About Search by Sequence
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Search by Sequence performs a nucleotide-nucleotide BLAST search against Addgene’s plasmid sequence database.
BLAST returns plasmids with similarity to the query sequence.
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Results are sorted by E-value, a statistic from BLAST that describes the significance of a match.
Lower values are considered better matches.
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FASTA headers and numbers at the beginning of each line will be removed.
The query should only contain DNA characters.
Tips for Success
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Enter a distinct sequence that is an important, differentiating feature. For example, the coding region of
a gene, instead of the plasmid origin of replication.
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Inspect the percent identity, query coverage, and alignment details to determine if a result match is satisfactory.
Visit the corresponding plasmid webpage to view additional details about a matching plasmid.
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If no results are returned:
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Try a different isoform or region of the desired sequence.
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Choose a different BLAST database. Try the general “All Addgene Plasmids” (default selection),
instead of a specific database, such as “Plant Expression Plasmids”
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Try selecting a different BLAST algorithm:
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megablast: Designed for comparing sequences within the same, or closely related, species.
Default selection.
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blastn: Designed for comparing sequences from different species. May return additional results,
if exact species match is not required.
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blastn-short: Optimized for searching with shorter sequences (<= 30 nucleotides)
but can still be effective with slightly larger sequences.
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There may not be a match in our database.
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You can adjust the Max Results setting on the results page from 25 to 500. If many sequences share the same top E-value,
only a truncated set of equally high-scoring matches will be shown. Set the Max Results to 500 to see more matches.
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Fill out our Suggest a Plasmid form or
e-mail [email protected] to let us know what we're missing.
By using search by sequence, you understand that some sequences are subject to our Terms of Access and the restrictions contained therein.
Structural Genomics Consortium Plasmids
