- Unix system with perl 5.8.0 or higher installed
- Sequence Search Engine
RepeatMasker uses a sequence search engine to perform
it's search for repeats. Currently Cross_Match,
RMBlast and WUBlast/ABBlast are supported. You will need to obtain
one or the other of these and install them on your
- TRF - Tandem Repeat Finder, G. Benson et al.
You can obtain a free copy at
RepeatMasker was developed using TRF version 4.0.4 and has been tested with 4.0.9
- Repeat Database
RepeatMasker will now work with custom libraries, and with Dfam out of the box.
Dfam is an open database of transposable element (TE) profile HMM models and consensus
sequences. The current release (Dfam 3.0) contains 6,235 TE families
spanning five organisms: human, mouse, zebrafish, fruit fly,
nematode, and a growing number of additional species. To supplement this databases we highly recommend
obtaining the RepeatMasker edition of RepBase. RepeatMasker searches are optimised to use these databases and can
produce higher quality annotations than can be acheived using the
equivalent libraries with the -lib option.
To update the Dfam libraries contained in this release go to
To obtain RepBase RepeatMasker Edition go to