water

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(Smith-Waterman local 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
Select an input sequence.

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:
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:
Matrix file  
  or select a matrix file to upload here:  
  (file must contain a floating point scoring matrix)
required section
Gap opening penalty   (real number)     (default is 10.0 for any sequence)
Gap extension penalty   (real number)     (default is 0.5 for any sequence)
output section
Brief identity and similarity?  
Alignment format:
2. Submit to water...
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