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_008525: Pediococcus pentosaceus ATCC 25745, complete genome

NCBI: NC_008525

Host Lineage: Pediococcus pentosaceus; Pediococcus; Lactobacillaceae; Lactobacillales; Firmicutes; Bacteria

General Information: Use in fermentation of food products. A distinctive characteristic of pediococci is their ability to form tetrads via cell division in two perpendicular directions in a single plane. Like other lactic acid bacteria, species of Pediococcus are acid tolerant, cannot synthesize porphyrins, and possess a strictly fermentative (homofermentative) facultatively anaerobic metabolism with lactic acid as the major metabolic end product. They also occur in such food products as cured meat, raw sausages, and marinated fish, and are are used for biotechnological processing and preservation of foods. This bacterium can be isolated from a variety of plant materials and bacterial-ripened cheeses. This organism is used as an acid producing starter culture in the fermentation of some sausages, cucumbers, green beans, soy milk, and silage. Some strains have been reported to contain several (3-5) resident plasmids that render the bacterium capable of fermenting some sugars (raffinose, melibiose, and sucrose), as well as producing bacteriocins.

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
1108687*14459935913Island text2.3401930.076544.2724Neighbours325BLASTN108687.gbk
2270310*29448024171Island text3.0421628.047545.5227Neighbours21BLASTN+270310.gbk
356100058709926100Island text1.7852628.003425.2531Neighbours21BLASTN+561000.gbk
460698663027323288Island text1.5358422.79334.986Neighbours21BLASTN+606986.gbk
5664500*68827523776Island text3.7686434.830448.1727Neighbours21BLASTN664500.gbk
678050080064220143Island text2.0629624.077639.9836Neighbours21BLASTN+IslandViewer 780500.gbk
71013979103527221294Island text1.6378822.94539.3318Neighbours21BLASTN+IslandViewer 1013979.gbk
81202852*122661423763Island text2.7713927.685143.8529Neighbours21BLASTN1202852.gbk
91493317*151610022784Island text2.5651126.690145.1663Neighbours21BLASTN1493317.gbk