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_011094: Salmonella enterica subsp. enterica serovar Schwarzengrund str

NCBI: NC_011094

Host Lineage: Salmonella enterica; Salmonella; Enterobacteriaceae; Enterobacteriales; Proteobacteria; Bacteria

General Information: This serovar is the predominant cause of Salmonellosis in Southeast Asia, a major source of imported food products to the USA. It was also the cause of the first recognized outbreak of fluoroquinolone-resistant salmonellosis in the USA. Recent reports suggest that high-level fluoroquinolone resistance is emerging in S. Schwarzengrund in different parts of the world. This group of Enterobactericiae have pathogenic characteristics and are one of the most common causes of enteric infections (food poisoning) worldwide. They were named after the scientist Dr. Daniel Salmon who isolated the first organism, Salmonella choleraesuis, from the intestine of a pig. The presence of several pathogenicity islands (PAIs) that encode various virulence factors allows Salmonella spp. to colonize and infect host organisms. There are two important PAIs, Salmonella pathogenicity island 1 and 2 (SPI-1 and SPI-2) that encode two different type III secretion systems for the delivery of effector molecules into the host cell that result in internalization of the bacteria which then leads to systemic spread.



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
1257624831622555Island text2.2227532.207615.9764Neighbours41BLASTN25762.gbk
233426735785123585Island text1.6591235.55637.2539Neighbours41BLASTNIslandViewer 334267.gbk
338042840309922672Island text2.3259235.390820.7419Neighbours41BLASTN+IslandViewer 380428.gbk
4593100*62025727158Island text1.5560930.441434.785Neighbours41BLASTN+IslandViewer 593100.gbk
563855267357735026Island text1.730236.852530.1495Neighbours51BLASTN+IslandViewer 638552.gbk
668862670859919974Island text1.5923632.024623.7617Neighbours41BLASTN+IslandViewer 688626.gbk
784203887029528258Island text3.5479742.202125.8734Neighbours41BLASTN+IslandViewer 842038.gbk
8973140*99575922620Island text2.0736137.737719.894Neighbours41BLASTN+IslandViewer 973140.gbk
91050700*107418423485Island text1.4600531.48140.4556Neighbours41BLASTN+1050700.gbk
101127983*115049722515Island text1.5752832.988830.2107Neighbours51BLASTN1127983.gbk
111166271118868522415Island text1.9929531.076721.4541Neighbours41BLASTN+IslandViewer 1166271.gbk
121282385*131409931715Island text2.8776240.424824.9149Neighbours41BLASTN+IslandViewer 1282385.gbk
131435347147285937513Island text1.8799933.839534.3884Neighbours41BLASTN+IslandViewer 1435347.gbk
141584038160666622629Island text1.9312632.863423.9232Neighbours41BLASTN+1584038.gbk
151683979*170769523717Island text2.4450837.773121.204Neighbours41BLASTN+IslandViewer 1683979.gbk
161726000174864322644Island text1.6896232.016124.3879Neighbours41BLASTN1726000.gbk
171923870*195241928550Island text2.1073934.991922.9017Neighbours41BLASTN+IslandViewer 1923870.gbk
182061000209098429985Island text2.2832936.652230.5321Neighbours41BLASTN+IslandViewer 2061000.gbk
192115750213898023231Island text1.9007835.782829.4927Neighbours41BLASTN+IslandViewer 2115750.gbk
202172271220850936239Island text3.7679442.195626.4566Neighbours41BLASTN+IslandViewer 2172271.gbk
212348491237110622616Island text1.6461236.714627.1808Neighbours41BLASTN+IslandViewer 2348491.gbk
222791719285000558287Island text1.5358737.062353.1368Neighbours41BLASTN+IslandViewer 2791719.gbk
232913500296332949830Island text2.8656739.829726.5809Neighbours41BLASTN+IslandViewer 2913500.gbk
243778000*382709949100Island text2.0931934.938525.921Neighbours41BLASTN+IslandViewer 3778000.gbk
253853036387535122316Island text1.5504240.494354.7509Neighbours51BLASTN+3853036.gbk
263887648391436426717Island text3.1810340.716923.2557Neighbours41BLASTN+IslandViewer 3887648.gbk
274361238440622744990Island text1.5555131.961334.4089Neighbours41BLASTN+IslandViewer 4361238.gbk
284442478446228519808Island text1.6782336.09621.4033Neighbours51BLASTNIslandViewer 4442478.gbk