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  1. Jalview
  2. JAL-3760

Alignments containing one or more protein sequences can be classed as nucleotide

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Critical
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 2.11.2, 2.11.1.3
    • Component/s: analysis, Datamodel
    • Labels:
      None
    • Urgency:
      Urgent

      Description

      Reported via twitter/gitter.

      Jalview will disable protein shading/analysis options for alignments when it calculates that the proportion of the *total* number of symbols classed as nucleotides is less than 85% (thanks [~gmungoc] for spotting that). This calculation is performed once on alignment creation, and merges all sequences together.

      As a result, input files containing proteins and nucleotides, or containing proteins with low complexity regions may be misidentified.

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            Assignee:
            jprocter Jim Procter
            Reporter:
            biolocousb Javier Uzc√°tegui
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              Dates

              Created:
              Updated:
              Resolved: