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_003210: Listeria monocytogenes EGD-e, complete genome

NCBI: NC_003210

Host Lineage: Listeria monocytogenes; Listeria; Listeriaceae; Bacillales; Firmicutes; Bacteria

General Information: This strain has numerous pathogenicity islands and genes as compared to the related non-pathogenic organism Listeria innocua. This organism, which causes listeriosis, is one of the leading causes of death from food-borne pathogens especially in pregnant women, newborns, the elderly, and immunocompromised individuals. It is found in environments such as decaying vegetable matter, sewage, water, and soil, and it can survive extremes of both temperatures (1-45 degrees C) and salt concentration marking it as an extremely dangerous food-born pathogen, especially on food that is not reheated. This organism is enteroinvasive, and utilizes an actin-based motility system by using a surface protein, ActA, that promotes actin polymerization, to spread intercellularly using the polymerized cytoskeletal protein as a "motor". There are 13 serovars associated with Listeria monocytogenes, and the serovar 4b strains are more commonly associated with invasive disease.



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
140374342609922357Island text1.4481122.160742.7762Neighbours21BLASTN403743.gbk
272182474340121578Island text1.7575622.134640.6211Neighbours325BLASTN721824.gbk
387058788950218916Island text2.078221.79937.2396Neighbours21BLASTN870587.gbk
41904152192226518114Island text1.5213322.525536.0032Neighbours21BLASTN1904152.gbk
52362306238100918704Island text1.7418222.495133.2866Neighbours21BLASTN+2362306.gbk
62380419239859918181Island text2.2172521.64435.4976Neighbours21BLASTN+2380419.gbk
72721559*274413822580Island text1.4807222.94529.9427Neighbours21BLASTN2721559.gbk
82749538277261223075Island text1.4558322.780940.8637Neighbours21BLASTN+2749538.gbk
92879906*290440224497Island text2.4951522.197239.1461Neighbours21BLASTN2879906.gbk