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_011147: Salmonella enterica subsp. enterica serovar Paratyphi A str

NCBI: NC_011147

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

General Information: This strain is a clinical isolate collected from a child with paratyphoid fever in Karachi, Pakistan, 2004. 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
1258364832322488Island text2.2905530.41116.8961Neighbours41BLASTN25836.gbk
252945855340623949Island text2.2376935.222320.4698Neighbours41BLASTN+529458.gbk
3682897*70867825782Island text1.6670335.957327.1151Neighbours51BLASTN+IslandViewer 682897.gbk
479248982352431036Island text3.4671842.291629.6689Neighbours41BLASTNIslandViewer 792489.gbk
585473089136436635Island text4.3025643.999427.8395Neighbours41BLASTN+IslandViewer 854730.gbk
61057259108413826880Island text1.898832.709921.7627Neighbours41BLASTN+IslandViewer 1057259.gbk
71239904125951119608Island text1.5255732.204523.2245Neighbours41BLASTN+IslandViewer 1239904.gbk
81267005129047423470Island text1.6549932.155918.5102Neighbours41BLASTN+IslandViewer 1267005.gbk
91502096154112339028Island text1.793633.093335.8265Neighbours41BLASTNIslandViewer 1502096.gbk
101573470*159168118212Island text1.6548830.125227.4516Neighbours41BLASTN+1573470.gbk
111650142166858218441Island text1.651430.003629.6504Neighbours41BLASTN+1650142.gbk
121763681*178709923419Island text1.8421932.461323.4489Neighbours41BLASTN+IslandViewer 1763681.gbk
131802535*182707224538Island text1.9991330.766729.1448Neighbours51BLASTN1802535.gbk
142085241211337028130Island text3.6199842.841724.9957Neighbours41BLASTN+IslandViewer 2085241.gbk
152247460226724919790Island text1.912631.036216.8608Neighbours41BLASTNIslandViewer 2247460.gbk
162463299248711623818Island text2.2631435.86329.1932Neighbours41BLASTN+IslandViewer 2463299.gbk
172496808251771420907Island text1.5628331.843845.8801BLASTNIslandViewer 2496808.gbk
182536000255850722508Island text1.6210637.045527.4429Neighbours41BLASTNIslandViewer 2536000.gbk
192676972269459917628Island text1.4897734.210831.6299Neighbours41BLASTN+IslandViewer 2676972.gbk
202713937273258718651Island text1.6514129.714916.6525Neighbours41BLASTN+IslandViewer 2713937.gbk
212814664286653651873Island text2.0864734.58825.9889Neighbours41BLASTN+IslandViewer 2814664.gbk
223075186*310059925414Island text2.6925239.493818.5262Neighbours41BLASTN+IslandViewer 3075186.gbk
233686500*371172425225Island text1.5211138.302553.4901Neighbours41BLASTNIslandViewer 3686500.gbk
243755725377840022676Island text2.8244339.056422.4871Neighbours51BLASTN+IslandViewer 3755725.gbk
253789696381429224597Island text1.4663832.39337.7878Neighbours41BLASTN+IslandViewer 3789696.gbk
264221000424886927870Island text1.6511437.04122.4545Neighbours41BLASTNIslandViewer 4221000.gbk
274297513*432009922587Island text1.4044634.247352.4912Neighbours41BLASTN+IslandViewer 4297513.gbk
284460726*450060639881Island text1.4932736.673252.5764Neighbours41BLASTN+IslandViewer 4460726.gbk