ReRep: computational detection of repetitive sequences in genome survey sequences (GSS).

ABSTRACT:

Background

Genome survey sequences (GSS) offer a preliminary global view of a genome since, unlike ESTs, they cover coding as well as non-coding DNA and include repetitive regions of the genome. A more precise estimation of the nature, quantity and variability of repetitive sequences very early in a genome sequencing project is of considerable importance, as such data strongly influence the estimation of genome coverage, library quality and progress in scaffold construction. Also, the elimination of repetitive sequences from the initial assembly process is important to avoid errors and unnecessary complexity. Repetitive sequences are also of interest in a variety of other studies, for instance as molecular markers.

Results

We designed and implemented a straightforward pipeli

SUBMITTER: Otto TD 

PROVIDER: S-EPMC2559850 | biostudies-literature | 2008 Sep

REPOSITORIES: biostudies-literature