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_004578: Pseudomonas syringae pv. tomato str. DC3000, complete genome

NCBI: NC_004578

Host Lineage: Pseudomonas syringae group genomosp. 3; Pseudomonas; Pseudomonadaceae; Pseudomonadales; Proteobacteria; Bacteria

General Information: While pathogenic on Arabidopsis thaliana, it is mainly characterized as causing bacterial speck disease on tomato plants, which has a large economic impact. This organism is mainly endophytic and is a poor colonizes of plant surfaces but can multiply within the host. Bacteria belonging to the Pseudomonas group are common inhabitants of soil and water and can also be found on the surfaces of plants and animals. Pseudomonas bacteria are found in nature in a biofilm or in planktonic form. Pseudomonas bacteria are renowned for their metabolic versatility as they can grow under a variety of growth conditions and do not need any organic growth factors. This species includes many plant pathogens of important crops, which makes it a model organism in plant pathology. Its natural environment is on the surface of plant leaves and it can withstand various stressful conditions, like rain, wind, UV radiation and drought. It can colonize plants in a non-pathogenic state and can rapidly take advantage of changing environmental conditions to induce disease in susceptible plants by shifting gene expression patterns.



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
1207386960648869Island text1.8032427.407231.1369Neighbours11BLASTN+IslandViewer 20738.gbk
221246824209929632Island text3.3402543.024831.9076Neighbours11BLASTN+IslandViewer 212468.gbk
3568236*59272224487Island text1.7152831.234525.8624Neighbours11BLASTN+IslandViewer 568236.gbk
4895019*92169226674Island text1.7472226.990727.8266Neighbours11BLASTN+IslandViewer 895019.gbk
593486796406929203Island text1.70332.277226.315Neighbours11BLASTN+IslandViewer 934867.gbk
61153738117268818951Island text1.486425.188531.9162Neighbours11BLASTNIslandViewer 1153738.gbk
71190000*121945029451Island text1.9917330.34233.9275Neighbours11BLASTN+IslandViewer 1190000.gbk
81719849*174221722369Island text1.5070726.617222.9504Neighbours11BLASTN+IslandViewer 1719849.gbk
92185907220851022604Island text1.6681830.48736.0199Neighbours11BLASTN+2185907.gbk
102560473258881228340Island text2.0972932.52432.963Neighbours11BLASTN+IslandViewer 2560473.gbk
112671508269955228045Island text2.1885834.089333.7601Neighbours11BLASTN+IslandViewer 2671508.gbk
122797493281782820336Island text1.5266328.313518.8249Neighbours11BLASTN+IslandViewer PAI DB2797493.gbk
133193490323511841629Island text1.9138529.903331.3372Neighbours11BLASTN+IslandViewer 3193490.gbk
143241618326508823471Island text1.4802327.583920.5445Neighbours11BLASTN+3241618.gbk
153597083362009923017Island text1.6778131.328531.3436Neighbours11BLASTN+IslandViewer 3597083.gbk
163817330384200124672Island text1.7176228.410734.7383Neighbours11BLASTN+IslandViewer 3817330.gbk
173849835387260722773Island text1.5897425.548933.5115NeighboursBLASTN+IslandViewer 3849835.gbk
183921199394421523017Island text1.5429529.207219.8136Neighbours11BLASTN+3921199.gbk
194061372409399732626Island text1.8641629.25826.147Neighbours11BLASTN+IslandViewer PAI DB4061372.gbk
204204235*422545421220Island text1.6076825.139829.4189Neighbours11BLASTN+IslandViewer 4204235.gbk
214432983445709924117Island text1.7827128.97931.9879Neighbours11BLASTNIslandViewer 4432983.gbk
224465247*448346018214Island text1.5046226.823925.7279Neighbours11BLASTN+IslandViewer 4465247.gbk
234499143*452348624344Island text1.7131427.273221.4642Neighbours11BLASTN+IslandViewer 4499143.gbk
244708220*473152123302Island text1.7923426.3937.3196Neighbours11BLASTNIslandViewer 4708220.gbk
254781326481642335098Island text1.6287427.104621.3994Neighbours11BLASTN+IslandViewer 4781326.gbk
264869673488861018938Island text1.4845926.130824.997Neighbours11BLASTN+4869673.gbk
274940000496327423275Island text1.7934425.033442.094Neighbours11BLASTN+IslandViewer 4940000.gbk
285192110522245930350Island text1.5582427.708125.3969Neighbours11BLASTN+IslandViewer 5192110.gbk
295269194529610426911Island text1.7344628.609432.71Neighbours11BLASTNIslandViewer 5269194.gbk
305336773*541660879836Island text1.8465931.416929.1024Neighbours11BLASTN+IslandViewer PAI DB5336773.gbk
315623783565173727955Island text2.1185231.44148.2777Neighbours11BLASTN+IslandViewer 5623783.gbk
325916711594513828428Island text2.456739.157637.6192Neighbours11BLASTN+IslandViewer PAI DB5916711.gbk
336089958612236632409Island text1.7765929.929636.9087Neighbours11BLASTN+IslandViewer 6089958.gbk
346138669616309624428Island text1.7514130.69835.8771Neighbours11BLASTN+IslandViewer PAI DB6138669.gbk
356334735636397929245Island text1.8502529.752226.7109Neighbours11BLASTN+IslandViewer 6334735.gbk