scanmot and scantop are programs that scan sequences for instances of motifs.
Finds the highest scoring instances of the motif in the input sequences.
Usage:
scanmot <ace_file> <motif_number> <sequence_file> <output_file> <max_sites>
- ace_file: AlignACE output file with motifs
- motif_number: Motif number within ace_file to use
- sequence_file: File with sequences to scan in FASTA format
- output_file: Output file with motif instances
- max_sites: Maximum number of sites to output