348-f - sanjesh.org · 348f aug cap uag a. atg attgg (pairwise alignment) , jots pam 10 pam250(Ÿ...

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Page 1: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 2: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 3: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 4: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 5: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 6: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 7: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 8: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 9: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 10: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 11: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 12: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 13: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 14: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 15: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

Page 16: 348-F - sanjesh.org · 348F AUG CAP UAG a. ATG ATTGG (pairwise alignment) , Jots PAM 10 PAM250(Ÿ BLOSUM 62 BLOSUM 10 Gap penalty —.S k (alignment) (Gap) - Bit score (Y

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Sequence Alignment - DiUniTobotta/didattica/SequenceAlignment2006.pdf · Gap Penalty Models • Convex model – Each extra space contributes less penalty – Gap function is convex

PDF BLOSUM Scoring Matrices - Columbia University · identity in ungapped sequence alignment) •BLOSUM 62 is the default matrix ... •involved in unwinding and opening of DNA strands

Sequence Alignment - DiUniTobotta/didattica/SequenceAlignments.pdf · Gap Penalty Models • Convex model – Each extra space contributes less penalty – Gap function is convex

2 Pairwise alignment - Algorithms in Bioinformatics · 2 Pairwise alignment ... Bioinformatics I, WS’09-10, J. Fischer ... commonly used matrices are the PAM and BLOSUM matrices

THE ALIGNMENT-FOCUSED ORGANIZATIONhosteddocs.ittoolbox.com/235_the-alignmentfocused...THE ALIGNMENT-FOCUSED ORGANIZATION BRIDGING THE GAP BETWEEN STRATEGY AND EXECUTION SAP Thought

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BLOSUM Scoring Matrices - IITKhome.iitk.ac.in/~rsankar/courses/lec04.pdfDr. R. Sankar, BSE 633 (2020) BLOSUM Scoring Matrices Derived from UNGAPPED alignments Based on observed amino