Pre_GI Island

Some Help

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_015761: Salmonella bongori NCTC 12419, complete genome

NCBI: NC_015761

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

General Information: Salmonella bongori is the second species of Salmonella after Salmonella enterica and is considered a distant outgroup. This species is reptile-specific, is rarely found in human infections and it lacks SPI-2. 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
1299386*35693757552Island text1.6455636.329654.2499Neighbours41BLASTN+IslandViewer 299386.gbk
2520858*54379322936Island text2.4732137.158122.381Neighbours41BLASTN+IslandViewer 520858.gbk
31017301103672319423Island text2.316132.923321.9629Neighbours41BLASTN+IslandViewer 1017301.gbk
41181186*122832147136Island text1.5560231.665532.0583Neighbours41BLASTN+IslandViewer 1181186.gbk
51488807150738818582Island text2.2959935.89926.156Neighbours41BLASTN+IslandViewer 1488807.gbk
61599000162322024221Island text1.8376230.654225.064Neighbours41BLASTN+IslandViewer 1599000.gbk
71630000*165131921320Island text2.1310532.514621.7892Neighbours41BLASTN+IslandViewer 1630000.gbk
81970042*199709927058Island text2.0817631.881525.9845Neighbours41BLASTN+1970042.gbk
92062345209281830474Island text2.2543137.061919.2856Neighbours41BLASTN+IslandViewer 2062345.gbk
102227500224656619067Island text4.5376842.578522.3326Neighbours51BLASTN+IslandViewer 2227500.gbk
112373967240163927673Island text1.5003434.350731.1061Neighbours41BLASTN+IslandViewer 2373967.gbk
122444833246982624994Island text2.6630235.679527.8697Neighbours41BLASTN2444833.gbk
132726000275324427245Island text1.8861732.702529.411Neighbours41BLASTN+IslandViewer 2726000.gbk
142982000*301035728358Island text1.9995232.800624.1275Neighbours41BLASTN+IslandViewer 2982000.gbk
153611993*363724925257Island text2.0444238.240224.9675Neighbours41BLASTNIslandViewer 3611993.gbk
163698520371861520096Island text1.611139.390854.6961Neighbours51BLASTNIslandViewer 3698520.gbk
174098481412697828498Island text2.7509738.070422.1754Neighbours41BLASTNIslandViewer 4098481.gbk
184188250*421809929850Island text1.5060632.994928.2617Neighbours41BLASTN+IslandViewer 4188250.gbk
194355335*438052125187Island text1.6059637.285753.2129Neighbours41BLASTNIslandViewer 4355335.gbk