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  1. UGENE
  2. UGENE-1153

detect tandem repeats with count 2

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    Details

    • Type: Improvement
    • Status: Closed
    • Priority: Critical
    • Resolution: Fixed
    • Affects Version/s: 1.11.1
    • Fix Version/s: 1.30
    • Component/s: Basic-Nucl
    • Labels:
    • Story Points:
      1
    • Affect Type:
      Userdefined

      Description

      Currently, the tandem repeat finder allows only a minimal repeat count of x3. That makes sense for short repeats such as mini- or micro-satellites but not for long tandem repeats.

      The attached sequence contains a two-copy tandem repeat with a period size of 226 starting at position 110. It is not detected by the repeat finder.

      Proposal: allow a minimal repeat count of x2 (maybe starting from a certain length), but keep the default to x3.

        Attachments

        1. SHG-I.fa
          0.9 kB
          Mathias Walter

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              Assignee:
              yalgaer Yuliya Algaer
              Reporter:
              tolot27 Mathias Walter
              Assigned Tester:
              Eugenia Pushkova [X] (Inactive)
              Watchers:
              3 Start watching this issue

                Dates

                Created:
                Updated:
                Resolved: