Alternative name: SOAP2 | SOAP2
Aligns short reads with a reference sequence. SOAP can find all alignments with k mismatches, where k is chosen from 0 to 3. When aligning length-100 reads with the human genome, SOAP is the first software that can find all 3-mismatch alignments in tens of seconds per one million reads. SOAPaligner is a part of SOAP that allows an ultrafast and memory-efficient alignment of massive short sequencing reads.