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Update sequence_search.rst
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hmusta authored Jan 10, 2025
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Expand Up @@ -52,7 +52,7 @@ The output of the query is in TSV format, with one line per query sequence, wher
6. Number of exact matches
7. CIGAR string-like alignment summary
8. Number of nucleotides trimmed from the prefix of the reference sequence
9. Ref name matches (if the :code:`-a` flag is passed)
9. Reference label matches (:code:`;` separated, present if the :code:`-a` flag is passed)

An important parameter is the seed length, which can be set with :code:`--align-min-seed-length` and can be shorter than the value of k used to construct the graph.

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