FUZZPRO(1e) | EMBOSS Manual for Debian | FUZZPRO(1e) |
NAME¶
fuzzpro - Search for patterns in protein sequencesSYNOPSIS¶
fuzzpro
-sequence seqall
-pattern pattern
-outfile report
fuzzpro
-help
DESCRIPTION¶
fuzzpro is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Protein:Motifs" command group(s).OPTIONS¶
Input section¶
-sequence seqall -pattern patternThe standard IUPAC one-letter codes for the
amino acids are used. The symbol 'x' is used for a position where any amino
acid is accepted. Ambiguities are indicated by listing the acceptable amino
acids for a given position, between square parentheses '[ ]'. For example:
[ALT] stands for Ala or Leu or Thr. Ambiguities are also indicated by listing
between a pair of curly brackets '{ }' the amino acids that are not accepted
at a given position. For example: {AM} stands for any amino acid except Ala
and Met. Each element in a pattern is separated from its neighbor by a '-'.
(Optional in fuzzpro). 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: x(3) corresponds to x-x-x, x(2,4)
corresponds to x-x or x-x-x or x-x-x-x. When a pattern is restricted to either
the N- or C-terminal of a sequence, that pattern either starts with a '<'
symbol or respectively ends with a '>' symbol. A period ends the pattern.
(Optional in fuzzpro). For example, [DE](2)HS{P}X(2)PX(2,4)C
Output section¶
-outfile reportBUGS¶
Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031).SEE ALSO¶
fuzzpro is fully documented via the tfm(1) system.AUTHOR¶
Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>Wrote the script used to autogenerate this
manual page.
COPYRIGHT¶
This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be redistributed under the same terms as EMBOSS itself.05/11/2012 | EMBOSS 6.4.0 |