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 (98)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Comeron, J. M.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Comeron, J. M.
Social Bookmarking
 Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Bioinformatics, Vol 15, 763-764, Copyright © 1999 by Oxford University Press


ARTICLES

K-Estimator: calculation of the number of nucleotide substitutions per site and the confidence intervals

JM Comeron
Department of Ecology and Evolution, University of Chicago, 1101 East 57th Street, Chicago, IL 60637, USA.

SUMMARY: K-Estimator 4.5 is a Windows program that estimates the number of nucleotide substitutions per site (divergence) when comparing two aligned nucleotide sequences, both protein-coding and non-coding. Confidence intervals of the divergence estimates are obtained by Monte Carlo simulation. AVAILABILITY: The program is available for non-profit use via anonymous ftp at ftp.bio.indiana. edu/molbio/mswin. CONTACT: jcomeron@midway.uchicago.edu
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
Mol Biol EvolHome page
Y. Zhao and R. J. Epstein
Programmed Genetic Instability: A Tumor-Permissive Mechanism for Maintaining the Evolvability of Higher Species through Methylation-Dependent Mutation of DNA Repair Genes in the Male Germ Line
Mol. Biol. Evol., August 1, 2008; 25(8): 1737 - 1749.
[Abstract] [Full Text] [PDF]


Home page
J. Virol.Home page
J. Jorba, R. Campagnoli, L. De, and O. Kew
Calibration of Multiple Poliovirus Molecular Clocks Covering an Extended Evolutionary Range
J. Virol., May 1, 2008; 82(9): 4429 - 4440.
[Abstract] [Full Text] [PDF]


Home page
Antimicrob. Agents Chemother.Home page
C. Revilla, M. P. Garcillan-Barcia, R. Fernandez-Lopez, N. R. Thomson, M. Sanders, M. Cheung, C. M. Thomas, and F. de la Cruz
Different Pathways to Acquiring Resistance Genes Illustrated by the Recent Evolution of IncW Plasmids
Antimicrob. Agents Chemother., April 1, 2008; 52(4): 1472 - 1480.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
E. G. Bakker, M. B. Traw, C. Toomajian, M. Kreitman, and J. Bergelson
Low Levels of Polymorphism in Genes That Control the Activation of Defense Response in Arabidopsis thaliana
Genetics, April 1, 2008; 178(4): 2031 - 2043.
[Abstract] [Full Text] [PDF]


Home page
MycologiaHome page
A. Chandra and D. R. Huff
Salmacisia, a new genus of Tilletiales: reclassification of Tilletia buchloeana causing induced hermaphroditism in buffalograss.
Mycologia, January 1, 2008; 100(1): 81 - 93.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
C. Casola, D. Hucks, and C. Feschotte
Convergent Domestication of pogo-like Transposases into Centromere-Binding Proteins in Fission Yeast and Mammals
Mol. Biol. Evol., January 1, 2008; 25(1): 29 - 41.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
A. G. Koziol and D. G. Durnford
Euglena Light-Harvesting Complexes Are Encoded by Multifarious Polyprotein mRNAs that Evolve in Concert
Mol. Biol. Evol., January 1, 2008; 25(1): 92 - 100.
[Abstract] [Full Text] [PDF]


Home page
Plant CellHome page
Z. Hua, X. Meng, and T.-h. Kao
Comparison of Petunia inflata S-Locus F-Box Protein (Pi SLF) with Pi SLF Like Proteins Reveals Its Unique Function in S-RNase Based Self-Incompatibility
PLANT CELL, November 1, 2007; 19(11): 3593 - 3609.
[Abstract] [Full Text] [PDF]


Home page
MicrobiologyHome page
W. Wang, A. V. Perepelov, L. Feng, S. D. Shevelev, Q. Wang, S. N. Senchenkova, W. Han, Y. Li, A. S. Shashkov, Y. A. Knirel, et al.
A group of Escherichia coli and Salmonella enterica O antigens sharing a common backbone structure
Microbiology, July 1, 2007; 153(7): 2159 - 2167.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
J. Flowers, E Sezgin, S Kumagai, D. Duvernell, L. Matzkin, P. Schmidt, and W. Eanes
Adaptive Evolution of Metabolic Pathways in Drosophila
Mol. Biol. Evol., June 1, 2007; 24(6): 1347 - 1354.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
S. L. Sawyer and H. S. Malik
Eukaryotic Transposable Elements and Genome Evolution Special Feature: Positive selection of yeast nonhomologous end-joining genes and a retrotransposon conflict hypothesis
PNAS, November 21, 2006; 103(47): 17614 - 17619.
[Abstract] [Full Text] [PDF]


Home page
J. Gen. Virol.Home page
W. Ren, W. Li, M. Yu, P. Hao, Y. Zhang, P. Zhou, S. Zhang, G. Zhao, Y. Zhong, S. Wang, et al.
Full-length genome sequences of two SARS-like coronaviruses in horseshoe bats and genetic variation analysis.
J. Gen. Virol., November 1, 2006; 87(Pt 11): 3355 - 3359.
[Abstract] [Full Text] [PDF]


Home page
Plant Physiol.Home page
X. Yang, G. A. Tuskan, and Z.-M. Cheng
Divergence of the Dof Gene Families in Poplar, Arabidopsis, and Rice Suggests Multiple Modes of Gene Evolution after Duplication
Plant Physiology, November 1, 2006; 142(3): 820 - 830.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
M. L. Federico, F. L. Iniguez-Luy, R. W. Skadsen, and H. F. Kaeppler
Spatial and Temporal Divergence of Expression in Duplicated Barley Germin-Like Protein-Encoding Genes
Genetics, September 1, 2006; 174(1): 179 - 190.
[Abstract] [Full Text] [PDF]


Home page
Plant CellHome page
C. J. Ridout, P. Skamnioti, O. Porritt, S. Sacristan, J. D.G. Jones, and J. K.M. Brown
Multiple Avirulence Paralogues in Cereal Powdery Mildew Fungi May Contribute to Parasite Fitness and Defeat of Plant Resistance
PLANT CELL, September 1, 2006; 18(9): 2402 - 2414.
[Abstract] [Full Text] [PDF]


Home page
Plant CellHome page
E. G. Bakker, C. Toomajian, M. Kreitman, and J. Bergelson
A Genome-Wide Survey of R Gene Polymorphisms in Arabidopsis
PLANT CELL, August 1, 2006; 18(8): 1803 - 1818.
[Abstract] [Full Text] [PDF]


Home page
Genome ResHome page
G. He, X. Luo, F. Tian, K. Li, Z. Zhu, W. Su, X. Qian, Y. Fu, X. Wang, C. Sun, et al.
Haplotype variation in structure and expression of a gene cluster associated with a quantitative trait locus for improved yield in rice
Genome Res., May 1, 2006; 16(5): 618 - 626.
[Abstract] [Full Text] [PDF]


Home page
J. Bacteriol.Home page
E. Weber and R. Koebnik
Positive Selection of the Hrp Pilin HrpE of the Plant Pathogen Xanthomonas
J. Bacteriol., February 15, 2006; 188(4): 1405 - 1410.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
C. E. Vallejos, G. Astua-Monge, V. Jones, T. R. Plyler, N. S. Sakiyama, and S. A. Mackenzie
Genetic and Molecular Characterization of the I Locus of Phaseolus vulgaris
Genetics, February 1, 2006; 172(2): 1229 - 1242.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
J. M. Comeron and T. B. Guthrie
Intragenic Hill-Robertson Interference Influences Selection Intensity on Synonymous Mutations in Drosophila
Mol. Biol. Evol., December 1, 2005; 22(12): 2519 - 2530.
[Abstract] [Full Text] [PDF]


Home page
Genes Dev.Home page
S. Heeger, O. Leismann, R. Schittenhelm, O. Schraidt, S. Heidmann, and C. F. Lehner
Genetic interactions of separase regulatory subunits reveal the diverged Drosophila Cenp-C homolog
Genes & Dev., September 1, 2005; 19(17): 2041 - 2053.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
A. Llopart, D. Lachaise, and J. A. Coyne
Multilocus Analysis of Introgression Between Two Sympatric Sister Species of Drosophila: Drosophila yakuba and D. santomea
Genetics, September 1, 2005; 171(1): 197 - 210.
[Abstract] [Full Text] [PDF]


Home page
Plant Physiol.Home page
Y. Zhang, Y. Wu, Y. Liu, and B. Han
Computational Identification of 69 Retroposons in Arabidopsis
Plant Physiology, June 1, 2005; 138(2): 935 - 948.
[Abstract] [Full Text] [PDF]


Home page
J. Gen. Virol.Home page
A. Narechania, M. Terai, and R. D. Burk
Overlapping reading frames in closely related human papillomaviruses result in modular rates of selection within E2
J. Gen. Virol., May 1, 2005; 86(5): 1307 - 1313.
[Abstract] [Full Text] [PDF]


Home page
J. Biol. Chem.Home page
S. L. Smits, G. J. Gerwig, A. L. W. van Vliet, A. Lissenberg, P. Briza, J. P. Kamerling, R. Vlasak, and R. J. de Groot
Nidovirus Sialate-O-Acetylesterases: EVOLUTION AND SUBSTRATE SPECIFICITY OF CORONAVIRAL AND TOROVIRAL RECEPTOR-DESTROYING ENZYMES
J. Biol. Chem., February 25, 2005; 280(8): 6933 - 6941.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
S. L. Sawyer, L. I. Wu, M. Emerman, and H. S. Malik
Positive selection of primate TRIM5{alpha} identifies a critical species-specific retroviral restriction domain
PNAS, February 22, 2005; 102(8): 2832 - 2837.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
L. Liu, T. Wilson, and J. W. Hastings
Molecular evolution of dinoflagellate luciferases, enzymes with three catalytic domains in a single polypeptide
PNAS, November 23, 2004; 101(47): 16555 - 16560.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
J. L. Cooper and S. Henikoff
Adaptive Evolution of the Histone Fold Domain in Centromeric Histones
Mol. Biol. Evol., September 1, 2004; 21(9): 1712 - 1718.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
D. O. F. Skibinski and R. D. Ward
Average Allozyme Heterozygosity in Vertebrates Correlates with Ka/Ks Measured in the Human-Mouse Lineage
Mol. Biol. Evol., September 1, 2004; 21(9): 1753 - 1759.
[Abstract] [Full Text] [PDF]


Home page
Plant Physiol.Home page
R. D'Ovidio, A. Raiola, C. Capodicasa, A. Devoto, D. Pontiggia, S. Roberti, R. Galletti, E. Conti, D. O'Sullivan, and G. De Lorenzo
Characterization of the Complex Locus of Bean Encoding Polygalacturonase-Inhibiting Proteins Reveals Subfunctionalization for Defense against Fungi and Insects
Plant Physiology, August 1, 2004; 135(4): 2424 - 2435.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
D. Lindell, M. B. Sullivan, Z. I. Johnson, A. C. Tolonen, F. Rohwer, and S. W. Chisholm
Transfer of photosynthesis genes to and from Prochlorococcus viruses
PNAS, July 27, 2004; 101(30): 11013 - 11018.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
M. Hasselmann and M. Beye
Signatures of selection among sex-determining alleles of the honey bee
PNAS, April 6, 2004; 101(14): 4888 - 4893.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
A. Fiebig, R. Kimport, and D. Preuss
Comparisons of pollen coat genes across Brassicaceae species reveal rapid evolution by repeat expansion and diversification
PNAS, March 2, 2004; 101(9): 3286 - 3291.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
J. R. Reichman, T. P. Wilcox, and P. D. Vize
PCP Gene Family in Symbiodinium from Hippopus hippopus: Low Levels of Concerted Evolution, Isoform Diversity, and Spectral Tuning of Chromophores
Mol. Biol. Evol., December 1, 2003; 20(12): 2143 - 2154.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
L. A. Sheldahl, D. M. Weinreich, and D. M. Rand
Recombination, Dominance and Selection on Amino Acid Polymorphism in the Drosophila Genome: Contrasting Patterns on the X and Fourth Chromosomes
Genetics, November 1, 2003; 165(3): 1195 - 1208.
[Abstract] [Full Text] [PDF]


Home page
J. Virol.Home page
S. L. Smits, A. Lavazza, K. Matiz, M. C. Horzinek, M. P. Koopmans, and R. J. de Groot
Phylogenetic and Evolutionary Relationships among Torovirus Field Variants: Evidence for Multiple Intertypic Recombination Events
J. Virol., September 1, 2003; 77(17): 9567 - 9577.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
T. Gubitz, A. Caldwell, and A. Hudson
Rapid Molecular Evolution of CYCLOIDEA-like Genes in Antirrhinum and Its Relatives
Mol. Biol. Evol., September 1, 2003; 20(9): 1537 - 1544.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
J. Shi, H. Xi, Y. Wang, C. Zhang, Z. Jiang, K. Zhang, Y. Shen, L. Jin, K. Zhang, W. Yuan, et al.
Divergence of the genes on human chromosome 21 between human and other hominoids and variation of substitution rates among transcription units
PNAS, July 8, 2003; 100(14): 8331 - 8336.
[Abstract] [Full Text] [PDF]


Home page
Hum Mol GenetHome page
E. Y. Xu, D. F. Lee, A. Klebes, P. J. Turek, T. B. Kornberg, and R. A. Reijo Pera
Human BOULE gene rescues meiotic defects in infertile flies
Hum. Mol. Genet., January 15, 2003; 12(2): 169 - 175.
[Abstract] [Full Text] [PDF]


Home page
Genome ResHome page
E. Betran, K. Thornton, and M. Long
Retroposed New Genes Out of the X in Drosophila
Genome Res., December 1, 2002; 12(12): 1854 - 1859.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
S. I. Wright, B. Lauga, and D. Charlesworth
Rates and Patterns of Molecular Evolution in Inbred and Outbred Arabidopsis
Mol. Biol. Evol., September 1, 2002; 19(9): 1407 - 1420.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
C. Toomajian and M. Kreitman
Sequence Variation and Haplotype Structure at the Human HFE Locus
Genetics, August 1, 2002; 161(4): 1609 - 1623.
[Abstract] [Full Text] [PDF]


Home page
Plant CellHome page
P. B. Talbert, R. Masuelli, A. P. Tyagi, L. Comai, and S. Henikoff
Centromeric Localization and Adaptive Evolution of an Arabidopsis Histone H3 Variant
PLANT CELL, May 1, 2002; 14(5): 1053 - 1066.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
S. N. Avedisov, I. B. Rogozin, E. V. Koonin, and B. J. Thomas
Rapid Evolution of a Cyclin A Inhibitor Gene, roughex, in Drosophila
Mol. Biol. Evol., November 1, 2001; 18(11): 2110 - 2118.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
M. A. Jensen, H. L. True, Y. O. Chernoff, and S. Lindquist
Molecular Population Genetics and Evolution of a Prion-like Protein in Saccharomyces cerevisiae
Genetics, October 1, 2001; 159(2): 527 - 535.
[Abstract] [Full Text] [PDF]


Home page
GeneticsHome page
S. Yi and B. Charlesworth
A Selective Sweep Associated With a Recent Gene Transposition in Drosophila miranda
Genetics, December 1, 2000; 156(4): 1753 - 1763.
[Abstract] [Full Text]


Home page
GeneticsHome page
J. M. Comeron and M. Kreitman
The Correlation Between Intron Length and Recombination in Drosophila: Dynamic Equilibrium Between Mutational and Selective Forces
Genetics, November 1, 2000; 156(3): 1175 - 1190.
[Abstract] [Full Text]


Home page
GeneticsHome page
A. Llopart and M. Aguadé
Nucleotide Polymorphism at the RpII215 Gene in Drosophila subobscura: Weak Selection on Synonymous Mutations
Genetics, July 1, 2000; 155(3): 1245 - 1252.
[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.