Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C908
  Reference Plasmid   NZ_CP076506.1
  Reference Plasmid Size   49491
  Reference Plasmid GC Content   0.29
  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
M0188370 FAGNGEAO_00010 5609 6 Gut 0.19 protein_coding synonymous_variant LOW 1038C>T Asp346Asp
M0188371 FAGNGEAO_00010 5615 6 Gut 0.19 protein_coding synonymous_variant LOW 1032C>T Phe344Phe
M0188372 FAGNGEAO_00010 5624 6 Gut 0.19 protein_coding synonymous_variant LOW 1023C>T Ala341Ala
M0188373 FAGNGEAO_00010 5627 6 Gut 0.19 protein_coding synonymous_variant LOW 1020C>T Asp340Asp
M0188374 FAGNGEAO_00010 5632 6 Gut 0.19 protein_coding synonymous_variant LOW 1015A>C Arg339Arg
M0188375 FAGNGEAO_00010 5635 6 Gut 0.19 protein_coding synonymous_variant LOW 1012C>A Arg338Arg
M0188376 FAGNGEAO_00010 5642 6 Gut 0.19 protein_coding missense_variant MODERATE 1005G>T Gln335His
M0188377 FAGNGEAO_00010 5644 6 Gut 0.19 protein_coding stop_gained HIGH 1003C>T Gln335*
M0188378 FAGNGEAO_00010 5648 17 Gut 0.53 protein_coding synonymous_variant LOW 999C>A Ser333Ser
M0188379 FAGNGEAO_00010 5666 6 Gut 0.19 protein_coding synonymous_variant LOW 981C>A Gly327Gly
M0188380 FAGNGEAO_00010 5675 6 Gut 0.19 protein_coding synonymous_variant LOW 972C>T Cys324Cys
M0188381 FAGNGEAO_00010 5681 6 Gut 0.19 protein_coding synonymous_variant LOW 966G>A Ala322Ala
M0188382 FAGNGEAO_00010 5690 19 Gut 0.59 protein_coding synonymous_variant LOW 957T>C Ser319Ser
M0188383 FAGNGEAO_00010 5708 19 Gut 0.59 protein_coding synonymous_variant LOW 939C>T Ala313Ala
M0188384 FAGNGEAO_00010 5759 7 Gut 0.22 protein_coding synonymous_variant LOW 888C>T Asn296Asn
M0188385 FAGNGEAO_00010 5822 6 Gut 0.19 protein_coding synonymous_variant LOW 825G>A Lys275Lys
M0188386 FAGNGEAO_00010 5834 6 Gut 0.19 protein_coding synonymous_variant LOW 813A>G Glu271Glu
M0188387 FAGNGEAO_00010 5863 6 Gut 0.19 protein_coding synonymous_variant LOW 784C>T Leu262Leu
M0188388 FAGNGEAO_00010 5894 19 Gut 0.59 protein_coding synonymous_variant LOW 753C>T Tyr251Tyr
M0188389 FAGNGEAO_00010 5942 7 Gut 0.22 protein_coding synonymous_variant LOW 705C>T Asp235Asp
M0188390 FAGNGEAO_00010 5960 6 Gut 0.19 protein_coding synonymous_variant LOW 687C>T Asn229Asn
M0188391 FAGNGEAO_00010 6032 20 Gut 0.63 protein_coding synonymous_variant LOW 615T>G Gly205Gly
M0188392 FAGNGEAO_00010 6128 7 Gut 0.22 protein_coding synonymous_variant LOW 519G>A Val173Val
M0188393 FAGNGEAO_00010 6164 5 Gut 0.16 protein_coding synonymous_variant LOW 483G>A Gln161Gln
M0188394 FAGNGEAO_00010 6188 6 Gut 0.19 protein_coding synonymous_variant LOW 459G>A Gly153Gly
M0188395 FAGNGEAO_00010 6197 6 Gut 0.19 protein_coding synonymous_variant LOW 450C>T Ser150Ser
M0188396 FAGNGEAO_00010 6272 7 Gut 0.22 protein_coding synonymous_variant LOW 375C>T Gly125Gly
M0188397 FAGNGEAO_00010 6287 11 Gut 0.34 protein_coding synonymous_variant LOW 360C>T Asp120Asp
M0188398 FAGNGEAO_00010 6382 20 Gut 0.63 protein_coding missense_variant MODERATE 265A>G Ile89Val
M0188399 FAGNGEAO_00010 6394 20 Gut 0.63 protein_coding synonymous_variant LOW 253C>T Leu85Leu
M0188400 FAGNGEAO_00010 6425 6 Gut 0.19 protein_coding synonymous_variant LOW 222G>A Arg74Arg
M0188401 FAGNGEAO_00010 6443 26 Gut 0.81 protein_coding synonymous_variant LOW 204T>C Ser68Ser
M0188402 FAGNGEAO_00010 6506 11 Gut 0.34 protein_coding synonymous_variant LOW 141C>T Gly47Gly
M0188403 FAGNGEAO_00010 6512 6 Gut 0.19 protein_coding synonymous_variant LOW 135G>A Pro45Pro
M0188404 FAGNGEAO_00010 6568 24 Gut 0.75 protein_coding synonymous_variant LOW 79T>C Leu27Leu
M0188405 FAGNGEAO_00010 6605 6 Gut 0.19 protein_coding synonymous_variant LOW 42G>A Glu14Glu
M0188406 FAGNGEAO_00010 6612 6 Gut 0.19 protein_coding missense_variant MODERATE 35G>C Gly12Ala
M0188407 FAGNGEAO_00001 6655 25 Gut 0.78 protein_coding upstream_gene_variant MODIFIER -4410C>T None
M0188408 FAGNGEAO_00012 7757 16 Gut 0.50 protein_coding missense_variant MODERATE 653C>T Pro218Leu
M0188409 FAGNGEAO_00012 7766 9 Gut 0.28 protein_coding missense_variant MODERATE 644A>G Asp215Gly
M0188410 FAGNGEAO_00012 7771 9 Gut 0.28 protein_coding synonymous_variant LOW 639G>A Gly213Gly
M0188411 FAGNGEAO_00012 7791 5 Gut 0.16 protein_coding missense_variant MODERATE 619G>T Ala207Ser
M0188412 FAGNGEAO_00012 7793 5 Gut 0.16 protein_coding missense_variant MODERATE 617T>C Ile206Thr
M0188413 FAGNGEAO_00012 7815 5 Gut 0.16 protein_coding missense_variant MODERATE 595G>T Ala199Ser
M0188414 FAGNGEAO_00012 7890 16 Gut 0.50 protein_coding missense_variant MODERATE 520G>A Glu174Lys
M0188415 FAGNGEAO_00012 8071 16 Gut 0.50 protein_coding synonymous_variant LOW 339T>C Ser113Ser
M0188416 FAGNGEAO_00012 8083 15 Gut 0.47 protein_coding synonymous_variant LOW 327T>C Phe109Phe
M0188417 FAGNGEAO_00012 8171 5 Gut 0.16 protein_coding missense_variant MODERATE 239C>T Thr80Ile
M0188418 FAGNGEAO_00012 8203 17 Gut 0.53 protein_coding synonymous_variant LOW 207G>A Gly69Gly
M0188419 FAGNGEAO_00012 8299 12 Gut 0.38 protein_coding synonymous_variant LOW 111C>T Ser37Ser
M0188420 FAGNGEAO_00012 8303 5 Gut 0.16 protein_coding missense_variant MODERATE 107A>G Lys36Arg
M0188421 FAGNGEAO_00012 8389 5 Gut 0.16 protein_coding synonymous_variant LOW 21A>C Thr7Thr
M0188422 FAGNGEAO_00004 8427 17 Gut 0.53 protein_coding upstream_gene_variant MODIFIER -4881T>C None
M0188423 FAGNGEAO_00010 5678 13 Gut 0.41 protein_coding synonymous_variant LOW 969G>A Leu323Leu
M0188424 FAGNGEAO_00010 5744 14 Gut 0.44 protein_coding synonymous_variant LOW 903G>A Glu301Glu
M0188425 FAGNGEAO_00010 5794 12 Gut 0.38 protein_coding missense_variant MODERATE 853A>C Lys285Gln
M0188426 FAGNGEAO_00010 5846 12 Gut 0.38 protein_coding synonymous_variant LOW 801G>A Glu267Glu
M0188427 FAGNGEAO_00010 5877 12 Gut 0.38 protein_coding missense_variant MODERATE 770A>G Lys257Arg
M0188428 FAGNGEAO_00010 6020 13 Gut 0.41 protein_coding synonymous_variant LOW 627G>A Val209Val
M0188429 FAGNGEAO_00010 6029 13 Gut 0.41 protein_coding synonymous_variant LOW 618C>T Phe206Phe
M0188430 FAGNGEAO_00010 6035 13 Gut 0.41 protein_coding synonymous_variant LOW 612A>G Gln204Gln
M0188431 FAGNGEAO_00010 6106 13 Gut 0.41 protein_coding missense_variant MODERATE 541T>C Phe181Leu
M0188432 FAGNGEAO_00010 6116 13 Gut 0.41 protein_coding synonymous_variant LOW 531G>A Leu177Leu
M0188433 FAGNGEAO_00010 6139 13 Gut 0.41 protein_coding synonymous_variant LOW 508C>A Arg170Arg
M0188434 FAGNGEAO_00010 6220 13 Gut 0.41 protein_coding missense_variant MODERATE 427C>T Arg143Cys
M0188435 FAGNGEAO_00010 6281 16 Gut 0.50 protein_coding synonymous_variant LOW 366T>C Asp122Asp
M0188436 FAGNGEAO_00010 6377 16 Gut 0.50 protein_coding synonymous_variant LOW 270A>G Gly90Gly
M0188437 FAGNGEAO_00010 6473 16 Gut 0.50 protein_coding synonymous_variant LOW 174T>C Gly58Gly
M0188438 FAGNGEAO_00001 6699 10 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -4454A>C None
M0188439 FAGNGEAO_00001 6705 10 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -4460A>C None
M0188440 FAGNGEAO_00001 6706 10 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -4461A>G None
M0188441 FAGNGEAO_00001 6710 9 Gut 0.28 protein_coding upstream_gene_variant MODIFIER -4465A>G None
M0188442 FAGNGEAO_00001 6716 10 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -4471G>A None
M0188443 FAGNGEAO_00001 6717 10 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -4472C>G None
M0188444 FAGNGEAO_00001 6740 9 Gut 0.28 protein_coding upstream_gene_variant MODIFIER -4495A>C None
M0188445 FAGNGEAO_00001 6742 10 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -4497T>C None
M0188446 FAGNGEAO_00001 6752 10 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -4507A>G None
M0188447 FAGNGEAO_00003 7677 7 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -4456T>G None
M0188448 FAGNGEAO_00003 7734 7 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -4513C>T None
M0188449 FAGNGEAO_00012 7812 7 Gut 0.22 protein_coding missense_variant MODERATE 598G>A Ala200Thr
M0188450 FAGNGEAO_00012 7964 7 Gut 0.22 protein_coding missense_variant MODERATE 446C>T Ser149Phe
M0188451 FAGNGEAO_00012 8010 7 Gut 0.22 protein_coding missense_variant MODERATE 400G>A Ala134Thr
M0188452 FAGNGEAO_00012 8182 11 Gut 0.34 protein_coding synonymous_variant LOW 228C>T His76His
M0188453 FAGNGEAO_00012 8241 7 Gut 0.22 protein_coding missense_variant MODERATE 169G>C Glu57Gln
M0188454 FAGNGEAO_00012 8249 7 Gut 0.22 protein_coding missense_variant MODERATE 161C>T Thr54Ile
M0188455 FAGNGEAO_00012 8266 7 Gut 0.22 protein_coding synonymous_variant LOW 144T>C Asp48Asp
M0188456 FAGNGEAO_00012 8272 7 Gut 0.22 protein_coding synonymous_variant LOW 138G>A Val46Val
M0188457 FAGNGEAO_00012 8278 7 Gut 0.22 protein_coding synonymous_variant LOW 132T>G Leu44Leu
M0188458 FAGNGEAO_00012 8323 7 Gut 0.22 protein_coding synonymous_variant LOW 87G>A Gln29Gln
M0188459 FAGNGEAO_00012 8350 7 Gut 0.22 protein_coding synonymous_variant LOW 60C>T Ser20Ser
M0188460 FAGNGEAO_00012 8375 7 Gut 0.22 protein_coding missense_variant MODERATE 35T>C Val12Ala
M0188461 FAGNGEAO_00004 8434 7 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -4888G>A None
M0188462 FAGNGEAO_00010 5614 6 Gut 0.19 protein_coding synonymous_variant LOW 1033C>T Leu345Leu
M0188463 FAGNGEAO_00010 6486 5 Gut 0.16 protein_coding missense_variant MODERATE 161A>G Glu54Gly
M0188464 FAGNGEAO_00010 6500 5 Gut 0.16 protein_coding synonymous_variant LOW 147C>G Leu49Leu
M0188465 FAGNGEAO_00010 6511 5 Gut 0.16 protein_coding missense_variant MODERATE 136G>A Ala46Thr
M0188466 FAGNGEAO_00010 6524 5 Gut 0.16 protein_coding synonymous_variant LOW 123G>A Arg41Arg
M0188467 FAGNGEAO_00012 8236 5 Gut 0.16 protein_coding synonymous_variant LOW 174C>A Thr58Thr
M0188468 FAGNGEAO_00012 8374 5 Gut 0.16 protein_coding synonymous_variant LOW 36C>A Val12Val
M0188469 FAGNGEAO_00010 6338 4 Gut 0.13 protein_coding synonymous_variant LOW 309A>G Gly103Gly
M0188470 FAGNGEAO_00010 6575 5 Gut 0.16 protein_coding synonymous_variant LOW 72C>T Ala24Ala
M0188471 FAGNGEAO_00002 7587 4 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -4929T>C None
M0188472 FAGNGEAO_00002 7593 4 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -4935T>C None
M0188473 FAGNGEAO_00002 7611 4 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -4953T>G None
M0188474 FAGNGEAO_00012 7794 4 Gut 0.13 protein_coding missense_variant MODERATE 616A>G Ile206Val
M0188475 FAGNGEAO_00012 8119 4 Gut 0.13 protein_coding synonymous_variant LOW 291G>A Arg97Arg






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
FAGNGEAO_00013 ARO:3000179 98.9 2.3200000114971e-316 1 458 1.0000 1.0000 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
FAGNGEAO_00014 ARO:3007120 100 0 1 639 1.0000 1.0000 tetracycline antibiotic tetracycline-resistant ribosomal protection protein antibiotic target protection






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
FAGNGEAO_00013 2.A.1.3.16 81.4 6.7e-206 1 456 0.9956 0.9956 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)