DoriC database

DoriC accession number ORI10010040
Organism Streptococcus pneumoniae TIGR4
RefSeq NC_003028.1
Topology Circular
Lineage Bacteria, Firmicutes, Lactobacillales, Streptococcaceae, Streptococcus.
Chromosome size 2160837 nt
Chromosome GC content 0.397
OriC length 158 nt
OriC AT content 0.7532
The number of DnaA box 3
The location of oriC region 1559..1716 nt
The location of dnaA gene 197..1558 nt
The extremes of GC disparity 2510 nt (minimum), 1093985 nt (maximum)
Note -
DnaA-trio The oriC contains the DnaA-trio element (3'-CTAAAGTGTCTGAGATAATAATGATAAT-5') retrieved by BLAST. Please refer to Richardson T.T. et al 2016 (Nature 534.7607: 412) fro more details.
OriC Sequence

ttTGTGGATAActtttagttttttatcttttTTATCCACAttttttaaacaagctaaaaaacttgatatgacttgtttaaaggctgTTTTCCACAgatttcacagactctattattactattatctttctaatactaaaaataaataaaggagaatcc

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.

11 138 R 11 138 0 1.67e-03 aaataaataaa
13 16 P 13 50 -1 4.08e-03 agtttttta[tg]ctt
10 43 P 10 71 0 6.70e-03 tttaaacaag
12 119 R 12 122 -1 1.51e-02 at[ta]atctttcta
9 2 P 9 31 0 2.68e-02 tgtggataa
9 18 F 9 27 0 2.68e-02 ttttttatc
11 36 R 11 39 -1 5.52e-02 ca[ca]atttttta
11 39 C 11 54 -1 5.52e-02 atttttt[ag]aac
11 114 R 11 117 -1 5.52e-02 tt[at]ctattatc
8 22 F 8 120 0 1.07e-01 ttatcttt
8 107 R 8 118 0 1.07e-01 tctattat
10 2 P 10 85 -1 2.01e-01 tgtgga[ta]aac
10 12 P 10 130 -1 2.01e-01 ttttagt[ta]tt
7 18 F 7 40 0 4.29e-01 tttttta
7 18 R 7 39 0 4.29e-01 tttttta
7 19 C 7 136 0 4.29e-01 tttttat
7 27 F 7 40 0 4.29e-01 tttttta
7 27 R 7 39 0 4.29e-01 tttttta
7 27 P 7 54 0 4.29e-01 tttttta
7 28 C 7 136 0 4.29e-01 tttttat
7 40 P 7 54 0 4.29e-01 tttttta
7 53 F 7 134 0 4.29e-01 ctaaaaa
7 108 F 7 117 0 4.29e-01 ctattat
7 110 R 7 110 0 4.29e-01 attatta
7 135 R 7 135 0 4.29e-01 taaaaat
7 138 R 7 138 0 4.29e-01 aaataaa
7 138 F 7 142 0 4.29e-01 aaataaa
7 142 R 7 142 0 4.29e-01 aaataaa
9 12 P 9 50 -1 7.23e-01 ttttag[tc]tt
9 13 P 9 136 -1 7.23e-01 ttta[gt]tttt
9 19 R 9 107 -1 7.23e-01 tt[ta]ttatct
9 21 P 9 136 -1 7.23e-01 tttat[ct]ttt
9 31 F 9 86 -1 7.23e-01 tt[at]tccaca
9 40 F 9 72 -1 7.23e-01 tt[tg]tttaaa
9 40 P 9 43 -1 7.23e-01 tt[tg]tttaaa
9 73 C 9 92 -1 7.23e-01 tgt[tc]taaag
9 88 F 9 97 -1 7.23e-01 tt[ct]cacaga
9 114 P 9 129 -1 7.23e-01 tta[cg]tatta
6 18 R 6 27 0 1.71e+00 tttttt
6 18 R 6 18 0 1.71e+00 tttttt
6 18 C 6 55 0 1.71e+00 tttttt
6 19 P 6 135 0 1.71e+00 ttttta
6 24 R 6 125 0 1.71e+00 atcttt
6 27 R 6 27 0 1.71e+00 tttttt
6 27 C 6 55 0 1.71e+00 tttttt
6 28 P 6 135 0 1.71e+00 ttttta
6 39 C 6 135 0 1.71e+00 attttt
6 39 P 6 136 0 1.71e+00 attttt
6 41 C 6 136 0 1.71e+00 ttttta
6 41 P 6 135 0 1.71e+00 ttttta

Refseq NC_003028.1
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
zcurve
Figure 2
zcurve

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