Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2363
  Reference Plasmid   1111525849768046_bin.37__k141_10287
  Reference Plasmid Size   7632
  Reference Plasmid GC Content   0.37
  Reference Plasmid Mobility Type   non-mobilizable





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
M0119075 JBHOGJAL_00001 72 7 Oral 0.58 protein_coding downstream_gene_variant MODIFIER *300T>C None
M0119076 JBHOGJAL_00001 90 7 Oral 0.58 protein_coding downstream_gene_variant MODIFIER *282T>A None
M0119077 JBHOGJAL_00001 177 8 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *195A>T None
M0119078 JBHOGJAL_00001 309 6 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *63G>A None
M0119079 JBHOGJAL_00001 315 8 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *57A>G None
M0119080 JBHOGJAL_00001 318 5 Oral 0.42 protein_coding downstream_gene_variant MODIFIER *54G>A None
M0119081 JBHOGJAL_00001 320 8 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *52C>T None
M0119082 JBHOGJAL_00001 624 7 Oral 0.58 protein_coding synonymous_variant LOW 246A>G Glu82Glu
M0119083 JBHOGJAL_00001 753 6 Oral 0.50 protein_coding synonymous_variant LOW 117G>A Glu39Glu
M0119084 JBHOGJAL_00002 961 7 Oral 0.58 protein_coding synonymous_variant LOW 189T>A Val63Val
M0119085 JBHOGJAL_00003 1354 4 Oral 0.33 protein_coding synonymous_variant LOW 933C>T Asn311Asn
M0119086 JBHOGJAL_00003 1498 5 Oral 0.42 protein_coding synonymous_variant LOW 789T>C Pro263Pro
M0119087 JBHOGJAL_00003 1576 6 Oral 0.50 protein_coding synonymous_variant LOW 711A>T Ile237Ile
M0119088 JBHOGJAL_00003 1579 5 Oral 0.42 protein_coding synonymous_variant LOW 708C>T Phe236Phe
M0119089 JBHOGJAL_00003 1606 6 Oral 0.50 protein_coding synonymous_variant LOW 681A>T Ile227Ile
M0119090 JBHOGJAL_00003 1618 6 Oral 0.50 protein_coding synonymous_variant LOW 669A>C Gly223Gly
M0119091 JBHOGJAL_00003 1624 5 Oral 0.42 protein_coding synonymous_variant LOW 663A>T Val221Val
M0119092 JBHOGJAL_00003 1648 7 Oral 0.58 protein_coding synonymous_variant LOW 639G>T Pro213Pro
M0119093 JBHOGJAL_00003 1786 3 Oral 0.25 protein_coding synonymous_variant LOW 501C>T Gly167Gly
M0119094 JBHOGJAL_00003 1975 7 Oral 0.58 protein_coding synonymous_variant LOW 312T>C Ser104Ser
M0119095 JBHOGJAL_00003 2089 4 Oral 0.33 protein_coding synonymous_variant LOW 198T>C Pro66Pro
M0119096 JBHOGJAL_00003 2107 6 Oral 0.50 protein_coding synonymous_variant LOW 180A>T Pro60Pro
M0119097 JBHOGJAL_00004 2355 7 Oral 0.58 protein_coding synonymous_variant LOW 339T>A Ser113Ser
M0119098 JBHOGJAL_00004 2445 3 Oral 0.25 protein_coding synonymous_variant LOW 249G>A Leu83Leu
M0119099 JBHOGJAL_00006 3800 6 Oral 0.50 protein_coding synonymous_variant LOW 687C>T Val229Val
M0119100 JBHOGJAL_00006 3941 5 Oral 0.42 protein_coding synonymous_variant LOW 546C>A Gly182Gly
M0119101 JBHOGJAL_00006 4151 7 Oral 0.58 protein_coding synonymous_variant LOW 336T>C Asn112Asn
M0119102 JBHOGJAL_00006 4181 7 Oral 0.58 protein_coding synonymous_variant LOW 306C>T Gly102Gly
M0119103 JBHOGJAL_00006 4235 5 Oral 0.42 protein_coding synonymous_variant LOW 252A>T Pro84Pro
M0119104 JBHOGJAL_00006 4445 6 Oral 0.50 protein_coding synonymous_variant LOW 42G>T Pro14Pro
M0119105 JBHOGJAL_00001 4524 7 Oral 0.58 protein_coding upstream_gene_variant MODIFIER -3655G>A None
M0119106 JBHOGJAL_00001 4546 4 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3677A>G None
M0119107 JBHOGJAL_00001 4569 5 Oral 0.42 protein_coding upstream_gene_variant MODIFIER -3700G>A None
M0119108 JBHOGJAL_00001 4574 5 Oral 0.42 protein_coding upstream_gene_variant MODIFIER -3705C>T None
M0119109 JBHOGJAL_00001 4588 5 Oral 0.42 protein_coding upstream_gene_variant MODIFIER -3719C>T None
M0119110 JBHOGJAL_00001 4590 5 Oral 0.42 protein_coding upstream_gene_variant MODIFIER -3721A>G None
M0119111 JBHOGJAL_00001 4618 6 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3749A>G None
M0119112 JBHOGJAL_00007 4632 7 Oral 0.58 protein_coding synonymous_variant LOW 966A>G Glu322Glu
M0119113 JBHOGJAL_00007 4635 5 Oral 0.42 protein_coding synonymous_variant LOW 963C>T Asp321Asp
M0119114 JBHOGJAL_00007 4662 6 Oral 0.50 protein_coding synonymous_variant LOW 936T>C Phe312Phe
M0119115 JBHOGJAL_00007 4668 6 Oral 0.50 protein_coding synonymous_variant LOW 930G>A Lys310Lys
M0119116 JBHOGJAL_00007 4674 5 Oral 0.42 protein_coding synonymous_variant LOW 924C>T Ser308Ser
M0119117 JBHOGJAL_00007 4686 6 Oral 0.50 protein_coding synonymous_variant LOW 912G>A Glu304Glu
M0119118 JBHOGJAL_00007 4689 6 Oral 0.50 protein_coding synonymous_variant LOW 909T>A Ser303Ser
M0119119 JBHOGJAL_00007 4710 6 Oral 0.50 protein_coding synonymous_variant LOW 888G>A Glu296Glu
M0119120 JBHOGJAL_00007 4779 4 Oral 0.33 protein_coding synonymous_variant LOW 819G>A Thr273Thr
M0119121 JBHOGJAL_00007 4800 7 Oral 0.58 protein_coding synonymous_variant LOW 798C>T Asp266Asp
M0119122 JBHOGJAL_00007 4860 5 Oral 0.42 protein_coding synonymous_variant LOW 738T>C Tyr246Tyr
M0119123 JBHOGJAL_00007 4863 5 Oral 0.42 protein_coding synonymous_variant LOW 735G>A Gln245Gln
M0119124 JBHOGJAL_00007 4935 5 Oral 0.42 protein_coding synonymous_variant LOW 663T>C Ile221Ile
M0119125 JBHOGJAL_00007 4950 6 Oral 0.50 protein_coding synonymous_variant LOW 648T>G Ser216Ser
M0119126 JBHOGJAL_00007 5010 3 Oral 0.25 protein_coding synonymous_variant LOW 588T>A Pro196Pro
M0119127 JBHOGJAL_00007 5022 3 Oral 0.25 protein_coding synonymous_variant LOW 576T>A Ala192Ala
M0119128 JBHOGJAL_00007 5028 3 Oral 0.25 protein_coding synonymous_variant LOW 570C>T Ala190Ala
M0119129 JBHOGJAL_00007 5031 6 Oral 0.50 protein_coding synonymous_variant LOW 567G>A Gly189Gly
M0119130 JBHOGJAL_00007 5070 7 Oral 0.58 protein_coding synonymous_variant LOW 528T>C Asp176Asp
M0119131 JBHOGJAL_00007 5145 6 Oral 0.50 protein_coding synonymous_variant LOW 453T>A Val151Val
M0119132 JBHOGJAL_00007 5151 5 Oral 0.42 protein_coding synonymous_variant LOW 447T>A Thr149Thr
M0119133 JBHOGJAL_00007 5169 6 Oral 0.50 protein_coding synonymous_variant LOW 429C>T Tyr143Tyr
M0119134 JBHOGJAL_00007 5187 6 Oral 0.50 protein_coding synonymous_variant LOW 411T>A Thr137Thr
M0119135 JBHOGJAL_00007 5202 5 Oral 0.42 protein_coding synonymous_variant LOW 396C>T Asn132Asn
M0119136 JBHOGJAL_00007 5205 5 Oral 0.42 protein_coding synonymous_variant LOW 393C>T Asp131Asp
M0119137 JBHOGJAL_00007 5208 5 Oral 0.42 protein_coding synonymous_variant LOW 390T>C Ile130Ile
M0119138 JBHOGJAL_00007 5217 5 Oral 0.42 protein_coding synonymous_variant LOW 381A>T Pro127Pro
M0119139 JBHOGJAL_00007 5238 6 Oral 0.50 protein_coding synonymous_variant LOW 360T>C Asp120Asp
M0119140 JBHOGJAL_00007 5262 7 Oral 0.58 protein_coding synonymous_variant LOW 336T>G Ala112Ala
M0119141 JBHOGJAL_00007 5459 5 Oral 0.42 protein_coding synonymous_variant LOW 139T>C Leu47Leu
M0119142 JBHOGJAL_00007 5460 5 Oral 0.42 protein_coding synonymous_variant LOW 138G>A Gly46Gly
M0119143 JBHOGJAL_00007 5532 6 Oral 0.50 protein_coding synonymous_variant LOW 66G>A Ala22Ala
M0119144 JBHOGJAL_00008 5689 6 Oral 0.50 protein_coding synonymous_variant LOW 1266A>G Gly422Gly
M0119145 JBHOGJAL_00008 5737 6 Oral 0.50 protein_coding synonymous_variant LOW 1218T>C Ser406Ser
M0119146 JBHOGJAL_00008 5749 6 Oral 0.50 protein_coding synonymous_variant LOW 1206T>C Ile402Ile
M0119147 JBHOGJAL_00008 5784 3 Oral 0.25 protein_coding missense_variant MODERATE 1171A>G Ile391Val
M0119148 JBHOGJAL_00008 5821 5 Oral 0.42 protein_coding synonymous_variant LOW 1134T>A Ile378Ile
M0119149 JBHOGJAL_00008 5824 3 Oral 0.25 protein_coding synonymous_variant LOW 1131A>T Ser377Ser
M0119150 JBHOGJAL_00008 5833 3 Oral 0.25 protein_coding synonymous_variant LOW 1122A>G Leu374Leu
M0119151 JBHOGJAL_00008 5842 5 Oral 0.42 protein_coding synonymous_variant LOW 1113C>A Thr371Thr
M0119152 JBHOGJAL_00008 5872 3 Oral 0.25 protein_coding synonymous_variant LOW 1083T>A Val361Val
M0119153 JBHOGJAL_00008 5875 3 Oral 0.25 protein_coding synonymous_variant LOW 1080T>C Thr360Thr
M0119154 JBHOGJAL_00008 5938 3 Oral 0.25 protein_coding synonymous_variant LOW 1017G>A Val339Val
M0119155 JBHOGJAL_00008 5953 4 Oral 0.33 protein_coding synonymous_variant LOW 1002A>G Glu334Glu
M0119156 JBHOGJAL_00008 5965 3 Oral 0.25 protein_coding synonymous_variant LOW 990T>C Gly330Gly
M0119157 JBHOGJAL_00008 5971 4 Oral 0.33 protein_coding synonymous_variant LOW 984G>A Ser328Ser
M0119158 JBHOGJAL_00008 6100 3 Oral 0.25 protein_coding synonymous_variant LOW 855A>G Leu285Leu
M0119159 JBHOGJAL_00008 6112 3 Oral 0.25 protein_coding synonymous_variant LOW 843C>G Val281Val
M0119160 JBHOGJAL_00008 6133 3 Oral 0.25 protein_coding synonymous_variant LOW 822G>T Pro274Pro
M0119161 JBHOGJAL_00001 187 3 Oral 0.25 protein_coding downstream_gene_variant MODIFIER *185A>G None
M0119162 JBHOGJAL_00001 1164 3 Oral 0.25 protein_coding upstream_gene_variant MODIFIER -295A>T None
M0119163 JBHOGJAL_00003 1348 4 Oral 0.33 protein_coding synonymous_variant LOW 939A>C Ala313Ala
M0119164 JBHOGJAL_00003 1699 3 Oral 0.25 protein_coding synonymous_variant LOW 588C>T Leu196Leu
M0119165 JBHOGJAL_00003 1894 3 Oral 0.25 protein_coding synonymous_variant LOW 393C>T Ala131Ala
M0119166 JBHOGJAL_00004 2489 7 Oral 0.58 protein_coding missense_variant MODERATE 205A>G Thr69Ala
M0119167 JBHOGJAL_00004 2503 4 Oral 0.33 protein_coding missense_variant MODERATE 191C>T Ala64Val
M0119168 JBHOGJAL_00005 2875 4 Oral 0.33 protein_coding synonymous_variant LOW 72A>T Pro24Pro
M0119169 JBHOGJAL_00005 2884 5 Oral 0.42 protein_coding synonymous_variant LOW 63T>C Val21Val
M0119170 JBHOGJAL_00005 2905 7 Oral 0.58 protein_coding synonymous_variant LOW 42T>C Phe14Phe
M0119171 JBHOGJAL_00006 3038 5 Oral 0.42 protein_coding synonymous_variant LOW 1449A>G Glu483Glu
M0119172 JBHOGJAL_00006 3110 6 Oral 0.50 protein_coding synonymous_variant LOW 1377T>A Val459Val
M0119173 JBHOGJAL_00006 3140 7 Oral 0.58 protein_coding synonymous_variant LOW 1347A>T Val449Val
M0119174 JBHOGJAL_00006 3152 3 Oral 0.25 protein_coding synonymous_variant LOW 1335A>G Gln445Gln
M0119175 JBHOGJAL_00006 3200 6 Oral 0.50 protein_coding synonymous_variant LOW 1287T>C Asp429Asp
M0119176 JBHOGJAL_00006 3218 5 Oral 0.42 protein_coding synonymous_variant LOW 1269T>C Asp423Asp
M0119177 JBHOGJAL_00006 3287 6 Oral 0.50 protein_coding synonymous_variant LOW 1200G>A Ala400Ala
M0119178 JBHOGJAL_00006 3305 6 Oral 0.50 protein_coding synonymous_variant LOW 1182G>A Lys394Lys
M0119179 JBHOGJAL_00006 3344 3 Oral 0.25 protein_coding synonymous_variant LOW 1143C>T Gly381Gly
M0119180 JBHOGJAL_00006 4061 3 Oral 0.25 protein_coding synonymous_variant LOW 426G>A Val142Val
M0119181 JBHOGJAL_00006 4103 3 Oral 0.25 protein_coding synonymous_variant LOW 384G>A Glu128Glu
M0119182 JBHOGJAL_00006 4172 4 Oral 0.33 protein_coding synonymous_variant LOW 315T>C Ile105Ile
M0119183 JBHOGJAL_00007 4707 4 Oral 0.33 protein_coding synonymous_variant LOW 891G>A Val297Val
M0119184 JBHOGJAL_00007 4713 4 Oral 0.33 protein_coding synonymous_variant LOW 885C>T Asn295Asn
M0119185 JBHOGJAL_00007 4740 4 Oral 0.33 protein_coding synonymous_variant LOW 858C>T Arg286Arg
M0119186 JBHOGJAL_00007 5118 4 Oral 0.33 protein_coding synonymous_variant LOW 480A>C Thr160Thr
M0119187 JBHOGJAL_00007 5391 4 Oral 0.33 protein_coding synonymous_variant LOW 207C>T Thr69Thr
M0119188 JBHOGJAL_00008 5647 3 Oral 0.25 protein_coding synonymous_variant LOW 1308C>T Gly436Gly
M0119189 JBHOGJAL_00008 5724 3 Oral 0.25 protein_coding missense_variant MODERATE 1231A>G Ile411Val
M0119190 JBHOGJAL_00004 7431 4 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -4738A>G None
M0119191 JBHOGJAL_00003 1360 3 Oral 0.25 protein_coding synonymous_variant LOW 927C>T Ala309Ala
M0119192 JBHOGJAL_00003 2083 4 Oral 0.33 protein_coding synonymous_variant LOW 204A>C Ile68Ile
M0119193 JBHOGJAL_00005 2719 3 Oral 0.25 protein_coding synonymous_variant LOW 228C>T Leu76Leu
M0119194 JBHOGJAL_00006 2978 4 Oral 0.33 protein_coding synonymous_variant LOW 1509T>C Ile503Ile
M0119195 JBHOGJAL_00006 3125 3 Oral 0.25 protein_coding synonymous_variant LOW 1362T>A Thr454Thr
M0119196 JBHOGJAL_00006 3440 3 Oral 0.25 protein_coding synonymous_variant LOW 1047T>A Pro349Pro
M0119197 JBHOGJAL_00006 3473 3 Oral 0.25 protein_coding synonymous_variant LOW 1014A>G Ala338Ala
M0119198 JBHOGJAL_00006 3551 6 Oral 0.50 protein_coding synonymous_variant LOW 936T>C Pro312Pro
M0119199 JBHOGJAL_00006 3566 6 Oral 0.50 protein_coding synonymous_variant LOW 921A>T Ala307Ala
M0119200 JBHOGJAL_00006 3635 3 Oral 0.25 protein_coding synonymous_variant LOW 852C>T Ile284Ile
M0119201 JBHOGJAL_00006 3674 6 Oral 0.50 protein_coding synonymous_variant LOW 813A>T Gly271Gly
M0119202 JBHOGJAL_00006 3689 5 Oral 0.42 protein_coding synonymous_variant LOW 798G>A Glu266Glu
M0119203 JBHOGJAL_00006 3707 4 Oral 0.33 protein_coding synonymous_variant LOW 780A>T Gly260Gly
M0119204 JBHOGJAL_00006 3770 3 Oral 0.25 protein_coding synonymous_variant LOW 717A>T Ala239Ala
M0119205 JBHOGJAL_00006 3269 3 Oral 0.25 protein_coding synonymous_variant LOW 1218C>T Ile406Ile
M0119206 JBHOGJAL_00006 3323 4 Oral 0.33 protein_coding synonymous_variant LOW 1164C>T Asp388Asp
M0119207 JBHOGJAL_00006 3362 3 Oral 0.25 protein_coding synonymous_variant LOW 1125T>A Pro375Pro
M0119208 JBHOGJAL_00004 2565 3 Oral 0.25 protein_coding synonymous_variant LOW 129C>T Gly43Gly
M0119209 JBHOGJAL_00004 2583 3 Oral 0.25 protein_coding synonymous_variant LOW 111G>A Glu37Glu
M0119210 JBHOGJAL_00005 2911 3 Oral 0.25 protein_coding synonymous_variant LOW 36A>G Val12Val






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





        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