DoriC database

DoriC accession number ORI10010007
Organism Deinococcus radiodurans R1 chromosome 1
RefSeq NC_001263.1
Topology Circular
Lineage Bacteria, Deinococcus-Thermus, Deinococci, Deinococcales, Deinococcaceae, Deinococcus.
Chromosome size 2648638 nt
Chromosome GC content 0.6701
OriC length 721 nt
OriC AT content 0.516
The number of DnaA box 13
The location of oriC region 1183..1903 nt
The location of dnaA gene 1904..3268 nt
The extremes of GC disparity 2475800 nt (minimum), 1618526 nt (maximum)
Note -
OriC Sequence

cggccattctacgccgtttgcccggcagatttcaggggagaaaaccgcgtttaggacggcctttttggcaatggcatttgcagtagagggtttttgcagccaactcccgacTTATCCACAgaacTTATCCACAacctggggaaaacttcgtgctggacatgaaattgttctgagcttcgggtctggaatctgaagaacgatcagtcctgagacgcctcacgttggatctcaactcggaacctccttttggaattttccagagtcctttgtggaaggcccaaggtcacctggcctatctgttaactgttcttcttaaaaaataaaaacagtagtagcagtagtagggccTGTGGATACTGTGGAAAActcaccttgaagccgtcccagaggacaaaagTTTTCCACAgagggggTGTGGATAAccccgaaaacctgatggataagcTGTGGATAActtggggggTTATCCACAgggcatttttaggggcaagTTATCCACAattTTATCCACAggattttggcacTTATCCACAggATATCCACAggtTTTTCCACAgaaagtgaaaagtttcaccgccatttggaacgggattttggaacgtttcagcctatgacctaacttttgggggcataatctgcatacttccggcatctcattctcttcccagcataccaaactggcccaaaaaaggggcccttcgcccctcttggcccggcaacc

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.

13 413 P 13 459 0 2.18e-03 tgtggataacccc
13 445 P 13 487 0 2.18e-03 tgtggataacttg
13 503 F 13 524 0 2.18e-03 ttatccacaggat
15 504 F 15 536 -1 6.13e-03 tatccacagg[at]tttt
12 109 F 12 522 0 8.71e-03 acttatccacag
12 356 P 12 395 0 8.71e-03 ctgtggaaaact
11 109 F 11 122 0 3.49e-02 acttatccaca
11 122 F 11 522 0 3.49e-02 acttatccaca
11 315 R 11 315 0 3.49e-02 aaaaataaaaa
11 397 F 11 547 0 3.49e-02 ttttccacaga
11 444 P 11 462 0 3.49e-02 ctgtggataac
11 463 F 11 524 0 3.49e-02 ttatccacagg
11 463 F 11 503 0 3.49e-02 ttatccacagg
13 121 F 13 488 -1 8.50e-02 aa[cg]ttatccacaa
13 135 P 13 394 -1 8.50e-02 ctg[gt]ggaaaactt
13 394 P 13 444 -1 8.50e-02 aagtt[ta]tccacag
13 461 F 13 533 -1 8.50e-02 gg[ta]tatccacagg
10 111 F 10 463 0 1.39e-01 ttatccacag
10 111 F 10 503 0 1.39e-01 ttatccacag
10 111 P 10 444 0 1.39e-01 ttatccacag
10 346 P 10 464 0 1.39e-01 cctgtggata
10 346 P 10 504 0 1.39e-01 cctgtggata
10 346 P 10 525 0 1.39e-01 cctgtggata
10 346 P 10 536 0 1.39e-01 cctgtggata
10 356 P 10 547 0 1.39e-01 ctgtggaaaa
10 413 F 10 445 0 1.39e-01 tgtggataac
10 413 P 10 490 0 1.39e-01 tgtggataac
10 444 P 10 503 0 1.39e-01 ctgtggataa
10 444 P 10 524 0 1.39e-01 ctgtggataa
10 455 R 10 455 0 1.39e-01 ttggggggtt
10 462 F 10 490 0 1.39e-01 gttatccaca
10 525 F 10 536 0 1.39e-01 tatccacagg
12 34 R 12 682 -1 3.14e-01 gggga[ga]aaaacc
12 111 F 12 547 -1 3.14e-01 tt[at]tccacagaa
12 121 P 12 445 -1 3.14e-01 aa[cg]ttatccaca
12 124 P 12 410 -1 3.14e-01 ttatccaca[ac]cc
12 135 F 12 356 -1 3.14e-01 ctg[gt]ggaaaact
12 356 F 12 444 -1 3.14e-01 ctgtgga[at]aact
12 394 F 12 488 -1 3.14e-01 aagtt[ta]tccaca
12 441 P 12 536 -1 3.14e-01 aa[gc]ctgtggata
12 509 F 12 585 -1 3.14e-01 ac[ag]ggattttgg
9 13 R 9 13 0 5.58e-01 ccgtttgcc
9 59 R 9 544 0 5.58e-01 cctttttgg
9 111 F 9 491 0 5.58e-01 ttatccaca
9 111 P 9 413 0 5.58e-01 ttatccaca
9 112 F 9 536 0 5.58e-01 tatccacag
9 112 P 9 347 0 5.58e-01 tatccacag
9 124 F 9 463 0 5.58e-01 ttatccaca
9 124 F 9 503 0 5.58e-01 ttatccaca
9 139 P 9 394 0 5.58e-01 ggaaaactt

Refseq NC_001263.1
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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