Pairwise Sequence Alignment


Please enter sequence one in FASTA format


Read sequence from local file:



Please enter sequence two in FASTA format

Note: For DNA-Protein or DNA-cDNA comparison, sequence two must
be protein or cDNA sequence


Read sequence from local file:




Run GAP or SIM on protein DNA





If both are DNA or cDNA Sequences


mismatch score



gap open penalty


gap extension penalty

Otherwise


Amino Accid Matrix:

gap open penalty

gap extension penalty

Additional Parameters

gap size for constant penalty


    number of local alignment (only for SIM & LAP2)

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