DoriC database

DoriC accession number ORI10010053
Organism Clostridium perfringens str. 13
RefSeq NC_003366.1
Topology Circular
Lineage Bacteria, Firmicutes, Clostridia, Clostridiales, Clostridiaceae, Clostridium.
Chromosome size 3031430 nt
Chromosome GC content 0.2857
OriC length 294 nt
OriC AT content 0.7279
The number of DnaA box 6
The location of oriC region 1784..2077 nt
The location of dnaA gene 410..1783 nt
The extremes of GC disparity 3031426 nt (minimum), 1361223 nt (maximum)
Note -
OriC Sequence

ttaacaaagtacataataactgtatattatcTGTGGATAAcctgtgaattattatgtttattattttttgcctgttattttatTGTGGATAAttgttcacagtaatctacaggTTATCCACAagcaaaaaatctctgtaagccttgctatacaaaggtgtccaggttTTATCCACAaatccacaggtactattactattattattatatttattatctattaatatatctattatgcaaaaattcacacTGTGTATAActtaTGTGAATAAgtcctaaaaggagggtttttatt

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.

17 47 F 17 199 -1 7.22e-05 attattat[ga]tttattat
14 31 P 14 108 0 9.06e-05 tgtggataacctgt
14 72 R 14 72 0 9.06e-05 tgttattttattgt
15 186 F 15 192 -1 1.02e-03 tactatta[ct]tattat
12 195 R 12 195 0 1.45e-03 tattattattat
11 211 R 11 211 0 5.80e-03 attatctatta
13 62 P 13 119 -1 1.41e-02 attttttgc[ct]tgt
10 56 R 10 56 0 2.32e-02 tttattattt
10 82 P 10 113 0 2.32e-02 ttgtggataa
10 82 P 10 167 0 2.32e-02 ttgtggataa
10 113 F 10 167 0 2.32e-02 ttatccacaa
10 210 R 10 225 0 2.32e-02 tattatctat
12 28 P 12 167 -1 5.22e-02 at[ct]tgtggataa
12 189 R 12 195 -1 5.22e-02 tatta[ct]tattat
12 192 F 12 195 -1 5.22e-02 ta[ct]tattattat
12 192 R 12 195 -1 5.22e-02 ta[ct]tattattat
12 204 F 12 223 -1 5.22e-02 tatat[tc]tattat
9 10 P 9 48 0 9.27e-02 acataataa
9 31 F 9 83 0 9.27e-02 tgtggataa
9 154 C 9 178 0 9.27e-02 aggtgtcca
9 198 R 9 198 0 9.27e-02 tattattat
9 213 F 9 225 0 9.27e-02 tatctatta
9 264 R 9 264 0 9.27e-02 tgaataagt
11 14 R 11 260 -1 1.91e-01 aataa[cg]tgtat
11 27 P 11 177 -1 1.91e-01 ta[tc]ctgtggat
11 30 F 11 248 -1 1.91e-01 ctgtg[gt]ataac
11 39 P 11 176 -1 1.91e-01 acctgtg[ag]att
11 42 P 11 237 -1 1.91e-01 tgtgaatt[at]tt
11 48 F 11 57 -1 1.91e-01 ttattat[gt]ttt
11 57 F 11 200 -1 1.91e-01 ttattat[ta]ttt
11 103 F 11 176 -1 1.91e-01 aatc[tc]acaggt
11 198 F 11 217 -1 1.91e-01 tatta[ta]tatat
11 214 P 11 217 -1 1.91e-01 at[ca]tattaata
8 22 R 8 201 0 3.71e-01 tatattat
8 24 R 8 227 0 3.71e-01 tattatct
8 24 F 8 210 0 3.71e-01 tattatct
8 47 R 8 195 0 3.71e-01 attattat
8 47 F 8 196 0 3.71e-01 attattat
8 47 R 8 198 0 3.71e-01 attattat
8 56 F 8 208 0 3.71e-01 tttattat
8 57 F 8 197 0 3.71e-01 ttattatt
8 57 R 8 197 0 3.71e-01 ttattatt
8 58 R 8 208 0 3.71e-01 tattattt
8 60 R 8 286 0 3.71e-01 ttattttt
8 194 R 8 209 0 3.71e-01 ctattatt
10 9 P 10 209 -1 6.96e-01 ta[cg]ataataa
10 19 P 10 102 -1 6.96e-01 ctgta[tg]atta
10 20 R 10 24 -1 6.96e-01 tgt[ac]tattat
10 20 F 10 54 -1 6.96e-01 tgt[at]tattat
10 24 R 10 54 -1 6.96e-01 tattat[ct]tgt

Refseq NC_003366.1
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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