Pratt - Pattern Matching

An important problem in sequence analysis is to find patterns matching sets or subsets of sequences.This tool allows the user to search for patterns conserved in sets of unaligned protein sequences. The user can specify what kind of patterns should be searched for, and how many sequences should match a pattern to be reported.

PATTERN CONSERVATION:	C% : min Percentage Seqs to Match
PATTERN RESTRICTIONS: PP : pos in seq [off,complete,start]	PL : max Pattern Length
PN : max Nr of Pattern Symbols	PX : max Nr of consecutive x's
FN : max Nr of flexible spacers	FL : max Flexibility
FP : max Flex.Product	BI : Input Pattern Symbol File
BN : Nr of Pattern Symbols Initial Search	PATTERN SCORING: S: Scoring [info,mdl]
SEARCH PARAMETERS: G : Pattern Graph from [seq,al,query]	E : Search Greediness
R : Pattern Refinement	RG : Generalise ambiguous symbols
OUTPUT: OP: PROSITE Pattern Format	ON : max number patterns
OA : max number Alignments	M : Print Patterns in sequences
MR : ratio for printing	MV : print vertically
Restriction file:

Enter or Paste a set of Sequences in PIR or FASTA format :

Upload a file:

Please note that pratt runs are restricted to 2 mins after which the run will be forced to complete.

If you plan to use these services during a course please contact us.