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(Local multiple alignment of sequences)

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1. Set the parameters for the run (or accept the defaults...)
input section
Select a set of sequences.

Use one of the following three fields:  

  1. To access a sequence from a database, enter the USA path here: (dbname:entry)

  2. Or, upload a sequence file from your local computer here:

  3. Or enter the sequence data manually here:

additional section
Nucleic acid sequence alignment mode
Also consider the reverse complement?  
Use overlap weights
Clustering method to construct sequence tree
Maximum fragment length   (integer)    
Consider only N-fragment pairs that start with two matches?  
Consider only P-fragment pairs if first amino acid or codon pair has similarity score of at least n   (integer)    
Use iterative score?  
Threshold for considering diagonal for alignment   (real number)    
output section
Replace unaligned characters by stars '*' rather then putting them in lowercase?  
Activate writing of stars instead of numbers?  
Put up to n stars '*' instead of digits 0-9 to indicate level of conservation   (integer)    
Output file name  
Output file format:
2. Submit to edialign...
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