DoriC database

DoriC accession number ORI10010054
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 1030 nt
OriC AT content 0.7942
The number of DnaA box 13
The location of oriC region 3030810..409 nt
The location of dnaA gene 410..1783 nt
The extremes of GC disparity 3031426 nt (minimum), 1361223 nt (maximum)
Note -
OriC Sequence

ttaaatacacccccttcaaccaatattttattctagtaaaaagctaaaagcttttttacttattcgctaatttaggttttactgtttaattatatctttcaagtcaccctctgtcaagaaaataactcacttaaagatttgttacatctaccttattttccttttttaaatatataaataataattgtttatacattaaattaaatccctacattaataactctaaaaaatatataaactgtattctaaataaaactatctattattTTATCCACAatttattaaattactcatctacttaattaatactaattacttcaataaaaagtttatttaaatcttaaagatatacaattacatatatatagataggattagctaatttatcataaataaacttaactttataactttagttataaagTTATCCACAtataaataacaatatgttattaactttttacctttatattatctctccctctttttacaccctaatttatccttattataatttaaatattgattatcttaacttctattatgttaaaaattcaaatttcaaaagatattttccctaatatatacctttaaattttaatctttttacttaaccctaaatctaaataagttttacacaaaataagTTATCAACAgctgttattttTGTGGATAActtattgaatccaactatacctttatgttatcatattaatgcatTGTGAATAActttatctaatataacaacTTATCCACActTGTGAATAAtccTGTTGATAActtgtatattattcttattatttattatttatagtctttataatccttttatttcaacggttttatatattttaaactttcaacaagaactgtgtatatttcTGTTGATAAtttttttataataaaatTTATCCACATTATCAACAgcctgttaataattTTATTCACAacatgtaaagtaataatctaatatgttaattataTGTGCATAActaaaagttaaaatcattttatgattggaggatagaag

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.

15 786 R 15 786 0 2.78e-04 tattattcttattat
15 794 R 15 794 0 2.78e-04 ttattatttattatt
14 798 R 14 798 0 1.11e-03 tatttattatttat
16 422 P 16 978 -1 3.33e-03 agttat[cg]cacatataa
13 166 R 13 166 0 4.45e-03 taaatatataaat
13 399 P 13 414 0 4.45e-03 taactttataact
13 644 P 13 770 0 4.45e-03 aagttatcaacag
13 840 R 13 840 0 4.45e-03 ttttatatatttt
15 163 P 15 841 -1 1.25e-02 ttt[ta]aaatatataaa
15 167 R 15 223 -1 1.25e-02 aaatatataaa[ta]aat
15 412 R 15 513 -1 1.25e-02 ttagttataaa[gt]tta
15 418 P 15 720 -1 1.25e-02 ataaagttat[ct]caca
15 429 P 15 972 -1 1.25e-02 cacatataa[at]taaca
15 461 F 15 693 -1 1.25e-02 tacctttat[ag]ttatc
15 641 P 15 667 -1 1.25e-02 aataagttatc[ac]aca
12 172 P 12 801 0 1.78e-02 tataaataataa
12 226 C 12 840 0 1.78e-02 aaaatatataaa
12 226 P 12 841 0 1.78e-02 aaaatatataaa
12 421 P 12 667 0 1.78e-02 aagttatccaca
14 171 F 14 432 -1 4.67e-02 atataaataa[tc]aat
14 398 C 14 512 -1 4.67e-02 ttaa[ca]tttataact
14 420 F 14 904 -1 4.67e-02 aaa[gt]ttatccacat
14 499 R 14 785 -1 4.67e-02 ttat[ct]cttattata
14 881 F 14 928 -1 4.67e-02 ctgtt[ga]ataatttt
11 167 F 11 227 0 7.11e-02 aaatatataaa
11 167 C 11 841 0 7.11e-02 aaatatataaa
11 167 P 11 841 0 7.11e-02 aaatatataaa
11 173 C 11 798 0 7.11e-02 ataaataataa
11 173 P 11 794 0 7.11e-02 ataaataataa
11 227 R 11 227 0 7.11e-02 aaatatataaa
11 325 P 11 389 0 7.11e-02 aagtttattta
11 617 R 11 617 0 7.11e-02 taaatctaaat
11 647 F 11 917 0 7.11e-02 ttatcaacagc
11 794 F 11 801 0 7.11e-02 ttattatttat
11 881 P 11 916 0 7.11e-02 ctgttgataat
11 961 R 11 961 0 7.11e-02 ataatctaata
13 61 F 13 373 -1 1.73e-01 att[ca]gctaattta
13 149 R 13 823 -1 1.73e-01 ac[ct]ttattttcct
13 198 R 13 204 -1 1.73e-01 aatta[ac]atcccta
13 264 F 13 937 -1 1.73e-01 attttat[ct]cacaa
13 275 P 13 275 -1 1.73e-01 aattta[ta]taaatt
13 381 P 13 381 -1 1.73e-01 atttat[cg]ataaat
13 499 F 13 788 -1 1.73e-01 ttat[ct]cttattat
13 507 P 13 589 -1 1.73e-01 atta[ta]aatttaaa
13 537 F 13 965 -1 1.73e-01 tcta[ta]tatgttaa
13 644 P 13 881 -1 1.73e-01 aa[ga]ttatcaacag
13 666 F 13 719 -1 1.73e-01 ttgtg[ga]ataactt
13 770 F 13 881 -1 1.73e-01 ctgttgataa[ct]tt
13 889 P 13 896 -1 1.73e-01 aatttt[ta]ttataa
13 894 P 13 894 -1 1.73e-01 ttttat[at]ataaaa

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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