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REFERENCES

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2. Blattner, F. R.,, G. Plunkett,, C. A. Bloch,, N. T. Perna,, V. Burland,, M. Riley,, J. Collado-Vides,, J. D. Glasner,, C. K. Rode,, G. F. Mayhew,, J. Gregor,, N. W. Davis,, H. A. Kirkpatrick,, M. A. Goeden,, D. J. Rose,, B. Mau,, and Y. Shao. 1997. The complete genome sequence of Escherichia coli K-12. Science 277:14531474.
3. Brewer, B. J., 1990. Replication and the transcriptional organization of the Escherichia coli chromosome, p. 6184. In K. Drlica, and M. Riley (ed.), The Bacterial Chromosome. American Society for Microbiology, Washington, D.C.
4. Campbell, A. M. 1992. Chromosomal insertion sites for phages and plasmids. J. Bacteriol. 174:74957499.
5. Campbell, A. M. 2002. Preferential orientation of natural lambdoid prophages and bacterial chromosome organization. Theor. Popul. Biol. 61:503507.
6. Colbert, T.,, A. F. Taylor,, and G. P. Smith. 1998. Genomics, Chi sites and codons: ‘islands of preferred DNA pairing’ are oceans of ORFs. Trends Genet. 14:485488.
7. Francino, M. P.,, and H. Ochman. 1997. Strand asymmetries in DNA evolution. Trends Genet. 13:240245.
8. French, S. 1992. Consequences of replication fork movement through transcription units in vivo. Science 258:13621365.
9. Karlin, S.,, A. M. Campbell,, and J. Mrázek. 1998. Comparative DNA analysis across diverse genomes. Annu. Rev. Genet. 32:186226.
10. Lawrence, J. G.,, and H. Ochman. 1997. Amelioration of bacterial genomes: rates of change and exchange. J. Mol. Evol. 44:383397.
11. Liu, B.,, and B. M. Alberts. 1995. Head-on collision between a DNA replication apparatus and RNA polymerase transcription complex. Science 267:11311137.
12. Lobry, J. R. 1996. Asymmetric substitution patterns in the two DNA strands of bacteria. Mol. Biol. Evol. 13:660665.
13. VanBogelen, R. A.,, K. Z. Abshire,, A. Pertsemlidis,, R. L. Clark,, and F. C. Neidhardt,. 1996. Gene-protein database of Escherichia coli K-12, edition 6, p. 20672117. In F. C. Neidhardt,, R. Curtiss III,, J. L. Ingraham,, E. C. C. Lin,, K. B. Low,, B. Magasanik,, W. S. Reznikoff,, M. Riley,, M. Schaechter,, and H. E. Umbarger (ed.), Escherichia coli and Salmonella:Cellular and Molecular Biology, vol. 2. ASM Press, Washington D.C.
14. Yang, M. C.,, and R. Losick. 2001. Cytological evidence for association at the ends of the linear chromosome in Streptomyces coelicolor. J. Bacteriol. 183:51805186.

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