Generate Consensus Sequence from Pairwise Alignment
Hi All,
I am aligning a consensus sequence with a reference genome by pairwise alignment. Is there a tool which can generate a consensus sequence from pairwise alignment?
Is there any way to generate a consensus sequence from a blast alignment result?
Any help will be appreciated.
Thanks in advance!!!
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Most multiple sequence alignment tools should be able to align 2 sequences and generate consensus. Are there gaps and such in your sequences?
As for generating alignments from blast results look here for options.
Hi genomax,
I performed nucleotide BLAST alignment on the consensus sequence (single fasta file) and the reference sequence. I found gaps and mismatches in the alignment. My aim was to generate a consensus sequence from this alignment result.
On Clustal Omega I saw their suggestion to use pairwise alignment for alignment of 2 sequences. Is it still okay to use a MSA for this?