Skip Navigation

This Article
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (107)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Kurtz, S.
Right arrow Articles by Schleiermacher, C.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Kurtz, S.
Right arrow Articles by Schleiermacher, C.
Social Bookmarking
 Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Bioinformatics, Vol 15, 426-427, Copyright © 1999 by Oxford University Press


ARTICLES

REPuter: fast computation of maximal repeats in complete genomes

S Kurtz and C Schleiermacher
Technische Fakultat, Universitat Bielefeld, Postfach 10 01 31, D-33501 Bielefeld, Germany. kurtz.icschlei@techfak.uni-bielefeld.de

SUMMARY: A software tool was implemented that computes exact repeats and palindromes in entire genomes very efficiently. AVAILABILITY: Via the Bielefeld Bioinformatics Server (http://bibiserv.techfak.uni- bielefeld.de/rep uter/).
Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
J. Virol.Home page
P. Gayral, J.-C. Noa-Carrazana, M. Lescot, F. Lheureux, B. E. L. Lockhart, T. Matsumoto, P. Piffanelli, and M.-L. Iskra-Caruana
A Single Banana Streak Virus Integration Event in the Banana Genome as the Origin of Infectious Endogenous Pararetrovirus
J. Virol., July 1, 2008; 82(13): 6697 - 6710.
[Abstract] [Full Text] [PDF]


Home page
BioinformaticsHome page
A.-L. Abraham, E. P. C. Rocha, and J. Pothier
Swelfe: a detector of internal repeats in sequences and structures
Bioinformatics, July 1, 2008; 24(13): 1536 - 1537.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
M. Thomas-Chollier, O. Sand, J.-V. Turatsinze, R. Janky, M. Defrance, E. Vervisch, S. Brohee, and J. van Helden
RSAT: regulatory sequence analysis tools
Nucleic Acids Res., July 1, 2008; 36(suppl_2): W119 - W127.
[Abstract] [Full Text] [PDF]


Home page
Brief BioinformHome page
C. M. Bergman and H. Quesneville
Discovering and detecting transposable elements in genome sequences
Brief Bioinform, November 1, 2007; 8(6): 382 - 392.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
N.-H. Cho, H.-R. Kim, J.-H. Lee, S.-Y. Kim, J. Kim, S. Cha, S.-Y. Kim, A. C. Darby, H.-H. Fuxelius, J. Yin, et al.
The Orientia tsutsugamushi genome reveals massive proliferation of conjugative type IV secretion system and host cell interaction genes
PNAS, May 8, 2007; 104(19): 7981 - 7986.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
C.-H. Chang, Y.-C. Chang, A. Underwood, C.-S. Chiou, and C.-Y. Kao
VNTRDB: a bacterial variable number tandem repeat locus database
Nucleic Acids Res., January 12, 2007; 35(suppl_1): D416 - D421.
[Abstract] [Full Text] [PDF]


Home page
BioinformaticsHome page
G. Achaz, F. Boyer, E. P. C. Rocha, A. Viari, and E. Coissac
Repseek, a tool to retrieve approximate repeats from large DNA sequences
Bioinformatics, January 1, 2007; 23(1): 119 - 121.
[Abstract] [Full Text] [PDF]


Home page
BioinformaticsHome page
X. Li and T. Kahveci
A Novel algorithm for identifying low-complexity regions in a protein sequence
Bioinformatics, December 15, 2006; 22(24): 2980 - 2987.
[Abstract] [Full Text] [PDF]


Home page
FASEB J.Home page
J. M. Kang, N. M. Iovine, and M. J. Blaser
A paradigm for direct stress-induced mutation in prokaryotes
FASEB J, December 1, 2006; 20(14): 2476 - 2485.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
T. W. Chumley, J. D. Palmer, J. P. Mower, H. M. Fourcade, P. J. Calie, J. L. Boore, and R. K. Jansen
The Complete Chloroplast Genome Sequence of Pelargonium x hortorum: Organization and Evolution of the Largest and Most Highly Rearranged Chloroplast Genome of Land Plants
Mol. Biol. Evol., November 1, 2006; 23(11): 2175 - 2190.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
S. B. Cannon, L. Sterck, S. Rombauts, S. Sato, F. Cheung, J. Gouzy, X. Wang, J. Mudge, J. Vasdewani, T. Schiex, et al.
Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes
PNAS, October 3, 2006; 103(40): 14959 - 14964.
[Abstract] [Full Text] [PDF]


Home page
J. Bacteriol.Home page
J. H. Badger, T. R. Hoover, Y. V. Brun, R. M. Weiner, M. T. Laub, G. Alexandre, J. Mrazek, Q. Ren, I. T. Paulsen, K. E. Nelson, et al.
Comparative Genomic Evidence for a Close Relationship between the Dimorphic Prosthecate Bacteria Hyphomonas neptunium and Caulobacter crescentus.
J. Bacteriol., October 1, 2006; 188(19): 6841 - 6850.
[Abstract] [Full Text] [PDF]


Home page
J. Gen. Virol.Home page
S. R. Escasa, H. A. M. Lauzon, A. C. Mathur, P. J. Krell, and B. M. Arif
Sequence analysis of the Choristoneura occidentalis granulovirus genome
J. Gen. Virol., July 1, 2006; 87(7): 1917 - 1933.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
A. Fire, R. Alcazar, and F. Tan
Unusual DNA Structures Associated With Germline Genetic Activity in Caenorhabditis elegans
Genetics, July 1, 2006; 173(3): 1259 - 1273.
[Abstract] [Full Text] [PDF]


Home page
Journal of Information ScienceHome page
J.-I. Won, S. Park, J.-H. Yoon, and S.-W. Kim
An efficient approach for sequence matching in large DNA databases
Journal of Information Science, February 1, 2006; 32(1): 88 - 104.
[Abstract] [PDF]


Home page
BioinformaticsHome page
J. Nicolas, P. Durand, G. Ranchy, S. Tempel, and A.-S. Valin
Suffix-tree analyser (STAN): looking for nucleotidic and peptidic patterns in chromosomes
Bioinformatics, December 15, 2005; 21(24): 4408 - 4410.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
E. Altermann, W. M. Russell, M. A. Azcarate-Peril, R. Barrangou, B. L. Buck, O. McAuliffe, N. Souther, A. Dobson, T. Duong, M. Callanan, et al.
Inaugural Article: From the Cover: Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM
PNAS, March 15, 2005; 102(11): 3906 - 3912.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
Y. Zhang and M. S. Waterman
An Eulerian path approach to local multiple alignment for DNA sequences
PNAS, February 1, 2005; 102(5): 1285 - 1290.
[Abstract] [Full Text] [PDF]


Home page
J. Bacteriol.Home page
F. C. Minion, E. J. Lefkowitz, M. L. Madsen, B. J. Cleary, S. M. Swartzell, and G. G. Mahairas
The Genome Sequence of Mycoplasma hyopneumoniae Strain 232, the Agent of Swine Mycoplasmosis
J. Bacteriol., November 1, 2004; 186(21): 7123 - 7133.
[Abstract] [Full Text] [PDF]


Home page
J. Bacteriol.Home page
A. Johansson, J. Farlow, P. Larsson, M. Dukerich, E. Chambers, M. Bystrom, J. Fox, M. Chu, M. Forsman, A. Sjostedt, et al.
Worldwide Genetic Relationships among Francisella tularensis Isolates Determined by Multiple-Locus Variable-Number Tandem Repeat Analysis
J. Bacteriol., September 1, 2004; 186(17): 5808 - 5818.
[Abstract] [Full Text] [PDF]


Home page
Genome ResHome page
M. Pop, D. S. Kosack, and S. L. Salzberg
Hierarchical Scaffolding With Bambus
Genome Res., January 1, 2004; 14(1): 149 - 159.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
V. Gotea, V. Veeramachaneni, and W. Makalowski
Mastering seeds for genomic size nucleotide BLAST searches
Nucleic Acids Res., December 1, 2003; 31(23): 6935 - 6941.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
R. A. Aras, J. Kang, A. I. Tschumi, Y. Harasaki, and M. J. Blaser
Extensive repetitive DNA facilitates prokaryotic genome plasticity
PNAS, November 11, 2003; 100(23): 13579 - 13584.
[Abstract] [Full Text] [PDF]


Home page
Genome ResHome page
J. Healy, E. E. Thomas, J. T. Schwartz, and M. Wigler
Annotating Large Genomes With Exact Word Matches
Genome Res., October 1, 2003; 13(10): 2306 - 2315.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
G. Achaz, E. Coissac, P. Netter, and E. P. C. Rocha
Associations Between Inverted Repeats and the Structural Evolution of Bacterial Genomes
Genetics, August 1, 2003; 164(4): 1279 - 1289.
[Abstract] [Full Text] [PDF]


Home page
Plant CellHome page
M. Turmel, C. Otis, and C. Lemieux
The Mitochondrial Genome of Chara vulgaris: Insights into the Mitochondrial DNA Architecture of the Last Common Ancestor of Green Algae and Land Plants
PLANT CELL, August 1, 2003; 15(8): 1888 - 1903.
[Abstract] [Full Text] [PDF]


Home page
Genome ResHome page
E. P.C. Rocha
An Appraisal of the Potential for Illegitimate Recombination in Bacterial Genomes and Its Consequences: From Duplications to Genome Reduction
Genome Res., June 1, 2003; 13(6): 1123 - 1132.
[Abstract] [Full Text] [PDF]


Home page
Plant Physiol.Home page
R. J. M. Hulzink, H. Weerdesteyn, A. F. Croes, T. Gerats, M. M. A. van Herpen, and J. van Helden
In Silico Identification of Putative Regulatory Sequence Elements in the 5'-Untranslated Region of Genes That Are Expressed during Male Gametogenesis
Plant Physiology, May 1, 2003; 132(1): 75 - 83.
[Abstract] [Full Text] [PDF]


Home page
J. Clin. Microbiol.Home page
R. Thomas, A. Johansson, B. Neeson, K. Isherwood, A. Sjostedt, J. Ellis, and R. W. Titball
Discrimination of Human Pathogenic Subspecies of Francisella tularensis by Using Restriction Fragment Length Polymorphism
J. Clin. Microbiol., January 1, 2003; 41(1): 50 - 57.
[Abstract] [Full Text] [PDF]


Home page
Genome ResHome page
K. Vandepoele, Y. Saeys, C. Simillion, J. Raes, and Y. Van de Peer
The Automatic Detection of Homologous Regions (ADHoRe) and Its Application to Microcolinearity Between Arabidopsis and Rice
Genome Res., November 1, 2002; 12(11): 1792 - 1801.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
E. P. C. Rocha, O. Pradillon, H. Bui, C. Sayada, and E. Denamur
A new family of highly variable proteins in the Chlamydophila pneumoniae genome
Nucleic Acids Res., October 15, 2002; 30(20): 4351 - 4360.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
G. Achaz, E. P. C. Rocha, P. Netter, and E. Coissac
Origin and fate of repeats in bacteria
Nucleic Acids Res., July 1, 2002; 30(13): 2987 - 2994.
[Abstract] [Full Text] [PDF]


Home page
MicrobiologyHome page
A. Tauch, S. Schneiker, W. Selbitschka, A. Puhler, L. S. van Overbeek, K. Smalla, C. M. Thomas, M. J. Bailey, L. J. Forney, A. Weightman, et al.
The complete nucleotide sequence and environmental distribution of the cryptic, conjugative, broad-host-range plasmid pIPO2 isolated from bacteria of the wheat rhizosphere
Microbiology, June 1, 2002; 148(6): 1637 - 1653.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
E. P. C. Rocha, I. Matic, and F. Taddei
Over-representation of repeats in stress response genes: a strategy to increase versatility under stressful conditions?
Nucleic Acids Res., May 1, 2002; 30(9): 1886 - 1894.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
E. P. C. Rocha and A. Blanchard
Genomic repeats, genome plasticity and the dynamics of Mycoplasma evolution
Nucleic Acids Res., May 1, 2002; 30(9): 2031 - 2042.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
S. Schneiker, M. Keller, M. Droge, E. Lanka, A. Puhler, and W. Selbitschka
The genetic organization and evolution of the broad host range mercury resistance plasmid pSB102 isolated from a microbial population residing in the rhizosphere of alfalfa
Nucleic Acids Res., December 15, 2001; 29(24): 5169 - 5181.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
G. Achaz, P. Netter, and E. Coissac
Study of Intrachromosomal Duplications Among the Eukaryote Genomes
Mol. Biol. Evol., December 1, 2001; 18(12): 2280 - 2288.
[Abstract] [Full Text] [PDF]


Home page
Nucleic Acids ResHome page
S. Kurtz, J. V. Choudhuri, E. Ohlebusch, C. Schleiermacher, J. Stoye, and R. Giegerich
REPuter: the manifold applications of repeat analysis on a genomic scale
Nucleic Acids Res., November 15, 2001; 29(22): 4633 - 4642.
[Abstract] [Full Text] [PDF]


Home page
J. Clin. Microbiol.Home page
A. Johansson, I. Goransson, P. Larsson, and A. Sjostedt
Extensive Allelic Variation among Francisella tularensis Strains in a Short-Sequence Tandem Repeat Region
J. Clin. Microbiol., September 1, 2001; 39(9): 3140 - 3146.
[Abstract] [Full Text] [PDF]


Home page
Plant Physiol.Home page
Q. Yuan, J. Quackenbush, R. Sultana, M. Pertea, S. L. Salzberg, and C. R. Buell
Rice Bioinformatics. Analysis of Rice Sequence Data and Leveraging the Data to Other Plant Species
Plant Physiology, March 1, 2001; 125(3): 1166 - 1174.
[Abstract] [Full Text]


Home page
Genome ResHome page
M. G. Reese, G. Hartzell, N. L. Harris, U. Ohler, J. F. Abril, and S. E. Lewis
Genome Annotation Assessment in Drosophila melanogaster
Genome Res., April 1, 2000; 10(4): 483 - 501.
[Abstract] [Full Text]


Home page
Genome ResHome page
T. Gaasterland, A. Sczyrba, E. Thomas, G. Aytekin-Kurban, P. Gordon, and C. W. Sensen
MAGPIE/EGRET Annotation of the 2.9-Mb Drosophila melanogaster Adh Region
Genome Res., April 1, 2000; 10(4): 502 - 510.
[Abstract] [Full Text]



Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.