To access options affecting the Sequences view and Pairwise view, click on the Style panel expand bar entitled Sequences, or choose View > Style > Sequences.

Task How to…
Select font options for the ruler numbers in the view Use the Font drop-down menu to choose from available fonts. Recently selected fonts (if any) appear at the top of the menu, and other available fonts appear below the row of dashes. Enter the preferred font size by typing a number between 4-72 in the box at right, or by using the corresponding up and down arrows ( ).
Specify the case for all sequence letters in the view By default, all sequence letters in the Sequence view initially appear in upper case, regardless of what case is used in the sequence files. To change this, use the Case dropdown menu. Choices are Upper, Lower or Original case. If you choose Original case, the letters will be shown as they appear in the original sequence files. The selection you make here applies to all sequences in the MegAlign Pro project, not only to the selected sequence(s).
Select font options for other items in the view First check the box next to Track names font, then use the corresponding drop-down menu to change the font from the current value. Enter the preferred font size by typing a number between 4-72 in the box at right, or by using the corresponding up and down arrows ( ).
Specify the sequence color scheme in the view To change the letter color in the Sequences view, check the Color foreground box. To change the background color (boxes around each letter), check the Color background box. Then make selections from the corresponding drop-down menus. Color schemes are described in Available color schemes. As alternatives to checking/unchecking these boxes, check or uncheck the menu items Sequences > Color Sequence Foreground (Background).
Specify the type for all nucleic acid sequences in the project Use the Nucleic Acid Type drop-down menu to choose between DNA or RNA. This is the same as using the menu commands Sequences > DNA or Sequences > RNA. If you choose DNA, any U’s in the sequences will change to T’s. If you choose RNA, any T’s in the sequences will change to U’s. Note that this option is not available for protein sequences.

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