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Sequence Alignments In Bioinformatics Lecture by: Ms AQSAD RASHDA

Sequence Alignments In Bioinformatics Lecture by: Ms AQSAD RASHDA. Sequence Analysis. Comparative Analysis Sequence alignment Pairwise alignments Multiple alignments. THE EVOLUTIONARY BASIS OF SEQUENCE ALIGNMENT. Similarity Homology

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Sequence Alignments In Bioinformatics Lecture by: Ms AQSAD RASHDA

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  1. Sequence Alignments In BioinformaticsLecture by: Ms AQSAD RASHDA

  2. Sequence Analysis Comparative Analysis Sequence alignment Pairwise alignments Multiple alignments

  3. THE EVOLUTIONARY BASIS OF SEQUENCE ALIGNMENT Similarity Homology The changes: Substitutions, insertions, and deletions. Gaps

  4. Global alignment

  5. Local alignment

  6. Pairwise alignmentDot-matrix

  7. Filtered Dot Matrix

  8. Protein Dot Plots

  9. OPTIMAL ALIGNMENT METHODS Dynamic programming Needleman-Wunsch algorithm Smith-Waterman algorithm SIM algorithm: A program called lalign

  10. Needleman-Wunsch algorithm

  11. Smith-Waterman algorithm

  12. lalign Program

  13. SUBSTITUTION SCORES AND GAP PENALTIES Substitution matrix for proteins Isoleucine for valine Serine for threonine Alignment scores Point accepted mutation (PAM) model of evolution Background frequencies Substitution frequencies (target frequencies) in related proteins

  14. The PAM250 scoring matrix

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