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_012943: Mycobacterium tuberculosis KZN 1435 chromosome, complete genome

NCBI: NC_012943

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

General Information: M. tuberculosis strain KZN 1435 was isolated from a patient in KwaZulu-Natal, South Africa. This strain is multidrug-resistant (resistant to isoniazid and rifampin). This bacterium is the causative agent of tuberculosis - a chronic infectious disease with a growing incidence worldwide. This species is responsible for more morbidity in humans than any other bacterial disease. 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. 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. The envelope contains the typical polypeptide layer, the peptidoglycan layer, and free lipids. 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. These fatty acid-carbohydrate complexes inhibit phago-lysosome fusion and are often considered to be indicators of virulent strains. The cell envelope also includes adhesins and aggressions, but does not contain any known toxins. 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
147650049987823379Island text1.7766318.081729.0306Neighbours11BLASTN+476500.gbk
283000085266422665Island text1.7471117.596517.2384Neighbours11BLASTN+830000.gbk
31279228130009920872Island text1.6096721.365332.307Neighbours11BLASTN+IslandViewer 1279228.gbk
41769445*179277023326Island text1.5159821.352137.5503Neighbours11BLASTN+IslandViewer 1769445.gbk
52103662212702923368Island text1.4899515.941129.6443Neighbours11BLASTN2103662.gbk
62525835254855222718Island text1.5379217.887733.9209Neighbours11BLASTN+2525835.gbk
72707677273491427238Island text1.9235520.218420.1457Neighbours11BLASTN+IslandViewer 2707677.gbk
83299744*332163621893Island text2.2554124.16830.2018Neighbours11BLASTN+IslandViewer 3299744.gbk
93777371380294925579Island text1.7458118.382926.825Neighbours11BLASTN+IslandViewer 3777371.gbk