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Info • Plectosphaerella cucumerina MPI-SDFR-AT-0117 v2.0

Status

[February 2020] The Plectosphaerella cucumerina MPI-SDFR-AT-0117 v2.0 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 Plectosphaerella cucumerina v2.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 35.75
Sequencing read coverage depth 248.39x
# of contigs 113
# of scaffolds 113
# of scaffolds >= 2Kbp 112
Scaffold N50 17
Scaffold L50 (Mbp) 0.77
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.56, 1.28, 1.19


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 60051 28122 46.8%
Ests est.fasta 137971945 137504091 99.7%


Gene Models FilteredModels1
length (bp) of: average median
gene 1784 1569
transcript 1638 1442
exon 569 342
intron 80 58
description:
protein length (aa) 482 415
exons per gene 2.88 2
# of gene models 12430


Collaborators

Francis M. Martin, INRA, France.

Joseph Spatafora, Oregon State University, USA

Funding

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.