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12-Jun-2018 New paper shows that ~20% of taxonomy annotations are wrong in SILVA and Greengenes.

18-Apr-2018 New paper shows that taxonomy prediction accuracy is <50% for V4 sequences.

05-Oct-2017 PeerJ paper shows low accuracy of closed- and open-ref. QIIME OTUs.

New paper shows 97% OTU threshold is too low, especially for V4.

03-Jun-2017 USEARCH v10.0 posted. What's new.

24-Nov-2016 UPARSE tutorial video posted on YouTube. Make OTUs from MiSeq reads.


USEARCH has been cited by
11,178 papers
Google scholar
Last updated 20 Jan 2020

registered users

64-bit users
Joint Genome Institute
MBL, Woods Hole
Cornell Univ.
CNRS (France)
La Jolla Institute
Ag. Research (NZ)
Broad Institute
UC Davis
UC Berkeley
Pacific Biosystems
and many more.

High-throughput search and clustering

USEARCH is a unique sequence analysis tool with thousands of users world-wide. USEARCH offers search and clustering algorithms that are often orders of magnitude faster than BLAST.
Improved productivity and insights
USEARCH combines many different algorithms into a single package with outstanding documentation and support. This cuts your learning curve, reduces the number of steps you need to take for a given task, and slashes compute times. USEARCH will encourage you to explore your data, enabling new insights and suggesting new analyses that you might not have tried with slower tools.
Free for most users
Licenses to use 32-bit USEARCH are offered at no charge for all users, including commercial. You can download the 32-bit version here.