RT Journal
A1 Pevzner, Paul A.
A1 Tang, Haixu
A1 Tesler, Glenn
T1 De Novo Repeat Classification and Fragment Assembly
JF Genome Research 
JO Genome Research 
YR 2004 
FD September 01 
VO 14 
IS 9 
SP 1786 
OP 1796 
DO 10.1101/gr.2395204 
UL http://genome.cshlp.org/content/14/9/1786.abstract 
AB Repetitive sequences make up a significant fraction of almost any genome, and an important and still open question in bioinformatics is how to represent all repeats in DNA sequences. We propose a new approach to repeat classification that represents all repeats in a genome as a mosaic of sub-repeats. Our key algorithmic idea also leads to new approaches to multiple alignment and fragment assembly. In particular, we show that our FragmentGluer assembler improves on Phrap and ARACHNE in assembly of BACs and bacterial genomes.