This extension is depricated.
MonetDB/SQL comes with a SAM/BAM module, the de-facto standard for managing DNA sequence alignment data. The module contains the following features to assist SAM/BAM data analysis:
The SAM/BAM modules forms a cornerstone for building life science applications around DNA sequences. A quick introduction of the features can be seen in the screencast below, which also demonstrates how MonetDB/BAM works together with popular genomic tools, such as IGV, the Integrative Genomics Viewer.
A specification of the SAM/BAM formats can be found here. Some auxiliary tools for manipulating alignments in the SAM/BAM formats can be found here.