Rearranged Oriloc output example: Previous Index Next




Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae; Shigella.
Genome size (bp): 4825265
Number of genes 4223
Oriloc predictions: Origin 3918 kb Terminus 1739 kb
Worning et al., 2006: Origin 3882 kb Terminus 1740 kb
Position of the first peak in DnaA box distribution (Mackiewicz et al., 2004): 1312.317 kb
Position(s) of the dnaA gene(s) (Mackiewicz et al., 2004): 3823.94 kb
Consensus predictions: Origin 3918 kb Terminus 1739 kb
Significant breakpoints (p-value <0.05):
Breakpoints P-value Chromosome coordinate (kb)
GC-skew forward809NA1696
1592NA3709
GC-skew reverse2770NA1678
3714NA3614
AT-skew forward600NA1279
1650NA3888
AT-skew reverse2923NA2028
3893NA3915
Segments:
From (index/coord) To (index/coord) StrandSlope
GC-skew forward 1 (0 kb)809 (1696.3625 kb) leading0.093
810 (1698.0415 kb)1592 (3709.045 kb) lagging0.017
1593 (3709.83 kb)2075 (4825.238 kb) leading0.087
GC-skew reverse 2076 (0 kb)2770 (1678.14 kb) leading-0.028
2771 (1678.4605 kb)3714 (3613.659 kb) lagging-0.093
3715 (3614.378 kb)4223 (4825.238 kb) NA-0.043
AT-skew forward 1 (0 kb)600 (1278.862 kb) leading-0.164
601 (1279.536 kb)1650 (3888.4155 kb) NA-0.145
1651 (3890.209 kb)2075 (4825.238 kb) leading-0.186
AT-skew reverse 2076 (0 kb)2923 (2027.9685 kb) NA0.163
2924 (2030.5295 kb)3893 (3915.1345 kb) lagging0.187
3894 (3918.4695 kb)4223 (4825.238 kb) leading0.148
More G than C on the leading strand for replication - for forward encoded genes.