DoriC

DoriC accession number	ORI10010002
Organism	Helicobacter pylori 26695
RefSeq	NC_000915.1
Topology	Circular
Lineage	Bacteria, Proteobacteria, Epsilonproteobacteria, Campylobacterales, Helicobacteraceae, Helicobacter.
Chromosome size	1667867 nt
Chromosome GC content	0.3887
OriC length	152 nt
OriC AT content	0.6842
The number of DnaA box	3
The location of oriC region	1608998..1609149 nt
The location of dnaA gene	1607624..1608997 nt
The extremes of GC disparity	1635529 nt (minimum), 814087 nt (maximum)
Note	Note that the homologous sequence has been confirmed as oriC region using in silico and in vitro studies for the closely-related Helicobacter pylori J99. Please refer to Zawilak A. et al. 2001 (Nucleic Acids Res. 29(11):2251-2259) for more details. Note that the DnaA box motif (tcattcaca) was looked for with no more than one mismatch instead of E. coli perfect DnaA box (ttatccaca).
OriC Sequence	ggcgttattatagcgtgaataagtGGTGAATGAaaaaggaataacaTGTGAATGAaaTGTGAATGAagccttaaaattaaggtgtttcttttaagggtttgtctataatgcttgctttataataagctaatggatgcgaaaaaaggattttc
The information of repeat	The following lines contain repeats found, one line each. [1] - repeat length of the first part [2] - starting position of the first part [4] - repeat length of the second part [5] - starting position of the second part [6] - distance of this repeat [7] - calculated evalue of this repeat [8] - repeat sequence For more details, please refer to The Manual of REPuter. 12 19 R 12 19 0 3.87e-04 taagtggtgaat 11 14 R 11 14 0 1.55e-03 gtgaataagtg 11 45 F 11 56 0 1.55e-03 atgtgaatgaa 10 25 F 10 47 0 6.20e-03 gtgaatgaaa 9 25 F 9 58 0 2.48e-02 gtgaatgaa 11 65 P 11 88 -1 5.11e-02 aa[gc]ccttaaaa 8 4 P 8 117 0 9.92e-02 ttattata 8 32 F 8 139 0 9.92e-02 aaaaagga 8 70 R 8 70 0 9.92e-02 ttaaaatt 8 137 R 8 137 0 9.92e-02 gaaaaaag 10 1 R 10 5 -1 1.86e-01 gcg[ta]tattat 10 28 R 10 31 -1 1.86e-01 aa[tg]gaaaaag 7 6 P 7 102 0 3.97e-01 attatag 7 84 R 7 84 0 3.97e-01 tttcttt 9 27 R 9 72 -1 6.69e-01 gaat[gt]aaaa 9 32 R 9 35 -1 6.69e-01 aa[at]aaggaa 9 38 R 9 117 -1 6.69e-01 gaataa[ct]at 9 49 C 9 110 -1 6.69e-01 gaa[tc]gaaat 9 116 P 9 116 -1 6.69e-01 ttat[at]ataa 6 3 P 6 39 0 1.59e+00 gttatt 6 5 C 6 118 0 1.59e+00 tattat 6 14 F 6 25 0 1.59e+00 gtgaat 6 14 F 6 47 0 1.59e+00 gtgaat 6 14 F 6 58 0 1.59e+00 gtgaat 6 16 F 6 38 0 1.59e+00 gaataa 6 16 R 6 120 0 1.59e+00 gaataa 6 17 R 6 38 0 1.59e+00 aataag 6 17 F 6 120 0 1.59e+00 aataag 6 19 R 6 58 0 1.59e+00 taagtg 6 19 R 6 47 0 1.59e+00 taagtg 6 31 F 6 137 0 1.59e+00 gaaaaa 6 31 R 6 139 0 1.59e+00 gaaaaa 6 32 R 6 137 0 1.59e+00 aaaaag 6 43 P 6 43 0 1.59e+00 acatgt 6 68 P 6 76 0 1.59e+00 ccttaa 6 72 C 6 88 0 1.59e+00 aaaatt 6 74 R 6 74 0 1.59e+00 aattaa 6 76 F 6 90 0 1.59e+00 ttaagg 6 87 R 6 146 0 1.59e+00 ctttta 6 103 F 6 117 0 1.59e+00 tataat 6 116 P 6 116 0 1.59e+00 ttataa 6 118 R 6 118 0 1.59e+00 ataata 8 4 F 8 116 -1 2.38e+00 ttat[ta]ata 8 4 C 8 39 -1 2.38e+00 ttatt[ag]ta 8 15 F 8 30 -1 2.38e+00 tgaa[ta]aag 8 16 R 8 30 -1 2.38e+00 gaa[ta]aagt 8 27 C 8 110 -1 2.38e+00 gaa[tc]gaaa 8 28 C 8 84 -1 2.38e+00 aa[ta]gaaaa 8 33 P 8 84 -1 2.38e+00 aaaag[ga]aa 8 36 R 8 139 -1 2.38e+00 aggaa[ta]aa

Refseq	NC_000915.1
Legend	Figure1 shows the Z-curves for the original sequence. Figure2 shows the Z-curves for the rotated sequence beginning and ending in dif site or the maximum of the GC disparity curve. Short vertical red line indicates the indicator gene (such as dnaA, dnaN, gidA, hemE etc) location, and short up vertical dark blue arrow indicates the identified oriC location, short down vertical brown arrow indicates dif site location. Purple peaks with the diamonds indicates the DnaA box clusters.
	Figure 1
	Figure 2