Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2716
  Reference Plasmid   1111525849861727_bin.16__k141_10707
  Reference Plasmid Size   3510
  Reference Plasmid GC Content   0.41
  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
M0131443 HBDDBALI_00001 156 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -73T>C None
M0131444 HBDDBALI_00001 169 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -60A>C None
M0131445 HBDDBALI_00001 237 6 Oral 0.86 protein_coding synonymous_variant LOW 9A>G Gln3Gln
M0131446 HBDDBALI_00001 309 5 Oral 0.71 protein_coding synonymous_variant LOW 81A>T Ala27Ala
M0131447 HBDDBALI_00001 327 6 Oral 0.86 protein_coding synonymous_variant LOW 99C>T Asn33Asn
M0131448 HBDDBALI_00001 339 6 Oral 0.86 protein_coding synonymous_variant LOW 111T>C Ser37Ser
M0131449 HBDDBALI_00001 342 4 Oral 0.57 protein_coding synonymous_variant LOW 114T>C Asn38Asn
M0131450 HBDDBALI_00001 351 6 Oral 0.86 protein_coding synonymous_variant LOW 123G>A Gln41Gln
M0131451 HBDDBALI_00001 382 5 Oral 0.71 protein_coding missense_variant MODERATE 154A>C Asn52His
M0131452 HBDDBALI_00001 405 6 Oral 0.86 protein_coding synonymous_variant LOW 177G>A Glu59Glu
M0131453 HBDDBALI_00001 441 5 Oral 0.71 protein_coding synonymous_variant LOW 213T>C Ser71Ser
M0131454 HBDDBALI_00001 498 5 Oral 0.71 protein_coding synonymous_variant LOW 270A>C Ala90Ala
M0131455 HBDDBALI_00001 507 6 Oral 0.86 protein_coding synonymous_variant LOW 279A>G Ala93Ala
M0131456 HBDDBALI_00001 516 5 Oral 0.71 protein_coding synonymous_variant LOW 288A>G Arg96Arg
M0131457 HBDDBALI_00001 597 5 Oral 0.71 protein_coding synonymous_variant LOW 369C>T Ala123Ala
M0131458 HBDDBALI_00001 618 4 Oral 0.57 protein_coding synonymous_variant LOW 390T>G Ser130Ser
M0131459 HBDDBALI_00001 645 6 Oral 0.86 protein_coding synonymous_variant LOW 417T>C Asp139Asp
M0131460 HBDDBALI_00001 652 6 Oral 0.86 protein_coding missense_variant MODERATE 424A>C Ile142Leu
M0131461 HBDDBALI_00001 744 6 Oral 0.86 protein_coding synonymous_variant LOW 516T>C Cys172Cys
M0131462 HBDDBALI_00001 754 6 Oral 0.86 protein_coding synonymous_variant LOW 526C>T Leu176Leu
M0131463 HBDDBALI_00001 774 5 Oral 0.71 protein_coding synonymous_variant LOW 546T>C His182His
M0131464 HBDDBALI_00001 961 4 Oral 0.57 protein_coding missense_variant MODERATE 733G>A Ala245Thr
M0131465 HBDDBALI_00001 1077 4 Oral 0.57 protein_coding synonymous_variant LOW 849A>G Lys283Lys
M0131466 HBDDBALI_00001 1101 3 Oral 0.43 protein_coding synonymous_variant LOW 873T>A Ala291Ala
M0131467 HBDDBALI_00001 1263 3 Oral 0.43 protein_coding synonymous_variant LOW 1035T>A Thr345Thr
M0131468 HBDDBALI_00001 1290 5 Oral 0.71 protein_coding synonymous_variant LOW 1062G>A Lys354Lys
M0131469 HBDDBALI_00001 1326 6 Oral 0.86 protein_coding synonymous_variant LOW 1098A>G Lys366Lys
M0131470 HBDDBALI_00001 1362 6 Oral 0.86 protein_coding synonymous_variant LOW 1134T>A Thr378Thr
M0131471 HBDDBALI_00001 1551 4 Oral 0.57 protein_coding synonymous_variant LOW 1323T>C Ile441Ile
M0131472 HBDDBALI_00001 1665 5 Oral 0.71 protein_coding synonymous_variant LOW 1437G>A Val479Val
M0131473 HBDDBALI_00001 1725 6 Oral 0.86 protein_coding synonymous_variant LOW 1497T>C Ser499Ser
M0131474 HBDDBALI_00001 1747 6 Oral 0.86 protein_coding synonymous_variant LOW 1519T>C Leu507Leu
M0131475 HBDDBALI_00001 1881 3 Oral 0.43 protein_coding synonymous_variant LOW 1653T>C Gly551Gly
M0131476 HBDDBALI_00001 1912 3 Oral 0.43 protein_coding missense_variant MODERATE 1684A>G Thr562Ala
M0131477 HBDDBALI_00001 2244 5 Oral 0.71 protein_coding synonymous_variant LOW 2016T>C Ser672Ser
M0131478 HBDDBALI_00001 2277 3 Oral 0.43 protein_coding synonymous_variant LOW 2049C>T Cys683Cys
M0131479 HBDDBALI_00001 2307 3 Oral 0.43 protein_coding synonymous_variant LOW 2079A>G Glu693Glu
M0131480 HBDDBALI_00001 2361 5 Oral 0.71 protein_coding synonymous_variant LOW 2133T>C Gly711Gly
M0131481 HBDDBALI_00002 2441 5 Oral 0.71 protein_coding upstream_gene_variant MODIFIER -152T>C None
M0131482 HBDDBALI_00002 2472 5 Oral 0.71 protein_coding upstream_gene_variant MODIFIER -121G>T None
M0131483 HBDDBALI_00002 2520 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -73T>C None
M0131484 HBDDBALI_00002 2572 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -21G>C None
M0131485 HBDDBALI_00002 2580 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -13C>T None
M0131486 HBDDBALI_00002 2581 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -12T>C None
M0131487 HBDDBALI_00002 2622 6 Oral 0.86 protein_coding synonymous_variant LOW 30C>T Asp10Asp
M0131488 HBDDBALI_00002 2694 3 Oral 0.43 protein_coding synonymous_variant LOW 102C>T Cys34Cys
M0131489 HBDDBALI_00002 2752 6 Oral 0.86 protein_coding missense_variant MODERATE 160T>A Leu54Met
M0131490 HBDDBALI_00002 2844 5 Oral 0.71 protein_coding synonymous_variant LOW 252A>G Lys84Lys
M0131491 HBDDBALI_00002 2874 6 Oral 0.86 protein_coding synonymous_variant LOW 282C>T Ile94Ile
M0131492 HBDDBALI_00002 2886 6 Oral 0.86 protein_coding synonymous_variant LOW 294G>A Thr98Thr
M0131493 HBDDBALI_00002 2889 6 Oral 0.86 protein_coding synonymous_variant LOW 297A>C Gly99Gly
M0131494 HBDDBALI_00002 2901 5 Oral 0.71 protein_coding synonymous_variant LOW 309A>G Glu103Glu
M0131495 HBDDBALI_00002 2919 6 Oral 0.86 protein_coding synonymous_variant LOW 327A>G Lys109Lys
M0131496 HBDDBALI_00001 103 5 Oral 0.71 protein_coding upstream_gene_variant MODIFIER -126C>T None
M0131497 HBDDBALI_00001 122 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -107G>A None
M0131498 HBDDBALI_00001 123 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -106T>C None
M0131499 HBDDBALI_00001 126 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -103G>A None
M0131500 HBDDBALI_00001 321 3 Oral 0.43 protein_coding synonymous_variant LOW 93T>C Thr31Thr
M0131501 HBDDBALI_00001 765 3 Oral 0.43 protein_coding synonymous_variant LOW 537C>T Ile179Ile
M0131502 HBDDBALI_00001 1005 3 Oral 0.43 protein_coding synonymous_variant LOW 777C>T Ile259Ile
M0131503 HBDDBALI_00001 1200 3 Oral 0.43 protein_coding synonymous_variant LOW 972G>A Glu324Glu
M0131504 HBDDBALI_00001 1227 3 Oral 0.43 protein_coding synonymous_variant LOW 999C>T Leu333Leu
M0131505 HBDDBALI_00001 1569 3 Oral 0.43 protein_coding synonymous_variant LOW 1341C>T Ala447Ala
M0131506 HBDDBALI_00001 1635 5 Oral 0.71 protein_coding missense_variant MODERATE 1407T>G Asn469Lys
M0131507 HBDDBALI_00001 1638 5 Oral 0.71 protein_coding synonymous_variant LOW 1410G>A Val470Val
M0131508 HBDDBALI_00001 1710 3 Oral 0.43 protein_coding synonymous_variant LOW 1482A>T Pro494Pro
M0131509 HBDDBALI_00001 1968 3 Oral 0.43 protein_coding synonymous_variant LOW 1740G>C Ala580Ala
M0131510 HBDDBALI_00001 2230 4 Oral 0.57 protein_coding missense_variant MODERATE 2002G>A Val668Ile
M0131511 HBDDBALI_00002 2562 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -31C>T None
M0131512 HBDDBALI_00002 2859 3 Oral 0.43 protein_coding synonymous_variant LOW 267G>A Gln89Gln
M0131513 HBDDBALI_00002 2964 5 Oral 0.71 protein_coding synonymous_variant LOW 372A>T Gly124Gly
M0131514 HBDDBALI_00001 76 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -153A>G None
M0131515 HBDDBALI_00001 92 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -137C>T 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





        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