Heuristic Local Alignerers 1.The basic indexing & extension technique 2.Indexing: techniques to improve sensitivity Pairs of Words, Patterns 3.Systems.
Sequence Similarity. The Viterbi algorithm for alignment Compute the following matrices (DP) M(i, j):most likely alignment of x 1 …x i with y 1 …y j.
Evolution at the DNA level …ACGGTGCAGTTACCA… …AC----CAGTCCACCA… Mutation SEQUENCE EDITS REARRANGEMENTS Deletion Inversion Translocation Duplication.
CS273a Lecture 8, Win07, Batzoglou Evolution at the DNA level …ACGGTGCAGTTACCA… …AC----CAGTCCACCA… Mutation SEQUENCE EDITS REARRANGEMENTS Deletion Inversion.
CS273a Lecture 11, Aut 08, Batzoglou Multiple Sequence Alignment.
Some new sequencing technologies. Molecular Inversion Probes.
CS273a Lecture 10, Aut 08, Batzoglou Multiple Sequence Alignment.
CS273a Lecture 9/10, Aut 10, Batzoglou Multiple Sequence Alignment.
CS 5263 Bioinformatics
Sequence Similarity
Sequence Alignment Cont’d
