EMBOSS explorer


Local multiple alignment of sequences (read the manual)

Unshaded fields are optional and can safely be ignored. (hide optional fields)

Input section

Select an input sequence. Use one of the following three fields:

  1. To access a sequence from a database, enter the USA here:
  2. To upload a sequence from your local computer, select it here:
  3. To enter the sequence data manually, type 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
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
Use iterative score?
Threshold for considering diagonal for alignment
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
Output sequence format
Run section
Email address: If you are submitting a long job and would like to be informed by email when it finishes, enter your email address here.