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_009525: Mycobacterium tuberculosis H37Ra, complete genome

NCBI: NC_009525

Host Lineage: Mycobacterium tuberculosis; Mycobacterium; Mycobacteriaceae; Actinomycetales; Actinobacteria; Bacteria

General Information: This strain (H37Ra; ATCC 25177) is an avirulent strain derived from its virulent parent strain H37 (isolated from a 19 year-old male patient with chronic pulmonary tuberculosis by Edward R. Baldwin in 1905). Causative agent of tuberculosis. This genus comprises a number of Gram-positive, acid-fast, rod-shaped aerobic bacteria and is the only member of the family Mycobacteriaceae within the order Actinomycetales. Like other closely related Actinomycetales, such as Nocardia and Corynebacterium, mycobacteria have unusually high genomic DNA GC content and are capable of producing mycolic acids as major components of their cell wall. This bacterium is the causative agent of tuberculosis - a chronic infectious disease with a growing incidence worldwide. It infects 1.7 billion people a year (~33% of the entire world population) and causes over 3 million deaths/year. This bacterium does not form a polysaccharide capsule, and is an extremely slow growing obligate aerobe. This bacterium does not form a polysaccharide capsule, and is an extremely slow growing obligate aerobe. This bacterium does not form a polysaccharide capsule, and is an extremely slow growing obligate aerobe. The sluggish growth rate is a result of the tough cell wall that resists the passage of nutrients into the cell and inhibits waste products to be excreted out of the cell. The specialized cell envelope of this organism resembles a modified Gram positive cell wall. It also contains complex fatty acids, such as mycolic acids, that cause the waxy appearance and impermeability of the envelope. These acids are found bound to the cell envelope, but also form cord factors when linked with a carbohydrate component to form a cord-like structure. Primary infection occurs by inhalation of the organism in droplets that are aerosolized by an infected person. The organism initially replicates in cells of the terminal airways, after which it is taken up by, and replicates in, alveolar macrophages. Macrophages distribute the organism to other areas of the lungs and the regional lymph nodes. Once a cell-mediated hypersensitivity immune response develops, replication of the organism decreases and the bacteria become restricted to developing granulomas.

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
147709350092923837Island text1.7806418.982827.8379Neighbours11BLASTN+477093.gbk
283051384921918707Island text1.77416.449817.2402Neighbours11BLASTN+IslandViewer 830513.gbk
31096386*111845622071Island text1.8112618.714726.4486Neighbours11BLASTN+IslandViewer 1096386.gbk
41685522171115225631Island text1.9604822.119621.1494Neighbours11BLASTN+IslandViewer 1685522.gbk
51872360189686024501Island text1.7358519.605934.8306Neighbours11BLASTN+1872360.gbk
62635792*265864122850Island text1.4909621.206234.5048Neighbours11BLASTN+IslandViewer 2635792.gbk
72802987282687923893Island text1.4821118.470322.585Neighbours11BLASTN2802987.gbk
83128786314904720262Island text1.5228920.946333.4861Neighbours11BLASTN+IslandViewer 3128786.gbk
93300456332228921834Island text1.5447516.740231.3558Neighbours11BLASTN+3300456.gbk
103484924350559920676Island text1.5567818.494620.0585Neighbours11BLASTN+IslandViewer 3484924.gbk
113794000381625122252Island text1.4420617.363825.0883Neighbours11BLASTN+IslandViewer 3794000.gbk
123933567395892925363Island text1.4411323.741518.5894Neighbours11BLASTN3933567.gbk