Rearranged Oriloc output example: Previous Index Next




Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Bradyrhizobium.
Genome size (bp): 9105828
Number of genes 8317
Oriloc predictions: Origin 684 kb Terminus 4926 kb
Worning et al., 2006: Origin 328 kb Terminus 5002 kb
Position of the first peak in DnaA box distribution (Mackiewicz et al., 2004): 68.858 kb
Position(s) of the dnaA gene(s) (Mackiewicz et al., 2004): 894.42 kb
Consensus predictions: Origin 684 kb Terminus 4926 kb
Significant breakpoints (p-value <0.05):
Breakpoints P-value Chromosome coordinate (kb)
GC-skew forward75701646
11350.006672319
24820.013334958
GC-skew reverse53580.006672859
605004707
AT-skew forward3060681
75401641
114602335
253105076
AT-skew reverse480201407
53300.048892795
62660.002225211
Segments:
From (index/coord) To (index/coord) StrandSlope
GC-skew forward 1 (0 kb)757 (1645.778 kb) NA-0.107
758 (1648.5805 kb)1135 (2319.173 kb) leading-0.02
1136 (2320.658 kb)2482 (4957.524 kb) leading-0.076
2483 (4958.895 kb)4147 (9105.797 kb) lagging-0.118
GC-skew reverse 4148 (0 kb)5358 (2859.041 kb) NA0.097
5359 (2859.841 kb)6050 (4707.2085 kb) leading0.141
6051 (4710.0715 kb)8317 (9105.797 kb) lagging0.078
AT-skew forward 1 (0 kb)306 (680.5335 kb) lagging-0.189
307 (685.99 kb)754 (1641.0115 kb) leading-0.331
755 (1641.4245 kb)1146 (2334.5915 kb) leading-0.153
1147 (2337.9065 kb)2531 (5076.3265 kb) leading-0.311
2532 (5079.429 kb)4147 (9105.797 kb) lagging-0.189
AT-skew reverse 4148 (0 kb)4802 (1407.391 kb) NA0.255
4803 (1408.4165 kb)5330 (2794.706 kb) leading0.138
5331 (2796.3425 kb)6266 (5211.3115 kb) leading0.194
6267 (5212.6245 kb)8317 (9105.797 kb) lagging0.295
More T than A on the leading strand for replication.
More G than C on the leading strand for replication - for forward encoded genes.