Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C598
  Reference Plasmid   NZ_CP035813.1
  Reference Plasmid Size   99955
  Reference Plasmid GC Content   0.53
  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
M0169112 FNGMICHP_00015 12938 3 Gut 0.43 protein_coding missense_variant MODERATE 140A>G His47Arg
M0169113 FNGMICHP_00024 23106 3 Gut 0.43 protein_coding synonymous_variant LOW 85T>C Leu29Leu
M0169114 FNGMICHP_00025 23598 3 Gut 0.43 protein_coding missense_variant MODERATE 122A>C Glu41Ala
M0169115 FNGMICHP_00026 23859 3 Gut 0.43 protein_coding missense_variant MODERATE 25A>G Ile9Val
M0169116 FNGMICHP_00026 24002 3 Gut 0.43 protein_coding synonymous_variant LOW 168A>G Arg56Arg
M0169117 FNGMICHP_00026 24122 3 Gut 0.43 protein_coding synonymous_variant LOW 288C>T His96His
M0169118 FNGMICHP_00026 24146 3 Gut 0.43 protein_coding synonymous_variant LOW 312C>T Tyr104Tyr
M0169119 FNGMICHP_00030 29934 3 Gut 0.43 protein_coding missense_variant MODERATE 355A>G Ile119Val
M0169120 FNGMICHP_00035 34607 3 Gut 0.43 protein_coding synonymous_variant LOW 219C>T Gly73Gly
M0169121 FNGMICHP_00034 37801 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3520G>T None
M0169122 FNGMICHP_00034 37848 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3567T>C None
M0169123 FNGMICHP_00034 37857 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3576A>C None
M0169124 FNGMICHP_00042 39620 3 Gut 0.43 protein_coding synonymous_variant LOW 795A>C Ile265Ile
M0169125 FNGMICHP_00042 39631 3 Gut 0.43 protein_coding missense_variant MODERATE 806A>G Asp269Gly
M0169126 FNGMICHP_00042 39671 3 Gut 0.43 protein_coding synonymous_variant LOW 846T>C Ser282Ser
M0169127 FNGMICHP_00042 39677 3 Gut 0.43 protein_coding synonymous_variant LOW 852T>G Leu284Leu
M0169128 FNGMICHP_00042 39713 3 Gut 0.43 protein_coding synonymous_variant LOW 888C>T Pro296Pro
M0169129 FNGMICHP_00042 39716 3 Gut 0.43 protein_coding synonymous_variant LOW 891C>G Pro297Pro
M0169130 FNGMICHP_00043 40213 3 Gut 0.43 protein_coding synonymous_variant LOW 75C>G Arg25Arg
M0169131 FNGMICHP_00043 40319 3 Gut 0.43 protein_coding missense_variant MODERATE 181G>A Ala61Thr
M0169132 FNGMICHP_00043 40684 3 Gut 0.43 protein_coding synonymous_variant LOW 546T>C Ala182Ala
M0169133 FNGMICHP_00043 41131 3 Gut 0.43 protein_coding synonymous_variant LOW 993A>C Gly331Gly
M0169134 FNGMICHP_00046 44206 3 Gut 0.43 protein_coding missense_variant MODERATE 112A>G Arg38Gly
M0169135 FNGMICHP_00047 44452 3 Gut 0.43 protein_coding missense_variant MODERATE 286A>G Thr96Ala
M0169136 FNGMICHP_00047 44588 3 Gut 0.43 protein_coding synonymous_variant LOW 150G>A Gln50Gln
M0169137 FNGMICHP_00047 44718 3 Gut 0.43 protein_coding missense_variant MODERATE 20T>G Val7Gly
M0169138 FNGMICHP_00047 44771 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -34G>A None
M0169139 FNGMICHP_00048 44907 3 Gut 0.43 protein_coding synonymous_variant LOW 2646G>A Gly882Gly
M0169140 FNGMICHP_00048 45543 3 Gut 0.43 protein_coding synonymous_variant LOW 2010G>A Ala670Ala
M0169141 FNGMICHP_00048 45774 3 Gut 0.43 protein_coding synonymous_variant LOW 1779A>G Glu593Glu
M0169142 FNGMICHP_00048 45874 3 Gut 0.43 protein_coding missense_variant MODERATE 1679T>C Leu560Pro
M0169143 FNGMICHP_00048 46408 3 Gut 0.43 protein_coding missense_variant MODERATE 1145C>T Thr382Ile
M0169144 FNGMICHP_00048 46478 3 Gut 0.43 protein_coding missense_variant MODERATE 1075T>C Tyr359His
M0169145 FNGMICHP_00048 46770 3 Gut 0.43 protein_coding synonymous_variant LOW 783G>A Leu261Leu
M0169146 FNGMICHP_00048 46779 3 Gut 0.43 protein_coding synonymous_variant LOW 774A>G Gln258Gln
M0169147 FNGMICHP_00048 47084 3 Gut 0.43 protein_coding missense_variant MODERATE 469A>G Ile157Val
M0169148 FNGMICHP_00048 47412 3 Gut 0.43 protein_coding synonymous_variant LOW 141C>A Arg47Arg
M0169149 FNGMICHP_00049 47681 3 Gut 0.43 protein_coding synonymous_variant LOW 216C>T Arg72Arg
M0169150 FNGMICHP_00049 47743 3 Gut 0.43 protein_coding missense_variant MODERATE 154G>A Asp52Asn
M0169151 FNGMICHP_00047 48076 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3339C>A None
M0169152 FNGMICHP_00047 48086 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3349T>C None
M0169153 FNGMICHP_00047 48099 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3362T>C None
M0169154 FNGMICHP_00047 48109 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3372C>A None
M0169155 FNGMICHP_00050 48200 3 Gut 0.43 protein_coding synonymous_variant LOW 72T>C Asp24Asp
M0169156 FNGMICHP_00050 48271 3 Gut 0.43 protein_coding missense_variant MODERATE 143A>G Lys48Arg
M0169157 FNGMICHP_00047 48471 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3734C>T None
M0169158 FNGMICHP_00051 48574 3 Gut 0.43 protein_coding synonymous_variant LOW 825A>T Pro275Pro
M0169159 FNGMICHP_00051 48717 3 Gut 0.43 protein_coding missense_variant MODERATE 682A>C Ile228Leu
M0169160 FNGMICHP_00051 48844 3 Gut 0.43 protein_coding synonymous_variant LOW 555T>C Asn185Asn
M0169161 FNGMICHP_00051 48865 3 Gut 0.43 protein_coding synonymous_variant LOW 534T>C Asn178Asn
M0169162 FNGMICHP_00051 48892 3 Gut 0.43 protein_coding synonymous_variant LOW 507C>T Arg169Arg
M0169163 FNGMICHP_00051 48949 3 Gut 0.43 protein_coding synonymous_variant LOW 450G>A Gly150Gly
M0169164 FNGMICHP_00051 48954 3 Gut 0.43 protein_coding missense_variant MODERATE 445C>A Gln149Lys
M0169165 FNGMICHP_00051 48961 3 Gut 0.43 protein_coding synonymous_variant LOW 438G>A Thr146Thr
M0169166 FNGMICHP_00051 48973 3 Gut 0.43 protein_coding synonymous_variant LOW 426C>T Ser142Ser
M0169167 FNGMICHP_00051 48982 3 Gut 0.43 protein_coding synonymous_variant LOW 417T>G Leu139Leu
M0169168 FNGMICHP_00051 49096 3 Gut 0.43 protein_coding synonymous_variant LOW 303T>G Thr101Thr
M0169169 FNGMICHP_00051 49102 3 Gut 0.43 protein_coding synonymous_variant LOW 297G>A Thr99Thr
M0169170 FNGMICHP_00051 49114 3 Gut 0.43 protein_coding synonymous_variant LOW 285T>C Asp95Asp
M0169171 FNGMICHP_00051 49141 3 Gut 0.43 protein_coding synonymous_variant LOW 258T>C Thr86Thr
M0169172 FNGMICHP_00051 49151 3 Gut 0.43 protein_coding missense_variant MODERATE 248A>G Lys83Arg
M0169173 FNGMICHP_00051 49156 3 Gut 0.43 protein_coding synonymous_variant LOW 243A>G Ala81Ala
M0169174 FNGMICHP_00051 49179 3 Gut 0.43 protein_coding missense_variant MODERATE 220T>C Cys74Arg
M0169175 FNGMICHP_00051 49180 3 Gut 0.43 protein_coding synonymous_variant LOW 219A>T Arg73Arg
M0169176 FNGMICHP_00051 49198 3 Gut 0.43 protein_coding synonymous_variant LOW 201T>C Cys67Cys
M0169177 FNGMICHP_00051 49216 3 Gut 0.43 protein_coding synonymous_variant LOW 183C>T Leu61Leu
M0169178 FNGMICHP_00051 49225 3 Gut 0.43 protein_coding synonymous_variant LOW 174C>T Asp58Asp
M0169179 FNGMICHP_00051 49231 3 Gut 0.43 protein_coding synonymous_variant LOW 168C>A Ser56Ser
M0169180 FNGMICHP_00051 49234 3 Gut 0.43 protein_coding synonymous_variant LOW 165T>G Ala55Ala
M0169181 FNGMICHP_00051 49250 3 Gut 0.43 protein_coding missense_variant MODERATE 149G>A Arg50Lys
M0169182 FNGMICHP_00051 49347 3 Gut 0.43 protein_coding missense_variant MODERATE 52A>G Ile18Val
M0169183 FNGMICHP_00051 49348 3 Gut 0.43 protein_coding synonymous_variant LOW 51C>T Asp17Asp
M0169184 FNGMICHP_00048 49866 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2314A>C None
M0169185 FNGMICHP_00048 49887 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2335G>A None
M0169186 FNGMICHP_00048 49910 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2358A>T None
M0169187 FNGMICHP_00048 49930 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2378T>C None
M0169188 FNGMICHP_00048 49933 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2381C>T None
M0169189 FNGMICHP_00048 49946 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2394C>A None
M0169190 FNGMICHP_00048 49973 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2421T>C None
M0169191 FNGMICHP_00052 49983 3 Gut 0.43 protein_coding synonymous_variant LOW 6C>T Thr2Thr
M0169192 FNGMICHP_00052 50019 3 Gut 0.43 protein_coding synonymous_variant LOW 42C>A Leu14Leu
M0169193 FNGMICHP_00052 50169 3 Gut 0.43 protein_coding synonymous_variant LOW 192T>C Arg64Arg
M0169194 FNGMICHP_00052 50190 3 Gut 0.43 protein_coding synonymous_variant LOW 213A>T Arg71Arg
M0169195 FNGMICHP_00048 50249 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2697A>T None
M0169196 FNGMICHP_00048 50255 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2703G>A None
M0169197 FNGMICHP_00057 52676 3 Gut 0.43 protein_coding synonymous_variant LOW 75T>G Gly25Gly
M0169198 FNGMICHP_00049 52797 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4901G>T None
M0169199 FNGMICHP_00049 52799 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4903G>A None
M0169200 FNGMICHP_00058 52882 3 Gut 0.43 protein_coding missense_variant MODERATE 14T>A Leu5Gln
M0169201 FNGMICHP_00058 52933 3 Gut 0.43 protein_coding missense_variant MODERATE 65T>C Leu22Pro
M0169202 FNGMICHP_00058 53081 3 Gut 0.43 protein_coding synonymous_variant LOW 213T>G Val71Val
M0169203 FNGMICHP_00058 53082 3 Gut 0.43 protein_coding missense_variant MODERATE 214T>G Ser72Ala
M0169204 FNGMICHP_00058 53404 3 Gut 0.43 protein_coding missense_variant MODERATE 536T>C Val179Ala
M0169205 FNGMICHP_00058 53441 3 Gut 0.43 protein_coding synonymous_variant LOW 573G>C Gly191Gly
M0169206 FNGMICHP_00059 53584 3 Gut 0.43 protein_coding missense_variant MODERATE 398A>G Asp133Gly
M0169207 FNGMICHP_00059 53598 3 Gut 0.43 protein_coding synonymous_variant LOW 384C>A Thr128Thr
M0169208 FNGMICHP_00060 54606 3 Gut 0.43 protein_coding missense_variant MODERATE 434C>A Pro145Gln
M0169209 FNGMICHP_00060 54694 3 Gut 0.43 protein_coding missense_variant MODERATE 346G>C Gly116Arg
M0169210 FNGMICHP_00060 54771 3 Gut 0.43 protein_coding missense_variant MODERATE 269T>A Val90Glu
M0169211 FNGMICHP_00060 54965 3 Gut 0.43 protein_coding synonymous_variant LOW 75G>A Gly25Gly
M0169212 FNGMICHP_00060 55005 3 Gut 0.43 protein_coding missense_variant MODERATE 35C>T Ala12Val
M0169213 FNGMICHP_00060 55016 3 Gut 0.43 protein_coding synonymous_variant LOW 24C>T Tyr8Tyr
M0169214 FNGMICHP_00061 55095 3 Gut 0.43 protein_coding synonymous_variant LOW 660G>A Arg220Arg
M0169215 FNGMICHP_00061 55133 3 Gut 0.43 protein_coding synonymous_variant LOW 622T>C Leu208Leu
M0169216 FNGMICHP_00061 55185 3 Gut 0.43 protein_coding synonymous_variant LOW 570A>G Pro190Pro
M0169217 FNGMICHP_00062 56057 3 Gut 0.43 protein_coding synonymous_variant LOW 132G>A Pro44Pro






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
FNGMICHP_00078 Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Ethidium Bromide [class: Phenanthridine], Acriflavine [class: Acridine], Chlorhexidine [class: Biguanides], Pyronin Y [class: Xanthene], Rhodamine 6G [class: Xanthene], Methyl Viologen [class: Paraquat], Tetraphenylphosphonium (TPP) [class: Quaternary Ammonium Compounds (QACs)], 4,6-diamidino-2-phenylindole (DAPI) [class: Diamindine], Acridine Orange [class: Acridine], Sodium Dodecyl Sulfate (SDS) [class: Organo-sulfate], Sodium Deoxycholate (SDC) [class: Acid], Crystal Violet [class: Triarylmethane], Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)], Cetylpyridinium Chloride (CPC) [class: Quaternary Ammonium Compounds (QACs)], Dequalinium [class: Quaternary Ammonium Compounds (QACs)] 100 1.1e-60 1 115 1.0000 1.0000 experiment






        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
FNGMICHP_00038 ARO:3002683 100 3.08e-171 1 219 1.0000 1.0000 phenicol antibiotic chloramphenicol acetyltransferase (CAT) antibiotic inactivation
FNGMICHP_00077 ARO:3000410 100 2.94e-199 1 279 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
FNGMICHP_00078 ARO:3005010 100 2.01e-78 1 115 1.0000 1.0000 disinfecting agents and antiseptics major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
FNGMICHP_00079 ARO:3002602 100 5.68e-187 1 259 1.0000 1.0000 aminoglycoside antibiotic ANT(3'') antibiotic inactivation
FNGMICHP_00084 ARO:3000167 100 3.52e-275 1 396 1.0000 1.0000 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux






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
FNGMICHP_00080 PHI:9804 int 100 3.8e-14 1 37 0.1160 1.0000 rodents gastroenteritis integrase reduced virulence






        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
FNGMICHP_00007 SPE00673.1|GH23 100 1.33e-115 1 161 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
FNGMICHP_00013 3.A.7.10.1 98.7 8.7e-86 1 152 1.0000 1.5833 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FNGMICHP_00014 3.A.7.10.1 97 3.6e-154 1 269 0.9746 2.8021 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FNGMICHP_00015 3.A.7.10.1 77.6 3e-175 1 379 0.9921 3.9479 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FNGMICHP_00018 3.A.7.10.1 73.3 1.9e-40 1 116 1.0000 1.1979 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FNGMICHP_00020 3.A.7.10.1 74.3 4.2e-138 1 319 1.0000 3.4063 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FNGMICHP_00042 3.A.7.10.1 76.3 1.1e-189 1 401 0.9155 4.1771 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FNGMICHP_00044 3.A.7.10.1 79.7 0 1 724 0.9439 7.5417 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FNGMICHP_00084 2.A.1.2.102 99.7 1.2e-216 1 396 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)