Pre_GI Island

Some Help

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_012667: Vibrio cholerae MJ-1236 chromosome 2, complete genome

NCBI: NC_012667

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
146432*7014223711Island text1.994435.931423.8275Neighbours42BLASTN+IslandViewer 46432.gbk
250453452622321690Island text1.5931333.375332.5566Neighbours41BLASTN+IslandViewer 504534.gbk
370385273535231501Island text1.9304936.709921.991Neighbours41BLASTN+IslandViewer 703852.gbk
4839318*86389924582Island text1.5287735.171422.2134Neighbours21BLASTN+839318.gbk
5931390102459993210Island text1.7352234.760432.8588Neighbours21BLASTN+IslandViewer 931390.gbk
61045782*106409918318Island text1.4922232.323137.7756Neighbours21BLASTN+IslandViewer 1045782.gbk