Video talks on 16S data analysis posted.

URMAP ultra-fast read mapper posted (paper).

~20% of taxonomy annotations in SILVA and Greengenes are wrong (paper).

Taxonomy prediction is <50% accurate for 16S V4 sequences (paper).

97% OTU threshold is wrong for species, should be 99% for full-length 16S, 100% V4 (paper).

-msaout option

The -msaout option of the cluster_fast and cluster_smallmem commands specifies a FASTA file to contain a multiple alignment for each cluster. The multiple alignment is produced by a very fast method that is designed for high identity thresholds. At lower identities, the alignment will tend to have lower accuracy than specialized methods such as MUSCLE. Supported in v6.0.307 and later.