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_004603: Vibrio parahaemolyticus RIMD 2210633 chromosome I, complete

NCBI: NC_004603

Host Lineage: Vibrio parahaemolyticus; Vibrio; Vibrionaceae; Vibrionales; Proteobacteria; Bacteria

General Information: This is a clinical strain isolated in 1996 in Osaka, Japan. It contains a type III secretion system which may enable colonization and penetration of the host intestinal epithelial layer, and possibly lead to septicemia. The genome contains multipe chromosomal rearrangements as compared to Vibrio cholerae. The organism also produces a hemolysin (thermostable direct hemolysin - TDH) that is particular to Vibrio parahaemolyticus. This genus is abundant in marine or freshwater environments such as estuaries, brackish ponds, or coastal areas; regions that provide an important reservoir for the organism in between outbreaks of the disease. Vibrio can affect shellfish, finfish, and other marine animals and a number of species are pathogenic for humans. This species causes food poisoning (gastroenteritis) in countries that have elevated levels of seafood consumption such as Japan.

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
123000025659726598Island text3.4354434.727922.208Neighbours21BLASTNIslandViewer 230000.gbk
237032039589225573Island text1.9501730.602524.5401Neighbours21BLASTN+IslandViewer 370320.gbk
31115134*114139026257Island text1.5616734.042624.6953Neighbours21BLASTN+IslandViewer 1115134.gbk
41464000149114427145Island text1.4391931.371630.6676Neighbours325BLASTNIslandViewer 1464000.gbk
51519904153934719444Island text2.003330.070525.137Neighbours21BLASTN+IslandViewer 1519904.gbk
61897532193607538544Island text1.6353830.879932.8035Neighbours21BLASTN+IslandViewer 1897532.gbk
71961432*198465023219Island text1.685230.234719.7953Neighbours21BLASTN+1961432.gbk
82235142225571520574Island text2.0926330.444425.4401Neighbours21BLASTN+IslandViewer 2235142.gbk
93080614*311281732204Island text2.2348334.667125.3605Neighbours21BLASTNIslandViewer 3080614.gbk