Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2755
  Reference Plasmid   1111525849862212_bin.15__k141_241591
  Reference Plasmid Size   3651
  Reference Plasmid GC Content   0.43
  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
M0055678 PNJHHLPG_00001 615 3 Skin 0.25 protein_coding synonymous_variant LOW 159A>G Ser53Ser
M0055679 PNJHHLPG_00001 643 3 Skin 0.25 protein_coding missense_variant MODERATE 187T>A Ser63Thr
M0055680 PNJHHLPG_00001 657 3 Skin 0.25 protein_coding synonymous_variant LOW 201C>T Thr67Thr
M0055681 PNJHHLPG_00001 663 3 Skin 0.25 protein_coding synonymous_variant LOW 207C>T Tyr69Tyr
M0055682 PNJHHLPG_00001 664 3 Skin 0.25 protein_coding missense_variant MODERATE 208A>G Lys70Glu
M0055683 PNJHHLPG_00001 680 3 Skin 0.25 protein_coding missense_variant MODERATE 224C>T Thr75Ile
M0055684 PNJHHLPG_00001 681 3 Skin 0.25 protein_coding synonymous_variant LOW 225C>T Thr75Thr
M0055685 PNJHHLPG_00001 848 3 Skin 0.25 protein_coding missense_variant MODERATE 392G>C Gly131Ala
M0055686 PNJHHLPG_00001 870 5 Skin 0.42 protein_coding synonymous_variant LOW 414C>A Ala138Ala
M0055687 PNJHHLPG_00001 936 4 Skin 0.33 protein_coding synonymous_variant LOW 480G>T Ala160Ala
M0055688 PNJHHLPG_00001 955 4 Skin 0.33 protein_coding missense_variant MODERATE 499C>G Leu167Val
M0055689 PNJHHLPG_00001 983 3 Skin 0.25 protein_coding missense_variant MODERATE 527T>C Val176Ala
M0055690 PNJHHLPG_00001 996 7 Skin 0.58 protein_coding synonymous_variant LOW 540T>A Ala180Ala
M0055691 PNJHHLPG_00001 1029 6 Skin 0.50 protein_coding synonymous_variant LOW 573T>C Thr191Thr
M0055692 PNJHHLPG_00001 1034 3 Skin 0.25 protein_coding missense_variant MODERATE 578T>C Val193Ala
M0055693 PNJHHLPG_00001 1038 4 Skin 0.33 protein_coding synonymous_variant LOW 582T>C Ser194Ser
M0055694 PNJHHLPG_00001 1053 6 Skin 0.50 protein_coding synonymous_variant LOW 597T>C Asn199Asn
M0055695 PNJHHLPG_00001 1066 6 Skin 0.50 protein_coding missense_variant MODERATE 610C>G Leu204Val
M0055696 PNJHHLPG_00001 1071 5 Skin 0.42 protein_coding synonymous_variant LOW 615T>G Gly205Gly
M0055697 PNJHHLPG_00001 1095 4 Skin 0.33 protein_coding synonymous_variant LOW 639T>C Asn213Asn
M0055698 PNJHHLPG_00001 1140 6 Skin 0.50 protein_coding synonymous_variant LOW 684G>A Glu228Glu
M0055699 PNJHHLPG_00001 1170 4 Skin 0.33 protein_coding synonymous_variant LOW 714T>G Ser238Ser
M0055700 PNJHHLPG_00001 1203 7 Skin 0.58 protein_coding synonymous_variant LOW 747A>G Ser249Ser
M0055701 PNJHHLPG_00001 1305 5 Skin 0.42 protein_coding synonymous_variant LOW 849T>G Ala283Ala
M0055702 PNJHHLPG_00001 1350 6 Skin 0.50 protein_coding missense_variant MODERATE 894T>G Ile298Met
M0055703 PNJHHLPG_00001 1371 3 Skin 0.25 protein_coding synonymous_variant LOW 915C>T Ser305Ser
M0055704 PNJHHLPG_00001 1446 5 Skin 0.42 protein_coding synonymous_variant LOW 990C>T Ser330Ser
M0055705 PNJHHLPG_00001 1470 7 Skin 0.58 protein_coding synonymous_variant LOW 1014A>G Leu338Leu
M0055706 PNJHHLPG_00001 1492 6 Skin 0.50 protein_coding missense_variant MODERATE 1036C>G Pro346Ala
M0055707 PNJHHLPG_00001 1497 6 Skin 0.50 protein_coding synonymous_variant LOW 1041A>C Thr347Thr
M0055708 PNJHHLPG_00001 1500 5 Skin 0.42 protein_coding synonymous_variant LOW 1044G>C Gly348Gly
M0055709 PNJHHLPG_00001 1521 8 Skin 0.67 protein_coding synonymous_variant LOW 1065C>T Tyr355Tyr
M0055710 PNJHHLPG_00001 1575 9 Skin 0.75 protein_coding synonymous_variant LOW 1119A>G Val373Val
M0055711 PNJHHLPG_00001 1650 9 Skin 0.75 protein_coding synonymous_variant LOW 1194T>C Pro398Pro
M0055712 PNJHHLPG_00001 1665 6 Skin 0.50 protein_coding synonymous_variant LOW 1209A>G Gly403Gly
M0055713 PNJHHLPG_00001 1689 8 Skin 0.67 protein_coding synonymous_variant LOW 1233A>G Val411Val
M0055714 PNJHHLPG_00001 1719 9 Skin 0.75 protein_coding synonymous_variant LOW 1263T>C Pro421Pro
M0055715 PNJHHLPG_00001 1749 6 Skin 0.50 protein_coding synonymous_variant LOW 1293C>T Tyr431Tyr
M0055716 PNJHHLPG_00001 1830 6 Skin 0.50 protein_coding synonymous_variant LOW 1374C>T Tyr458Tyr
M0055717 PNJHHLPG_00001 1854 3 Skin 0.25 protein_coding synonymous_variant LOW 1398G>A Lys466Lys
M0055718 PNJHHLPG_00001 1857 3 Skin 0.25 protein_coding synonymous_variant LOW 1401G>A Lys467Lys
M0055719 PNJHHLPG_00001 1903 7 Skin 0.58 protein_coding downstream_gene_variant MODIFIER *43T>G None
M0055720 PNJHHLPG_00001 1905 7 Skin 0.58 protein_coding downstream_gene_variant MODIFIER *45T>C None
M0055721 PNJHHLPG_00001 1908 7 Skin 0.58 protein_coding downstream_gene_variant MODIFIER *48C>A None
M0055722 PNJHHLPG_00002 1932 7 Skin 0.58 protein_coding missense_variant MODERATE 871A>G Asn291Asp
M0055723 PNJHHLPG_00002 1951 5 Skin 0.42 protein_coding synonymous_variant LOW 852T>C Asp284Asp
M0055724 PNJHHLPG_00002 1957 7 Skin 0.58 protein_coding synonymous_variant LOW 846A>G Leu282Leu
M0055725 PNJHHLPG_00002 1969 7 Skin 0.58 protein_coding synonymous_variant LOW 834T>C Ser278Ser
M0055726 PNJHHLPG_00002 1999 7 Skin 0.58 protein_coding synonymous_variant LOW 804T>C Val268Val
M0055727 PNJHHLPG_00002 2005 4 Skin 0.33 protein_coding synonymous_variant LOW 798T>G Gly266Gly
M0055728 PNJHHLPG_00002 2020 3 Skin 0.25 protein_coding synonymous_variant LOW 783G>A Leu261Leu
M0055729 PNJHHLPG_00002 2029 7 Skin 0.58 protein_coding synonymous_variant LOW 774T>C Pro258Pro
M0055730 PNJHHLPG_00002 2041 3 Skin 0.25 protein_coding synonymous_variant LOW 762T>C Asn254Asn
M0055731 PNJHHLPG_00002 2071 7 Skin 0.58 protein_coding synonymous_variant LOW 732C>G Thr244Thr
M0055732 PNJHHLPG_00002 2074 3 Skin 0.25 protein_coding synonymous_variant LOW 729A>G Gln243Gln
M0055733 PNJHHLPG_00002 2122 8 Skin 0.67 protein_coding synonymous_variant LOW 681A>G Ser227Ser
M0055734 PNJHHLPG_00002 2182 5 Skin 0.42 protein_coding synonymous_variant LOW 621T>C Ala207Ala
M0055735 PNJHHLPG_00002 2197 6 Skin 0.50 protein_coding synonymous_variant LOW 606C>T Ser202Ser
M0055736 PNJHHLPG_00002 2236 3 Skin 0.25 protein_coding synonymous_variant LOW 567T>C Asn189Asn
M0055737 PNJHHLPG_00002 2239 3 Skin 0.25 protein_coding synonymous_variant LOW 564G>C Ala188Ala
M0055738 PNJHHLPG_00002 2289 5 Skin 0.42 protein_coding missense_variant MODERATE 514G>A Val172Ile
M0055739 PNJHHLPG_00002 2290 5 Skin 0.42 protein_coding synonymous_variant LOW 513T>C Gly171Gly
M0055740 PNJHHLPG_00002 2293 5 Skin 0.42 protein_coding synonymous_variant LOW 510G>C Thr170Thr
M0055741 PNJHHLPG_00001 1266 3 Skin 0.25 protein_coding synonymous_variant LOW 810G>A Ala270Ala
M0055742 PNJHHLPG_00001 1269 3 Skin 0.25 protein_coding synonymous_variant LOW 813G>A Leu271Leu
M0055743 PNJHHLPG_00001 1332 8 Skin 0.67 protein_coding missense_variant MODERATE 876A>T Glu292Asp
M0055744 PNJHHLPG_00001 1725 8 Skin 0.67 protein_coding synonymous_variant LOW 1269T>C Val423Val
M0055745 PNJHHLPG_00001 1750 3 Skin 0.25 protein_coding synonymous_variant LOW 1294T>C Leu432Leu
M0055746 PNJHHLPG_00002 1935 3 Skin 0.25 protein_coding missense_variant MODERATE 868A>G Met290Val
M0055747 PNJHHLPG_00002 1945 3 Skin 0.25 protein_coding synonymous_variant LOW 858A>G Leu286Leu
M0055748 PNJHHLPG_00002 1996 5 Skin 0.42 protein_coding synonymous_variant LOW 807T>C Thr269Thr
M0055749 PNJHHLPG_00002 2032 3 Skin 0.25 protein_coding synonymous_variant LOW 771C>A Thr257Thr
M0055750 PNJHHLPG_00002 2125 4 Skin 0.33 protein_coding synonymous_variant LOW 678G>A Glu226Glu
M0055751 PNJHHLPG_00002 2416 10 Skin 0.83 protein_coding synonymous_variant LOW 387T>C Ser129Ser
M0055752 PNJHHLPG_00002 2446 9 Skin 0.75 protein_coding synonymous_variant LOW 357A>G Ala119Ala
M0055753 PNJHHLPG_00002 2518 9 Skin 0.75 protein_coding synonymous_variant LOW 285T>C Ile95Ile
M0055754 PNJHHLPG_00002 2530 4 Skin 0.33 protein_coding synonymous_variant LOW 273C>T Gly91Gly
M0055755 PNJHHLPG_00002 2536 4 Skin 0.33 protein_coding synonymous_variant LOW 267A>G Val89Val
M0055756 PNJHHLPG_00002 2575 3 Skin 0.25 protein_coding synonymous_variant LOW 228T>C Asp76Asp
M0055757 PNJHHLPG_00002 2620 5 Skin 0.42 protein_coding synonymous_variant LOW 183A>G Ala61Ala
M0055758 PNJHHLPG_00002 2730 5 Skin 0.42 protein_coding synonymous_variant LOW 73C>T Leu25Leu
M0055759 PNJHHLPG_00002 2823 10 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -21A>G None
M0055760 PNJHHLPG_00002 2895 6 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -93G>C None
M0055761 PNJHHLPG_00002 2918 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -116A>G None
M0055762 PNJHHLPG_00002 3007 9 Skin 0.75 protein_coding upstream_gene_variant MODIFIER -205T>G None
M0055763 PNJHHLPG_00002 3008 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -206T>C None
M0055764 PNJHHLPG_00002 3013 9 Skin 0.75 protein_coding upstream_gene_variant MODIFIER -211A>G None
M0055765 PNJHHLPG_00002 3088 6 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -286A>G None
M0055766 PNJHHLPG_00002 3160 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -358C>T None
M0055767 PNJHHLPG_00002 3190 8 Skin 0.67 protein_coding upstream_gene_variant MODIFIER -388T>C None
M0055768 PNJHHLPG_00002 3193 6 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -391G>T None
M0055769 PNJHHLPG_00002 3232 8 Skin 0.67 protein_coding upstream_gene_variant MODIFIER -430A>G None
M0055770 PNJHHLPG_00002 3382 10 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -580C>T None
M0055771 PNJHHLPG_00002 3403 9 Skin 0.75 protein_coding upstream_gene_variant MODIFIER -601A>G None
M0055772 PNJHHLPG_00002 3418 7 Skin 0.58 protein_coding upstream_gene_variant MODIFIER -616C>T None
M0055773 PNJHHLPG_00002 3421 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -619T>C None
M0055774 PNJHHLPG_00002 3436 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -634G>C None
M0055775 PNJHHLPG_00002 3475 10 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -673T>C None
M0055776 PNJHHLPG_00002 3532 11 Skin 0.92 protein_coding upstream_gene_variant MODIFIER -730C>T None
M0055777 PNJHHLPG_00002 3568 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -766A>G None
M0055778 PNJHHLPG_00001 1595 4 Skin 0.33 protein_coding missense_variant MODERATE 1139G>A Ser380Asn
M0055779 PNJHHLPG_00001 1599 3 Skin 0.25 protein_coding synonymous_variant LOW 1143T>C Asn381Asn
M0055780 PNJHHLPG_00001 1791 4 Skin 0.33 protein_coding synonymous_variant LOW 1335C>T Asp445Asp
M0055781 PNJHHLPG_00002 2223 4 Skin 0.33 protein_coding synonymous_variant LOW 580T>C Leu194Leu
M0055782 PNJHHLPG_00002 2398 5 Skin 0.42 protein_coding synonymous_variant LOW 405A>C Ala135Ala
M0055783 PNJHHLPG_00002 2476 7 Skin 0.58 protein_coding synonymous_variant LOW 327C>T Val109Val
M0055784 PNJHHLPG_00002 2479 6 Skin 0.50 protein_coding synonymous_variant LOW 324T>G Ala108Ala
M0055785 PNJHHLPG_00002 3349 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -547G>A None
M0055786 PNJHHLPG_00001 984 3 Skin 0.25 protein_coding synonymous_variant LOW 528C>T Val176Val
M0055787 PNJHHLPG_00001 1032 3 Skin 0.25 protein_coding synonymous_variant LOW 576T>C Asn192Asn
M0055788 PNJHHLPG_00001 1157 3 Skin 0.25 protein_coding missense_variant MODERATE 701C>A Thr234Lys
M0055789 PNJHHLPG_00001 1338 7 Skin 0.58 protein_coding synonymous_variant LOW 882C>T Gly294Gly
M0055790 PNJHHLPG_00001 1340 7 Skin 0.58 protein_coding missense_variant MODERATE 884G>C Ser295Thr
M0055791 PNJHHLPG_00001 1342 7 Skin 0.58 protein_coding missense_variant MODERATE 886T>A Tyr296Asn
M0055792 PNJHHLPG_00002 2539 4 Skin 0.33 protein_coding synonymous_variant LOW 264G>A Thr88Thr
M0055793 PNJHHLPG_00002 2814 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -12T>G None
M0055794 PNJHHLPG_00002 2816 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -14G>T None
M0055795 PNJHHLPG_00002 2822 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -20G>A None
M0055796 PNJHHLPG_00002 2886 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -84G>A None
M0055797 PNJHHLPG_00002 3496 6 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -694G>A None
M0055798 PNJHHLPG_00002 3508 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -706A>G None
M0055799 PNJHHLPG_00001 1884 4 Skin 0.33 protein_coding downstream_gene_variant MODIFIER *24A>G None
M0055800 PNJHHLPG_00001 1886 3 Skin 0.25 protein_coding downstream_gene_variant MODIFIER *26C>T None
M0055801 PNJHHLPG_00002 3002 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -200A>C None
M0055802 PNJHHLPG_00002 3166 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -364T>C None
M0055803 PNJHHLPG_00002 3247 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -445G>A None
M0055804 PNJHHLPG_00002 3250 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -448C>T None
M0055805 PNJHHLPG_00002 3253 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -451C>T None
M0055806 PNJHHLPG_00002 3286 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -484G>A None
M0055807 PNJHHLPG_00002 3538 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -736A>G None
M0055808 PNJHHLPG_00002 3607 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -805T>G 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