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HIV sequence database



AnalyzeAlign

Purpose: Show weblogos, calculate frequency by position, and find variants in an alignment. Explanation.

Input
Alignment icon
  
  
icon
    Alignment
type
    Organism
    Region
    Subtypes  
Sequence type
Positions/range to analyze icon
Total positions ≤ 200!
Range numbers refer to icon
Group the sequences icon
      Group sequences by:
   of names delimited by
character(s) in names
(example)
    
    
subtypes (the first field)
minus Logo options
Logo size pixels  
Max no. of logo stacks per line icon
Figure title
Figure label
X-axis labels
Label:
Stack annotations:
         (A comma separated list, must be same length as sequence range)
Y-axis units icon
Y-axis label
Label:
Color scheme icon
  
(example)
  
  
   SymbolsColor
Draw stacks with largest letters on top
Remove symbols from logo icon


   
Potential N-linked glycosylation sites icon

minus Other options
Output
Email results
Downloadable logo files PDF  EPS  SVG 
Combine logos for subsets into a page
Concatenate PDF or EPS logos as a x matrix   (row x column)
      Orientation:
     


Related links:

last modified: Sat May 30 20:19 2020


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