Info • Cucurbitaria berberidis CBS 394.84 v1.0


[Dec 2012] The Cucurbitaria berberidis CBS 394.8 genome was sequenced using the Illumina platform and assembled with AllPathsLG release version R42328 (Gnerre et al., 2010).   

A 52 Kb mitochondrial genome was assembled separately and is available in the download section.

Summary statistics for the Cucurbitaria berberidis CBS 394.84 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 32.91
Sequencing read coverage depth 145.7x
# of contigs 184
# of scaffolds 42
# of scaffolds >= 2Kbp 25
Scaffold N50 3
Scaffold L50 (Mbp) 6.23
# of gaps 142
% of scaffold length in gaps 0.3%
Three largest Scaffolds (Mbp) 7.25, 6.95, 6.23

ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests RNNotator assembled Illumina ESTs 29725 29302 98.6%

Gene Models FilteredModels1
length (bp) of: average median
gene 1712 1465
transcript 1567 1345
exon 577 363
intron 87 57
protein length (aa) 460 383
exons per gene 2.71 2
# of gene models 12439


Joseph Spatafora, Oregon State University, USA
Pedro Crous and Manfred Binder at CBS-KNAW, The Netherlands.

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.