Info • Thanatephorus cucumeris MPI-SDFR-AT-0096 v1.0


[May 2017] The Thanatephorus cucumeris MPI-SDFR-AT-0096 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Thanatephorus cucumeris v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 45.80
Sequencing read coverage depth 119.32x
# of contigs 343
# of scaffolds 343
# of scaffolds >= 2Kbp 332
Scaffold N50 11
Scaffold L50 (Mbp) 1.42
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.54, 3.04, 2.66

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 58500 57463 98.2%
Ests est.fasta 94176280 93565490 99.4%

Gene Models FilteredModels1
length (bp) of: average median
gene 1849 1601
transcript 1492 1275
exon 221 140
intron 64 56
protein length (aa) 431 355
exons per gene 6.77 6
# of gene models 12955


Francis M. Martin, INRA, France.

Joseph Spatafora, Oregon State University, USA

Genome Reference(s)


The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.