Reads sequences in FASTA format. For each sequence, it outputs the central portion of the sequence. The flanking regions can also be output to a separate file. When the alphabet is specified and the central portion of a sequence consists of nothing but the wildcard it is not output.
Sequences in FASTA format from standard input.
Writes a FASTA format file to standard output.
|-len||len||Length of central region to output. If this is larger than the length of a sequence, the entire sequence is output.||100|
|-flank||filename||Output the regions flanking the central regions to a file named filename. The FASTA IDs of the flanking regions on the left (right) are the original FASTA ID with '-L' ('-R') appended.||Flanking regions are not output.|
|-reject||filename||Output any rejected central regions to a file named filename.||Rejected central regions are not output.|