UCHIME is a new algorithm for detecting chimeric sequences. It was developed in
collaboration with Brian Haas, Jose Carlos Clemente, Chris Quince and Rob
Knight. Chimeras are commonly created during DNA sample amplification by
PCR, especially in community sequencing experiments using single regions
such as the 16S rRNA gene in bacteria or the fungal ITS region. UCHIME can
detect chimeras using a reference database or de novo using abundance
information on the assumption that chimeras are less abundant than their
parents because they must have undergone fewer rounds of amplification.