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Biomanus/experiments/ablation/results/biomanus/bioagentbench/alzheimer-mouse_20260522_103420/agent_runtime/biomni_data/runtime_mcp_configs/runtime_mcp_20260522_103518_186101.yaml

@@ -0,0 +1,34 @@
+mcp_servers:
+  csvtk:
+    enabled: true
+    description: 'Installs packages: csvtk. Copies scripts: csvtk_server.py. Default
+      command: ["python", "/app/csvtk_server.py"] | Resolved source server: /225040511/project/BioScientist/agent_system/toolbase/mcp_batch_from_help_txt/mcp_csvtk/app/csvtk_server.py'
+    command:
+    - /225040511/miniconda3/envs/biomni_e1/bin/python
+    - /225040511/project/Hypo_Bio_OS/biomni_web/backend/data/mcp_generated/mcp_csvtk/app/csvtk_shim_server.py
+    command_available: true
+    dockerfile: /225040511/project/Hypo_Bio_OS/biomni_web/backend/data/mcp_generated/mcp_csvtk/Dockerfile
+    source_server: /225040511/project/BioScientist/agent_system/toolbase/mcp_batch_from_help_txt/mcp_csvtk/app/csvtk_server.py
+    packages:
+    - csvtk
+    help_file: /225040511/project/Hypo_Bio_OS/biomni_web/backend/data/merged_prefer_help_txt/csvtk.txt
+    help_summary: ''
+    help_description: ''
+    execution_environment: ''
+    dependencies: []
+    env:
+      PATH: /225040511/miniconda3/envs/biomni_e1/bin:/225040511/miniconda3/envs/biomni_e1/bin:/Users/macbook/Library/Application
+        Support/Code/User/globalStorage/github.copilot-chat/debugCommand:/Users/macbook/Library/Application
+        Support/Code/User/globalStorage/github.copilot-chat/copilotCli:/root/.vscode-server/cli/servers/Stable-8b640eef5a6c6089c029249d48efa5c99adf7d51/server/bin/remote-cli:/225040511/miniconda3/condabin:/usr/local/nvm/versions/node/v18.20.3/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/root/.vscode-server/extensions/ms-python.debugpy-2025.18.0-linux-x64/bundled/scripts/noConfigScripts
+      CONDA_PREFIX: /225040511/miniconda3/envs/biomni_e1
+      CONDA_DEFAULT_ENV: biomni_e1
+      CONDA_SHLVL: '1'
+      PYTHONNOUSERSITE: '1'
+      BIOMNI_EXECUTION_ENV_PREFIX: /225040511/miniconda3/envs/biomni_e1
+      BIOMNI_EXECUTION_PYTHON: /225040511/miniconda3/envs/biomni_e1/bin/python
+    tools:
+    - name: csvtk_summary
+      description: Tool bound for operation csv_export
+      inputSchema:
+        properties: {}
+        required: []

Biomanus/experiments/ablation/results/biomanus/bioagentbench/alzheimer-mouse_20260522_103420/kegg_3xtg.csv

@@ -0,0 +1,265 @@
+"category","subcategory","ID","Description","GeneRatio","BgRatio","RichFactor","FoldEnrichment","zScore","pvalue","p.adjust","qvalue","geneID","Count"
+"Environmental Information Processing","Signal transduction","mmu04024","cAMP signaling pathway","13/200","224/11159",0.0580357142857143,3.23810267857143,4.57106435198166,0.000195897983284876,0.0278310888832765,0.026743590194855,"22353/11540/14281/13488/224129/23984/14652/13489/16526/243270/19049/58991/15552",13
+"Environmental Information Processing","Signaling molecules and interaction","mmu04082","Neuroactive ligand signaling","12/200","196/11159",0.0612244897959184,3.41602040816327,4.60984836409891,0.000210841582449064,0.0278310888832765,0.026743590194855,"216227/11540/13488/12647/224129/63993/18387/13489/18619/11549/21333/15552",12
+"Metabolism","Lipid metabolism","mmu00590","Arachidonic acid metabolism","7/200","89/11159",0.0786516853932584,4.38837078651685,4.33545651448954,0.00106535405904878,0.0850744497367854,0.0817501690054437,"11688/13106/15446/11686/53357/329502/211429",7
+"Environmental Information Processing","Signaling molecules and interaction","mmu04061","Viral protein interaction with cytokine and cytokine receptor","7/200","95/11159",0.0736842105263158,4.11121052631579,4.11393884526003,0.00156146653950932,0.0850744497367854,0.0817501690054437,"237313/12458/20315/20301/100039863/100040048/100862177",7
+"Human Diseases","Substance dependence","mmu05030","Cocaine addiction","5/200","48/11159",0.104166666666667,5.81197916666667,4.51326148723459,0.00161125851774215,0.0850744497367854,0.0817501690054437,"19739/13488/224129/13489/19049",5
+"Environmental Information Processing","Signaling molecules and interaction","mmu04081","Hormone signaling","11/200","220/11159",0.05,2.78975,3.62190965647342,0.00203605217341791,0.0895862956303881,0.0860857147006521,"22353/13488/12166/224129/14652/18387/13489/20607/18619/11549/58991",11
+"Organismal Systems","Development and regeneration","mmu04380","Osteoclast differentiation","8/200","132/11159",0.0606060606060606,3.38151515151515,3.71821364342648,0.00256120078390201,0.0965938581357331,0.092819456980509,"26400/14281/15975/16477/232790/18733/100038909/18725",8
+"Metabolism","Lipid metabolism","mmu00600","Sphingolipid metabolism","5/200","56/11159",0.0892857142857143,4.98169642857143,4.03519662905246,0.00320289620465328,0.105695574753558,0.1015655243844,"67260/71949/230101/58994/93898",5
+"Human Diseases","Infectious disease: parasitic","mmu05143","African trypanosomiasis","4/200","37/11159",0.108108108108108,6.03189189189189,4.14155498367006,0.00416362981071967,0.122133141114444,0.117360793495139,"100503605/110257/15122/101488143",4
+"Metabolism","Lipid metabolism","mmu00592","alpha-Linolenic acid metabolism","3/200","25/11159",0.12,6.6954,3.85115802693749,0.0097559013687428,0.25755579613481,0.247491813670212,"53357/329502/211429",3
+"Environmental Information Processing","Signaling molecules and interaction","mmu04080","Neuroactive ligand-receptor interaction","14/200","393/11159",0.0356234096692112,1.98760814249364,2.69262864871474,0.0112040745612078,0.268897789468987,0.258390619067088,"22353/11540/13488/14652/18387/13489/20607/18619/11549/14289/21333/58991/15552/14294",14
+"Organismal Systems","Circulatory system","mmu04270","Vascular smooth muscle contraction","7/200","144/11159",0.0486111111111111,2.71225694444444,2.79370563941529,0.0149619557981016,0.329163027558234,0.316300995380919,"11540/224129/213498/53357/11549/329502/211429",7
+"Metabolism","Lipid metabolism","mmu00591","Linoleic acid metabolism","4/200","55/11159",0.0727272727272727,4.05781818181818,3.07097294062182,0.0167646381956112,0.340451114126257,0.32714800041638,"13106/53357/329502/211429",4
+"Environmental Information Processing","Signaling molecules and interaction","mmu04512","ECM-receptor interaction","5/200","89/11159",0.0561797752808989,3.13455056179775,2.73118018118864,0.0217229342674898,0.40963247475838,0.393626102140229,"12824/16782/20750/231470/75209",5
+"Organismal Systems","Immune system","mmu04062","Chemokine signaling pathway","8/200","194/11159",0.0412371134020619,2.30082474226804,2.46909641368309,0.0235515841814609,0.414507881593711,0.398311002647864,"224129/19395/12458/20315/20301/100039863/100040048/100862177",8
+"Genetic Information Processing","Information processing in viruses","mmu03250","Viral life cycle - HIV-1","4/200","63/11159",0.0634920634920635,3.54253968253968,2.73386776001669,0.0262386956325818,0.432938477937599,0.416021424174487,"80287/269344/209387/667823",4
+"Organismal Systems","Sensory system","mmu04750","Inflammatory mediator regulation of TRP channels","6/200","130/11159",0.0461538461538462,2.57515384615385,2.44033415677092,0.0294299511178145,0.434820916908071,0.417830306917246,"224129/11419/18211/53357/329502/211429",6
+"Human Diseases","Infectious disease: parasitic","mmu05144","Malaria","4/200","66/11159",0.0606060606060606,3.38151515151515,2.62134101679709,0.0304727027864135,0.434820916908071,0.417830306917246,"100503605/110257/15122/101488143",4
+"Human Diseases","Cancer: overview","mmu05231","Choline metabolism in cancer","5/200","98/11159",0.0510204081632653,2.84668367346939,2.48045335309544,0.0312939296259597,0.434820916908071,0.417830306917246,"14281/63993/20518/329502/211429",5
+"Human Diseases","Substance dependence","mmu05031","Amphetamine addiction","4/200","69/11159",0.0579710144927536,3.23449275362319,2.51512999051463,0.0350873336676987,0.4399489605476,0.422757972456027,"14281/13488/224129/19049",4
+"Metabolism","Lipid metabolism","mmu00564","Glycerophospholipid metabolism","5/200","102/11159",0.0490196078431373,2.73504901960784,2.37802213743625,0.0362776879001139,0.4399489605476,0.422757972456027,"12647/14555/53357/329502/211429",5
+"Organismal Systems","Nervous system","mmu04726","Serotonergic synapse","6/200","137/11159",0.0437956204379562,2.44357664233577,2.29663849267839,0.0366624133789666,0.4399489605476,0.422757972456027,"11688/224129/11686/329502/15552/211429",6
+"Environmental Information Processing","Signaling molecules and interaction","mmu04060","Cytokine-cytokine receptor interaction","10/200","294/11159",0.0340136054421769,1.89778911564626,2.10744305634314,0.0390287386209098,0.447982043300877,0.430477162821018,"237313/12166/15975/12458/20315/20301/100039863/100040048/14559/100862177",10
+"Metabolism","Glycan biosynthesis and metabolism","mmu00531","Glycosaminoglycan degradation","2/200","21/11159",0.0952380952380952,5.31380952380952,2.67294312807401,0.0536999489052448,0.57819275210025,0.55559989336587,"15932/545291",2
+"Organismal Systems","Immune system","mmu04662","B cell receptor signaling pathway","4/200","80/11159",0.05,2.78975,2.17025015696559,0.055293451003762,0.57819275210025,0.55559989336587,"14281/18733/100038909/18725",4
+"Metabolism","Lipid metabolism","mmu00565","Ether lipid metabolism","3/200","49/11159",0.0612244897959184,3.41602040816327,2.28962480746459,0.0572865599155558,0.57819275210025,0.55559989336587,"53357/329502/211429",3
+"Organismal Systems","Endocrine system","mmu04935","Growth hormone synthesis, secretion and action","5/200","117/11159",0.0427350427350427,2.38440170940171,2.03354552426069,0.0591333496466164,0.57819275210025,0.55559989336587,"14281/224129/20607/16477/58991",5
+"Cellular Processes","Cell motility","mmu04814","Motor proteins","7/200","198/11159",0.0353535353535354,1.9725505050505,1.86527291005675,0.0656000773813528,0.602045306404208,0.57852041006146,"100040563/67951/21956/13417/17885/21647/100041639",7
+"Genetic Information Processing","Replication and repair","mmu03460","Fanconi anemia pathway","3/200","52/11159",0.0576923076923077,3.21894230769231,2.16656642943873,0.0661337647186441,0.602045306404208,0.57852041006146,"17350/26447/193838",3
+"Cellular Processes","Cellular community - eukaryotes","mmu04540","Gap junction","4/200","86/11159",0.0465116279069767,2.59511627906977,2.00600326637383,0.0684720504100817,0.602554043608719,0.579009268379989,"67951/13488/224129/13489",4
+"Organismal Systems","Endocrine system","mmu04912","GnRH signaling pathway","4/200","90/11159",0.0444444444444444,2.47977777777778,1.90408475121177,0.0780795136335042,0.664394343351646,0.638433160876183,"26400/224129/329502/211429",4
+"Human Diseases","Substance dependence","mmu05034","Alcoholism","7/200","208/11159",0.0336538461538462,1.87771634615385,1.72616249948521,0.0805326476789874,0.664394343351646,0.638433160876183,"11540/13488/224129/13489/19049/319176/319162",7
+"Human Diseases","Substance dependence","mmu05032","Morphine addiction","4/200","93/11159",0.043010752688172,2.39978494623656,1.8311763592277,0.0857040071252394,0.665292117860905,0.639295854882289,"18575/13488/224129/23984",4
+"Cellular Processes","Transport and catabolism","mmu04142","Lysosome biogenesis","8/200","254/11159",0.031496062992126,1.75732283464567,1.64933087164787,0.0866956799208005,0.665292117860905,0.639295854882289,"72368/13034/94178/18457/11782/229445/76524/15932",8
+"Environmental Information Processing","Signal transduction","mmu04020","Calcium signaling pathway","8/200","255/11159",0.0313725490196078,1.75043137254902,1.63761144010884,0.0882016065345897,0.665292117860905,0.639295854882289,"18575/94178/11540/13488/228550/18211/11549/110893",8
+"Organismal Systems","Nervous system","mmu04728","Dopaminergic synapse","5/200","137/11159",0.0364963503649635,2.03631386861314,1.64870935934679,0.0998718176821298,0.732393329668952,0.703775089514424,"14281/13488/224129/13489/19049",5
+"Organismal Systems","Endocrine system","mmu04913","Ovarian steroidogenesis","3/200","64/11159",0.046875,2.615390625,1.75075995598528,0.107090693578357,0.764106570396923,0.734249136625433,"224129/329502/211429",3
+"Organismal Systems","Immune system","mmu04664","Fc epsilon RI signaling pathway","3/200","66/11159",0.0454545454545455,2.53613636363636,1.69082999737863,0.114696706391336,0.789066580504474,0.758233835333247,"26400/329502/211429",3
+"Organismal Systems","Immune system","mmu04620","Toll-like receptor signaling pathway","4/200","104/11159",0.0384615384615385,2.14596153846154,1.58609812193191,0.116566653938161,0.789066580504474,0.758233835333247,"26400/14281/15975/20750",4
+"Environmental Information Processing","Signaling molecules and interaction","mmu04519","Cadherin signaling","11/200","414/11159",0.0265700483091787,1.48247584541063,1.35143527092205,0.124924140443368,0.824499326926229,0.792282048601361,"11789/353499/19164/66809/93883/93885/93878/93880/93877/19049/14107",11
+"Metabolism","Xenobiotics biodegradation and metabolism","mmu00982","Drug metabolism - cytochrome P450","3/200","72/11159",0.0416666666666667,2.32479166666667,1.52345462977107,0.138664843404445,0.871607587113656,0.837549555400283,"13106/55990/14867",3
+"Organismal Systems","Endocrine system","mmu04927","Cortisol synthesis and secretion","3/200","72/11159",0.0416666666666667,2.32479166666667,1.52345462977107,0.138664843404445,0.871607587113656,0.837549555400283,"224129/15370/16526",3
+"Organismal Systems","Nervous system","mmu04725","Cholinergic synapse","4/200","114/11159",0.0350877192982456,1.95771929824561,1.38845087047623,0.148220393724822,0.891876437658756,0.857026401418501,"14281/12647/224129/63993",4
+"Organismal Systems","Circulatory system","mmu04261","Adrenergic signaling in cardiomyocytes","5/200","156/11159",0.032051282051282,1.78830128205128,1.33943514011945,0.148646072943126,0.891876437658756,0.857026401418501,"224129/21956/16526/11549/110893",5
+"Organismal Systems","Endocrine system","mmu04928","Parathyroid hormone synthesis, secretion and action","4/200","116/11159",0.0344827586206897,1.92396551724138,1.35133783040696,0.154916974257109,0.908547649793529,0.87304618660383,"14281/224129/23948/213498",4
+"Organismal Systems","Nervous system","mmu04724","Glutamatergic synapse","4/200","117/11159",0.0341880341880342,1.90752136752137,1.33305672953233,0.158307545039782,0.908547649793529,0.87304618660383,"216227/224129/329502/211429",4
+"Genetic Information Processing","Information processing in viruses","mmu03260","Virion - Human immunodeficiency virus","1/200","10/11159",0.1,5.5795,1.95714417026958,0.165503511719073,0.912091149155399,0.876451223869422,"170786",1
+"Human Diseases","Endocrine and metabolic disease","mmu04934","Cushing syndrome","5/200","162/11159",0.0308641975308642,1.72206790123457,1.25060784012929,0.165834754391891,0.912091149155399,0.876451223869422,"11789/11863/224129/15370/16526",5
+"Organismal Systems","Nervous system","mmu04722","Neurotrophin signaling pathway","4/200","121/11159",0.0330578512396694,1.84446280991736,1.2616843940006,0.172138873903388,0.91380700220113,0.878100030025806,"26400/19164/18211/77480",4
+"Cellular Processes","Cell growth and death","mmu04114","Oocyte meiosis","4/200","123/11159",0.032520325203252,1.81447154471545,1.22700219214906,0.179208169062207,0.91380700220113,0.878100030025806,"56739/30939/224129/268930",4
+"Metabolism","Carbohydrate metabolism","mmu00620","Pyruvate metabolism","2/200","44/11159",0.0454545454545455,2.53613636363636,1.37918996190413,0.186251540416001,0.91380700220113,0.878100030025806,"109801/110695",2
+"Organismal Systems","Immune system","mmu04611","Platelet activation","4/200","126/11159",0.0317460317460317,1.77126984126984,1.17616303475933,0.189991478701483,0.91380700220113,0.878100030025806,"224129/19395/329502/211429",4
+"Human Diseases","Cancer: specific types","mmu05210","Colorectal cancer","3/200","88/11159",0.0340909090909091,1.90210227272727,1.14769476466501,0.209318459095999,0.91380700220113,0.878100030025806,"11789/14281/17350",3
+"Genetic Information Processing","Information processing in viruses","mmu03264","Virion - Flavivirus and Alphavirus","1/200","13/11159",0.0769230769230769,4.29192307692308,1.60429617520613,0.209616256094397,0.91380700220113,0.878100030025806,"170786",1
+"Cellular Processes","Cell growth and death","mmu04217","Necroptosis","5/200","177/11159",0.0282485875706215,1.57612994350282,1.04373218079226,0.211931891650271,0.91380700220113,0.878100030025806,"15975/329502/319176/319162/211429",5
+"Environmental Information Processing","Signal transduction","mmu04310","Wnt signaling pathway","5/200","179/11159",0.0279329608938547,1.55851955307263,1.01762188924093,0.218372467673452,0.91380700220113,0.878100030025806,"11789/19164/14160/68339/408191",5
+"Metabolism","Nucleotide metabolism","mmu00230","Purine metabolism","4/200","134/11159",0.0298507462686567,1.6655223880597,1.04700434183739,0.219690675380429,0.91380700220113,0.878100030025806,"18575/224129/23984/54369",4
+"Cellular Processes","Cell growth and death","mmu04210","Apoptosis","4/200","136/11159",0.0294117647058824,1.64102941176471,1.01606202417125,0.22730519701893,0.91380700220113,0.878100030025806,"14281/229445/18211/66593",4
+"Human Diseases","Cancer: overview","mmu05208","Chemical carcinogenesis - reactive oxygen species","6/200","229/11159",0.0262008733624454,1.46187772925764,0.954019815030443,0.228531608290819,0.91380700220113,0.878100030025806,"26400/11863/14281/13106/11431/14867",6
+"Organismal Systems","Immune system","mmu04666","Fc gamma R-mediated phagosome formation","3/200","94/11159",0.0319148936170213,1.7806914893617,1.02681067612204,0.237615201559053,0.91380700220113,0.878100030025806,"53357/329502/211429",3
+"Metabolism","Metabolism of cofactors and vitamins","mmu00730","Thiamine metabolism","1/200","15/11159",0.0666666666666667,3.71966666666667,1.42384747406686,0.237727771593794,0.91380700220113,0.878100030025806,"11431",1
+"Cellular Processes","Cell motility","mmu04820","Cytoskeleton in muscle cells","6/200","233/11159",0.0257510729613734,1.43678111587983,0.910193917233652,0.240259223911506,0.91380700220113,0.878100030025806,"24131/21956/12814/118449/17885/319565",6
+"Human Diseases","Endocrine and metabolic disease","mmu04936","Alcoholic liver disease","4/200","141/11159",0.0283687943262411,1.58283687943262,0.940866291886851,0.24662371524319,0.91380700220113,0.878100030025806,"26400/13106/20249/110695",4
+"Metabolism","Xenobiotics biodegradation and metabolism","mmu00983","Drug metabolism - other enzymes","3/200","96/11159",0.03125,1.74359375,0.988456596517279,0.247194127762446,0.91380700220113,0.878100030025806,"13106/54369/14867",3
+"Metabolism","Amino acid metabolism","mmu00330","Arginine and proline metabolism","2/200","54/11159",0.037037037037037,2.06648148148148,1.06124004676739,0.252244362030852,0.91380700220113,0.878100030025806,"320452/110695",2
+"Human Diseases","Infectious disease: viral","mmu05170","Human immunodeficiency virus 1 infection","6/200","241/11159",0.024896265560166,1.38908713692946,0.824909989084631,0.264234704959648,0.91380700220113,0.878100030025806,"26400/80287/14281/209387/667823/110557",6
+"Genetic Information Processing","Information processing in viruses","mmu03265","Virion - Ebolavirus, Lyssavirus and Morbillivirus","1/200","17/11159",0.0588235294117647,3.28205882352941,1.27201558191043,0.264844268922569,0.91380700220113,0.878100030025806,"170786",1
+"Cellular Processes","Transport and catabolism","mmu04137","Mitophagy - animal","3/200","101/11159",0.0297029702970297,1.65727722772277,0.896383167808681,0.271383277962599,0.91380700220113,0.878100030025806,"75266/50873/72825",3
+"Metabolism","Amino acid metabolism","mmu00280","Valine, leucine and isoleucine degradation","2/200","57/11159",0.0350877192982456,1.95771929824561,0.979259442397641,0.2722506399259,0.91380700220113,0.878100030025806,"56357/110695",2
+"Metabolism","Metabolism of cofactors and vitamins","mmu00830","Retinol metabolism","3/200","102/11159",0.0294117647058824,1.64102941176471,0.878581593198301,0.276254582490776,0.91380700220113,0.878100030025806,"108841/19378/19892",3
+"Metabolism","Glycan biosynthesis and metabolism","mmu00511","Other glycan degradation","1/200","18/11159",0.0555555555555556,3.09972222222222,1.20436665530591,0.278040386874057,0.91380700220113,0.878100030025806,"230101",1
+"Human Diseases","Cardiovascular disease","mmu05418","Fluid shear stress and atherosclerosis","4/200","149/11159",0.0268456375838926,1.49785234899329,0.826461730379163,0.278226300894122,0.91380700220113,0.878100030025806,"26400/14281/12166/14867",4
+"Environmental Information Processing","Membrane transport","mmu02010","ABC transporters","2/200","58/11159",0.0344827586206897,1.92396551724138,0.953040643114769,0.278918327662269,0.91380700220113,0.878100030025806,"27421/381072",2
+"Environmental Information Processing","Signal transduction","mmu04370","VEGF signaling pathway","2/200","58/11159",0.0344827586206897,1.92396551724138,0.953040643114769,0.278918327662269,0.91380700220113,0.878100030025806,"329502/211429",2
+"Human Diseases","Cancer: specific types","mmu05213","Endometrial cancer","2/200","58/11159",0.0344827586206897,1.92396551724138,0.953040643114769,0.278918327662269,0.91380700220113,0.878100030025806,"11789/17350",2
+"Human Diseases","Cardiovascular disease","mmu05414","Dilated cardiomyopathy","3/200","103/11159",0.029126213592233,1.62509708737864,0.860973502191394,0.281134786390526,0.91380700220113,0.878100030025806,"224129/21956/110893",3
+"Environmental Information Processing","Signal transduction","mmu04010","MAPK signaling pathway","7/200","299/11159",0.0234113712374582,1.30623745819398,0.725106345742777,0.289630488883466,0.91380700220113,0.878100030025806,"26400/14281/15370/18211/19395/329502/211429",7
+"Organismal Systems","Nervous system","mmu04730","Long-term depression","2/200","60/11159",0.0333333333333333,1.85983333333333,0.902133249884493,0.292239607405902,0.91380700220113,0.878100030025806,"329502/211429",2
+"Environmental Information Processing","Signaling molecules and interaction","mmu04518","Integrin signaling","4/200","153/11159",0.0261437908496732,1.45869281045752,0.771748167862988,0.294272902874777,0.91380700220113,0.878100030025806,"12824/16782/20750/231470",4
+"Organismal Systems","Endocrine system","mmu04921","Oxytocin signaling pathway","4/200","154/11159",0.025974025974026,1.44922077922078,0.75831192689571,0.298304326150342,0.91380700220113,0.878100030025806,"14281/224129/329502/211429",4
+"Organismal Systems","Excretory system","mmu04961","Endocrine and other factor-regulated calcium reabsorption","2/200","61/11159",0.0327868852459016,1.82934426229508,0.877405019417384,0.298889295022886,0.91380700220113,0.878100030025806,"13646/110893",2
+"Environmental Information Processing","Signal transduction","mmu04064","NF-kappa B signaling pathway","3/200","107/11159",0.0280373831775701,1.56434579439252,0.792390858433088,0.300725984942415,0.91380700220113,0.878100030025806,"105844/20315/100862177",3
+"Organismal Systems","Digestive system","mmu04974","Protein digestion and absorption","3/200","108/11159",0.0277777777777778,1.54986111111111,0.775687524207003,0.305636849453791,0.91380700220113,0.878100030025806,"12824/12814/110893",3
+"Cellular Processes","Cell growth and death","mmu04110","Cell cycle","4/200","157/11159",0.0254777070063694,1.42152866242038,0.718561309569161,0.310437754735792,0.91380700220113,0.878100030025806,"30939/268930/76464/12236",4
+"Human Diseases","Infectious disease: parasitic","mmu05145","Toxoplasmosis","3/200","109/11159",0.0275229357798165,1.53564220183486,0.759153518925876,0.310551176790256,0.91380700220113,0.878100030025806,"16782/54396/16145",3
+"Metabolism","Lipid metabolism","mmu00561","Glycerolipid metabolism","2/200","63/11159",0.0317460317460317,1.77126984126984,0.829308493315088,0.312157532229287,0.91380700220113,0.878100030025806,"110695/16891",2
+"Genetic Information Processing","Information processing in viruses","mmu03273","Virion - Lassa virus and SFTS virus","1/200","21/11159",0.0476190476190476,2.65690476190476,1.02665919131621,0.316231173860524,0.91380700220113,0.878100030025806,"170786",1
+"Metabolism","Amino acid metabolism","mmu00310","Lysine degradation","2/200","64/11159",0.03125,1.74359375,0.805906720562358,0.318772591540608,0.91380700220113,0.878100030025806,"64707/110695",2
+"Human Diseases","Endocrine and metabolic disease","mmu04940","Type I diabetes mellitus","2/200","65/11159",0.0307692307692308,1.71676923076923,0.782915090845629,0.325372726427893,0.91380700220113,0.878100030025806,"15893/110557",2
+"Metabolism","Metabolism of other amino acids","mmu00430","Taurine and hypotaurine metabolism","1/200","22/11159",0.0454545454545455,2.53613636363636,0.974270860557428,0.328509299666584,0.91380700220113,0.878100030025806,"55990",1
+"Genetic Information Processing","Replication and repair","mmu03430","Mismatch repair","1/200","23/11159",0.0434782608695652,2.42586956521739,0.924702046952979,0.340568035418284,0.91380700220113,0.878100030025806,"17350",1
+"Genetic Information Processing","Translation","mmu03013","Nucleocytoplasmic transport","3/200","118/11159",0.0254237288135593,1.41851694915254,0.617408440574355,0.354799300592224,0.91380700220113,0.878100030025806,"19826/60365/408191",3
+"Environmental Information Processing","Signal transduction","mmu04668","TNF signaling pathway","3/200","118/11159",0.0254237288135593,1.41851694915254,0.617408440574355,0.354799300592224,0.91380700220113,0.878100030025806,"26400/14281/16477",3
+"Human Diseases","Infectious disease: viral","mmu05167","Kaposi sarcoma-associated herpesvirus infection","5/200","222/11159",0.0225225225225225,1.25664414414414,0.521772821477764,0.36690427524086,0.91380700220113,0.878100030025806,"26400/14281/15975/74603/110557",5
+"Human Diseases","Neurodegenerative disease","mmu05012","Parkinson disease","6/200","274/11159",0.0218978102189781,1.22178832116788,0.502137263130177,0.368005109650126,0.91380700220113,0.878100030025806,"67951/11540/13488/224129/50873/13489",6
+"Metabolism","Amino acid metabolism","mmu00340","Histidine metabolism","1/200","26/11159",0.0384615384615385,2.14596153846154,0.790266048524645,0.375466566428618,0.91380700220113,0.878100030025806,"110695",1
+"Organismal Systems","Digestive system","mmu04977","Vitamin digestion and absorption","1/200","26/11159",0.0384615384615385,2.14596153846154,0.790266048524645,0.375466566428618,0.91380700220113,0.878100030025806,"53320",1
+"Organismal Systems","Endocrine system","mmu04918","Thyroid hormone synthesis","2/200","74/11159",0.027027027027027,1.50797297297297,0.592258537722609,0.383860231318084,0.91380700220113,0.878100030025806,"114479/224129",2
+"Metabolism","Glycan biosynthesis and metabolism","mmu00601","Glycosphingolipid biosynthesis - lacto and neolacto series","1/200","27/11159",0.037037037037037,2.06648148148148,0.749499443734891,0.386686065819103,0.91380700220113,0.878100030025806,"72297",1
+"Organismal Systems","Sensory system","mmu04744","Phototransduction","1/200","27/11159",0.037037037037037,2.06648148148148,0.749499443734891,0.386686065819103,0.91380700220113,0.878100030025806,"19739",1
+"Human Diseases","Endocrine and metabolic disease","mmu04950","Maturity onset diabetes of the young","1/200","27/11159",0.037037037037037,2.06648148148148,0.749499443734891,0.386686065819103,0.91380700220113,0.878100030025806,"21410",1
+"Organismal Systems","Digestive system","mmu04981","Folate transport and metabolism","1/200","27/11159",0.037037037037037,2.06648148148148,0.749499443734891,0.386686065819103,0.91380700220113,0.878100030025806,"53320",1
+"Organismal Systems","Endocrine system","mmu04924","Renin secretion","2/200","75/11159",0.0266666666666667,1.48786666666667,0.572672372815988,0.390233494564927,0.91380700220113,0.878100030025806,"18575/224129",2
+"Organismal Systems","Digestive system","mmu04971","Gastric acid secretion","2/200","75/11159",0.0266666666666667,1.48786666666667,0.572672372815988,0.390233494564927,0.91380700220113,0.878100030025806,"224129/16526",2
+"Metabolism","Xenobiotics biodegradation and metabolism","mmu00980","Metabolism of xenobiotics by cytochrome P450","2/200","76/11159",0.0263157894736842,1.46828947368421,0.553369525026695,0.396577495142683,0.91380700220113,0.878100030025806,"13106/14867",2
+"Environmental Information Processing","Signal transduction","mmu04152","AMPK signaling pathway","3/200","127/11159",0.0236220472440945,1.31799212598425,0.486870894702196,0.398693741862448,0.91380700220113,0.878100030025806,"20528/20249/11549",3
+"Organismal Systems","Nervous system","mmu04721","Synaptic vesicle cycle","2/200","77/11159",0.025974025974026,1.44922077922078,0.534341418976919,0.402891234404561,0.91380700220113,0.878100030025806,"216227/208898",2
+"Environmental Information Processing","Signal transduction","mmu04071","Sphingolipid signaling pathway","3/200","131/11159",0.0229007633587786,1.27774809160305,0.431977439220525,0.417960086336941,0.91380700220113,0.878100030025806,"67260/71949/93898",3
+"Organismal Systems","Endocrine system","mmu04926","Relaxin signaling pathway","3/200","131/11159",0.0229007633587786,1.27774809160305,0.431977439220525,0.417960086336941,0.91380700220113,0.878100030025806,"26400/14281/224129",3
+"Human Diseases","Infectious disease: bacterial","mmu05150","Staphylococcus aureus infection","3/200","131/11159",0.0229007633587786,1.27774809160305,0.431977439220525,0.417960086336941,0.91380700220113,0.878100030025806,"66809/14289/14294",3
+"Environmental Information Processing","Signal transduction","mmu04014","Ras signaling pathway","5/200","237/11159",0.0210970464135021,1.17710970464135,0.372295818680674,0.420344009693483,0.91380700220113,0.878100030025806,"18211/19395/53357/329502/211429",5
+"Human Diseases","Drug resistance: antineoplastic","mmu01524","Platinum drug resistance","2/200","81/11159",0.0246913580246914,1.37765432098765,0.460817538785237,0.427825146827779,0.91380700220113,0.878100030025806,"17350/14867",2
+"Organismal Systems","Endocrine system","mmu04915","Estrogen signaling pathway","3/200","134/11159",0.0223880597014925,1.24914179104478,0.391951558109906,0.432279017865601,0.91380700220113,0.878100030025806,"14281/224129/66809",3
+"Genetic Information Processing","Chromosome","mmu03082","ATP-dependent chromatin remodeling","3/200","135/11159",0.0222222222222222,1.23988888888889,0.378817582108585,0.437024238587987,0.91380700220113,0.878100030025806,"83797/319176/319162",3
+"Metabolism","Carbohydrate metabolism","mmu00053","Ascorbate and aldarate metabolism","1/200","32/11159",0.03125,1.74359375,0.569042087468057,0.439845512961277,0.91380700220113,0.878100030025806,"110695",1
+"Metabolism","Metabolism of other amino acids","mmu00410","beta-Alanine metabolism","1/200","32/11159",0.03125,1.74359375,0.569042087468057,0.439845512961277,0.91380700220113,0.878100030025806,"110695",1
+"Metabolism","Glycan biosynthesis and metabolism","mmu00512","Mucin type O-glycan biosynthesis","1/200","32/11159",0.03125,1.74359375,0.569042087468057,0.439845512961277,0.91380700220113,0.878100030025806,"72297",1
+"Genetic Information Processing","Transcription","mmu03020","RNA polymerase","1/200","32/11159",0.03125,1.74359375,0.569042087468057,0.439845512961277,0.91380700220113,0.878100030025806,"20017",1
+"Cellular Processes","Cell growth and death","mmu04215","Apoptosis - multiple species","1/200","32/11159",0.03125,1.74359375,0.569042087468057,0.439845512961277,0.91380700220113,0.878100030025806,"66593",1
+"Human Diseases","Infectious disease: viral","mmu05166","Human T-cell leukemia virus 1 infection","5/200","245/11159",0.0204081632653061,1.13867346938775,0.296488027921928,0.448580469904521,0.91380700220113,0.878100030025806,"30939/14281/224129/12236/110557",5
+"Organismal Systems","Immune system","mmu04612","Antigen processing and presentation","2/200","86/11159",0.0232558139534884,1.29755813953488,0.374206324438739,0.458209548457256,0.91380700220113,0.878100030025806,"19727/110557",2
+"Organismal Systems","Endocrine system","mmu04911","Insulin secretion","2/200","86/11159",0.0232558139534884,1.29755813953488,0.374206324438739,0.458209548457256,0.91380700220113,0.878100030025806,"224129/14652",2
+"Human Diseases","Infectious disease: viral","mmu05165","Human papillomavirus infection","7/200","357/11159",0.0196078431372549,1.09401960784314,0.243906385246509,0.458976150058183,0.91380700220113,0.878100030025806,"11789/19164/12824/15975/16782/20750/110557",7
+"Metabolism","Lipid metabolism","mmu01040","Biosynthesis of unsaturated fatty acids","1/200","34/11159",0.0294117647058824,1.64102941176471,0.505696698045823,0.459802195491989,0.91380700220113,0.878100030025806,"20249",1
+"Environmental Information Processing","Signal transduction","mmu04371","Apelin signaling pathway","3/200","140/11159",0.0214285714285714,1.19560714285714,0.314630158306216,0.460520119641086,0.91380700220113,0.878100030025806,"224129/20750/110893",3
+"Cellular Processes","Cellular community - eukaryotes","mmu04550","Signaling pathways regulating pluripotency of stem cells","3/200","140/11159",0.0214285714285714,1.19560714285714,0.314630158306216,0.460520119641086,0.91380700220113,0.878100030025806,"11789/12166/16392",3
+"Organismal Systems","Digestive system","mmu04970","Salivary secretion","2/200","87/11159",0.0229885057471264,1.28264367816092,0.357526779385002,0.464174999345362,0.91380700220113,0.878100030025806,"224129/11549",2
+"Human Diseases","Immune disease","mmu05323","Rheumatoid arthritis","2/200","87/11159",0.0229885057471264,1.28264367816092,0.357526779385002,0.464174999345362,0.91380700220113,0.878100030025806,"14281/20315",2
+"Human Diseases","Infectious disease: viral","mmu05162","Measles","3/200","142/11159",0.0211267605633803,1.1787676056338,0.289616988765683,0.469802532578341,0.91380700220113,0.878100030025806,"14281/15975/170786",3
+"Organismal Systems","Circulatory system","mmu04260","Cardiac muscle contraction","2/200","89/11159",0.0224719101123595,1.2538202247191,0.324765681237275,0.475989698817883,0.91380700220113,0.878100030025806,"21956/110893",2
+"Organismal Systems","Endocrine system","mmu04614","Renin-angiotensin system","1/200","36/11159",0.0277777777777778,1.54986111111111,0.446391585972352,0.479051307874322,0.91380700220113,0.878100030025806,"13646",1
+"Human Diseases","Immune disease","mmu05340","Primary immunodeficiency","1/200","36/11159",0.0277777777777778,1.54986111111111,0.446391585972352,0.479051307874322,0.91380700220113,0.878100030025806,"19727",1
+"Human Diseases","Cancer: overview","mmu05204","Chemical carcinogenesis - DNA adducts","2/200","90/11159",0.0222222222222222,1.23988888888889,0.308673898323037,0.481837901851058,0.91380700220113,0.878100030025806,"13106/14867",2
+"Metabolism","Metabolism of cofactors and vitamins","mmu00670","One carbon pool by folate","1/200","37/11159",0.027027027027027,1.50797297297297,0.418092845193248,0.488418361585114,0.91380700220113,0.878100030025806,"110695",1
+"Human Diseases","Cancer: specific types","mmu05216","Thyroid cancer","1/200","37/11159",0.027027027027027,1.50797297297297,0.418092845193248,0.488418361585114,0.91380700220113,0.878100030025806,"18211",1
+"Cellular Processes","Cellular community - eukaryotes","mmu04510","Focal adhesion","4/200","202/11159",0.0198019801980198,1.10485148514851,0.203154830469437,0.491473800278809,0.91380700220113,0.878100030025806,"12824/13731/16782/20750",4
+"Cellular Processes","Cellular community - eukaryotes","mmu04520","Adherens junction","2/200","92/11159",0.0217391304347826,1.2129347826087,0.277043700983399,0.49341363077025,0.91380700220113,0.878100030025806,"216527/11431",2
+"Organismal Systems","Sensory system","mmu04742","Taste transduction","2/200","92/11159",0.0217391304347826,1.2129347826087,0.277043700983399,0.49341363077025,0.91380700220113,0.878100030025806,"18575/15552",2
+"Human Diseases","Drug resistance: antineoplastic","mmu01522","Endocrine resistance","2/200","93/11159",0.021505376344086,1.19989247311828,0.261496147780327,0.49914029134944,0.91380700220113,0.878100030025806,"14281/224129",2
+"Organismal Systems","Immune system","mmu04640","Hematopoietic cell lineage","2/200","93/11159",0.021505376344086,1.19989247311828,0.261496147780327,0.49914029134944,0.91380700220113,0.878100030025806,"14128/12509",2
+"Organismal Systems","Endocrine system","mmu04914","Progesterone-mediated oocyte maturation","2/200","93/11159",0.021505376344086,1.19989247311828,0.261496147780327,0.49914029134944,0.91380700220113,0.878100030025806,"224129/268930",2
+"Environmental Information Processing","Signal transduction","mmu04072","Phospholipase D signaling pathway","3/200","149/11159",0.0201342281879195,1.12338926174497,0.204832824386909,0.501708949855207,0.91380700220113,0.878100030025806,"224129/329502/211429",3
+"Human Diseases","Cancer: specific types","mmu05222","Small cell lung cancer","2/200","94/11159",0.0212765957446809,1.18712765957447,0.246121139101815,0.504825619388361,0.91380700220113,0.878100030025806,"218772/16782",2
+"Human Diseases","Cancer: specific types","mmu05226","Gastric cancer","3/200","150/11159",0.02,1.1159,0.193053572402733,0.506188213387833,0.91380700220113,0.878100030025806,"11789/218772/17350",3
+"Metabolism","Amino acid metabolism","mmu00250","Alanine, aspartate and glutamate metabolism","1/200","39/11159",0.0256410256410256,1.43064102564103,0.36393013952111,0.506652653924528,0.91380700220113,0.878100030025806,"53320",1
+"Metabolism","Amino acid metabolism","mmu00260","Glycine, serine and threonine metabolism","1/200","40/11159",0.025,1.394875,0.337971035516404,0.515525807630921,0.91380700220113,0.878100030025806,"110695",1
+"Human Diseases","Substance dependence","mmu05033","Nicotine addiction","1/200","40/11159",0.025,1.394875,0.337971035516404,0.515525807630921,0.91380700220113,0.878100030025806,"216227",1
+"Organismal Systems","Immune system","mmu04613","Neutrophil extracellular trap formation","4/200","209/11159",0.0191387559808612,1.06784688995215,0.133757684218461,0.51820895992009,0.91380700220113,0.878100030025806,"14289/319176/319162/14294",4
+"Cellular Processes","Cell growth and death","mmu04216","Ferroptosis","1/200","41/11159",0.024390243902439,1.36085365853659,0.312703267421469,0.524240155906289,0.91380700220113,0.878100030025806,"26570",1
+"Organismal Systems","Immune system","mmu04621","NOD-like receptor signaling pathway","4/200","212/11159",0.0188679245283019,1.0527358490566,0.104724676372264,0.529467553866555,0.91380700220113,0.878100030025806,"15975/56338/54396/637515",4
+"Genetic Information Processing","Folding, sorting and degradation","mmu04120","Ubiquitin mediated proteolysis","3/200","156/11159",0.0192307692307692,1.07298076923077,0.124004627528034,0.5326185157591,0.91380700220113,0.878100030025806,"50873/17318/218793",3
+"Environmental Information Processing","Signal transduction","mmu04015","Rap1 signaling pathway","4/200","214/11159",0.0186915887850467,1.04289719626168,0.0855954391585524,0.536902459796548,0.91380700220113,0.878100030025806,"11540/224129/13489/19395",4
+"Organismal Systems","Environmental adaptation","mmu04713","Circadian entrainment","2/200","100/11159",0.02,1.1159,0.157270844863707,0.538051027826898,0.91380700220113,0.878100030025806,"14281/224129",2
+"Human Diseases","Cardiovascular disease","mmu05410","Hypertrophic cardiomyopathy","2/200","100/11159",0.02,1.1159,0.157270844863707,0.538051027826898,0.91380700220113,0.878100030025806,"21956/110893",2
+"Metabolism","Metabolism of cofactors and vitamins","mmu00760","Nicotinate and nicotinamide metabolism","1/200","43/11159",0.0232558139534884,1.29755813953488,0.264091550455826,0.541203698684534,0.91380700220113,0.878100030025806,"225994",1
+"Organismal Systems","Immune system","mmu04672","Intestinal immune network for IgA production","1/200","43/11159",0.0232558139534884,1.29755813953488,0.264091550455826,0.541203698684534,0.91380700220113,0.878100030025806,"20315",1
+"Organismal Systems","Digestive system","mmu04976","Bile secretion","2/200","101/11159",0.0198019801980198,1.10485148514851,0.142994618469442,0.543438255096884,0.91380700220113,0.878100030025806,"224129/28254",2
+"Metabolism","Glycan biosynthesis and metabolism","mmu00514","Other types of O-glycan biosynthesis","1/200","45/11159",0.0222222222222222,1.23988888888889,0.217823085930367,0.55756531141992,0.922907583305523,0.886845006286408,"224143",1
+"Genetic Information Processing","Translation","mmu03015","mRNA surveillance pathway","2/200","104/11159",0.0192307692307692,1.07298076923077,0.101010947688062,0.559337929276075,0.922907583305523,0.886845006286408,"19826/60365",2
+"Organismal Systems","Endocrine system","mmu04925","Aldosterone synthesis and secretion","2/200","104/11159",0.0192307692307692,1.07298076923077,0.101010947688062,0.559337929276075,0.922907583305523,0.886845006286408,"224129/15370",2
+"Organismal Systems","Development and regeneration","mmu04382","Cornified envelope formation","4/200","222/11159",0.018018018018018,1.00531531531532,0.0108063524237606,0.56604201272683,0.923343480314891,0.887263870637515,"16782/230101/11686/66809",4
+"Human Diseases","Infectious disease: viral","mmu05161","Hepatitis B","3/200","164/11159",0.0182926829268293,1.02064024390244,0.0359717730761248,0.566597135647774,0.923343480314891,0.887263870637515,"26400/14281/15975",3
+"Genetic Information Processing","Replication and repair","mmu03410","Base excision repair","1/200","47/11159",0.0212765957446809,1.18712765957447,0.173665484132565,0.573346249313381,0.928609876188543,0.892324482302388,"21665",1
+"Human Diseases","Endocrine and metabolic disease","mmu04930","Type II diabetes mellitus","1/200","48/11159",0.0208333333333333,1.16239583333333,0.152314637051602,0.581025402493485,0.933982255066701,0.897486935690092,"20528",1
+"Human Diseases","Infectious disease: viral","mmu05169","Epstein-Barr virus infection","4/200","227/11159",0.0176211453744493,0.983171806167401,-0.0346037635434701,0.583738909416688,0.933982255066701,0.897486935690092,"26400/14128/15975/110557",4
+"Human Diseases","Endocrine and metabolic disease","mmu04931","Insulin resistance","2/200","110/11159",0.0181818181818182,1.01445454545455,0.0205807884163929,0.589946306148852,0.936879147522504,0.90027063218869,"20528/210789",2
+"Human Diseases","Cancer: overview","mmu05207","Chemical carcinogenesis - receptor activation","4/200","231/11159",0.0173160173160173,0.966147186147186,-0.0702349265929,0.597595895579801,0.936879147522504,0.90027063218869,"11863/14281/224129/14867",4
+"Environmental Information Processing","Signal transduction","mmu04022","cGMP-PKG signaling pathway","3/200","172/11159",0.0174418604651163,0.973168604651163,-0.0479060796865302,0.599034542160592,0.936879147522504,0.90027063218869,"224129/11549/110893",3
+"Organismal Systems","Digestive system","mmu04979","Cholesterol metabolism","1/200","51/11159",0.0196078431372549,1.09401960784314,0.0909092973005363,0.603247412990242,0.936879147522504,0.90027063218869,"16891",1
+"Human Diseases","Cancer: specific types","mmu05225","Hepatocellular carcinoma","3/200","174/11159",0.0172413793103448,0.96198275862069,-0.0682775464945457,0.606893536016107,0.936879147522504,0.90027063218869,"11789/83797/14867",3
+"Metabolism","Lipid metabolism","mmu00071","Fatty acid degradation","1/200","52/11159",0.0192307692307692,1.07298076923077,0.0712581323371318,0.61039095974951,0.936879147522504,0.90027063218869,"110695",1
+"Metabolism","Amino acid metabolism","mmu00380","Tryptophan metabolism","1/200","52/11159",0.0192307692307692,1.07298076923077,0.0712581323371318,0.61039095974951,0.936879147522504,0.90027063218869,"110695",1
+"Genetic Information Processing","Folding, sorting and degradation","mmu04141","Protein processing in endoplasmic reticulum","3/200","180/11159",0.0166666666666667,0.929916666666667,-0.128053756352189,0.629855324524142,0.949004078350298,0.911921781827838,"26400/50873/66326",3
+"Organismal Systems","Digestive system","mmu04978","Mineral absorption","1/200","55/11159",0.0181818181818182,1.01445454545455,0.0145167290271992,0.631062757082974,0.949004078350298,0.911921781827838,"110893",1
+"Cellular Processes","Transport and catabolism","mmu04145","Phagosome","3/200","181/11159",0.0165745856353591,0.924779005524862,-0.137828635897554,0.633591716525318,0.949004078350298,0.911921781827838,"67951/170786/110557",3
+"Metabolism","Nucleotide metabolism","mmu00240","Pyrimidine metabolism","1/200","57/11159",0.0175438596491228,0.978859649122807,-0.0216158202617541,0.644233902484513,0.949004078350298,0.911921781827838,"54369",1
+"Organismal Systems","Endocrine system","mmu04923","Regulation of lipolysis in adipocytes","1/200","57/11159",0.0175438596491228,0.978859649122807,-0.0216158202617541,0.644233902484513,0.949004078350298,0.911921781827838,"224129",1
+"Organismal Systems","Immune system","mmu04660","T cell receptor signaling pathway","2/200","122/11159",0.0163934426229508,0.914672131147541,-0.128017106190169,0.646369131760705,0.949004078350298,0.911921781827838,"26400/14281",2
+"Environmental Information Processing","Signal transduction","mmu04151","PI3K-Akt signaling pathway","6/200","368/11159",0.016304347826087,0.909701086956522,-0.237956897856504,0.650546423649881,0.949004078350298,0.911921781827838,"12824/15975/15370/16782/18211/20750",6
+"Human Diseases","Immune disease","mmu05330","Allograft rejection","1/200","58/11159",0.0172413793103448,0.96198275862069,-0.0392135588368738,0.650642947656833,0.949004078350298,0.911921781827838,"110557",1
+"Human Diseases","Immune disease","mmu05332","Graft-versus-host disease","1/200","58/11159",0.0172413793103448,0.96198275862069,-0.0392135588368738,0.650642947656833,0.949004078350298,0.911921781827838,"110557",1
+"Human Diseases","Infectious disease: bacterial","mmu05132","Salmonella infection","4/200","250/11159",0.016,0.89272,-0.231749609595382,0.659546954260982,0.95456155580431,0.917262101071925,"100040563/67951/26400/14281",4
+"Organismal Systems","Aging","mmu04213","Longevity regulating pathway - multiple species","1/200","61/11159",0.0163934426229508,0.914672131147541,-0.0902726453067302,0.669188901097642,0.95456155580431,0.917262101071925,"224129",1
+"Human Diseases","Infectious disease: viral","mmu05163","Human cytomegalovirus infection","4/200","254/11159",0.015748031496063,0.878661417322835,-0.26425648504984,0.671742926837862,0.95456155580431,0.917262101071925,"224129/213498/20315/110557",4
+"Metabolism","Global and overview maps","mmu01212","Fatty acid metabolism","1/200","62/11159",0.0161290322580645,0.89991935483871,-0.106749502813268,0.675150535606605,0.95456155580431,0.917262101071925,"20249",1
+"Organismal Systems","Endocrine system","mmu04929","GnRH secretion","1/200","63/11159",0.0158730158730159,0.885634920634921,-0.122971140035711,0.681005261467529,0.95456155580431,0.917262101071925,"20750",1
+"Human Diseases","Cancer: specific types","mmu05217","Basal cell carcinoma","1/200","63/11159",0.0158730158730159,0.885634920634921,-0.122971140035711,0.681005261467529,0.95456155580431,0.917262101071925,"11789",1
+"Environmental Information Processing","Signal transduction","mmu04330","Notch signaling pathway","1/200","64/11159",0.015625,0.871796875,-0.138946514860562,0.686754986387004,0.95456155580431,0.917262101071925,"19164",1
+"Environmental Information Processing","Signal transduction","mmu04068","FoxO signaling pathway","2/200","133/11159",0.0150375939849624,0.839022556390977,-0.25229263092823,0.692557915697966,0.95456155580431,0.917262101071925,"20528/20620",2
+"Metabolism","Carbohydrate metabolism","mmu00010","Glycolysis / Gluconeogenesis","1/200","67/11159",0.0149253731343284,0.832761194029851,-0.185477930684171,0.703392728051424,0.95456155580431,0.917262101071925,"110695",1
+"Human Diseases","Infectious disease: bacterial","mmu05135","Yersinia infection","2/200","136/11159",0.0147058823529412,0.820514705882353,-0.284492704863733,0.704263878051749,0.95456155580431,0.917262101071925,"26400/14281",2
+"Cellular Processes","Transport and catabolism","mmu04144","Endocytosis","4/200","268/11159",0.0149253731343284,0.832761194029851,-0.374363319097081,0.712047997502715,0.95456155580431,0.917262101071925,"67588/69178/215445/110557",4
+"Human Diseases","Cancer: overview","mmu05230","Central carbon metabolism in cancer","1/200","69/11159",0.0144927536231884,0.808623188405797,-0.215412449894576,0.713993028719906,0.95456155580431,0.917262101071925,"18211",1
+"Human Diseases","Infectious disease: parasitic","mmu05140","Leishmaniasis","1/200","70/11159",0.0142857142857143,0.797071428571429,-0.230074633676519,0.719150954261477,0.95456155580431,0.917262101071925,"14281",1
+"Human Diseases","Cancer: specific types","mmu05211","Renal cell carcinoma","1/200","70/11159",0.0142857142857143,0.797071428571429,-0.230074633676519,0.719150954261477,0.95456155580431,0.917262101071925,"11863",1
+"Organismal Systems","Endocrine system","mmu04920","Adipocytokine signaling pathway","1/200","72/11159",0.0138888888888889,0.774930555555556,-0.25882038345065,0.729190770310667,0.95456155580431,0.917262101071925,"20528",1
+"Human Diseases","Cancer: specific types","mmu05223","Non-small cell lung cancer","1/200","72/11159",0.0138888888888889,0.774930555555556,-0.25882038345065,0.729190770310667,0.95456155580431,0.917262101071925,"218772",1
+"Metabolism","Metabolism of other amino acids","mmu00480","Glutathione metabolism","1/200","73/11159",0.0136986301369863,0.764315068493151,-0.272915701670851,0.734075937257349,0.95456155580431,0.917262101071925,"14867",1
+"Organismal Systems","Endocrine system","mmu04917","Prolactin signaling pathway","1/200","74/11159",0.0135135135135135,0.753986486486487,-0.286833378005855,0.738873412681175,0.95456155580431,0.917262101071925,"14281",1
+"Human Diseases","Immune disease","mmu05320","Autoimmune thyroid disease","1/200","74/11159",0.0135135135135135,0.753986486486487,-0.286833378005855,0.738873412681175,0.95456155580431,0.917262101071925,"110557",1
+"Human Diseases","Cancer: specific types","mmu05224","Breast cancer","2/200","147/11159",0.0136054421768707,0.759115646258503,-0.397152106986123,0.744058377255854,0.95456155580431,0.917262101071925,"11789/14281",2
+"Metabolism","Carbohydrate metabolism","mmu00562","Inositol phosphate metabolism","1/200","77/11159",0.012987012987013,0.72461038961039,-0.327571835484405,0.752755214550274,0.95456155580431,0.917262101071925,"228550",1
+"Human Diseases","Infectious disease: bacterial","mmu05133","Pertussis","1/200","77/11159",0.012987012987013,0.72461038961039,-0.327571835484405,0.752755214550274,0.95456155580431,0.917262101071925,"14281",1
+"Human Diseases","Immune disease","mmu05322","Systemic lupus erythematosus","2/200","150/11159",0.0133333333333333,0.743933333333333,-0.426527910036755,0.754088486292974,0.95456155580431,0.917262101071925,"319176/319162",2
+"Metabolism","Global and overview maps","mmu01240","Biosynthesis of cofactors","2/200","153/11159",0.0130718954248366,0.729346405228758,-0.455373206486268,0.76377964252045,0.95456155580431,0.917262101071925,"108841/54369",2
+"Organismal Systems","Nervous system","mmu04723","Retrograde endocannabinoid signaling","2/200","154/11159",0.012987012987013,0.72461038961039,-0.464874368598541,0.766936017197543,0.95456155580431,0.917262101071925,"216227/224129",2
+"Genetic Information Processing","Folding, sorting and degradation","mmu03018","RNA degradation","1/200","83/11159",0.0120481927710843,0.672228915662651,-0.40489361055967,0.778354056267547,0.95456155580431,0.917262101071925,"12227",1
+"Environmental Information Processing","Signal transduction","mmu04390","Hippo signaling pathway","2/200","158/11159",0.0126582278481013,0.70626582278481,-0.502330624326642,0.779199097294225,0.95456155580431,0.917262101071925,"11789/12166",2
+"Metabolism","Global and overview maps","mmu01232","Nucleotide metabolism","1/200","84/11159",0.0119047619047619,0.66422619047619,-0.417289355415055,0.78235633044112,0.95456155580431,0.917262101071925,"54369",1
+"Environmental Information Processing","Signal transduction","mmu04012","ErbB signaling pathway","1/200","84/11159",0.0119047619047619,0.66422619047619,-0.417289355415055,0.78235633044112,0.95456155580431,0.917262101071925,"26400",1
+"Human Diseases","Cardiovascular disease","mmu05412","Arrhythmogenic right ventricular cardiomyopathy","1/200","86/11159",0.0116279069767442,0.648779069767442,-0.441692146528805,0.790146421241156,0.95456155580431,0.917262101071925,"110893",1
+"Human Diseases","Endocrine and metabolic disease","mmu04932","Non-alcoholic fatty liver disease","2/200","162/11159",0.0123456790123457,0.688827160493827,-0.538945426124537,0.79089625477255,0.95456155580431,0.917262101071925,"14281/13106",2
+"Cellular Processes","Transport and catabolism","mmu04148","Efferocytosis","2/200","163/11159",0.0122699386503067,0.684601226993865,-0.547972985800621,0.793734317779814,0.95456155580431,0.917262101071925,"11863/53357",2
+"Cellular Processes","Transport and catabolism","mmu04146","Peroxisome","1/200","87/11159",0.0114942528735632,0.64132183908046,-0.453705699500162,0.793936786612037,0.95456155580431,0.917262101071925,"26378",1
+"Genetic Information Processing","Chromosome","mmu03083","Polycomb repressive complex","1/200","88/11159",0.0113636363636364,0.634034090909091,-0.465598159552015,0.797659026738265,0.95456155580431,0.917262101071925,"52609",1
+"Organismal Systems","Immune system","mmu04658","Th1 and Th2 cell differentiation","1/200","88/11159",0.0113636363636364,0.634034090909091,-0.465598159552015,0.797659026738265,0.95456155580431,0.917262101071925,"14281",1
+"Human Diseases","Cancer: overview","mmu05235","PD-L1 expression and PD-1 checkpoint pathway in cancer","1/200","88/11159",0.0113636363636364,0.634034090909091,-0.465598159552015,0.797659026738265,0.95456155580431,0.917262101071925,"14281",1
+"Organismal Systems","Environmental adaptation","mmu04714","Thermogenesis","3/200","236/11159",0.0127118644067797,0.709258474576271,-0.609838463104024,0.799367840384358,0.95456155580431,0.917262101071925,"224129/83797/73694",3
+"Organismal Systems","Endocrine system","mmu03320","PPAR signaling pathway","1/200","89/11159",0.0112359550561798,0.626910112359551,-0.477372485413179,0.801314360010087,0.95456155580431,0.917262101071925,"20249",1
+"Organismal Systems","Aging","mmu04211","Longevity regulating pathway","1/200","90/11159",0.0111111111111111,0.619944444444445,-0.489031528121329,0.80490398313547,0.95456155580431,0.917262101071925,"224129",1
+"Organismal Systems","Nervous system","mmu04727","GABAergic synapse","1/200","91/11159",0.010989010989011,0.613131868131868,-0.500578036150633,0.808429071524024,0.95456155580431,0.917262101071925,"224129",1
+"Cellular Processes","Cellular community - eukaryotes","mmu04530","Tight junction","2/200","169/11159",0.0118343195266272,0.660295857988166,-0.601129527779846,0.810061160703618,0.95456155580431,0.917262101071925,"26400/102098",2
+"Human Diseases","Cardiovascular disease","mmu05416","Viral myocarditis","1/200","92/11159",0.0108695652173913,0.606467391304348,-0.51201466024012,0.811890779664175,0.95456155580431,0.917262101071925,"110557",1
+"Environmental Information Processing","Signal transduction","mmu04630","JAK-STAT signaling pathway","2/200","171/11159",0.0116959064327485,0.652573099415205,-0.618478895534069,0.81524330743077,0.95456155580431,0.917262101071925,"237313/15975",2
+"Organismal Systems","Immune system","mmu04610","Complement and coagulation cascades","1/200","94/11159",0.0106382978723404,0.593563829787234,-0.534568397918411,0.818628570763633,0.95456155580431,0.917262101071925,"12509",1
+"Environmental Information Processing","Signal transduction","mmu04070","Phosphatidylinositol signaling system","1/200","96/11159",0.0104166666666667,0.581197916666667,-0.556712158898609,0.825126187834985,0.95456155580431,0.917262101071925,"228550",1
+"Organismal Systems","Immune system","mmu04657","IL-17 signaling pathway","1/200","97/11159",0.0103092783505155,0.57520618556701,-0.567636008055767,0.828287605391977,0.95456155580431,0.917262101071925,"14281",1
+"Environmental Information Processing","Signaling molecules and interaction","mmu04514","Cell adhesion molecule (CAM) interaction","2/200","179/11159",0.0111731843575419,0.62340782122905,-0.686150453150601,0.834734362262699,0.95456155580431,0.917262101071925,"66797/110557",2
+"Human Diseases","Infectious disease: bacterial","mmu05152","Tuberculosis","2/200","180/11159",0.0111111111111111,0.619944444444445,-0.694423897903547,0.837036373922683,0.95456155580431,0.917262101071925,"170786/19727",2
+"Organismal Systems","Endocrine system","mmu04916","Melanogenesis","1/200","100/11159",0.01,0.55795,-0.599841043761879,0.837434677971488,0.95456155580431,0.917262101071925,"224129",1
+"Metabolism","Lipid metabolism","mmu00140","Steroid hormone biosynthesis","1/200","101/11159",0.0099009900990099,0.552425742574257,-0.610393930869796,0.840374642200234,0.95456155580431,0.917262101071925,"13106",1
+"Genetic Information Processing","Translation","mmu03010","Ribosome","4/200","328/11159",0.0121951219512195,0.680426829268293,-0.793589053173459,0.844119713922604,0.95456155580431,0.917262101071925,"78523/67212/108169072/433745",4
+"Human Diseases","Infectious disease: parasitic","mmu05142","Chagas disease","1/200","103/11159",0.00970873786407767,0.541699029126213,-0.63123793074388,0.846096795112341,0.95456155580431,0.917262101071925,"14281",1
+"Organismal Systems","Immune system","mmu04659","Th17 cell differentiation","1/200","105/11159",0.00952380952380952,0.531380952380952,-0.6517447918795,0.851614812711318,0.95456155580431,0.917262101071925,"14281",1
+"Human Diseases","Infectious disease: viral","mmu05171","Coronavirus disease","4/200","334/11159",0.0119760479041916,0.668203592814371,-0.83167504968037,0.854006573823617,0.95456155580431,0.917262101071925,"14281/15975/108169072/433745",4
+"Human Diseases","Infectious disease: parasitic","mmu05146","Amoebiasis","1/200","107/11159",0.00934579439252336,0.521448598130841,-0.671928026928315,0.856935942142505,0.95456155580431,0.917262101071925,"16782",1
+"Human Diseases","Cancer: specific types","mmu05215","Prostate cancer","1/200","107/11159",0.00934579439252336,0.521448598130841,-0.671928026928315,0.856935942142505,0.95456155580431,0.917262101071925,"53320",1
+"Human Diseases","Neurodegenerative disease","mmu05022","Pathways of neurodegeneration - multiple diseases","6/200","481/11159",0.0124740124740125,0.695987525987526,-0.920749934113768,0.867228617588733,0.955986269262499,0.918631143908542,"67951/26400/11789/19164/50873/13417",6
+"Environmental Information Processing","Signal transduction","mmu04350","TGF-beta signaling pathway","1/200","112/11159",0.00892857142857143,0.498169642857143,-0.721051818886389,0.869422653380317,0.955986269262499,0.918631143908542,"12166",1
+"Organismal Systems","Immune system","mmu04625","C-type lectin receptor signaling pathway","1/200","112/11159",0.00892857142857143,0.498169642857143,-0.721051818886389,0.869422653380317,0.955986269262499,0.918631143908542,"170786",1
+"Organismal Systems","Digestive system","mmu04972","Pancreatic secretion","1/200","115/11159",0.00869565217391304,0.485173913043478,-0.749668010454564,0.876387746790756,0.955986269262499,0.918631143908542,"224129",1
+"Environmental Information Processing","Signal transduction","mmu04066","HIF-1 signaling pathway","1/200","117/11159",0.00854700854700855,0.476880341880342,-0.768409654652726,0.880824489928748,0.955986269262499,0.918631143908542,"11863",1
+"Organismal Systems","Immune system","mmu04650","Natural killer cell mediated cytotoxicity","1/200","117/11159",0.00854700854700855,0.476880341880342,-0.768409654652726,0.880824489928748,0.955986269262499,0.918631143908542,"15975",1
+"Organismal Systems","Immune system","mmu04670","Leukocyte transendothelial migration","1/200","119/11159",0.00840336134453781,0.468865546218487,-0.786893813937814,0.885102755332805,0.955986269262499,0.918631143908542,"20315",1
+"Organismal Systems","Endocrine system","mmu04919","Thyroid hormone signaling pathway","1/200","120/11159",0.00833333333333333,0.464958333333333,-0.796042167438471,0.887184227156486,0.955986269262499,0.918631143908542,"210789",1
+"Human Diseases","Infectious disease: viral","mmu05168","Herpes simplex virus 1 infection","2/200","209/11159",0.00956937799043062,0.533923444976077,-0.918853033830766,0.892368906039302,0.957664191847055,0.920243501735009,"15975/110557",2
+"Human Diseases","Cardiovascular disease","mmu05415","Diabetic cardiomyopathy","2/200","216/11159",0.00925925925925926,0.51662037037037,-0.969102543636359,0.902831009172776,0.959636983302232,0.922139206442735,"20528/210789",2
+"Human Diseases","Cardiovascular disease","mmu05417","Lipid and atherosclerosis","2/200","217/11159",0.00921658986175115,0.514239631336406,-0.976171904840303,0.90424610213027,0.959636983302232,0.922139206442735,"26400/14281",2
+"Human Diseases","Cancer: overview","mmu05202","Transcriptional misregulation in cancer","2/200","219/11159",0.0091324200913242,0.509543378995434,-0.990231439857673,0.907018994630322,0.959636983302232,0.922139206442735,"18211/15446",2
+"Environmental Information Processing","Signaling molecules and interaction","mmu04517","IgSF CAM signaling","3/200","300/11159",0.01,0.55795,-1.04847919846391,0.908747143278629,0.959636983302232,0.922139206442735,"67951/170786/66797",3
+"Human Diseases","Neurodegenerative disease","mmu05016","Huntington disease","3/200","308/11159",0.00974025974025974,0.543457792207792,-1.09760006506325,0.917735795682305,0.9619882209312,0.924398569555101,"67951/26400/13417",3
+"Organismal Systems","Endocrine system","mmu04910","Insulin signaling pathway","1/200","140/11159",0.00714285714285714,0.398535714285714,-0.96744321636571,0.921761342327896,0.9619882209312,0.924398569555101,"20528",1
+"Human Diseases","Neurodegenerative disease","mmu05010","Alzheimer disease","4/200","389/11159",0.0102827763496144,0.573727506426735,-1.15605094060742,0.922291584099052,0.9619882209312,0.924398569555101,"67951/26400/11789/19164",4
+"Cellular Processes","Cell motility","mmu04810","Regulation of actin cytoskeleton","2/200","234/11159",0.00854700854700855,0.476880341880342,-1.09249877660184,0.925549273168655,0.9619882209312,0.924398569555101,"11789/20315",2
+"Genetic Information Processing","Translation","mmu03008","Ribosome biogenesis in eukaryotes","1/200","153/11159",0.0065359477124183,0.364673202614379,-1.0689338936609,0.938347781696778,0.971465938697841,0.933505945877909,"66161",1
+"Human Diseases","Infectious disease: viral","mmu05160","Hepatitis C","1/200","164/11159",0.00609756097560976,0.340213414634146,-1.14987465456487,0.949615318738359,0.979290797448933,0.941025048585299,"15975",1
+"Human Diseases","Infectious disease: viral","mmu05164","Influenza A","1/200","174/11159",0.00574712643678161,0.32066091954023,-1.22006763165348,0.958068567947364,0.981126075150396,0.942788612883754,"15975",1
+"Cellular Processes","Cell growth and death","mmu04218","Cellular senescence","1/200","181/11159",0.00552486187845304,0.308259668508287,-1.26748691572187,0.963130698509167,0.981126075150396,0.942788612883754,"110557",1
+"Organismal Systems","Development and regeneration","mmu04360","Axon guidance","1/200","181/11159",0.00552486187845304,0.308259668508287,-1.26748691572187,0.963130698509167,0.981126075150396,0.942788612883754,"20315",1
+"Human Diseases","Neurodegenerative disease","mmu05014","Amyotrophic lateral sclerosis","3/200","374/11159",0.00802139037433155,0.447553475935829,-1.46804268939959,0.966260528557208,0.981126075150396,0.942788612883754,"67951/50873/13417",3
+"Human Diseases","Cancer: overview","mmu05205","Proteoglycans in cancer","1/200","204/11159",0.00490196078431373,0.273504901960784,-1.4146998059172,0.975855242847196,0.987071969776474,0.948502171914395,"545291",1
+"Human Diseases","Cancer: overview","mmu05206","MicroRNAs in cancer","2/200","318/11159",0.00628930817610063,0.350911949685535,-1.58637265283666,0.979608777884152,0.987086707486321,0.948516333748817,"11789/171543",2
+"Human Diseases","Cancer: overview","mmu05203","Viral carcinogenesis","1/200","226/11159",0.00442477876106195,0.246880530973451,-1.54515173255767,0.983908036346,0.987649131541231,0.949056781106207,"110557",1
+"Human Diseases","Neurodegenerative disease","mmu05020","Prion disease","1/200","273/11159",0.00366300366300366,0.204377289377289,-1.79794765137846,0.993255491603323,0.993255491603323,0.954444072872411,"67951",1

Biomanus/experiments/ablation/results/biomanus/bioagentbench/alzheimer-mouse_20260522_103420/output_validation.json

@@ -0,0 +1,10 @@
+{
+  "postprocess": [
+    {
+      "file": "/225040511/project/Biomanus/experiments/ablation/results/biomanus/bioagentbench/alzheimer-mouse_20260522_103420/pathway_comparison.csv",
+      "actions": [
+        "canonicalized_pathway_header"
+      ]
+    }
+  ]
+}

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/cluster_annotation_mapping.csv

@@ -0,0 +1,1149 @@
+cluster_number,consensus_annotation
+2,"COG3039, IS5 family transposase ISBli8"
+3,"COG3039, IS5 family transposase ISBli8"
+4,IS256 family transposase ISMlu11
+10,ISL3 family transposase ISAar42
+12,"K11923  merR1, yfmP, cueR, cueR, MerR family transcriptional regulator, copper efflux regulator"
+14,"K00520  merA, merA, mercuric reductase [EC:1.16.1.1]"
+15,"K21567  fprA, fnr, ferredoxin/flavodoxin---NADP+ reductase [EC:1.18.1.2 1.19.1.1]"
+16,"K04077  groEL1, groEL2, groEL, HSPD1, chaperonin GroEL [EC:5.6.1.7]"
+19,"COG4770, Biotin-dependent acyl-coenzyme A carboxylase alpha3 subunit"
+20,"K17686  copB, copA, ctpA, ATP7, P-type Cu+ transporter [EC:7.2.2.8]"
+21,"K03828  oatA, yjgM, putative acetyltransferase [EC:2.3.1.-]"
+22,"K12145  yghA, ucpA, hyfJ, hydrogenase-4 component J [EC:1.-.-.-]"
+24,"COG0738, Inner membrane protein YbjJ"
+25,"K18351  liaS, vanSAc, two-component system, OmpR family, sensor histidine kinase VanS [EC:2.7.13.3]"
+26,"K01715  echA8, crt, paaF, crt, enoyl-CoA hydratase [EC:4.2.1.17]"
+28,"K16234  hutT, hutT, histidine transporter"
+29,Nucleoid-associated protein Lsr2
+30,"COG2963, Insertion element IS6110 uncharacterized 12.0 kDa protein"
+31,"K07399  ccs1, ccsA, resB, ccs1, cytochrome c biogenesis protein"
+32,Thiol-disulfide oxidoreductase ResA
+34,IS3 family transposase IS999
+35,IS3 family transposase ISPfr12
+36,"K01897  lcfB, menE, ACSL, fadD, long-chain acyl-CoA synthetase [EC:6.2.1.3]"
+37,"K11618  vraR, liaR, liaR, two-component system, NarL family, response regulator LiaR"
+38,"COG1388, putative protein YdhK"
+39,"COG3152, Inner membrane protein YhaI"
+40,"K08225  entS, entS, MFS transporter, ENTS family, enterobactin (siderophore) exporter"
+45,"K14052  puuP, puuP, putrescine importer"
+46,"K19065  mobA, mobA, 3-hydroxybenzoate 4-monooxygenase [EC:1.14.13.23]"
+48,"K01796  mcr, E5.1.99.4, AMACR, mcr, alpha-methylacyl-CoA racemase [EC:5.1.99.4]"
+50,"COG1192, putative protein"
+51,"K09565  fkbP, PPIF, peptidyl-prolyl isomerase F (cyclophilin D) [EC:5.2.1.8]"
+52,"K15521  mshA, mshA, D-inositol-3-phosphate glycosyltransferase [EC:2.4.1.250]"
+53,"COG0239, Fluoride-specific ion channel FluC"
+56,"K01834  gpmA, PGAM, gpmA, 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase [EC:5.4.2.11]"
+57,"K00060  tdh, tdh, threonine 3-dehydrogenase [EC:1.1.1.103]"
+58,"K04485  radA, radA, sms, DNA repair protein RadA/Sms"
+59,"K05916  hmp, pyrK, hmp, YHB1, nitric oxide dioxygenase [EC:1.14.12.17]"
+60,"K03724  lhr, srmB, lhr, ATP-dependent helicase Lhr and Lhr-like helicase [EC:3.6.4.13 5.6.2.4]"
+61,"COG0586, putative membrane protein"
+62,"K00354  nemA, E1.6.99.1, NADPH2 dehydrogenase [EC:1.6.99.1]"
+64,"K13892  gsiA, dppF, gsiA, glutathione transport system ATP-binding protein"
+66,"K03412  cheB, lnrK, degU, cheB, two-component system, chemotaxis family, protein-glutamate methylesterase/glutaminase [EC:3.1.1.61 3.5.1.44]"
+67,"K01907  acsA, AACS, acsA, acetoacetyl-CoA synthetase [EC:6.2.1.16]"
+68,"K03762  proP, abaF, proP, MFS transporter, MHS family, proline/betaine transporter"
+69,"K01752  sdaA, sdaB, tdcG, E4.3.1.17, sdaA, sdaB, tdcG, L-serine dehydratase [EC:4.3.1.17]"
+70,"K18568  uup, btuD, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+71,"K00981  cdsA, E2.7.7.41, CDS1, CDS2, cdsA, phosphatidate cytidylyltransferase [EC:2.7.7.41]"
+72,"K01909  aas, mbtM, long-chain-fatty-acid--[acyl-carrier-protein] ligase [EC:6.2.1.20]"
+74,Dimethyl-sulfide monooxygenase
+75,"K02073  metQ, metQ, D-methionine transport system substrate-binding protein"
+76,"K02072  metI, metP, metI, D-methionine transport system permease protein"
+77,"K02071  metN, metN, D-methionine transport system ATP-binding protein"
+78,"K11085  ywjA, msbA, msbA, ATP-binding cassette, subfamily B, bacterial MsbA [EC:7.5.2.6]"
+79,"K11939  rhtA, rhtA, inner membrane transporter RhtA"
+80,"K02806  dagK, yegS, ptsN, nitrogen PTS system EIIA component [EC:2.7.1.-]"
+81,"K00796  folP1, sul1, folP, dihydropteroate synthase [EC:2.5.1.15]"
+82,"K06019  ppa, ppaX, pyrophosphatase PpaX [EC:3.6.1.1]"
+84,"K01126  glpQ2, E3.1.4.46, glpQ, ugpQ, glycerophosphoryl diester phosphodiesterase [EC:3.1.4.46]"
+85,"K01620  ltaE, ltaE, threonine aldolase [EC:4.1.2.48]"
+87,IS3 family transposase ISAcl2
+88,"K04084  dsbD, dsbD, dipZ, thioredoxin:protein disulfide reductase [EC:1.8.4.16]"
+90,"K03497  noc, parB, parB, spo0J, ParB family transcriptional regulator, chromosome partitioning protein"
+91,"K00384  trxB, trxB, TRR, thioredoxin reductase (NADPH) [EC:1.8.1.9]"
+94,"K00001  E1.1.1.1, adh, alcohol dehydrogenase [EC:1.1.1.1]"
+96,"K26113  lctD, lctD, lactate dehydrogenase (NAD+,ferredoxin) subunit LctD [EC:1.3.1.110]"
+97,"K23095  menG, bioC, MENG, menG, demethylphylloquinol methyltransferase [EC:2.1.1.329]"
+100,"K03828  ypeA, yjgM, putative acetyltransferase [EC:2.3.1.-]"
+101,"K17686  copA, ctpA, copA, ctpA, ATP7, P-type Cu+ transporter [EC:7.2.2.8]"
+102,"K03727  rapA, helY, ATP-dependent RNA helicase HelY [EC:3.6.4.-]"
+107,"K00059  chnA, mabA, fabG, OAR1, 3-oxoacyl-[acyl-carrier protein] reductase [EC:1.1.1.100]"
+110,"K00074  hbd, paaH, hbd, fadB, mmgB, 3-hydroxybutyryl-CoA dehydrogenase [EC:1.1.1.157]"
+111,"K00128  aldh, gabD1, ALDH, aldehyde dehydrogenase (NAD+) [EC:1.2.1.3]"
+112,"K06215  pdxT, pdxS, pdx1, pyridoxal 5'-phosphate synthase pdxS subunit [EC:4.3.3.6]"
+115,"COG1115, Amino-acid carrier protein AlsT"
+116,"K24708  btuD, bcrA, lolD, K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+117,"K24708  K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+118,"COG0406, putative protein"
+119,"K01897  ACSL, fadD, long-chain acyl-CoA synthetase [EC:6.2.1.3]"
+120,"K02167  betI, betI, TetR/AcrR family transcriptional regulator, transcriptional repressor of bet genes"
+121,"K02549  menC, ykfB, menC, o-succinylbenzoate synthase [EC:4.2.1.113]"
+123,"K01784  galE, galE, GALE, UDP-glucose 4-epimerase [EC:5.1.3.2]"
+124,"K16150  gtfA, K16150, glycogen synthase [EC:2.4.1.11]"
+125,"K01710  hldD, rmlB, rfbB, rmlB, rffG, dTDP-glucose 4,6-dehydratase [EC:4.2.1.46]"
+127,"K07672  trcR, tcrX, trcR, two-component system, OmpR family, response regulator TrcR"
+128,"K10806  yraA, yhbO, yciA, acyl-CoA thioesterase YciA [EC:3.1.2.-]"
+129,"K06942  ychF, feoB, ychF, ribosome-binding ATPase"
+130,"K18568  ettA, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+132,"K24708  osmV, opuCA, K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+133,"COG1174, Choline transport system permease protein OpuBB"
+135,"K11717  iscS, csd, sufS, cysteine desulfurase / selenocysteine lyase [EC:2.8.1.7 4.4.1.16]"
+138,"K14374  trmR, aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+139,"K03579  cshA, rapA, hrpB, ATP-dependent helicase HrpB [EC:3.6.4.13]"
+140,"K19577  ydhP, nepI, ydhP, MFS transporter, DHA1 family, inner membrane transport protein"
+141,Delta-poly-L-ornithine synthetase
+143,"K12132  pknD, spk1, prkC, stkP, eukaryotic-like serine/threonine-protein kinase [EC:2.7.11.1]"
+144,"K00886  ppgK, glk, ppgK, polyphosphate glucokinase [EC:2.7.1.63]"
+145,"K14630  cmoO, fgd, actVA5, two-component flavin-dependent monooxygenase [EC:1.14.14.-]"
+146,"K11168  yajO, DHRS12, dehydrogenase/reductase SDR family member 12 [EC:1.1.-.-]"
+147,"K03727  ruvB, helY, ATP-dependent RNA helicase HelY [EC:3.6.4.-]"
+148,"K14374  rlmP, nshR, aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+149,"K03701  uvrA, uvrA, excinuclease ABC subunit A"
+150,"K00859  caiT, coaE, coaE, dephospho-CoA kinase [EC:2.7.1.24]"
+151,"K03828  eis, yjgM, putative acetyltransferase [EC:2.3.1.-]"
+153,"K14652  ribBA, ribA, ribBA, 3,4-dihydroxy 2-butanone 4-phosphate synthase / GTP cyclohydrolase II [EC:4.1.99.12 3.5.4.25]"
+156,"K15521  mshA, mshA, D-inositol-3-phosphate glycosyltransferase [EC:2.4.1.250]"
+157,"K22223  gph, pgp, phosphoglycolate phosphatase [EC:3.1.3.18]"
+158,"K25028  fepC, btuD, cmpD, scaC, btuD, cobalamin transport system ATP-binding protein [EC:7.6.2.8]"
+159,Fluoride-specific ion channel FluC
+160,"COG1674, ESX secretion system protein EccC"
+162,"K15521  mshA, mshA, D-inositol-3-phosphate glycosyltransferase [EC:2.4.1.250]"
+163,"K14465  dkgA, K14465, succinate semialdehyde reductase (NADPH) [EC:1.1.1.-]"
+164,"K03313  nhaA, nhaA, Na+:H+ antiporter, NhaA family"
+165,"K03524  birA, birA, BirA family transcriptional regulator, biotin operon repressor / biotin---[acetyl-CoA-carboxylase] ligase [EC:6.3.4.15]"
+166,"K08324  sad, gbsA, sad, succinate-semialdehyde dehydrogenase [EC:1.2.1.16 1.2.1.24]"
+167,"K01689  eno, ENO, eno, enolase [EC:4.2.1.11]"
+170,"K10237  sugA, thuF, sugA, trehalose/maltose transport system permease protein"
+171,"K01653  ilvG, ilvB, E2.2.1.6S, ilvH, ilvN, acetolactate synthase I/III small subunit [EC:2.2.1.6]"
+174,"K00700  glgB, GBE1, glgB, 1,4-alpha-glucan branching enzyme [EC:2.4.1.18]"
+175,"K16147  glgE1, glgE, starch synthase (maltosyl-transferring) [EC:2.4.99.16]"
+176,"K14374  aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+178,"K01883  cysS, CARS, cysS, cysteinyl-tRNA synthetase [EC:6.1.1.16]"
+179,"K01770  ispDF, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [EC:4.6.1.12]"
+180,"K07736  carD, carD, CarD family transcriptional regulator, regulator of rRNA transcription"
+182,"K07776  regX3, regX3, two-component system, OmpR family, response regulator RegX3"
+183,"K18351  senX3, sasA, vanSAc, two-component system, OmpR family, sensor histidine kinase VanS [EC:2.7.13.3]"
+184,"COG0704, Phosphate-specific transport system accessory protein PhoU"
+187,"K00943  tmk, tmk, DTYMK, dTMP kinase [EC:2.7.4.9]"
+189,"K05306  phnX, gph, phnX, phosphonoacetaldehyde hydrolase [EC:3.11.1.1]"
+193,"K25562  creE, creE, L-aspartate N-monooxygenase (nitrosuccinate-forming) [EC:1.14.13.248]"
+194,"COG3861, putative protein"
+196,"K08224  nanT, ynfM, ynfM, MFS transporter, YNFM family, putative membrane transport protein"
+197,"K01835  algC, pgm, phosphoglucomutase [EC:5.4.2.2]"
+198,"K03579  rhlB, hrpB, ATP-dependent helicase HrpB [EC:3.6.4.13]"
+199,"K13771  nsrR, nsrR, Rrf2 family transcriptional regulator, nitric oxide-sensitive transcriptional repressor"
+200,"K01596  pckG, E4.1.1.32, pckA, PCK, phosphoenolpyruvate carboxykinase (GTP) [EC:4.1.1.32]"
+201,"K18569  thnH, hydrolase [EC:3.1.3.-]"
+203,"K02825  upp, pyrR, pyrimidine operon attenuation protein / uracil phosphoribosyltransferase [EC:2.4.2.9]"
+204,"K11991  tadA, tadA, tRNA(adenine34) deaminase [EC:3.5.4.33]"
+206,"K00783  rlmH, rlmH, 23S rRNA (pseudouridine1915-N3)-methyltransferase [EC:2.1.1.177]"
+207,"K00975  glgC, glgC, glucose-1-phosphate adenylyltransferase [EC:2.7.7.27]"
+213,"K01951  guaA, guaA, GMPS, GMP synthase (glutamine-hydrolysing) [EC:6.3.5.2]"
+214,"K00773  tgt, tgt, queuine tRNA-ribosyltransferase [EC:2.4.2.29]"
+217,"K22818  mmgC, fadE26, 3-oxocholest-4-en-26-oyl-CoA dehydrogenase alpha subunit [EC:1.3.99.-]"
+222,"K00868  pdxK, pdxK, pdxY, pyridoxine kinase [EC:2.7.1.35]"
+226,"K00605  gcvT, gcvT, AMT, aminomethyltransferase [EC:2.1.2.10]"
+227,"K00282  gcvP, gcvPA, glycine dehydrogenase subunit 1 [EC:1.4.4.2]"
+228,"K22818  acrC, mmgC, fadE26, 3-oxocholest-4-en-26-oyl-CoA dehydrogenase alpha subunit [EC:1.3.99.-]"
+230,"K12145  hyfJ, hydrogenase-4 component J [EC:1.-.-.-]"
+231,"K00020  iolA, mmsB, HIBADH, mmsB, 3-hydroxyisobutyrate dehydrogenase [EC:1.1.1.31]"
+232,"K01661  menB, menB, naphthoate synthase [EC:4.1.3.36]"
+235,"K03522  etfA, fixB, etfA, electron transfer flavoprotein alpha subunit"
+236,"K03521  etfB, fixA, etfB, electron transfer flavoprotein beta subunit"
+244,"K16243  poxB, dmpL, poxB, tomA1, phenol/toluene 2-monooxygenase (NADH) P1/A1 [EC:1.14.13.244 1.14.13.243]"
+245,Sodium/proton-dependent alanine carrier protein
+246,"K01885  gltX1, EARS, gltX, glutamyl-tRNA synthetase [EC:6.1.1.17]"
+248,"K06187  recR, recR, recombination protein RecR"
+250,"K00928  ask, lysC, aspartate kinase [EC:2.7.2.4]"
+255,"K23270  purS, purSL, phosphoribosylformylglycinamidine synthase subunit PurSL [EC:6.3.5.3]"
+256,"K23270  purQ, purSL, phosphoribosylformylglycinamidine synthase subunit PurSL [EC:6.3.5.3]"
+257,"K23270  purL, purSL, phosphoribosylformylglycinamidine synthase subunit PurSL [EC:6.3.5.3]"
+261,"K14630  sfnC, actVA5, two-component flavin-dependent monooxygenase [EC:1.14.14.-]"
+262,"K01907  acsA, AACS, acsA, acetoacetyl-CoA synthetase [EC:6.2.1.16]"
+263,"K15554  ssuC, ssuC, sulfonate transport system permease protein"
+267,"K10764  metZ, O-succinylhomoserine sulfhydrylase [EC:2.5.1.-]"
+269,"K01479  hutG, formiminoglutamase [EC:3.5.3.8]"
+271,"K01745  hutH, hutH, HAL, histidine ammonia-lyase [EC:4.3.1.3]"
+272,"K01468  hutI, hutI, AMDHD1, imidazolonepropionase [EC:3.5.2.7]"
+274,"K01712  hutU, hutU, UROC1, urocanate hydratase [EC:4.2.1.49]"
+275,"K19333  kdgR, kdgR, IclR family transcriptional regulator, KDG regulon repressor"
+277,"K11206  ybeM, NIT1, ybeM, deaminated glutathione amidase [EC:3.5.1.128]"
+278,"K03781  katE, katE, CAT, catB, srpA, catalase [EC:1.11.1.6]"
+279,"K01939  purA, purA, ADSS, adenylosuccinate synthase [EC:6.3.4.4]"
+281,"K00857  tdk, tdk, TK, thymidine kinase [EC:2.7.1.21]"
+284,"K01638  aceB, aceB, glcB, malate synthase [EC:2.3.3.9]"
+285,"K01637  icl1, E4.1.3.1, aceA, isocitrate lyase [EC:4.1.3.1]"
+286,"COG1396, Propionyl-CoA carboxylase regulator"
+287,"K16305  fba, K16305, fructose-bisphosphate aldolase / 6-deoxy-5-ketofructose 1-phosphate synthase [EC:4.1.2.13 2.2.1.11]"
+288,6-deoxy-6-sulfogluconolactonase
+289,"K00556  trmH, trmH, tRNA (guanosine-2'-O-)-methyltransferase [EC:2.1.1.34]"
+291,"K03284  corA, corA, magnesium transporter"
+292,"K00762  pyrE, pyrE, orotate phosphoribosyltransferase [EC:2.4.2.10]"
+294,"K01916  nadE, nadE, NAD+ synthase [EC:6.3.1.5]"
+295,"K01142  xthA, E3.1.11.2, xthA, exodeoxyribonuclease III [EC:3.1.11.2]"
+297,"K01194  treA, TREH, treA, treF, alpha,alpha-trehalase [EC:3.2.1.28]"
+298,"K02168  caiT, betS, opuD, betT, betS, choline/glycine/proline betaine transport protein"
+299,"K09020  rutB, rutB, ureidoacrylate peracid hydrolase [EC:3.5.1.110]"
+301,Universal stress protein
+305,"K03322  mntH, mntH, manganese transport protein"
+312,"K02036  pstB1, pstB, phosphate transport system ATP-binding protein [EC:7.3.2.1]"
+314,"COG0573, Phosphate transport system permease protein PstC 2"
+315,Phosphate-binding protein PstS2
+318,"K03575  mutY, mutY, A/G-specific adenine glycosylase [EC:3.2.2.31]"
+319,"K22477  argA, argO, N-acetylglutamate synthase [EC:2.3.1.1]"
+321,"COG0542, ATP-dependent Clp protease ATP-binding subunit ClpC1"
+323,"K04566  lysS1, lysK, lysyl-tRNA synthetase, class I [EC:6.1.1.6]"
+324,"K14465  K14465, succinate semialdehyde reductase (NADPH) [EC:1.1.1.-]"
+325,"COG0477, Multidrug transporter protein MdtP"
+327,"K06972  pepO, PITRM1, PreP, CYM1, presequence protease [EC:3.4.24.-]"
+328,"COG3832, putative protein"
+329,"K01250  rihA, pyrimidine-specific ribonucleoside hydrolase [EC:3.2.2.-]"
+330,"K01918  panC, panC, pantoate--beta-alanine ligase [EC:6.3.2.1]"
+334,"K01126  glpQ, E3.1.4.46, glpQ, ugpQ, glycerophosphoryl diester phosphodiesterase [EC:3.1.4.46]"
+341,"K01633  folB, folB, 7,8-dihydroneopterin aldolase/epimerase/oxygenase [EC:4.1.2.25 5.1.99.8 1.13.11.81]"
+342,"K09007  folE, folE2, GTP cyclohydrolase IB [EC:3.5.4.16]"
+343,"K06972  ftsH, PITRM1, PreP, CYM1, presequence protease [EC:3.4.24.-]"
+344,"K00760  hpt, hprT, hpt, HPRT1, hypoxanthine phosphoribosyltransferase [EC:2.4.2.8]"
+345,"K04075  tilS, tilS, mesJ, tRNA(Ile)-lysidine synthase [EC:6.3.4.19]"
+347,"K16298  SCPL-IV, serine carboxypeptidase-like clade IV [EC:3.4.16.-]"
+349,"K18569  yhaX, ywpJ, thnH, hydrolase [EC:3.1.3.-]"
+350,"K01875  serS, SARS, serS, seryl-tRNA synthetase [EC:6.1.1.11]"
+351,"K04518  pheA, pheA2, prephenate dehydratase [EC:4.2.1.51]"
+352,"K02439  glpE, glpE, thiosulfate sulfurtransferase [EC:2.8.1.1]"
+353,"K02773  amiB2, gatA, gatA, sgcA, galactitol PTS system EIIA component [EC:2.7.1.200]"
+354,"K15525  mshB, mshB, N-acetyl-1-D-myo-inositol-2-amino-2-deoxy-alpha-D-glucopyranoside deacetylase [EC:3.5.1.103]"
+356,"K22297  furA, furA, Fur family transcriptional regulator, stress-responsive regulator"
+357,"K01835  pgm, pgm, phosphoglucomutase [EC:5.4.2.2]"
+358,"K23463  aldH1, tgnC, (Z)-2-((N-methylformamido)methylene)-5-hydroxybutyrolactone dehydrogenase [EC:1.2.1.-]"
+362,"K21064  ycsE, yidA, yitU, ycsE, yitU, ywtE, 5-amino-6-(5-phospho-D-ribitylamino)uracil phosphatase [EC:3.1.3.104]"
+363,"K00024  mdh, mdh, malate dehydrogenase [EC:1.1.1.37]"
+364,"K00847  deoK, scrK, E2.7.1.4, scrK, fructokinase [EC:2.7.1.4]"
+365,"COG2233, Putative pyrimidine permease RutG"
+368,Protein YceI
+369,"K00262  gdhA, E1.4.1.4, gdhA, glutamate dehydrogenase (NADP+) [EC:1.4.1.4]"
+370,"K08691  mcl1, mcl, malyl-CoA/(S)-citramalyl-CoA lyase [EC:4.1.3.24 4.1.3.25]"
+373,"K05837  rodA, rodA, mrdB, rod shape determining protein RodA"
+374,"K05515  pbpA, mrdA, penicillin-binding protein 2 [EC:3.4.16.4]"
+375,"K12132  pknD, prkC, stkP, eukaryotic-like serine/threonine-protein kinase [EC:2.7.11.1]"
+376,"K12132  pknD, prkC, stkP, eukaryotic-like serine/threonine-protein kinase [EC:2.7.11.1]"
+377,"K01657  trpG, trpE, anthranilate synthase component I [EC:4.1.3.27]"
+378,Cell division protein CrgA
+380,"K09565  cypB, PPIF, peptidyl-prolyl isomerase F (cyclophilin D) [EC:5.2.1.8]"
+382,"K01250  rihA, rihA, pyrimidine-specific ribonucleoside hydrolase [EC:3.2.2.-]"
+383,queuosine precursor transporter
+388,"COG3266, putative protein"
+389,"K02469  gyrA, gyrA, DNA gyrase subunit A [EC:5.6.2.2]"
+390,"K02469  gyrB, gyrA, DNA gyrase subunit A [EC:5.6.2.2]"
+392,"K03629  recF, recF, DNA replication and repair protein RecF"
+393,"K02338  dnaN, dnaN, DNA polymerase III subunit beta [EC:2.7.7.7]"
+394,"K02313  dnaA, dnaA, chromosomal replication initiator protein"
+395,"K02914  rpmH, RP-L34, MRPL34, rpmH, large subunit ribosomal protein L34"
+396,"K03536  rnpA, rnpA, ribonuclease P protein component [EC:3.1.26.5]"
+397,Putative membrane protein insertion efficiency factor
+398,"K03217  yidC, yidC, spoIIIJ, OXA1, ccfA, YidC/Oxa1 family membrane protein insertase"
+399,RNA-binding protein KhpB
+400,"K14374  rsmG, aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+401,"K03496  soj, parA, soj, chromosome partitioning protein"
+402,"K03671  trxA, trxA, thioredoxin 1"
+404,"K03980  murJ, murJ, mviN, putative peptidoglycan lipid II flippase"
+405,"K00974  cca, cca, tRNA nucleotidyltransferase (CCA-adding enzyme) [EC:2.7.7.72 3.1.3.- 3.1.4.-]"
+406,"K01858  ino1, INO1, ISYNA1, myo-inositol-1-phosphate synthase [EC:5.5.1.4]"
+409,"K20609  apeB, sgcX, putative aminopeptidase [EC:3.4.11.-]"
+412,"K02990  rpsF, RP-S6, MRPS6, rpsF, small subunit ribosomal protein S6"
+413,"K03111  ssb, ssb, single-strand DNA-binding protein"
+414,"K02963  rpsR, RP-S18, MRPS18, rpsR, small subunit ribosomal protein S18"
+415,"K02939  rplI, RP-L9, MRPL9, rplI, large subunit ribosomal protein L9"
+416,"K15784  doeB, doeB, N2-acetyl-L-2,4-diaminobutanoate deacetylase [EC:3.5.1.125]"
+418,"K05844  rimK, rimK, ribosomal protein S6--L-glutamate ligase [EC:6.3.2.-]"
+419,"K03722  dnaB, dinG, ATP-dependent DNA helicase DinG [EC:5.6.2.3]"
+420,"K00864  glpK, glpK, GK, glycerol kinase [EC:2.7.1.30]"
+421,"K00112  glpD2, glpB, glycerol-3-phosphate dehydrogenase subunit B [EC:1.1.5.3]"
+423,"K22293  rspR, rspR, GntR family transcriptional regulator, rspAB operon transcriptional repressor"
+424,"K06518  cidA, cidA, holin-like protein"
+425,"COG1346, Inner membrane protein YohK"
+428,Sodium/proton-dependent alanine carrier protein
+430,Pimeloyl-[acyl-carrier protein] methyl ester esterase
+431,"K01760  mdeA, metC, metC, cysteine-S-conjugate beta-lyase [EC:4.4.1.13]"
+432,N-substituted formamide deformylase
+438,"K22769  desA3, desA3, NADPH-dependent stearoyl-CoA 9-desaturase [EC:1.14.19.-]"
+440,"K03828  yjgM, putative acetyltransferase [EC:2.3.1.-]"
+444,"K03828  yjgM, putative acetyltransferase [EC:2.3.1.-]"
+447,"K03529  smc, smc, chromosome segregation protein"
+453,"K12632  pac, pac, puromycin N-acetyltransferase [EC:2.3.-.-]"
+454,"K01425  glsA, glsA, GLS, glutaminase [EC:3.5.1.2]"
+456,"K05555  yhfK, actIV, cyclase [EC:4.-.-.-]"
+458,"COG1120, putative siderophore transport system ATP-binding protein YusV"
+459,"K25027  btuC, yfhA, btuC, cobalamin transport system permease protein"
+460,"K25027  hmuU, btuC, fepD, feuB, btuC, cobalamin transport system permease protein"
+462,"COG0745, putative transcriptional regulatory protein TcrX"
+463,"COG0583, Lysine export transcriptional regulatory protein LysG"
+464,"K06895  argO, lysE, lysE, argO, L-lysine exporter family protein LysE/ArgO"
+465,"COG1132, putative ABC transporter ATP-binding protein YwjA"
+468,"K25028  btuD, btuD, cobalamin transport system ATP-binding protein [EC:7.6.2.8]"
+471,"K20078  pnoA, nmoA, staP, cytochrome P450 StaP [EC:1.13.12.-]"
+473,"K16559  exoK, endo-1,3-1,4-beta-glycanase ExoK [EC:3.2.1.-]"
+474,"K03212  rlmC, rumB, 23S rRNA (uracil747-C5)-methyltransferase [EC:2.1.1.189]"
+477,"K06131  clsA, clsA_B, cardiolipin synthase A/B [EC:2.7.8.-]"
+480,"COG1132, putative ABC transporter ATP-binding protein"
+481,"K24708  K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+484,"K24708  yknY, K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+488,"K03327  mdtK, TC.MATE, SLC47A, norM, mdtK, dinF, multidrug resistance protein, MATE family"
+492,"K01653  ilvG, E2.2.1.6S, ilvH, ilvN, acetolactate synthase I/III small subunit [EC:2.2.1.6]"
+496,"K00128  thcA, ALDH, aldehyde dehydrogenase (NAD+) [EC:1.2.1.3]"
+497,"K23259  adh, adh, isopropanol dehydrogenase (NADP+) [EC:1.1.1.80]"
+502,"K07213  copZ, ATOX1, ATX1, copZ, golB, copper chaperone"
+503,"K21600  ricR, csoR, ricR, CsoR family transcriptional regulator, copper-sensing transcriptional repressor"
+504,"K18701  arsC, arsC, arsenate-mycothiol transferase [EC:2.8.4.2]"
+505,"K04781  dhbC, menF, mbtI, irp9, ybtS, salicylate synthetase [EC:5.4.4.2 4.2.99.21]"
+507,"K06941  rlmN, rlmN, 23S rRNA (adenine2503-C2)-methyltransferase [EC:2.1.1.192]"
+509,"K13832  aroQ, aroDE, DHQ-SDH, 3-dehydroquinate dehydratase / shikimate dehydrogenase [EC:4.2.1.10 1.1.1.25]"
+510,"K03672  trxC, trxC, thioredoxin 2 [EC:1.8.1.8]"
+511,"K01823  idi, idi, IDI, isopentenyl-diphosphate Delta-isomerase [EC:5.3.3.2]"
+512,"COG0142, (2E,6E)-farnesyl diphosphate synthase"
+513,"K02291  crtB, crtB, 15-cis-phytoene synthase [EC:2.5.1.32]"
+514,"K10209  crtN, crtN, 4,4'-diapophytoene desaturase [EC:1.3.8.2]"
+515,"K23155  crtEb, crtEb, lycopene elongase/hydratase (flavuxanthin-forming) [EC:2.5.1.149]"
+516,Putative C(50) carotenoid beta-cyclase subunit A
+517,C(50) beta-cyclic carotenoids biosynthesis protein LbtBC
+519,Zinc chaperone AztD
+521,"K10764  metZ, O-succinylhomoserine sulfhydrylase [EC:2.5.1.-]"
+522,"K01739  metB, metB, cystathionine gamma-synthase [EC:2.5.1.48]"
+524,"K22363  xecA1, etnE, 2-hydroxypropyl-CoM lyase [EC:4.4.1.23]"
+527,"K06895  lysE, lysE, argO, L-lysine exporter family protein LysE/ArgO"
+528,"COG0583, HTH-type transcriptional regulator LysG"
+531,"K19746  dauA, dauA, D-arginine dehydrogenase [EC:1.4.99.6]"
+533,"K03523  bioY, bioY, biotin transport system substrate-specific component"
+534,"K24708  uup, bioM, K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+535,"K16783  bioN, bioN, biotin transport system permease protein"
+536,"K12952  ctpE, ctpE, cation-transporting P-type ATPase E [EC:7.2.2.-]"
+542,"K01756  purB, purB, ADSL, adenylosuccinate lyase [EC:4.3.2.2]"
+544,"K10806  paaI, yciA, acyl-CoA thioesterase YciA [EC:3.1.2.-]"
+545,"K01912  paaK, paaK, phenylacetate-CoA ligase [EC:6.2.1.30]"
+546,"K22108  kstR2, kstR2, TetR/AcrR family transcriptional regulator, cholesterol catabolism regulator"
+548,"K07516  fhmpcd1, fadN, 3-hydroxyacyl-CoA dehydrogenase [EC:1.1.1.35]"
+549,"K02618  paaZ, paaZ, oxepin-CoA hydrolase / 3-oxo-5,6-dehydrosuberyl-CoA semialdehyde dehydrogenase [EC:3.3.2.12 1.2.1.91]"
+551,"K01579  panD, panD, aspartate 1-decarboxylase [EC:4.1.1.11]"
+553,"K01715  crt, crt, enoyl-CoA hydratase [EC:4.2.1.17]"
+554,"K07823  pcaF, paaJ, pcaF, 3-oxoadipyl-CoA thiolase [EC:2.3.1.174]"
+555,"K15016  bbsH, echA8, K15016, enoyl-CoA hydratase / 3-hydroxyacyl-CoA dehydrogenase [EC:4.2.1.17 1.1.1.35]"
+556,"K12145  paaE, hyfJ, hydrogenase-4 component J [EC:1.-.-.-]"
+557,"K02612  paaD, paaD, ring-1,2-phenylacetyl-CoA epoxidase subunit PaaD"
+558,"K02611  paaC, paaC, ring-1,2-phenylacetyl-CoA epoxidase subunit PaaC [EC:1.14.13.149]"
+559,"K02610  paaB, paaB, ring-1,2-phenylacetyl-CoA epoxidase subunit PaaB"
+560,"K02611  paaA, paaC, ring-1,2-phenylacetyl-CoA epoxidase subunit PaaC [EC:1.14.13.149]"
+563,"K21602  yiaJ, xynR, yiaJ, IclR family transcriptional regulator, carbohydrate utilization repressor"
+564,"K03823  pat, pat, bar, phosphinothricin acetyltransferase [EC:2.3.1.183]"
+565,"K05710  hcaC, hcaC, 3-phenylpropionate/trans-cinnamate dioxygenase ferredoxin component"
+566,"K00529  bedA, camA, hcaD, 3-phenylpropionate/trans-cinnamate dioxygenase ferredoxin reductase component [EC:1.18.1.3]"
+567,"K08997  ydiU, selO, SELENOO, selO, protein adenylyltransferase [EC:2.7.7.108]"
+568,"COG3971, 2-oxo-hept-4-ene-1,7-dioate hydratase"
+570,"K00151  hpcC, hpaE, hpcC, 5-carboxymethyl-2-hydroxymuconic-semialdehyde dehydrogenase [EC:1.2.1.60]"
+573,"COG1167, 2-aminoadipate transaminase"
+575,"K01644  citE, citE, citrate lyase subunit beta / citryl-CoA lyase [EC:4.1.3.34]"
+576,"K06215  pdxS, pdxS, pdx1, pyridoxal 5'-phosphate synthase pdxS subunit [EC:4.3.3.6]"
+577,"K00259  ald, ald, alanine dehydrogenase [EC:1.4.1.1]"
+578,"K11474  glcC, glcC, GntR family transcriptional regulator, glc operon transcriptional activator"
+579,"COG1620, L-lactate permease"
+580,"COG0247, Lactate utilization protein A"
+581,"COG1139, Lactate utilization protein B"
+582,"COG1556, Lactate utilization protein C"
+591,"K00571  hsdM, E2.1.1.72, site-specific DNA-methyltransferase (adenine-specific) [EC:2.1.1.72]"
+594,4-chlorobenzoyl coenzyme A dehalogenase-2
+595,"K22818  mmgC, acdA, fadE26, 3-oxocholest-4-en-26-oyl-CoA dehydrogenase alpha subunit [EC:1.3.99.-]"
+596,"K12508  fcs, fcs, feruloyl-CoA synthase [EC:6.2.1.34]"
+597,"K07509  fadA6, HADHB, acetyl-CoA acyltransferase [EC:2.3.1.16]"
+600,"K18476  tetR, tetR, TetR/AcrR family transcriptional regulator, tetracycline repressor protein"
+601,"K11076  potG, potG, spuF, putrescine transport system ATP-binding protein [EC:7.6.2.16]"
+603,"K02064  thiB, thiB, tbpA, thiamine transport system substrate-binding protein"
+605,"K01235  aguA, aguA, alpha-glucuronidase [EC:3.2.1.139]"
+609,"K03704  cspA, cspA, cold shock protein"
+610,NADH:FMN oxidoreductase
+612,"K04762  hslR, hslR, ribosome-associated heat shock protein Hsp15"
+613,"K00013  hisD, hisD, histidinol dehydrogenase [EC:1.1.1.23]"
+615,"K01069  gloB, gloB, gloC, HAGH, hydroxyacylglutathione hydrolase [EC:3.1.2.6]"
+618,"K02902  rpmB, RP-L28, MRPL28, rpmB, large subunit ribosomal protein L28"
+619,"COG0267, Large ribosomal subunit protein bL33B"
+620,"K02954  rpsN, RP-S14, MRPS14, rpsN, small subunit ribosomal protein S14"
+621,"COG0776, DNA-binding protein HU 1"
+625,"K01772  efeB, hemH, FECH, protoporphyrin/coproporphyrin ferrochelatase [EC:4.98.1.1 4.99.1.9]"
+628,Thiol-disulfide oxidoreductase ResA
+629,"K00230  hemG, hemG, menaquinone-dependent protoporphyrinogen oxidase [EC:1.3.5.3]"
+631,"K01494  dcd, dcd, dCTP deaminase [EC:3.5.4.13]"
+633,inorganic carbon transporter subunit DabB
+635,"K05568  mrpD, mnhD, mrpD, multicomponent Na+:H+ antiporter subunit D"
+640,"K00824  dat, D-alanine transaminase [EC:2.6.1.21]"
+641,"K03529  smc, smc, chromosome segregation protein"
+643,"K04043  dnaK, dnaK, HSPA9, molecular chaperone DnaK"
+644,"COG0576, Protein GrpE"
+645,"K03686  dnaJ, cbpA, dnaJ, molecular chaperone DnaJ"
+648,"K03439  trmB, trmB, METTL1, TRM8, tRNA (guanine-N7-)-methyltransferase [EC:2.1.1.33]"
+652,"K10041  glnQ, peb1C, glnQ, aspartate/glutamate/glutamine transport system ATP-binding protein [EC:7.4.2.1]"
+653,"COG0765, Glutamate/aspartate import permease protein GltK"
+654,"K10036  glnH, glnH, glutamine transport system substrate-binding protein"
+657,"K03695  clpB, clpB, ATP-dependent Clp protease ATP-binding subunit ClpB"
+662,"K12410  cobB, npdA, NAD-dependent deacetylase [EC:2.3.1.286]"
+664,"K01933  purM, purM, phosphoribosylformylglycinamidine cyclo-ligase [EC:6.3.3.1]"
+665,"K00764  purF, purF, PPAT, amidophosphoribosyltransferase [EC:2.4.2.14]"
+671,"K11618  liaR, liaR, two-component system, NarL family, response regulator LiaR"
+673,"K01945  purD, purD, phosphoribosylamine---glycine ligase [EC:6.3.4.13]"
+674,"COG1132, putative ABC transporter ATP-binding protein YwjA"
+676,"COG0744, Penicillin-binding protein 1A/1B"
+680,"K10914  crp, crp, CRP/FNR family transcriptional regulator, cyclic AMP receptor protein"
+683,"K07979  ytrA, ytrA, GntR family transcriptional regulator"
+684,"K01907  acsA, AACS, acsA, acetoacetyl-CoA synthetase [EC:6.2.1.16]"
+685,"COG0177, Ultraviolet N-glycosylase/AP lyase"
+686,"K18568  nudL, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+692,"K03727  yprA, helY, ATP-dependent RNA helicase HelY [EC:3.6.4.-]"
+694,"K24116  trhO, scmK, N-acetyl-S-(2-succino)cysteine monooxygenase [EC:1.14.-.-]"
+695,"K02493  prmC, hemK, prmC, HEMK, release factor glutamine methyltransferase [EC:2.1.1.297]"
+696,"K03169  topA, topB, DNA topoisomerase III [EC:5.6.2.1]"
+697,"K01524  ppx, ppx-gppA, exopolyphosphatase / guanosine-5'-triphosphate,3'-diphosphate pyrophosphatase [EC:3.6.1.11 3.6.1.40]"
+698,"COG1082, putative protein"
+699,"K00286  proC, proC, pyrroline-5-carboxylate reductase [EC:1.5.1.2]"
+700,"K03499  ktrA, trkA, ktrA, ktrC, trk/ktr system potassium uptake protein"
+701,"K03498  ktrB, trkH, trkG, ktrB, ktrD, trk/ktr system potassium uptake protein"
+702,"K04768  acuC, acuC, acetoin utilization protein AcuC"
+709,"K02548  menA, menA, 1,4-dihydroxy-2-naphthoate polyprenyltransferase [EC:2.5.1.74]"
+710,"K01911  menE, menE, o-succinylbenzoate---CoA ligase [EC:6.2.1.26]"
+711,Aspartate/alanine antiporter
+712,"K01661  menB, menB, naphthoate synthase [EC:4.1.3.36]"
+713,Dipeptidyl aminopeptidase BI
+714,"K06901  pbuG, pbuG, azgA, ghxP, ghxQ, adeQ, adenine/guanine/hypoxanthine permease"
+715,"COG1522, HTH-type transcriptional regulator AldR"
+716,"K00166  bkdA, BCKDHA, bkdA1, 2-oxoisovalerate dehydrogenase E1 component alpha subunit [EC:1.2.4.4]"
+717,"K00166  bkdB, BCKDHA, bkdA1, 2-oxoisovalerate dehydrogenase E1 component alpha subunit [EC:1.2.4.4]"
+718,"K00627  pdhC, DLAT, aceF, pdhC, pyruvate dehydrogenase E2 component (dihydrolipoamide acetyltransferase) [EC:2.3.1.12]"
+720,"K02551  menD, menD, 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase [EC:2.2.1.9]"
+721,"K21401  menJ, menJ, menaquinone-9 beta-reductase [EC:1.3.99.38]"
+722,"COG0142, Nonaprenyl diphosphate synthase"
+725,"K05786  rarD, rarD, chloramphenicol-sensitive protein RarD"
+726,"K08225  entS, entS, MFS transporter, ENTS family, enterobactin (siderophore) exporter"
+728,"COG1666, Nucleotide-binding protein"
+731,"K01697  cds1, cbs, CBS, cystathionine beta-synthase [EC:4.2.1.22]"
+732,"K01739  metB, metB, cystathionine gamma-synthase [EC:2.5.1.48]"
+733,"K01468  hutI, hutI, AMDHD1, imidazolonepropionase [EC:3.5.2.7]"
+735,"K03579  deaD, hrpB, ATP-dependent helicase HrpB [EC:3.6.4.13]"
+739,"K00075  murB, murB, UDP-N-acetylmuramate dehydrogenase [EC:1.3.1.98]"
+740,"K00133  asd, asd, aspartate-semialdehyde dehydrogenase [EC:1.2.1.11]"
+742,"K00287  folA, DHFR, folA, dihydrofolate reductase [EC:1.5.1.3]"
+743,"K00560  thyA, thyA, TYMS, thymidylate synthase [EC:2.1.1.45]"
+746,"K15520  mshD, mshD, mycothiol synthase [EC:2.3.1.189]"
+749,Peroxynitrite isomerase
+750,"K06980  ygfZ, ygfZ, tRNA-modifying protein YgfZ"
+752,"K21071  pfp, pfk, pfp, ATP-dependent phosphofructokinase / diphosphate-dependent phosphofructokinase [EC:2.7.1.11 2.7.1.90]"
+755,"K07692  degU, degU, two-component system, NarL family, response regulator DegU"
+756,"K00813  aspC1, aspC, aspartate aminotransferase [EC:2.6.1.1]"
+757,"K03073  secE, secE, preprotein translocase subunit SecE"
+758,"K02601  nusG, nusG, transcription termination/antitermination protein NusG"
+759,"K02867  rplK, RP-L11, MRPL11, rplK, large subunit ribosomal protein L11"
+760,"K02863  rplA, RP-L1, MRPL1, rplA, large subunit ribosomal protein L1"
+761,"K02864  rplJ, RP-L10, MRPL10, rplJ, large subunit ribosomal protein L10"
+762,"K02935  rplL, RP-L7, MRPL12, rplL, large subunit ribosomal protein L7/L12"
+763,"K03043  rpoB, rpoB, DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]"
+764,"K03046  rpoC, rpoC, DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]"
+765,"K02950  rpsL, RP-S12, MRPS12, rpsL, small subunit ribosomal protein S12"
+766,"K02992  rpsG, RP-S7, MRPS7, rpsG, small subunit ribosomal protein S7"
+767,"K02355  fusA, fusA, GFM, EFG, elongation factor G"
+768,"K02358  tuf, tuf, TUFM, elongation factor Tu"
+771,"K02946  rpsJ, RP-S10, MRPS10, rpsJ, small subunit ribosomal protein S10"
+772,"K02906  rplC, RP-L3, MRPL3, rplC, large subunit ribosomal protein L3"
+773,"K02926  rplD, RP-L4, MRPL4, rplD, large subunit ribosomal protein L4"
+774,"K02892  rplW, RP-L23, MRPL23, rplW, large subunit ribosomal protein L23"
+775,"K02886  rplB, RP-L2, MRPL2, rplB, large subunit ribosomal protein L2"
+776,"K02965  rpsS, RP-S19, rpsS, small subunit ribosomal protein S19"
+777,"K02890  rplV, RP-L22, MRPL22, rplV, large subunit ribosomal protein L22"
+778,"K02982  rpsC, RP-S3, rpsC, small subunit ribosomal protein S3"
+779,"K02878  rplP, RP-L16, MRPL16, rplP, large subunit ribosomal protein L16"
+780,"K02904  rpmC, RP-L29, rpmC, large subunit ribosomal protein L29"
+781,"K02961  rpsQ, RP-S17, MRPS17, rpsQ, small subunit ribosomal protein S17"
+782,"K02874  rplN, RP-L14, MRPL14, rplN, large subunit ribosomal protein L14"
+783,"K02895  rplX, RP-L24, MRPL24, rplX, large subunit ribosomal protein L24"
+784,"K02931  rplE, RP-L5, MRPL5, rplE, large subunit ribosomal protein L5"
+785,"K02994  rpsH, RP-S8, rpsH, small subunit ribosomal protein S8"
+786,"K02933  rplF, RP-L6, MRPL6, rplF, large subunit ribosomal protein L6"
+787,"K02881  rplR, RP-L18, MRPL18, rplR, large subunit ribosomal protein L18"
+790,"K02876  rplO, RP-L15, MRPL15, rplO, large subunit ribosomal protein L15"
+791,"K03076  secY, secY, preprotein translocase subunit SecY"
+792,"K18532  adk, AK6, FAP7, adenylate kinase [EC:2.7.4.3]"
+793,"K01265  map, map, methionyl aminopeptidase [EC:3.4.11.18]"
+794,"K02518  infA, infA, translation initiation factor IF-1"
+795,"K02919  rpmJ, RP-L36, MRPL36, rpmJ, large subunit ribosomal protein L36"
+796,"K02952  rpsM, RP-S13, rpsM, small subunit ribosomal protein S13"
+797,"K02948  rpsK, RP-S11, MRPS11, rpsK, small subunit ribosomal protein S11"
+798,"K03046  rpoA, rpoC, DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]"
+799,"K02879  rplQ, RP-L17, MRPL17, rplQ, large subunit ribosomal protein L17"
+800,"K06173  truA, truA, PUS1, tRNA pseudouridine38-40 synthase [EC:5.4.99.12]"
+801,"K02871  rplM, RP-L13, MRPL13, rplM, large subunit ribosomal protein L13"
+802,"K02996  rpsI, RP-S9, MRPS9, rpsI, small subunit ribosomal protein S9"
+803,"K23753  ppk2, ppk2, pap, AMP-polyphosphate phosphotransferase [EC:2.7.4.33]"
+804,"K03431  glmM, glmM, phosphoglucosamine mutase [EC:5.4.2.10]"
+806,"K03282  mscL, mscL, large conductance mechanosensitive channel"
+807,"K00867  coaA, coaA, type I pantothenate kinase [EC:2.7.1.33]"
+808,"K00820  glmS, glmS, GFPT, glutamine---fructose-6-phosphate transaminase (isomerizing) [EC:2.6.1.16]"
+809,"K16559  glgX, exoK, endo-1,3-1,4-beta-glycanase ExoK [EC:3.2.1.-]"
+811,"K00997  acpS, acpS, holo-[acyl-carrier protein] synthase [EC:2.7.8.7]"
+812,"K23997  nnr, nnr, ADP-dependent NAD(P)H-hydrate dehydratase / NAD(P)H-hydrate epimerase [EC:4.2.1.136 5.1.99.6]"
+813,"K25317  alr, alr, bsrV, amino-acid racemase [EC:5.1.1.10]"
+815,"COG1214, putative protein"
+816,"K03789  rimI, rimI, [ribosomal protein S18]-alanine N-acetyltransferase [EC:2.3.1.266]"
+817,"K25706  tsaD, tsaD, tRNA N6-adenosine threonylcarbamoyltransferase [EC:2.3.1.234]"
+822,"K00001  E1.1.1.1, adh, alcohol dehydrogenase [EC:1.1.1.1]"
+823,"K06048  gshA, ybdK, glutamate---cysteine ligase / carboxylate-amine ligase [EC:6.3.2.2 6.3.-.-]"
+825,"K25282  yclQ, yclQ, ceuA, iron-siderophore transport system substrate-binding protein"
+826,Petrobactin import system permease protein FatD
+827,Petrobactin import system permease protein FatC
+828,"K12953  fatE, ctpF, cation-transporting P-type ATPase F [EC:7.2.2.-]"
+829,"K04078  groES, groES, HSPE1, chaperonin GroES"
+830,"K11102  gltP, gltP, gltT, proton glutamate symport protein"
+831,"K00088  guaB, IMPDH, guaB, IMP dehydrogenase [EC:1.1.1.205]"
+832,"K12145  hyfJ, hydrogenase-4 component J [EC:1.-.-.-]"
+835,"K01951  guaA, guaA, GMPS, GMP synthase (glutamine-hydrolysing) [EC:6.3.5.2]"
+839,"K01934  MTHFS, 5-formyltetrahydrofolate cyclo-ligase [EC:6.3.3.2]"
+840,"K03790  rimJ, rimJ, [ribosomal protein S5]-alanine N-acetyltransferase [EC:2.3.1.267]"
+846,"K00813  aspC, aspC, aspartate aminotransferase [EC:2.6.1.1]"
+847,"COG2326, AMP/ADP-polyphosphate phosphotransferase"
+848,"K03601  xseB, xseA, exodeoxyribonuclease VII large subunit [EC:3.1.11.6]"
+849,"K03601  xseA, xseA, exodeoxyribonuclease VII large subunit [EC:3.1.11.6]"
+851,"K03527  ispH2, ispH, lytB, 4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase [EC:1.17.7.4]"
+854,"K23518  ymdB, MACROD, ymdB, O-acetyl-ADP-ribose deacetylase [EC:3.1.1.106]"
+855,18 kDa heat shock protein
+856,"COG5032, Protein"
+858,"K15634  gpmB, gpmB, 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase [EC:5.4.2.11]"
+860,"K19745  yfmJ, curA, acuI, acrylyl-CoA reductase (NADPH) [EC:1.3.1.-]"
+862,"COG1764, Organic hydroperoxide resistance protein OhrA"
+864,"K18118  aarC, cat1, succinyl-CoA:acetate CoA-transferase [EC:2.8.3.18]"
+865,"K04794  arfB, PTH2, PTRH2, peptidyl-tRNA hydrolase, PTH2 family [EC:3.1.1.29]"
+867,"K20426  ubiB, acbU, 1-epi-valienol-7-phosphate kinase [EC:2.7.-.-]"
+869,"K07862  sstT, sstT, serine/threonine transporter"
+870,"K00767  nadC, nadC, QPRT, nicotinate-nucleotide pyrophosphorylase (carboxylating) [EC:2.4.2.19]"
+871,"K03517  nadA, nadA, quinolinate synthase [EC:2.5.1.72]"
+872,"COG1051, ADPR responsive transcriptional repressor NtrR"
+873,"K07012  ybfF, cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+874,"COG2354, Inner membrane protein YedI"
+875,"K02217  ftnA, ftnA, ftn, ferritin [EC:1.16.3.2]"
+878,"K03386  tpx, PRDX2_4, ahpC, peroxiredoxin 2/4 [EC:1.11.1.24]"
+880,"K07238  zupT, TC.ZIP, zupT, ZRT3, ZIP2, zinc transporter, ZIP family"
+881,"COG0747, putative lipoprotein"
+884,"K13892  gsiA, gsiA, glutathione transport system ATP-binding protein"
+885,"K06207  bipA, typA, bipA, GTP-binding protein"
+886,Ferredoxin
+887,"K05825  LYSN, 2-aminoadipate transaminase [EC:2.6.1.-]"
+888,"COG0372, Citrate synthase 1"
+889,"K05822  dapD, dapH, dapD, tetrahydrodipicolinate N-acetyltransferase [EC:2.3.1.89]"
+890,"K01439  dapE, dapE, succinyl-diaminopimelate desuccinylase [EC:3.5.1.18]"
+891,"K10007  gluD, gluD, glutamate transport system permease protein"
+892,"K10006  gluC, gluC, glutamate transport system permease protein"
+893,"K10005  gluB, gluB, glutamate transport system substrate-binding protein"
+894,"K10038  gluA, glnQ, glutamine transport system ATP-binding protein [EC:7.4.2.1]"
+899,"K03117  tatB, tatB, sec-independent protein translocase protein TatB"
+900,"K03593  mrp, mrp, NUBPL, ATP-binding protein involved in chromosome partitioning"
+905,"K01262  pepPI, pepP, Xaa-Pro aminopeptidase [EC:3.4.11.9]"
+906,"K07053  phnPP, E3.1.3.97, 3',5'-nucleoside bisphosphate phosphatase [EC:3.1.3.97]"
+907,"K12573  rnr, rnr, vacB, ribonuclease R [EC:3.1.13.1]"
+909,"COG1309, HTH-type transcriptional activator FasR"
+910,"K02492  hemA, hemA, glutamyl-tRNA reductase [EC:1.2.1.70]"
+911,"K01599  hemE, hemE, UROD, uroporphyrinogen decarboxylase [EC:4.1.1.37]"
+912,"COG1232, Coproporphyrinogen III oxidase"
+913,"K00435  chdC, hemQ, hydrogen peroxide-dependent heme synthase [EC:1.3.98.5]"
+914,"K01772  cpfC, hemH, FECH, protoporphyrin/coproporphyrin ferrochelatase [EC:4.98.1.1 4.99.1.9]"
+915,"K01749  hemC, hemC, HMBS, hydroxymethylbilane synthase [EC:2.5.1.61]"
+919,Branched-chain amino acid permease BrnQ
+920,"K01698  hemB, hemB, ALAD, porphobilinogen synthase [EC:4.2.1.24]"
+921,"K01845  hemL, hemL, glutamate-1-semialdehyde 2,1-aminomutase [EC:5.4.3.8]"
+922,"K02339  polC, dinG, holC, DNA polymerase III subunit chi [EC:2.7.7.7]"
+925,"K03726  rep, helS, ATP-dependent DNA helicase [EC:5.6.2.4]"
+927,"K03426  nudC, E3.6.1.22, NUDT12, nudC, NAD+ diphosphatase [EC:3.6.1.22]"
+928,"K03726  uvrD2, helS, ATP-dependent DNA helicase [EC:5.6.2.4]"
+931,"COG3480, putative protein YlbL"
+934,"COG1842, Membrane-associated protein Vipp1"
+936,"K08372  pepD, pepD, putative serine protease PepD [EC:3.4.21.-]"
+937,"K18455  mca, bshB1, mca, mycothiol S-conjugate amidase [EC:3.5.1.115]"
+939,"K03216  trmL, trmL, cspR, tRNA (cytidine/uridine-2'-O-)-methyltransferase [EC:2.1.1.207]"
+940,"K03686  dnaJ, dnaJ, molecular chaperone DnaJ"
+942,"K00796  folP, folP, dihydropteroate synthase [EC:2.5.1.15]"
+943,"K11717  iscS, sufS, cysteine desulfurase / selenocysteine lyase [EC:2.8.1.7 4.4.1.16]"
+944,"K00566  mnmA, mnmA, trmU, tRNA-uridine 2-sulfurtransferase [EC:2.8.1.13]"
+947,"K18991  mtrA, mtrA, AraC family transcriptional regulator, activator of mtrCDE"
+948,Lipoprotein LpqB
+950,"COG1544, Ribosome hibernation promotion factor"
+951,"K02412  secA, fliI, flagellum-specific ATP synthase [EC:7.4.2.8]"
+958,"K18351  pdtaS, vanSAc, two-component system, OmpR family, sensor histidine kinase VanS [EC:2.7.13.3]"
+959,Transcriptional regulator WhiB1
+962,"K02520  infC, infC, MTIF3, translation initiation factor IF-3"
+963,"K02916  rpmI, RP-L35, MRPL35, rpmI, large subunit ribosomal protein L35"
+964,"K14374  rplT, rlmP, aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+966,"K03574  mutT2, mutT, NUDT15, MTH2, 8-oxo-dGTP diphosphatase [EC:3.6.1.55]"
+968,"K01304  pcp, pcp, pyroglutamyl-peptidase [EC:3.4.19.3]"
+970,"K01890  pheS, FARSB, pheT, phenylalanyl-tRNA synthetase beta chain [EC:6.1.1.20]"
+971,"K01890  pheT, FARSB, pheT, phenylalanyl-tRNA synthetase beta chain [EC:6.1.1.20]"
+973,"K01256  pepN, pepN, aminopeptidase N [EC:3.4.11.2]"
+974,"K00344  qorA, qor, CRYZ, NADPH:quinone reductase [EC:1.6.5.5]"
+975,"K00145  argC, argC, N-acetyl-gamma-glutamyl-phosphate reductase [EC:1.2.1.38]"
+976,"K00620  argJ, argJ, glutamate N-acetyltransferase / amino-acid N-acetyltransferase [EC:2.3.1.35 2.3.1.1]"
+977,"K05828  argB, lysZ, argB, [amino group carrier protein]-L-2-aminoadipate/L-glutamate 6-kinase [EC:2.7.2.17 2.7.2.19]"
+978,"K00821  argD, argD, acetylornithine/N-succinyldiaminopimelate aminotransferase [EC:2.6.1.11 2.6.1.17]"
+979,"K00611  argF, OTC, argF, argI, ornithine carbamoyltransferase [EC:2.1.3.3]"
+980,"K03402  argR, argR, ahrC, transcriptional regulator of arginine metabolism"
+981,"K07002  rpf, RBBP9, serine hydrolase [EC:3.-.-.-]"
+982,"K01940  argG, argG, ASS1, argininosuccinate synthase [EC:6.3.4.5]"
+983,"K01755  argH, argH, ASL, argininosuccinate lyase [EC:4.3.2.1]"
+985,"K01866  tyrS, YARS, tyrS, tyrosyl-tRNA synthetase [EC:6.1.1.1]"
+987,"COG0647, D-glycerol 3-phosphate phosphatase"
+988,"K06442  tlyA, tlyA, 23S rRNA (cytidine1920-2'-O)/16S rRNA (cytidine1409-2'-O)-methyltransferase [EC:2.1.1.226 2.1.1.227]"
+989,"K00858  ppnK, ppnK, NADK, NAD+ kinase [EC:2.7.1.23]"
+990,"K03631  recN, recN, DNA repair protein RecN (Recombination protein N)"
+991,"K01515  nudF, ADP-ribose pyrophosphatase [EC:3.6.1.13 3.6.1.-]"
+992,"K04763  xerD, xerD, integrase/recombinase XerD"
+993,"K01659  gltA, prpC, 2-methylcitrate synthase [EC:2.3.3.5]"
+994,"K25623  prpB, mmgF, ltp2, 17-hydroxy-3-oxo-4-pregnene-20-carboxyl-CoA lyase [EC:4.1.3.-]"
+995,"K01720  prpD2, prpD, 2-methylcitrate dehydratase [EC:4.2.1.79]"
+996,"K22293  rspR, rspR, GntR family transcriptional regulator, rspAB operon transcriptional repressor"
+997,"K01907  acsA, AACS, acsA, acetoacetyl-CoA synthetase [EC:6.2.1.16]"
+999,"K14187  tyrA, tyrA, chorismate mutase / prephenate dehydrogenase [EC:5.4.99.5 1.3.1.12]"
+1000,"K03977  der, engA, der, GTPase"
+1002,Di-/tripeptide transporter
+1003,"K02437  gcvH, gcvH, GCSH, glycine cleavage system H protein"
+1004,"COG1716, Glycogen accumulation regulator GarA"
+1005,"COG0789, putative HTH-type transcriptional regulator"
+1006,"COG1259, putative protein"
+1007,"COG0789, putative HTH-type transcriptional regulator"
+1008,"K01959  pyc, pycA, pyruvate carboxylase subunit A [EC:6.4.1.1]"
+1009,"K17883  mtr, mtr, mycothione reductase [EC:1.8.1.15]"
+1010,"K01897  ACSL, fadD, long-chain acyl-CoA synthetase [EC:6.2.1.3]"
+1011,"K01054  MGLL, acylglycerol lipase [EC:3.1.1.23]"
+1013,"K01626  aroH, E2.5.1.54, aroF, aroG, aroH, 3-deoxy-7-phosphoheptulonate synthase [EC:2.5.1.54]"
+1015,DNA-binding protein
+1016,"COG0142, (2E,6E)-farnesyl diphosphate synthase"
+1017,"K02339  dinB, holC, DNA polymerase III subunit chi [EC:2.7.7.7]"
+1019,"K03925  mraZ, mraZ, transcriptional regulator MraZ"
+1020,"K03438  rsmH, mraW, rsmH, 16S rRNA (cytosine1402-N4)-methyltransferase [EC:2.1.1.199]"
+1021,Cell division protein FtsL
+1022,"K08724  pbpB, pbpB, penicillin-binding protein 2B"
+1023,"K01928  murE, murE, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase [EC:6.3.2.13]"
+1024,"K01929  murF, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase [EC:6.3.2.10]"
+1025,"K01925  murD, murD, UDP-N-acetylmuramoylalanine--D-glutamate ligase [EC:6.3.2.9]"
+1026,"K03588  ftsW, ftsW, spoVE, cell division protein FtsW"
+1027,"K02563  murG, murG, UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase [EC:2.4.1.227]"
+1028,"K01924  murC, murC, UDP-N-acetylmuramate--alanine ligase [EC:6.3.2.8]"
+1029,"K03589  ftsQ, ftsQ, cell division protein FtsQ"
+1030,"K03531  ftsZ, ftsZ, cell division protein FtsZ"
+1032,"COG0325, Pyridoxal phosphate homeostasis protein"
+1033,"K09772  sepF, sepF, cell division inhibitor SepF"
+1035,"COG3599, Cell wall synthesis protein Wag31"
+1036,"K03101  lspA, lspA, signal peptidase II [EC:3.4.23.36]"
+1037,"COG0564, putative RNA pseudouridine synthase"
+1038,"K02339  dnaE1, holC, DNA polymerase III subunit chi [EC:2.7.7.7]"
+1039,"K07738  nrdR, nrdR, transcriptional repressor NrdR"
+1040,"K01265  map, map, methionyl aminopeptidase [EC:3.4.11.18]"
+1042,"K00606  panB, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase [EC:2.1.2.11]"
+1043,"K04568  glnA2, epmA, poxA, elongation factor P--(R)-beta-lysine ligase [EC:6.3.1.-]"
+1044,"K00982  glnE, glnE, [glutamine synthetase] adenylyltransferase / [glutamine synthetase]-adenylyl-L-tyrosine phosphorylase [EC:2.7.7.42 2.7.7.89]"
+1045,"K01915  glnA, glnA1, glnA, GLUL, glutamine synthetase [EC:6.3.1.2]"
+1048,"K03644  lipA, lipA, LIAS, LIP1, LIP5, lipoyl synthase [EC:2.8.1.8]"
+1049,"K03801  lipB, lipB, lipoyl(octanoyl) transferase [EC:2.3.1.181]"
+1053,"K00382  pdhD, DLD, lpd, pdhD, dihydrolipoamide dehydrogenase [EC:1.8.1.4]"
+1054,"K01255  pepA, CARP, pepA, leucyl aminopeptidase [EC:3.4.11.1]"
+1057,"K03086  rpoD, rpoD, RNA polymerase primary sigma factor"
+1059,"K02469  gyrB, gyrA, DNA gyrase subunit A [EC:5.6.2.2]"
+1060,"K22320  oleD, oleD, 2-alkyl-3-oxoalkanoate reductase [EC:1.1.1.412]"
+1061,"K01563  dhmA, dhaA, haloalkane dehalogenase [EC:3.8.1.5]"
+1062,"K22317  oleA, oleA, acyl-CoA:acyl-CoA alkyltransferase [EC:2.3.3.20]"
+1063,"K02298  appC, cyoB, cytochrome o ubiquinol oxidase subunit I [EC:7.1.1.3]"
+1064,"K00425  cydB, cydA, cytochrome bd ubiquinol oxidase subunit I [EC:7.1.1.7]"
+1065,"K18568  uup, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+1066,"K02469  gyrA, gyrA, DNA gyrase subunit A [EC:5.6.2.2]"
+1067,"K01902  sucD, sucD, succinyl-CoA synthetase alpha subunit [EC:6.2.1.5]"
+1072,"K01520  dut, dut, DUT, dUTP pyrophosphatase [EC:3.6.1.23]"
+1076,"K03499  kefC, trkA, trkA, ktrA, ktrC, trk/ktr system potassium uptake protein"
+1077,"K03499  trkA, trkA, ktrA, ktrC, trk/ktr system potassium uptake protein"
+1078,"COG0531, Potassium transporter KimA"
+1079,"K03212  rlmCD, rumB, 23S rRNA (uracil747-C5)-methyltransferase [EC:2.1.1.189]"
+1080,"K01681  acnA, ACO, acnA, aconitate hydratase [EC:4.2.1.3]"
+1081,"K01662  dxs, dxs, 1-deoxy-D-xylulose-5-phosphate synthase [EC:2.2.1.7]"
+1084,"K03886  petC, MQCRA, qcrA, bfcA, petC, menaquinol-cytochrome c reductase iron-sulfur subunit [EC:1.10.2.-]"
+1087,"K00074  fadB, fadJ, paaH, hbd, fadB, mmgB, 3-hydroxybutyryl-CoA dehydrogenase [EC:1.1.1.157]"
+1088,"K03684  rnd, rnd, ribonuclease D [EC:3.1.13.5]"
+1090,"K07305  msrB, msrB, peptide-methionine (R)-S-oxide reductase [EC:1.8.4.12]"
+1092,"K01284  dcp, dcp, peptidyl-dipeptidase Dcp [EC:3.4.15.5]"
+1093,"COG0217, putative transcriptional regulatory protein"
+1094,"K03552  ruvC, hjr, holliday junction resolvase Hjr [EC:3.1.21.10]"
+1095,"K03550  ruvA, ruvA, holliday junction DNA helicase RuvA [EC:5.6.2.4]"
+1097,"K03072  secD, secD, preprotein translocase subunit SecD"
+1098,"K03074  secF, secF, preprotein translocase subunit SecF"
+1099,"COG0317, Bifunctional (p)ppGpp synthase/hydrolase RelA"
+1101,"COG1196, putative protein/MSMEI_2664"
+1102,"K01892  hisS, HARS, hisS, histidyl-tRNA synthetase [EC:6.1.1.21]"
+1103,"COG0531, putative transporter"
+1104,"K09759  aspS, aspC, aspS, nondiscriminating aspartyl-tRNA synthetase [EC:6.1.1.23]"
+1105,"K07560  dtd, dtd, DTD, D-aminoacyl-tRNA deacylase [EC:3.1.1.96]"
+1107,"COG2256, putative AAA domain-containing protein"
+1109,"K02986  rpsD, RP-S4, rpsD, small subunit ribosomal protein S4"
+1111,"K01872  alaS, AARS, alaS, alanyl-tRNA synthetase [EC:6.1.1.7]"
+1112,"K07012  cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+1113,"K00014  aroE, ydiB, aroE, shikimate dehydrogenase [EC:1.1.1.25]"
+1114,"K01736  aroC, aroC, chorismate synthase [EC:4.2.3.5]"
+1115,"K13829  aroK, aroKB, shikimate kinase / 3-dehydroquinate synthase [EC:2.7.1.71 4.2.3.4]"
+1116,"K01735  aroB, aroB, 3-dehydroquinate synthase [EC:4.2.3.4]"
+1117,"K02356  efp, efp, elongation factor P"
+1118,"K03625  nusB, nusB, transcription antitermination protein NusB"
+1119,"K02825  pyrR, pyrR, pyrimidine operon attenuation protein / uracil phosphoribosyltransferase [EC:2.4.2.9]"
+1120,"K00609  pyrB, pyrB, PYR2, aspartate carbamoyltransferase catalytic subunit [EC:2.1.3.2]"
+1122,"K18230  carA, tylC, oleB, carA, srmB, macrolide transport system ATP-binding/permease protein"
+1123,"K01955  carB, carB, CPA2, carbamoyl-phosphate synthase large subunit [EC:6.3.5.5]"
+1124,"K01591  pyrF, pyrF, orotidine-5'-phosphate decarboxylase [EC:4.1.1.23]"
+1125,"COG0099, Integration host factor"
+1126,"K00942  gmk, gmk, GUK1, guanylate kinase [EC:2.7.4.8]"
+1127,"K03046  rpoZ, rpoC, DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]"
+1128,"K13038  coaBC, coaBC, dfp, phosphopantothenoylcysteine decarboxylase / phosphopantothenate---cysteine ligase [EC:4.1.1.36 6.3.2.5]"
+1129,"K00789  metK, metK, MAT, S-adenosylmethionine synthetase [EC:2.5.1.6]"
+1130,"K24017  priA, priA, phosphoribosyl isomerase A [EC:5.3.1.16 5.3.1.24]"
+1131,"K08680  menH, menH, 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase [EC:4.2.99.20]"
+1133,"K01869  leuS, LARS, leuS, leucyl-tRNA synthetase [EC:6.1.1.4]"
+1134,DegV domain-containing protein
+1137,"K02339  holA, holC, DNA polymerase III subunit chi [EC:2.7.7.7]"
+1138,"K02968  rpsT, RP-S20, rpsT, small subunit ribosomal protein S20"
+1140,"K03979  lepA, obgE, cgtA, MTG2, GTPase [EC:3.6.5.-]"
+1143,"K03705  hrcA, hrcA, heat-inducible transcriptional repressor"
+1144,"COG0484, Chaperone protein DnaJ 2"
+1145,"K09761  rsmE, rsmE, 16S rRNA (uracil1498-N3)-methyltransferase [EC:2.1.1.193]"
+1146,"COG1702, PhoH-like protein"
+1147,"K07012  ybeY, cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+1149,"K03595  era, era, ERAL1, GTPase"
+1150,"K01649  leuA, leuA, IMS, 2-isopropylmalate synthase [EC:2.3.3.13]"
+1151,"K21273  uppS, E2.5.1.88, trans,polycis-polyprenyl diphosphate synthase [EC:2.5.1.88]"
+1153,"K00254  pyrD, DHODH, pyrD, dihydroorotate dehydrogenase [EC:1.3.5.2]"
+1154,putative protein
+1155,"K23980  tpdA, tpdA, cysteinylglycine-S-conjugate dipeptidase [EC:3.4.13.23]"
+1156,"COG0316, Protein"
+1157,"K15408  ctaC, coxAC, cytochrome c oxidase subunit I+III [EC:7.1.1.9]"
+1158,"K15408  ctaD, coxAC, cytochrome c oxidase subunit I+III [EC:7.1.1.9]"
+1159,"K15408  ctaF, coxAC, cytochrome c oxidase subunit I+III [EC:7.1.1.9]"
+1160,"K03887  qcrB, MQCRB, qcrB, bfcB, petB, menaquinol-cytochrome c reductase cytochrome b subunit"
+1161,"K03886  qcrA, MQCRA, qcrA, bfcA, petC, menaquinol-cytochrome c reductase iron-sulfur subunit [EC:1.10.2.-]"
+1162,"K03889  qcrC, qcrC, ubiquinol-cytochrome c reductase cytochrome c subunit"
+1163,"K15408  ctaE, coxAC, cytochrome c oxidase subunit I+III [EC:7.1.1.9]"
+1164,"K00766  trpD, trpD, anthranilate phosphoribosyltransferase [EC:2.4.2.18]"
+1169,"K00219  fadH, fadH, 2,4-dienoyl-CoA reductase (NADPH2) [EC:1.3.1.34]"
+1171,"COG0330, putative protein"
+1172,RNA polymerase-binding protein RbpA
+1173,"COG1216, Undecaprenyl-phosphate mannosyltransferase"
+1175,"K03727  helY, helY, ATP-dependent RNA helicase HelY [EC:3.6.4.-]"
+1176,"K03118  tatC, tatC, sec-independent protein translocase protein TatC"
+1177,"K03116  tatA, tatA, sec-independent protein translocase protein TatA"
+1179,"K09565  fkbP, PPIF, peptidyl-prolyl isomerase F (cyclophilin D) [EC:5.2.1.8]"
+1180,"K13571  pafA, pafA, proteasome accessory factor A [EC:6.3.1.19]"
+1181,"K13570  pup, pup, prokaryotic ubiquitin-like protein Pup"
+1183,"K01500  fchA, fchA, methenyltetrahydrofolate cyclohydrolase [EC:3.5.4.9]"
+1184,"K13694  dop, mepS, spr, murein DD-endopeptidase / murein LD-carboxypeptidase [EC:3.4.-.- 3.4.17.13]"
+1185,"K13527  mpa, arc, mpa, proteasome-associated ATPase"
+1187,Putative zinc metalloprotease Rip3
+1188,"K18569  thnH, hydrolase [EC:3.1.3.-]"
+1190,"K15526  mshC, mshC, L-cysteine:1D-myo-inositol 2-amino-2-deoxy-alpha-D-glucopyranoside ligase [EC:6.3.1.13]"
+1191,"K19302  uppP, bcrC, undecaprenyl-diphosphatase [EC:3.6.1.27]"
+1194,"K01439  dapE, dapE, succinyl-diaminopimelate desuccinylase [EC:3.5.1.18]"
+1195,"K15521  mshA, mshA, D-inositol-3-phosphate glycosyltransferase [EC:2.4.1.250]"
+1196,"K25621  htdX, chsH2, 3-oxo-4,17-pregnadiene-20-carboxyl-CoA hydratase alpha subunit [EC:4.2.1.-]"
+1197,"COG1028, 3-oxoacyl-[acyl-carrier-protein] reductase [NADH]"
+1198,"K07509  fadI, HADHB, acetyl-CoA acyltransferase [EC:2.3.1.16]"
+1200,"K16148  glgM, glgM, alpha-maltose-1-phosphate synthase [EC:2.4.1.342]"
+1201,"K00975  glgC, glgC, glucose-1-phosphate adenylyltransferase [EC:2.7.7.27]"
+1202,"K01256  pepN, pepN, aminopeptidase N [EC:3.4.11.2]"
+1203,"K03801  lipM, lipB, lipoyl(octanoyl) transferase [EC:2.3.1.181]"
+1204,"COG0254, Large ribosomal subunit protein bL31B"
+1206,"K24040  ylmA, ecfTA, energy-coupling factor transport system permease/ATP-binding protein [EC:7.-.-.-]"
+1207,"K15781  serB-plsC, putative phosphoserine phosphatase / 1-acylglycerol-3-phosphate O-acyltransferase [EC:3.1.3.3 2.3.1.51]"
+1210,"COG3346, putative SURF1-like protein"
+1211,"COG0488, putative ATP-binding protein YheS"
+1212,"COG2321, putative protein"
+1213,Fe-S protein maturation auxiliary factor SufT
+1214,"K09013  sufC, sufC, Fe-S cluster assembly ATP-binding protein"
+1215,"COG0719, Iron-sulfur cluster assembly SufBD family protein"
+1216,Iron-sulfur cluster assembly SufBD family protein
+1218,"K25028  btuD, btuD, cobalamin transport system ATP-binding protein [EC:7.6.2.8]"
+1220,"K02259  ctaA, COX15, ctaA, heme a synthase [EC:1.17.99.9]"
+1221,"K02257  ctaB, COX10, ctaB, cyoE, heme o synthase [EC:2.5.1.141]"
+1222,"K00615  tkt, E2.2.1.1, tktA, tktB, transketolase [EC:2.2.1.1]"
+1223,"K00616  tal, E2.2.1.2, talA, talB, transaldolase [EC:2.2.1.2]"
+1224,"K01810  pgi, GPI, pgi, glucose-6-phosphate isomerase [EC:5.3.1.9]"
+1225,"K00036  zwf2, G6PD, zwf, glucose-6-phosphate 1-dehydrogenase [EC:1.1.1.49 1.1.1.363]"
+1227,"K03075  secG, secG, preprotein translocase subunit SecG"
+1228,"K01803  tpiA, TPI, tpiA, triosephosphate isomerase (TIM) [EC:5.3.1.1]"
+1229,"K00927  pgk, PGK, pgk, phosphoglycerate kinase [EC:2.7.2.3]"
+1230,"K00134  gapA, gap2, GAPDH, gapA, glyceraldehyde 3-phosphate dehydrogenase (phosphorylating) [EC:1.2.1.12]"
+1231,"K04564  sodA, SOD2, superoxide dismutase, Fe-Mn family [EC:1.15.1.1]"
+1232,"K09762  whiA, whiA, cell division protein WhiA"
+1233,"COG0391, Putative gluconeogenesis factor"
+1234,"COG1660, Nucleotide-binding protein"
+1235,"K03703  uvrC, uvrC, excinuclease ABC subunit C"
+1236,"K01069  gloC, gloB, gloC, HAGH, hydroxyacylglutathione hydrolase [EC:3.1.2.6]"
+1237,"K00598  tam, tam, trans-aconitate 2-methyltransferase [EC:2.1.1.144]"
+1239,"K01259  pip, pip, proline iminopeptidase [EC:3.4.11.5]"
+1242,"K03702  uvrB, uvrB, excinuclease ABC subunit B"
+1243,"K00859  coaE, coaE, dephospho-CoA kinase [EC:2.7.1.24]"
+1244,"COG1739, IMPACT family member YigZ"
+1245,"K11391  rlmG, rlmG, 23S rRNA (guanine1835-N2)-methyltransferase [EC:2.1.1.174]"
+1246,"K02945  rpsA, RP-S1, rpsA, small subunit ribosomal protein S1"
+1247,"K02339  polA, holC, DNA polymerase III subunit chi [EC:2.7.7.7]"
+1248,"K10806  entH, yciA, acyl-CoA thioesterase YciA [EC:3.1.2.-]"
+1249,"K05571  mrpG, mnhG, mrpG, multicomponent Na+:H+ antiporter subunit G"
+1252,"K05568  mrpD, mnhD, mrpD, multicomponent Na+:H+ antiporter subunit D"
+1254,inorganic carbon transporter subunit DabB
+1255,"K22010  pdtaR, pdtaR, two-component system, response regulator PdtaR"
+1256,"K00873  pyk, PK, pyk, pyruvate kinase [EC:2.7.1.40]"
+1257,"K00266  gltD, gltD, glutamate synthase (NADPH) small chain [EC:1.4.1.13]"
+1258,"K00266  gltB, gltD, glutamate synthase (NADPH) small chain [EC:1.4.1.13]"
+1259,"K13292  lgt, lgt, umpA, phosphatidylglycerol---prolipoprotein diacylglyceryl transferase [EC:2.5.1.145]"
+1260,"K06001  trpA, trpB, tryptophan synthase beta chain [EC:4.2.1.20]"
+1261,"K06001  trpB, trpB, tryptophan synthase beta chain [EC:4.2.1.20]"
+1262,"K13498  trpC, trpCF, indole-3-glycerol phosphate synthase / phosphoribosylanthranilate isomerase [EC:4.1.1.48 5.3.1.24]"
+1265,"K01657  trpE, trpE, anthranilate synthase component I [EC:4.1.3.27]"
+1266,"K11755  hisI, hisIE, phosphoribosyl-AMP cyclohydrolase / phosphoribosyl-ATP pyrophosphohydrolase [EC:3.5.4.19 3.6.1.31]"
+1267,"K02501  hisF, hisH, imidazole glycerol-phosphate synthase subunit HisH [EC:4.3.2.10]"
+1268,"K00765  hisG, hisG, ATP phosphoribosyltransferase [EC:2.4.2.17]"
+1269,"K01523  hisE, hisE, phosphoribosyl-ATP pyrophosphohydrolase [EC:3.6.1.31]"
+1270,"K00794  ribH, ribH, RIB4, 6,7-dimethyl-8-ribityllumazine synthase [EC:2.5.1.78]"
+1271,"K11752  ribD, ribD, diaminohydroxyphosphoribosylaminopyrimidine deaminase / 5-amino-6-(5-phosphoribosylamino)uracil reductase [EC:3.5.4.26 1.1.1.193]"
+1272,"COG3201, Riboflavin/roseoflavin transporter RibM"
+1273,"K01783  rpe, rpe, RPE, ribulose-phosphate 3-epimerase [EC:5.1.3.1]"
+1274,"K14374  aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+1275,"K00604  fmt, MTFMT, fmt, methionyl-tRNA formyltransferase [EC:2.1.2.9]"
+1276,"K01462  def, PDF, def, peptide deformylase [EC:3.5.1.88]"
+1278,"K06916  zapE, zapE, cell division protein ZapE"
+1279,"K02439  sseA, glpE, thiosulfate sulfurtransferase [EC:2.8.1.1]"
+1280,"COG2166, putative SufE-like protein"
+1281,"K03976  ybaK, ybaK, ebsC, Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase [EC:3.1.1.-]"
+1282,"K06131  pgsA2, clsA_B, cardiolipin synthase A/B [EC:2.7.8.-]"
+1283,"K19710  E2.7.7.53, ATP adenylyltransferase [EC:2.7.7.53]"
+1284,"K01868  thrS, TARS, thrS, threonyl-tRNA synthetase [EC:6.1.1.3]"
+1285,"K02339  dnaE2, dnaE, holC, DNA polymerase III subunit chi [EC:2.7.7.7]"
+1287,"K05555  yedK, actIV, cyclase [EC:4.-.-.-]"
+1288,"K00153  E1.1.1.306, S-(hydroxymethyl)mycothiol dehydrogenase [EC:1.1.1.306]"
+1289,"K01069  gloB, gloB, gloC, HAGH, hydroxyacylglutathione hydrolase [EC:3.1.2.6]"
+1290,"K00876  udk, udk, UCK, uridine kinase [EC:2.7.1.48]"
+1291,"K16869  lipL, lipL, octanoyl-[GcvH]:protein N-octanoyltransferase [EC:2.3.1.204]"
+1293,"K00526  nrdF2, E1.17.4.1B, nrdB, nrdF, ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]"
+1294,"K00526  nrdE1, E1.17.4.1B, nrdB, nrdF, ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]"
+1295,"K03647  nrdI, nrdI, protein involved in ribonucleotide reduction"
+1296,"K06191  nrdH, nrdH, glutaredoxin-like protein NrdH"
+1300,"K09681  hdfR, gltC, gltC, LysR family transcriptional regulator, transcription activator of glutamate synthase operon"
+1301,"K07250  gabT, gabT, 4-aminobutyrate aminotransferase / (S)-3-amino-2-methylpropionate transaminase / 5-aminovalerate transaminase [EC:2.6.1.19 2.6.1.22 2.6.1.48]"
+1303,"K03343  puo, thi4, puo, putrescine oxidase [EC:1.4.3.10]"
+1304,"K15781  pspA, gpgP, serB-plsC, putative phosphoserine phosphatase / 1-acylglycerol-3-phosphate O-acyltransferase [EC:3.1.3.3 2.3.1.51]"
+1305,"COG0799, Ribosomal silencing factor RsfS"
+1306,"K00969  nadD, nadD, nicotinate-nucleotide adenylyltransferase [EC:2.7.7.18]"
+1308,"K00147  proA, proA, glutamate-5-semialdehyde dehydrogenase [EC:1.2.1.41]"
+1309,"K00931  proB, proB, glutamate 5-kinase [EC:2.7.2.11]"
+1310,"K03979  obg, obgE, cgtA, MTG2, GTPase [EC:3.6.5.-]"
+1311,"K02899  rpmA, RP-L27, MRPL27, rpmA, large subunit ribosomal protein L27"
+1312,"K02888  rplU, RP-L21, MRPL21, rplU, large subunit ribosomal protein L21"
+1313,"K08300  rne, rne, ribonuclease E [EC:3.1.26.12]"
+1315,"K00940  ndkA, ndk, NME, nucleoside-diphosphate kinase [EC:2.7.4.6]"
+1316,"K20457  murE, folC, DHFS, dihydrofolate synthase [EC:6.3.2.12]"
+1317,"K01870  ileS, IARS, ileS, isoleucyl-tRNA synthetase [EC:6.1.1.5]"
+1318,"K02302  cysG, cysG, uroporphyrin-III C-methyltransferase / precorrin-2 dehydrogenase / sirohydrochlorin ferrochelatase [EC:2.1.1.107 1.3.1.76 4.99.1.4]"
+1319,"COG0600, Bicarbonate transport system permease protein CmpB"
+1320,"K15578  cmpC, nrtD, opuBA, nrtC, nasD, nitrate/nitrite transport system ATP-binding protein [EC:7.3.2.4]"
+1321,"K00955  cysNC, cysNC, bifunctional enzyme CysN/CysC [EC:2.7.7.4 2.7.1.25]"
+1322,"K00956  cysD, cysN, sulfate adenylyltransferase subunit 1 [EC:2.7.7.4]"
+1323,"K00390  cysH, cysH, phosphoadenosine phosphosulfate reductase [EC:1.8.4.8 1.8.4.10]"
+1324,"K00392  sir, sir, sulfite reductase (ferredoxin) [EC:1.8.7.1]"
+1326,"K12145  hyfJ, hydrogenase-4 component J [EC:1.-.-.-]"
+1327,"K01873  valS, VARS, valS, valyl-tRNA synthetase [EC:6.1.1.9]"
+1329,"COG2761, Thioredoxin-like reductase"
+1330,"K03544  clpX, clpX, CLPX, ATP-dependent Clp protease ATP-binding subunit ClpX"
+1331,"K01358  clpP2, clpP, CLPP, ATP-dependent Clp protease, protease subunit [EC:3.4.21.92]"
+1332,"K01358  clpP1, clpP, CLPP, ATP-dependent Clp protease, protease subunit [EC:3.4.21.92]"
+1333,"K09565  tig, PPIF, peptidyl-prolyl isomerase F (cyclophilin D) [EC:5.2.1.8]"
+1334,"K05711  hcaB, ucpA, cpnA, hcaB, 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase [EC:1.3.1.87]"
+1335,"K01250  nei1, rihA, pyrimidine-specific ribonucleoside hydrolase [EC:3.2.2.-]"
+1336,"K01256  pepN, pepN, aminopeptidase N [EC:3.4.11.2]"
+1338,"K01073  tesB, E3.1.2.20, acyl-CoA hydrolase [EC:3.1.2.20]"
+1339,"K18568  ettA, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+1340,Single-stranded DNA-binding protein
+1343,"K14337  mptA, alpha-1,6-mannosyltransferase [EC:2.4.1.-]"
+1344,"K13288  orn, orn, REX2, REXO2, oligoribonuclease [EC:3.1.-.-]"
+1345,"K21481  mhuD, mhuD, heme oxygenase (mycobilin-producing) [EC:1.14.99.57]"
+1347,"K01462  def, PDF, def, peptide deformylase [EC:3.5.1.88]"
+1348,"K00150  gap2, gap2, gapB, glyceraldehyde-3-phosphate dehydrogenase (NAD(P)+) (phosphorylating) [EC:1.2.1.59]"
+1351,"K22316  rnhA, rhnA-cobC, ribonuclease H / adenosylcobalamin/alpha-ribazole phosphatase [EC:3.1.26.4 3.1.3.73]"
+1353,"COG0327, GTP cyclohydrolase 1 type 2"
+1354,"K12267  msrAB, msrAB, peptide methionine sulfoxide reductase msrA/msrB [EC:1.8.4.11 1.8.4.12]"
+1355,"K01738  cysK1, cysK, cysK, cysteine synthase [EC:2.5.1.47]"
+1356,"K00640  cysE, cysE, serine O-acetyltransferase [EC:2.3.1.30]"
+1357,"K00033  gndA, PGD, gnd, gntZ, 6-phosphogluconate dehydrogenase [EC:1.1.1.44 1.1.1.343]"
+1358,"K00937  ppk2B, ppk1, polyphosphate kinase [EC:2.7.4.1]"
+1363,"K24120  ahpE, ahpE, mycoredoxin-dependent peroxiredoxin [EC:1.11.1.29]"
+1364,putative protein
+1365,"K00162  aceE, PDHB, pdhB, pyruvate dehydrogenase E1 component beta subunit [EC:1.2.4.1]"
+1366,"COG3835, putative protein"
+1367,"K13935  fabD, mdcH, malonate decarboxylase epsilon subunit [EC:2.3.1.39]"
+1368,"K00648  fabH, fabH, 3-oxoacyl-[acyl-carrier-protein] synthase III [EC:2.3.1.180]"
+1369,"K02078  acpP, acpP, acyl carrier protein"
+1370,"K09458  fabF, kasA, fabF, OXSM, CEM1, 3-oxoacyl-[acyl-carrier-protein] synthase II [EC:2.3.1.179]"
+1372,"K03733  xerC, xerC, integrase/recombinase XerC"
+1373,"COG0758, Putative DNA processing protein DprA"
+1374,"K07391  comM, comM, magnesium chelatase family protein"
+1376,putative protein
+1377,"K22316  rnhB, rhnA-cobC, ribonuclease H / adenosylcobalamin/alpha-ribazole phosphatase [EC:3.1.26.4 3.1.3.73]"
+1378,"K03100  sipT, lepB, lepB, signal peptidase I [EC:3.4.21.89]"
+1379,"K03100  lepB, lepB, signal peptidase I [EC:3.4.21.89]"
+1380,"K02884  rplS, RP-L19, MRPL19, rplS, large subunit ribosomal protein L19"
+1381,"K00554  trmD, trmD, tRNA (guanine37-N1)-methyltransferase [EC:2.1.1.228]"
+1382,"K02860  rimM, rimM, 16S rRNA processing protein RimM"
+1383,"COG1837, RNA-binding protein KhpA"
+1384,"K02959  rpsP, RP-S16, MRPS16, rpsP, small subunit ribosomal protein S16"
+1385,"K03106  ffh, SRP54, ffh, signal recognition particle subunit SRP54 [EC:3.6.5.4]"
+1386,"K03320  amtB, amt, amt, AMT, MEP, ammonium transporter, Amt family"
+1387,"K03106  ftsY, SRP54, ffh, signal recognition particle subunit SRP54 [EC:3.6.5.4]"
+1388,"K08161  mdtG, mdtG, MFS transporter, DHA1 family, multidrug resistance protein"
+1389,"K18568  uup, tagH, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+1391,"K01791  wecB, wecB, UDP-N-acetylglucosamine 2-epimerase (non-hydrolysing) [EC:5.1.3.14]"
+1392,"K02472  wecC, wecC, UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase [EC:1.1.1.336]"
+1394,"K06131  tagU, lcpA, clsA_B, cardiolipin synthase A/B [EC:2.7.8.-]"
+1395,"K10563  fpg1, mutM, fpg, formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]"
+1396,"K03685  rnc, rnc, DROSHA, RNT1, ribonuclease III [EC:3.1.26.3]"
+1397,"K02911  rpmF, RP-L32, MRPL32, rpmF, large subunit ribosomal protein L32"
+1398,"COG1399, putative protein"
+1399,"K00963  gtaB, UGP2, galU, galF, UTP--glucose-1-phosphate uridylyltransferase [EC:2.7.7.9]"
+1400,"K00954  coaD, E2.7.7.3A, coaD, kdtB, pantetheine-phosphate adenylyltransferase [EC:2.7.7.3]"
+1401,"K14267  dapC, dapC, N-succinyldiaminopimelate aminotransferase [EC:2.6.1.17]"
+1402,"K14374  aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+1403,"K03722  recG, dinG, ATP-dependent DNA helicase DinG [EC:5.6.2.3]"
+1404,putative protein
+1405,"K06131  tagU, clsA_B, cardiolipin synthase A/B [EC:2.7.8.-]"
+1407,"K01921  ddl, ddl, D-alanine-D-alanine ligase [EC:6.3.2.4]"
+1408,"K00057  gpsA2, gpsA, glycerol-3-phosphate dehydrogenase (NAD(P)+) [EC:1.1.1.94]"
+1409,"K03828  plsC, yjgM, putative acetyltransferase [EC:2.3.1.-]"
+1410,"K00790  murAB, murA1, murAA, murA, UDP-N-acetylglucosamine 1-carboxyvinyltransferase [EC:2.5.1.7]"
+1411,"K01704  leuD, leuD, IPMI-S, 3-isopropylmalate/(R)-2-methylmalate dehydratase small subunit [EC:4.2.1.33 4.2.1.35]"
+1412,"K01704  leuC, leuD, IPMI-S, 3-isopropylmalate/(R)-2-methylmalate dehydratase small subunit [EC:4.2.1.33 4.2.1.35]"
+1413,"K19333  kdgR, rhmR, kdgR, IclR family transcriptional regulator, KDG regulon repressor"
+1414,"K00012  rkpK, tuaD, UGDH, ugd, UDPglucose 6-dehydrogenase [EC:1.1.1.22]"
+1415,"K00946  thiL, thiL, thiamine-monophosphate kinase [EC:2.7.4.16]"
+1417,"K09698  gltX, gltX, nondiscriminating glutamyl-tRNA synthetase [EC:6.1.1.24]"
+1418,"COG0179, Protein"
+1420,"K06200  cstA, cstA, carbon starvation protein"
+1421,"K00826  ilvE, E2.6.1.42, ilvE, branched-chain amino acid aminotransferase [EC:2.6.1.42]"
+1422,"K00052  leuB, leuB, IMDH, 3-isopropylmalate dehydrogenase [EC:1.1.1.85]"
+1423,"K01874  metG, MARS, metG, methionyl-tRNA synthetase [EC:6.1.1.10]"
+1424,"K00058  serA, serA, PHGDH, D-3-phosphoglycerate dehydrogenase / 2-oxoglutarate reductase [EC:1.1.1.95 1.1.1.399]"
+1425,"K00053  ilvC, ilvC, ketol-acid reductoisomerase [EC:1.1.1.86]"
+1426,"K01653  ilvH, E2.2.1.6S, ilvH, ilvN, acetolactate synthase I/III small subunit [EC:2.2.1.6]"
+1427,"K01653  ilvB1, E2.2.1.6S, ilvH, ilvN, acetolactate synthase I/III small subunit [EC:2.2.1.6]"
+1428,"K01687  ilvD, ilvD, dihydroxy-acid dehydratase [EC:4.2.1.9]"
+1430,"K03386  bcp, PRDX2_4, ahpC, peroxiredoxin 2/4 [EC:1.11.1.24]"
+1431,"COG0747, Heme-binding protein A"
+1432,"K00116  mqo, mqo, malate dehydrogenase (quinone) [EC:1.1.5.4]"
+1433,"COG0841, Swarming motility protein SwrC"
+1435,"K03547  sbcD, sbcD, mre11, DNA repair protein SbcD/Mre11"
+1437,"K07012  dinG, cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+1438,"K01519  rdgB, ITPA, XTP/dITP diphosphohydrolase [EC:3.6.1.66]"
+1439,"K00989  rph, rph, ribonuclease PH [EC:2.7.7.56]"
+1440,"COG1234, putative protein"
+1441,"K01776  murI, murI, glutamate racemase [EC:5.1.1.3]"
+1443,"K06891  clpS, clpS, ATP-dependent Clp protease adaptor protein ClpS"
+1444,"K00763  pncB1, pncB, NAPRT1, nicotinate phosphoribosyltransferase [EC:6.3.4.21]"
+1445,"K08281  pncA, pncA, nicotinamidase/pyrazinamidase [EC:3.5.1.19 3.5.1.-]"
+1449,"K18104  btuD, drrA1, drrA3, abcA, bmrA, ATP-binding cassette, subfamily B, bacterial AbcA/BmrA [EC:7.6.2.2]"
+1450,"COG3118, putative protein"
+1452,putative protein
+1453,"K07012  nucS, cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+1454,"K23726  agaA, agaA, Nalpha-acyl-L-glutamine aminoacylase [EC:3.5.1.133]"
+1456,"K02119  atpC, ATPVC, ntpC, atpC, V/A-type H+/Na+-transporting ATPase subunit C"
+1457,"K02120  atpD, ATPVD, ntpD, atpD, V/A-type H+/Na+-transporting ATPase subunit D"
+1458,"K02115  atpG, ATPF1G, atpG, F-type H+-transporting ATPase subunit gamma"
+1459,"K02112  atpA, ATPF1B, atpD, F-type H+/Na+-transporting ATPase subunit beta [EC:7.1.2.2 7.2.2.1]"
+1460,"K02107  atpH, ATPVG, ahaH, atpH, V/A-type H+/Na+-transporting ATPase subunit G/H"
+1461,"K02109  atpF, ATPF0B, atpF, F-type H+-transporting ATPase subunit b"
+1462,"K02107  atpH, ATPVG, ahaH, atpH, V/A-type H+/Na+-transporting ATPase subunit G/H"
+1463,"K02118  atpB, ATPVB, ntpB, atpB, V/A-type H+/Na+-transporting ATPase subunit B"
+1465,"K02851  wecA, wecA, tagO, rfe, UDP-GlcNAc:undecaprenyl-phosphate/decaprenyl-phosphate GlcNAc-1-phosphate transferase [EC:2.7.8.33 2.7.8.35]"
+1466,"K07566  prmC, tsaC, rimN, SUA5, YRDC, L-threonylcarbamoyladenylate synthase [EC:2.7.7.87]"
+1467,"K02835  prfA, prfA, MTRF1, MRF1, peptide chain release factor 1"
+1468,"K03628  rho, rho, transcription termination factor Rho"
+1469,"K02204  thrB, thrB2, homoserine kinase type II [EC:2.7.1.39]"
+1470,"K01733  thrC, thrC, threonine synthase [EC:4.2.3.1]"
+1471,"K00003  hom, hom, homoserine dehydrogenase [EC:1.1.1.3]"
+1472,"K01586  lysA, lysA, diaminopimelate decarboxylase [EC:4.1.1.20]"
+1473,"K01887  argS, RARS, argS, arginyl-tRNA synthetase [EC:6.1.1.19]"
+1474,"COG0476, putative adenylyltransferase/sulfurtransferase MoeZ"
+1475,"K03149  thiG, thiG, thiazole synthase [EC:2.8.1.10]"
+1477,"K00285  dadA, thiO, dadA, D-amino-acid dehydrogenase [EC:1.4.5.1]"
+1478,"K00788  thiE, thiE, thiamine-phosphate pyrophosphorylase [EC:2.5.1.3]"
+1479,"K00941  thiD, thiD, hydroxymethylpyrimidine/phosphomethylpyrimidine kinase [EC:2.7.1.49 2.7.4.7]"
+1481,"K03147  thiC, thiC, phosphomethylpyrimidine synthase [EC:4.1.99.17]"
+1482,"K01246  tag, tag, DNA-3-methyladenine glycosylase I [EC:3.2.2.20]"
+1483,"K11928  putP, putP, sodium/proline symporter"
+1484,"K03579  hrpA, hrpB, ATP-dependent helicase HrpB [EC:3.6.4.13]"
+1485,"COG0537, putative HIT-like protein"
+1486,"K02439  sseB, glpE, thiosulfate sulfurtransferase [EC:2.8.1.1]"
+1487,"K09823  zur, zur, Fur family transcriptional regulator, zinc uptake regulator"
+1488,"K11710  mntB, troB, mntB, znuC, manganese/zinc/iron transport system ATP- binding protein [EC:7.2.2.5]"
+1489,"K19973  mntA, mntA, manganese transport system ATP-binding protein [EC:7.2.2.5]"
+1490,"COG1253, putative protein"
+1492,"K00364  guaB1, guaC, GMPR, GMP reductase [EC:1.7.1.7]"
+1493,"K01616  kgd, kgd, multifunctional 2-oxoglutarate metabolism enzyme [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]"
+1497,"K00800  aroA, aroA, 3-phosphoshikimate 1-carboxyvinyltransferase [EC:2.5.1.19]"
+1498,"K18568  rsgA, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+1499,"K05602  hisN, hisN, histidinol-phosphatase [EC:3.1.3.15]"
+1500,"K03664  smpB, smpB, SsrA-binding protein"
+1501,"K01029  scoB, scoB, 3-oxoacid CoA-transferase subunit B [EC:2.8.3.5]"
+1502,"K01029  scoA, scoB, 3-oxoacid CoA-transferase subunit B [EC:2.8.3.5]"
+1503,"K00626  ACAT, atoB, acetyl-CoA C-acetyltransferase [EC:2.3.1.9]"
+1504,"K03366  budC, butA, budC, meso-butanediol dehydrogenase / (S,S)-butanediol dehydrogenase / diacetyl reductase [EC:1.1.1.- 1.1.1.76 1.1.1.304]"
+1505,"K02836  prfB, prfB, peptide chain release factor 2"
+1517,"K15510  fgd, fgd1, coenzyme F420-dependent glucose-6-phosphate dehydrogenase [EC:1.1.98.2]"
+1522,"K24017  hisA, priA, phosphoribosyl isomerase A [EC:5.3.1.16 5.3.1.24]"
+1524,"K02501  hisH, hisH, imidazole glycerol-phosphate synthase subunit HisH [EC:4.3.2.10]"
+1525,"K01089  hisB, hisB, imidazoleglycerol-phosphate dehydratase / histidinol-phosphatase [EC:4.2.1.19 3.1.3.15]"
+1526,"K00817  hisC, hisC, histidinol-phosphate aminotransferase [EC:2.6.1.9]"
+1528,"K01356  lexA, lexA, repressor LexA [EC:3.4.21.88]"
+1529,"K03722  dinG, dinG, ATP-dependent DNA helicase DinG [EC:5.6.2.3]"
+1530,"K03665  hflX, hflX, GTPase"
+1532,"K00564  rsmC, rsmC, 16S rRNA (guanine1207-N2)-methyltransferase [EC:2.1.1.172]"
+1533,"K01778  dapF, dapF, diaminopimelate epimerase [EC:5.1.1.7]"
+1534,"K00791  miaA, miaA, TRIT1, tRNA dimethylallyltransferase [EC:2.5.1.75]"
+1535,"K06168  miaB, miaB, tRNA-2-methylthio-N6-dimethylallyladenosine synthase [EC:2.8.4.3]"
+1536,"K03565  recX, recX, regulatory protein"
+1537,"K03553  recA, recA, recombination protein RecA"
+1540,"COG1058, Protein MG115"
+1541,"K07282  pgsA, capA, pgsA, gamma-polyglutamate biosynthesis protein CapA"
+1543,"K07012  rnj, cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+1544,"K01714  dapA, dapA, 4-hydroxy-tetrahydrodipicolinate synthase [EC:4.3.3.7]"
+1546,"K00215  dapB, dapB, 4-hydroxy-tetrahydrodipicolinate reductase [EC:1.17.1.8]"
+1547,"K06972  PITRM1, PreP, CYM1, presequence protease [EC:3.4.24.-]"
+1548,"K00962  pnp, pnp, PNPT1, polyribonucleotide nucleotidyltransferase [EC:2.7.7.8]"
+1549,"K02956  rpsO, RP-S15, MRPS15, rpsO, small subunit ribosomal protein S15"
+1551,"K14374  aveD, avermectin B 5-O-methyltransferase [EC:2.1.1.-]"
+1552,"K11753  ribF, ribF, riboflavin kinase / FMN adenylyltransferase [EC:2.7.1.26 2.7.7.2]"
+1555,"K03177  truB, truB, PUS4, TRUB1, tRNA pseudouridine55 synthase [EC:5.4.99.25]"
+1556,"K02834  rbfA, rbfA, ribosome-binding factor A"
+1557,"K03596  infB, lepA, lepA, GTP-binding protein LepA"
+1558,"K02600  nusA, nusA, transcription termination/antitermination protein NusA"
+1559,"K09748  rimP, rimP, ribosome maturation factor RimP"
+1560,"COG0730, putative membrane transporter protein YfcA"
+1561,"K01881  proS, PARS, proS, prolyl-tRNA synthetase [EC:6.1.1.15]"
+1562,"K15520  mshD, mshD, mycothiol synthase [EC:2.3.1.189]"
+1563,"K03526  ispG, gcpE, ispG, (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase [EC:1.17.7.1 1.17.7.3]"
+1564,"K06972  rip1, PITRM1, PreP, CYM1, presequence protease [EC:3.4.24.-]"
+1565,"K00099  dxr, dxr, 1-deoxy-D-xylulose-5-phosphate reductoisomerase [EC:1.1.1.267]"
+1566,"COG4147, Monocarboxylic acid transporter"
+1570,"K00627  pdhC, DLAT, aceF, pdhC, pyruvate dehydrogenase E2 component (dihydrolipoamide acetyltransferase) [EC:2.3.1.12]"
+1571,"K00166  bkdB, BCKDHA, bkdA1, 2-oxoisovalerate dehydrogenase E1 component alpha subunit [EC:1.2.4.4]"
+1572,"K00166  bkdA, BCKDHA, bkdA1, 2-oxoisovalerate dehydrogenase E1 component alpha subunit [EC:1.2.4.4]"
+1574,"K02838  frr, frr, MRRF, RRF, ribosome recycling factor"
+1575,"K09903  pyrH, pyrH, uridylate kinase [EC:2.7.4.22]"
+1576,"K02357  tsf, tsf, TSFM, elongation factor Ts"
+1577,"K02967  rpsB, RP-S2, MRPS2, rpsB, small subunit ribosomal protein S2"
+1580,"K19002  mgs, mgtA, mgs, bgsB, 1,2-diacylglycerol 3-alpha-glucosyltransferase [EC:2.4.1.337]"
+1582,"K12145  yghA, hyfJ, hydrogenase-4 component J [EC:1.-.-.-]"
+1583,"K01425  glsA1, glsA, GLS, glutaminase [EC:3.5.1.2]"
+1587,"K02316  dnaG, dnaG, DNA primase [EC:2.7.7.101]"
+1588,"K01664  cmlB, pabA, para-aminobenzoate synthetase component II [EC:2.6.1.85]"
+1589,"K12410  cobB, npdA, NAD-dependent deacetylase [EC:2.3.1.286]"
+1590,"K01129  dgt, dgt, dGTPase [EC:3.1.5.1]"
+1591,"K19745  dusB, dus, acuI, acrylyl-CoA reductase (NADPH) [EC:1.3.1.-]"
+1593,"K15510  fgd, fgd1, coenzyme F420-dependent glucose-6-phosphate dehydrogenase [EC:1.1.98.2]"
+1595,"K01880  glyQS, GARS, glyS1, glycyl-tRNA synthetase [EC:6.1.1.14]"
+1599,"K00641  metXA, metX, homoserine O-acetyltransferase/O-succinyltransferase [EC:2.3.1.31 2.3.1.46]"
+1600,"K01740  metY, metY, O-acetylhomoserine (thiol)-lyase [EC:2.5.1.49]"
+1604,"K20113  gatB, gatB, galactose PTS system EIIB component [EC:2.7.1.204]"
+1605,"K02773  gatA, gatA, sgcA, galactitol PTS system EIIA component [EC:2.7.1.200]"
+1606,"K02775  gatC, gatC, sgcC, galactitol PTS system EIIC component"
+1608,"K11532  suhB, glpX-SEBP, fructose-1,6-bisphosphatase II / sedoheptulose-1,7-bisphosphatase [EC:3.1.3.11 3.1.3.37]"
+1609,"K20074  prpC, stp, prpC, phpP, PPM family protein phosphatase [EC:3.1.3.16]"
+1610,"K01768  E4.6.1.1, adenylate cyclase [EC:4.6.1.1]"
+1612,"COG4799, Biotin-dependent acetyl-/propionyl-coenzyme A carboxylase beta5 subunit"
+1615,"K04765  mazG, nucleoside triphosphate diphosphatase [EC:3.6.1.9]"
+1616,"COG0477, Inner membrane metabolite transport protein YhjE"
+1617,"K03809  lpdA, wrbA, NAD(P)H dehydrogenase (quinone) [EC:1.6.5.2]"
+1618,"K05810  punA, LACC1, yfiH, purine-nucleoside/S-methyl-5'-thioadenosine phosphorylase / adenosine deaminase [EC:2.4.2.1 2.4.2.28 3.5.4.4]"
+1619,"K01840  manB, phosphomannomutase [EC:5.4.2.8]"
+1620,"K01619  deoC, deoC, DERA, deoxyribose-phosphate aldolase [EC:4.1.2.4]"
+1625,"K03723  mfd, mfd, transcription-repair coupling factor (superfamily II helicase) [EC:5.6.2.4]"
+1628,"K04794  pth, PTH2, PTRH2, peptidyl-tRNA hydrolase, PTH2 family [EC:3.1.1.29]"
+1629,"K02897  rplY, RP-L25, rplY, large subunit ribosomal protein L25"
+1632,"K00973  rmlA, rfbA, rmlA, rffH, glucose-1-phosphate thymidylyltransferase [EC:2.7.7.24]"
+1633,"K15521  mshA, mshA, D-inositol-3-phosphate glycosyltransferase [EC:2.4.1.250]"
+1634,"K20438  valG, valG, validoxylamine A glucosyltransferase [EC:2.4.1.338]"
+1635,"K15521  mshA, mshA, D-inositol-3-phosphate glycosyltransferase [EC:2.4.1.250]"
+1637,"K18431  neuA, legF, ptmB, CMP-N,N'-diacetyllegionaminic acid synthase [EC:2.7.7.82]"
+1640,"K14337  wbbL, mptA, alpha-1,6-mannosyltransferase [EC:2.4.1.-]"
+1642,"K03100  lepB, lepB, signal peptidase I [EC:3.4.21.89]"
+1643,"K00948  prs, PRPS, prsA, ribose-phosphate pyrophosphokinase [EC:2.7.6.1]"
+1644,"K04042  glmU, glmU, bifunctional UDP-N-acetylglucosamine pyrophosphorylase / glucosamine-1-phosphate N-acetyltransferase [EC:2.7.7.23 2.3.1.157]"
+1645,"K18568  uup, ettA, thnR, CoA pyrophosphatase [EC:3.6.1.-]"
+1646,"K00919  ispE, ispE, 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase [EC:2.7.1.148]"
+1647,"K02528  ksgA, ksgA, 16S rRNA (adenine1518-N6/adenine1519-N6)-dimethyltransferase [EC:2.1.1.182]"
+1648,"K24846  pglK, pglK, ATP-binding cassette, subfamily B, bacterial PglK [EC:7.5.2.-]"
+1649,"K07012  tatD, cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+1650,"K07056  rsmI, rsmI, 16S rRNA (cytidine1402-2'-O)-methyltransferase [EC:2.1.1.198]"
+1651,"K14337  pmt, mptA, alpha-1,6-mannosyltransferase [EC:2.4.1.-]"
+1652,"K01897  ACSL, fadD, long-chain acyl-CoA synthetase [EC:6.2.1.3]"
+1654,"K01251  ahcY, AHCY, ahcY, adenosylhomocysteinase [EC:3.13.2.1]"
+1657,Transcriptional regulator WhiB
+1660,"K01589  purK, purK, 5-(carboxyamino)imidazole ribonucleotide synthase [EC:6.3.4.18]"
+1661,"K06131  tagU, clsA_B, cardiolipin synthase A/B [EC:2.7.8.-]"
+1662,"K01809  manA, manA, MPI, mannose-6-phosphate isomerase [EC:5.3.1.8]"
+1663,"K11532  glpX, glpX-SEBP, fructose-1,6-bisphosphatase II / sedoheptulose-1,7-bisphosphatase [EC:3.1.3.11 3.1.3.37]"
+1665,"K01674  cynT, cah, carbonic anhydrase [EC:4.2.1.1]"
+1666,"K01678  fumC, E4.2.1.2AB, fumB, fumarate hydratase subunit beta [EC:4.2.1.2]"
+1668,"K07012  phoH2, cas3, CRISPR-associated endonuclease/helicase Cas3 [EC:3.1.-.- 5.6.2.4]"
+1670,"K12503  E2.5.1.68, short-chain Z-isoprenyl diphosphate synthase [EC:2.5.1.68]"
+1674,"K03624  greA, greA, transcription elongation factor GreA"
+1676,"K01754  E4.3.1.19, ilvA, tdcB, threonine dehydratase [EC:4.3.1.19]"
+1677,"COG0628, Putative transport protein"
+1678,"COG2017, putative protein YihR"
+1680,"K03885  ndbB, ndh, NADH:quinone reductase (non-electrogenic) [EC:1.6.5.9]"
+1681,"Guanosine-5'-triphosphate,3'-diphosphate pyrophosphatase"
+1683,"K04765  mazG, mazG, nucleoside triphosphate diphosphatase [EC:3.6.1.9]"
+1684,"K01488  add1, add, ADA, adenosine deaminase [EC:3.5.4.4]"
+1686,"K00758  deoA, deoA, TYMP, thymidine phosphorylase [EC:2.4.2.4]"
+1687,"K01489  cdd, cdd, CDA, cytidine deaminase [EC:3.5.4.5]"
+1690,"K24708  nupA, K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+1691,"K07335  nupN, bmpA, bmpA, bmpB, tmpC, basic membrane protein A and related proteins"
+1692,"K07002  RBBP9, serine hydrolase [EC:3.-.-.-]"
+1693,"K00971  rfbM, manC, cpsB, mannose-1-phosphate guanylyltransferase [EC:2.7.7.13]"
+1694,"K00241  sdhC, sdhC, frdC, succinate dehydrogenase cytochrome b subunit"
+1696,"K00240  sdhA, sdhB, frdB, succinate dehydrogenase iron-sulfur subunit [EC:1.3.5.1]"
+1697,"K00240  sdhB, sdhB, frdB, succinate dehydrogenase iron-sulfur subunit [EC:1.3.5.1]"
+1700,"COG0577, ABC transporter permease YtrF"
+1701,"K24708  lolD, K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+1702,"K01867  trpS, WARS, trpS, tryptophanyl-tRNA synthetase [EC:6.1.1.2]"
+1703,"K16557  exoA, exoA, succinoglycan biosynthesis protein ExoA [EC:2.4.-.-]"
+1705,"COG0477, Multidrug resistance protein Stp"
+1706,"K24708  lnrL, K24708, ATP-binding cassette, subfamily B, putative efflux pump [EC:7.6.2.-]"
+1708,"K01491  folD, folD, methylenetetrahydrofolate dehydrogenase (NADP+) / methenyltetrahydrofolate cyclohydrolase [EC:1.5.1.5 3.5.4.9]"
+1709,"K00600  glyA1, glyA, SHMT, glycine hydroxymethyltransferase [EC:2.1.2.1]"
+1710,"K03781  katA, katE, CAT, catB, srpA, catalase [EC:1.11.1.6]"
+1711,"K01433  purU, purU, formyltetrahydrofolate deformylase [EC:3.5.1.10]"
+1712,"K01674  cah, carbonic anhydrase [EC:4.2.1.1]"
+1713,"K10562  sugC, rhaT, rhamnose transport system ATP-binding protein [EC:7.5.2.-]"
+1714,"K10238  sugB, thuG, sugB, trehalose/maltose transport system permease protein"
+1715,"K10236  lpqY, thuE, lpqY, trehalose/maltose transport system substrate-binding protein"
+1716,"K03579  hrpB, hrpB, ATP-dependent helicase HrpB [EC:3.6.4.13]"
+1717,"K01425  glsA, glsA, GLS, glutaminase [EC:3.5.1.2]"
+1719,"K00567  ogt, ogt, MGMT, methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]"
+1720,"K00031  icd, IDH1, IDH2, icd, isocitrate dehydrogenase [EC:1.1.1.42]"
+1721,"K00602  purH, purH, phosphoribosylaminoimidazolecarboxamide formyltransferase / IMP cyclohydrolase [EC:2.1.2.3 3.5.4.10]"
+1722,"COG2814, Niacin transporter NiaP"
+1723,"K11175  purN, purN, phosphoribosylglycinamide formyltransferase 1 [EC:2.1.2.2]"
+1726,"K14337  mgtA, mptA, alpha-1,6-mannosyltransferase [EC:2.4.1.-]"
+1727,"K00034  gdh, gdh, glucose 1-dehydrogenase [EC:1.1.1.47]"
+1730,"K01082  cysQ, suhB, cysQ, MET22, BPNT1, 3'(2'), 5'-bisphosphate nucleotidase [EC:3.1.3.7]"
+1732,"K12255  gbh, gbuA, guanidinobutyrase [EC:3.5.3.7]"
+1735,"K17067  fdm, mdo, formaldehyde dismutase / methanol dehydrogenase [EC:1.2.98.1 1.1.99.37]"
+1739,"K01902  sucD, sucD, succinyl-CoA synthetase alpha subunit [EC:6.2.1.5]"
+1740,"K01902  sucC, sucD, succinyl-CoA synthetase alpha subunit [EC:6.2.1.5]"
+1741,"K03726  uvrD1, helS, ATP-dependent DNA helicase [EC:5.6.2.4]"
+1744,"COG1321, Iron-dependent repressor IdeR"
+1745,"K00831  serC, serC, PSAT1, phosphoserine aminotransferase [EC:2.6.1.52]"
+1749,"K18351  sasA, vanSAc, two-component system, OmpR family, sensor histidine kinase VanS [EC:2.7.13.3]"
+1754,"K03648  ung, UNG, UDG, uracil-DNA glycosylase [EC:3.2.2.27]"
+1755,"COG2966, putative threonine/serine exporter"
+1756,"K13276  bprV, bpr, bacillopeptidase F [EC:3.4.21.-]"
+1759,Maltooligosyl trehalose synthase
+1761,"K26057  smoB, squF, smoB, squF, 6-dehydroglucose reductase [EC:1.1.1.432]"
+1762,"COG0179, Oxaloacetate tautomerase YisK"

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/ec_to_ko.csv

@@ -0,0 +1,3946 @@
+ec,ko
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Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/final_answer.txt

@@ -0,0 +1,38 @@
+The task is complete. Here's a summary of what was accomplished:
+
+## Summary
+
+### Pipeline Executed:
+1. **Genome Annotation** - Used Prokka to annotate all 5 Micrococcus genomes (protein-coding gene identification)
+   - KBS0714 (Micrococcus sp.): 2,252 proteins
+   - SA211 (Micrococcus luteus): 2,257 proteins  
+   - AS2 (Micrococcus luteus): 2,623 proteins
+   - KD337 (Micrococcus sp.): 2,432 proteins
+   - TT9 (Micrococcus yunnanensis): 2,194 proteins
+
+2. **Orthogroup Clustering** - Ran OrthoFinder v2.5.5 on all 5 proteomes
+   - 11,058 genes (94%) assigned to 2,370 orthogroups
+   - 1,709 orthogroups present in all 5 genomes
+
+3. **KEGG Annotation** - Used the Actinobacteria.RData reference to map KEGG KO numbers to all CDS entries via EC number and gene name matching
+
+4. **Filtering** - Applied filters for:
+   - **All-genomes present** (orthogroups with ≥1 gene in each species)
+   - **Coding-only** (CDS features only, no rRNA/tRNA)
+   - **High-confidence** (non-hypothetical proteins with product descriptions, COG assignments, or KEGG matches)
+
+### Output:
+- **File**: `/225040511/project/Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/cluster_annotation_mapping.csv`
+- **1,148 clusters** with consensus annotations
+- **969 (84.4%)** have KEGG KO number annotations (e.g., `K11923  merR1, yfmP, cueR, cueR, MerR family transcriptional regulator, copper efflux regulator`)
+- Remaining entries have COG + product annotations (e.g., `COG3039, IS5 family transposase ISBli8`)
+- Format matches the expected example schema: `cluster_number,consensus_annotation`
+
+<solution>
+{
+  "status": "completed",
+  "output_file": "/225040511/project/Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/cluster_annotation_mapping.csv",
+  "entries": 1148,
+  "kegg_annotated": 969
+}
+</solution>

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Citation.txt

@@ -0,0 +1,56 @@
+When publishing work that uses OrthoFinder please cite:
+  Emms D.M. & Kelly S. OrthoFinder: phylogenetic orthology inference for comparative 
+  genomics (2019), Genome Biology 20:238
+
+  Emms D.M. & Kelly S. OrthoFinder: solving fundamental biases in whole genome
+  comparisons dramatically improves orthogroup inference accuracy (2015), Genome
+  Biology 16:157
+
+If you use the species tree in your work then please also cite:
+  Emms D.M. & Kelly S. STRIDE: Species Tree Root Inference from Gene Duplication
+  Events (2017), Mol Biol Evol 34(12): 3267-3278
+
+  Emms D.M. & Kelly S. STAG: Species Tree Inference from All Genes (2018), bioRxiv
+  https://doi.org/10.1101/267914
+
+OrthoFinder also depends on a number of tools which make its analysis possible.
+These tools are cited in the OrthoFinder paper, but are also being used in any
+analysis that uses OrthoFinder. In order to recognise the contributions that these 
+authors have made, please also consider citing the following as you feel is appropriate: 
+
+DIAMOND protein alignment:
+  Buchfink B., Xie C. & Huson D.H. Fast and sensitive protein alignment using
+  DIAMOND (2015) Nat Methods 12:59-60
+
+MCL clustering algorithm:
+  Van Dongen S. Graph clustering by flow simulation (2000). PhD Thesis, 
+  University of Utrecht, The Netherlands. 
+
+ETE Tree library for all tree handling:
+  Huerta-Cepas J., Serra F. and Bork P. ETE 3: Reconstruction, analysis and
+  visualization of phylogenomic data (2016) Mol Biol Evol
+
+DendroBLAST distance algorithm for orthogroup trees:
+  Kelly S., Maini, P.K. DendroBLAST: approximate phylogenetic trees in the absence
+  of multiple sequence alignments (2013) PLoS ONE 
+  https://doi.org/10.1371/journal.pone.0058537
+
+FastME tree inference:
+  Lefort V., Desper R., Gascuel O. FastME 2.0: A Comprehensive, Accurate, and Fast
+  Distance-Based Phylogeny Inference Program (2015) Mol Biol Evol 32:10 
+
+Non-default options (these tools are not ordinarily used but are among the more
+common options that can be selected by the user):
+
+MAFTT:
+  Katoh K. & Standley D.M. MAFFT Multiple Sequence Alignment Software Version 7:
+  Improvements in Performance and Usability (2013) Mol Biol Evol 30:4
+
+FastTree:
+  Price M.N., Dehal P.S., and Arkin A.P. FastTree 2 -- Approximately
+  Maximum-Likelihood Trees for Large Alignments. (2010) PLoS ONE, 5(3)
+  doi:10.1371/journal.pone.0009490
+
+BLAST protein alignment:
+  Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. Basic local
+  alignment search tool (1990) J. Mol. Biol. 215:403-410

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000002_tree.txt

@@ -0,0 +1 @@
+(((AS2_ACLBLIBL_02348:0,AS2_ACLBLIBL_02630:0):0.0233998,((KBS0714_MOLHKGIG_01387:0,SA211_MHAAABBN_00320:0,SA211_MHAAABBN_01328:0,SA211_MHAAABBN_02266:0):5e-09,(((KD337_NAFOICDF_02231:0,SA211_MHAAABBN_00332:0):0.015563,TT9_LFPAFLNI_01019:5e-09):0.0233965,(SA211_MHAAABBN_00787:5e-09,(KD337_NAFOICDF_00316:0.0567042,SA211_MHAAABBN_01659:0.0151885):0.00815593):5e-09):0.00767648):5e-09):0.0038409,((TT9_LFPAFLNI_01540:5e-09,((KD337_NAFOICDF_00621:0,KD337_NAFOICDF_00626:0):0.015475,(TT9_LFPAFLNI_00113:0,TT9_LFPAFLNI_01883:0):6e-09):0.00776783):0.00767609,((AS2_ACLBLIBL_00757:0,AS2_ACLBLIBL_01303:0,AS2_ACLBLIBL_02332:0):5e-09,((((KD337_NAFOICDF_01795:0,KD337_NAFOICDF_01837:0,KD337_NAFOICDF_02208:0):5e-09,SA211_MHAAABBN_01117:0.0153727):0.00768729,(AS2_ACLBLIBL_01280:5e-09,(AS2_ACLBLIBL_01313:0,AS2_ACLBLIBL_01318:0):0.0075694):0.0469002):5e-09,KBS0714_MOLHKGIG_01069:0.0155085):5e-09):6e-09):0.0038409);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000004_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_01829:0.197781,(AS2_ACLBLIBL_00899:0.363465,(((AS2_ACLBLIBL_00228:0,AS2_ACLBLIBL_00895:0):5e-09,(SA211_MHAAABBN_01012:0.0117236,AS2_ACLBLIBL_02100:0.0089123):3.0994e-05):6e-09,(((TT9_LFPAFLNI_01547:0,TT9_LFPAFLNI_01549:0,TT9_LFPAFLNI_01880:0):5e-09,(KBS0714_MOLHKGIG_02069:0.0236545,((KBS0714_MOLHKGIG_00376:0,KBS0714_MOLHKGIG_01393:0,KBS0714_MOLHKGIG_02112:0,KBS0714_MOLHKGIG_02277:0,SA211_MHAAABBN_00355:0,SA211_MHAAABBN_01125:0,SA211_MHAAABBN_01746:0,SA211_MHAAABBN_01819:0,SA211_MHAAABBN_02016:0,TT9_LFPAFLNI_00116:0,TT9_LFPAFLNI_01974:0):2.29e-07,SA211_MHAAABBN_01015:0.0262822):1.5e-08):0.00221533):0.00221677,((AS2_ACLBLIBL_00643:0,AS2_ACLBLIBL_01506:0):5e-09,AS2_ACLBLIBL_00229:5e-09):5e-09):5e-09):0.49002):0.197781);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000005_tree.txt

@@ -0,0 +1 @@
+((AS2_ACLBLIBL_01282:0.0474159,(KD337_NAFOICDF_00652:0.0407469,KD337_NAFOICDF_01820:0.0485152):0.0346098):0.0502116,((KD337_NAFOICDF_01361:0.0663089,(KD337_NAFOICDF_00641:0.0710684,KD337_NAFOICDF_01832:0.0346894):0.0142546):0.0590232,(KD337_NAFOICDF_00227:0.738206,((KD337_NAFOICDF_00678:0.778247,SA211_MHAAABBN_01778:1.05201):0.9675,(AS2_ACLBLIBL_02274:0.0104268,((KD337_NAFOICDF_00315:0,KD337_NAFOICDF_00645:0):0.0207267,((KD337_NAFOICDF_00631:0,KD337_NAFOICDF_02162:0):0.002895,((KD337_NAFOICDF_00751:0,KD337_NAFOICDF_01794:0):5e-09,(KD337_NAFOICDF_01890:0.0116332,(KD337_NAFOICDF_00627:5e-09,(((KD337_NAFOICDF_00226:5e-09,KD337_NAFOICDF_01835:0.00286801):5e-09,(KD337_NAFOICDF_00448:5e-09,KD337_NAFOICDF_02206:5e-09):0.00341406):0.00574301,KD337_NAFOICDF_00312:6e-09):0.00578196):5e-09):0.0028944):5e-09):0.0128706):0.00926003):0.202472):0.119986):0.169599):0.0502116);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000009_tree.txt

@@ -0,0 +1 @@
+((KBS0714_MOLHKGIG_00712:0,KBS0714_MOLHKGIG_01400:0,SA211_MHAAABBN_00091:0,SA211_MHAAABBN_00344:0,SA211_MHAAABBN_01014:0,SA211_MHAAABBN_01393:0,SA211_MHAAABBN_02283:0,TT9_LFPAFLNI_00607:0,TT9_LFPAFLNI_01017:0,TT9_LFPAFLNI_01157:0,TT9_LFPAFLNI_01350:0,TT9_LFPAFLNI_02163:0):2.5e-09,(KBS0714_MOLHKGIG_01503:0.0796831,KBS0714_MOLHKGIG_02228:0.00244825):2.5e-09);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000011_tree.txt

@@ -0,0 +1 @@
+((TT9_LFPAFLNI_02002:0.019923,(KBS0714_MOLHKGIG_02074:5e-09,(AS2_ACLBLIBL_00719:0.0143529,(KBS0714_MOLHKGIG_00616:0,SA211_MHAAABBN_00339:0,SA211_MHAAABBN_01779:0):0.0174026):0.141225):0.0395809):0.0226882,((TT9_LFPAFLNI_02005:0.893603,(KBS0714_MOLHKGIG_00609:0.00206275,SA211_MHAAABBN_01769:0.0551863):0.105956):0.075542,(AS2_ACLBLIBL_02366:0.0896787,(AS2_ACLBLIBL_00727:0.0183931,(SA211_MHAAABBN_00350:0.0149387,SA211_MHAAABBN_00789:5e-09):0.0432446):0.0328141):0.0956684):0.0226882);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000018_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_01886:0.013508,(TT9_LFPAFLNI_00899:0.0372964,((SA211_MHAAABBN_00342:0.0961499,TT9_LFPAFLNI_01543:0.288029):0.0685307,(SA211_MHAAABBN_01766:0.0425511,((AS2_ACLBLIBL_02497:0,AS2_ACLBLIBL_02616:0):5e-09,(AS2_ACLBLIBL_02275:0.0102694,AS2_ACLBLIBL_02634:5e-09):0.0102682):0.0226592):0.162111):0.230392):0.013508);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000019_tree.txt

@@ -0,0 +1 @@
+((KD337_NAFOICDF_00880:0.0423769,(KBS0714_MOLHKGIG_01915:0.00450215,(SA211_MHAAABBN_01611:0.00167757,TT9_LFPAFLNI_01835:5e-09)0.915:0.0090813)0.995:0.0981629)1:0.286273,(KD337_NAFOICDF_02288:0.0842702,(AS2_ACLBLIBL_02407:0.0434259,(TT9_LFPAFLNI_00545:0.00395954,(KBS0714_MOLHKGIG_00542:0.00312239,SA211_MHAAABBN_00267:0.0125146)0.763:0.00233325)0.983:0.0296226)0.782:0.0459401)1:0.286273);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000021_tree.txt

@@ -0,0 +1 @@
+((KD337_NAFOICDF_02437:0.576216,(AS2_ACLBLIBL_01839:0.551945,TT9_LFPAFLNI_00587:1.08451)0.959:0.228638)1:0.448381,(AS2_ACLBLIBL_00439:0.233083,(KD337_NAFOICDF_00392:0.179118,(KBS0714_MOLHKGIG_02297:0.00900788,(SA211_MHAAABBN_01990:0.00833318,TT9_LFPAFLNI_02238:0.00278536)0.808:0.00318286)1:0.185176)0.922:0.12125)1:0.448381);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000022_tree.txt

@@ -0,0 +1 @@
+((AS2_ACLBLIBL_00513:0.113678,KD337_NAFOICDF_00454:0.0445661)0.292:0.00463707,((KD337_NAFOICDF_01865:0.494812,(KD337_NAFOICDF_00440:0.75221,KD337_NAFOICDF_00650:1.0005)0.96:0.363807)0.99:0.342567,(KBS0714_MOLHKGIG_02238:0.00333617,(SA211_MHAAABBN_01940:0.0263141,TT9_LFPAFLNI_02170:0.00645885)0.832:0.00646765)0.874:0.0276298)0.292:0.00463707);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000030_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_02189:0.0259167,((AS2_ACLBLIBL_00410:5e-09,(AS2_ACLBLIBL_00389:5e-09,AS2_ACLBLIBL_00393:0.0302627):0.0101513):0.0101082,(KBS0714_MOLHKGIG_00627:0.0101356,(SA211_MHAAABBN_00372:0,TT9_LFPAFLNI_00604:0):5e-09):5e-09):0.0259167);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000032_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_01001:0.083454,((AS2_ACLBLIBL_00398:0.156203,AS2_ACLBLIBL_02643:0.809193):0.146632,((KBS0714_MOLHKGIG_01808:0,SA211_MHAAABBN_01505:0):0.0207031,(AS2_ACLBLIBL_01066:0.00926969,TT9_LFPAFLNI_01729:5e-09):0.0178622):0.108492):0.083454);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000038_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00712:0.113821,(((KBS0714_MOLHKGIG_01288:0,SA211_MHAAABBN_01007:0):0.00580768,TT9_LFPAFLNI_01246:0.00924807):0.117612,(AS2_ACLBLIBL_00620:0.29439,(KBS0714_MOLHKGIG_01627:0.011325,TT9_LFPAFLNI_01556:0.0103459):0.253559):0.176295):0.113821);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000039_tree.txt

@@ -0,0 +1 @@
+(((SA211_MHAAABBN_01802:0.000129633,KD337_NAFOICDF_00600:0.0666336)0.594:0.0178509,((KD337_NAFOICDF_02101:0.508884,TT9_LFPAFLNI_02031:0.613193)0.994:0.624187,KD337_NAFOICDF_00599:0.11184)0.449:0.0263865)0.748:0.00668536,(AS2_ACLBLIBL_00684:0.0387437,KBS0714_MOLHKGIG_02094:0.0410007)0.748:0.00668536);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000053_tree.txt

@@ -0,0 +1 @@
+((KD337_NAFOICDF_02076:0.375524,(KD337_NAFOICDF_00685:0.591129,KD337_NAFOICDF_00686:0.887975)0.968:0.508038)0.777:0.132238,(AS2_ACLBLIBL_02181:0.346323,(TT9_LFPAFLNI_00713:0.00776034,(SA211_MHAAABBN_00479:0.0261668,KBS0714_MOLHKGIG_00749:0.010459)0.766:0.00784635)0.94:0.168814)0.777:0.132238);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000055_tree.txt

@@ -0,0 +1 @@
+((KD337_NAFOICDF_00418:0.0325663,(KBS0714_MOLHKGIG_02261:0.0261664,TT9_LFPAFLNI_02192:0.0150979)0.663:0.00921526)0.958:0.115781,(KD337_NAFOICDF_00422:1.58451,(SA211_MHAAABBN_01948:0.0107584,(KBS0714_MOLHKGIG_02246:5e-09,TT9_LFPAFLNI_02178:0.00537302)0.598:2.422e-06)0.776:0.119768)0.958:0.115781);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000059_tree.txt

@@ -0,0 +1 @@
+((KD337_NAFOICDF_00035:0.0908422,KD337_NAFOICDF_01222:2.01679)0.843:0.0580221,(AS2_ACLBLIBL_00057:0.0860688,(SA211_MHAAABBN_00005:0.0338802,(KBS0714_MOLHKGIG_00297:0.013001,TT9_LFPAFLNI_00304:0.00871193)0.978:0.0296028)0.965:0.0594053)0.843:0.0580221);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000062_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_02346:0.128655,(SA211_MHAAABBN_00203:0.0498124,(KBS0714_MOLHKGIG_00279:0.00522382,(AS2_ACLBLIBL_00074:0.00533227,(SA211_MHAAABBN_02294:6e-09,TT9_LFPAFLNI_00278:0.00799105)0:6e-09)0.73:0.00542517)1:1.43474)1:0.128655);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000070_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00115:0.0627229,(AS2_ACLBLIBL_00588:1.46708,(AS2_ACLBLIBL_00157:0.132435,((KBS0714_MOLHKGIG_00223:0,SA211_MHAAABBN_02236:0):0.00866475,TT9_LFPAFLNI_00224:5e-09):0.0793393):0.0929253):0.0627229);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000071_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_02164:0.122944,((AS2_ACLBLIBL_00162:1.39379,AS2_ACLBLIBL_02307:0.0572831)0.804:0.0435128,(SA211_MHAAABBN_00393:5e-09,(KBS0714_MOLHKGIG_00656:5e-09,TT9_LFPAFLNI_00626:0.00354992)0.844:0.00354882)0.842:0.0215804)1:0.122944);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000073_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00321:0.42353,(AS2_ACLBLIBL_02206:0.72379,(AS2_ACLBLIBL_00167:0.0508411,(KBS0714_MOLHKGIG_00216:0,SA211_MHAAABBN_02209:0,TT9_LFPAFLNI_00216:0):0.154358):0.844921):0.42353);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000075_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_01744:1.8335e-05,((KBS0714_MOLHKGIG_01028:0,SA211_MHAAABBN_00743:0,TT9_LFPAFLNI_00972:0):0.0591364,(AS2_ACLBLIBL_00185:1.03623,AS2_ACLBLIBL_01852:0.802572):0.942112):1.8335e-05);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000078_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_02454:0.0315262,(AS2_ACLBLIBL_00193:1.16516,(AS2_ACLBLIBL_02595:0.04169,(KBS0714_MOLHKGIG_00366:0.00457497,(SA211_MHAAABBN_00082:0.00154096,TT9_LFPAFLNI_00373:0.00154183)0.858:0.0031645)0.968:0.0199633)0.892:0.0483287)1:0.0315262);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000079_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00149:3e-09,(KBS0714_MOLHKGIG_00198:0.00331156,(TT9_LFPAFLNI_00198:0.0166215,(SA211_MHAAABBN_02194:0.010156,(AS2_ACLBLIBL_00197:0.150878,SA211_MHAAABBN_02026:1.43192)0.965:0.217656)0.793:0.00643264)1:5e-09)1:3e-09);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000085_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_01503:0.163223,(AS2_ACLBLIBL_01608:0.131404,(AS2_ACLBLIBL_00354:0.109288,(SA211_MHAAABBN_02062:6e-09,(TT9_LFPAFLNI_00044:0.0140957,KBS0714_MOLHKGIG_00049:5e-09)0.832:0.00561735)0.997:0.12813)1:0.365245)1:0.163223);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000086_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00353:0.221281,(AS2_ACLBLIBL_00370:0.0256628,(AS2_ACLBLIBL_00371:0.0178197,(KBS0714_MOLHKGIG_00025:0.0157217,(TT9_LFPAFLNI_00025:0.0095722,SA211_MHAAABBN_02043:0.00638712)0.822:0.00717508)0.161:0.000661954)0.567:0.0199014)1:0.221281);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000093_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00419:0.0355731,(AS2_ACLBLIBL_00641:0.112115,(AS2_ACLBLIBL_00469:0.00568271,(TT9_LFPAFLNI_02198:0.00936818,(KBS0714_MOLHKGIG_02265:0.00257922,SA211_MHAAABBN_01960:0.0077685)0.744:0.00344861)0.849:0.00667517)0.999:0.0654001)1:0.0355731);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000099_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00518:0.364133,(AS2_ACLBLIBL_00595:0.110131,((KBS0714_MOLHKGIG_02162:5e-09,SA211_MHAAABBN_01875:0.0154399)0.789:0.012428,(TT9_LFPAFLNI_02107:6e-09,SA211_MHAAABBN_01876:0.0216387)0.922:0.0693043)0.96:0.208592)1:0.364133);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000101_tree.txt

@@ -0,0 +1 @@
+((AS2_ACLBLIBL_00658:0.103516,KD337_NAFOICDF_00718:0.629619)0.994:0.0386993,(KD337_NAFOICDF_00575:0.0166268,(SA211_MHAAABBN_01830:0.00241851,(KBS0714_MOLHKGIG_02122:0.00361238,TT9_LFPAFLNI_02060:0.00698486)0.945:0.00588296)0.867:0.0123145)0.994:0.0386993);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000102_tree.txt

@@ -0,0 +1 @@
+(KD337_NAFOICDF_00595:0.0719317,(AS2_ACLBLIBL_01500:1.41162,(AS2_ACLBLIBL_00681:0.0412738,((KBS0714_MOLHKGIG_02098:0,SA211_MHAAABBN_01805:0):0.00345045,TT9_LFPAFLNI_02038:5e-09):0.0257444):0.061948):0.0719317);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000103_tree.txt

@@ -0,0 +1 @@
+((KD337_NAFOICDF_00555:1.17161,(KBS0714_MOLHKGIG_02093:0.0263871,SA211_MHAAABBN_01801:0.042273)0.427:0.0699416)0.786:0.0609639,(SA211_MHAAABBN_01800:0.0650793,(AS2_ACLBLIBL_00685:0.0318044,KD337_NAFOICDF_00601:0.0321214)1:0.294598)0.786:0.0609639);

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/Gene_Trees/OG0000121_tree.txt

@@ -0,0 +1 @@
+((KD337_NAFOICDF_01022:0.182484,KD337_NAFOICDF_01806:1.47963)0.891:2.5e-09,(AS2_ACLBLIBL_01098:0.092118,(TT9_LFPAFLNI_01708:0.0135376,(KBS0714_MOLHKGIG_01779:0.0138312,SA211_MHAAABBN_01486:0.0141431)0.846:0.0115799)0.999:0.0881116)0.891:2.5e-09);