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Feature Counts


Feature
ORFs136015
rRNA281
tRNA1607
rfamRNA2483
Uniprot126540
KEGG89202
COG81194
InterPro98602
GO67235
TotalAnnotatedGenes131640
TotalUnassignedGenes8745
Bioactive Genes 163
Industrial Proteins of Interest (POIs) 26520
Total contigs or gene catalogue genes11479


Retreive sequences
OR

Provide Taxonomic-level for contig binning
Phylum   Class   Order   Family   Genus
Species

See refined binning report with links to fasta sets: 19 bin(s) & bins plot, scores plot.


rfam taxonomy assignments , counts for top 10 categories

163BacteriaFirmicutesBacilliBacillalesExiguobacterium_unresolvedExiguobacteriumExiguobacterium sibiricum:262543
108BacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccusParacoccus denitrificans:318586
61BacteriaBacteroidetesChitinophagiaChitinophagalesChitinophagaceaeChitinophagaChitinophaga pinensis:485918
47BacteriaProteobacteriaDeltaproteobacteriaDesulfobacteralesDesulfobacteraceaeDesulfatibacillumDesulfatibacillum alkenivorans:439235
36BacteriaProteobacteriaBetaproteobacteriaBurkholderialesAlcaligenaceaeAchromobacterAlcaligenes xylosoxydans xylosoxydans Achromobacter xylosoxidans:762376
26BacteriaFirmicutesBacilliBacillalesBacillaceaeAnoxybacillusAnoxybacillus flavithermus:491915
25BacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeJannaschiaJannaschia sp strain CCS1:290400
24BacteriaBacteroidetesCytophagiaCytophagalesCytophagaceaeDyadobacterDyadobacter fermentans:471854
23BacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaePseudoxanthomonasPseudoxanthomonas suwonensis:743721
19BacteriaFirmicutesClostridiaClostridialesClostridiaceaeAlkaliphilusAlkaliphilus metalliredigens:293826

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rrna taxonomy assignments , counts for top 10 categories

33BacteriaFirmicutesBacilliBacillalesExiguobacterium_unresolvedExiguobacteriumExiguobacterium antarcticum:1087448
28BacteriaBacteroidetesChitinophagiaChitinophagalesChitinophagaceaeNiastellaNiastella koreensis:700598
14BacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccusParacoccus denitrificans:318586
13BacteriaBacteroidetesChitinophagiaChitinophagalesChitinophagaceaeHydrotaleaHydrotalea sandarakina:1004304
9BacteriaBacteroidetesFlavobacteriiaFlavobacterialesFlavobacteriaceaeNonlabensNonlabens dokdonensis:592029
9BacteriaFirmicutesClostridiaClostridialesPeptostreptococcaceaeClostridioidesClostridioides difficile Peptoclostridium difficile:272563
8BacteriaTenericutesMollicutesEntomoplasmatalesSpiroplasmataceaeSpiroplasmaSpiroplasma mirum:838561
8BacteriaProteobacteriaBetaproteobacteriaBurkholderialesOxalobacteraceaeCollimonasCollimonas fungivorans:1005048
7BacteriaBacteroidetesChitinophagiaChitinophagalesChitinophagaceaeChitinophagaChitinophaga pinensis:485918
7BacteriaTenericutesMollicutesAnaeroplasmatalesAnaeroplasmataceaeAnaeroplasmaAnaeroplasma bactoclasticum:2088

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coding taxonomy assignments , counts for top 10 categories

13234BacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccusParacoccus denitrificans:318586
7712BacteriaBacteroidetesChitinophagiaChitinophagalesChitinophagaceaeFlavisolibacterFlavisolibacter ginsengisoli:1121884
5954BacteriaFirmicutesBacilliBacillalesExiguobacterium_unresolvedExiguobacteriumExiguobacterium sp RIT341:1470592
5268BacteriaProteobacteriaBetaproteobacteriaBurkholderialesOxalobacteraceaeMassiliaMassilia sp Root351:1736522
5236Unclassified_OtherUnclassified_Other_unclassifiedUnclassified_Other_unclassifiedUnclassified_Other_unclassifiedUnclassified_Other_unclassifiedUnclassified_Other_unresolvedmine drainage metagenome:410659
5093BacteriaProteobacteriaDeltaproteobacteriaDesulfobacteralesDesulfobacteraceaeDesulfatibacillumDesulfatibacillum alkenivorans:1121393
4219BacteriaProteobacteriaBetaproteobacteriaNeisserialesChromobacteriaceaeAndreprevotiaAndreprevotia lacus:1121001
4027BacteriaFirmicutesClostridiaClostridialesLachnospiraceaeAnaerosporobacterAnaerosporobacter mobilis:1120996
3517BacteriaFirmicutesClostridiaClostridialesClostridiaceaeParamaledivibacterParamaledivibacter caminithermalis:1121301
3094BacteriaChloroflexiKtedonobacteriaKtedonobacteralesKtedonobacteraceaeKtedonobacterKtedonobacter racemifer:485913

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combined taxonomy assignments , counts for top 10 categories

13356BacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccusParacoccus denitrificans:318586
7712BacteriaBacteroidetesChitinophagiaChitinophagalesChitinophagaceaeFlavisolibacterFlavisolibacter ginsengisoli:1121884
5954BacteriaFirmicutesBacilliBacillalesExiguobacterium_unresolvedExiguobacteriumExiguobacterium sp RIT341:1470592
5268BacteriaProteobacteriaBetaproteobacteriaBurkholderialesOxalobacteraceaeMassiliaMassilia sp Root351:1736522
5236Unclassified_OtherUnclassified_Other_unclassifiedUnclassified_Other_unclassifiedUnclassified_Other_unclassifiedUnclassified_Other_unclassifiedUnclassified_Other_unresolvedmine drainage metagenome:410659
5093BacteriaProteobacteriaDeltaproteobacteriaDesulfobacteralesDesulfobacteraceaeDesulfatibacillumDesulfatibacillum alkenivorans:1121393
4219BacteriaProteobacteriaBetaproteobacteriaNeisserialesChromobacteriaceaeAndreprevotiaAndreprevotia lacus:1121001
4027BacteriaFirmicutesClostridiaClostridialesLachnospiraceaeAnaerosporobacterAnaerosporobacter mobilis:1120996
3517BacteriaFirmicutesClostridiaClostridialesClostridiaceaeParamaledivibacterParamaledivibacter caminithermalis:1121301
3098BacteriaChloroflexiKtedonobacteriaKtedonobacteralesKtedonobacteraceaeKtedonobacterKtedonobacter racemifer:485913

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DOMAINS , counts for top 10 categories

2406DomainIPR003439:ABC transporter-like
1821Conserved_siteIPR017871:ABC transporter, conserved site
1566DomainIPR001789:Signal transduction response regulator, receiver domain
1225DomainIPR003594:Histidine kinase-like ATPase, C-terminal domain
1127DomainIPR000515:ABC transporter type 1, transmembrane domain MetI-like
778DomainIPR003661:Signal transduction histidine kinase, dimerisation/phosphoacceptor domain
763DomainIPR000182:GNAT domain
662FamilyIPR011701:Major facilitator superfamily
639DomainIPR005119:LysR, substrate-binding
610DomainIPR000847:Transcription regulator HTH, LysR

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All Annotation Sources Summary , counts for top 10 categories

38103Protein(ORF)With AnnotationUNIPROTCOGKEGGDOMAINSGOBIOACTIVEs-NAIndustrialPOIs-NA
20577Protein(ORF)With AnnotationUNIPROTCOG-NAKEGG-NADOMAINS-NAGO-NABIOACTIVEs-NAIndustrialPOIs-NA
17779Protein(ORF)With AnnotationUNIPROTCOGKEGGDOMAINSGOBIOACTIVEs-NAIndustrialPOIs
10787Protein(ORF)With AnnotationUNIPROTCOGKEGGDOMAINSGO-NABIOACTIVEs-NAIndustrialPOIs-NA
9021Protein(ORF)With AnnotationUNIPROTCOG-NAKEGG-NADOMAINSGO-NABIOACTIVEs-NAIndustrialPOIs-NA
8745Protein(ORF)Without AnnotationUNIPROT-NACOG-NAKEGG-NADOMAINS-NAGO-NABIOACTIVEs-NAIndustrialPOIs-NA
5164Protein(ORF)With AnnotationUNIPROTCOG-NAKEGGDOMAINSGOBIOACTIVEs-NAIndustrialPOIs-NA
3823Protein(ORF)With AnnotationUNIPROTCOGKEGGDOMAINS-NAGO-NABIOACTIVEs-NAIndustrialPOIs-NA
3604Protein(ORF)With AnnotationUNIPROTCOGKEGGDOMAINSGO-NABIOACTIVEs-NAIndustrialPOIs
3298Protein(ORF)With AnnotationUNIPROTCOG-NAKEGGDOMAINSGO-NABIOACTIVEs-NAIndustrialPOIs-NA

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COG , counts for top 10 categories

575METABOLISMInorganic ion transport and metabolismCOG1629
540INFORMATION STORAGE AND PROCESSINGTranscriptionCOG0583
529METABOLISMSecondary metabolites biosynthesis, transport and catabolismCOG1028
529METABOLISMLipid transport and metabolismCOG1028
529POORLY CHARACTERIZEDGeneral function prediction onlyCOG1028
454INFORMATION STORAGE AND PROCESSINGTranscriptionCOG0745
454CELLULAR PROCESSES AND SIGNALINGSignal transduction mechanismsCOG0745
446METABOLISMCarbohydrate transport and metabolismCOG0477
446METABOLISMInorganic ion transport and metabolismCOG0477
446METABOLISMAmino acid transport and metabolismCOG0477

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IndustrialPOIs , counts for top 10 categories

569High Identities >=45%Medicine_and_PharmaDrug_development.POIOxidoreductases.NADH:ubiquinone reductase (H(+)-translocating).EC:1.6.5.3
569High Identities >=45%EnvironmentDegradation.POIOxidoreductases.NADH:ubiquinone reductase (H(+)-translocating).EC:1.6.5.3
390High Identities >=45%Medicine_and_PharmaPharmaceutical_generic.POIHydrolases.DNA helicase.EC:3.6.4.12
389High Identities >=45%AnalyticsDiagnostics_generic.POITransferases.DNA-directed DNA polymerase.EC:2.7.7.7
389High Identities >=45%Molecular_biologyMolecular_biology.POITransferases.DNA-directed DNA polymerase.EC:2.7.7.7
389High Identities >=45%Medicine_and_PharmaDrug_development.POITransferases.DNA-directed DNA polymerase.EC:2.7.7.7
260Low Identities <45%Molecular_biologyMolecular_biology.POITransferases.Diguanylate cyclase.EC:2.7.7.65
260Low Identities <45%Bioprocess_engineeringSynthesis.POITransferases.Diguanylate cyclase.EC:2.7.7.65
209High Identities >=45%Medicine_and_PharmaDrug_development.POITransferases.DNA-directed RNA polymerase.EC:2.7.7.6
209High Identities >=45%AnalyticsAnalysis.POITransferases.DNA-directed RNA polymerase.EC:2.7.7.6

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AntiBioticResistance , counts for top 10 categories

157multidrugmultidrug_ABC_transporter
132glycopeptidevanR
54multidrugompR
53bacitracinbcrA
42tetracyclinetetA(48)
34unclassifiedtruncated_putative_response_regulator_ArlR
34glycopeptidevanH
31bacitracinbacA
29glycopeptidevanRI
27aminoglycosidekasugamycin_resistance_protein_ksgA

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BIOACTIVEs , counts for top 10 categories

46High Identities >=45%secretedEnolase Sourceseno
26High Identities >=45%toxinRibonuclease VapC SourcesvapC
7High Identities >=45%secretedFlagellar hook-associated protein 1 SourcesflgK
6High Identities >=45%secretedFlagellar hook-associated protein 2 SourcesBW42_01905
5High Identities >=45%secretedMannan endo-1,4-beta-mannosidase SourcesSAMN05444277_103157
5High Identities >=45%secretedFlagellin SourcesBW42_01899
5High Identities >=45%secretedFlagellin SourcesABE65_018055
3High Identities >=45%secretedFlagellin SourcesPden_1620
3High Identities >=45%secretedFlagellin SourcesPden_2698
2High Identities >=45%secretedMannan endo-1,4-beta-mannosidase SourcesSAMN02745131_00026

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GO , counts for top 10 categories

7369Molecular FunctionATP bindingGO:0005524
7152Subcellular LocationmembraneGO:0016020
7133Biological Processoxidation-reduction processGO:0055114
5037Subcellular Locationintegral to membraneGO:0016021
4844Molecular FunctionDNA bindingGO:0003677
4564Biological ProcesstransportGO:0006810
4511Biological Processregulation of transcription, DNA-dependentGO:0006355
4034Molecular Functionoxidoreductase activityGO:0016491
4028Molecular Functioncatalytic activityGO:0003824
4006Biological Processmetabolic processGO:0008152

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KEGG , counts for top 10 categories

464TransportersSuperPathway-NASpecific-Pathway-NAPathway-NAiron complex outermembrane recepter protein
464noBRITEcategorySuperPathway-NASpecific-Pathway-NAPathway-NAiron complex outermembrane recepter protein
372noBRITEcategorySuperPathway-NASpecific-Pathway-NAPathway-NAputative transposase
354Transcription machinerySuperPathway-NASpecific-Pathway-NAPathway-NARNA polymerase sigma-70 factor, ECF subfamily
354noBRITEcategorySuperPathway-NASpecific-Pathway-NAPathway-NARNA polymerase sigma-70 factor, ECF subfamily
298Bacterial motility proteinsCellular ProcessesCell motilityBacterial chemotaxismethyl-accepting chemotaxis protein
298KEGG Orthology (KO)Environmental Information ProcessingSignal transductionTwo-component systemmethyl-accepting chemotaxis protein
298noBRITEcategoryEnvironmental Information ProcessingSignal transductionTwo-component systemmethyl-accepting chemotaxis protein
298Bacterial motility proteinsEnvironmental Information ProcessingSignal transductionTwo-component systemmethyl-accepting chemotaxis protein
298KEGG Orthology (KO)Cellular ProcessesCell motilityBacterial chemotaxismethyl-accepting chemotaxis protein

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Results are available as shown below.
  • All annotation result files and interactive html graphs, also explained here.
  • All annotation result files archived in one tar.gz file {right click and save}

  • NOTE:If you want to add these annotations to INDIGO or DMAP, please write to us quoting this tag:

    1502720332816_CamiLowProdigalV2_40.0_intikhab.

    Annotate another genome or metagenome data through DMAP


    NOTE: if you use these results in your publication(s), please do cite AAMG:
    Alam I, et al. (2018) Enabling Access to Analytics of Massive Metagenomics Data through DMAP. In prep.
    Alam I, et al. (2013) INDIGO: An INtegrated annotation Data warehouse system for mIcrobial GenOmes with examples from the Red Sea extremophiles. plosOne (pubmed:24324765)