Pairwise sequence alignment

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First, select the most suitable options to perform the pairwise alignments, paste your raw unknown sequence and click on the "start alignment" button.

Identifications will be performed in a monophasic way. This means that only DNA or protein sequences will be compared to produce a global similarity or probability coefficient between the unknown sequence and the reference sequence database. Results should be evaluated with care and a critical mind.

Please contact the curator of the database if you feel that you need more explanations on how the comparisons are performed.

Select options:

Gap creation penalty (1-100):

Gap extension penalty (1-10):

Maximum alignments to display (2-1000):

Penalty for a nucleotide mismatch (default is -1):

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Reward for a nucleotide match (default is 1):

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Word size:

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Select sorting mode:

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Select the reference file to be used for the alignment:

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Paste sequence to align: