Pairwise sequence alignment

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Minimum similarity to keep results (0-100%):

Gap creation penalty (1-100):

Minimum overlap to keep results (0-100%):

Gap extension penalty (1-10):

Minimum overlap for rating reward (0-100%):

Word size (1-256):

Maximum alignments to display (1-1000):

Penalty for a nucleotide mismatch:

Select sorting mode:

Reward for a nucleotide match:

Select the reference(s) file(s) to be used for the alignment:

	Name	Location	Status
	ITSSEQ	Local	Reachable

Paste sequence to align: