Query parameters

FASTA format. Length is limited to 20Mb

FASTA format. File size is limited to 20Mb

Databank selection

General parameters

The statistical significance threshold for reporting matches. Lowest values are the most stringent.

The length of the seed that initiates an alignment.

Scoring parameters

First number is the reward when two aligned nucleotides match.
Second number is the penalty when two aligned nucleotides are different.

Penalties when opening and extending a gap in each alignment.

Matrix adjustment method to compensate for amino acid composition of sequences.

Filters and masking

Mask off segments of the query sequence that have low compositional complexity.

Mask only when finding alignment seeds, not during extension.

Filter regions in lower case in query sequence.
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