Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1552
  Reference Plasmid   1111525849479998_bin.30__k141_72611
  Reference Plasmid Size   8161
  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
M0117759 MIDEHHBJ_00004 5860 4 Oral 0.50 protein_coding synonymous_variant LOW 1473C>G Pro491Pro
M0117760 MIDEHHBJ_00004 5893 5 Oral 0.63 protein_coding missense_variant MODERATE 1440A>G Ile480Met
M0117761 MIDEHHBJ_00004 6232 5 Oral 0.63 protein_coding synonymous_variant LOW 1101T>C Thr367Thr
M0117762 MIDEHHBJ_00004 6303 3 Oral 0.38 protein_coding missense_variant MODERATE 1030A>G Thr344Ala
M0117763 MIDEHHBJ_00004 6316 5 Oral 0.63 protein_coding synonymous_variant LOW 1017T>C Asp339Asp
M0117764 MIDEHHBJ_00004 6370 5 Oral 0.63 protein_coding synonymous_variant LOW 963A>C Thr321Thr
M0117765 MIDEHHBJ_00004 6382 5 Oral 0.63 protein_coding synonymous_variant LOW 951T>C Ala317Ala
M0117766 MIDEHHBJ_00004 6383 3 Oral 0.38 protein_coding missense_variant MODERATE 950C>A Ala317Asp
M0117767 MIDEHHBJ_00004 6393 5 Oral 0.63 protein_coding missense_variant MODERATE 940C>A Gln314Lys
M0117768 MIDEHHBJ_00004 6601 5 Oral 0.63 protein_coding synonymous_variant LOW 732T>C Ile244Ile
M0117769 MIDEHHBJ_00004 6603 5 Oral 0.63 protein_coding missense_variant MODERATE 730A>G Ile244Val
M0117770 MIDEHHBJ_00004 6781 5 Oral 0.63 protein_coding synonymous_variant LOW 552T>C Tyr184Tyr
M0117771 MIDEHHBJ_00004 7090 5 Oral 0.63 protein_coding synonymous_variant LOW 243T>C Ala81Ala
M0117772 MIDEHHBJ_00004 7099 5 Oral 0.63 protein_coding synonymous_variant LOW 234T>C Thr78Thr
M0117773 MIDEHHBJ_00004 7204 5 Oral 0.63 protein_coding synonymous_variant LOW 129C>A Ala43Ala
M0117774 MIDEHHBJ_00004 7237 5 Oral 0.63 protein_coding synonymous_variant LOW 96T>C Leu32Leu
M0117775 MIDEHHBJ_00004 7246 3 Oral 0.38 protein_coding synonymous_variant LOW 87A>G Glu29Glu
M0117776 MIDEHHBJ_00004 7252 3 Oral 0.38 protein_coding synonymous_variant LOW 81T>C Leu27Leu
M0117777 MIDEHHBJ_00004 7318 4 Oral 0.50 protein_coding synonymous_variant LOW 15T>C Tyr5Tyr
M0117778 MIDEHHBJ_00004 7321 4 Oral 0.50 protein_coding synonymous_variant LOW 12A>T Val4Val
M0117779 MIDEHHBJ_00003 7387 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3543G>A None
M0117780 MIDEHHBJ_00003 7468 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3624T>A None
M0117781 MIDEHHBJ_00003 7563 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3719G>A None
M0117782 MIDEHHBJ_00003 7717 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3873A>G None
M0117783 MIDEHHBJ_00002 1748 3 Oral 0.38 protein_coding synonymous_variant LOW 27T>C Ile9Ile
M0117784 MIDEHHBJ_00001 1807 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -999T>C None
M0117785 MIDEHHBJ_00003 2282 3 Oral 0.38 protein_coding synonymous_variant LOW 1563A>G Glu521Glu
M0117786 MIDEHHBJ_00003 2288 3 Oral 0.38 protein_coding synonymous_variant LOW 1557C>T Gly519Gly
M0117787 MIDEHHBJ_00003 2336 3 Oral 0.38 protein_coding synonymous_variant LOW 1509T>C Ala503Ala
M0117788 MIDEHHBJ_00003 2379 3 Oral 0.38 protein_coding missense_variant MODERATE 1466T>C Val489Ala
M0117789 MIDEHHBJ_00003 2461 3 Oral 0.38 protein_coding missense_variant MODERATE 1384G>C Glu462Gln
M0117790 MIDEHHBJ_00003 2600 3 Oral 0.38 protein_coding synonymous_variant LOW 1245C>T Ile415Ile
M0117791 MIDEHHBJ_00003 2618 4 Oral 0.50 protein_coding synonymous_variant LOW 1227T>C Gly409Gly
M0117792 MIDEHHBJ_00003 2624 3 Oral 0.38 protein_coding synonymous_variant LOW 1221T>C Asp407Asp
M0117793 MIDEHHBJ_00003 2654 5 Oral 0.63 protein_coding synonymous_variant LOW 1191A>G Ala397Ala
M0117794 MIDEHHBJ_00003 2702 4 Oral 0.50 protein_coding synonymous_variant LOW 1143C>T Gly381Gly
M0117795 MIDEHHBJ_00003 2717 3 Oral 0.38 protein_coding synonymous_variant LOW 1128G>T Val376Val
M0117796 MIDEHHBJ_00003 2753 4 Oral 0.50 protein_coding synonymous_variant LOW 1092C>T Ala364Ala
M0117797 MIDEHHBJ_00003 2765 5 Oral 0.63 protein_coding synonymous_variant LOW 1080C>T Gly360Gly
M0117798 MIDEHHBJ_00003 2774 4 Oral 0.50 protein_coding synonymous_variant LOW 1071C>T Gly357Gly
M0117799 MIDEHHBJ_00003 2828 4 Oral 0.50 protein_coding synonymous_variant LOW 1017T>C Ser339Ser
M0117800 MIDEHHBJ_00003 2834 4 Oral 0.50 protein_coding synonymous_variant LOW 1011C>T Arg337Arg
M0117801 MIDEHHBJ_00003 2840 3 Oral 0.38 protein_coding synonymous_variant LOW 1005T>C Gly335Gly
M0117802 MIDEHHBJ_00003 2852 5 Oral 0.63 protein_coding synonymous_variant LOW 993T>C His331His
M0117803 MIDEHHBJ_00003 2909 5 Oral 0.63 protein_coding synonymous_variant LOW 936A>G Ser312Ser
M0117804 MIDEHHBJ_00003 2966 5 Oral 0.63 protein_coding synonymous_variant LOW 879T>C Gly293Gly
M0117805 MIDEHHBJ_00003 2972 5 Oral 0.63 protein_coding synonymous_variant LOW 873T>C Phe291Phe
M0117806 MIDEHHBJ_00003 3035 4 Oral 0.50 protein_coding synonymous_variant LOW 810C>G Leu270Leu
M0117807 MIDEHHBJ_00003 3068 5 Oral 0.63 protein_coding synonymous_variant LOW 777T>C Arg259Arg
M0117808 MIDEHHBJ_00003 3107 5 Oral 0.63 protein_coding synonymous_variant LOW 738T>C Ser246Ser
M0117809 MIDEHHBJ_00003 3112 5 Oral 0.63 protein_coding missense_variant MODERATE 733A>G Ile245Val
M0117810 MIDEHHBJ_00003 3115 3 Oral 0.38 protein_coding missense_variant MODERATE 730A>G Ile244Val
M0117811 MIDEHHBJ_00003 3191 4 Oral 0.50 protein_coding synonymous_variant LOW 654T>G Pro218Pro
M0117812 MIDEHHBJ_00003 3203 3 Oral 0.38 protein_coding synonymous_variant LOW 642C>G Ala214Ala
M0117813 MIDEHHBJ_00003 3239 5 Oral 0.63 protein_coding synonymous_variant LOW 606T>C Ser202Ser
M0117814 MIDEHHBJ_00003 3251 4 Oral 0.50 protein_coding synonymous_variant LOW 594A>G Ala198Ala
M0117815 MIDEHHBJ_00003 3281 4 Oral 0.50 protein_coding synonymous_variant LOW 564T>C Asp188Asp
M0117816 MIDEHHBJ_00003 3302 5 Oral 0.63 protein_coding synonymous_variant LOW 543A>G Pro181Pro
M0117817 MIDEHHBJ_00003 3365 5 Oral 0.63 protein_coding synonymous_variant LOW 480T>C Val160Val
M0117818 MIDEHHBJ_00003 3416 4 Oral 0.50 protein_coding synonymous_variant LOW 429T>C Leu143Leu
M0117819 MIDEHHBJ_00003 3542 4 Oral 0.50 protein_coding synonymous_variant LOW 303A>G Ala101Ala
M0117820 MIDEHHBJ_00003 3548 5 Oral 0.63 protein_coding synonymous_variant LOW 297T>C Asn99Asn
M0117821 MIDEHHBJ_00003 3578 4 Oral 0.50 protein_coding synonymous_variant LOW 267T>C Leu89Leu
M0117822 MIDEHHBJ_00003 3734 4 Oral 0.50 protein_coding synonymous_variant LOW 111C>T Ala37Ala
M0117823 MIDEHHBJ_00001 3885 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3077T>C None
M0117824 MIDEHHBJ_00001 3979 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -3171T>C None
M0117825 MIDEHHBJ_00001 3980 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3172T>C None
M0117826 MIDEHHBJ_00004 4078 5 Oral 0.63 protein_coding synonymous_variant LOW 3255T>C Asn1085Asn
M0117827 MIDEHHBJ_00004 4094 5 Oral 0.63 protein_coding missense_variant MODERATE 3239T>C Val1080Ala
M0117828 MIDEHHBJ_00004 4212 5 Oral 0.63 protein_coding missense_variant MODERATE 3121A>G Ile1041Val
M0117829 MIDEHHBJ_00004 4426 5 Oral 0.63 protein_coding synonymous_variant LOW 2907T>C Ala969Ala
M0117830 MIDEHHBJ_00004 4456 4 Oral 0.50 protein_coding synonymous_variant LOW 2877C>T Gly959Gly
M0117831 MIDEHHBJ_00004 4639 4 Oral 0.50 protein_coding synonymous_variant LOW 2694A>T Ala898Ala
M0117832 MIDEHHBJ_00004 4657 5 Oral 0.63 protein_coding synonymous_variant LOW 2676C>G Leu892Leu
M0117833 MIDEHHBJ_00004 4753 5 Oral 0.63 protein_coding synonymous_variant LOW 2580A>G Glu860Glu
M0117834 MIDEHHBJ_00004 4756 3 Oral 0.38 protein_coding synonymous_variant LOW 2577C>T Asp859Asp
M0117835 MIDEHHBJ_00004 4795 5 Oral 0.63 protein_coding synonymous_variant LOW 2538A>G Val846Val
M0117836 MIDEHHBJ_00004 4819 5 Oral 0.63 protein_coding synonymous_variant LOW 2514G>C Arg838Arg
M0117837 MIDEHHBJ_00004 4855 3 Oral 0.38 protein_coding synonymous_variant LOW 2478A>G Ala826Ala
M0117838 MIDEHHBJ_00004 5212 5 Oral 0.63 protein_coding synonymous_variant LOW 2121A>G Glu707Glu
M0117839 MIDEHHBJ_00004 5242 3 Oral 0.38 protein_coding synonymous_variant LOW 2091C>T Ile697Ile
M0117840 MIDEHHBJ_00004 5320 3 Oral 0.38 protein_coding synonymous_variant LOW 2013C>T Arg671Arg
M0117841 MIDEHHBJ_00004 5344 4 Oral 0.50 protein_coding synonymous_variant LOW 1989C>T Gly663Gly
M0117842 MIDEHHBJ_00004 5356 5 Oral 0.63 protein_coding synonymous_variant LOW 1977T>C Leu659Leu
M0117843 MIDEHHBJ_00004 5419 5 Oral 0.63 protein_coding synonymous_variant LOW 1914C>A Val638Val
M0117844 MIDEHHBJ_00004 5638 4 Oral 0.50 protein_coding synonymous_variant LOW 1695C>T Ile565Ile
M0117845 MIDEHHBJ_00004 5668 5 Oral 0.63 protein_coding synonymous_variant LOW 1665T>C Asp555Asp
M0117846 MIDEHHBJ_00004 5815 5 Oral 0.63 protein_coding synonymous_variant LOW 1518G>A Ala506Ala
M0117847 MIDEHHBJ_00003 3211 3 Oral 0.38 protein_coding missense_variant MODERATE 634A>G Ile212Val
M0117848 MIDEHHBJ_00003 3395 3 Oral 0.38 protein_coding synonymous_variant LOW 450C>T Asp150Asp
M0117849 MIDEHHBJ_00003 3563 3 Oral 0.38 protein_coding synonymous_variant LOW 282A>G Glu94Glu
M0117850 MIDEHHBJ_00004 5272 3 Oral 0.38 protein_coding synonymous_variant LOW 2061G>A Ala687Ala
M0117851 MIDEHHBJ_00004 6616 3 Oral 0.38 protein_coding synonymous_variant LOW 717T>C Gly239Gly
M0117852 MIDEHHBJ_00003 2495 3 Oral 0.38 protein_coding synonymous_variant LOW 1350C>T Ile450Ile






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