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[http://rulai.cshl.edu/rmap/ RMAP: A Program for mapping Solexa reads]<br />
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[http://compbio.cs.toronto.edu/shrimp/ SHRiMP-SHort Read Mapping Package]<br />
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[http://maq.sourceforge.net/index.shtml Maq: Mapping and Assembly with Qualities]<br />
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[http://soap.genomics.org.cn/# SOAP-Short Oligonucleotide Analysis Package]<br />
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[http://www.sanger.ac.uk/Software/analysis/SSAHA2/ SSAHA2(Sequence Search and Alignment by Hashing Algorithm)]<br />
