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Table 1 Command line options

From: MOSAL: software tools for multiobjective sequence alignment

Option Explanation
F1 Path to the 1st sequence file (FASTA)
F2 Path to the 2nd sequence file (FASTA)
i|g Use indels or gaps
dp | dpp -b=N Do not use or use pruning technique.
  If yes, specify the size of lower bound (N)
-ss=F Use substitution score instead of matches
  (F is the path to the matrix file)
–no-traceback Output only the scores without the alignments