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_014169: Bifidobacterium longum subsp. longum JDM301 chromosome, complete

NCBI: NC_014169

Host Lineage: Bifidobacterium longum; Bifidobacterium; Bifidobacteriaceae; Bifidobacteriales; Actinobacteria; Bacteria

General Information: Representatives of this genus naturally colonize the human gastrointestinal tract (GIT) and are important for establishing and maintaining homeostasis of the intestinal ecosystem to allow for normal digestion. Their presence has been associated with beneficial health effects, such as prevention of diarrhea, amelioration of lactose intolerance, or immunomodulation. The stabilizing effect on GIT microflora is attributed to the capacity of bifidobacteria to produce bacteriocins, which are bacteriostatic agents with a broad spectrum of action, and to their pH-reducing activity. Most of the ~30 known species of bifidobacteria have been isolated from the mammalian GIT, and some from the vaginal and oral cavity. All are obligate anaerobes belonging to the Actinomycetales, branch of Gram-positive bacteria with high GC content that also includes Corynebacteria, Mycobacteria, and Streptomycetes. This organism is found in adult humans and formula fed infants as a normal component of gut flora.

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
123121025222421015Island text1.927330.633344.0588Neighbours11BLASTN+IslandViewer 231210.gbk
251595754014824192Island text1.8342328.003924.9381Neighbours11BLASTN+IslandViewer 515957.gbk
3565724*58841622693Island text1.7678330.546455.7114Neighbours11BLASTN565724.gbk
470388972827524387Island text1.7621531.436633.9347Neighbours11BLASTN703889.gbk
51099024113671737694Island text1.9824428.864835.6558Neighbours116BLASTN+IslandViewer 1099024.gbk
61442435*146078118347Island text1.5014229.602432.1537BLASTN+IslandViewer 1442435.gbk
71740243176088620644Island text1.5458227.869636.3321Neighbours11BLASTN1740243.gbk
81784435*181161527181Island text1.5977730.849728.9367Neighbours116BLASTN+1784435.gbk
91909482193274523264Island text1.6974430.731929.6744BLASTN+1909482.gbk
102234249*226368829440Island text1.5619828.994437.8122Neighbours116BLASTN+IslandViewer 2234249.gbk
112353711238066426954Island text1.8717530.78731.5148Neighbours11BLASTN+IslandViewer 2353711.gbk
122407266242811820853Island text2.001632.561243.363Neighbours11BLASTN+2407266.gbk
132466442*248899922558Island text1.7020527.410645.3192Neighbours11BLASTN2466442.gbk