Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C116
  Reference Plasmid   CP058017.1
  Reference Plasmid Size   35166
  Reference Plasmid GC Content   0.41
  Reference Plasmid Mobility Type   conjugative





Mutation sites in the plasmid cluster


The table lists mutations identified in the plasmid cluster.
Note: Mutations identified in this plasmid cluster are listed below. Click on a mutation ID to view full details..

mutid gname pos count tissue frequnt biotype consequence impact nucchange aachange
M0144538 NBEOBJDP_00004 5557 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3465A>C None
M0144539 NBEOBJDP_00012 7149 3 Gut 1.00 protein_coding synonymous_variant LOW 555G>A Leu185Leu
M0144540 NBEOBJDP_00012 7290 3 Gut 1.00 protein_coding synonymous_variant LOW 696A>C Leu232Leu
M0144541 NBEOBJDP_00012 7318 3 Gut 1.00 protein_coding synonymous_variant LOW 724C>A Arg242Arg
M0144542 NBEOBJDP_00013 8225 3 Gut 1.00 protein_coding missense_variant MODERATE 663G>A Met221Ile
M0144543 NBEOBJDP_00013 8552 3 Gut 1.00 protein_coding synonymous_variant LOW 990A>G Ala330Ala
M0144544 NBEOBJDP_00013 8789 3 Gut 1.00 protein_coding synonymous_variant LOW 1227G>A Gly409Gly
M0144545 NBEOBJDP_00013 8804 3 Gut 1.00 protein_coding synonymous_variant LOW 1242G>A Thr414Thr
M0144546 NBEOBJDP_00013 8848 3 Gut 1.00 protein_coding missense_variant MODERATE 1286A>T Asn429Ile
M0144547 NBEOBJDP_00009 9005 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4612T>G None
M0144548 NBEOBJDP_00015 9498 3 Gut 1.00 protein_coding synonymous_variant LOW 342A>G Thr114Thr
M0144549 NBEOBJDP_00015 9752 3 Gut 1.00 protein_coding missense_variant MODERATE 88A>G Ile30Val
M0144550 NBEOBJDP_00015 9753 3 Gut 1.00 protein_coding synonymous_variant LOW 87G>A Glu29Glu
M0144551 NBEOBJDP_00016 9930 3 Gut 1.00 protein_coding synonymous_variant LOW 132C>T Asp44Asp
M0144552 NBEOBJDP_00016 9972 3 Gut 1.00 protein_coding synonymous_variant LOW 90G>A Lys30Lys
M0144553 NBEOBJDP_00017 10074 3 Gut 1.00 protein_coding missense_variant MODERATE 2138C>T Ala713Val
M0144554 NBEOBJDP_00017 10140 3 Gut 1.00 protein_coding missense_variant MODERATE 2072A>G Asn691Ser
M0144555 NBEOBJDP_00017 10224 3 Gut 1.00 protein_coding missense_variant MODERATE 1988C>T Ser663Phe
M0144556 NBEOBJDP_00017 10499 3 Gut 1.00 protein_coding synonymous_variant LOW 1713A>G Ala571Ala
M0144557 NBEOBJDP_00017 10799 3 Gut 1.00 protein_coding synonymous_variant LOW 1413G>T Leu471Leu
M0144558 NBEOBJDP_00017 10935 3 Gut 1.00 protein_coding missense_variant MODERATE 1277G>A Cys426Tyr
M0144559 NBEOBJDP_00017 11146 3 Gut 1.00 protein_coding missense_variant MODERATE 1066C>T Pro356Ser
M0144560 NBEOBJDP_00017 11514 3 Gut 1.00 protein_coding missense_variant MODERATE 698T>G Met233Arg
M0144561 NBEOBJDP_00017 11540 3 Gut 1.00 protein_coding synonymous_variant LOW 672T>C Val224Val
M0144562 NBEOBJDP_00017 11618 3 Gut 1.00 protein_coding synonymous_variant LOW 594C>A Pro198Pro
M0144563 NBEOBJDP_00017 11621 3 Gut 1.00 protein_coding synonymous_variant LOW 591A>T Thr197Thr
M0144564 NBEOBJDP_00017 11648 3 Gut 1.00 protein_coding synonymous_variant LOW 564C>T Gly188Gly
M0144565 NBEOBJDP_00017 11672 3 Gut 1.00 protein_coding synonymous_variant LOW 540T>G Pro180Pro
M0144566 NBEOBJDP_00017 11702 3 Gut 1.00 protein_coding synonymous_variant LOW 510A>C Gly170Gly
M0144567 NBEOBJDP_00017 11717 3 Gut 1.00 protein_coding synonymous_variant LOW 495C>T Ala165Ala
M0144568 NBEOBJDP_00017 11786 3 Gut 1.00 protein_coding synonymous_variant LOW 426G>A Ala142Ala
M0144569 NBEOBJDP_00017 11849 3 Gut 1.00 protein_coding synonymous_variant LOW 363C>A Gly121Gly
M0144570 NBEOBJDP_00017 11863 3 Gut 1.00 protein_coding synonymous_variant LOW 349T>C Leu117Leu
M0144571 NBEOBJDP_00017 11945 3 Gut 1.00 protein_coding synonymous_variant LOW 267A>G Glu89Glu
M0144572 NBEOBJDP_00017 12068 3 Gut 1.00 protein_coding synonymous_variant LOW 144A>G Gln48Gln
M0144573 NBEOBJDP_00017 12194 3 Gut 1.00 protein_coding synonymous_variant LOW 18T>A Ala6Ala
M0144574 NBEOBJDP_00018 12240 3 Gut 1.00 protein_coding missense_variant MODERATE 552A>C Lys184Asn
M0144575 NBEOBJDP_00018 12243 3 Gut 1.00 protein_coding synonymous_variant LOW 549C>A Ala183Ala
M0144576 NBEOBJDP_00018 12252 3 Gut 1.00 protein_coding synonymous_variant LOW 540C>T Ile180Ile
M0144577 NBEOBJDP_00018 12270 3 Gut 1.00 protein_coding synonymous_variant LOW 522G>A Val174Val
M0144578 NBEOBJDP_00018 12316 3 Gut 1.00 protein_coding missense_variant MODERATE 476A>G His159Arg
M0144579 NBEOBJDP_00018 12324 3 Gut 1.00 protein_coding synonymous_variant LOW 468T>C Gly156Gly
M0144580 NBEOBJDP_00018 12363 3 Gut 1.00 protein_coding synonymous_variant LOW 429T>G Thr143Thr
M0144581 NBEOBJDP_00018 12369 3 Gut 1.00 protein_coding synonymous_variant LOW 423T>C Ile141Ile
M0144582 NBEOBJDP_00018 12376 3 Gut 1.00 protein_coding stop_gained HIGH 416G>A Trp139*
M0144583 NBEOBJDP_00018 12377 3 Gut 1.00 protein_coding missense_variant MODERATE 415T>C Trp139Arg
M0144584 NBEOBJDP_00018 12378 3 Gut 1.00 protein_coding missense_variant MODERATE 414G>C Glu138Asp
M0144585 NBEOBJDP_00018 12405 3 Gut 1.00 protein_coding synonymous_variant LOW 387C>T Ala129Ala
M0144586 NBEOBJDP_00018 12420 3 Gut 1.00 protein_coding synonymous_variant LOW 372G>A Ser124Ser
M0144587 NBEOBJDP_00018 12462 3 Gut 1.00 protein_coding synonymous_variant LOW 330G>A Ala110Ala
M0144588 NBEOBJDP_00018 12465 3 Gut 1.00 protein_coding synonymous_variant LOW 327A>C Ala109Ala
M0144589 NBEOBJDP_00018 12489 3 Gut 1.00 protein_coding synonymous_variant LOW 303T>A Gly101Gly
M0144590 NBEOBJDP_00018 12503 3 Gut 1.00 protein_coding synonymous_variant LOW 289C>T Leu97Leu
M0144591 NBEOBJDP_00018 12510 3 Gut 1.00 protein_coding synonymous_variant LOW 282A>C Thr94Thr
M0144592 NBEOBJDP_00018 12645 3 Gut 1.00 protein_coding synonymous_variant LOW 147C>T Gly49Gly
M0144593 NBEOBJDP_00018 12651 3 Gut 1.00 protein_coding synonymous_variant LOW 141T>C Cys47Cys
M0144594 NBEOBJDP_00018 12670 3 Gut 1.00 protein_coding missense_variant MODERATE 122C>T Ala41Val
M0144595 NBEOBJDP_00018 12756 3 Gut 1.00 protein_coding missense_variant MODERATE 36T>A Asn12Lys
M0144596 NBEOBJDP_00018 12765 3 Gut 1.00 protein_coding missense_variant MODERATE 27T>G Phe9Leu
M0144597 NBEOBJDP_00018 12767 3 Gut 1.00 protein_coding missense_variant MODERATE 25T>C Phe9Leu
M0144598 NBEOBJDP_00018 12768 3 Gut 1.00 protein_coding synonymous_variant LOW 24A>G Gly8Gly
M0144599 NBEOBJDP_00018 12769 3 Gut 1.00 protein_coding missense_variant MODERATE 23G>C Gly8Ala
M0144600 NBEOBJDP_00018 12776 3 Gut 1.00 protein_coding missense_variant MODERATE 16T>G Phe6Val
M0144601 NBEOBJDP_00018 12777 3 Gut 1.00 protein_coding synonymous_variant LOW 15G>A Leu5Leu
M0144602 NBEOBJDP_00019 12849 3 Gut 1.00 protein_coding synonymous_variant LOW 1209A>G Glu403Glu
M0144603 NBEOBJDP_00019 12861 3 Gut 1.00 protein_coding synonymous_variant LOW 1197A>G Glu399Glu
M0144604 NBEOBJDP_00019 12888 3 Gut 1.00 protein_coding synonymous_variant LOW 1170T>C Ser390Ser
M0144605 NBEOBJDP_00019 12939 3 Gut 1.00 protein_coding synonymous_variant LOW 1119T>G Val373Val
M0144606 NBEOBJDP_00019 12963 3 Gut 1.00 protein_coding synonymous_variant LOW 1095A>C Arg365Arg
M0144607 NBEOBJDP_00022 15526 3 Gut 1.00 protein_coding missense_variant MODERATE 197T>C Phe66Ser
M0144608 NBEOBJDP_00025 16541 3 Gut 1.00 protein_coding synonymous_variant LOW 1827A>T Val609Val
M0144609 NBEOBJDP_00025 16640 3 Gut 1.00 protein_coding synonymous_variant LOW 1728A>G Thr576Thr
M0144610 NBEOBJDP_00025 17879 3 Gut 1.00 protein_coding synonymous_variant LOW 489T>C Val163Val
M0144611 NBEOBJDP_00025 18059 3 Gut 1.00 protein_coding synonymous_variant LOW 309T>C Ala103Ala
M0144612 NBEOBJDP_00026 19027 3 Gut 1.00 protein_coding synonymous_variant LOW 375G>C Gly125Gly
M0144613 NBEOBJDP_00027 19694 3 Gut 1.00 protein_coding synonymous_variant LOW 915T>A Ser305Ser
M0144614 NBEOBJDP_00027 19742 3 Gut 1.00 protein_coding synonymous_variant LOW 867C>A Pro289Pro
M0144615 NBEOBJDP_00028 21427 3 Gut 1.00 protein_coding synonymous_variant LOW 108A>C Ile36Ile
M0144616 NBEOBJDP_00025 22347 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3980C>T None
M0144617 NBEOBJDP_00031 23912 3 Gut 1.00 protein_coding synonymous_variant LOW 12A>C Ile4Ile
M0144618 NBEOBJDP_00032 24302 3 Gut 1.00 protein_coding synonymous_variant LOW 381T>C Cys127Cys
M0144619 NBEOBJDP_00033 25389 3 Gut 1.00 protein_coding synonymous_variant LOW 2058G>A Gly686Gly
M0144620 NBEOBJDP_00033 26933 3 Gut 1.00 protein_coding missense_variant MODERATE 514G>T Ala172Ser
M0144621 NBEOBJDP_00035 27893 3 Gut 1.00 protein_coding missense_variant MODERATE 494T>A Ile165Lys
M0144622 NBEOBJDP_00032 29197 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4515C>T None
M0144623 NBEOBJDP_00032 29258 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4576A>G None
M0144624 NBEOBJDP_00032 29266 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4584A>G None
M0144625 NBEOBJDP_00032 29267 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4585G>A None
M0144626 NBEOBJDP_00032 29268 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4586T>C None
M0144627 NBEOBJDP_00032 29284 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4602C>T None
M0144628 NBEOBJDP_00032 29295 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4613T>G None
M0144629 NBEOBJDP_00032 29397 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4715T>A None
M0144630 NBEOBJDP_00032 29431 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4749G>T None
M0144631 NBEOBJDP_00037 29668 3 Gut 1.00 protein_coding missense_variant MODERATE 931A>G Asn311Asp
M0144632 NBEOBJDP_00033 31179 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3733A>G None
M0144633 NBEOBJDP_00033 31188 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3742G>A None
M0144634 NBEOBJDP_00042 32072 3 Gut 1.00 protein_coding missense_variant MODERATE 83T>G Ile28Arg
M0144635 NBEOBJDP_00045 32849 3 Gut 1.00 protein_coding missense_variant MODERATE 221T>C Ile74Thr
M0144636 NBEOBJDP_00045 32902 3 Gut 1.00 protein_coding synonymous_variant LOW 168T>C Leu56Leu
M0144637 NBEOBJDP_00037 34244 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3646T>C None






Analysis of virulence factors contributing to bacterial pathogenicity


This table presents virulence factors identified within the plasmid cluster.
      Note: Virulence factor analysis was performed using VFDB. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known virulence factors are listed.

Gene Name vf_gene_id vf_name identity evalue qstart qend query_coverage subject_coverage vf_category gene_description condition







        Analysis of biocide and heavy metal resistance genes to assess antimicrobial risk and environmental impact


This table presents biocides and heavy metals resistance genes identified within the plasmid cluster.
      Note: Analyzing biocide and heavy metal resistance genes based on BacMet to evaluate bacterial resistance risk and the potential impact of environmental heavy metal contamination. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, E-value < 1e-5) to known biocide and heavy metal resistance genes are listed.

Gene Name compound identity evalue qstart qend query_coverage subject_coverage group






        Analyzing antimicrobial resistance genes to assess bacterial resistance to antibiotics and other antimicrobial agents


This table presents antimicrobial resistance genes identified within the plasmid cluster.
      Note: Antimicrobial resistance was performed using CARD. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known antimicrobial resistance genes are listed.

Gene Name aro_accession identity evalue qstart qend query_coverage subject_coverage drug_class amr_gene_family resistance_mechanism






Analysis of pathogenicity genes to explore pathogen-host interactions


This table presents host pathogen-host interactions within the plasmid cluster.
      Note: Analyzing pathogenicity-related genes using PHI-base to understand pathogen virulence mechanisms and their impact on host interactions. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e-5) to known pathogenicity-related genes are listed.

Gene Name phi_molconn_id host gene_name identity evalue qstart qend query_coverage subject_coverage host_descripton disease_name function phenotype_of_mutant






        Analyzing carbohydrate-active enzyme genes to uncover mechanisms of nutrient degradation


This table presents carbohydrate-active enzyme genes identified within the plasmid cluster.
      Note: Annotation of carbohydrate-active enzyme genes was performed using CAZy to explore mechanisms of nutrient breakdown and utilization. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known CAZyme genes are listed.

Gene Name cazy_id identity evalue qstart qend query_coverage subject_coverage
NBEOBJDP_00035 AWH59259.1|GH23 99.5 2.16e-152 1 215 1 1





        Analyzing transport proteins to understand bacterial strategies for substrate uptake and detoxification


This table presents transport proteins within the plasmid cluster.
      Note: Investigation of transport proteins based on TCDB to uncover bacterial mechanisms of substrate transport and environmental detoxification. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known transport protein entries are listed.

Gene Name tcid identity evalue qstart qend query_coverage subject_coverage class_field class_term subclass subclass_term family family_term