if (av.hasHiddenColumns())
{
Iterator<int[]> it = av.getAlignment().getHiddenColumns()
- .getVisContigsIterator(0, sq.getLength(), false);
+ .getVisContigsIterator(0, sq.getLength() + 1, false);
omitHidden = new String[] { sq.getSequenceStringFromIterator(it) };
}