I have HMM profiles but the raw sequences or multiple sequence alignments are not available. I saw the tool
hmmemit, but this randomly generates sequences that match a given profile HMM. I do not want random sequences. Is there a way to obtain sequences or multiple sequence alignment that generated the HMM profile? Additionally, I know
skylign generates hmm logos, is there a way to obtain the consensus sequences from the logo? The other option would be to programmatically parse the HMM profile to try to generate the consensus sequence.
Any input would be appreciated!
Thanks in advance.