Ribbon multiple alignment and trace file edition
 Edit buttonOptions for editing the sequences.
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 More button
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 Align sequences and optimize directions- Align the selected sequence only.
- Align all sequences.
- Reverse the direction of the selected sequence.
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 Find conflicts Go from the selected position to the previous or next conflict. |
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 Find sequenceSearch for a given part of the sequence.
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 Base callerThis value is used to calculate the threshold level, depending on the selected algorithm in the Options dialog.
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 Zoom in/out horizontallyAdapt the width of the peaks.
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 Zoom in/out verticallyAdapt the height of the peaks.
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 Higher/SmallerEnlarge the height of the sequence section.
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 Collapse/ExpandCollapse or expand the sequence section (expand to see the waves).
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 Show or hide chromatogramShow or hide chromatogram for each of the nucleotides.
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 Confidence levelShow or hide the level of confidence of the consensus base pare at any given point of the alignment.
A confidence value can be computed for each nucleotide. The trace wave is giving the intensity of the signal for each of the four nucleotides.
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 Majority rule displayWhen checked this option will display the most frequent letter at any given point of the alignment.
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 Ambiguity letters
Letters displayed in the consensus sequence are ambiguity letters instead of majority rule letters.
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 Colored backgroundLetters will be displayed in black with colored background.
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 Show colored lettersLetters will be displayed in colors with a white background.
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 Regular intervalWhen checked, this option makes the interval between base pairs regular or standardized. Otherwise the original trace file file is displayed.
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 Redraw treeSelect one of the nine provided algorithms to (re)draw a tree based on the sequences.
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 Toggle tree displayRemoves the drawn tree in front of the multiple alignment.
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