infoalign

 Open help window for infoalign

(Information on a multiple sequence alignment)
Fields with a coloured background are optional and can safely be ignored...
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1. Set the parameters for the run (or accept the defaults...)
input section
The sequence alignment to be displayed..

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:
Similarity scoring Matrix file  
  or select a matrix file to upload here:  
  (file must contain an integer scoring matrix)
The number or the name of the reference sequence  
 
advanced section
Plurality check % for consensus   (real number)    
Required % of identities at a position fro consensus   (real number)    
output section
If you enter the name of a file here then this program will write the sequence details into that file.  
Format output as an HTML table?  
Display column headings?  
Display the USA of the sequence?  
Display 'name' column?  
Display 'seqlength' column?  
Display 'alignlength' column?  
Display number of gaps?  
Display number of gap positions?  
Display number of identical positions?  
Display number of similar positions?  
Display number of different positions?  
Display % number of changed positions?  
Display 'weight' column?  
Display 'description' column?  
2. Submit to infoalign...
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