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_017328: Shigella flexneri 2002017 chromosome, complete genome

NCBI: NC_017328

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

General Information: This organism, along with Shigella sonnei, is the major cause of shigellosis in industrialized countries and is responsible for endemic infections. This genus is named for the Japanese scientist (Shiga) who discovered them in the 1890s. They are closely related to the Escherichia group, and may be considered the same species. Human-specific pathogens that are transmitted via contaminated food and water and are the leading causes of endemic bacillary dysentery, and over 1 million deaths worldwide are attributed to them. The bacteria infect the epithelial lining of the colon, causing acute inflammation by entering the host cell cytoplasm and spreading intercellularly. Extremely virulent organisms that require very few cells in order to cause disease. 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.

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
1303987*32664922663Island text1.7375431.377748.1727Neighbours41BLASTN+303987.gbk
233516036444129282Island text1.9006532.09624.1399Neighbours41BLASTN+335160.gbk
338555240939423843Island text1.9477832.46825.0227Neighbours41BLASTN+385552.gbk
41075535112065745123Island text2.1382236.582626.8332Neighbours41BLASTN+1075535.gbk
51835108185887223765Island text1.5977829.359221.312Neighbours41BLASTN+1835108.gbk
62090679211094920271Island text1.7497528.927521.8084Neighbours41BLASTN+2090679.gbk
72153083218444131359Island text3.6059840.85725.572Neighbours41BLASTN+2153083.gbk
82225418*224809922682Island text1.5646126.498721.6774Neighbours41BLASTN+2225418.gbk
92516000253909923100Island text2.1044731.115321.2688Neighbours41BLASTN+2516000.gbk
102586171260727221102Island text1.9917932.080628.7202Neighbours41BLASTN2586171.gbk
112785309*280822722919Island text1.4496730.350231.2036Neighbours41BLASTN+2785309.gbk
123088907*315464365737Island text1.5482831.808529.5154Neighbours41BLASTN+3088907.gbk
133289853331277922927Island text1.8790630.452430.2394Neighbours41BLASTN+3289853.gbk
143625000364985224853Island text3.0859938.298720.8881Neighbours41BLASTN+3625000.gbk
153655876367939223517Island text2.1085431.348219.1086Neighbours41BLASTN+3655876.gbk
163794105*381909924995Island text2.5691735.575119.2711Neighbours41BLASTN+3794105.gbk
173935185395868023496Island text1.5575128.682323.3321Neighbours41BLASTN+3935185.gbk
184417000*444278925790Island text1.9307933.116123.5068Neighbours41BLASTN+4417000.gbk