Hello Everyone,
I face trouble when I align forward and reverse sequences in BioEdit. When I give the command of Pairwise alignment, software creates the alignment, but in aligned sequence, some portions show protein letters like W, Y etc. instead of nucleic acid bases. How can I get rid of this.
Thank you
Haven't used BioEdit in ages but perhaps the program is simply using the IUPAC codes for degenerate bases? W=A/T S=C/G, M=A/C, K=G/T, R=A/G, Y=C/T
Hope it helps!
Hi Izzah,
As Alejandro said, these are the Wobbles (degenerate bases).
So you can act as below:
The universal codes for specifying a wobble are: R = A/G, Y = C/T, M = A/C, K = G/T, S = C/G, W = A/T, B = C/G/T, D = A/G/T, H = A/C/T, V = A/C/G, and N = A/C/G/T.
Good luck
Can anyone tell what 'X' depicts in multiple sequence alignment using bioedit?
- Badges
- Science topic
- Similar topics
- Biological Science
- Molecular Biology
- Biomolecules
- Nucleic Acids