coves - produce individual RNA structure predictions for sequences
This command computes the score of each whole sequence individually, and prints
the scores. You might use it to detect sequences which, according to the
model, don't belong to the same structural consensus; sequences which don't
fit the model get negative scores.
coves mymodel.cm seqs.fa
coves -s mymodel.cm seqs.fa
coves -m mymodel.cm seqs.fa