Here is a sample session with prophecy % prophecy Creates matrices/profiles from multiple alignments Input (aligned) 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]: Go to the input files for this exampleGo to the output files for this example Example 2 % prophecy Creates matrices/profiles from multiple alignments Input (aligned) sequence set: globins.msf Profile type F : Frequency G : Gribskov H : Henikoff Select type [F]: g Scoring matrix [Epprofile]: Enter a name for the profile [mymatrix]: globins Gap opening penalty [3.0]: Gap extension penalty [0.3]: Output file [globins.prophecy]: Go to the output files for this example
