TERMINUS--Telomeric End-Read Mining IN Unassembled Sequences.
TERMINUS is a set of tools to map telomeres on draft sequences of whole genome shotgun sequencing projects. It mines raw sequence reads (from a trace archive) for telomeric reads, assembles them into contigs representing individual chromosome ends and BLASTs the resulting consensus sequences against the genome assembly to identify telomere-proximal genomic contigs. Finally, it estimates the sizes of telomeric gaps and identifies clones for gap closure. TERMINUS is implemented as a set of Perl scripts that requires two sets of inputs: the NCBI Trace Archive files for a given genome project; and ancillary genome assembly information. Results are output in spreadsheets containing information that facilitates manual validation.


BACKGROUND
The TERMINUS package and supplementary information can be downloaded from http://www.genome.kbrin.uky.edu/fungi_tel/terminus/


BACKGROUND
farman@uky.edu.
Li
Weixi
W
Department of Biological Sciences, University of Kentucky, Lexington, KY 40546, USA.
Rehmeyer
Cathryn J
CJ
Staben
Chuck
C
Farman
Mark L
ML
D000465:Algorithms; D002874:Chromosome Mapping / Q000379:methods*; D003628:Database Management Systems; D030541:Databases, Genetic; D016247:Information Storage and Retrieval / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D016615:Telomere / Q000235:genetics*; D014584:User-Computer Interface