Sequence Display Window Actions

Various window buttons affect the column display.

Columns, Whole, Zoom In, Zoom Out, Analysis; are the same as the regular sequence display. Assembly, Arrows, Quality, DNA are specific to, or modified in the assembly display.

  • Assembly - a submenu button
    Assemble - attemps assembly of project reads
    Join - attemps contig joins
    Re-insert Loners - attemps to re insert loner reads
    Fix -
    Consolidate Clips -
    AutoEdit - makes machine suggested edits in reads
    Save -
    Command Window -
  • Arrows toggles Trace Assembly arrows
  • Quality toggles "quality" display items
  • DNA toggles display of DNA sequence
  • Variations appears once the DNA sequence is displayed

    By clicking on the Zoom In button several times, the arrow heads of the Trace Assembly column expand to show intervals. The direction of the read is indicated by the direction of the arrow. The small circles at the top and bottom of the column indicate that the read extends beyond the window display area.

    Clicking on the "Quality" button displays the regions of sequence conflict on the Trace Assembly lines, red for miss matches and blue boxes for insertions. The contigs column also changes to indicate the relative coverage on both strands.

    Additional columns

    Additional columns appear on the display depending on your selections. By clicking on an arrow you bring up the sequencing traces themselves.

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