Top level type for modelling basic command line arguments for IntaRNA

--outMode arg (=N)

Interaction:
  -m [ --mode ] arg (=H)       prediction mode

  --qAcc arg (=C)              

 accessibility computation :
    'N' no accessibility contributions
    'C' computation of accessibilities
    'P' unpaired probabilities in RNAplfold format
   from --qAccFile
    'E' ED values in RNAplfold Pu-like format from
   --qAccFile

  -q [ --query ] arg           

either an RNA sequence or the stream/file name from where to read the query sequences (shouldbe the shorter sequences to increaseefficiency); 
sequences have to use IUPACnucleotide encoding