restover takes a specified sequence and a short sequence of a cut-site overhang and searches the REBASE database for matching enzymes that create the desired overhang sequence when they cut the input sequence. Here is a sample session with restover: % restover Finds restriction enzymes that produce a specific overhang Input sequence(s): em:hsfau Overlap sequence: cg Output file [hsfau.restover]: Mandatory qualifiers: - [-sequence] (seqall)
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Sequence database USA. - [-seqcomp] (string)
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Overlap sequence. - [-outfile] (outfile)
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Output filename. Advanced qualifiers: - -min (integer)
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Minimum cuts per restriction enzyme. - -max (integer)
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Maximum cuts per restriction enzyme. - -single (boolean)
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Force single site only cuts - -threeprime (boolean)
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3' overhang? (else 5') e.g., BamHI has CTAG as a 5' overhang, and ApaI has CCGG as 3' overhang. - -[no]blunt (boolean)
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Allow blunt end cutters. - -[no]sticky (boolean)
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Allow sticky end cutters. - -[no]ambiguity (boolean)
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Allow ambiguous matches. - -plasmid (boolean)
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Allow circular DNA. - -[no]commercial (boolean)
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Only enzymes with suppliers. - -datafile (string)
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Alternative restriction enzyme data file. - -html (boolean)
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Create HTML output. - -[no]limit (boolean)
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Limits reports to one isoschizomer. - -preferred (boolean)
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Report preferred isoschizomers. - -alphabetic (boolean)
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Sort output alphabetically. - -fragments (boolean)
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Show fragment lengths. - -name (boolean)
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Show sequence name. |