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_004088: Yersinia pestis KIM, complete genome

NCBI: NC_004088

Host Lineage: Yersinia pestis; Yersinia; Enterobacteriaceae; Enterobacteriales; Proteobacteria; Bacteria

General Information: Causative agent of plague. Specific virulence factors are encoded within pathogenicity islands (PAIs) that are required for the invasive phenotype associated with Yersinia infections. One key virulence plasmid contained by the three human-specific pathogens is pCD1/pYv, which encodes a type III secretion system for the delivery of virulence proteins that contribute to internalization into the host cell. It is the causative agent of plague (bubonic and pulmonary) a devastating disease which has killed millions worldwide. The organism can be transmitted from rats to humans through the bite of an infected flea or from human-to-human through the air during widespread infection. Yersinia pestis is an extremely pathogenic organism that requires very few numbers in order to cause disease, and is often lethal if left untreated. The organism is enteroinvasive, and can survive and propagate in macrophages prior to spreading systemically throughout the host. Yersinia pestis consists of three biotypes or serovars, Antiqua, Mediavalis, and Orientalis, that are associated with three major pandemics throughout human history. pMT1 encodes a protein, murine toxin, that aids rat-to-human transmission by enhancing survival of the organism in the flea midgut. Yersinia pestis also contains a PAI on the chromosome that is similar to the SPI-2 PAI from Salmonella that allows intracellular survival in the organism.



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
117977520177522001Island text2.3179831.101527.8952Neighbours41BLASTN179775.gbk
226654328592319381Island text1.5743130.008133.592Neighbours51BLASTNIslandViewer 266543.gbk
31075454109916823715Island text2.2040733.44231.0414Neighbours41BLASTN1075454.gbk
41196875123427537401Island text4.2073838.695926.6236Neighbours21BLASTNIslandViewer 1196875.gbk
51265730129020024471Island text1.7903428.392520.3192Neighbours41BLASTN+IslandViewer 1265730.gbk
61291754131420722454Island text1.3775330.830529.7539Neighbours41BLASTN+1291754.gbk
71387276140629619021Island text1.6944629.252830.1864Neighbours41BLASTN+1387276.gbk
81510467153309222626Island text1.7973332.60725.1641Neighbours41BLASTN+1510467.gbk
91622941164556522625Island text1.6137829.044426.4328Neighbours41BLASTN+1622941.gbk
101801819182425322435Island text1.5443331.800253.9956Neighbours51BLASTN1801819.gbk
111851500*188954638047Island text1.5866831.181633.4873Neighbours41BLASTN+1851500.gbk
121909880*193439224513Island text1.547729.626722.1708Neighbours41BLASTN+IslandViewer 1909880.gbk
132227278224825620979Island text1.6561632.500842.9745Neighbours41BLASTN+2227278.gbk
142366000*239081024811Island text1.9980833.072826.4267Neighbours41BLASTN+2366000.gbk
152491303*251808626784Island text1.8582831.829236.1975Neighbours41BLASTN+2491303.gbk
162541033256388322851Island text1.720130.554224.5668Neighbours41BLASTN+2541033.gbk
172640440*268328342844Island text1.8111637.21225.9626Neighbours41BLASTN+IslandViewer PAI DB2640440.gbk
182691565*271495023386Island text1.8981829.465625.1005Neighbours41BLASTN+2691565.gbk
192937077296291925843Island text2.4646531.426324.1716Neighbours41BLASTN+2937077.gbk
202966331300002833698Island text1.9159332.868429.5628Neighbours41BLASTN+ PAI DB2966331.gbk
213186954320951322560Island text1.7858533.370632.6248Neighbours41BLASTN+3186954.gbk
223382148*340611023963Island text2.0722233.945135.9137Neighbours41BLASTN+IslandViewer PAI DB3382148.gbk
233505383354055935177Island text4.4978239.523225.12Neighbours41BLASTN+IslandViewer PAI DB3505383.gbk
243661601*368761226012Island text2.4675134.987330.7814Neighbours41BLASTN+IslandViewer 3661601.gbk
253689000*372277733778Island text1.69532.880328.3962Neighbours41BLASTN+IslandViewer PAI DB3689000.gbk
263859173388653627364Island text2.3856535.090720.906Neighbours41BLASTN+IslandViewer 3859173.gbk
273923804394664622843Island text1.4051131.146621.3668Neighbours41BLASTN+3923804.gbk
283955933398002524093Island text1.5981533.460339.5309Neighbours51BLASTN3955933.gbk
294073698409809924402Island text1.627530.280328.4322Neighbours41BLASTN PAI DB4073698.gbk
304116676413528618611Island text1.6827129.217328.6728Neighbours41BLASTN+4116676.gbk
314202247*422568123435Island text1.883735.577721.7367Neighbours41BLASTN+IslandViewer 4202247.gbk