DoriC

DoriC accession number	ORI10010004
Organism	Helicobacter pylori J99
RefSeq	NC_000921.1
Topology	Circular
Lineage	Bacteria, Proteobacteria, Epsilonproteobacteria, Campylobacterales, Helicobacteraceae, Helicobacter.
Chromosome size	1643831 nt
Chromosome GC content	0.3919
OriC length	152 nt
OriC AT content	0.6776
The number of DnaA box	3
The location of oriC region	1559163..1559314 nt
The location of dnaA gene	1557789..1559162 nt
The extremes of GC disparity	1556599 nt (minimum), 686803 nt (maximum)
Note	Here, the oriC region has been confirmed using in silico and in vitro studies. 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	ggcgttattatagcgtgaataagtGGTGAATGAaaaaggaatagcaTGTGAATGAaaTGTGAATGAagccttaaaattaaggtgtttcttttaagggtttgtctataatgcttgctttataataagctaatggatgcgaaaaaaggattttc
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 49 C 9 110 -1 6.69e-01 gaa[tc]gaaat 9 116 P 9 116 -1 6.69e-01 ttat[at]ataa 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 R 6 120 0 1.59e+00 gaataa 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 35 R 6 35 0 1.59e+00 aaggaa 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 9 F 8 40 -1 2.38e+00 atagc[ga]tg 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 49 R 8 73 -1 2.38e+00 gaat[gt]aaa 8 65 P 8 105 -1 2.38e+00 aagc[ca]tta 8 92 F 8 142 -1 2.38e+00 aagg[ga]ttt 8 103 P 8 113 -1 2.38e+00 tataa[ta]gc 7 1 P 7 104 -1 8.33e+00 gc[ga]ttat 7 3 C 7 102 -1 8.33e+00 g[ta]tatta

Refseq	NC_000921.1
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