In version 1.2, the pixel plot consisted of a black pixel for each residue and a white pixel
for each gap as shown in Figure 1.A. In SuiteMSA version 1.3, the residue pixels can be
color-coded as shown in Figure 1.B. The four possible structure-data based color-schemes are as follows:
- Transmembrane structure
- Secondary structure
- Rank data (red/yellow)
- Ranked data (blue/green)
The structural information for each sequence (in FASTA format) must be provided to use this
color-scheme option. Sequence names must be exactly the same between the alignment file and
the structure data file. See section 2 for more details on how to prepare structural data file.