Add --adjustdirection to MAFFT parameters for alignment. Either add to curation exclusively and use curation results to reverse the sequences that need to be reversed or use --adjustdirection in both curation and alignment if it doesn't slow it down significantly.
Add
--adjustdirectionto MAFFT parameters for alignment. Either add to curation exclusively and use curation results to reverse the sequences that need to be reversed or use--adjustdirectionin both curation and alignment if it doesn't slow it down significantly.