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| PSI-Search
| Combining the Smith-Waterman search algorithm with the [[PSI-BLAST]] profile construction strategy to find distantly related protein sequences, and preventing homologous over-extension errors. || Protein || Li W, McWilliam H, Goujon M, Cowley A, Lopez R, Pearson WR<ref>{{Cite journal|author=Li W |title=PSI-Search: iterative HOE-reduced profile SSEARCH searching |journal=Bioinformatics |volume=28 |issue=12 |pages=1650–1651 |date=June 2012 |pmid=22539666 |pmc=3371869 |doi=10.1093/bioinformatics/bts240 |name-list-style=vanc|author2= McWilliam H|author3=Goujon M|display-authors=3|last4=Cowley|first4=A|last5=Lopez|first5=R|last6=Pearson|first6=WR}}</ref> || 2012
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|R&R
|Retrieve and Relate (R&R) is a high performance yet sensitive multi-database search engine, capable of searching in parallel through DNA,RNA and Protein sequences.
|Both
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|2019
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| ScalaBLAST
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