RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 24-Jun-2021 04:24:33 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/2_msa/Q92562_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562 --seed 2 --threads 8 --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 (8 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/2_msa/Q92562_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 1163 sites WARNING: Sequences tr_B2WG36_B2WG36_PYRTR_426418 and tr_A0A2W1FVL6_A0A2W1FVL6_9PLEO_45151 are exactly identical! WARNING: Sequences tr_Q29L99_Q29L99_DROPS_46245 and tr_B4GQF3_B4GQF3_DROPE_7234 are exactly identical! WARNING: Sequences tr_Q2UB02_Q2UB02_ASPOR_510516 and tr_A0A1S9DSP0_A0A1S9DSP0_ASPOZ_5062 are exactly identical! WARNING: Sequences tr_F7D8B2_F7D8B2_MACMU_9544 and tr_G7P3N7_G7P3N7_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7D8B2_F7D8B2_MACMU_9544 and tr_A0A0D9RSD2_A0A0D9RSD2_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7D8B2_F7D8B2_MACMU_9544 and tr_A0A2K5L7N2_A0A2K5L7N2_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7D8B2_F7D8B2_MACMU_9544 and tr_A0A2K6EBU4_A0A2K6EBU4_MACNE_9545 are exactly identical! WARNING: Sequences tr_G7XZL9_G7XZL9_ASPKW_1033177 and tr_A0A100IRC2_A0A100IRC2_ASPNG_5061 are exactly identical! WARNING: Sequences tr_G7XZL9_G7XZL9_ASPKW_1033177 and tr_A0A1L9NEJ8_A0A1L9NEJ8_ASPTU_767770 are exactly identical! WARNING: Sequences tr_G7XZL9_G7XZL9_ASPKW_1033177 and tr_A0A317V754_A0A317V754_9EURO_1448314 are exactly identical! WARNING: Sequences tr_B8B3N6_B8B3N6_ORYSI_39946 and tr_A0A0E0PUM6_A0A0E0PUM6_ORYRU_4529 are exactly identical! WARNING: Sequences tr_B8B3N6_B8B3N6_ORYSI_39946 and tr_Q69YB0_Q69YB0_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_F2SRV6_F2SRV6_TRIRC_559305 and tr_A0A178EZT6_A0A178EZT6_TRIRU_5551 are exactly identical! WARNING: Sequences tr_M4DIP6_M4DIP6_BRARP_51351 and tr_A0A078HS93_A0A078HS93_BRANA_3708 are exactly identical! WARNING: Sequences tr_V2X4I3_V2X4I3_MONRO_1381753 and tr_A0A0W0FVL4_A0A0W0FVL4_9AGAR_221103 are exactly identical! WARNING: Sequences tr_A0A094F8E1_A0A094F8E1_9PEZI_1420912 and tr_A0A1B8GBH6_A0A1B8GBH6_9PEZI_342668 are exactly identical! WARNING: Sequences tr_A0A0F8UHL8_A0A0F8UHL8_9EURO_308745 and tr_A0A2T5LLV2_A0A2T5LLV2_9EURO_1392256 are exactly identical! WARNING: Sequences tr_A0A1S4CJ80_A0A1S4CJ80_TOBAC_4097 and tr_A0A1U7Y1R1_A0A1U7Y1R1_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1S3U4T8_A0A1S3U4T8_VIGRR_3916 and tr_A0A3Q0F1A4_A0A3Q0F1A4_VIGRR_3916 are exactly identical! WARNING: Duplicate sequences found: 19 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562.raxml.reduced.phy Alignment comprises 1 partitions and 1163 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 1163 / 1163 Gaps: 29.31 % Invariant sites: 0.77 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562.raxml.rba Parallelization scheme autoconfig: 1 worker(s) x 8 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 / 146 / 11680 [00:00:00] Data distribution: max. searches per worker: 20 Starting ML tree search with 20 distinct starting trees [00:00:00 -1536940.321641] Initial branch length optimization [00:00:07 -1321199.520668] Model parameter optimization (eps = 10.000000) [00:00:49 -1318211.454438] AUTODETECT spr round 1 (radius: 5) [00:03:28 -955283.542042] AUTODETECT spr round 2 (radius: 10) [00:06:25 -731733.290098] AUTODETECT spr round 3 (radius: 15) [00:09:44 -593528.701015] AUTODETECT spr round 4 (radius: 20) [00:12:55 -542503.803886] AUTODETECT spr round 5 (radius: 25) [00:16:47 -539778.792361] SPR radius for FAST iterations: 25 (autodetect) [00:16:47 -539778.792361] Model parameter optimization (eps = 3.000000) [00:17:07 -539550.859071] FAST spr round 1 (radius: 25) [00:20:33 -465354.074113] FAST spr round 2 (radius: 25) [00:23:10 -462564.836617] FAST spr round 3 (radius: 25) [00:25:29 -462285.228948] FAST spr round 4 (radius: 25) [00:27:39 -462172.719812] FAST spr round 5 (radius: 25) [00:29:33 -462169.347741] FAST spr round 6 (radius: 25) [00:31:26 -462169.347128] Model parameter optimization (eps = 1.000000) [00:31:44 -462162.922708] SLOW spr round 1 (radius: 5) [00:34:33 -462050.686527] SLOW spr round 2 (radius: 5) [00:37:08 -462048.482042] SLOW spr round 3 (radius: 5) [00:39:38 -462048.481770] SLOW spr round 4 (radius: 10) [00:42:13 -462048.481767] SLOW spr round 5 (radius: 15) [00:46:48 -462048.481767] SLOW spr round 6 (radius: 20) [00:53:39 -462048.481767] SLOW spr round 7 (radius: 25) [01:02:37 -462048.481767] Model parameter optimization (eps = 0.100000) [01:02:47] ML tree search #1, logLikelihood: -462048.078436 [01:02:47 -1544593.826177] Initial branch length optimization [01:02:53 -1326176.823846] Model parameter optimization (eps = 10.000000) [01:03:36 -1322744.835428] AUTODETECT spr round 1 (radius: 5) [01:06:20 -967695.682096] AUTODETECT spr round 2 (radius: 10) [01:09:20 -694234.082101] AUTODETECT spr round 3 (radius: 15) [01:12:39 -584618.452121] AUTODETECT spr round 4 (radius: 20) [01:16:57 -541860.800900] AUTODETECT spr round 5 (radius: 25) [01:21:49 -533244.942981] SPR radius for FAST iterations: 25 (autodetect) [01:21:49 -533244.942981] Model parameter optimization (eps = 3.000000) [01:22:16 -533051.916605] FAST spr round 1 (radius: 25) [01:25:57 -464604.157498] FAST spr round 2 (radius: 25) [01:28:38 -462306.670626] FAST spr round 3 (radius: 25) [01:30:58 -462177.291823] FAST spr round 4 (radius: 25) [01:33:02 -462176.719835] FAST spr round 5 (radius: 25) [01:35:03 -462176.719834] Model parameter optimization (eps = 1.000000) [01:35:18 -462164.304591] SLOW spr round 1 (radius: 5) [01:38:12 -462058.253325] SLOW spr round 2 (radius: 5) [01:40:56 -462055.465015] SLOW spr round 3 (radius: 5) [01:43:35 -462055.464998] SLOW spr round 4 (radius: 10) [01:46:17 -462055.373347] SLOW spr round 5 (radius: 15) [01:51:03 -462055.373335] SLOW spr round 6 (radius: 20) [01:58:14 -462055.373335] SLOW spr round 7 (radius: 25) [02:07:34 -462055.373335] Model parameter optimization (eps = 0.100000) [02:07:40] ML tree search #2, logLikelihood: -462055.278467 [02:07:40 -1543659.253249] Initial branch length optimization [02:07:47 -1323341.293639] Model parameter optimization (eps = 10.000000) [02:08:38 -1320137.173908] AUTODETECT spr round 1 (radius: 5) [02:11:30 -965613.877769] AUTODETECT spr round 2 (radius: 10) [02:14:33 -711286.444624] AUTODETECT spr round 3 (radius: 15) [02:17:52 -584191.862579] AUTODETECT spr round 4 (radius: 20) [02:21:31 -542618.393865] AUTODETECT spr round 5 (radius: 25) [02:26:12 -534025.004895] SPR radius for FAST iterations: 25 (autodetect) [02:26:12 -534025.004895] Model parameter optimization (eps = 3.000000) [02:26:33 -533803.294896] FAST spr round 1 (radius: 25) [02:30:03 -465694.260567] FAST spr round 2 (radius: 25) [02:32:43 -462490.501885] FAST spr round 3 (radius: 25) [02:35:08 -462171.796563] FAST spr round 4 (radius: 25) [02:37:08 -462169.301657] FAST spr round 5 (radius: 25) [02:39:05 -462169.301604] Model parameter optimization (eps = 1.000000) [02:39:21 -462167.858860] SLOW spr round 1 (radius: 5) [02:42:14 -462053.054400] SLOW spr round 2 (radius: 5) [02:44:50 -462049.480049] SLOW spr round 3 (radius: 5) [02:47:22 -462049.480012] SLOW spr round 4 (radius: 10) [02:50:01 -462049.480012] SLOW spr round 5 (radius: 15) [02:54:44 -462049.480012] SLOW spr round 6 (radius: 20) [03:01:45 -462049.480012] SLOW spr round 7 (radius: 25) [03:10:45 -462049.480012] Model parameter optimization (eps = 0.100000) [03:11:00] ML tree search #3, logLikelihood: -462049.206344 [03:11:00 -1541211.827924] Initial branch length optimization [03:11:05 -1323910.462090] Model parameter optimization (eps = 10.000000) [03:11:43 -1321047.916634] AUTODETECT spr round 1 (radius: 5) [03:14:25 -972279.704452] AUTODETECT spr round 2 (radius: 10) [03:17:21 -735996.367021] AUTODETECT spr round 3 (radius: 15) [03:20:34 -642610.798508] AUTODETECT spr round 4 (radius: 20) [03:24:39 -589815.824131] AUTODETECT spr round 5 (radius: 25) [03:29:21 -559399.865049] SPR radius for FAST iterations: 25 (autodetect) [03:29:21 -559399.865049] Model parameter optimization (eps = 3.000000) [03:29:45 -559271.182554] FAST spr round 1 (radius: 25) [03:33:22 -465195.655848] FAST spr round 2 (radius: 25) [03:36:01 -462501.575825] FAST spr round 3 (radius: 25) [03:38:26 -462221.666311] FAST spr round 4 (radius: 25) [03:40:35 -462184.456462] FAST spr round 5 (radius: 25) [03:42:38 -462176.207156] FAST spr round 6 (radius: 25) [03:44:38 -462176.207130] Model parameter optimization (eps = 1.000000) [03:44:55 -462151.525468] SLOW spr round 1 (radius: 5) [03:47:51 -462036.902269] SLOW spr round 2 (radius: 5) [03:50:36 -462033.230995] SLOW spr round 3 (radius: 5) [03:53:13 -462033.230863] SLOW spr round 4 (radius: 10) [03:55:58 -462033.142000] SLOW spr round 5 (radius: 15) [04:00:48 -462033.141988] SLOW spr round 6 (radius: 20) [04:08:08 -462033.141988] SLOW spr round 7 (radius: 25) [04:17:32 -462033.141988] Model parameter optimization (eps = 0.100000) [04:17:39] ML tree search #4, logLikelihood: -462033.126259 [04:17:39 -1535727.663575] Initial branch length optimization [04:17:44 -1322833.826111] Model parameter optimization (eps = 10.000000) [04:18:39 -1319979.068524] AUTODETECT spr round 1 (radius: 5) [04:21:28 -944054.515525] AUTODETECT spr round 2 (radius: 10) [04:24:37 -718825.149431] AUTODETECT spr round 3 (radius: 15) [04:28:17 -594701.972759] AUTODETECT spr round 4 (radius: 20) [04:32:23 -548967.404684] AUTODETECT spr round 5 (radius: 25) [04:36:49 -536001.140220] SPR radius for FAST iterations: 25 (autodetect) [04:36:49 -536001.140220] Model parameter optimization (eps = 3.000000) [04:37:11 -535895.102636] FAST spr round 1 (radius: 25) [04:40:38 -464274.819725] FAST spr round 2 (radius: 25) [04:43:17 -462298.752869] FAST spr round 3 (radius: 25) [04:45:39 -462192.489768] FAST spr round 4 (radius: 25) [04:47:47 -462166.322649] FAST spr round 5 (radius: 25) [04:49:41 -462164.867101] FAST spr round 6 (radius: 25) [04:51:33 -462164.866596] Model parameter optimization (eps = 1.000000) [04:51:49 -462155.636031] SLOW spr round 1 (radius: 5) [04:54:37 -462048.112952] SLOW spr round 2 (radius: 5) [04:57:19 -462038.680604] SLOW spr round 3 (radius: 5) [04:59:49 -462038.193333] SLOW spr round 4 (radius: 5) [05:02:18 -462038.193331] SLOW spr round 5 (radius: 10) [05:04:54 -462038.193331] SLOW spr round 6 (radius: 15) [05:09:36 -462038.193331] SLOW spr round 7 (radius: 20) [05:16:40 -462038.193331] SLOW spr round 8 (radius: 25) [05:25:51 -462038.193331] Model parameter optimization (eps = 0.100000) [05:26:02] ML tree search #5, logLikelihood: -462037.466803 [05:26:02 -1543149.512825] Initial branch length optimization [05:26:07 -1324349.983049] Model parameter optimization (eps = 10.000000) [05:26:44 -1321308.694852] AUTODETECT spr round 1 (radius: 5) [05:29:40 -973640.153251] AUTODETECT spr round 2 (radius: 10) [05:32:51 -721891.694787] AUTODETECT spr round 3 (radius: 15) [05:36:28 -558146.812709] AUTODETECT spr round 4 (radius: 20) [05:40:22 -529456.316254] AUTODETECT spr round 5 (radius: 25) [05:44:47 -522063.512029] SPR radius for FAST iterations: 25 (autodetect) [05:44:47 -522063.512029] Model parameter optimization (eps = 3.000000) [05:45:09 -521952.480232] FAST spr round 1 (radius: 25) [05:48:42 -463996.818973] FAST spr round 2 (radius: 25) [05:51:28 -462259.521891] FAST spr round 3 (radius: 25) [05:53:58 -462187.344738] FAST spr round 4 (radius: 25) [05:56:03 -462187.344557] Model parameter optimization (eps = 1.000000) [05:56:23 -462178.009529] SLOW spr round 1 (radius: 5) [05:59:28 -462062.849399] SLOW spr round 2 (radius: 5) [06:02:09 -462057.459667] SLOW spr round 3 (radius: 5) [06:04:51 -462047.308119] SLOW spr round 4 (radius: 5) [06:07:26 -462047.308036] SLOW spr round 5 (radius: 10) [06:10:11 -462043.702779] SLOW spr round 6 (radius: 5) [06:13:32 -462043.702775] SLOW spr round 7 (radius: 10) [06:16:39 -462043.620340] SLOW spr round 8 (radius: 15) [06:21:12 -462043.620328] SLOW spr round 9 (radius: 20) [06:28:35 -462043.620328] SLOW spr round 10 (radius: 25) [06:37:48 -462043.620328] Model parameter optimization (eps = 0.100000) [06:37:57] ML tree search #6, logLikelihood: -462043.518699 [06:37:57 -1548925.848523] Initial branch length optimization [06:38:01 -1329916.097788] Model parameter optimization (eps = 10.000000) [06:39:00 -1326592.646928] AUTODETECT spr round 1 (radius: 5) [06:41:51 -973958.105490] AUTODETECT spr round 2 (radius: 10) [06:44:55 -694396.840317] AUTODETECT spr round 3 (radius: 15) [06:48:06 -608714.927339] AUTODETECT spr round 4 (radius: 20) [06:52:06 -581820.382195] AUTODETECT spr round 5 (radius: 25) [06:56:30 -545569.967219] SPR radius for FAST iterations: 25 (autodetect) [06:56:30 -545569.967219] Model parameter optimization (eps = 3.000000) [06:56:39 -545539.045612] FAST spr round 1 (radius: 25) [07:00:05 -466059.251354] FAST spr round 2 (radius: 25) [07:02:36 -462496.919895] FAST spr round 3 (radius: 25) [07:04:52 -462377.285702] FAST spr round 4 (radius: 25) [07:06:52 -462358.584438] FAST spr round 5 (radius: 25) [07:08:43 -462358.584429] Model parameter optimization (eps = 1.000000) [07:08:59 -462169.968316] SLOW spr round 1 (radius: 5) [07:11:50 -462046.525501] SLOW spr round 2 (radius: 5) [07:14:25 -462041.028208] SLOW spr round 3 (radius: 5) [07:16:55 -462041.028157] SLOW spr round 4 (radius: 10) [07:19:31 -462040.950922] SLOW spr round 5 (radius: 15) [07:24:15 -462040.950911] SLOW spr round 6 (radius: 20) [07:31:35 -462040.950911] SLOW spr round 7 (radius: 25) RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM RAxML-NG was called at 25-Jun-2021 01:22:08 as follows: raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/2_msa/Q92562_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562 --seed 2 --threads 8 --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 (8 threads), thread pinning: OFF WARNING: The model you specified on the command line (LG4X) will be ignored since the binary MSA file already contains a model definition. If you want to change the model, please re-run RAxML-NG with the original PHYLIP/FASTA alignment and --redo option. [00:00:00] Loading binary alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562.raxml.rba [00:00:00] Alignment comprises 1001 taxa, 1 partitions and 1163 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 1163 / 1163 Gaps: 29.31 % Invariant sites: 0.77 % Parallelization scheme autoconfig: 1 worker(s) x 8 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] NOTE: Resuming execution from checkpoint (logLH: -462040.95, ML trees: 6, bootstraps: 0) [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 146 / 11680 [00:00:00] Data distribution: max. searches per worker: 14 Starting ML tree search with 20 distinct starting trees [00:00:00 -462040.950911] SPR radius for FAST iterations: 25 (autodetect) [00:00:00 -462040.950911] SLOW spr round 7 (radius: 25) [00:09:30 -462040.950911] Model parameter optimization (eps = 0.100000) [00:09:34] ML tree search #7, logLikelihood: -462040.949068 [00:09:34 -1534059.206235] Initial branch length optimization [00:09:39 -1318617.360637] Model parameter optimization (eps = 10.000000) [00:10:16 -1315779.521686] AUTODETECT spr round 1 (radius: 5) [00:13:04 -958179.606468] AUTODETECT spr round 2 (radius: 10) [00:16:05 -706381.290424] AUTODETECT spr round 3 (radius: 15) [00:19:29 -559527.049484] AUTODETECT spr round 4 (radius: 20) [00:23:42 -523159.570684] AUTODETECT spr round 5 (radius: 25) [00:29:16 -518456.522725] SPR radius for FAST iterations: 25 (autodetect) [00:29:16 -518456.522725] Model parameter optimization (eps = 3.000000) [00:29:33 -518366.566577] FAST spr round 1 (radius: 25) [00:33:00 -463378.011047] FAST spr round 2 (radius: 25) [00:35:32 -462266.072262] FAST spr round 3 (radius: 25) [00:37:43 -462211.854023] FAST spr round 4 (radius: 25) [00:39:41 -462209.500495] FAST spr round 5 (radius: 25) [00:41:33 -462209.500490] Model parameter optimization (eps = 1.000000) [00:41:51 -462197.799306] SLOW spr round 1 (radius: 5) [00:44:47 -462049.695586] SLOW spr round 2 (radius: 5) [00:47:32 -462038.832369] SLOW spr round 3 (radius: 5) [00:50:09 -462038.337498] SLOW spr round 4 (radius: 5) [00:52:44 -462038.337494] SLOW spr round 5 (radius: 10) [00:55:27 -462038.337494] SLOW spr round 6 (radius: 15) [01:00:12 -462038.337494] SLOW spr round 7 (radius: 20) [01:07:19 -462038.337494] SLOW spr round 8 (radius: 25) [01:16:26 -462038.337494] Model parameter optimization (eps = 0.100000) [01:16:39] ML tree search #8, logLikelihood: -462037.315887 [01:16:39 -1540541.773046] Initial branch length optimization [01:16:45 -1316957.462545] Model parameter optimization (eps = 10.000000) [01:17:31 -1313986.022850] AUTODETECT spr round 1 (radius: 5) [01:20:18 -983026.262902] AUTODETECT spr round 2 (radius: 10) [01:23:23 -727809.839689] AUTODETECT spr round 3 (radius: 15) [01:26:49 -613622.149443] AUTODETECT spr round 4 (radius: 20) [01:30:55 -557142.061611] AUTODETECT spr round 5 (radius: 25) [01:35:44 -536998.595560] SPR radius for FAST iterations: 25 (autodetect) [01:35:44 -536998.595560] Model parameter optimization (eps = 3.000000) [01:35:55 -536966.902562] FAST spr round 1 (radius: 25) [01:39:17 -465220.651068] FAST spr round 2 (radius: 25) [01:41:47 -462516.212069] FAST spr round 3 (radius: 25) [01:44:02 -462311.567684] FAST spr round 4 (radius: 25) [01:46:01 -462289.944348] FAST spr round 5 (radius: 25) [01:47:53 -462285.761987] FAST spr round 6 (radius: 25) [01:49:46 -462285.761902] Model parameter optimization (eps = 1.000000) [01:50:03 -462186.015113] SLOW spr round 1 (radius: 5) [01:52:52 -462040.201464] SLOW spr round 2 (radius: 5) [01:55:29 -462039.013230] SLOW spr round 3 (radius: 5) [01:58:04 -462038.619923] SLOW spr round 4 (radius: 5) [02:00:33 -462038.619231] SLOW spr round 5 (radius: 10) [02:03:09 -462035.014588] SLOW spr round 6 (radius: 5) [02:06:16 -462035.014585] SLOW spr round 7 (radius: 10) [02:09:08 -462035.014585] SLOW spr round 8 (radius: 15) [02:13:32 -462035.014585] SLOW spr round 9 (radius: 20) [02:20:44 -462035.014585] SLOW spr round 10 (radius: 25) [02:29:58 -462035.014585] Model parameter optimization (eps = 0.100000) [02:30:02] ML tree search #9, logLikelihood: -462035.010949 [02:30:02 -1543070.647828] Initial branch length optimization [02:30:08 -1326445.844203] Model parameter optimization (eps = 10.000000) [02:31:11 -1323228.514577] AUTODETECT spr round 1 (radius: 5) [02:34:01 -969621.792986] AUTODETECT spr round 2 (radius: 10) [02:37:10 -695569.709376] AUTODETECT spr round 3 (radius: 15) [02:40:39 -615645.068659] AUTODETECT spr round 4 (radius: 20) [02:45:01 -563166.397478] AUTODETECT spr round 5 (radius: 25) [02:49:27 -552998.819208] SPR radius for FAST iterations: 25 (autodetect) [02:49:27 -552998.819208] Model parameter optimization (eps = 3.000000) [02:49:45 -552820.490667] FAST spr round 1 (radius: 25) [02:53:15 -465347.984808] FAST spr round 2 (radius: 25) [02:55:52 -462273.842289] FAST spr round 3 (radius: 25) [02:58:08 -462171.206389] FAST spr round 4 (radius: 25) [03:00:10 -462145.488905] FAST spr round 5 (radius: 25) [03:02:03 -462145.488897] Model parameter optimization (eps = 1.000000) [03:02:19 -462129.703493] SLOW spr round 1 (radius: 5) [03:05:08 -462046.306286] SLOW spr round 2 (radius: 5) [03:07:48 -462036.963425] SLOW spr round 3 (radius: 5) [03:10:21 -462036.963416] SLOW spr round 4 (radius: 10) [03:13:08 -462036.963416] SLOW spr round 5 (radius: 15) [03:17:58 -462036.963416] SLOW spr round 6 (radius: 20) [03:25:12 -462036.963416] SLOW spr round 7 (radius: 25) [03:34:32 -462036.963416] Model parameter optimization (eps = 0.100000) [03:34:41] ML tree search #10, logLikelihood: -462036.854919 [03:34:41 -1546776.878462] Initial branch length optimization [03:34:47 -1321744.786014] Model parameter optimization (eps = 10.000000) [03:35:30 -1318385.784277] AUTODETECT spr round 1 (radius: 5) [03:38:23 -958943.377035] AUTODETECT spr round 2 (radius: 10) [03:41:26 -721722.102407] AUTODETECT spr round 3 (radius: 15) [03:45:03 -584889.708751] AUTODETECT spr round 4 (radius: 20) [03:49:03 -528067.326089] AUTODETECT spr round 5 (radius: 25) [03:53:40 -525765.790276] SPR radius for FAST iterations: 25 (autodetect) [03:53:40 -525765.790276] Model parameter optimization (eps = 3.000000) [03:53:51 -525739.750581] FAST spr round 1 (radius: 25) [03:57:24 -464794.861156] FAST spr round 2 (radius: 25) [03:59:58 -462777.604779] FAST spr round 3 (radius: 25) [04:02:19 -462488.289678] FAST spr round 4 (radius: 25) [04:04:27 -462405.065357] FAST spr round 5 (radius: 25) [04:06:31 -462359.593631] FAST spr round 6 (radius: 25) [04:08:25 -462359.593628] Model parameter optimization (eps = 1.000000) [04:08:44 -462195.078229] SLOW spr round 1 (radius: 5) [04:11:33 -462051.234118] SLOW spr round 2 (radius: 5) [04:14:09 -462047.615560] SLOW spr round 3 (radius: 5) [04:16:39 -462047.615500] SLOW spr round 4 (radius: 10) [04:19:18 -462047.615500] SLOW spr round 5 (radius: 15) [04:24:05 -462047.615500] SLOW spr round 6 (radius: 20) [04:31:07 -462047.615500] SLOW spr round 7 (radius: 25) [04:40:15 -462047.615500] Model parameter optimization (eps = 0.100000) [04:40:29] ML tree search #11, logLikelihood: -462047.345894 [04:40:29 -1543270.890133] Initial branch length optimization [04:40:34 -1322608.762052] Model parameter optimization (eps = 10.000000) [04:41:22 -1319544.771534] AUTODETECT spr round 1 (radius: 5) [04:44:07 -963366.552727] AUTODETECT spr round 2 (radius: 10) [04:47:10 -699974.268784] AUTODETECT spr round 3 (radius: 15) [04:50:35 -582246.380388] AUTODETECT spr round 4 (radius: 20) [04:54:37 -539505.427943] AUTODETECT spr round 5 (radius: 25) [04:58:56 -534196.271432] SPR radius for FAST iterations: 25 (autodetect) [04:58:56 -534196.271432] Model parameter optimization (eps = 3.000000) [04:59:19 -533918.489084] FAST spr round 1 (radius: 25) [05:02:34 -464375.696705] FAST spr round 2 (radius: 25) [05:05:07 -462294.196734] FAST spr round 3 (radius: 25) [05:07:31 -462164.652757] FAST spr round 4 (radius: 25) [05:09:31 -462160.534090] FAST spr round 5 (radius: 25) [05:11:29 -462158.647400] FAST spr round 6 (radius: 25) [05:13:24 -462158.647068] Model parameter optimization (eps = 1.000000) [05:13:34 -462157.371639] SLOW spr round 1 (radius: 5) [05:16:25 -462039.879632] SLOW spr round 2 (radius: 5) [05:18:59 -462039.180072] SLOW spr round 3 (radius: 5) [05:21:28 -462039.180059] SLOW spr round 4 (radius: 10) [05:24:13 -462039.180059] SLOW spr round 5 (radius: 15) [05:29:01 -462039.180059] SLOW spr round 6 (radius: 20) [05:36:08 -462039.180059] SLOW spr round 7 (radius: 25) [05:45:22 -462039.180059] Model parameter optimization (eps = 0.100000) [05:45:32] ML tree search #12, logLikelihood: -462038.977099 [05:45:32 -1542339.942006] Initial branch length optimization [05:45:37 -1319114.798230] Model parameter optimization (eps = 10.000000) [05:46:30 -1315999.775622] AUTODETECT spr round 1 (radius: 5) [05:49:25 -946551.222497] AUTODETECT spr round 2 (radius: 10) [05:52:32 -704169.516422] AUTODETECT spr round 3 (radius: 15) [05:56:09 -567868.955076] AUTODETECT spr round 4 (radius: 20) [05:59:57 -527858.176851] AUTODETECT spr round 5 (radius: 25) [06:04:06 -526019.657801] SPR radius for FAST iterations: 25 (autodetect) [06:04:06 -526019.657801] Model parameter optimization (eps = 3.000000) [06:04:32 -525753.496611] FAST spr round 1 (radius: 25) [06:08:04 -465615.925922] FAST spr round 2 (radius: 25) [06:10:41 -462243.610944] FAST spr round 3 (radius: 25) [06:13:00 -462163.839441] FAST spr round 4 (radius: 25) [06:15:04 -462144.119018] FAST spr round 5 (radius: 25) [06:17:00 -462144.119013] Model parameter optimization (eps = 1.000000) [06:17:23 -462139.581739] SLOW spr round 1 (radius: 5) [06:20:12 -462053.432202] SLOW spr round 2 (radius: 5) [06:22:54 -462048.576301] SLOW spr round 3 (radius: 5) [06:25:26 -462048.576245] SLOW spr round 4 (radius: 10) [06:28:07 -462048.493173] SLOW spr round 5 (radius: 15) [06:32:49 -462048.493164] SLOW spr round 6 (radius: 20) [06:39:50 -462048.493164] SLOW spr round 7 (radius: 25) [06:49:04 -462048.493164] Model parameter optimization (eps = 0.100000) [06:49:15] ML tree search #13, logLikelihood: -462048.316345 [06:49:15 -1541050.369418] Initial branch length optimization [06:49:21 -1322734.094458] Model parameter optimization (eps = 10.000000) [06:50:12 -1319572.706604] AUTODETECT spr round 1 (radius: 5) [06:52:55 -967704.986231] AUTODETECT spr round 2 (radius: 10) [06:55:58 -721143.469528] AUTODETECT spr round 3 (radius: 15) [06:59:21 -601909.769079] AUTODETECT spr round 4 (radius: 20) [07:03:38 -538788.478344] AUTODETECT spr round 5 (radius: 25) [07:08:35 -530478.787096] SPR radius for FAST iterations: 25 (autodetect) [07:08:35 -530478.787096] Model parameter optimization (eps = 3.000000) [07:08:47 -530451.416869] FAST spr round 1 (radius: 25) [07:12:21 -465549.575135] FAST spr round 2 (radius: 25) [07:14:54 -462484.377188] FAST spr round 3 (radius: 25) [07:17:18 -462373.611776] FAST spr round 4 (radius: 25) [07:19:26 -462321.138424] FAST spr round 5 (radius: 25) [07:21:22 -462306.518596] FAST spr round 6 (radius: 25) [07:23:15 -462306.517956] Model parameter optimization (eps = 1.000000) [07:23:31 -462165.637035] SLOW spr round 1 (radius: 5) [07:26:23 -462058.089700] SLOW spr round 2 (radius: 5) [07:29:09 -462051.567331] SLOW spr round 3 (radius: 5) [07:31:42 -462051.567220] SLOW spr round 4 (radius: 10) [07:34:21 -462051.567220] SLOW spr round 5 (radius: 15) [07:39:12 -462051.567220] SLOW spr round 6 (radius: 20) [07:46:33 -462051.567220] SLOW spr round 7 (radius: 25) [07:55:59 -462051.567220] Model parameter optimization (eps = 0.100000) [07:56:16] ML tree search #14, logLikelihood: -462050.257275 [07:56:16 -1539749.514280] Initial branch length optimization [07:56:21 -1322861.748153] Model parameter optimization (eps = 10.000000) [07:56:58 -1319863.430650] AUTODETECT spr round 1 (radius: 5) [07:59:44 -970263.929625] AUTODETECT spr round 2 (radius: 10) [08:02:46 -717870.458357] AUTODETECT spr round 3 (radius: 15) [08:06:11 -588232.533280] AUTODETECT spr round 4 (radius: 20) [08:09:44 -539286.856049] AUTODETECT spr round 5 (radius: 25) [08:13:39 -530871.474728] SPR radius for FAST iterations: 25 (autodetect) [08:13:39 -530871.474728] Model parameter optimization (eps = 3.000000) [08:14:12 -530785.903627] FAST spr round 1 (radius: 25) [08:17:40 -464533.549455] FAST spr round 2 (radius: 25) [08:20:17 -462364.203138] FAST spr round 3 (radius: 25) [08:22:41 -462129.015673] FAST spr round 4 (radius: 25) [08:24:37 -462129.015154] Model parameter optimization (eps = 1.000000) [08:24:55 -462124.492920] SLOW spr round 1 (radius: 5) [08:27:47 -462058.321413] SLOW spr round 2 (radius: 5) [08:30:26 -462052.483146] SLOW spr round 3 (radius: 5) [08:32:59 -462052.315400] SLOW spr round 4 (radius: 5) [08:35:31 -462052.315396] SLOW spr round 5 (radius: 10) [08:38:10 -462052.315396] SLOW spr round 6 (radius: 15) [08:42:57 -462052.315396] SLOW spr round 7 (radius: 20) [08:50:07 -462052.315396] SLOW spr round 8 (radius: 25) [08:59:16 -462052.315396] Model parameter optimization (eps = 0.100000) [08:59:28] ML tree search #15, logLikelihood: -462051.958786 [08:59:28 -1541992.314873] Initial branch length optimization [08:59:34 -1321922.305326] Model parameter optimization (eps = 10.000000) [09:00:11 -1318916.013810] AUTODETECT spr round 1 (radius: 5) [09:02:53 -949832.830554] AUTODETECT spr round 2 (radius: 10) [09:05:54 -714035.083619] AUTODETECT spr round 3 (radius: 15) [09:09:12 -606797.702480] AUTODETECT spr round 4 (radius: 20) [09:12:39 -555369.593688] AUTODETECT spr round 5 (radius: 25) [09:16:40 -542112.756508] SPR radius for FAST iterations: 25 (autodetect) [09:16:40 -542112.756508] Model parameter optimization (eps = 3.000000) [09:17:08 -542006.737075] FAST spr round 1 (radius: 25) [09:20:34 -465600.653090] FAST spr round 2 (radius: 25) [09:23:11 -462358.049192] FAST spr round 3 (radius: 25) [09:25:24 -462169.486548] FAST spr round 4 (radius: 25) [09:27:28 -462139.584901] FAST spr round 5 (radius: 25) [09:29:18 -462137.548679] FAST spr round 6 (radius: 25) [09:31:04 -462137.548350] Model parameter optimization (eps = 1.000000) [09:31:20 -462124.783918] SLOW spr round 1 (radius: 5) [09:34:04 -462058.131559] SLOW spr round 2 (radius: 5) [09:36:36 -462055.730358] SLOW spr round 3 (radius: 5) [09:39:05 -462047.806474] SLOW spr round 4 (radius: 5) [09:41:29 -462047.806457] SLOW spr round 5 (radius: 10) [09:44:03 -462047.806457] SLOW spr round 6 (radius: 15) [09:48:43 -462047.806457] SLOW spr round 7 (radius: 20) [09:55:40 -462047.806457] SLOW spr round 8 (radius: 25) [10:04:44 -462047.806457] Model parameter optimization (eps = 0.100000) [10:04:55] ML tree search #16, logLikelihood: -462047.331914 [10:04:55 -1537578.262031] Initial branch length optimization [10:05:00 -1321759.239096] Model parameter optimization (eps = 10.000000) [10:05:50 -1318466.823200] AUTODETECT spr round 1 (radius: 5) [10:08:33 -956881.614340] AUTODETECT spr round 2 (radius: 10) [10:11:31 -695569.884786] AUTODETECT spr round 3 (radius: 15) [10:14:56 -591721.400270] AUTODETECT spr round 4 (radius: 20) [10:18:37 -554534.867204] AUTODETECT spr round 5 (radius: 25) [10:23:03 -532715.062469] SPR radius for FAST iterations: 25 (autodetect) [10:23:03 -532715.062469] Model parameter optimization (eps = 3.000000) [10:23:27 -532532.358056] FAST spr round 1 (radius: 25) [10:26:46 -464720.986071] FAST spr round 2 (radius: 25) [10:29:15 -462479.354804] FAST spr round 3 (radius: 25) [10:31:29 -462315.641218] FAST spr round 4 (radius: 25) [10:33:30 -462180.759698] FAST spr round 5 (radius: 25) [10:35:21 -462156.366634] FAST spr round 6 (radius: 25) [10:37:11 -462154.625698] FAST spr round 7 (radius: 25) [10:38:59 -462154.625647] Model parameter optimization (eps = 1.000000) [10:39:19 -462141.148379] SLOW spr round 1 (radius: 5) [10:42:02 -462051.899073] SLOW spr round 2 (radius: 5) [10:44:37 -462041.723421] SLOW spr round 3 (radius: 5) [10:47:04 -462041.723398] SLOW spr round 4 (radius: 10) [10:49:39 -462038.114517] SLOW spr round 5 (radius: 5) [10:52:44 -462038.114513] SLOW spr round 6 (radius: 10) [10:55:35 -462038.114513] SLOW spr round 7 (radius: 15) [10:59:59 -462038.114513] SLOW spr round 8 (radius: 20) [11:07:14 -462038.114513] SLOW spr round 9 (radius: 25) [11:16:17 -462038.114513] Model parameter optimization (eps = 0.100000) [11:16:26] ML tree search #17, logLikelihood: -462037.591495 [11:16:26 -1544036.607725] Initial branch length optimization [11:16:31 -1326266.223731] Model parameter optimization (eps = 10.000000) [11:17:14 -1323178.850434] AUTODETECT spr round 1 (radius: 5) [11:19:53 -961866.009506] AUTODETECT spr round 2 (radius: 10) [11:22:47 -706937.285104] AUTODETECT spr round 3 (radius: 15) [11:26:11 -552240.132911] AUTODETECT spr round 4 (radius: 20) [11:29:45 -531291.941987] AUTODETECT spr round 5 (radius: 25) [11:34:44 -527496.706732] SPR radius for FAST iterations: 25 (autodetect) [11:34:44 -527496.706732] Model parameter optimization (eps = 3.000000) [11:35:03 -527383.659893] FAST spr round 1 (radius: 25) [11:38:18 -464873.705426] FAST spr round 2 (radius: 25) [11:40:48 -462362.200569] FAST spr round 3 (radius: 25) [11:42:57 -462134.022431] FAST spr round 4 (radius: 25) [11:44:54 -462122.419850] FAST spr round 5 (radius: 25) [11:46:41 -462122.419792] Model parameter optimization (eps = 1.000000) [11:46:56 -462116.400532] SLOW spr round 1 (radius: 5) [11:49:40 -462045.046713] SLOW spr round 2 (radius: 5) [11:52:08 -462045.046202] SLOW spr round 3 (radius: 10) [11:54:46 -462044.887887] SLOW spr round 4 (radius: 5) [11:57:54 -462044.887589] SLOW spr round 5 (radius: 10) [12:00:46 -462044.887589] SLOW spr round 6 (radius: 15) [12:05:08 -462044.887589] SLOW spr round 7 (radius: 20) [12:12:17 -462044.887589] SLOW spr round 8 (radius: 25) [12:21:19 -462044.887589] Model parameter optimization (eps = 0.100000) [12:21:25] ML tree search #18, logLikelihood: -462044.863625 [12:21:25 -1546192.073821] Initial branch length optimization [12:21:30 -1324965.443271] Model parameter optimization (eps = 10.000000) [12:22:12 -1321633.587190] AUTODETECT spr round 1 (radius: 5) [12:24:54 -964803.150099] AUTODETECT spr round 2 (radius: 10) [12:27:50 -708320.830547] AUTODETECT spr round 3 (radius: 15) [12:30:53 -607655.250578] AUTODETECT spr round 4 (radius: 20) [12:34:39 -528825.198850] AUTODETECT spr round 5 (radius: 25) [12:38:54 -524669.881776] SPR radius for FAST iterations: 25 (autodetect) [12:38:54 -524669.881776] Model parameter optimization (eps = 3.000000) [12:39:17 -524498.431277] FAST spr round 1 (radius: 25) [12:42:32 -463798.098239] FAST spr round 2 (radius: 25) [12:45:02 -462277.444082] FAST spr round 3 (radius: 25) [12:47:10 -462182.164617] FAST spr round 4 (radius: 25) [12:49:04 -462172.508276] FAST spr round 5 (radius: 25) [12:50:52 -462172.508263] Model parameter optimization (eps = 1.000000) [12:51:06 -462168.436114] SLOW spr round 1 (radius: 5) [12:53:50 -462045.966416] SLOW spr round 2 (radius: 5) [12:56:21 -462043.761418] SLOW spr round 3 (radius: 5) [12:58:45 -462043.761355] SLOW spr round 4 (radius: 10) [13:01:17 -462043.761354] SLOW spr round 5 (radius: 15) [13:05:56 -462043.761354] SLOW spr round 6 (radius: 20) [13:12:53 -462043.761354] SLOW spr round 7 (radius: 25) [13:21:56 -462043.761354] Model parameter optimization (eps = 0.100000) [13:22:13] ML tree search #19, logLikelihood: -462042.291052 [13:22:13 -1548941.011146] Initial branch length optimization [13:22:21 -1325938.483327] Model parameter optimization (eps = 10.000000) [13:23:03 -1322823.656849] AUTODETECT spr round 1 (radius: 5) [13:25:54 -967585.190888] AUTODETECT spr round 2 (radius: 10) [13:28:52 -719766.361116] AUTODETECT spr round 3 (radius: 15) [13:32:03 -588262.150474] AUTODETECT spr round 4 (radius: 20) [13:35:43 -535856.909330] AUTODETECT spr round 5 (radius: 25) [13:39:50 -530237.628539] SPR radius for FAST iterations: 25 (autodetect) [13:39:50 -530237.628539] Model parameter optimization (eps = 3.000000) [13:40:01 -530204.680392] FAST spr round 1 (radius: 25) [13:43:20 -464414.998111] FAST spr round 2 (radius: 25) [13:45:46 -462531.065861] FAST spr round 3 (radius: 25) [13:47:59 -462342.389307] FAST spr round 4 (radius: 25) [13:49:53 -462317.653243] FAST spr round 5 (radius: 25) [13:51:41 -462314.367935] FAST spr round 6 (radius: 25) [13:53:26 -462314.367933] Model parameter optimization (eps = 1.000000) [13:53:45 -462160.113371] SLOW spr round 1 (radius: 5) [13:56:26 -462060.826477] SLOW spr round 2 (radius: 5) [13:59:00 -462053.672944] SLOW spr round 3 (radius: 5) [14:01:26 -462052.720574] SLOW spr round 4 (radius: 5) [14:03:50 -462052.720522] SLOW spr round 5 (radius: 10) [14:06:20 -462052.720521] SLOW spr round 6 (radius: 15) [14:10:59 -462052.720521] SLOW spr round 7 (radius: 20) [14:17:57 -462052.720521] SLOW spr round 8 (radius: 25) [14:26:58 -462052.720521] Model parameter optimization (eps = 0.100000) [14:27:05] ML tree search #20, logLikelihood: -462052.621192 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.151848,0.176043) (0.151437,0.263642) (0.282096,0.685135) (0.414620,1.784936) 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: -462033.126259 AIC score: 928076.252517 / AICc score: 8972136.252517 / BIC score: 938219.062613 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=1163). This might lead to overfitting and compromise tree inference results! Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562.raxml.bestTree All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562.raxml.mlTrees Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562.raxml.bestModel Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_040621/phylogeny-snakemake/results/Q92562/3_mltree/Q92562.raxml.log Analysis started: 25-Jun-2021 01:22:08 / finished: 25-Jun-2021 15:49:14 Elapsed time: 52026.051 seconds (this run) / 79121.626 seconds (total with restarts)