Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2176
  Reference Plasmid   1111525849743844_bin.5__k141_55453
  Reference Plasmid Size   19098
  Reference Plasmid GC Content   0.65
  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
M0029122 BIBEHPCB_00005 3430 8 Skin 0.09 protein_coding missense_variant MODERATE 89C>T Ala30Val
M0029123 BIBEHPCB_00005 3453 8 Skin 0.09 protein_coding synonymous_variant LOW 112T>C Leu38Leu
M0029124 BIBEHPCB_00005 3530 10 Skin 0.11 protein_coding missense_variant MODERATE 189G>C Gln63His
M0029125 BIBEHPCB_00005 4123 8 Skin 0.09 protein_coding missense_variant MODERATE 782T>A Val261Asp
M0029126 BIBEHPCB_00005 4127 8 Skin 0.09 protein_coding synonymous_variant LOW 786C>T Asp262Asp
M0029127 BIBEHPCB_00005 4145 8 Skin 0.09 protein_coding synonymous_variant LOW 804T>C His268His
M0029128 BIBEHPCB_00005 4148 8 Skin 0.09 protein_coding synonymous_variant LOW 807G>A Pro269Pro
M0029129 BIBEHPCB_00005 4178 8 Skin 0.09 protein_coding synonymous_variant LOW 837T>G Arg279Arg
M0029130 BIBEHPCB_00005 4182 8 Skin 0.09 protein_coding missense_variant MODERATE 841T>C Phe281Leu
M0029131 BIBEHPCB_00005 4187 8 Skin 0.09 protein_coding synonymous_variant LOW 846C>T Asp282Asp
M0029132 BIBEHPCB_00005 4254 9 Skin 0.10 protein_coding missense_variant MODERATE 913T>G Leu305Val
M0029133 BIBEHPCB_00005 4286 12 Skin 0.13 protein_coding synonymous_variant LOW 945G>A Leu315Leu
M0029134 BIBEHPCB_00005 4292 12 Skin 0.13 protein_coding synonymous_variant LOW 951A>G Glu317Glu
M0029135 BIBEHPCB_00005 4317 12 Skin 0.13 protein_coding synonymous_variant LOW 976T>C Leu326Leu
M0029136 BIBEHPCB_00005 4394 13 Skin 0.14 protein_coding missense_variant MODERATE 1053T>G His351Gln
M0029137 BIBEHPCB_00005 4425 11 Skin 0.12 protein_coding missense_variant MODERATE 1084G>A Ala362Thr
M0029138 BIBEHPCB_00005 4497 10 Skin 0.11 protein_coding missense_variant MODERATE 1156G>C Ala386Pro
M0029139 BIBEHPCB_00005 4548 14 Skin 0.15 protein_coding missense_variant MODERATE 1207A>G Thr403Ala
M0029140 BIBEHPCB_00005 4796 16 Skin 0.17 protein_coding synonymous_variant LOW 1455C>T Arg485Arg
M0029141 BIBEHPCB_00005 4814 16 Skin 0.17 protein_coding synonymous_variant LOW 1473C>G Gly491Gly
M0029142 BIBEHPCB_00005 4853 15 Skin 0.16 protein_coding synonymous_variant LOW 1512C>T Ser504Ser
M0029143 BIBEHPCB_00005 4907 27 Skin 0.29 protein_coding synonymous_variant LOW 1566T>C Gly522Gly
M0029144 BIBEHPCB_00005 5017 10 Skin 0.11 protein_coding missense_variant MODERATE 1676A>G Glu559Gly
M0029145 BIBEHPCB_00005 5117 15 Skin 0.16 protein_coding synonymous_variant LOW 1776A>G Gln592Gln
M0029146 BIBEHPCB_00005 5121 15 Skin 0.16 protein_coding missense_variant MODERATE 1780C>G Gln594Glu
M0029147 BIBEHPCB_00005 5141 13 Skin 0.14 protein_coding synonymous_variant LOW 1800G>A Leu600Leu
M0029148 BIBEHPCB_00005 5188 15 Skin 0.16 protein_coding missense_variant MODERATE 1847G>A Arg616His
M0029149 BIBEHPCB_00006 5486 28 Skin 0.30 protein_coding synonymous_variant LOW 114G>A Val38Val
M0029150 BIBEHPCB_00006 6110 20 Skin 0.22 protein_coding synonymous_variant LOW 738A>G Gln246Gln
M0029151 BIBEHPCB_00006 6149 20 Skin 0.22 protein_coding synonymous_variant LOW 777C>T Ser259Ser
M0029152 BIBEHPCB_00006 6152 20 Skin 0.22 protein_coding synonymous_variant LOW 780T>C Asn260Asn
M0029153 BIBEHPCB_00006 6164 20 Skin 0.22 protein_coding synonymous_variant LOW 792C>T Gly264Gly
M0029154 BIBEHPCB_00006 6299 32 Skin 0.35 protein_coding synonymous_variant LOW 927A>G Glu309Glu
M0029155 BIBEHPCB_00006 6305 32 Skin 0.35 protein_coding synonymous_variant LOW 933T>C Leu311Leu
M0029156 BIBEHPCB_00006 6338 32 Skin 0.35 protein_coding synonymous_variant LOW 966A>G Gln322Gln
M0029157 BIBEHPCB_00007 7518 19 Skin 0.21 protein_coding synonymous_variant LOW 999A>G Ala333Ala
M0029158 BIBEHPCB_00005 4743 12 Skin 0.13 protein_coding synonymous_variant LOW 1402C>T Leu468Leu
M0029159 BIBEHPCB_00007 6831 17 Skin 0.18 protein_coding synonymous_variant LOW 312C>G Arg104Arg
M0029160 BIBEHPCB_00007 6851 17 Skin 0.18 protein_coding missense_variant MODERATE 332A>G Asn111Ser
M0029161 BIBEHPCB_00007 7203 17 Skin 0.18 protein_coding synonymous_variant LOW 684A>G Gln228Gln
M0029162 BIBEHPCB_00007 7206 17 Skin 0.18 protein_coding synonymous_variant LOW 687C>T Gly229Gly
M0029163 BIBEHPCB_00007 7209 17 Skin 0.18 protein_coding synonymous_variant LOW 690G>A Glu230Glu
M0029164 BIBEHPCB_00009 8995 4 Skin 0.04 protein_coding synonymous_variant LOW 288C>G Arg96Arg
M0029165 BIBEHPCB_00009 9027 4 Skin 0.04 protein_coding missense_variant MODERATE 320A>G His107Arg
M0029166 BIBEHPCB_00010 10078 5 Skin 0.05 protein_coding missense_variant MODERATE 121A>G Lys41Glu
M0029167 BIBEHPCB_00005 5252 16 Skin 0.17 protein_coding synonymous_variant LOW 1911A>G Gln637Gln
M0029168 BIBEHPCB_00006 5582 8 Skin 0.09 protein_coding synonymous_variant LOW 210C>T Thr70Thr
M0029169 BIBEHPCB_00007 7377 13 Skin 0.14 protein_coding synonymous_variant LOW 858C>G Ala286Ala
M0029170 BIBEHPCB_00007 8001 20 Skin 0.22 protein_coding synonymous_variant LOW 1482C>T Gly494Gly
M0029171 BIBEHPCB_00007 8037 17 Skin 0.18 protein_coding synonymous_variant LOW 1518A>G Glu506Glu
M0029172 BIBEHPCB_00007 8091 12 Skin 0.13 protein_coding synonymous_variant LOW 1572G>A Glu524Glu
M0029173 BIBEHPCB_00001 590 18 Skin 0.20 protein_coding synonymous_variant LOW 471T>G Thr157Thr
M0029174 BIBEHPCB_00008 8523 3 Skin 0.03 protein_coding missense_variant MODERATE 251T>C Val84Ala
M0029175 BIBEHPCB_00008 8524 3 Skin 0.03 protein_coding synonymous_variant LOW 252A>G Val84Val
M0029176 BIBEHPCB_00008 8536 3 Skin 0.03 protein_coding synonymous_variant LOW 264A>G Ala88Ala
M0029177 BIBEHPCB_00002 1555 18 Skin 0.20 protein_coding synonymous_variant LOW 453C>T Thr151Thr
M0029178 BIBEHPCB_00002 1729 9 Skin 0.10 protein_coding synonymous_variant LOW 627T>C Ile209Ile
M0029179 BIBEHPCB_00003 1875 13 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -66G>C None
M0029180 BIBEHPCB_00004 2754 9 Skin 0.10 protein_coding synonymous_variant LOW 564T>C Phe188Phe
M0029181 BIBEHPCB_00004 2790 9 Skin 0.10 protein_coding synonymous_variant LOW 600C>A Ala200Ala
M0029182 BIBEHPCB_00004 2796 9 Skin 0.10 protein_coding synonymous_variant LOW 606T>A Leu202Leu
M0029183 BIBEHPCB_00004 2826 10 Skin 0.11 protein_coding missense_variant MODERATE 636G>C Glu212Asp
M0029184 BIBEHPCB_00005 3673 10 Skin 0.11 protein_coding missense_variant MODERATE 332T>A Leu111Gln
M0029185 BIBEHPCB_00005 3696 9 Skin 0.10 protein_coding synonymous_variant LOW 355T>C Leu119Leu
M0029186 BIBEHPCB_00005 3697 9 Skin 0.10 protein_coding missense_variant MODERATE 356T>C Leu119Ser
M0029187 BIBEHPCB_00005 3734 10 Skin 0.11 protein_coding synonymous_variant LOW 393C>T Tyr131Tyr
M0029188 BIBEHPCB_00005 3737 10 Skin 0.11 protein_coding synonymous_variant LOW 396T>C Gly132Gly
M0029189 BIBEHPCB_00005 3889 20 Skin 0.22 protein_coding missense_variant MODERATE 548T>G Met183Arg
M0029190 BIBEHPCB_00005 3894 20 Skin 0.22 protein_coding missense_variant MODERATE 553A>G Thr185Ala
M0029191 BIBEHPCB_00005 3905 19 Skin 0.21 protein_coding synonymous_variant LOW 564T>C Gly188Gly
M0029192 BIBEHPCB_00005 4067 23 Skin 0.25 protein_coding synonymous_variant LOW 726C>T His242His
M0029193 BIBEHPCB_00007 7892 20 Skin 0.22 protein_coding missense_variant MODERATE 1373A>T Glu458Val
M0029194 BIBEHPCB_00007 8193 8 Skin 0.09 protein_coding synonymous_variant LOW 1674A>C Ser558Ser
M0029195 BIBEHPCB_00007 6639 11 Skin 0.12 protein_coding synonymous_variant LOW 120C>T Ala40Ala
M0029196 BIBEHPCB_00002 1039 23 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -64T>C None
M0029197 BIBEHPCB_00002 1042 23 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -61C>T None
M0029198 BIBEHPCB_00002 1285 9 Skin 0.10 protein_coding synonymous_variant LOW 183A>C Ala61Ala
M0029199 BIBEHPCB_00002 1303 9 Skin 0.10 protein_coding synonymous_variant LOW 201C>T Cys67Cys
M0029200 BIBEHPCB_00004 2457 12 Skin 0.13 protein_coding synonymous_variant LOW 267G>A Ala89Ala
M0029201 BIBEHPCB_00004 2688 13 Skin 0.14 protein_coding synonymous_variant LOW 498C>A Thr166Thr
M0029202 BIBEHPCB_00004 2697 11 Skin 0.12 protein_coding synonymous_variant LOW 507C>T His169His
M0029203 BIBEHPCB_00004 2883 11 Skin 0.12 protein_coding synonymous_variant LOW 693G>A Glu231Glu
M0029204 BIBEHPCB_00004 3009 5 Skin 0.05 protein_coding synonymous_variant LOW 819T>C His273His
M0029205 BIBEHPCB_00004 3024 5 Skin 0.05 protein_coding synonymous_variant LOW 834A>G Leu278Leu
M0029206 BIBEHPCB_00004 3105 8 Skin 0.09 protein_coding synonymous_variant LOW 915G>T Gly305Gly
M0029207 BIBEHPCB_00004 3120 8 Skin 0.09 protein_coding synonymous_variant LOW 930C>T Pro310Pro
M0029208 BIBEHPCB_00001 134 10 Skin 0.11 protein_coding synonymous_variant LOW 15A>T Ile5Ile
M0029209 BIBEHPCB_00001 155 10 Skin 0.11 protein_coding synonymous_variant LOW 36G>A Gly12Gly
M0029210 BIBEHPCB_00001 212 10 Skin 0.11 protein_coding synonymous_variant LOW 93G>A Thr31Thr
M0029211 BIBEHPCB_00001 218 10 Skin 0.11 protein_coding synonymous_variant LOW 99C>T Asn33Asn
M0029212 BIBEHPCB_00001 692 18 Skin 0.20 protein_coding synonymous_variant LOW 573T>C Gly191Gly
M0029213 BIBEHPCB_00002 1423 6 Skin 0.07 protein_coding synonymous_variant LOW 321T>C Arg107Arg
M0029214 BIBEHPCB_00011 11996 3 Skin 0.03 protein_coding synonymous_variant LOW 546A>C Gly182Gly
M0029215 BIBEHPCB_00001 515 11 Skin 0.12 protein_coding synonymous_variant LOW 396T>C Asn132Asn
M0029216 BIBEHPCB_00001 532 10 Skin 0.11 protein_coding missense_variant MODERATE 413A>G Asn138Ser
M0029217 BIBEHPCB_00010 10361 3 Skin 0.03 protein_coding missense_variant MODERATE 404A>G Asp135Gly
M0029218 BIBEHPCB_00011 11894 4 Skin 0.04 protein_coding synonymous_variant LOW 444T>C Ser148Ser
M0029219 BIBEHPCB_00009 8794 4 Skin 0.04 protein_coding synonymous_variant LOW 87G>C Gly29Gly
M0029220 BIBEHPCB_00009 8815 4 Skin 0.04 protein_coding synonymous_variant LOW 108A>G Leu36Leu
M0029221 BIBEHPCB_00005 3614 12 Skin 0.13 protein_coding synonymous_variant LOW 273T>A Leu91Leu
M0029222 BIBEHPCB_00001 324 10 Skin 0.11 protein_coding missense_variant MODERATE 205A>G Thr69Ala
M0029223 BIBEHPCB_00002 1222 7 Skin 0.08 protein_coding synonymous_variant LOW 120A>G Glu40Glu
M0029224 BIBEHPCB_00004 2317 11 Skin 0.12 protein_coding missense_variant MODERATE 127A>G Thr43Ala
M0029225 BIBEHPCB_00005 3782 8 Skin 0.09 protein_coding synonymous_variant LOW 441G>A Glu147Glu
M0029226 BIBEHPCB_00005 3797 8 Skin 0.09 protein_coding missense_variant MODERATE 456C>G Asp152Glu
M0029227 BIBEHPCB_00005 3799 8 Skin 0.09 protein_coding missense_variant MODERATE 458A>C Asn153Thr
M0029228 BIBEHPCB_00002 1348 9 Skin 0.10 protein_coding synonymous_variant LOW 246C>T Asp82Asp
M0029229 BIBEHPCB_00002 1486 6 Skin 0.07 protein_coding synonymous_variant LOW 384G>C Val128Val
M0029230 BIBEHPCB_00001 77 9 Skin 0.10 protein_coding upstream_gene_variant MODIFIER -43C>T None
M0029231 BIBEHPCB_00012 15213 5 Skin 0.05 protein_coding synonymous_variant LOW 90T>C Arg30Arg
M0029232 BIBEHPCB_00014 16318 4 Skin 0.04 protein_coding synonymous_variant LOW 165A>G Lys55Lys
M0029233 BIBEHPCB_00014 16393 4 Skin 0.04 protein_coding synonymous_variant LOW 240C>T Leu80Leu
M0029234 BIBEHPCB_00014 16399 4 Skin 0.04 protein_coding synonymous_variant LOW 246A>G Gln82Gln
M0029235 BIBEHPCB_00014 16429 4 Skin 0.04 protein_coding synonymous_variant LOW 276C>T Tyr92Tyr
M0029236 BIBEHPCB_00014 16561 3 Skin 0.03 protein_coding synonymous_variant LOW 408G>A Gly136Gly
M0029237 BIBEHPCB_00014 16564 3 Skin 0.03 protein_coding synonymous_variant LOW 411G>T Ala137Ala
M0029238 BIBEHPCB_00014 16630 4 Skin 0.04 protein_coding synonymous_variant LOW 477C>T Phe159Phe
M0029239 BIBEHPCB_00014 16645 4 Skin 0.04 protein_coding synonymous_variant LOW 492G>A Arg164Arg
M0029240 BIBEHPCB_00014 16984 4 Skin 0.04 protein_coding synonymous_variant LOW 831G>C Gly277Gly
M0029241 BIBEHPCB_00007 7674 12 Skin 0.13 protein_coding synonymous_variant LOW 1155T>C Asp385Asp
M0029242 BIBEHPCB_00007 7692 12 Skin 0.13 protein_coding synonymous_variant LOW 1173C>T Leu391Leu
M0029243 BIBEHPCB_00007 7701 16 Skin 0.17 protein_coding synonymous_variant LOW 1182T>C Pro394Pro
M0029244 BIBEHPCB_00007 7718 12 Skin 0.13 protein_coding missense_variant MODERATE 1199G>A Arg400Gln
M0029245 BIBEHPCB_00007 7737 12 Skin 0.13 protein_coding synonymous_variant LOW 1218G>T Val406Val
M0029246 BIBEHPCB_00009 8745 4 Skin 0.04 protein_coding missense_variant MODERATE 38C>T Pro13Leu
M0029247 BIBEHPCB_00009 8766 4 Skin 0.04 protein_coding missense_variant MODERATE 59T>C Val20Ala
M0029248 BIBEHPCB_00009 8770 3 Skin 0.03 protein_coding synonymous_variant LOW 63C>T Phe21Phe
M0029249 BIBEHPCB_00010 10989 4 Skin 0.04 protein_coding synonymous_variant LOW 1032C>G Arg344Arg
M0029250 BIBEHPCB_00010 11123 5 Skin 0.05 protein_coding missense_variant MODERATE 1166A>T Tyr389Phe
M0029251 BIBEHPCB_00012 15340 4 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -38C>A 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
BIBEHPCB_00013 VFG015092 GacS/GacA two-component system 99.5 3.6e-114 1 214 1.0 1 Regulation UvrY/SirA/GacA family response regulator transcription factor prediction







        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
BIBEHPCB_00013 PHI:9685 gacA 88.2 7.6e-104 1 211 0.9860 0.9860 eudicots bacterial speck (tomato) DNA-binding response regulator 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
BIBEHPCB_00015 4.F.1.1.8 82.7 6e-81 1 185 1.0000 0.9946 4 Group Translocators 4.F Choline/EthanolaminePhosphotransferase 1 (CEPT1) 4.F.1 The Choline/Ethanolaminephosphotransferase 1 (CEPT1) Family