0E0QUH8_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0IN21_A0A0E0IN21_ORYNI_4536 and sp_Q651D5_PIP27_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_A0A1D5QSD8_A0A1D5QSD8_MACMU_9544 and tr_A0A096N7Q5_A0A096N7Q5_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A1D5R9F2_A0A1D5R9F2_MACMU_9544 and tr_A0A2K5LNR4_A0A2K5LNR4_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A1D5R9F2_A0A1D5R9F2_MACMU_9544 and tr_A0A2K6E5Y4_A0A2K6E5Y4_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6RG83_F6RG83_MACMU_9544 and tr_G7PII2_G7PII2_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6RG83_F6RG83_MACMU_9544 and tr_A0A096NH11_A0A096NH11_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F6RG83_F6RG83_MACMU_9544 and tr_A0A2K5MM40_A0A2K5MM40_CERAT_9531 are exactly identical! WARNING: Sequences tr_F6RG83_F6RG83_MACMU_9544 and tr_A0A2K6C3R6_A0A2K6C3R6_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6RG83_F6RG83_MACMU_9544 and tr_A0A2K5YUP4_A0A2K5YUP4_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A1R3N4Y1_A0A1R3N4Y1_MAIZE_4577 and sp_Q9XF58_PIP25_MAIZE_4577 are exactly identical! WARNING: Sequences sp_Q84RL7_PIP21_MAIZE_4577 and tr_A0A2T7ENS3_A0A2T7ENS3_9POAL_1504633 are exactly identical! WARNING: Sequences sp_Q9ATM6_PIP24_MAIZE_4577 and sp_Q9ATM7_PIP23_MAIZE_4577 are exactly identical! WARNING: Sequences tr_I1QQV2_I1QQV2_ORYGL_4538 and tr_A0A0E0EUF4_A0A0E0EUF4_9ORYZ_40149 are exactly identical! WARNING: Sequences tr_I1QQV2_I1QQV2_ORYGL_4538 and tr_A0A0D3H9I1_A0A0D3H9I1_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_I1QQV2_I1QQV2_ORYGL_4538 and tr_A0A0E0B5X1_A0A0E0B5X1_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_H0YPZ9_H0YPZ9_TAEGU_59729 and tr_A0A091FBN0_A0A091FBN0_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0YPZ9_H0YPZ9_TAEGU_59729 and tr_A0A093PZV0_A0A093PZV0_9PASS_328815 are exactly identical! WARNING: Sequences tr_H0YPZ9_H0YPZ9_TAEGU_59729 and tr_A0A218UE79_A0A218UE79_9PASE_299123 are exactly identical! WARNING: Sequences tr_G1M6L3_G1M6L3_AILME_9646 and tr_A0A384C2P8_A0A384C2P8_URSMA_29073 are exactly identical! WARNING: Sequences tr_M4CS05_M4CS05_BRARP_51351 and tr_A0A078J2Z4_A0A078J2Z4_BRANA_3708 are exactly identical! WARNING: Sequences tr_M4CS05_M4CS05_BRARP_51351 and tr_A0A0D3DSS2_A0A0D3DSS2_BRAOL_109376 are exactly identical! WARNING: Sequences tr_M4D528_M4D528_BRARP_51351 and tr_A0A078IUF9_A0A078IUF9_BRANA_3708 are exactly identical! WARNING: Sequences tr_M4D528_M4D528_BRARP_51351 and tr_A0A0D3A1U7_A0A0D3A1U7_BRAOL_109376 are exactly identical! WARNING: Sequences tr_M7ZSV7_M7ZSV7_TRIUA_4572 and tr_A7J2I3_A7J2I3_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M8A7B2_M8A7B2_TRIUA_4572 and tr_A0A3B6B4P0_A0A3B6B4P0_WHEAT_4565 are exactly identical! WARNING: Sequences tr_U3JU44_U3JU44_FICAL_59894 and tr_A0A091EX13_A0A091EX13_CORBR_85066 are exactly identical! WARNING: Sequences tr_A0A1D5UV55_A0A1D5UV55_WHEAT_4565 and tr_A0A3B6C650_A0A3B6C650_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6B250_A0A3B6B250_WHEAT_4565 and tr_A7J2I2_A7J2I2_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6B3F7_A0A3B6B3F7_WHEAT_4565 and tr_A0A3B6CCF0_A0A3B6CCF0_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A3B6PM78_A0A3B6PM78_WHEAT_4565 and tr_G3E8E1_G3E8E1_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A067G0Q4_A0A067G0Q4_CITSI_2711 and tr_V4T6T1_V4T6T1_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A067G0Y5_A0A067G0Y5_CITSI_2711 and tr_V4SL90_V4SL90_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A067G0Y5_A0A067G0Y5_CITSI_2711 and tr_A0A2H5NDU3_A0A2H5NDU3_CITUN_55188 are exactly identical! WARNING: Sequences tr_A0A2I3LZP0_A0A2I3LZP0_PAPAN_9555 and tr_A0A2K5KV99_A0A2K5KV99_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3LZP0_A0A2I3LZP0_PAPAN_9555 and tr_A0A2K6DKV2_A0A2K6DKV2_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3LZP0_A0A2I3LZP0_PAPAN_9555 and tr_A0A2K6A4I5_A0A2K6A4I5_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A078FX10_A0A078FX10_BRANA_3708 and tr_A0A0D3BL75_A0A0D3BL75_BRAOL_109376 are exactly identical! WARNING: Sequences tr_A0A0D2RNH4_A0A0D2RNH4_GOSRA_29730 and tr_Q06Z30_Q06Z30_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A151PGY7_A0A151PGY7_ALLMI_8496 and tr_A0A1U7REA1_A0A1U7REA1_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A0Q3M574_A0A0Q3M574_AMAAE_12930 and tr_A0A091VSW2_A0A091VSW2_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A0Q3M574_A0A0Q3M574_AMAAE_12930 and tr_A0A2I0MRK4_A0A2I0MRK4_COLLI_8932 are exactly identical! WARNING: Sequences tr_A0A0Q3M574_A0A0Q3M574_AMAAE_12930 and tr_A0A1V4KN74_A0A1V4KN74_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A091KHQ3_A0A091KHQ3_EGRGA_188379 and tr_A0A093QE54_A0A093QE54_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A091KHQ3_A0A091KHQ3_EGRGA_188379 and tr_A0A087RED3_A0A087RED3_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091KHQ3_A0A091KHQ3_EGRGA_188379 and tr_A0A091W9J1_A0A091W9J1_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A091KHQ3_A0A091KHQ3_EGRGA_188379 and tr_A0A091G6C2_A0A091G6C2_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A091KHQ3_A0A091KHQ3_EGRGA_188379 and tr_A0A2I0MVZ8_A0A2I0MVZ8_COLLI_8932 are exactly identical! WARNING: Sequences tr_A0A0A0ANK7_A0A0A0ANK7_CHAVO_50402 and tr_A0A218V174_A0A218V174_9PASE_299123 are exactly identical! WARNING: Sequences tr_A0A1S4C130_A0A1S4C130_TOBAC_4097 and tr_A0A1U7VY47_A0A1U7VY47_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1S3HWB6_A0A1S3HWB6_LINUN_7574 and tr_A0A1S3HWE8_A0A1S3HWE8_LINUN_7574 are exactly identical! WARNING: Sequences tr_A0A226MNI8_A0A226MNI8_CALSU_9009 and tr_A0A226NSI9_A0A226NSI9_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2D0R8C7_A0A2D0R8C7_ICTPU_7998 and tr_A0A2D0R8D3_A0A2D0R8D3_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0SIT7_A0A2D0SIT7_ICTPU_7998 and tr_W5UF76_W5UF76_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A1U8E439_A0A1U8E439_CAPAN_4072 and tr_A0A2G3BSX9_A0A2G3BSX9_CAPCH_80379 are exactly identical! WARNING: Sequences tr_A0A2G2ZCT9_A0A2G2ZCT9_CAPAN_4072 and tr_A0A2G3CA14_A0A2G3CA14_CAPCH_80379 are exactly identical! WARNING: Sequences tr_A0A2J6L551_A0A2J6L551_LACSA_4236 and tr_A0A2J6L5B3_A0A2J6L5B3_LACSA_4236 are exactly identical! WARNING: Sequences tr_A0A2P6N7H5_A0A2P6N7H5_9MYCE_1890364 and tr_A0A2P6N7I5_A0A2P6N7I5_9MYCE_1890364 are exactly identical! WARNING: Sequences tr_A0A2U3UZF2_A0A2U3UZF2_TURTR_9739 and tr_A0A2Y9ND35_A0A2Y9ND35_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4AYI7_A0A2U4AYI7_TURTR_9739 and tr_A0A2Y9P949_A0A2Y9P949_DELLE_9749 are exactly identical! WARNING: Duplicate sequences found: 136 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181.raxml.reduced.phy Alignment comprises 1 partitions and 202 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 202 / 202 Gaps: 1.44 % Invariant sites: 0.50 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181.raxml.rba Parallelization scheme autoconfig: 4 worker(s) x 1 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 1001 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 202 / 16160 [00:00:00] Data distribution: max. searches per worker: 5 Starting ML tree search with 20 distinct starting trees [00:00:00 -327764.242391] Initial branch length optimization [00:00:05 -270204.371776] Model parameter optimization (eps = 10.000000) [00:01:05 -269190.645658] AUTODETECT spr round 1 (radius: 5) [00:04:20 -168393.739490] AUTODETECT spr round 2 (radius: 10) [00:07:50 -126841.051227] AUTODETECT spr round 3 (radius: 15) [00:11:20 -104650.924497] AUTODETECT spr round 4 (radius: 20) [00:15:40 -95671.989264] AUTODETECT spr round 5 (radius: 25) [00:20:34 -93062.784163] SPR radius for FAST iterations: 25 (autodetect) [00:20:34 -93062.784163] Model parameter optimization (eps = 3.000000) [00:21:55 -92888.251429] FAST spr round 1 (radius: 25) [00:25:14 -78475.560064] FAST spr round 2 (radius: 25) [00:27:41 -75425.101366] FAST spr round 3 (radius: 25) [00:29:59 -75040.924501] FAST spr round 4 (radius: 25) [00:32:09 -74996.605739] FAST spr round 5 (radius: 25) [00:34:07 -74980.937598] FAST spr round 6 (radius: 25) [00:36:00 -74980.285061] FAST spr round 7 (radius: 25) [00:37:50 -74980.285038] Model parameter optimization (eps = 1.000000) [00:38:17 -74973.002294] SLOW spr round 1 (radius: 5) [00:40:52 -74946.882193] SLOW spr round 2 (radius: 5) [00:43:24 -74946.279674] SLOW spr round 3 (radius: 5) [00:45:51 -74945.696475] SLOW spr round 4 (radius: 5) [00:48:23 -74945.331262] SLOW spr round 5 (radius: 5) [00:50:56 -74945.331124] SLOW spr round 6 (radius: 10) [00:53:33 -74944.088091] SLOW spr round 7 (radius: 5) [00:56:47 -74943.009068] SLOW spr round 8 (radius: 5) [00:59:39 -74941.555067] SLOW spr round 9 (radius: 5) [01:02:19 -74941.209863] SLOW spr round 10 (radius: 5) [01:04:52 -74941.209795] SLOW spr round 11 (radius: 10) [01:07:26 -74941.209794] SLOW spr round 12 (radius: 15) [01:11:33 -74940.971994] SLOW spr round 13 (radius: 5) [01:12:16] [worker #1] ML tree search #2, logLikelihood: -74958.876566 [01:14:51 -74940.971974] SLOW spr round 14 (radius: 10) [01:17:46 -74940.971974] SLOW spr round 15 (radius: 15) [01:21:30 -74940.971974] SLOW spr round 16 (radius: 20) [01:24:01] [worker #2] ML tree search #3, logLikelihood: -74970.426752 [01:24:27] [worker #3] ML tree search #4, logLikelihood: -74973.153163 [01:28:02 -74940.971974] SLOW spr round 17 (radius: 25) [01:36:19 -74940.971974] Model parameter optimization (eps = 0.100000) [01:36:29] [worker #0] ML tree search #1, logLikelihood: -74940.349260 [01:36:29 -328886.426928] Initial branch length optimization [01:36:35 -270655.687627] Model parameter optimization (eps = 10.000000) [01:37:30 -269616.251781] AUTODETECT spr round 1 (radius: 5) [01:40:34 -170421.088349] AUTODETECT spr round 2 (radius: 10) [01:43:53 -129052.474431] AUTODETECT spr round 3 (radius: 15) [01:47:44 -113711.136929] AUTODETECT spr round 4 (radius: 20) [01:51:47 -102310.070872] AUTODETECT spr round 5 (radius: 25) [01:56:43 -94032.868948] SPR radius for FAST iterations: 25 (autodetect) [01:56:43 -94032.868948] Model parameter optimization (eps = 3.000000) [01:57:46 -93794.112889] FAST spr round 1 (radius: 25) [02:01:11 -76633.124642] FAST spr round 2 (radius: 25) [02:03:46 -75130.125910] FAST spr round 3 (radius: 25) [02:06:01 -75010.515742] FAST spr round 4 (radius: 25) [02:08:07 -74993.206361] FAST spr round 5 (radius: 25) [02:10:08 -74983.485333] FAST spr round 6 (radius: 25) [02:11:59 -74983.485251] Model parameter optimization (eps = 1.000000) [02:12:20 -74980.551046] SLOW spr round 1 (radius: 5) [02:14:54 -74961.612175] SLOW spr round 2 (radius: 5) [02:17:23 -74958.988515] SLOW spr round 3 (radius: 5) [02:19:44 -74958.988472] SLOW spr round 4 (radius: 10) [02:22:10 -74956.627945] SLOW spr round 5 (radius: 5) [02:25:16 -74955.442957] SLOW spr round 6 (radius: 5) [02:28:01 -74955.442517] SLOW spr round 7 (radius: 10) [02:30:37 -74955.067445] SLOW spr round 8 (radius: 5) [02:33:43 -74955.067386] SLOW spr round 9 (radius: 10) [02:35:03] [worker #3] ML tree search #8, logLikelihood: -74943.112502 [02:36:28 -74955.067384] SLOW spr round 10 (radius: 15) [02:40:17 -74955.067384] SLOW spr round 11 (radius: 20) [02:43:57] [worker #1] ML tree search #6, logLikelihood: -74967.517815 [02:46:40 -74955.004307] SLOW spr round 12 (radius: 25) [02:54:34 -74955.004287] Model parameter optimization (eps = 0.100000) [02:54:48] [worker #0] ML tree search #5, logLikelihood: -74954.348373 [02:54:48 -328293.388042] Initial branch length optimization [02:54:54 -271383.071473] Model parameter optimization (eps = 10.000000) [02:55:44 -270136.915015] AUTODETECT spr round 1 (radius: 5) [02:58:41 -167496.861306] AUTODETECT spr round 2 (radius: 10) [03:01:59 -125679.470779] AUTODETECT spr round 3 (radius: 15) [03:05:33 -109409.838154] AUTODETECT spr round 4 (radius: 20) [03:09:30 -97941.044138] AUTODETECT spr round 5 (radius: 25) [03:13:41 -88930.452551] SPR radius for FAST iterations: 25 (autodetect) [03:13:41 -88930.452551] Model parameter optimization (eps = 3.000000) [03:14:18 -88801.769319] FAST spr round 1 (radius: 25) [03:17:37 -75898.665415] FAST spr round 2 (radius: 25) [03:20:08 -75084.545194] FAST spr round 3 (radius: 25) [03:22:20 -75035.128131] FAST spr round 4 (radius: 25) [03:24:19 -75020.658566] FAST spr round 5 (radius: 25) [03:25:12] [worker #2] ML tree search #7, logLikelihood: -74975.129437 [03:26:15 -75019.645776] FAST spr round 6 (radius: 25) [03:28:06 -75019.645767] Model parameter optimization (eps = 1.000000) [03:28:30 -75011.183321] SLOW spr round 1 (radius: 5) [03:31:06 -74992.923689] SLOW spr round 2 (radius: 5) [03:33:41 -74989.985007] SLOW spr round 3 (radius: 5) [03:36:13 -74989.984970] SLOW spr round 4 (radius: 10) [03:38:44 -74987.525557] SLOW spr round 5 (radius: 5) [03:41:52 -74987.525538] SLOW spr round 6 (radius: 10) [03:44:37 -74987.525537] SLOW spr round 7 (radius: 15) [03:48:27 -74987.525537] SLOW spr round 8 (radius: 20) [03:54:57 -74987.525537] SLOW spr round 9 (radius: 25) [03:56:29] [worker #1] ML tree search #10, logLikelihood: -74956.256821 [04:03:09 -74987.525537] Model parameter optimization (eps = 0.100000) [04:03:47] [worker #0] ML tree search #9, logLikelihood: -74979.424397 [04:03:47 -328306.837547] Initial branch length optimization [04:03:53 -270899.887059] Model parameter optimization (eps = 10.000000) [04:04:02] [worker #3] ML tree search #12, logLikelihood: -74910.545732 [04:04:42 -269813.808714] AUTODETECT spr round 1 (radius: 5) [04:07:41 -168510.841641] AUTODETECT spr round 2 (radius: 10) [04:10:58 -124927.847785] AUTODETECT spr round 3 (radius: 15) [04:14:34 -103808.321312] AUTODETECT spr round 4 (radius: 20) [04:18:40 -94263.291503] AUTODETECT spr round 5 (radius: 25) [04:23:31 -88458.483471] SPR radius for FAST iterations: 25 (autodetect) [04:23:31 -88458.483471] Model parameter optimization (eps = 3.000000) [04:24:02 -88328.843847] FAST spr round 1 (radius: 25) [04:27:23 -75672.748057] FAST spr round 2 (radius: 25) [04:29:49 -75063.507951] FAST spr round 3 (radius: 25) [04:32:04 -75029.827611] FAST spr round 4 (radius: 25) [04:34:04 -75029.283487] FAST spr round 5 (radius: 25) [04:35:57 -75029.283483] Model parameter optimization (eps = 1.000000) [04:36:44 -75002.125683] SLOW spr round 1 (radius: 5) [04:39:21 -74958.054991] SLOW spr round 2 (radius: 5) [04:42:00 -74929.688440] SLOW spr round 3 (radius: 5) [04:44:30 -74928.750432] SLOW spr round 4 (radius: 5) [04:44:46] [worker #2] ML tree search #11, logLikelihood: -74961.649952 [04:46:54 -74928.605427] SLOW spr round 5 (radius: 5) [04:49:16 -74928.605314] SLOW spr round 6 (radius: 10) [04:51:41 -74923.021956] SLOW spr round 7 (radius: 5) [04:54:46 -74920.577199] SLOW spr round 8 (radius: 5) [04:57:29 -74920.480024] SLOW spr round 9 (radius: 10) [04:59:59 -74916.246406] SLOW spr round 10 (radius: 5) [05:03:05 -74916.246400] SLOW spr round 11 (radius: 10) [05:05:48 -74916.246399] SLOW spr round 12 (radius: 15) [05:09:37 -74916.246399] SLOW spr round 13 (radius: 20) [05:11:17] [worker #3] ML tree search #16, logLikelihood: -74988.622312 [05:15:50 -74916.246399] SLOW spr round 14 (radius: 25) [05:23:46 -74916.246399] Model parameter optimization (eps = 0.100000) [05:24:01] [worker #0] ML tree search #13, logLikelihood: -74915.815175 [05:24:01 -326695.865440] Initial branch length optimization [05:24:06 -269898.919250] Model parameter optimization (eps = 10.000000) [05:25:33 -268694.815995] AUTODETECT spr round 1 (radius: 5) [05:28:34 -166727.255609] AUTODETECT spr round 2 (radius: 10) [05:31:49 -120112.376383] AUTODETECT spr round 3 (radius: 15) [05:35:22 -95657.921084] AUTODETECT spr round 4 (radius: 20) [05:35:50] [worker #1] ML tree search #14, logLikelihood: -74958.121240 [05:38:54 -88977.941280] AUTODETECT spr round 5 (radius: 25) [05:43:46 -88216.313114] SPR radius for FAST iterations: 25 (autodetect) [05:43:46 -88216.313114] Model parameter optimization (eps = 3.000000) [05:44:20 -88128.876892] FAST spr round 1 (radius: 25) [05:47:41 -75992.155535] FAST spr round 2 (radius: 25) [05:50:08 -75101.864218] FAST spr round 3 (radius: 25) [05:50:23] [worker #2] ML tree search #15, logLikelihood: -74931.184987 [05:52:28 -75039.545161] FAST spr round 4 (radius: 25) [05:54:35 -75021.110852] FAST spr round 5 (radius: 25) [05:56:27 -75021.110788] Model parameter optimization (eps = 1.000000) [05:56:50 -75014.860743] SLOW spr round 1 (radius: 5) [05:59:26 -74997.517466] SLOW spr round 2 (radius: 5) [06:01:56 -74983.121446] SLOW spr round 3 (radius: 5) [06:04:25 -74981.342288] SLOW spr round 4 (radius: 5) [06:06:51 -74981.341753] SLOW spr round 5 (radius: 10) [06:09:19 -74980.868882] SLOW spr round 6 (radius: 5) [06:12:27 -74980.868824] SLOW spr round 7 (radius: 10) [06:15:10 -74980.868824] SLOW spr round 8 (radius: 15) [06:18:57 -74977.289612] SLOW spr round 9 (radius: 5) [06:22:14 -74975.520227] SLOW spr round 10 (radius: 5) [06:25:07 -74973.471371] SLOW spr round 11 (radius: 5) [06:27:38] [worker #3] ML tree search #20, logLikelihood: -74959.468155 [06:27:43 -74973.471371] SLOW spr round 12 (radius: 10) [06:30:10 -74973.471371] SLOW spr round 13 (radius: 15) [06:34:02 -74973.471371] SLOW spr round 14 (radius: 20) [06:40:11 -74973.471371] SLOW spr round 15 (radius: 25) [06:48:10 -74973.471371] Model parameter optimization (eps = 0.100000) [06:48:29] [worker #0] ML tree search #17, logLikelihood: -74972.672361 [06:56:34] [worker #1] ML tree search #18, logLikelihood: -74919.044997 [07:05:29] [worker #2] ML tree search #19, logLikelihood: -74990.282888 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.317599,0.654288) (0.343867,0.988545) (0.269186,1.008168) (0.069348,2.608394) 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: -74910.545732 AIC score: 153831.091464 / AICc score: 8197891.091464 / BIC score: 160464.168197 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=202). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 191 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P41181/3_mltree/P41181.raxml.log Analysis started: 04-Jun-2021 03:53:03 / finished: 04-Jun-2021 10:58:32 Elapsed time: 25529.380 seconds Consumed energy: 2740.469 Wh (= 14 km in an electric car, or 69 km with an e-scooter!)