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_009439: Pseudomonas mendocina ymp, complete genome

NCBI: NC_009439

Host Lineage: Pseudomonas mendocina; Pseudomonas; Pseudomonadaceae; Pseudomonadales; Proteobacteria; Bacteria

General Information: Soil and subsurface bacterium. Strain ymp was isolated as part of the Yucca Mountain Project from sediment in a surface holding pond of a drilling operation at the Nevada Test Site, NV, USA (the proposed site of the high-level nuclear repository). Bacteria belonging to the Pseudomonas group are common inhabitants of soil and water and can also be found on the surfaces of plants and animals. Pseudomonas bacteria are found in nature in a biofilm or in planktonic form. Pseudomonas bacteria are renowned for their metabolic versatility as they can grow under a variety of growth conditions and do not need any organic growth factors. Pseudomonas mendocina is a pentachlorophenol (PCP)-degrading bacterium was isolated from PCP-contaminated soil. It is able to act as a bioremediation agent without the accumulation of inhibitory toxic compounds.



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
1205454442723883Island text1.4520320.42839.7369Neighbours11BLASTN+IslandViewer 20545.gbk
210117412533624163Island text2.5276324.206642.4429Neighbours11BLASTN+IslandViewer 101174.gbk
344289048900846119Island text3.911634.867731.5642Neighbours11BLASTN+IslandViewer 442890.gbk
4574437*59753523099Island text1.8852324.453827.8281Neighbours11BLASTN574437.gbk
560850063027421775Island text2.2560127.020930.989Neighbours11BLASTN608500.gbk
663719366076223570Island text1.8149419.786625.0518Neighbours11BLASTN637193.gbk
779449881473720240Island text1.6629619.74137.1208Neighbours11BLASTNIslandViewer 794498.gbk
8860571*88549124921Island text1.7859719.446130.4909Neighbours11BLASTN+IslandViewer 860571.gbk
991853494240823875Island text2.1039724.314623.8312Neighbours11BLASTN+IslandViewer 918534.gbk
101075170*109793122762Island text1.9669323.434537.2985Neighbours11BLASTNIslandViewer 1075170.gbk
111174432*119973625305Island text3.0594929.543232.9799Neighbours11BLASTN+IslandViewer 1174432.gbk
121297851133481436964Island text2.681525.268229.0501Neighbours11BLASTN+1297851.gbk
132038303*206823929937Island text2.6527128.537939.0379Neighbours11BLASTN+IslandViewer 2038303.gbk
142337024*236235425331Island text2.3772825.366436.9377Neighbours11BLASTN+IslandViewer 2337024.gbk
152427120*248116354044Island text1.9584222.091617.8529Neighbours11BLASTN+IslandViewer 2427120.gbk
163104000312885524856Island text1.6589722.380429.5139Neighbours11BLASTN3104000.gbk
173394174*341925525082Island text2.9660929.182127.4227Neighbours11BLASTN+IslandViewer 3394174.gbk
183485000350721722218Island text1.8162822.993747.293Neighbours11BLASTNIslandViewer 3485000.gbk
193535152355561420463Island text1.8896622.974426.1091Neighbours11BLASTN+IslandViewer 3535152.gbk
203770282380177231491Island text2.6608827.965422.155Neighbours11BLASTN+IslandViewer 3770282.gbk
214267356*429048723132Island text1.4928724.288733.7252Neighbours11BLASTN4267356.gbk
224404942*442988324942Island text2.2417525.045238.1963Neighbours11BLASTN+4404942.gbk
234661102*468191020809Island text1.5778520.565419.3553Neighbours11BLASTN+IslandViewer 4661102.gbk
244734237475635022114Island text1.550921.31538.5539Neighbours11BLASTN+4734237.gbk
254913767493609922333Island text1.6894519.415734.7484Neighbours11BLASTN+IslandViewer 4913767.gbk