Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1743
  Reference Plasmid   1111525849640317_bin.19__k141_201942
  Reference Plasmid Size   138800
  Reference Plasmid GC Content   0.62
  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
M0013251 HJOFACHE_00050 50939 3 Skin 0.43 protein_coding synonymous_variant LOW 1779C>T Ser593Ser
M0013252 HJOFACHE_00050 51125 3 Skin 0.43 protein_coding synonymous_variant LOW 1593C>G Thr531Thr
M0013253 HJOFACHE_00050 51137 3 Skin 0.43 protein_coding synonymous_variant LOW 1581T>C Pro527Pro
M0013254 HJOFACHE_00050 51155 3 Skin 0.43 protein_coding synonymous_variant LOW 1563C>T Arg521Arg
M0013255 HJOFACHE_00050 51173 3 Skin 0.43 protein_coding synonymous_variant LOW 1545C>T Leu515Leu
M0013256 HJOFACHE_00050 51191 3 Skin 0.43 protein_coding synonymous_variant LOW 1527G>A Ala509Ala
M0013257 HJOFACHE_00050 51200 3 Skin 0.43 protein_coding synonymous_variant LOW 1518G>C Val506Val
M0013258 HJOFACHE_00050 51236 3 Skin 0.43 protein_coding synonymous_variant LOW 1482G>C Leu494Leu
M0013259 HJOFACHE_00050 51272 3 Skin 0.43 protein_coding synonymous_variant LOW 1446C>G Ala482Ala
M0013260 HJOFACHE_00050 51278 3 Skin 0.43 protein_coding synonymous_variant LOW 1440T>C Asp480Asp
M0013261 HJOFACHE_00050 51284 3 Skin 0.43 protein_coding synonymous_variant LOW 1434T>C Tyr478Tyr
M0013262 HJOFACHE_00050 51290 3 Skin 0.43 protein_coding synonymous_variant LOW 1428C>G Ala476Ala
M0013263 HJOFACHE_00050 51296 3 Skin 0.43 protein_coding synonymous_variant LOW 1422C>T Gly474Gly
M0013264 HJOFACHE_00050 51317 3 Skin 0.43 protein_coding synonymous_variant LOW 1401T>G Pro467Pro
M0013265 HJOFACHE_00050 51329 3 Skin 0.43 protein_coding synonymous_variant LOW 1389G>T Ser463Ser
M0013266 HJOFACHE_00050 51343 3 Skin 0.43 protein_coding synonymous_variant LOW 1375C>T Leu459Leu
M0013267 HJOFACHE_00050 51344 3 Skin 0.43 protein_coding synonymous_variant LOW 1374G>A Ala458Ala
M0013268 HJOFACHE_00050 51347 3 Skin 0.43 protein_coding synonymous_variant LOW 1371A>T Ala457Ala
M0013269 HJOFACHE_00050 51374 3 Skin 0.43 protein_coding synonymous_variant LOW 1344C>T Tyr448Tyr
M0013270 HJOFACHE_00050 51380 3 Skin 0.43 protein_coding synonymous_variant LOW 1338C>G Ala446Ala
M0013271 HJOFACHE_00050 51389 3 Skin 0.43 protein_coding synonymous_variant LOW 1329T>C Ser443Ser
M0013272 HJOFACHE_00050 51391 3 Skin 0.43 protein_coding missense_variant MODERATE 1327T>G Ser443Ala
M0013273 HJOFACHE_00050 51392 3 Skin 0.43 protein_coding synonymous_variant LOW 1326G>A Gln442Gln
M0013274 HJOFACHE_00050 51467 3 Skin 0.43 protein_coding synonymous_variant LOW 1251A>C Thr417Thr
M0013275 HJOFACHE_00050 51482 3 Skin 0.43 protein_coding synonymous_variant LOW 1236A>G Thr412Thr
M0013276 HJOFACHE_00050 51623 3 Skin 0.43 protein_coding synonymous_variant LOW 1095G>C Val365Val
M0013277 HJOFACHE_00050 51632 3 Skin 0.43 protein_coding synonymous_variant LOW 1086G>A Lys362Lys
M0013278 HJOFACHE_00050 51641 3 Skin 0.43 protein_coding synonymous_variant LOW 1077C>T Asp359Asp
M0013279 HJOFACHE_00050 51659 3 Skin 0.43 protein_coding synonymous_variant LOW 1059G>A Gln353Gln
M0013280 HJOFACHE_00050 51725 3 Skin 0.43 protein_coding synonymous_variant LOW 993A>G Ala331Ala
M0013281 HJOFACHE_00050 51767 3 Skin 0.43 protein_coding synonymous_variant LOW 951C>A Ala317Ala
M0013282 HJOFACHE_00050 51770 3 Skin 0.43 protein_coding synonymous_variant LOW 948T>C Thr316Thr
M0013283 HJOFACHE_00050 51776 3 Skin 0.43 protein_coding synonymous_variant LOW 942A>T Pro314Pro
M0013284 HJOFACHE_00050 51851 3 Skin 0.43 protein_coding synonymous_variant LOW 867G>A Glu289Glu
M0013285 HJOFACHE_00050 51872 3 Skin 0.43 protein_coding synonymous_variant LOW 846T>G Ala282Ala
M0013286 HJOFACHE_00050 51878 3 Skin 0.43 protein_coding synonymous_variant LOW 840C>T Asp280Asp
M0013287 HJOFACHE_00050 51895 3 Skin 0.43 protein_coding synonymous_variant LOW 823C>T Leu275Leu
M0013288 HJOFACHE_00050 51908 3 Skin 0.43 protein_coding synonymous_variant LOW 810C>T Ile270Ile
M0013289 HJOFACHE_00050 51944 3 Skin 0.43 protein_coding synonymous_variant LOW 774A>G Lys258Lys
M0013290 HJOFACHE_00050 52093 3 Skin 0.43 protein_coding missense_variant MODERATE 625C>G Leu209Val
M0013291 HJOFACHE_00050 52103 3 Skin 0.43 protein_coding synonymous_variant LOW 615A>G Leu205Leu
M0013292 HJOFACHE_00050 52108 3 Skin 0.43 protein_coding missense_variant MODERATE 610G>C Val204Leu
M0013293 HJOFACHE_00050 52109 3 Skin 0.43 protein_coding synonymous_variant LOW 609C>G Thr203Thr
M0013294 HJOFACHE_00050 52118 3 Skin 0.43 protein_coding synonymous_variant LOW 600A>G Gln200Gln
M0013295 HJOFACHE_00050 52163 3 Skin 0.43 protein_coding synonymous_variant LOW 555G>A Val185Val
M0013296 HJOFACHE_00050 52168 3 Skin 0.43 protein_coding missense_variant MODERATE 550A>G Thr184Ala
M0013297 HJOFACHE_00050 52175 3 Skin 0.43 protein_coding synonymous_variant LOW 543C>T Gly181Gly
M0013298 HJOFACHE_00050 52178 3 Skin 0.43 protein_coding synonymous_variant LOW 540G>A Ala180Ala
M0013299 HJOFACHE_00050 52181 3 Skin 0.43 protein_coding synonymous_variant LOW 537T>C Gly179Gly
M0013300 HJOFACHE_00050 52184 3 Skin 0.43 protein_coding synonymous_variant LOW 534C>G Ala178Ala
M0013301 HJOFACHE_00050 52208 3 Skin 0.43 protein_coding synonymous_variant LOW 510C>T Gly170Gly
M0013302 HJOFACHE_00050 52226 3 Skin 0.43 protein_coding synonymous_variant LOW 492T>C Gly164Gly
M0013303 HJOFACHE_00050 52283 3 Skin 0.43 protein_coding synonymous_variant LOW 435T>G Thr145Thr
M0013304 HJOFACHE_00050 52301 3 Skin 0.43 protein_coding synonymous_variant LOW 417G>A Leu139Leu
M0013305 HJOFACHE_00050 52304 3 Skin 0.43 protein_coding synonymous_variant LOW 414T>G Ala138Ala
M0013306 HJOFACHE_00050 52330 3 Skin 0.43 protein_coding synonymous_variant LOW 388T>C Leu130Leu
M0013307 HJOFACHE_00050 52373 3 Skin 0.43 protein_coding synonymous_variant LOW 345T>C Ala115Ala
M0013308 HJOFACHE_00050 52409 3 Skin 0.43 protein_coding synonymous_variant LOW 309A>G Val103Val
M0013309 HJOFACHE_00050 52414 3 Skin 0.43 protein_coding synonymous_variant LOW 304T>C Leu102Leu
M0013310 HJOFACHE_00050 52417 3 Skin 0.43 protein_coding synonymous_variant LOW 301T>C Leu101Leu
M0013311 HJOFACHE_00050 52424 3 Skin 0.43 protein_coding synonymous_variant LOW 294C>T Ala98Ala
M0013312 HJOFACHE_00050 52425 3 Skin 0.43 protein_coding missense_variant MODERATE 293C>T Ala98Val
M0013313 HJOFACHE_00050 52436 3 Skin 0.43 protein_coding synonymous_variant LOW 282A>C Arg94Arg
M0013314 HJOFACHE_00050 52439 3 Skin 0.43 protein_coding synonymous_variant LOW 279C>G Ala93Ala
M0013315 HJOFACHE_00050 52442 3 Skin 0.43 protein_coding synonymous_variant LOW 276A>T Ala92Ala
M0013316 HJOFACHE_00050 52445 3 Skin 0.43 protein_coding synonymous_variant LOW 273C>T Arg91Arg
M0013317 HJOFACHE_00050 52466 3 Skin 0.43 protein_coding synonymous_variant LOW 252A>G Glu84Glu
M0013318 HJOFACHE_00050 52469 3 Skin 0.43 protein_coding synonymous_variant LOW 249C>T Phe83Phe
M0013319 HJOFACHE_00050 52493 3 Skin 0.43 protein_coding synonymous_variant LOW 225C>G Leu75Leu
M0013320 HJOFACHE_00050 52532 3 Skin 0.43 protein_coding synonymous_variant LOW 186C>T Asp62Asp
M0013321 HJOFACHE_00050 52535 3 Skin 0.43 protein_coding synonymous_variant LOW 183A>C Thr61Thr
M0013322 HJOFACHE_00050 52550 3 Skin 0.43 protein_coding synonymous_variant LOW 168C>G Ala56Ala
M0013323 HJOFACHE_00050 52556 3 Skin 0.43 protein_coding synonymous_variant LOW 162C>G Thr54Thr
M0013324 HJOFACHE_00050 52571 3 Skin 0.43 protein_coding synonymous_variant LOW 147T>G Ala49Ala
M0013325 HJOFACHE_00050 52628 3 Skin 0.43 protein_coding synonymous_variant LOW 90G>C Ala30Ala
M0013326 HJOFACHE_00050 52634 3 Skin 0.43 protein_coding synonymous_variant LOW 84T>G Val28Val
M0013327 HJOFACHE_00050 52642 3 Skin 0.43 protein_coding missense_variant MODERATE 76A>C Met26Leu
M0013328 HJOFACHE_00050 52664 3 Skin 0.43 protein_coding synonymous_variant LOW 54T>C His18His
M0013329 HJOFACHE_00050 52668 3 Skin 0.43 protein_coding missense_variant MODERATE 50A>G Glu17Gly
M0013330 HJOFACHE_00050 52675 3 Skin 0.43 protein_coding missense_variant MODERATE 43G>A Val15Met
M0013331 HJOFACHE_00050 52692 3 Skin 0.43 protein_coding missense_variant MODERATE 26T>G Leu9Arg
M0013332 HJOFACHE_00049 52736 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2299T>G None
M0013333 HJOFACHE_00049 52756 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2319C>G None
M0013334 HJOFACHE_00049 52757 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2320T>C None
M0013335 HJOFACHE_00049 52758 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2321C>G None
M0013336 HJOFACHE_00049 52780 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2343G>A None
M0013337 HJOFACHE_00049 52793 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2356A>G None
M0013338 HJOFACHE_00049 52812 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2375G>C None
M0013339 HJOFACHE_00049 52832 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2395C>A None
M0013340 HJOFACHE_00049 52856 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2419T>C None
M0013341 HJOFACHE_00049 52873 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2436T>C None
M0013342 HJOFACHE_00049 52887 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2450T>C None
M0013343 HJOFACHE_00049 52888 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2451T>G None
M0013344 HJOFACHE_00049 52921 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2484A>G None
M0013345 HJOFACHE_00049 52926 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2489C>T None
M0013346 HJOFACHE_00049 52965 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2528A>G None
M0013347 HJOFACHE_00051 53004 3 Skin 0.43 protein_coding synonymous_variant LOW 39G>A Val13Val
M0013348 HJOFACHE_00051 53007 3 Skin 0.43 protein_coding synonymous_variant LOW 42C>T Ala14Ala
M0013349 HJOFACHE_00051 53056 3 Skin 0.43 protein_coding missense_variant MODERATE 91C>T Pro31Ser
M0013350 HJOFACHE_00051 53058 3 Skin 0.43 protein_coding synonymous_variant LOW 93C>A Pro31Pro
M0013351 HJOFACHE_00051 53060 3 Skin 0.43 protein_coding missense_variant MODERATE 95A>G Asn32Ser
M0013352 HJOFACHE_00051 53062 3 Skin 0.43 protein_coding missense_variant MODERATE 97G>A Ala33Thr
M0013353 HJOFACHE_00051 53067 3 Skin 0.43 protein_coding synonymous_variant LOW 102A>C Pro34Pro
M0013354 HJOFACHE_00051 53094 3 Skin 0.43 protein_coding synonymous_variant LOW 129G>A Gln43Gln
M0013355 HJOFACHE_00051 53100 3 Skin 0.43 protein_coding synonymous_variant LOW 135C>T Asn45Asn
M0013356 HJOFACHE_00051 53103 3 Skin 0.43 protein_coding synonymous_variant LOW 138C>T Ala46Ala
M0013357 HJOFACHE_00051 53106 3 Skin 0.43 protein_coding synonymous_variant LOW 141A>G Ala47Ala
M0013358 HJOFACHE_00051 53145 3 Skin 0.43 protein_coding synonymous_variant LOW 180T>C Ser60Ser
M0013359 HJOFACHE_00051 53151 3 Skin 0.43 protein_coding synonymous_variant LOW 186T>C Ile62Ile
M0013360 HJOFACHE_00051 53157 3 Skin 0.43 protein_coding synonymous_variant LOW 192G>A Ala64Ala
M0013361 HJOFACHE_00051 53160 3 Skin 0.43 protein_coding synonymous_variant LOW 195A>G Ala65Ala
M0013362 HJOFACHE_00051 53163 3 Skin 0.43 protein_coding synonymous_variant LOW 198T>G Arg66Arg
M0013363 HJOFACHE_00051 53175 3 Skin 0.43 protein_coding synonymous_variant LOW 210G>T Gly70Gly
M0013364 HJOFACHE_00051 53199 3 Skin 0.43 protein_coding synonymous_variant LOW 234C>T Arg78Arg
M0013365 HJOFACHE_00051 53202 3 Skin 0.43 protein_coding synonymous_variant LOW 237C>A Pro79Pro
M0013366 HJOFACHE_00051 53230 3 Skin 0.43 protein_coding missense_variant MODERATE 265G>A Ala89Thr
M0013367 HJOFACHE_00049 53295 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2858T>G None
M0013368 HJOFACHE_00049 53298 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -2861C>T None
M0013369 HJOFACHE_00052 53371 3 Skin 0.43 protein_coding synonymous_variant LOW 1194T>C Thr398Thr
M0013370 HJOFACHE_00052 53383 3 Skin 0.43 protein_coding missense_variant MODERATE 1182T>G His394Gln
M0013371 HJOFACHE_00052 53392 3 Skin 0.43 protein_coding missense_variant MODERATE 1173C>G Asp391Glu
M0013372 HJOFACHE_00052 53395 3 Skin 0.43 protein_coding synonymous_variant LOW 1170T>C Arg390Arg
M0013373 HJOFACHE_00052 53399 3 Skin 0.43 protein_coding missense_variant MODERATE 1166C>T Thr389Met
M0013374 HJOFACHE_00052 53400 3 Skin 0.43 protein_coding missense_variant MODERATE 1165A>G Thr389Ala
M0013375 HJOFACHE_00052 53401 3 Skin 0.43 protein_coding synonymous_variant LOW 1164T>C Ile388Ile
M0013376 HJOFACHE_00052 53410 3 Skin 0.43 protein_coding synonymous_variant LOW 1155A>G Lys385Lys
M0013377 HJOFACHE_00052 53422 3 Skin 0.43 protein_coding synonymous_variant LOW 1143C>T Ala381Ala
M0013378 HJOFACHE_00052 53452 3 Skin 0.43 protein_coding synonymous_variant LOW 1113A>G Pro371Pro
M0013379 HJOFACHE_00052 53485 3 Skin 0.43 protein_coding synonymous_variant LOW 1080A>G Ala360Ala
M0013380 HJOFACHE_00052 53572 3 Skin 0.43 protein_coding synonymous_variant LOW 993T>C His331His
M0013381 HJOFACHE_00052 53599 3 Skin 0.43 protein_coding synonymous_variant LOW 966C>T Arg322Arg
M0013382 HJOFACHE_00052 53620 3 Skin 0.43 protein_coding synonymous_variant LOW 945G>A Val315Val






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
HJOFACHE_00122 PHI:8677 RSc0454 70.7 0 1 1315 1.0000 1.0000 eudicots bacterial wilt FAD-linked oxidase loss of pathogenicity






        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
HJOFACHE_00013 2.A.80.1.2 90.1 1.2e-259 1 503 1.0000 3.1049 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.80 The Tricarboxylate Transporter (TTT) Family