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  1. UGENE
  2. UGENE-6811

Change BLAST+ run arguments in the Sanger alignment

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 35
    • Component/s: None
    • Labels:
      None
    • Story Points:
      1
    • Sprint:
      DEV-35-4
    • Affect Type:
      Userdefined

      Description

      BLAST+ runs with the "megablast" task option and with the window size equals to 28 nucleotide. In this case, extended alphabet characters are allowed, but interpreted as mismatches. In the result, if a read contains symbols from the extended alphabet and the window size is big enough, read will be filtered  during the "BLAST+" execution.

      To avoid the problem is offered to set up BLAST+ algorithm to "blastn" and the window size to 11.

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            Assignee:
            dsukhomlinov Dmitrii Sukhomlinov
            Reporter:
            dsukhomlinov Dmitrii Sukhomlinov
            Assigned Tester:
            Svetlana Samoilenko
            Watchers:
            1 Start watching this issue

              Dates

              Created:
              Updated:
              Resolved: