Sequence alignments in bioinformatics lecture by ms aqsad rashda
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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

Sequence Alignments In BioinformaticsLecture by: Ms AQSAD RASHDA


Sequence analysis
Sequence Analysis

Comparative Analysis

Sequence alignment

Pairwise alignments

Multiple alignments


The evolutionary basis of sequence alignment
THE EVOLUTIONARY BASIS OF SEQUENCE ALIGNMENT

Similarity

Homology

The changes: Substitutions, insertions, and deletions.

Gaps







Optimal alignment methods
OPTIMAL ALIGNMENT METHODS

Dynamic programming

Needleman-Wunsch algorithm

Smith-Waterman algorithm

SIM algorithm: A program called lalign





Substitution scores and gap penalties
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



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