Pre_GI Island

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n1_4mer:GRV/n1_4mer:RV = (Global Relative Variance of OU patterns) / (Local Relative Variance of OU patterns)

n0_4mer:D = Distance between local and global OU patterns

n0_4mer:PS = Distance between 2 strands of same DNA molecule

Selected loci indicated by large D, increased GRV associated with decreased RV and moderate increase in PS




NC_012917: Pectobacterium carotovorum subsp. carotovorum PC1, complete genome

NCBI: NC_012917

Host Lineage: Pectobacterium carotovorum; Pectobacterium; Enterobacteriaceae; Enterobacteriales; Proteobacteria; Bacteria

General Information: Temp: Mesophile; Habitat: Host. Pectobacterium carotovorum causes soft-rot diseases of various plant hosts through degradation of the plant cell walls. Formerly Erwinia, these organisms are plant-specific pathogens that invade the vascular systems of plants. Pectobacterium colonize the intercellular spaces of plant cells and deliver potent effector molecules (Avr - avirulence) through a type III secretion system (Hrp - hypersensitive response and pathogenicity). Avr proteins control host-bacterium interactions, including host range. Expression of the plant cell-wall-degrading enzymes is controlled through a quorum-sensing mechanism that quantifies the number of Pectobacterium bacteria through measurement of the concentration of small molecules (acyl homoserine lactones) produced by Pectobacterium.



Islands with an asterisk (*) contain ribosomal proteins or RNA related elements and may indicate a False Positive Prediction!

#StartEndLengthIsland TextGRV_RVDPSNeighboursClusterSub ClusterBLASTNKey Word ConfirmationOther DB ConfirmationDownload Island
1569856*58778417929Island text1.5607732.715236.8803Neighbours41BLASTN+569856.gbk
283372187179538075Island text1.8948433.55435.2223Neighbours41BLASTN+IslandViewer 833721.gbk
3985617100580620190Island text1.8124731.32324.3574Neighbours41BLASTN+IslandViewer 985617.gbk
41506083154696940887Island text3.7944745.184831.9904Neighbours41BLASTNIslandViewer 1506083.gbk
51740542176692926388Island text2.3325740.771724.1666Neighbours41BLASTN+1740542.gbk
61840172*189159251421Island text3.3505645.021621.7873Neighbours41BLASTN+IslandViewer 1840172.gbk
71923059*194769524637Island text1.4732335.244432.0258Neighbours41BLASTN+1923059.gbk
82362725238725724533Island text2.376239.558622.8721Neighbours41BLASTN+IslandViewer 2362725.gbk
92641000266615925160Island text2.3949738.139429.379Neighbours41BLASTN+IslandViewer 2641000.gbk
102786283280578619504Island text2.0869735.359929.1144Neighbours41BLASTN2786283.gbk
112921932*295050128570Island text2.5672539.792731.0631Neighbours41BLASTN+2921932.gbk
122971702299359921898Island text1.8740232.093723.0837Neighbours41BLASTN+IslandViewer 2971702.gbk
133198000322168023681Island text2.2633738.076230.4935Neighbours41BLASTN+IslandViewer 3198000.gbk
143241196329451553320Island text4.0179442.949224.2122Neighbours41BLASTN+IslandViewer 3241196.gbk
153378759339704718289Island text1.6007831.113240.8576Neighbours51BLASTN3378759.gbk
163565268*359123425967Island text2.0856940.398641.0547Neighbours41BLASTN+3565268.gbk
173684840*370871823879Island text1.9933840.143625.4549Neighbours41BLASTN+IslandViewer 3684840.gbk
184328463435209923637Island text1.6416131.40539.9501Neighbours51BLASTN+4328463.gbk
194646491466766521175Island text1.9323832.695835.9971Neighbours51BLASTN+4646491.gbk