Question: Make a multiple sequence alignment with a HMMER hmmsearch output?
0
westin.kosater • 10 wrote:
I have a database of protein sequences and I just did a search (hmmsearch) through the database against my hmmfile using HMMER for all sequence with an E value cutoff. I saved my output from that to a text file, but now I want to do a multiple sequence alignment with the sequences from hmmsearch and fit a new HMM to these sequences. I have no idea how to do this, since I can't exactly do a MSA with the output from hmmsearch because it doesn't output the results to a recognized file format.
