The dataset I have consists of aligned sequences in fasta format. However, I am developing a certain multiple sequence alignment method, for which I need to run my program on unaligned sequences. Is there any software for converting from aligned fasta sequences to unaligned sequences in fasta format?
please post an example of what you mean "aligned sequences". FASTA as a format is not an alignment format, hence it is not clear what you are looking for
This is part of what my aligned fasta file contains:
Run it through
awk
and delete-
gap characters from the sequence string.