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  1. Jalview
  2. JAL-2286

Colour schemes don't handle 'joint consensus' correctly

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 2.8, 2.10.0
    • Fix Version/s: 2.10.1
    • Component/s: analysis, jvdesktop, jvlite
    • Labels:
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      Description

      For columns with a joint modal residue (shown as + in the consensus sequence), sequence residues are not recognised as 'consensus' and not coloured correctly under BLOSUM62 colouring or above % identity.
      For example, paste this in:
      Seq1/1-5 GTMIS
      Seq2/1-5 GTMIS
      Seq3/1-5 GTMIS
      Seq4/1-5 GTMIS
      Seq5/1-5 GTAVS
      Seq6/1-5 GTAVS
      Seq7/1-5 GTAVS
      Seq8/1-5 GTAVS
      Seq9/1-5 GATMS
      Colour by Percentage Identity:
         - columns 3 and 4 are not coloured, although they have 44% PID and should be light blue.
      Colour with Clustalx and Above Identity Threshold.
         - columns 3 and 4 are white for all threshold > 0. Should remain coloured up to 44% threshold.

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            Assignee:
            gmungoc Mungo Carstairs
            Reporter:
            gmungoc Mungo Carstairs
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              Created:
              Updated:
              Resolved: