Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1023
  Reference Plasmid   NZ_CP096914.1
  Reference Plasmid Size   152682
  Reference Plasmid GC Content   0.57
  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
M0106721 HLGGHFEI_00092 88522 39 Skin 0.19 protein_coding stop_gained HIGH 247C>T Gln83*
M0106722 HLGGHFEI_00075 66528 13 Skin 0.06 protein_coding missense_variant MODERATE 228A>G Ile76Met
M0106723 HLGGHFEI_00078 72994 44 Skin 0.21 protein_coding synonymous_variant LOW 93G>C Gly31Gly
M0106724 HLGGHFEI_00100 96935 3 Skin 0.01 protein_coding synonymous_variant LOW 1809T>C Gly603Gly
M0106725 HLGGHFEI_00100 97132 6 Skin 0.03 protein_coding missense_variant MODERATE 1612G>A Ala538Thr
M0106726 HLGGHFEI_00100 97256 6 Skin 0.03 protein_coding synonymous_variant LOW 1488C>T Asp496Asp
M0106727 HLGGHFEI_00085 84859 3 Skin 0.01 protein_coding upstream_gene_variant MODIFIER -4084G>A None
M0106728 HLGGHFEI_00076 68533 8 Skin 0.04 protein_coding synonymous_variant LOW 1377A>G Leu459Leu
M0106729 HLGGHFEI_00076 68476 4 Skin 0.02 protein_coding synonymous_variant LOW 1434G>C Gly478Gly
M0106730 HLGGHFEI_00076 68479 3 Skin 0.01 protein_coding synonymous_variant LOW 1431G>A Gln477Gln
M0106731 HLGGHFEI_00076 68500 3 Skin 0.01 protein_coding synonymous_variant LOW 1410T>C Arg470Arg
M0106732 HLGGHFEI_00076 68505 3 Skin 0.01 protein_coding synonymous_variant LOW 1405T>C Leu469Leu
M0106733 HLGGHFEI_00076 68517 3 Skin 0.01 protein_coding missense_variant MODERATE 1393A>C Met465Leu
M0106734 HLGGHFEI_00076 68572 3 Skin 0.01 protein_coding synonymous_variant LOW 1338C>G Val446Val
M0106735 HLGGHFEI_00076 68619 3 Skin 0.01 protein_coding missense_variant MODERATE 1291G>A Ala431Thr
M0106736 HLGGHFEI_00076 68652 3 Skin 0.01 protein_coding missense_variant MODERATE 1258G>A Gly420Ser
M0106737 HLGGHFEI_00076 68677 3 Skin 0.01 protein_coding synonymous_variant LOW 1233G>A Val411Val
M0106738 HLGGHFEI_00076 68686 3 Skin 0.01 protein_coding synonymous_variant LOW 1224G>C Ala408Ala
M0106739 HLGGHFEI_00076 68695 4 Skin 0.02 protein_coding synonymous_variant LOW 1215T>G Ala405Ala
M0106740 HLGGHFEI_00076 68706 3 Skin 0.01 protein_coding synonymous_variant LOW 1204C>T Leu402Leu
M0106741 HLGGHFEI_00076 68717 3 Skin 0.01 protein_coding missense_variant MODERATE 1193C>A Ala398Asp
M0106742 HLGGHFEI_00076 68719 3 Skin 0.01 protein_coding synonymous_variant LOW 1191T>C Leu397Leu
M0106743 HLGGHFEI_00076 68722 3 Skin 0.01 protein_coding synonymous_variant LOW 1188C>T Phe396Phe
M0106744 HLGGHFEI_00076 68758 3 Skin 0.01 protein_coding synonymous_variant LOW 1152A>G Glu384Glu
M0106745 HLGGHFEI_00076 68794 3 Skin 0.01 protein_coding synonymous_variant LOW 1116G>A Gln372Gln
M0106746 HLGGHFEI_00076 68800 3 Skin 0.01 protein_coding synonymous_variant LOW 1110T>C Leu370Leu
M0106747 HLGGHFEI_00076 68804 3 Skin 0.01 protein_coding missense_variant MODERATE 1106A>G Lys369Arg
M0106748 HLGGHFEI_00076 68805 3 Skin 0.01 protein_coding missense_variant MODERATE 1105A>C Lys369Gln
M0106749 HLGGHFEI_00076 68833 3 Skin 0.01 protein_coding synonymous_variant LOW 1077C>T Ala359Ala
M0106750 HLGGHFEI_00082 78191 7 Skin 0.03 protein_coding synonymous_variant LOW 252G>C Val84Val
M0106751 HLGGHFEI_00082 78194 7 Skin 0.03 protein_coding synonymous_variant LOW 249G>T Gly83Gly
M0106752 HLGGHFEI_00082 78197 8 Skin 0.04 protein_coding synonymous_variant LOW 246G>C Ala82Ala
M0106753 HLGGHFEI_00082 78200 7 Skin 0.03 protein_coding synonymous_variant LOW 243T>C Asp81Asp
M0106754 HLGGHFEI_00076 68965 4 Skin 0.02 protein_coding synonymous_variant LOW 945A>G Gln315Gln
M0106755 HLGGHFEI_00099 95451 17 Skin 0.08 protein_coding missense_variant MODERATE 142A>G Asn48Asp
M0106756 HLGGHFEI_00118 115325 3 Skin 0.01 protein_coding synonymous_variant LOW 321A>G Pro107Pro
M0106757 HLGGHFEI_00118 115571 3 Skin 0.01 protein_coding synonymous_variant LOW 75C>T Asp25Asp
M0106758 HLGGHFEI_00119 115714 3 Skin 0.01 protein_coding synonymous_variant LOW 1617C>T Asp539Asp
M0106759 HLGGHFEI_00119 116794 3 Skin 0.01 protein_coding synonymous_variant LOW 537G>A Gln179Gln
M0106760 HLGGHFEI_00076 68925 3 Skin 0.01 protein_coding synonymous_variant LOW 985T>C Leu329Leu
M0106761 HLGGHFEI_00080 75091 3 Skin 0.01 protein_coding synonymous_variant LOW 297C>T Cys99Cys






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
HLGGHFEI_00068 Mercury (Hg) 96.7 9.7e-42 1 91 1.0000 1.0000 prediction
MGKNEEIC_00068 Mercury (Hg) 96.7 9.7e-42 1 91 1.0000 1.0000 prediction






        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
HLGGHFEI_00103 ARO:3002192 100 3.86e-183 1 246 1.0000 1.0000 carbapenem IMP beta-lactamase antibiotic inactivation
HLGGHFEI_00104 ARO:3002580 100 7.36e-142 22 213 0.9014 0.9458 aminoglycoside antibiotic AAC(6') antibiotic inactivation
HLGGHFEI_00105 ARO:3002577 97.3 1.56e-131 1 184 1.0000 1.0000 aminoglycoside antibiotic AAC(6') antibiotic inactivation
HLGGHFEI_00110 ARO:3004623 100 4.76e-213 1 286 1.0000 1.0000 aminoglycoside antibiotic AAC(3) antibiotic inactivation
HLGGHFEI_00114 ARO:3002660 99.6 1.07e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) antibiotic inactivation
MGKNEEIC_00103 ARO:3002192 100 3.86e-183 1 246 1.0000 1.0000 carbapenem IMP beta-lactamase antibiotic inactivation
MGKNEEIC_00104 ARO:3002580 100 7.36e-142 22 213 0.9014 0.9458 aminoglycoside antibiotic AAC(6') antibiotic inactivation
MGKNEEIC_00105 ARO:3002577 97.3 1.56e-131 1 184 1.0000 1.0000 aminoglycoside antibiotic AAC(6') antibiotic inactivation
MGKNEEIC_00110 ARO:3004623 100 4.76e-213 1 286 1.0000 1.0000 aminoglycoside antibiotic AAC(3) antibiotic inactivation
MGKNEEIC_00114 ARO:3002660 99.6 1.07e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) antibiotic inactivation






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
HLGGHFEI_00102 PHI:9804 int 100 4e-14 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence
MGKNEEIC_00102 PHI:9804 int 100 4e-14 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence






        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
HLGGHFEI_00012 2.A.53.3.1 75.1 1.3e-202 1 493 0.9960 0.9919 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family
HLGGHFEI_00083 2.A.51.1.7 89.6 1e-189 1 376 0.9377 0.9666 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.51 The Chromate Ion Transporter (CHR) Family
HLGGHFEI_00086 2.A.53.3.1 75.1 1.7e-202 1 493 0.9960 0.9919 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family
MGKNEEIC_00012 2.A.53.3.1 75.1 1.3e-202 1 493 0.9960 0.9919 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family
MGKNEEIC_00083 2.A.51.1.7 89.6 1e-189 1 376 0.9377 0.9666 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.51 The Chromate Ion Transporter (CHR) Family
MGKNEEIC_00086 2.A.53.3.1 75.1 1.7e-202 1 493 0.9960 0.9919 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family