In:
Genome Research, Cold Spring Harbor Laboratory, Vol. 12, No. 5 ( 2002-05-01), p. 824-831
Kurzfassung:
We describe a sequence assembler, RePS (repeat-masked Phrap with scaffolding), that explicitly identifies exact 20mer repeats from the shotgun data and removes them prior to the assembly. The established software Phrap is used to compute meaningful error probabilities for each base. Clone-end-pairing information is used to construct scaffolds that order and orient the contigs. We show with real data for human and rice that reasonable assemblies are possible even at coverages of only 4× to 6×, despite having up to 42.2% in exact repeats. [The following individuals kindly provided reagents, samples, or unpublished information as indicated in the paper: P. Green and A.F. Smit.]
Materialart:
Online-Ressource
ISSN:
1088-9051
,
1549-5469
Sprache:
Englisch
Verlag:
Cold Spring Harbor Laboratory
Publikationsdatum:
2002
ZDB Id:
1483456-X
SSG:
12