DoriC database

DoriC accession number ORI10010052
Organism Ralstonia solanacearum GMI1000
RefSeq NC_003295.1
Topology Circular
Lineage Bacteria, Proteobacteria, Betaproteobacteria, Burkholderiales, Burkholderiaceae, Ralstonia.
Chromosome size 3716413 nt
Chromosome GC content 0.6704
OriC length 622 nt
OriC AT content 0.3633
The number of DnaA box 3
The location of oriC region 3716277..485 nt
The location of dnaA gene 3714708..3716276 nt
The extremes of GC disparity 4314 nt (minimum), 2015178 nt (maximum)
Note -
OriC Sequence

cgttatcgtttggtgtttgcccggcgccacgcgcgtcgtcgtcgacgcccccgggtgggccggccgccgggcgcctgttgtatccgggcgtcgggcggctgtcgttgttggaacgggattgtacctccggcttaaagTTATCCACAaaggataagtcTGTGGATAAcctgtgggccagttgtgggttgcagtggacaaccgatggtgtccgttgttcgaaaacccaatggcggaaagggtttccgtggggtagcccaggtcgcacaagctgctggggaaaactttctggaaagtggacttctctgcgcggagggtgtTTATCCCCAgacaatgcggcttgacaggcgcgtcaaacatcgcttaaatggcgggttctgcgatgcgcggcaggggagcgcacgcttgttcgcgtcagacgcggtgccggggtgcgtcccggcgcgcctgatccggtcgggctcgtcgatccagacgcccggttcccggcaacgccctcgacttgaacaactcagcgcacggcggtctgcgtgggcggtttccctaacgaatcgacaccaggtctggcccgcgcccggcccggcgcgtgcggcgacgtccgcacccattaaccagagagtgcatc

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.

13 562 R 13 562 0 1.62e-03 ggcccgcgcccgg
11 50 R 11 50 0 2.59e-02 ccgggtgggcc
11 399 R 11 399 0 2.59e-02 cgcttgttcgc
13 407 P 13 407 -1 6.32e-02 cgcgtc[at]gacgcg
10 136 P 10 157 0 1.04e-01 gttatccaca
10 569 R 10 569 0 1.04e-01 gcccggcccg
12 58 R 12 61 -1 2.33e-01 gc[cg]ggccgccgg
12 83 P 12 467 -1 2.33e-01 ccgggcgtc[gt]gg
12 87 R 12 516 -1 2.33e-01 gcgtc[gt]ggcggc
12 154 P 12 317 -1 2.33e-01 gtctg[tg]ggataa
12 431 F 12 572 -1 2.33e-01 cg[tg]cccggcgcg
12 569 R 12 572 -1 2.33e-01 gc[cg]cggcccggc
9 18 F 9 574 0 4.15e-01 gcccggcgc
9 65 P 9 567 0 4.15e-01 gccgggcgc
9 302 R 9 342 0 4.15e-01 ctgcgcgga
9 426 R 9 523 0 4.15e-01 gggtgcgtc
11 6 R 11 178 -1 8.56e-01 cgtt[tg]ggtgtt
11 21 C 11 422 -1 8.56e-01 cggc[gc]ccacgc
11 22 R 11 511 -1 8.56e-01 ggcg[cg]cacgcg
11 33 F 11 36 -1 8.56e-01 cgtcgtcg[ta]cg
11 36 P 11 36 -1 8.56e-01 cgtcg[ta]cgacg
11 41 C 11 266 -1 8.56e-01 tcgacg[ca]cccc
11 56 P 11 567 -1 8.56e-01 gggccgg[cg]cgc
11 57 C 11 59 -1 8.56e-01 ggccggc[cg]gcc
11 59 P 11 59 -1 8.56e-01 ccggc[cg]gccgg
11 63 P 11 511 -1 8.56e-01 ccgccg[gt]gcgc
11 66 P 11 468 -1 8.56e-01 ccgggcg[ct]ctg
11 67 F 11 91 -1 8.56e-01 cgggcg[cg]ctgt
11 102 F 11 209 -1 8.56e-01 cgttgtt[gc]gaa
11 167 C 11 550 -1 8.56e-01 ctgtgg[gt]ccag
11 266 R 11 455 -1 8.56e-01 agctgct[gc]ggg
11 417 P 11 481 -1 8.56e-01 gcg[gt]tgccggg
11 566 P 11 573 -1 8.56e-01 cgcgcc[cg]ggcc
8 18 P 8 64 0 1.66e+00 gcccggcg
8 19 F 8 434 0 1.66e+00 cccggcgc
8 23 C 8 416 0 1.66e+00 gcgccacg
8 28 P 8 28 0 1.66e+00 acgcgcgt
8 37 R 8 266 0 1.66e+00 gtcgtcga
8 39 P 8 39 0 1.66e+00 cgtcgacg
8 42 P 8 85 0 1.66e+00 cgacgccc
8 57 P 8 57 0 1.66e+00 ggccggcc
8 58 R 8 58 0 1.66e+00 gccggccg
8 64 P 8 574 0 1.66e+00 cgccgggc
8 66 C 8 562 0 1.66e+00 ccgggcgc
8 70 P 8 340 0 1.66e+00 gcgcctgt
8 225 F 8 363 0 1.66e+00 aatggcgg
8 341 P 8 439 0 1.66e+00 caggcgcg
8 365 R 8 528 0 1.66e+00 tggcgggt
8 380 R 8 577 0 1.66e+00 tgcgcggc
8 393 F 8 510 0 1.66e+00 agcgcacg

Refseq NC_003295.1
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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