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Unformatted text preview: ATCCAT
ATCCGAT (delete last T) (delete last A) (insert A at front) (substitute C for 3rd G) (insert G before last A)
(Done) Note: Edit distance IS a distance
What properties does a distance function need to satisfy? Edit Distance: Example Edit Distance: Example (cont’d) TGCATAT ATCCGAT in 5 steps
TGCATAT ATCCGAT in 4 steps TGCATAT (delete last T)
TGCATA (delete last A)
TGCAT (insert A at front)
ATGCAT (substitute C for 3rd G)
ATCCAT (insert G before last A)
What is the edit distance? 5? TGCATAT (insert A at front)
ATGCATAT (delete 6th T)
ATGCATA (substitute G for 5th A)
ATGCGTA (substitute C for 3rd G)
(Done) Alignment as a Path in the Edit Graph 01
6 Alignment as a Path in the Edit Graph 7
7" - Corresponding path (0,0) , (1,1) , (2,2), (2,3),
(3,4), (4,5), (5,5), (6,6),
(7,6), (7,7) and
indels in v and w w ith
w ith score 1.
The score of the
alignment is 5. 9 Alignment as a Path in the Edi...
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This note was uploaded on 02/10/2014 for the course CS 548 taught by Professor Asaben-hur during the Spring '12 term at Colorado State.
- Spring '12