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_012668: Vibrio cholerae MJ-1236 chromosome 1, complete sequence

NCBI: NC_012668

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

General Information: Vibrio cholerae MJ-1236 is a toxigenic O1 El Tor Inaba strain from Matlab, Bangladesh, 1994 that represents the "Matlab variant" of El Tor. 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. Vibrio cholerae can colonize the mucosal surface of the small intestines of humans where it will cause cholera, a severe and sudden onset diarrheal disease. One famous outbreak was traced to a contaminated well in London in 1854 by John Snow, and epidemics, which can occur with extreme rapidity, are often associated with conditions of poor sanitation. The disease has a high lethality if left untreated, and millions have died over the centuries. There have been seven major pandemics between 1817 and today. Six were attributed to the classical biotype, while the 7th, which started in 1961, is associated with the El Tor biotype.

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
162500*8124218743Island text1.7126832.812531.8492Neighbours41BLASTN+IslandViewer 62500.gbk
28364111342729787Island text2.1368237.023423.3416Neighbours21BLASTN+IslandViewer 83641.gbk
316035719486034504Island text1.7978636.650625.6627Neighbours42BLASTN+IslandViewer 160357.gbk
4368305*40531437010Island text1.6103835.539752.3231Neighbours41BLASTNIslandViewer 368305.gbk
5442601*47457831978Island text1.5903940.202952.1875Neighbours41BLASTN+IslandViewer 442601.gbk
61036000105709921100Island text2.5915638.77124.1597Neighbours44BLASTN+1036000.gbk
71623350165477931430Island text1.9705937.841725.8781Neighbours21BLASTN+IslandViewer 1623350.gbk
81688500175295364454Island text1.5290137.977352.8383Neighbours21BLASTN+IslandViewer 1688500.gbk
92115228213816922942Island text1.4713138.241749.9756Neighbours41BLASTN+IslandViewer 2115228.gbk
102258854*229516736314Island text1.4747237.238653.082Neighbours21BLASTN+IslandViewer 2258854.gbk
112744393280309958707Island text1.585635.82252.6556Neighbours21BLASTN+IslandViewer 2744393.gbk
123037345306517827834Island text2.3129434.094734.3487Neighbours11BLASTN+IslandViewer 3037345.gbk