est2genome

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(Align EST and genomic DNA sequences)
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
Spliced EST nucleotide sequence(s).

Use one of the following three fields:   (file must contain DNA sequences)

  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:
Unspliced genomic nucleotide sequence.

Use one of the following three fields:   (file must contain a DNA sequence)

  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
Score for matching two bases   (integer)    
Cost for mismatching two bases   (integer)    
Gap penalty   (integer)    
Intron penalty   (integer)    
Splice site penalty   (integer)    
Minimum accepted score   (integer)    
advanced section
Reverse orientation?  
Use donor and acceptor splice sites?  
Comparison mode
Print out only best alignment?  
Space threshold (in megabytes)   (real number)    
Shuffle   (integer)    
Random number seed   (integer)    
output section
Output file name  
Show the alignment?  
Alignment width   (integer)    
2. Submit to est2genome...
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