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_008258: Shigella flexneri 5 str. 8401, complete genome

NCBI: NC_008258

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

General Information: 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. Shigella spp. are 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. are 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. This organism, along with Shigella sonnei, is the major cause of shigellosis in industrialized countries and is responsible for endemic infections.

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
126980629518525380Island text1.7287731.850837.1551Neighbours41BLASTN+IslandViewer 269806.gbk
2401786*42629524510Island text2.1566731.967419.318Neighbours41BLASTN+IslandViewer 401786.gbk
31076922*110024923328Island text2.0436830.651421.8364Neighbours41BLASTN+1076922.gbk
41750964177411123148Island text1.475927.985222.7799Neighbours41BLASTN+IslandViewer 1750964.gbk
51784637180559020954Island text1.7439729.990620.9851Neighbours41BLASTN1784637.gbk
61873805189655222748Island text1.6335929.374439.9622Neighbours41BLASTN+1873805.gbk
71934479*196306928591Island text2.3707839.522426.216Neighbours41BLASTN+IslandViewer 1934479.gbk
82045000*206275017751Island text1.5005127.717719.0644Neighbours41BLASTN+IslandViewer 2045000.gbk
92100646213188931244Island text3.5761340.914625.5928Neighbours41BLASTNIslandViewer 2100646.gbk
102190635*221013919505Island text1.4855928.106830.0158Neighbours41BLASTN2190635.gbk
112473000249769824699Island text2.3142431.196120.8856Neighbours41BLASTNIslandViewer 2473000.gbk
122542863256544822586Island text1.9670931.14625.8558Neighbours41BLASTNIslandViewer 2542863.gbk
132905413*292427518863Island text1.6111827.614327.7013Neighbours41BLASTN+IslandViewer 2905413.gbk
143224721324719422474Island text1.8213330.421832.0083Neighbours41BLASTN+IslandViewer 3224721.gbk
153550500357858028081Island text2.9231437.669423.4115Neighbours41BLASTN+IslandViewer 3550500.gbk
163581583360816926587Island text2.2954832.369418.6076Neighbours41BLASTNIslandViewer 3581583.gbk
173995553*402149425942Island text2.5783835.637718.4196Neighbours41BLASTNIslandViewer 3995553.gbk
184345400*436989824499Island text2.0217633.00123.1138Neighbours41BLASTN+IslandViewer 4345400.gbk