Step 7: Replacing the Gap Character
The character "." has to
be used as a gap character, since empty cells signal the end
of a sequence or alignment. To replace other gap characters placed
by an extrernal alignment program or to fill empty cells placed
during manual gapping, run the macro "AA_Empty" over the sequence alignment.
Check again:
- The first row contains the chain label, "L" for antibody light chains, "H" for heavy chains, "A" for TCR alpha chains, and so on.
- The second row contains the residue label
- The third row contains the insertion code, if needed
- The alignment starts in row four
- Gaps are indicated by "."
- The sequences are in the same order as they were at the beginning
If everything looks OK, you are ready to continue
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