Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C553
  Reference Plasmid   NZ_CP030922.1
  Reference Plasmid Size   77405
  Reference Plasmid GC Content   0.46
  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
M0168175 HECHDIDF_00002 1481 3 Gut 0.25 protein_coding synonymous_variant LOW 726A>C Thr242Thr
M0168176 HECHDIDF_00008 5503 3 Gut 0.25 protein_coding synonymous_variant LOW 84A>C Arg28Arg
M0168177 HECHDIDF_00002 7193 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4987G>A None
M0168178 HECHDIDF_00013 8735 3 Gut 0.25 protein_coding synonymous_variant LOW 285T>C Ser95Ser
M0168179 HECHDIDF_00013 8820 3 Gut 0.25 protein_coding missense_variant MODERATE 200G>T Ser67Ile
M0168180 HECHDIDF_00004 9092 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4826G>A None
M0168181 HECHDIDF_00004 9093 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4827C>T None
M0168182 HECHDIDF_00004 9096 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4830G>A None
M0168183 HECHDIDF_00004 9098 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4832C>T None
M0168184 HECHDIDF_00004 9113 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4847A>C None
M0168185 HECHDIDF_00004 9114 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4848T>A None
M0168186 HECHDIDF_00004 9115 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4849A>T None
M0168187 HECHDIDF_00009 10772 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4800A>G None
M0168188 HECHDIDF_00009 10774 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4802A>T None
M0168189 HECHDIDF_00009 10779 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4807A>G None
M0168190 HECHDIDF_00009 10781 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4809A>C None
M0168191 HECHDIDF_00009 10786 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4814C>T None
M0168192 HECHDIDF_00009 10844 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4872C>A None
M0168193 HECHDIDF_00009 10847 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4875G>A None
M0168194 HECHDIDF_00009 10849 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4877C>G None
M0168195 HECHDIDF_00009 10853 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4881A>G None
M0168196 HECHDIDF_00009 10854 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4882C>A None
M0168197 HECHDIDF_00009 10859 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4887T>C None
M0168198 HECHDIDF_00017 10870 3 Gut 0.25 protein_coding missense_variant MODERATE 436G>A Gly146Ser
M0168199 HECHDIDF_00017 10881 3 Gut 0.25 protein_coding missense_variant MODERATE 425C>T Thr142Met
M0168200 HECHDIDF_00017 10886 3 Gut 0.25 protein_coding synonymous_variant LOW 420T>G Ser140Ser
M0168201 HECHDIDF_00017 10908 3 Gut 0.25 protein_coding missense_variant MODERATE 398T>C Val133Ala
M0168202 HECHDIDF_00017 10925 3 Gut 0.25 protein_coding synonymous_variant LOW 381G>A Glu127Glu
M0168203 HECHDIDF_00017 10936 3 Gut 0.25 protein_coding synonymous_variant LOW 370T>C Leu124Leu
M0168204 HECHDIDF_00017 11012 3 Gut 0.25 protein_coding synonymous_variant LOW 294T>C Ala98Ala
M0168205 HECHDIDF_00017 11185 3 Gut 0.25 protein_coding missense_variant MODERATE 121C>G Gln41Glu
M0168206 HECHDIDF_00017 11213 3 Gut 0.25 protein_coding synonymous_variant LOW 93T>G Thr31Thr
M0168207 HECHDIDF_00017 11243 3 Gut 0.25 protein_coding missense_variant MODERATE 63G>T Lys21Asn
M0168208 HECHDIDF_00017 11282 3 Gut 0.25 protein_coding synonymous_variant LOW 24C>T Gly8Gly
M0168209 HECHDIDF_00010 11346 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4767T>A None
M0168210 HECHDIDF_00018 11372 3 Gut 0.25 protein_coding synonymous_variant LOW 255C>G Gly85Gly
M0168211 HECHDIDF_00018 11442 3 Gut 0.25 protein_coding missense_variant MODERATE 185C>G Ala62Gly
M0168212 HECHDIDF_00018 11465 3 Gut 0.25 protein_coding synonymous_variant LOW 162T>C Gly54Gly
M0168213 HECHDIDF_00018 11477 3 Gut 0.25 protein_coding synonymous_variant LOW 150T>C Ala50Ala
M0168214 HECHDIDF_00018 11495 3 Gut 0.25 protein_coding synonymous_variant LOW 132T>C Ile44Ile
M0168215 HECHDIDF_00018 11513 3 Gut 0.25 protein_coding synonymous_variant LOW 114C>T Val38Val
M0168216 HECHDIDF_00018 11537 3 Gut 0.25 protein_coding synonymous_variant LOW 90A>G Pro30Pro
M0168217 HECHDIDF_00018 11543 3 Gut 0.25 protein_coding synonymous_variant LOW 84A>G Thr28Thr
M0168218 HECHDIDF_00018 11555 3 Gut 0.25 protein_coding synonymous_variant LOW 72A>C Ala24Ala
M0168219 HECHDIDF_00018 11584 3 Gut 0.25 protein_coding missense_variant MODERATE 43G>A Glu15Lys
M0168220 HECHDIDF_00018 11593 3 Gut 0.25 protein_coding missense_variant MODERATE 34A>C Thr12Pro
M0168221 HECHDIDF_00018 11597 3 Gut 0.25 protein_coding synonymous_variant LOW 30C>T Asn10Asn
M0168222 HECHDIDF_00011 11638 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -3811A>G None
M0168223 HECHDIDF_00011 11644 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -3817A>G None
M0168224 HECHDIDF_00011 11667 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -3840T>C None
M0168225 HECHDIDF_00019 11693 3 Gut 0.25 protein_coding synonymous_variant LOW 426T>C Ala142Ala
M0168226 HECHDIDF_00019 11710 3 Gut 0.25 protein_coding missense_variant MODERATE 409A>G Asn137Asp
M0168227 HECHDIDF_00019 11735 3 Gut 0.25 protein_coding synonymous_variant LOW 384T>G Leu128Leu
M0168228 HECHDIDF_00019 11762 3 Gut 0.25 protein_coding synonymous_variant LOW 357A>G Ala119Ala
M0168229 HECHDIDF_00019 11765 3 Gut 0.25 protein_coding synonymous_variant LOW 354T>C Thr118Thr
M0168230 HECHDIDF_00019 11783 3 Gut 0.25 protein_coding missense_variant MODERATE 336G>A Met112Ile
M0168231 HECHDIDF_00019 11804 3 Gut 0.25 protein_coding synonymous_variant LOW 315T>A Pro105Pro
M0168232 HECHDIDF_00019 11843 3 Gut 0.25 protein_coding synonymous_variant LOW 276C>T Val92Val
M0168233 HECHDIDF_00019 11852 3 Gut 0.25 protein_coding synonymous_variant LOW 267A>G Ala89Ala
M0168234 HECHDIDF_00019 11862 3 Gut 0.25 protein_coding missense_variant MODERATE 257T>C Met86Thr
M0168235 HECHDIDF_00019 11873 3 Gut 0.25 protein_coding synonymous_variant LOW 246A>G Arg82Arg
M0168236 HECHDIDF_00019 11876 3 Gut 0.25 protein_coding synonymous_variant LOW 243C>A Ala81Ala
M0168237 HECHDIDF_00019 11879 3 Gut 0.25 protein_coding synonymous_variant LOW 240C>T Val80Val
M0168238 HECHDIDF_00019 11898 3 Gut 0.25 protein_coding missense_variant MODERATE 221T>A Val74Glu
M0168239 HECHDIDF_00019 11921 3 Gut 0.25 protein_coding synonymous_variant LOW 198T>C His66His
M0168240 HECHDIDF_00019 11929 3 Gut 0.25 protein_coding missense_variant MODERATE 190C>A Leu64Ile
M0168241 HECHDIDF_00019 11954 3 Gut 0.25 protein_coding synonymous_variant LOW 165T>C Asn55Asn
M0168242 HECHDIDF_00019 11986 3 Gut 0.25 protein_coding synonymous_variant LOW 133C>A Arg45Arg
M0168243 HECHDIDF_00019 12026 3 Gut 0.25 protein_coding synonymous_variant LOW 93G>C Ala31Ala
M0168244 HECHDIDF_00019 12029 3 Gut 0.25 protein_coding synonymous_variant LOW 90C>T Asp30Asp
M0168245 HECHDIDF_00011 12121 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4294G>A None
M0168246 HECHDIDF_00011 12171 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4344A>G None
M0168247 HECHDIDF_00011 12172 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4345T>A None
M0168248 HECHDIDF_00011 12173 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4346T>A None
M0168249 HECHDIDF_00011 12176 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4349G>A None
M0168250 HECHDIDF_00011 12217 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4390A>T None
M0168251 HECHDIDF_00011 12251 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4424C>T None
M0168252 HECHDIDF_00020 12274 3 Gut 0.25 protein_coding synonymous_variant LOW 360C>T Val120Val
M0168253 HECHDIDF_00020 12283 3 Gut 0.25 protein_coding missense_variant MODERATE 351A>T Lys117Asn
M0168254 HECHDIDF_00020 12289 3 Gut 0.25 protein_coding synonymous_variant LOW 345C>T Ser115Ser
M0168255 HECHDIDF_00020 12296 3 Gut 0.25 protein_coding missense_variant MODERATE 338T>A Val113Glu
M0168256 HECHDIDF_00020 12317 3 Gut 0.25 protein_coding missense_variant MODERATE 317T>A Phe106Tyr
M0168257 HECHDIDF_00020 12325 3 Gut 0.25 protein_coding synonymous_variant LOW 309C>G Pro103Pro
M0168258 HECHDIDF_00020 12349 3 Gut 0.25 protein_coding synonymous_variant LOW 285T>G Pro95Pro
M0168259 HECHDIDF_00020 12352 3 Gut 0.25 protein_coding synonymous_variant LOW 282C>A Ser94Ser
M0168260 HECHDIDF_00020 12379 3 Gut 0.25 protein_coding synonymous_variant LOW 255C>T Tyr85Tyr
M0168261 HECHDIDF_00020 12424 3 Gut 0.25 protein_coding synonymous_variant LOW 210C>T Ser70Ser
M0168262 HECHDIDF_00020 12431 3 Gut 0.25 protein_coding missense_variant MODERATE 203A>C Asp68Ala
M0168263 HECHDIDF_00020 12472 3 Gut 0.25 protein_coding synonymous_variant LOW 162C>T Asp54Asp
M0168264 HECHDIDF_00020 12477 3 Gut 0.25 protein_coding synonymous_variant LOW 157C>T Leu53Leu
M0168265 HECHDIDF_00020 12481 3 Gut 0.25 protein_coding synonymous_variant LOW 153G>A Glu51Glu
M0168266 HECHDIDF_00020 12503 3 Gut 0.25 protein_coding missense_variant MODERATE 131G>A Ser44Asn
M0168267 HECHDIDF_00020 12508 3 Gut 0.25 protein_coding synonymous_variant LOW 126T>C Ala42Ala
M0168268 HECHDIDF_00020 12541 3 Gut 0.25 protein_coding synonymous_variant LOW 93G>T Val31Val
M0168269 HECHDIDF_00020 12558 3 Gut 0.25 protein_coding missense_variant MODERATE 76A>T Thr26Ser
M0168270 HECHDIDF_00021 12753 3 Gut 0.25 protein_coding missense_variant MODERATE 261T>A Asn87Lys
M0168271 HECHDIDF_00021 12758 3 Gut 0.25 protein_coding missense_variant MODERATE 256G>A Gly86Arg
M0168272 HECHDIDF_00021 12760 3 Gut 0.25 protein_coding missense_variant MODERATE 254A>G Gln85Arg
M0168273 HECHDIDF_00021 12761 3 Gut 0.25 protein_coding stop_gained HIGH 253C>T Gln85*
M0168274 HECHDIDF_00021 12772 3 Gut 0.25 protein_coding missense_variant MODERATE 242T>C Val81Ala
M0168275 HECHDIDF_00021 12845 3 Gut 0.25 protein_coding missense_variant MODERATE 169G>C Ala57Pro
M0168276 HECHDIDF_00021 12880 3 Gut 0.25 protein_coding missense_variant MODERATE 134T>C Leu45Pro
M0168277 HECHDIDF_00021 12918 3 Gut 0.25 protein_coding synonymous_variant LOW 96T>G Arg32Arg
M0168278 HECHDIDF_00021 12924 3 Gut 0.25 protein_coding synonymous_variant LOW 90A>G Pro30Pro
M0168279 HECHDIDF_00021 12933 3 Gut 0.25 protein_coding missense_variant MODERATE 81T>G Asp27Glu
M0168280 HECHDIDF_00021 12999 3 Gut 0.25 protein_coding synonymous_variant LOW 15C>T Ala5Ala
M0168281 HECHDIDF_00012 13078 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4678C>G None
M0168282 HECHDIDF_00013 13539 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4520A>C None
M0168283 HECHDIDF_00021 17971 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4958A>C None
M0168284 HECHDIDF_00021 17978 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4965T>G None
M0168285 HECHDIDF_00022 18115 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4617A>C None
M0168286 HECHDIDF_00033 18974 3 Gut 0.25 protein_coding synonymous_variant LOW 108C>T Tyr36Tyr
M0168287 HECHDIDF_00044 27412 3 Gut 0.25 protein_coding synonymous_variant LOW 189T>C Pro63Pro
M0168288 HECHDIDF_00049 30672 3 Gut 0.25 protein_coding missense_variant MODERATE 419T>C Phe140Ser
M0168289 HECHDIDF_00054 38486 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -117A>T None
M0168290 HECHDIDF_00054 38662 3 Gut 0.25 protein_coding synonymous_variant LOW 60T>G Thr20Thr
M0168291 HECHDIDF_00072 56261 3 Gut 0.25 protein_coding missense_variant MODERATE 905A>G His302Arg
M0168292 HECHDIDF_00074 57100 3 Gut 0.25 protein_coding missense_variant MODERATE 151C>T Arg51Trp
M0168293 HECHDIDF_00075 57751 3 Gut 0.25 protein_coding missense_variant MODERATE 526A>G Asn176Asp
M0168294 HECHDIDF_00077 59226 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -170A>C None
M0168295 HECHDIDF_00077 59316 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -260A>G None
M0168296 HECHDIDF_00077 61133 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -2077C>A None
M0168297 HECHDIDF_00082 62564 3 Gut 0.25 protein_coding synonymous_variant LOW 402C>T His134His
M0168298 HECHDIDF_00084 63339 3 Gut 0.25 protein_coding missense_variant MODERATE 103A>G Thr35Ala
M0168299 HECHDIDF_00084 63340 3 Gut 0.25 protein_coding missense_variant MODERATE 104C>T Thr35Ile
M0168300 HECHDIDF_00084 63435 3 Gut 0.25 protein_coding missense_variant MODERATE 199T>G Ser67Ala
M0168301 HECHDIDF_00086 64445 3 Gut 0.25 protein_coding synonymous_variant LOW 363A>C Ser121Ser
M0168302 HECHDIDF_00080 64499 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -2910A>C None
M0168303 HECHDIDF_00087 64712 3 Gut 0.25 protein_coding synonymous_variant LOW 4965C>G Arg1655Arg
M0168304 HECHDIDF_00087 64793 3 Gut 0.25 protein_coding synonymous_variant LOW 4884T>C Gly1628Gly
M0168305 HECHDIDF_00087 65526 3 Gut 0.25 protein_coding missense_variant MODERATE 4151T>C Val1384Ala
M0168306 HECHDIDF_00087 65539 3 Gut 0.25 protein_coding synonymous_variant LOW 4138T>C Leu1380Leu
M0168307 HECHDIDF_00087 65666 3 Gut 0.25 protein_coding synonymous_variant LOW 4011G>A Val1337Val
M0168308 HECHDIDF_00087 65909 3 Gut 0.25 protein_coding synonymous_variant LOW 3768G>A Leu1256Leu
M0168309 HECHDIDF_00087 67049 3 Gut 0.25 protein_coding synonymous_variant LOW 2628A>G Gly876Gly
M0168310 HECHDIDF_00087 67078 3 Gut 0.25 protein_coding missense_variant MODERATE 2599G>A Val867Ile
M0168311 HECHDIDF_00087 67190 3 Gut 0.25 protein_coding missense_variant MODERATE 2487G>A Met829Ile
M0168312 HECHDIDF_00087 68475 3 Gut 0.25 protein_coding missense_variant MODERATE 1202C>T Ala401Val
M0168313 HECHDIDF_00087 68684 3 Gut 0.25 protein_coding synonymous_variant LOW 993C>T Gly331Gly
M0168314 HECHDIDF_00087 68735 3 Gut 0.25 protein_coding synonymous_variant LOW 942A>G Leu314Leu
M0168315 HECHDIDF_00087 69356 3 Gut 0.25 protein_coding synonymous_variant LOW 321A>C Ala107Ala
M0168316 HECHDIDF_00087 69602 3 Gut 0.25 protein_coding synonymous_variant LOW 75T>C Asp25Asp
M0168317 HECHDIDF_00088 70897 3 Gut 0.25 protein_coding synonymous_variant LOW 1089C>T His363His
M0168318 HECHDIDF_00088 71911 3 Gut 0.25 protein_coding missense_variant MODERATE 75A>G Ile25Met
M0168319 HECHDIDF_00092 75794 3 Gut 0.25 protein_coding missense_variant MODERATE 85A>T Ile29Phe






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
HECHDIDF_00082 QED50305.1|GH23 100 1.06e-168 1 238 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