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Title Center for Biological Sequence Analysis The Technical University of Denmark DTU Part 3: DNA Repeats In Bacterial Genomes Comparative Microbial Genomics.

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Presentation on theme: "Title Center for Biological Sequence Analysis The Technical University of Denmark DTU Part 3: DNA Repeats In Bacterial Genomes Comparative Microbial Genomics."— Presentation transcript:

1 title Center for Biological Sequence Analysis The Technical University of Denmark DTU Part 3: DNA Repeats In Bacterial Genomes Comparative Microbial Genomics Group Dave Ussery Advanced Bioinformatics course lecture 14 November, 2003

2 Outline Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU Outline DNA Repeats in Bacterial Genomes Introduction Global Repeats Local Repeats Cruciforms

3 DNA info? Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU The DNA sequence contains information. But what kind of information?

4 Alternative structures Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

5 Repeats defined Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU CHRO2003 DNA Symmetry Elements Defined What are symmetry elements? REPEATS in DNA Sequences Direct repeats 5’ GGGAATNNGGGAAT 3’ 3’ CCCTTANNCCCTTA 5’ Inverted repeats 5’ GGGAATNNATTCCC 3’ 3’ CCCTTANNTAAGGG 5’

6 Ecoli Genome Atlas Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

7 Ecoli repeats atlas Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

8 Ecoli pO157 Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

9 pX01 cruci - cover Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

10 pVir genome Atlas Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU CHRO2003

11 pWR501 Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

12 pCP301 Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

13 Repeats table Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

14 Direct Repeats Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

15 Inverted Repeats Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

16 Mirror Repeats Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

17 Everted Repeats Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

18 4 Summary Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU

19 Summary 1. DNA sequence  DNA structure  Function summary Comparative Microbial Genomics Group Center for Biological Sequence Analysis The Technical University of Denmark DTU 2. Where you are in the chromosome is important!

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