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_016822: Shigella sonnei 53G, complete genome

NCBI: NC_016822

Host Lineage: Shigella sonnei; Shigella; Enterobacteriaceae; Enterobacteriales; Proteobacteria; Bacteria

General Information: This genus is named for the Japanese scientist (Shiga) who first discovered these organisms in the 1890s. They are closely related to the Escherichia group, and may be considered the same species. These organisms are human-specific pathogens that are transmitted via contaminated food and water and are the leading causes of endemic bacillary dysentery, causing over 160 million cases of infection and 1 million deaths yearly worldwide. The bacteria infect the epithelial lining of the colon, causing acute inflammation by entering the host cell cytoplasm and spreading intercellularly. are extremely virulent organisms that can cause an active infection after a very low exposure. Both the type III secretion system, which delivers effector molecules into the host cell, and some of the translocated effectors such as the invasion plasmid antigens (Ipas), are encoded on the plasmid. The bacterium produces a surface protein that localizes to one pole of the cell (IcsA) which binds to and promotes actin polymerization, resulting in movement of the bacterium through the cell cytoplasm, and eventually to neighboring cells, which results in inflammatory destruction of the mucosal lining. This organism is the leading cause of dysentery in industrialized countries. The disease is usually less severe than other types of Shigella, causing mild diarrhea and dehydration.



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
115401*4042425024Island text2.1503633.783725.1891Neighbours41BLASTN+15401.gbk
2246715*26668719973Island text1.5428631.695943.9112Neighbours51BLASTN246715.gbk
326775828981522058Island text1.4944439.269541.9768Neighbours51BLASTN+267758.gbk
41304398*132890024503Island text2.2452833.943324.1629Neighbours41BLASTN+1304398.gbk
51339058136502725970Island text2.2262935.438118.8189Neighbours41BLASTN+1339058.gbk
61431200*149353462335Island text2.5567341.33223.3754Neighbours41BLASTN+1431200.gbk
71781644180359921956Island text2.0683831.083418.3308Neighbours41BLASTN+1781644.gbk
81818897183959920703Island text1.6537929.526.0568Neighbours41BLASTN+1818897.gbk
91839739186159921861Island text1.4914537.919838.2005Neighbours51BLASTN+1839739.gbk
102201388*224445143064Island text1.5303629.87927.0097Neighbours41BLASTN+2201388.gbk
112341127*236508723961Island text1.3883129.11625.4172Neighbours41BLASTN+2341127.gbk
122678691270635727667Island text2.0649433.445120.5398Neighbours41BLASTN+2678691.gbk
132940000296259022591Island text1.4228932.885524.0102Neighbours41BLASTN+2940000.gbk
143065426*308987324448Island text1.6798532.897628.0089Neighbours41BLASTN+3065426.gbk
153282654330237019717Island text1.4903228.793826.1116Neighbours41BLASTN+3282654.gbk
163420826343959918774Island text1.5184729.626734.8368Neighbours41BLASTN+3420826.gbk
173485631350697321343Island text1.9578629.464119.4076Neighbours41BLASTN+3485631.gbk
183923908394588421977Island text1.7542432.187323.2834Neighbours41BLASTN+3923908.gbk
193946500396442717928Island text1.4866730.599537.7025Neighbours41BLASTN+3946500.gbk
204093000*411712324124Island text2.5331136.391516.8578Neighbours41BLASTN4093000.gbk
214686971470559918629Island text1.5292431.17123.3829Neighbours41BLASTN+4686971.gbk
224889656*491323823583Island text1.5769130.429226.0324Neighbours41BLASTN+4889656.gbk