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Build alignments and query InterEvol database

From 1 or 2 sequences of interacting partners:
  • build 2 multiple sequence alignments with the same species ordered in each
  • query the InterEvol database with alignments using profile-profile comparison method
If you don't know what is InterEvolAlign or how to use it, please visit the FAQ and the help page.
1. Upload partner 1 fasta sequence  
You can paste or upload a sequence in FASTA format. A multiple sequence alignment will be generated using the options defined in the parameters section. For every species for which homologous sequences are found, only the sequence with best BLAST hit score will be conserved.

Name:
Input sequence:

or upload file:  
2. Upload partner 2 fasta sequence (optional)  
You can paste or upload a second sequence in FASTA format. In that case, only species in common between the 2 alignments will be conserved.

Name:
Input sequence:
or upload file:
3. Run analysis  
email where to send results (optional):

4. Modify default parameters values  
Click on each parameter title to display its help.

Kingdom restrictions: (leave unchecked to have no restriction)
 
PSI-Blast protocol and database selection:
Iteration 1:
Iteration 2:
Iteration 3:
 
Activate the reciprocal blast procedure (slower):
 
E-value threshold in Psi-Blast:
Redundancy filter: max. seq. identity (as %) within the alignment:
Min. seq. identity to any seq. (as %) to select a seq. hit:
After Blast step : Min. coverage to query (as %) :
After Muscle step: Min. coverage to query (as %) :
Max. number of interolog couples in the alignments:
Max. number of species in a single alignment:
Max. number of sequence above which Muscle runs in fast option:
Apply sequence extensions after Psi-Blast by N amino acids:
Min. HHsearch proba. for hit selection:
Coverage ratio of the Target to the Query after HHsearch:
Coverage ratio of the Query to the Target after HHsearch: