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 03-Jul-2021 06:40:54 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/2_msa/O60315_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/3_mltree/O60315 --seed 2 --threads 5 --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 (5 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/2_msa/O60315_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 260 sites WARNING: Sequences tr_A0A0U4VU53_A0A0U4VU53_CHICK_9031 and tr_G1NJ41_G1NJ41_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A0U4VU53_A0A0U4VU53_CHICK_9031 and tr_U3IJB5_U3IJB5_ANAPL_8839 are exactly identical! WARNING: Sequences tr_A0A0U4VU53_A0A0U4VU53_CHICK_9031 and tr_A0A093JVN3_A0A093JVN3_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A0U4VU53_A0A0U4VU53_CHICK_9031 and tr_A0A1U7RCR3_A0A1U7RCR3_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A0U4VU53_A0A0U4VU53_CHICK_9031 and tr_A0A226NLW3_A0A226NLW3_CALSU_9009 are exactly identical! WARNING: Sequences tr_A0A0U4VU53_A0A0U4VU53_CHICK_9031 and tr_A0A226PQD7_A0A226PQD7_COLVI_9014 are exactly identical! WARNING: Sequences sp_Q9R0G7_ZEB2_MOUSE_10090 and tr_A0A3Q0CNH5_A0A3Q0CNH5_MESAU_10036 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and tr_G3R3L7_G3R3L7_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and tr_H2NA40_H2NA40_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and tr_A0A2I3RDQ4_A0A2I3RDQ4_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and sp_P37275_ZEB1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and tr_G8F295_G8F295_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and tr_A0A096P409_A0A096P409_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and tr_A0A0D9RGU0_A0A0D9RGU0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I3HC21_A0A2I3HC21_NOMLE_61853 and tr_A0A2R9B9C8_A0A2R9B9C8_PANPA_9597 are exactly identical! WARNING: Sequences tr_L7N142_L7N142_MYOLU_59463 and tr_E1BCD8_E1BCD8_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A2I2YAN2_A0A2I2YAN2_GORGO_9595 and sp_Q5R4X5_ZNF22_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I2YAN2_A0A2I2YAN2_GORGO_9595 and tr_H2Q1U7_H2Q1U7_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I2YAN2_A0A2I2YAN2_GORGO_9595 and sp_P17026_ZNF22_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_F1PKS2_F1PKS2_CANLF_9615 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2I3TW56_A0A2I3TW56_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_F7E364_F7E364_HORSE_9796 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and sp_O60315_ZEB2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_F7C2Z5_F7C2Z5_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_G1LRY6_G1LRY6_AILME_9646 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_G7PKJ3_G7PKJ3_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_E1BE33_E1BE33_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A0D9RUH7_A0A0D9RUH7_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2K5N059_A0A2K5N059_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2K6D8C7_A0A2K6D8C7_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2K5XD25_A0A2K5XD25_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2R8ZVK3_A0A2R8ZVK3_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2U3ZMA6_A0A2U3ZMA6_ODORO_9708 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2U3Y8G8_A0A2U3Y8G8_LEPWE_9713 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A2Y9J1X4_A0A2Y9J1X4_ENHLU_391180 are exactly identical! WARNING: Sequences tr_A0A2I2Z2H7_A0A2I2Z2H7_GORGO_9595 and tr_A0A384A6W5_A0A384A6W5_BALAS_310752 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_H2RD27_H2RD27_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_F6VIB6_F6VIB6_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_G7PZB3_G7PZB3_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_A0A2I3MNS1_A0A2I3MNS1_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_A0A0D9S6C7_A0A0D9S6C7_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_A0A2K5LAJ0_A0A2K5LAJ0_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_A0A2K6BZF6_A0A2K6BZF6_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I2Z5D0_A0A2I2Z5D0_GORGO_9595 and tr_A0A2K5Y6G8_A0A2K5Y6G8_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I2ZEQ4_A0A2I2ZEQ4_GORGO_9595 and tr_H2P3S4_H2P3S4_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I2ZEQ4_A0A2I2ZEQ4_GORGO_9595 and tr_A0A2I3TER9_A0A2I3TER9_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I2ZEQ4_A0A2I2ZEQ4_GORGO_9595 and sp_Q9UC06_ZNF70_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I2ZEQ4_A0A2I2ZEQ4_GORGO_9595 and tr_A0A2R9APU5_A0A2R9APU5_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3QQX3_G3QQX3_GORGO_9595 and tr_H2QV13_H2QV13_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QQX3_G3QQX3_GORGO_9595 and sp_P17029_ZKSC1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QQX3_G3QQX3_GORGO_9595 and tr_A0A2R9BHM6_A0A2R9BHM6_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3QTL0_G3QTL0_GORGO_9595 and tr_A0A2J8JLQ7_A0A2J8JLQ7_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3REM8_G3REM8_GORGO_9595 and tr_H2QBZ7_H2QBZ7_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3REM8_G3REM8_GORGO_9595 and tr_A0A2R9BW24_A0A2R9BW24_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3S7T2_G3S7T2_GORGO_9595 and tr_A0A2J8JTW2_A0A2J8JTW2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3S7T2_G3S7T2_GORGO_9595 and sp_Q8N9F8_ZN454_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_F7HPT8_F7HPT8_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_F7BN91_F7BN91_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_A0A337SPJ9_A0A337SPJ9_FELCA_9685 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_A0A096NMH9_A0A096NMH9_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_A0A0D9R146_A0A0D9R146_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_A0A2K5MQ47_A0A2K5MQ47_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_A0A2K6CYY6_A0A2K6CYY6_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_A0A2K5YKE3_A0A2K5YKE3_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2J8TKF1_A0A2J8TKF1_PONAB_9601 and tr_A0A2U3VQ19_A0A2U3VQ19_ODORO_9708 are exactly identical! WARNING: Sequences tr_H2PLK9_H2PLK9_PONAB_9601 and sp_Q5R670_ZKSC1_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3RT74_A0A2I3RT74_PANTR_9598 and sp_Q8TAF7_ZN461_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3RT74_A0A2I3RT74_PANTR_9598 and tr_A0A2R9CCR9_A0A2R9CCR9_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3TNQ6_A0A2I3TNQ6_PANTR_9598 and tr_A0A2R9AWX7_A0A2R9AWX7_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3TU25_A0A2I3TU25_PANTR_9598 and sp_Q7L3S4_ZN771_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H2QFX6_H2QFX6_PANTR_9598 and sp_Q03936_ZNF92_HUMAN_9606 are exactly identical! WARNING: Sequences tr_K7AAB1_K7AAB1_PANTR_9598 and tr_A0A2R9C8P1_A0A2R9C8P1_PANPA_9597 are exactly identical! WARNING: Sequences tr_E9PTC3_E9PTC3_RAT_10116 and tr_H0V2K1_H0V2K1_CAVPO_10141 are exactly identical! WARNING: Sequences tr_E9PTC3_E9PTC3_RAT_10116 and tr_A0A2Y9SH48_A0A2Y9SH48_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A158NPF2_A0A158NPF2_ATTCE_12957 and tr_A0A195B9A9_A0A195B9A9_9HYME_520822 are exactly identical! WARNING: Sequences tr_H0WYB8_H0WYB8_OTOGA_30611 and tr_A0A1S3F0L4_A0A1S3F0L4_DIPOR_10020 are exactly identical! WARNING: Sequences tr_H0WYB8_H0WYB8_OTOGA_30611 and tr_A0A2Y9RXH2_A0A2Y9RXH2_TRIMA_127582 are exactly identical! WARNING: Sequences tr_F6SLB4_F6SLB4_MACMU_9544 and tr_G7PTA6_G7PTA6_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6SLB4_F6SLB4_MACMU_9544 and tr_A0A2K6BGX0_A0A2K6BGX0_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6UAQ9_F6UAQ9_MACMU_9544 and tr_G7P0C1_G7P0C1_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6UAQ9_F6UAQ9_MACMU_9544 and tr_A0A096MV28_A0A096MV28_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F6UAQ9_F6UAQ9_MACMU_9544 and tr_A0A2K6AXA9_A0A2K6AXA9_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6UAQ9_F6UAQ9_MACMU_9544 and tr_A0A2K5YUJ0_A0A2K5YUJ0_MANLE_9568 are exactly identical! WARNING: Sequences tr_F6VBL3_F6VBL3_MACMU_9544 and tr_G7PES2_G7PES2_MACFA_9541 are exactly identical! WARNING: Sequences tr_F6VBL3_F6VBL3_MACMU_9544 and tr_A0A2K5NV52_A0A2K5NV52_CERAT_9531 are exactly identical! WARNING: Sequences tr_F6VBL3_F6VBL3_MACMU_9544 and tr_A0A2K6AVI4_A0A2K6AVI4_MACNE_9545 are exactly identical! WARNING: Sequences tr_F6VBL3_F6VBL3_MACMU_9544 and tr_A0A2K5XWD6_A0A2K5XWD6_MANLE_9568 are exactly identical! WARNING: Sequences tr_F6X8L1_F6X8L1_MACMU_9544 and tr_A0A2K6B635_A0A2K6B635_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7AE32_F7AE32_MACMU_9544 and tr_A0A2K5LCN1_A0A2K5LCN1_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7AE32_F7AE32_MACMU_9544 and tr_A0A2K6AP59_A0A2K6AP59_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7AE32_F7AE32_MACMU_9544 and tr_A0A2K5ZR07_A0A2K5ZR07_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7HFH5_F7HFH5_MACMU_9544 and tr_A0A2K5KX48_A0A2K5KX48_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7HFH5_F7HFH5_MACMU_9544 and tr_A0A2K6A1J4_A0A2K6A1J4_MANLE_9568 are exactly identical! WARNING: Sequences tr_H0YRY8_H0YRY8_TAEGU_59729 and tr_A0A218V6K2_A0A218V6K2_9PASE_299123 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_U3KHE6_U3KHE6_FICAL_59894 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A0Q3MHD3_A0A0Q3MHD3_AMAAE_12930 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A091EXL2_A0A091EXL2_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A093QCP3_A0A093QCP3_9PASS_328815 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A091UUS0_A0A091UUS0_NIPNI_128390 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A087QIL6_A0A087QIL6_APTFO_9233 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A091G6K5_A0A091G6K5_9AVES_55661 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A0A0AVK2_A0A0A0AVK2_CHAVO_50402 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A093GWU5_A0A093GWU5_DRYPU_118200 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A091HZ69_A0A091HZ69_CALAN_9244 are exactly identical! WARNING: Sequences tr_H0ZNU3_H0ZNU3_TAEGU_59729 and tr_A0A218UPD8_A0A218UPD8_9PASE_299123 are exactly identical! WARNING: Sequences tr_F4W8X8_F4W8X8_ACREC_103372 and tr_A0A195DXC6_A0A195DXC6_9HYME_471704 are exactly identical! WARNING: Sequences tr_G0NM45_G0NM45_CAEBE_135651 and tr_G0P750_G0P750_CAEBE_135651 are exactly identical! WARNING: Sequences tr_A8XBP0_A8XBP0_CAEBR_6238 and tr_A0A2G5U964_A0A2G5U964_9PELO_1611254 are exactly identical! WARNING: Sequences tr_G1LUL8_G1LUL8_AILME_9646 and tr_A0A2Y9KJ26_A0A2Y9KJ26_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G7PXD1_G7PXD1_MACFA_9541 and tr_A0A2K6D3W8_A0A2K6D3W8_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A096NLB5_A0A096NLB5_PAPAN_9555 and tr_A0A0D9RCG0_A0A0D9RCG0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A2I3LF76_A0A2I3LF76_PAPAN_9555 and tr_A0A384CI24_A0A384CI24_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A151MG41_A0A151MG41_ALLMI_8496 and tr_A0A1U8D6C2_A0A1U8D6C2_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A151PD49_A0A151PD49_ALLMI_8496 and tr_A0A091UQF7_A0A091UQF7_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A151PD49_A0A151PD49_ALLMI_8496 and tr_A0A087QU61_A0A087QU61_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A151PD49_A0A151PD49_ALLMI_8496 and tr_A0A091VN84_A0A091VN84_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A151PD49_A0A151PD49_ALLMI_8496 and tr_A0A091GM19_A0A091GM19_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A151PD49_A0A151PD49_ALLMI_8496 and tr_A0A0A0A4W0_A0A0A0A4W0_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A091F2H3_A0A091F2H3_CORBR_85066 and tr_A0A093Q6M8_A0A093Q6M8_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A2I0MG40_A0A2I0MG40_COLLI_8932 and tr_A0A1V4K5G6_A0A1V4K5G6_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A0V1D915_A0A0V1D915_TRIBR_45882 and tr_A0A0V1LBA2_A0A0V1LBA2_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V1D915_A0A0V1D915_TRIBR_45882 and tr_A0A0V1P7B8_A0A0V1P7B8_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1D915_A0A0V1D915_TRIBR_45882 and tr_A0A0V0U3J0_A0A0V0U3J0_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V0W381_A0A0V0W381_9BILA_92179 and tr_A0A0V0VDZ9_A0A0V0VDZ9_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A1D1UH28_A0A1D1UH28_RAMVA_947166 and tr_A0A1D1UHV0_A0A1D1UHV0_RAMVA_947166 are exactly identical! WARNING: Sequences tr_A0A1D1UH28_A0A1D1UH28_RAMVA_947166 and tr_A0A1D1UKG5_A0A1D1UKG5_RAMVA_947166 are exactly identical! WARNING: Sequences tr_A0A1U7Q2B8_A0A1U7Q2B8_MESAU_10036 and sp_Q60542_ZEB1_MESAU_10036 are exactly identical! WARNING: Sequences tr_A0A2A2LXX5_A0A2A2LXX5_9BILA_2018661 and tr_A0A2A2LYJ3_A0A2A2LYJ3_9BILA_2018661 are exactly identical! WARNING: Sequences tr_A0A2D0S451_A0A2D0S451_ICTPU_7998 and tr_A0A2D0S453_A0A2D0S453_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0S482_A0A2D0S482_ICTPU_7998 and tr_A0A2D0S519_A0A2D0S519_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0S482_A0A2D0S482_ICTPU_7998 and tr_A0A2D0S5M9_A0A2D0S5M9_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2K5L6V7_A0A2K5L6V7_CERAT_9531 and tr_A0A2K5YZ59_A0A2K5YZ59_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2K5LEA4_A0A2K5LEA4_CERAT_9531 and tr_A0A2K5Y901_A0A2K5Y901_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2U4A8J0_A0A2U4A8J0_TURTR_9739 and tr_A0A2Y9PFD7_A0A2Y9PFD7_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4AU84_A0A2U4AU84_TURTR_9739 and tr_A0A2Y9F3K7_A0A2Y9F3K7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A2U4AZ13_A0A2U4AZ13_TURTR_9739 and tr_A0A2Y9P927_A0A2Y9P927_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4B722_A0A2U4B722_TURTR_9739 and tr_A0A2Y9N1B7_A0A2Y9N1B7_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4B722_A0A2U4B722_TURTR_9739 and tr_A0A2Y9FSN7_A0A2Y9FSN7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A2U4B7I9_A0A2U4B7I9_TURTR_9739 and tr_A0A2Y9P2L6_A0A2Y9P2L6_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2Y9FQZ5_A0A2Y9FQZ5_PHYCD_9755 and tr_A0A383ZK74_A0A383ZK74_BALAS_310752 are exactly identical! WARNING: Duplicate sequences found: 140 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/O60315/3_mltree/O60315.raxml.reduced.phy Alignment comprises 1 partitions and 260 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 260 / 260 Gaps: 13.93 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/3_mltree/O60315.raxml.rba Parallelization scheme autoconfig: 5 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 / 260 / 20800 [00:00:00] Data distribution: max. searches per worker: 4 Starting ML tree search with 20 distinct starting trees [00:00:00 -409552.066347] Initial branch length optimization [00:00:12 -341953.552824] Model parameter optimization (eps = 10.000000) [00:02:17 -340964.711433] AUTODETECT spr round 1 (radius: 5) [00:09:06 -242259.336624] AUTODETECT spr round 2 (radius: 10) [00:16:24 -185393.128257] AUTODETECT spr round 3 (radius: 15) [00:24:08 -161234.613170] AUTODETECT spr round 4 (radius: 20) [00:33:22 -137531.252892] AUTODETECT spr round 5 (radius: 25) [00:43:35 -122896.764844] SPR radius for FAST iterations: 25 (autodetect) [00:43:35 -122896.764844] Model parameter optimization (eps = 3.000000) [00:44:31 -122853.988565] FAST spr round 1 (radius: 25) [00:53:27 -106921.473970] FAST spr round 2 (radius: 25) [01:00:56 -106072.058385] FAST spr round 3 (radius: 25) [01:06:57 -105952.992766] FAST spr round 4 (radius: 25) [01:12:14 -105911.950629] FAST spr round 5 (radius: 25) [01:16:28 -105889.126588] FAST spr round 6 (radius: 25) [01:21:01 -105876.048788] FAST spr round 7 (radius: 25) [01:25:28 -105869.567625] FAST spr round 8 (radius: 25) [01:29:41 -105869.566598] Model parameter optimization (eps = 1.000000) [01:30:16 -105865.436346] SLOW spr round 1 (radius: 5) [01:36:21 -105838.238185] SLOW spr round 2 (radius: 5) [01:42:18 -105829.677472] SLOW spr round 3 (radius: 5) [01:48:03 -105825.062027] SLOW spr round 4 (radius: 5) [01:53:38 -105825.060880] SLOW spr round 5 (radius: 10) [01:59:43 -105810.469188] SLOW spr round 6 (radius: 5) [02:06:56 -105806.080021] SLOW spr round 7 (radius: 5) [02:13:16 -105806.004984] SLOW spr round 8 (radius: 10) [02:19:26 -105799.523771] SLOW spr round 9 (radius: 5) [02:26:19] [worker #3] ML tree search #4, logLikelihood: -106162.079965 [02:26:20 -105798.596686] SLOW spr round 10 (radius: 5) [02:32:32 -105798.596604] SLOW spr round 11 (radius: 10) [02:38:16 -105798.596451] SLOW spr round 12 (radius: 15) [02:47:37 -105795.714395] SLOW spr round 13 (radius: 5) [02:54:32 -105792.178370] SLOW spr round 14 (radius: 5) [03:00:47 -105791.275391] SLOW spr round 15 (radius: 5) [03:06:52 -105791.275233] SLOW spr round 16 (radius: 10) [03:12:47 -105791.275157] SLOW spr round 17 (radius: 15) [03:22:49 -105791.275080] SLOW spr round 18 (radius: 20) [03:36:50 -105784.852476] SLOW spr round 19 (radius: 5) [03:44:35 -105774.702467] SLOW spr round 20 (radius: 5) [03:51:12 -105773.860390] SLOW spr round 21 (radius: 5) [03:57:18 -105772.935614] SLOW spr round 22 (radius: 5) [04:03:06 -105771.210507] SLOW spr round 23 (radius: 5) [04:08:41 -105771.210204] SLOW spr round 24 (radius: 10) [04:14:30 -105768.067511] SLOW spr round 25 (radius: 5) [04:21:28 -105767.696528] SLOW spr round 26 (radius: 5) [04:27:43 -105767.696507] SLOW spr round 27 (radius: 10) [04:33:44 -105767.696507] SLOW spr round 28 (radius: 15) [04:43:31 -105767.696507] SLOW spr round 29 (radius: 20) [04:57:25 -105766.975125] SLOW spr round 30 (radius: 5) [05:01:59] [worker #2] ML tree search #3, logLikelihood: -105781.955864 [05:05:00 -105764.260153] SLOW spr round 31 (radius: 5) [05:11:44 -105764.259358] SLOW spr round 32 (radius: 10) [05:18:02 -105761.152791] SLOW spr round 33 (radius: 5) [05:25:07 -105756.280862] SLOW spr round 34 (radius: 5) [05:31:23 -105756.280805] SLOW spr round 35 (radius: 10) [05:37:27 -105755.963503] SLOW spr round 36 (radius: 5) [05:44:34 -105755.683658] SLOW spr round 37 (radius: 5) [05:50:55 -105755.683523] SLOW spr round 38 (radius: 10) [05:56:56 -105755.683521] SLOW spr round 39 (radius: 15) [06:06:54 -105755.683521] SLOW spr round 40 (radius: 20) [06:13:36] [worker #3] ML tree search #9, logLikelihood: -105756.235720 [06:20:48 -105755.683521] SLOW spr round 41 (radius: 25) [06:39:02 -105755.683521] Model parameter optimization (eps = 0.100000) [06:39:26] [worker #0] ML tree search #1, logLikelihood: -105753.998242 [06:39:26 -412103.096124] Initial branch length optimization [06:39:37 -345716.308946] Model parameter optimization (eps = 10.000000) [06:41:25 -344694.370389] AUTODETECT spr round 1 (radius: 5) [06:48:10 -239392.016327] AUTODETECT spr round 2 (radius: 10) [06:54:59] [worker #4] ML tree search #5, logLikelihood: -105815.895822 [06:55:08 -177693.789185] AUTODETECT spr round 3 (radius: 15) [07:03:25 -134036.403227] AUTODETECT spr round 4 (radius: 20) [07:12:18 -118295.645235] AUTODETECT spr round 5 (radius: 25) [07:22:30 -116440.361259] SPR radius for FAST iterations: 25 (autodetect) [07:22:30 -116440.361259] Model parameter optimization (eps = 3.000000) [07:23:27 -116370.088621] FAST spr round 1 (radius: 25) [07:31:30] [worker #1] ML tree search #2, logLikelihood: -105738.953929 [07:32:18 -107026.357966] FAST spr round 2 (radius: 25) [07:39:02 -106229.530830] FAST spr round 3 (radius: 25) [07:44:56 -105862.407790] FAST spr round 4 (radius: 25) [07:50:10 -105835.372809] FAST spr round 5 (radius: 25) [07:54:56 -105826.822413] FAST spr round 6 (radius: 25) [07:59:22 -105824.086091] FAST spr round 7 (radius: 25) [08:03:41 -105824.085756] Model parameter optimization (eps = 1.000000) [08:04:20 -105814.956003] SLOW spr round 1 (radius: 5) [08:10:27 -105786.807789] SLOW spr round 2 (radius: 5) [08:16:16 -105784.436542] SLOW spr round 3 (radius: 5) [08:21:56 -105784.436522] SLOW spr round 4 (radius: 10) [08:28:09 -105775.139787] SLOW spr round 5 (radius: 5) [08:35:10 -105770.699438] SLOW spr round 6 (radius: 5) [08:41:24 -105770.699273] SLOW spr round 7 (radius: 10) [08:47:34 -105770.699262] SLOW spr round 8 (radius: 15) [08:53:04 -105769.446467] SLOW spr round 9 (radius: 5) [08:56:50 -105769.445983] SLOW spr round 10 (radius: 10) [09:00:35 -105769.445971] SLOW spr round 11 (radius: 15) [09:05:25 -105769.445970] SLOW spr round 12 (radius: 20) [09:11:50 -105769.445970] SLOW spr round 13 (radius: 25) [09:20:03 -105769.445970] Model parameter optimization (eps = 0.100000) [09:20:10] [worker #0] ML tree search #6, logLikelihood: -105769.440796 [09:20:10 -410117.916030] Initial branch length optimization [09:20:17 -342891.723899] Model parameter optimization (eps = 10.000000) [09:21:02 -341856.392989] AUTODETECT spr round 1 (radius: 5) [09:24:18 -235800.233178] AUTODETECT spr round 2 (radius: 10) [09:27:39 -181234.507437] AUTODETECT spr round 3 (radius: 15) [09:31:19 -153396.840041] AUTODETECT spr round 4 (radius: 20) [09:36:27 -127331.024747] AUTODETECT spr round 5 (radius: 25) [09:40:36] [worker #1] ML tree search #7, logLikelihood: -106055.690306 [09:41:42 -121601.906931] SPR radius for FAST iterations: 25 (autodetect) [09:41:42 -121601.906931] Model parameter optimization (eps = 3.000000) [09:42:14 -121559.782286] FAST spr round 1 (radius: 25) [09:46:59 -107148.372079] FAST spr round 2 (radius: 25) [09:50:29 -106117.061606] FAST spr round 3 (radius: 25) [09:53:31 -106026.051595] FAST spr round 4 (radius: 25) [09:53:53] [worker #2] ML tree search #8, logLikelihood: -105762.168730 [09:56:18 -105989.280118] FAST spr round 5 (radius: 25) [09:58:59 -105963.183786] FAST spr round 6 (radius: 25) [10:01:23 -105955.812074] FAST spr round 7 (radius: 25) [10:03:44 -105952.026059] FAST spr round 8 (radius: 25) [10:06:02 -105942.748349] FAST spr round 9 (radius: 25) [10:08:18 -105940.437355] FAST spr round 10 (radius: 25) [10:10:32 -105937.828076] FAST spr round 11 (radius: 25) [10:12:46 -105937.524622] FAST spr round 12 (radius: 25) [10:14:58 -105937.524590] Model parameter optimization (eps = 1.000000) [10:15:17 -105922.819560] SLOW spr round 1 (radius: 5) [10:18:22 -105905.461640] SLOW spr round 2 (radius: 5) [10:21:27 -105903.401727] SLOW spr round 3 (radius: 5) [10:24:32 -105900.599206] SLOW spr round 4 (radius: 5) [10:27:31 -105900.599155] SLOW spr round 5 (radius: 10) [10:30:40 -105894.729793] SLOW spr round 6 (radius: 5) [10:33:49] [worker #3] ML tree search #14, logLikelihood: -105798.813013 [10:34:27 -105891.163933] SLOW spr round 7 (radius: 5) [10:37:47 -105890.153814] SLOW spr round 8 (radius: 5) [10:40:54 -105890.153519] SLOW spr round 9 (radius: 10) [10:44:04 -105889.710377] SLOW spr round 10 (radius: 5) [10:47:40 -105888.788901] SLOW spr round 11 (radius: 5) [10:50:57 -105888.788901] SLOW spr round 12 (radius: 10) [10:54:11 -105888.788901] SLOW spr round 13 (radius: 15) [10:59:31 -105887.285450] SLOW spr round 14 (radius: 5) [11:03:15 -105887.285170] SLOW spr round 15 (radius: 10) [11:07:05 -105887.285167] SLOW spr round 16 (radius: 15) [11:12:15 -105887.285167] SLOW spr round 17 (radius: 20) [11:20:09 -105886.570924] SLOW spr round 18 (radius: 5) [11:24:02 -105881.841819] SLOW spr round 19 (radius: 5) [11:27:33 -105880.734240] SLOW spr round 20 (radius: 5) [11:30:45 -105880.188853] SLOW spr round 21 (radius: 5) [11:33:49 -105880.188271] SLOW spr round 22 (radius: 10) [11:36:58 -105879.488041] SLOW spr round 23 (radius: 5) [11:40:39 -105875.906254] SLOW spr round 24 (radius: 5) [11:44:02 -105874.394515] SLOW spr round 25 (radius: 5) [11:47:10 -105874.059806] SLOW spr round 26 (radius: 5) [11:50:10 -105874.058955] SLOW spr round 27 (radius: 10) [11:53:16 -105874.058777] SLOW spr round 28 (radius: 15) [11:58:45 -105874.058741] SLOW spr round 29 (radius: 20) [12:04:14] [worker #1] ML tree search #12, logLikelihood: -105759.488397 [12:06:29 -105873.918831] SLOW spr round 30 (radius: 5) [12:08:58] [worker #4] ML tree search #10, logLikelihood: -105796.375323 [12:10:20 -105871.503969] SLOW spr round 31 (radius: 5) [12:13:45 -105871.503712] SLOW spr round 32 (radius: 10) [12:17:08 -105871.503700] SLOW spr round 33 (radius: 15) [12:20:33] [worker #3] ML tree search #19, logLikelihood: -105761.918000 [12:22:27 -105871.503700] SLOW spr round 34 (radius: 20) [12:30:13 -105871.503700] SLOW spr round 35 (radius: 25) [12:40:19 -105871.503700] Model parameter optimization (eps = 0.100000) [12:40:28] [worker #0] ML tree search #11, logLikelihood: -105871.483590 [12:40:28 -416135.609923] Initial branch length optimization [12:40:34 -346316.430454] Model parameter optimization (eps = 10.000000) [12:41:34 -345168.892510] AUTODETECT spr round 1 (radius: 5) [12:45:07 -241147.494399] AUTODETECT spr round 2 (radius: 10) [12:48:49 -178491.049009] AUTODETECT spr round 3 (radius: 15) [12:52:37 -149070.020097] AUTODETECT spr round 4 (radius: 20) [12:58:09 -121686.053142] AUTODETECT spr round 5 (radius: 25) [13:03:17] [worker #2] ML tree search #13, logLikelihood: -105781.844964 [13:03:37 -117187.816814] SPR radius for FAST iterations: 25 (autodetect) [13:03:37 -117187.816814] Model parameter optimization (eps = 3.000000) [13:04:09 -117118.466965] FAST spr round 1 (radius: 25) [13:08:39 -106700.441344] FAST spr round 2 (radius: 25) [13:12:05 -106014.797684] FAST spr round 3 (radius: 25) [13:15:05 -105894.570044] FAST spr round 4 (radius: 25) [13:17:47 -105862.468284] FAST spr round 5 (radius: 25) [13:20:13 -105854.529563] FAST spr round 6 (radius: 25) [13:22:31 -105854.528723] Model parameter optimization (eps = 1.000000) [13:22:50 -105849.922841] SLOW spr round 1 (radius: 5) [13:25:56 -105820.136033] SLOW spr round 2 (radius: 5) [13:29:02 -105812.434722] SLOW spr round 3 (radius: 5) [13:32:08 -105807.678112] SLOW spr round 4 (radius: 5) [13:35:11 -105807.299501] SLOW spr round 5 (radius: 5) [13:38:09 -105807.298700] SLOW spr round 6 (radius: 10) [13:41:17 -105791.349019] SLOW spr round 7 (radius: 5) [13:44:59 -105789.452583] SLOW spr round 8 (radius: 5) [13:48:16 -105789.452355] SLOW spr round 9 (radius: 10) [13:51:29 -105788.974460] SLOW spr round 10 (radius: 5) [13:55:05 -105788.973952] SLOW spr round 11 (radius: 10) [13:58:36 -105788.973723] SLOW spr round 12 (radius: 15) [14:03:40 -105788.973538] SLOW spr round 13 (radius: 20) [14:10:47 -105787.804473] SLOW spr round 14 (radius: 5) [14:14:37 -105786.748800] SLOW spr round 15 (radius: 5) [14:17:28] [worker #1] ML tree search #17, logLikelihood: -105814.428813 [14:18:01 -105786.748761] SLOW spr round 16 (radius: 10) [14:21:21 -105786.748761] SLOW spr round 17 (radius: 15) [14:26:28 -105786.748761] SLOW spr round 18 (radius: 20) [14:33:29 -105786.748761] SLOW spr round 19 (radius: 25) [14:42:29 -105786.748761] Model parameter optimization (eps = 0.100000) [14:42:35] [worker #0] ML tree search #16, logLikelihood: -105786.725557 [14:48:21] [worker #4] ML tree search #15, logLikelihood: -105838.443018 [14:58:28] [worker #2] ML tree search #18, logLikelihood: -105732.943613 [17:33:18] [worker #4] ML tree search #20, logLikelihood: -105770.267514 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.132704,0.255158) (0.125785,1.084220) (0.482230,0.835151) (0.259281,1.646962) 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: -105732.943613 AIC score: 215475.887227 / AICc score: 8259535.887227 / BIC score: 222615.053897 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=260). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 237 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/3_mltree/O60315.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/3_mltree/O60315.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/3_mltree/O60315.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/3_mltree/O60315.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O60315/3_mltree/O60315.raxml.log Analysis started: 03-Jul-2021 06:40:54 / finished: 04-Jul-2021 00:14:13 Elapsed time: 63198.749 seconds Consumed energy: 3896.690 Wh (= 19 km in an electric car, or 97 km with an e-scooter!)