Integrates an alignment into another by copying the gaps.
Alignment object into which align2 is to be integrated.
Alignment object that is to be integrated into align1.
The integration positions in align1 for all rows (view positions).
If the integration positions are not specified, the sources of align2 have to be Infixes of the sources of align1.
SeqAn - Sequence Analysis Library - www.seqan.de