Protomata-Learner version 0.07 ( warning : Beta version )

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Partial Local Multiple Alignements (PLMA)

Sequences

Advice : reduce the redundancy in your set of sequences, for example use the program decrease redundancy at Expasy.

Upload your sequences file (FASTA)

Or paste your sequences

Sequence type : Proteins DNA DNA (with coding regions)

Paloma parameters

Fragments similarity threshold

Consensus

Minimum fragments size

Maximal fragments size

Import a PLMA file

PLMA file

Protomaton

Quorum
(minimum number of sequences per block) default 3/3, 2/3, 1/3 of the sequences user defined quorum list (separated by commas)

Advanced parameters :

Identification and generalization of position wrt physico-chemical properties

Use predefined amino-acid group or user defined

Likelihood thresholds for generalization (1 : no generalization, 0 : forced generalization)

to a group , g :

to a wilcard (when a generalization to group failed) , s :

Data examples

File contains several proteic sequences in fasta format (Viral nucleic acid binding)
Fragments similarity threshold :5
Consensus : weak
Minimum fragments size :1
Maximal fragments size :15

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