Format Conversion
-Combine FASTA
-EMBL to FASTA
-EMBL Feature Extractor
-EMBL Trans Extractor
-Filter DNA
-Filter Protein
-GenBank to FASTA
-GenBank Feature Extractor
-GenBank Trans Extractor
-One to Three
-Range Extractor DNA
-Range Extractor Protein
-Reverse Complement
-Split Codons
-Split FASTA
-Three to One
-Window Extractor DNA
-Window Extractor Protein
Sequence Analysis
-Codon Plot
-Codon Usage
-CpG Islands
-DNA Molecular Weight
-DNA Pattern Find
-DNA Stats
-Fuzzy Search DNA
-Fuzzy Search Protein
-Ident and Sim
-Multi Rev Trans
-Mutate for Digest
-ORF Finder
-Pairwise Align Codons
-Pairwise Align DNA
-Pairwise Align Protein
-PCR Primer Stats
-PCR Products
-Protein GRAVY
-Protein Isoelectric Point
-Protein Molecular Weight
-Protein Pattern Find
-Protein Stats
-Restriction Digest
-Restriction Summary
-Reverse Translate
-Translate
Sequence Figures
-Color Align Conservation
-Color Align Properties
-Group DNA
-Group Protein
-Primer Map
-Restriction Map
-Translation Map
Random Sequences
-Mutate DNA
-Mutate Protein
-Random Coding DNA
-Random DNA Sequence
-Random DNA Regions
-Random Protein Sequence
-Random Protein Regions
-Sample DNA
-Sample Protein
-Shuffle DNA
-Shuffle Protein
Miscellaneous
-Home
-IUPAC codes
-Genetic codes
-Browser compatibility
-Mirror this site
-Use this site off-line
-About this site
-Acknowledgments
-Reference

The Sequence Manipulation Suite Copyright © 2000, 2004 Paul Stothard. Send questions and comments to stothard@ualberta.ca
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Sequence Manipulation Suite:
Fuzzy Search DNA
Fuzzy Search DNA accepts a DNA sequence along with a query sequence and returns sites that are identical or similar to the query. You can use this program, for example, to find sequences that can be easily mutated into a useful restriction site.

Enter the sequence to search (in raw sequence or FASTA format) into the text area below. Input limit is 2,000,000 characters.

Enter the query sequence into the text area below. Input limit is 30 characters.


Use the following parameters to specify how hits are scored, and to control which hits are returned.
  • Match value
  • Mismatch value
  • Gap value
  • Report the the top hits.

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