fuzznuc - Search for patterns in nucleotide sequences

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       the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031).

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EMBOSS 6.4.0                                       05/11/2012                                        FUZZNUC(1e)

fuzznuc is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It
       is part of the "Nucleic:Motifs" command group(s).

       fuzznuc - Search for patterns in nucleotide sequences

Inputsection-sequenceseqall-patternpattern
           The standard IUPAC one-letter codes for the nucleotides are used. The symbol 'n' is used for a
           position where any nucleotide is accepted. Ambiguities are indicated by listing the acceptable
           nucleotides for a given position, between square parentheses '[ ]'. For example: [ACG] stands for A
           or C or G. Ambiguities are also indicated by listing between a pair of curly brackets '{ }' the
           nucleotides that are not accepted at a given position. For example: {AG} stands for any nucleotides
           except A and G. Each element in a pattern is separated from its neighbor by a '-'. (Optional in
           fuzznuc). Repetition of an element of the pattern can be indicated by following that element with a
           numerical value or a numerical range between parenthesis. Examples: N(3) corresponds to N-N-N, N(2,4)
           corresponds to N-N or N-N-N or N-N-N-N. When a pattern is restricted to either the 5' or 3' end of a
           sequence, that pattern either starts with a '<' symbol or respectively ends with a '>' symbol. A
           period ends the pattern. (Optional in fuzznuc). For example, [CG](5)TG{A}N(1,5)C

   Advancedsection-complementboolean
           Default value: N

   Outputsection-outfilereport

       fuzznuc is fully documented via the tfm(1) system.

fuzznuc-sequenceseqall-patternpattern-complementboolean-outfilereportfuzznuc-help