tfscan takes a sequence and the name of one of these taxonomic groups and does a fast match of the TRANSFAC sequences against the input sequence (optionally allowing mismatches).

Here is a sample session with tfscan:

% tfscan Input sequence(s): embl:hsfos Transcription Factor Class          F : fungi          I : insect          P : plant          V : vertebrate          O : other Select class [V]: v Number of mismatches [0]: Output file [hsfos.tfscan]:

Mandatory qualifiers:

[-sequence] (seqall)

Sequence database USA.

-menu (menu)

Select class.

-mismatch (integer)

Number of mismatches.

[-outfile] (outfile)

Output filename.

Sequence Analysis in a Nutshell
Sequence Analysis in a Nutshell: A Guide to Common Tools and Databases
ISBN: 059600494X
EAN: 2147483647
Year: 2005
Pages: 312

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