Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C216
  Reference Plasmid   CP126065.1
  Reference Plasmid Size   18241
  Reference Plasmid GC Content   0.36
  Reference Plasmid Mobility Type   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
M0148877 LGFKAAAJ_00008 7396 3 Gut 0.06 protein_coding stop_gained HIGH 150T>A Tyr50*
M0148878 LGFKAAAJ_00001 279 11 Gut 0.22 protein_coding synonymous_variant LOW 156A>G Gln52Gln
M0148879 LGFKAAAJ_00001 324 11 Gut 0.22 protein_coding synonymous_variant LOW 201A>G Leu67Leu
M0148880 LGFKAAAJ_00001 336 11 Gut 0.22 protein_coding synonymous_variant LOW 213C>A Ala71Ala
M0148881 LGFKAAAJ_00001 339 11 Gut 0.22 protein_coding synonymous_variant LOW 216C>T Asn72Asn
M0148882 LGFKAAAJ_00001 340 11 Gut 0.22 protein_coding missense_variant MODERATE 217T>C Tyr73His
M0148883 LGFKAAAJ_00001 346 11 Gut 0.22 protein_coding missense_variant MODERATE 223G>A Val75Ile
M0148884 LGFKAAAJ_00001 357 11 Gut 0.22 protein_coding synonymous_variant LOW 234C>T Tyr78Tyr
M0148885 LGFKAAAJ_00001 365 11 Gut 0.22 protein_coding missense_variant MODERATE 242C>A Pro81His
M0148886 LGFKAAAJ_00001 366 11 Gut 0.22 protein_coding synonymous_variant LOW 243C>T Pro81Pro
M0148887 LGFKAAAJ_00001 371 11 Gut 0.22 protein_coding missense_variant MODERATE 248A>G Glu83Gly
M0148888 LGFKAAAJ_00001 372 11 Gut 0.22 protein_coding synonymous_variant LOW 249A>G Glu83Glu
M0148889 LGFKAAAJ_00001 373 11 Gut 0.22 protein_coding missense_variant MODERATE 250G>T Val84Leu
M0148890 LGFKAAAJ_00001 553 12 Gut 0.24 protein_coding synonymous_variant LOW 430C>T Leu144Leu
M0148891 LGFKAAAJ_00001 594 12 Gut 0.24 protein_coding synonymous_variant LOW 471C>T Asn157Asn
M0148892 LGFKAAAJ_00001 609 12 Gut 0.24 protein_coding synonymous_variant LOW 486C>T Ile162Ile
M0148893 LGFKAAAJ_00001 686 11 Gut 0.22 protein_coding missense_variant MODERATE 563C>T Thr188Met
M0148894 LGFKAAAJ_00001 696 11 Gut 0.22 protein_coding synonymous_variant LOW 573T>C Ser191Ser
M0148895 LGFKAAAJ_00012 10044 5 Gut 0.10 protein_coding missense_variant MODERATE 445T>C Tyr149His
M0148896 LGFKAAAJ_00012 10071 5 Gut 0.10 protein_coding missense_variant MODERATE 472A>T Asn158Tyr
M0148897 LGFKAAAJ_00012 10095 5 Gut 0.10 protein_coding missense_variant MODERATE 496G>C Glu166Gln
M0148898 LGFKAAAJ_00012 10103 5 Gut 0.10 protein_coding synonymous_variant LOW 504T>C Asp168Asp
M0148899 LGFKAAAJ_00012 10109 5 Gut 0.10 protein_coding synonymous_variant LOW 510T>C Asp170Asp
M0148900 LGFKAAAJ_00012 10110 5 Gut 0.10 protein_coding missense_variant MODERATE 511T>C Ser171Pro
M0148901 LGFKAAAJ_00012 10118 5 Gut 0.10 protein_coding synonymous_variant LOW 519C>T Thr173Thr
M0148902 LGFKAAAJ_00012 10169 5 Gut 0.10 protein_coding synonymous_variant LOW 570A>G Glu190Glu
M0148903 LGFKAAAJ_00012 10176 5 Gut 0.10 protein_coding missense_variant MODERATE 577T>A Tyr193Asn
M0148904 LGFKAAAJ_00012 10180 5 Gut 0.10 protein_coding missense_variant MODERATE 581T>C Ile194Thr
M0148905 LGFKAAAJ_00012 10184 5 Gut 0.10 protein_coding synonymous_variant LOW 585C>T Asp195Asp
M0148906 LGFKAAAJ_00012 10221 5 Gut 0.10 protein_coding missense_variant MODERATE 622T>C Tyr208His
M0148907 LGFKAAAJ_00012 10238 6 Gut 0.12 protein_coding synonymous_variant LOW 639G>A Arg213Arg
M0148908 LGFKAAAJ_00012 10241 6 Gut 0.12 protein_coding synonymous_variant LOW 642C>T Asn214Asn
M0148909 LGFKAAAJ_00012 10283 5 Gut 0.10 protein_coding synonymous_variant LOW 684T>C Thr228Thr
M0148910 LGFKAAAJ_00012 10292 5 Gut 0.10 protein_coding synonymous_variant LOW 693C>T Cys231Cys
M0148911 LGFKAAAJ_00012 10364 7 Gut 0.14 protein_coding synonymous_variant LOW 765C>T Ser255Ser
M0148912 LGFKAAAJ_00012 10448 6 Gut 0.12 protein_coding synonymous_variant LOW 849A>G Glu283Glu
M0148913 LGFKAAAJ_00012 10451 6 Gut 0.12 protein_coding synonymous_variant LOW 852C>A Gly284Gly
M0148914 LGFKAAAJ_00012 10478 6 Gut 0.12 protein_coding synonymous_variant LOW 879A>G Lys293Lys
M0148915 LGFKAAAJ_00012 10487 6 Gut 0.12 protein_coding synonymous_variant LOW 888C>T Ile296Ile
M0148916 LGFKAAAJ_00012 10503 6 Gut 0.12 protein_coding missense_variant MODERATE 904A>G Ile302Val
M0148917 LGFKAAAJ_00012 10520 6 Gut 0.12 protein_coding synonymous_variant LOW 921A>G Ala307Ala
M0148918 LGFKAAAJ_00012 10574 6 Gut 0.12 protein_coding synonymous_variant LOW 975C>T Asn325Asn
M0148919 LGFKAAAJ_00012 10700 7 Gut 0.14 protein_coding synonymous_variant LOW 1101A>G Glu367Glu
M0148920 LGFKAAAJ_00012 10844 7 Gut 0.14 protein_coding synonymous_variant LOW 1245A>C Ile415Ile
M0148921 LGFKAAAJ_00012 10858 7 Gut 0.14 protein_coding missense_variant MODERATE 1259G>T Arg420Met
M0148922 LGFKAAAJ_00005 10884 9 Gut 0.18 protein_coding upstream_gene_variant MODIFIER -4997G>A None
M0148923 LGFKAAAJ_00013 10913 7 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -114G>A None
M0148924 LGFKAAAJ_00013 10914 7 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -113C>T None
M0148925 LGFKAAAJ_00013 10918 7 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -109T>C None
M0148926 LGFKAAAJ_00013 10922 7 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -105C>A None
M0148927 LGFKAAAJ_00013 10952 7 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -75A>G None
M0148928 LGFKAAAJ_00013 10955 7 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -72C>A None
M0148929 LGFKAAAJ_00013 10963 9 Gut 0.18 protein_coding upstream_gene_variant MODIFIER -64A>G None
M0148930 LGFKAAAJ_00013 10982 6 Gut 0.12 protein_coding upstream_gene_variant MODIFIER -45G>A None
M0148931 LGFKAAAJ_00013 11055 7 Gut 0.14 protein_coding missense_variant MODERATE 29T>C Leu10Ser
M0148932 LGFKAAAJ_00013 11062 7 Gut 0.14 protein_coding synonymous_variant LOW 36T>C Ala12Ala
M0148933 LGFKAAAJ_00013 11116 8 Gut 0.16 protein_coding synonymous_variant LOW 90G>A Thr30Thr
M0148934 LGFKAAAJ_00013 11135 8 Gut 0.16 protein_coding missense_variant MODERATE 109A>G Ile37Val
M0148935 LGFKAAAJ_00013 11150 8 Gut 0.16 protein_coding missense_variant MODERATE 124G>T Ala42Ser
M0148936 LGFKAAAJ_00013 11216 7 Gut 0.14 protein_coding missense_variant MODERATE 190A>C Ile64Leu
M0148937 LGFKAAAJ_00013 11222 7 Gut 0.14 protein_coding missense_variant MODERATE 196A>G Ile66Val
M0148938 LGFKAAAJ_00013 11293 6 Gut 0.12 protein_coding synonymous_variant LOW 267T>C Ile89Ile
M0148939 LGFKAAAJ_00013 11299 6 Gut 0.12 protein_coding synonymous_variant LOW 273T>C Val91Val
M0148940 LGFKAAAJ_00013 11305 6 Gut 0.12 protein_coding synonymous_variant LOW 279C>T Phe93Phe
M0148941 LGFKAAAJ_00013 11347 8 Gut 0.16 protein_coding synonymous_variant LOW 321A>T Gly107Gly
M0148942 LGFKAAAJ_00013 11374 5 Gut 0.10 protein_coding synonymous_variant LOW 348C>T His116His
M0148943 LGFKAAAJ_00013 11390 5 Gut 0.10 protein_coding missense_variant MODERATE 364G>A Glu122Lys
M0148944 LGFKAAAJ_00013 11401 5 Gut 0.10 protein_coding missense_variant MODERATE 375A>T Glu125Asp
M0148945 LGFKAAAJ_00013 11418 5 Gut 0.10 protein_coding missense_variant MODERATE 392G>A Ser131Asn
M0148946 LGFKAAAJ_00013 11421 5 Gut 0.10 protein_coding missense_variant MODERATE 395C>T Ser132Phe
M0148947 LGFKAAAJ_00013 11422 4 Gut 0.08 protein_coding synonymous_variant LOW 396C>A Ser132Ser
M0148948 LGFKAAAJ_00013 11546 6 Gut 0.12 protein_coding missense_variant MODERATE 520A>G Ile174Val
M0148949 LGFKAAAJ_00004 9485 4 Gut 0.08 protein_coding upstream_gene_variant MODIFIER -4199G>A None
M0148950 LGFKAAAJ_00012 9860 3 Gut 0.06 protein_coding synonymous_variant LOW 261T>C Asn87Asn
M0148951 LGFKAAAJ_00012 10120 4 Gut 0.08 protein_coding missense_variant MODERATE 521A>G Asn174Ser
M0148952 LGFKAAAJ_00012 10502 3 Gut 0.06 protein_coding synonymous_variant LOW 903A>G Glu301Glu
M0148953 LGFKAAAJ_00001 976 8 Gut 0.16 protein_coding missense_variant MODERATE 853G>C Glu285Gln
M0148954 LGFKAAAJ_00001 984 8 Gut 0.16 protein_coding synonymous_variant LOW 861T>C Asp287Asp
M0148955 LGFKAAAJ_00001 990 8 Gut 0.16 protein_coding synonymous_variant LOW 867T>C Asp289Asp
M0148956 LGFKAAAJ_00001 991 8 Gut 0.16 protein_coding missense_variant MODERATE 868T>C Ser290Pro
M0148957 LGFKAAAJ_00001 999 8 Gut 0.16 protein_coding synonymous_variant LOW 876C>T Thr292Thr
M0148958 LGFKAAAJ_00001 1050 8 Gut 0.16 protein_coding synonymous_variant LOW 927A>G Glu309Glu
M0148959 LGFKAAAJ_00001 1057 8 Gut 0.16 protein_coding missense_variant MODERATE 934T>A Tyr312Asn
M0148960 LGFKAAAJ_00001 1061 8 Gut 0.16 protein_coding missense_variant MODERATE 938T>C Ile313Thr
M0148961 LGFKAAAJ_00001 1065 8 Gut 0.16 protein_coding synonymous_variant LOW 942C>T Asp314Asp
M0148962 LGFKAAAJ_00001 1119 8 Gut 0.16 protein_coding synonymous_variant LOW 996G>A Arg332Arg
M0148963 LGFKAAAJ_00001 1122 8 Gut 0.16 protein_coding synonymous_variant LOW 999C>T Asn333Asn
M0148964 LGFKAAAJ_00001 1164 8 Gut 0.16 protein_coding synonymous_variant LOW 1041T>C Thr347Thr
M0148965 LGFKAAAJ_00001 1173 8 Gut 0.16 protein_coding synonymous_variant LOW 1050C>T Cys350Cys
M0148966 LGFKAAAJ_00001 1245 8 Gut 0.16 protein_coding synonymous_variant LOW 1122C>T Ser374Ser
M0148967 LGFKAAAJ_00001 1329 8 Gut 0.16 protein_coding synonymous_variant LOW 1206A>G Glu402Glu
M0148968 LGFKAAAJ_00001 1332 8 Gut 0.16 protein_coding synonymous_variant LOW 1209C>A Gly403Gly
M0148969 LGFKAAAJ_00001 1359 8 Gut 0.16 protein_coding synonymous_variant LOW 1236A>G Lys412Lys
M0148970 LGFKAAAJ_00001 1368 8 Gut 0.16 protein_coding synonymous_variant LOW 1245C>T Ile415Ile
M0148971 LGFKAAAJ_00001 1384 8 Gut 0.16 protein_coding missense_variant MODERATE 1261A>G Ile421Val
M0148972 LGFKAAAJ_00001 1401 8 Gut 0.16 protein_coding synonymous_variant LOW 1278A>G Ala426Ala
M0148973 LGFKAAAJ_00001 1455 8 Gut 0.16 protein_coding synonymous_variant LOW 1332C>T Asn444Asn
M0148974 LGFKAAAJ_00001 1581 8 Gut 0.16 protein_coding synonymous_variant LOW 1458A>G Glu486Glu
M0148975 LGFKAAAJ_00001 1725 8 Gut 0.16 protein_coding synonymous_variant LOW 1602A>C Ile534Ile
M0148976 LGFKAAAJ_00001 1739 8 Gut 0.16 protein_coding missense_variant MODERATE 1616G>T Arg539Met
M0148977 LGFKAAAJ_00002 1765 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -143C>T None
M0148978 LGFKAAAJ_00002 1794 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -114G>A None
M0148979 LGFKAAAJ_00002 1795 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -113C>T None
M0148980 LGFKAAAJ_00002 1799 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -109T>C None
M0148981 LGFKAAAJ_00002 1803 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -105C>A None
M0148982 LGFKAAAJ_00002 1833 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -75A>G None
M0148983 LGFKAAAJ_00002 1836 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -72C>A None
M0148984 LGFKAAAJ_00002 1844 8 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -64A>G None
M0148985 LGFKAAAJ_00002 1936 8 Gut 0.16 protein_coding missense_variant MODERATE 29T>C Leu10Ser
M0148986 LGFKAAAJ_00002 1943 8 Gut 0.16 protein_coding synonymous_variant LOW 36T>C Ala12Ala
M0148987 LGFKAAAJ_00002 1997 8 Gut 0.16 protein_coding synonymous_variant LOW 90G>A Thr30Thr
M0148988 LGFKAAAJ_00002 2016 8 Gut 0.16 protein_coding missense_variant MODERATE 109A>G Ile37Val
M0148989 LGFKAAAJ_00002 2031 8 Gut 0.16 protein_coding missense_variant MODERATE 124G>T Ala42Ser
M0148990 LGFKAAAJ_00002 2097 8 Gut 0.16 protein_coding missense_variant MODERATE 190A>C Ile64Leu
M0148991 LGFKAAAJ_00002 2103 8 Gut 0.16 protein_coding missense_variant MODERATE 196A>G Ile66Val
M0148992 LGFKAAAJ_00002 2174 8 Gut 0.16 protein_coding synonymous_variant LOW 267T>C Ile89Ile
M0148993 LGFKAAAJ_00002 2180 8 Gut 0.16 protein_coding synonymous_variant LOW 273T>C Val91Val
M0148994 LGFKAAAJ_00002 2186 8 Gut 0.16 protein_coding synonymous_variant LOW 279C>T Phe93Phe
M0148995 LGFKAAAJ_00002 2228 8 Gut 0.16 protein_coding synonymous_variant LOW 321A>T Gly107Gly
M0148996 LGFKAAAJ_00002 2255 7 Gut 0.14 protein_coding synonymous_variant LOW 348C>T His116His
M0148997 LGFKAAAJ_00002 2271 7 Gut 0.14 protein_coding missense_variant MODERATE 364G>A Glu122Lys
M0148998 LGFKAAAJ_00002 2282 7 Gut 0.14 protein_coding missense_variant MODERATE 375A>T Glu125Asp
M0148999 LGFKAAAJ_00002 2299 7 Gut 0.14 protein_coding missense_variant MODERATE 392G>A Ser131Asn
M0149000 LGFKAAAJ_00002 2302 7 Gut 0.14 protein_coding missense_variant MODERATE 395C>T Ser132Phe
M0149001 LGFKAAAJ_00002 2427 6 Gut 0.12 protein_coding missense_variant MODERATE 520A>G Ile174Val
M0149002 LGFKAAAJ_00001 115 4 Gut 0.08 protein_coding upstream_gene_variant MODIFIER -9G>A None
M0149003 LGFKAAAJ_00001 925 7 Gut 0.14 protein_coding missense_variant MODERATE 802T>C Tyr268His
M0149004 LGFKAAAJ_00001 952 7 Gut 0.14 protein_coding missense_variant MODERATE 829A>T Asn277Tyr
M0149005 LGFKAAAJ_00001 1102 7 Gut 0.14 protein_coding missense_variant MODERATE 979T>C Tyr327His
M0149006 LGFKAAAJ_00002 1863 7 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -45G>A None
M0149007 LGFKAAAJ_00002 2303 6 Gut 0.12 protein_coding synonymous_variant LOW 396C>A Ser132Ser
M0149008 LGFKAAAJ_00001 584 3 Gut 0.06 protein_coding missense_variant MODERATE 461G>A Arg154His
M0149009 LGFKAAAJ_00001 640 3 Gut 0.06 protein_coding missense_variant MODERATE 517G>A Glu173Lys






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