prophecy creates a profile matrix file from a nucleic acid or a protein sequence alignment. Here is a sample session with prophecy: % prophecy Creates matrices/profiles from multiple alignments Input sequence set: globins.msf Profile type F : Frequency G : Gribskov H : Henikoff Select type [F]: Enter a name for the profile [mymatrix]: globins Enter threshold reporting percentage [75]: Output file [globins.prophecy]: Mandatory qualifiers (bold if not always prompted):
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