Alignment with that between human and rat irgm

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Reference no: EM133968198

Question: On the detailed protein information page, you may use the FASTA link at the top of the page to get the sequences in the FASTA format. Compare the local alignment of these sequences under dynamic programming. You may use the SIM tool by ExPasy to align the sequences.

Note the effect of varying open and extended gap penalties on the alignment. Report the top-5 local alignment scores obtained using BLOSUM62 on the following pair of (open, extend) penalties: (12,12), (12,4), (12,1), (8,1), (4,1). Just write down the scores and the lengths of the alignments; you do not need to show the actual alignment. Get dependable, budget-friendly assignment help-starting today!

Which pair of (open, extended) penalties given in part (a) corresponds to the linear gap model?

Now align the human IRGM to chimpanzee IRGM (Accession: XP_527077.1) with the default parameters (BLOSUM62, Gap Open: 12, Gap Extend: 4).

Compare this alignment with that between human and rat IRGM (using same parameters) in terms of length and score. Are the conserved sites between humans and mice also conserved between humans and chimpanzees?

Reference no: EM133968198

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