pg-sui 1.0.2.1__py3-none-any.whl → 1.6.8__py3-none-any.whl
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- {pg_sui-1.0.2.1.dist-info → pg_sui-1.6.8.dist-info}/METADATA +51 -70
- pg_sui-1.6.8.dist-info/RECORD +78 -0
- {pg_sui-1.0.2.1.dist-info → pg_sui-1.6.8.dist-info}/WHEEL +1 -1
- pg_sui-1.6.8.dist-info/entry_points.txt +4 -0
- pg_sui-1.6.8.dist-info/top_level.txt +1 -0
- pgsui/__init__.py +35 -54
- pgsui/_version.py +34 -0
- pgsui/cli.py +635 -0
- pgsui/data_processing/config.py +576 -0
- pgsui/data_processing/containers.py +1782 -0
- pgsui/data_processing/transformers.py +121 -1103
- pgsui/electron/app/__main__.py +5 -0
- pgsui/electron/app/icons/icons/1024x1024.png +0 -0
- pgsui/electron/app/icons/icons/128x128.png +0 -0
- pgsui/electron/app/icons/icons/16x16.png +0 -0
- pgsui/electron/app/icons/icons/24x24.png +0 -0
- pgsui/electron/app/icons/icons/256x256.png +0 -0
- pgsui/electron/app/icons/icons/32x32.png +0 -0
- pgsui/electron/app/icons/icons/48x48.png +0 -0
- pgsui/electron/app/icons/icons/512x512.png +0 -0
- pgsui/electron/app/icons/icons/64x64.png +0 -0
- pgsui/electron/app/icons/icons/icon.icns +0 -0
- pgsui/electron/app/icons/icons/icon.ico +0 -0
- pgsui/electron/app/main.js +189 -0
- pgsui/electron/app/package-lock.json +6893 -0
- pgsui/electron/app/package.json +50 -0
- pgsui/electron/app/preload.js +15 -0
- pgsui/electron/app/server.py +146 -0
- pgsui/electron/app/ui/logo.png +0 -0
- pgsui/electron/app/ui/renderer.js +130 -0
- pgsui/electron/app/ui/styles.css +59 -0
- pgsui/electron/app/ui/ui_shim.js +72 -0
- pgsui/electron/bootstrap.py +43 -0
- pgsui/electron/launch.py +59 -0
- pgsui/electron/package.json +14 -0
- pgsui/example_data/popmaps/{test.popmap → phylogen_nomx.popmap} +185 -99
- pgsui/example_data/vcf_files/phylogen_subset14K.vcf.gz +0 -0
- pgsui/example_data/vcf_files/phylogen_subset14K.vcf.gz.tbi +0 -0
- pgsui/impute/deterministic/imputers/allele_freq.py +691 -0
- pgsui/impute/deterministic/imputers/mode.py +679 -0
- pgsui/impute/deterministic/imputers/nmf.py +221 -0
- pgsui/impute/deterministic/imputers/phylo.py +971 -0
- pgsui/impute/deterministic/imputers/ref_allele.py +530 -0
- pgsui/impute/supervised/base.py +339 -0
- pgsui/impute/supervised/imputers/hist_gradient_boosting.py +293 -0
- pgsui/impute/supervised/imputers/random_forest.py +287 -0
- pgsui/impute/unsupervised/base.py +924 -0
- pgsui/impute/unsupervised/callbacks.py +89 -263
- pgsui/impute/unsupervised/imputers/autoencoder.py +972 -0
- pgsui/impute/unsupervised/imputers/nlpca.py +1264 -0
- pgsui/impute/unsupervised/imputers/ubp.py +1288 -0
- pgsui/impute/unsupervised/imputers/vae.py +957 -0
- pgsui/impute/unsupervised/loss_functions.py +158 -0
- pgsui/impute/unsupervised/models/autoencoder_model.py +208 -558
- pgsui/impute/unsupervised/models/nlpca_model.py +149 -468
- pgsui/impute/unsupervised/models/ubp_model.py +198 -1317
- pgsui/impute/unsupervised/models/vae_model.py +259 -618
- pgsui/impute/unsupervised/nn_scorers.py +215 -0
- pgsui/utils/classification_viz.py +591 -0
- pgsui/utils/misc.py +35 -480
- pgsui/utils/plotting.py +514 -824
- pgsui/utils/scorers.py +212 -438
- pg_sui-1.0.2.1.dist-info/RECORD +0 -75
- pg_sui-1.0.2.1.dist-info/top_level.txt +0 -3
- pgsui/example_data/phylip_files/test_n10.phy +0 -118
- pgsui/example_data/phylip_files/test_n100.phy +0 -118
- pgsui/example_data/phylip_files/test_n2.phy +0 -118
- pgsui/example_data/phylip_files/test_n500.phy +0 -118
- pgsui/example_data/structure_files/test.nopops.1row.10sites.str +0 -117
- pgsui/example_data/structure_files/test.nopops.2row.100sites.str +0 -234
- pgsui/example_data/structure_files/test.nopops.2row.10sites.str +0 -234
- pgsui/example_data/structure_files/test.nopops.2row.30sites.str +0 -234
- pgsui/example_data/structure_files/test.nopops.2row.allsites.str +0 -234
- pgsui/example_data/structure_files/test.pops.1row.10sites.str +0 -117
- pgsui/example_data/structure_files/test.pops.2row.10sites.str +0 -234
- pgsui/example_data/trees/test.iqtree +0 -376
- pgsui/example_data/trees/test.qmat +0 -5
- pgsui/example_data/trees/test.rate +0 -2033
- pgsui/example_data/trees/test.tre +0 -1
- pgsui/example_data/trees/test_n10.rate +0 -19
- pgsui/example_data/trees/test_n100.rate +0 -109
- pgsui/example_data/trees/test_n500.rate +0 -509
- pgsui/example_data/trees/test_siterates.txt +0 -2024
- pgsui/example_data/trees/test_siterates_n10.txt +0 -10
- pgsui/example_data/trees/test_siterates_n100.txt +0 -100
- pgsui/example_data/trees/test_siterates_n500.txt +0 -500
- pgsui/example_data/vcf_files/test.vcf +0 -244
- pgsui/example_data/vcf_files/test.vcf.gz +0 -0
- pgsui/example_data/vcf_files/test.vcf.gz.tbi +0 -0
- pgsui/impute/estimators.py +0 -735
- pgsui/impute/impute.py +0 -1486
- pgsui/impute/simple_imputers.py +0 -1439
- pgsui/impute/supervised/iterative_imputer_fixedparams.py +0 -785
- pgsui/impute/supervised/iterative_imputer_gridsearch.py +0 -1027
- pgsui/impute/unsupervised/keras_classifiers.py +0 -702
- pgsui/impute/unsupervised/models/in_development/cnn_model.py +0 -486
- pgsui/impute/unsupervised/neural_network_imputers.py +0 -1424
- pgsui/impute/unsupervised/neural_network_methods.py +0 -1549
- pgsui/pg_sui.py +0 -261
- pgsui/utils/sequence_tools.py +0 -407
- simulation/sim_benchmarks.py +0 -333
- simulation/sim_treeparams.py +0 -475
- test/__init__.py +0 -0
- test/pg_sui_simtest.py +0 -215
- test/pg_sui_testing.py +0 -523
- test/test.py +0 -297
- test/test_pgsui.py +0 -374
- test/test_tkc.py +0 -214
- {pg_sui-1.0.2.1.dist-info → pg_sui-1.6.8.dist-info/licenses}/LICENSE +0 -0
- /pgsui/{example_data/trees → electron/app}/__init__.py +0 -0
- /pgsui/impute/{unsupervised/models/in_development → supervised/imputers}/__init__.py +0 -0
- {simulation → pgsui/impute/unsupervised/imputers}/__init__.py +0 -0
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IQ-TREE 2.0.3 built Dec 19 2020
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Input file name: test.phy
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Type of analysis: ModelFinder + tree reconstruction
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Random seed number: 775642
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REFERENCES
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----------
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To cite IQ-TREE please use:
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Bui Quang Minh, Heiko A. Schmidt, Olga Chernomor, Dominik Schrempf,
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Michael D. Woodhams, Arndt von Haeseler, and Robert Lanfear (2020)
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IQ-TREE 2: New models and efficient methods for phylogenetic inference
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in the genomic era. Mol. Biol. Evol., in press.
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https://doi.org/10.1093/molbev/msaa015
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To cite ModelFinder please use:
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Subha Kalyaanamoorthy, Bui Quang Minh, Thomas KF Wong, Arndt von Haeseler,
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and Lars S Jermiin (2017) ModelFinder: Fast model selection for
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accurate phylogenetic estimates. Nature Methods, 14:587–589.
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https://doi.org/10.1038/nmeth.4285
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SEQUENCE ALIGNMENT
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------------------
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Input data: 117 sequences with 2024 nucleotide sites
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Number of constant sites: 1037 (= 51.2352% of all sites)
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Number of invariant (constant or ambiguous constant) sites: 1037 (= 51.2352% of all sites)
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Number of parsimony informative sites: 527
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Number of distinct site patterns: 2019
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ModelFinder
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-----------
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Best-fit model according to BIC: TVM+F+R3
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List of models sorted by BIC scores:
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Model LogL AIC w-AIC AICc w-AICc BIC w-BIC
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TVM+F+R3 -15773.516 32031.033 + 0.702 32097.070 + 0.769 33389.338 + 0.978
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GTR+F+R3 -15773.501 32033.002 + 0.262 32099.623 + 0.215 33396.920 - 0.0221
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GTR+F+R4 -15773.509 32037.018 - 0.0352 32104.813 - 0.016 33412.162 - 1.08e-05
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TPM2u+F+R3 -15829.334 32138.668 - 2.98e-24 32203.547 - 5.82e-24 33485.747 - 1.14e-21
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TPM2+F+R3 -15829.334 32138.668 - 2.98e-24 32203.547 - 5.82e-24 33485.747 - 1.14e-21
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TPM3+F+R3 -15829.467 32138.934 - 2.61e-24 32203.813 - 5.09e-24 33486.013 - 9.94e-22
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TPM3u+F+R3 -15829.467 32138.934 - 2.61e-24 32203.813 - 5.09e-24 33486.013 - 9.94e-22
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TIM2+F+R3 -15829.275 32140.550 - 1.16e-24 32206.007 - 1.7e-24 33493.242 - 2.68e-23
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TIM3+F+R3 -15829.467 32140.934 - 9.59e-25 32206.391 - 1.4e-24 33493.627 - 2.21e-23
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K3Pu+F+R3 -15835.784 32151.568 - 4.71e-27 32216.448 - 9.19e-27 33498.648 - 1.79e-24
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GTR+F+R2 -15835.529 32153.058 - 2.23e-27 32218.515 - 3.27e-27 33505.750 - 5.15e-26
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TIM+F+R3 -15835.765 32153.530 - 1.76e-27 32218.987 - 2.58e-27 33506.222 - 4.07e-26
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TVMe+R3 -15866.844 32211.689 - 4.15e-40 32275.994 - 1.08e-39 33553.155 - 2.62e-36
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K3P+R3 -15875.608 32225.217 - 4.79e-43 32288.381 - 2.2e-42 33555.457 - 8.28e-37
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SYM+R3 -15866.526 32213.053 - 2.1e-40 32277.932 - 4.1e-40 33560.132 - 8e-38
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TIMe+R3 -15875.217 32226.434 - 2.6e-43 32290.167 - 9.03e-43 33562.288 - 2.72e-38
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HKY+F+R3 -15871.993 32221.987 - 2.41e-42 32286.292 - 6.27e-42 33563.453 - 1.52e-38
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TN+F+R3 -15871.980 32223.959 - 8.98e-43 32288.839 - 1.75e-42 33571.039 - 3.42e-40
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TIM2e+R3 -15880.340 32236.679 - 1.55e-45 32300.413 - 5.38e-45 33572.533 - 1.62e-40
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K2P+R3 -15889.511 32251.022 - 1.19e-48 32313.620 - 7.29e-48 33575.650 - 3.41e-41
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TNe+R3 -15889.117 32252.233 - 6.51e-49 32315.398 - 3e-48 33582.474 - 1.13e-42
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TIM3e+R3 -15886.243 32248.486 - 4.24e-48 32312.220 - 1.47e-47 33584.340 - 4.43e-43
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GTR+F+G4 -15989.342 32458.685 - 9.62e-94 32523.564 - 1.88e-93 33805.764 - 3.67e-91
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GTR+F+I+G4 -15986.561 32455.122 - 5.71e-93 32520.579 - 8.36e-93 33807.814 - 1.32e-91
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GTR+F+I -16291.919 33063.837 - 3.77e-225 33128.717 - 7.36e-225 34410.917 - 1.44e-222
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JC+R3 -16515.818 33501.637 - 3.23e-320 33563.672 - 2.61e-319 34820.652 - 1.53e-311
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GTR+F -16582.865 33643.730 - 0 33708.035 - 0 34985.197 - 0
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F81+F+R3 -16605.759 33687.517 - 0 33751.250 - 0 35023.371 - 0
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AIC, w-AIC : Akaike information criterion scores and weights.
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AICc, w-AICc : Corrected AIC scores and weights.
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BIC, w-BIC : Bayesian information criterion scores and weights.
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Plus signs denote the 95% confidence sets.
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Minus signs denote significant exclusion.
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SUBSTITUTION PROCESS
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Model of substitution: TVM+F+R3
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Rate parameter R:
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A-C: 0.9333
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A-G: 4.3530
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A-T: 1.4254
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C-G: 0.2807
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C-T: 4.3530
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State frequencies: (empirical counts from alignment)
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pi(A) = 0.1741
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pi(C) = 0.3485
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pi(G) = 0.3216
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Rate matrix Q:
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A -1.482 0.2476 1.066 0.169
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C 0.1237 -0.7085 0.06871 0.5161
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G 0.5769 0.07446 -0.7699 0.1186
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T 0.1889 1.155 0.2448 -1.588
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Model of rate heterogeneity: FreeRate with 3 categories
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Site proportion and rates: (0.8521,0.4153) (0.1217,2.843) (0.02616,11.47)
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Category Relative_rate Proportion
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MAXIMUM LIKELIHOOD TREE
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Log-likelihood of the tree: -15653.1974 (s.e. 429.1785)
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Unconstrained log-likelihood (without tree): -15400.9153
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Number of free parameters (#branches + #model parameters): 242
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Akaike information criterion (AIC) score: 31790.3949
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Corrected Akaike information criterion (AICc) score: 31856.4319
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Bayesian information criterion (BIC) score: 33148.7000
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Total tree length (sum of branch lengths): 1.2296
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Sum of internal branch lengths: 0.4067 (33.0807% of tree length)
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WARNING: 13 near-zero internal branches (<0.0005) should be treated with caution
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NOTE: Tree is UNROOTED although outgroup taxon 'GUFL_BXGU36_AA14' is drawn at root
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+--GUFL_BXGU36_AA14
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-
| | | +**| (Node12)
|
|
170
|
-
| | | | | +--FLFL_BXFL01
|
|
171
|
-
| | | | +-----------| (Node29)
|
|
172
|
-
| | | | +--FLFL_BX683
|
|
173
|
-
| | | +--| (Node11)
|
|
174
|
-
| | | | | +--EASC_BXEA43_1307
|
|
175
|
-
| | | | | +--| (Node32)
|
|
176
|
-
| | | | | | | +--EAGA_BXEA49_564
|
|
177
|
-
| | | | | | | +--| (Node39)
|
|
178
|
-
| | | | | | | | +--TCAL_BXTC93
|
|
179
|
-
| | | | | | | +--| (Node38)
|
|
180
|
-
| | | | | | | | +--EAGA_BXEA34_665
|
|
181
|
-
| | | | | | | +--| (Node37)
|
|
182
|
-
| | | | | | | | | +--EAVA_BX101
|
|
183
|
-
| | | | | | | | +--| (Node40)
|
|
184
|
-
| | | | | | | | +--EAGA_BXEA33_663
|
|
185
|
-
| | | | | | | +--| (Node36)
|
|
186
|
-
| | | | | | | | | +--EAGA_BX660
|
|
187
|
-
| | | | | | | | | +**| (Node48)
|
|
188
|
-
| | | | | | | | | | | +--EASC_BX1115
|
|
189
|
-
| | | | | | | | | | +--| (Node49)
|
|
190
|
-
| | | | | | | | | | +--EAGA_BXEA15_654
|
|
191
|
-
| | | | | | | | | +--| (Node47)
|
|
192
|
-
| | | | | | | | | | +--EAGA_BX346
|
|
193
|
-
| | | | | | | | | +--| (Node46)
|
|
194
|
-
| | | | | | | | | | +--TCAL_BX273
|
|
195
|
-
| | | | | | | | | +**| (Node45)
|
|
196
|
-
| | | | | | | | | | | +--TCAL_BX612
|
|
197
|
-
| | | | | | | | | | | +**| (Node51)
|
|
198
|
-
| | | | | | | | | | | | +--EASC_BXEA41_1305
|
|
199
|
-
| | | | | | | | | | +--| (Node50)
|
|
200
|
-
| | | | | | | | | | +--EAGA_BXEA25
|
|
201
|
-
| | | | | | | | | +--| (Node44)
|
|
202
|
-
| | | | | | | | | | +--EAGA_BXEA32_662
|
|
203
|
-
| | | | | | | | | +--| (Node43)
|
|
204
|
-
| | | | | | | | | | +--TCAL_BX279
|
|
205
|
-
| | | | | | | | | +**| (Node42)
|
|
206
|
-
| | | | | | | | | | | +--EAAL_BXEA27
|
|
207
|
-
| | | | | | | | | | | +--| (Node53)
|
|
208
|
-
| | | | | | | | | | | | +--EAGA_BXEA31_659
|
|
209
|
-
| | | | | | | | | | +--| (Node52)
|
|
210
|
-
| | | | | | | | | | +--EAGA_BX301
|
|
211
|
-
| | | | | | | | +--| (Node41)
|
|
212
|
-
| | | | | | | | +--EATN_BXEA02_36x2
|
|
213
|
-
| | | | | | | +--| (Node35)
|
|
214
|
-
| | | | | | | | | +--EASC_BXEA42_1306
|
|
215
|
-
| | | | | | | | | +**| (Node56)
|
|
216
|
-
| | | | | | | | | | +--TCAL_BXTC110
|
|
217
|
-
| | | | | | | | | +--| (Node55)
|
|
218
|
-
| | | | | | | | | | +--EASC_BXEA40_1304
|
|
219
|
-
| | | | | | | | +--| (Node54)
|
|
220
|
-
| | | | | | | | | +--EASC_BX1109
|
|
221
|
-
| | | | | | | | +--| (Node57)
|
|
222
|
-
| | | | | | | | +--TCGA_BX344
|
|
223
|
-
| | | | | | | +--| (Node34)
|
|
224
|
-
| | | | | | | | | +--EAGA_BX472
|
|
225
|
-
| | | | | | | | +--| (Node58)
|
|
226
|
-
| | | | | | | | +-----EASC_BX1112
|
|
227
|
-
| | | | | | +--| (Node33)
|
|
228
|
-
| | | | | | | +--EAGA_BXEA35_666
|
|
229
|
-
| | | | | | | +--| (Node61)
|
|
230
|
-
| | | | | | | | +--TCAL_BXTC80
|
|
231
|
-
| | | | | | | +--| (Node60)
|
|
232
|
-
| | | | | | | | +--TCAL_BXTC92
|
|
233
|
-
| | | | | | +--| (Node59)
|
|
234
|
-
| | | | | | +--EAGA_BXEA21
|
|
235
|
-
| | | | | +--| (Node31)
|
|
236
|
-
| | | | | | | +--EASC_BX1108
|
|
237
|
-
| | | | | | +--| (Node62)
|
|
238
|
-
| | | | | | | +--EAVA_BX320
|
|
239
|
-
| | | | | | | +--| (Node64)
|
|
240
|
-
| | | | | | | | +**EAVA_BX321
|
|
241
|
-
| | | | | | +--| (Node63)
|
|
242
|
-
| | | | | | +---EASC_BX1114
|
|
243
|
-
| | | | +--| (Node30)
|
|
244
|
-
| | | | +--EASC_BX1110
|
|
245
|
-
| | | +**| (Node10)
|
|
246
|
-
| | | | +--EAGA_BXEA17
|
|
247
|
-
| | | +--| (Node9)
|
|
248
|
-
| | | | | +---TTLA_BXTT35_1486
|
|
249
|
-
| | | | | +--| (Node71)
|
|
250
|
-
| | | | | | +--TTTX_BX223
|
|
251
|
-
| | | | | +--| (Node70)
|
|
252
|
-
| | | | | | | +--TTLA_BXTT37_1492
|
|
253
|
-
| | | | | | +--| (Node72)
|
|
254
|
-
| | | | | | +--TTTX_BX228
|
|
255
|
-
| | | | | +--| (Node69)
|
|
256
|
-
| | | | | | | +--TTLA_BXTT34_1482
|
|
257
|
-
| | | | | | +**| (Node73)
|
|
258
|
-
| | | | | | +--TTLA_BXTT36_1491
|
|
259
|
-
| | | | | +--| (Node68)
|
|
260
|
-
| | | | | | | +--TTLA_BX421
|
|
261
|
-
| | | | | | +--| (Node74)
|
|
262
|
-
| | | | | | +--TTLA_BX422
|
|
263
|
-
| | | | | +--| (Node67)
|
|
264
|
-
| | | | | | | +---TTAR_BX507
|
|
265
|
-
| | | | | | | +--| (Node77)
|
|
266
|
-
| | | | | | | | +--TTLA_BXTT38_1493
|
|
267
|
-
| | | | | | | +--| (Node76)
|
|
268
|
-
| | | | | | | | | +--TTTX_BX225
|
|
269
|
-
| | | | | | | | | +--| (Node80)
|
|
270
|
-
| | | | | | | | | | +--TTLA_BXTT13
|
|
271
|
-
| | | | | | | | | +**| (Node79)
|
|
272
|
-
| | | | | | | | | | +--TTLA_BXTT39_1498
|
|
273
|
-
| | | | | | | | +--| (Node78)
|
|
274
|
-
| | | | | | | | +--TTAR_BX987
|
|
275
|
-
| | | | | | +--| (Node75)
|
|
276
|
-
| | | | | | | +--TTTX_BX227
|
|
277
|
-
| | | | | | | +--| (Node82)
|
|
278
|
-
| | | | | | | | +--TTTX_BX222
|
|
279
|
-
| | | | | | +--| (Node81)
|
|
280
|
-
| | | | | | +---TTAR_BX984
|
|
281
|
-
| | | | | +--| (Node66)
|
|
282
|
-
| | | | | | +---TTKS_BXTT20_78
|
|
283
|
-
| | | | +---| (Node65)
|
|
284
|
-
| | | | | +--MXMX_BX1195
|
|
285
|
-
| | | | | +--| (Node84)
|
|
286
|
-
| | | | | | +--MXMX_BX1194
|
|
287
|
-
| | | | +-------| (Node83)
|
|
288
|
-
| | | | +--MXMX_BX1196
|
|
289
|
-
| | | +--| (Node8)
|
|
290
|
-
| | | | +--TCAL_BXTC63
|
|
291
|
-
| | | +--| (Node7)
|
|
292
|
-
| | | | +--GUMS_BXGU69_AA43
|
|
293
|
-
| | +--| (Node6)
|
|
294
|
-
| | | +---GUMS_BXGU68_AA42
|
|
295
|
-
| | | +--| (Node93)
|
|
296
|
-
| | | | +--GUMS_BXGU67_AA41
|
|
297
|
-
| | | +--| (Node92)
|
|
298
|
-
| | | | | +--GUMS_BXGU50_T69
|
|
299
|
-
| | | | +--| (Node94)
|
|
300
|
-
| | | | +--GUMS_BXGU56_T83
|
|
301
|
-
| | | +--| (Node91)
|
|
302
|
-
| | | | | +--GUMS_BXGU43_T55
|
|
303
|
-
| | | | +--| (Node95)
|
|
304
|
-
| | | | | +--CHCH_BX1191
|
|
305
|
-
| | | | +------| (Node96)
|
|
306
|
-
| | | | +--CHCH_BX1193
|
|
307
|
-
| | | +--| (Node90)
|
|
308
|
-
| | | | +--GUMS_BXGU75_AA49
|
|
309
|
-
| | | +**| (Node89)
|
|
310
|
-
| | | | +--GUMS_BXGU58_T92
|
|
311
|
-
| | | +--| (Node88)
|
|
312
|
-
| | | | +--GUMS_BX200
|
|
313
|
-
| | | +--| (Node87)
|
|
314
|
-
| | | | | +--GUMS_BXGU53_T72
|
|
315
|
-
| | | | | +--| (Node99)
|
|
316
|
-
| | | | | | | +--GUMS_BXGU78_AA52
|
|
317
|
-
| | | | | | | +--| (Node104)
|
|
318
|
-
| | | | | | | | +--GUMS_BXGU77_AA51
|
|
319
|
-
| | | | | | | +--| (Node103)
|
|
320
|
-
| | | | | | | | +--GUMS_BXGU74_AA48
|
|
321
|
-
| | | | | | | +**| (Node102)
|
|
322
|
-
| | | | | | | | +--GUMS_BXGU72_AA46
|
|
323
|
-
| | | | | | | +--| (Node101)
|
|
324
|
-
| | | | | | | | | +--GUMS_BXGU76_AA50
|
|
325
|
-
| | | | | | | | +--| (Node105)
|
|
326
|
-
| | | | | | | | +--GUMS_BXGU71_AA45
|
|
327
|
-
| | | | | | +--| (Node100)
|
|
328
|
-
| | | | | | | +--GUMS_BXGU73_AA47
|
|
329
|
-
| | | | | | | +--| (Node107)
|
|
330
|
-
| | | | | | | | +--GUMS_BXGU54_T73
|
|
331
|
-
| | | | | | +--| (Node106)
|
|
332
|
-
| | | | | | +--GUMS_BXGU79_AA73
|
|
333
|
-
| | | | | +**| (Node98)
|
|
334
|
-
| | | | | | +--GUMS_BXGU48_T62
|
|
335
|
-
| | | | +--| (Node97)
|
|
336
|
-
| | | | | +--GUMS_BXGU44_T56
|
|
337
|
-
| | | | +--| (Node108)
|
|
338
|
-
| | | | +--GUMS_BXGU45_T59
|
|
339
|
-
| | | +--| (Node86)
|
|
340
|
-
| | | | +--GUMS_BXGU47_T61
|
|
341
|
-
| | +**| (Node85)
|
|
342
|
-
| | +--GUMS_BXGU49_T66
|
|
343
|
-
| +--| (Node4)
|
|
344
|
-
| | +--GUFL_BXGU61_U57
|
|
345
|
-
| +--| (Node3)
|
|
346
|
-
| | | +--GUFL_BXGU65_AA39
|
|
347
|
-
| | | +--| (Node111)
|
|
348
|
-
| | | | +--GUFL_BXGU35_AA13
|
|
349
|
-
| | | +--| (Node110)
|
|
350
|
-
| | | | +--GUFL_BX685
|
|
351
|
-
| | +--| (Node109)
|
|
352
|
-
| | +--GUFL_BX503
|
|
353
|
-
+--| (Node2)
|
|
354
|
-
| | +--GUFL_BX684
|
|
355
|
-
| | +--| (Node114)
|
|
356
|
-
| | | +--GUFL_BXGU33
|
|
357
|
-
| | +--| (Node113)
|
|
358
|
-
| | | +--GUFL_BXGU63_AA37
|
|
359
|
-
| +--| (Node112)
|
|
360
|
-
| +--GUFL_BX504
|
|
361
|
-
|
|
|
362
|
-
| +--GUFL_BXGU32
|
|
363
|
-
+--| (Node115)
|
|
364
|
-
+--GUFL_BXGU62_AA36
|
|
365
|
-
|
|
366
|
-
Tree in newick format:
|
|
367
|
-
|
|
368
|
-
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369
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-
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370
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-
TIME STAMP
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371
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----------
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372
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-
|
|
373
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Date and time: Fri May 7 14:04:53 2021
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374
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-
Total CPU time used: 810.809 seconds (0h:13m:30s)
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375
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Total wall-clock time used: 436.894 seconds (0h:7m:16s)
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376
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