Info • Pseudoidium neolycopersici MF1 v1.0


[August 2019] The Pseudoidium neolycopersici MF1 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 Pseudoidium neolycopersici MF1 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 79.94
Sequencing read coverage depth 179.37x
# of contigs 511
# of scaffolds 510
# of scaffolds >= 2Kbp 478
Scaffold N50 43
Scaffold L50 (Mbp) 0.58
# of gaps 1
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.28, 1.93, 1.64

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 333639 124792 37.4%
Ests est.fasta 311967171 172608109 55.3%

Gene Models FilteredModels2
length (bp) of: average median
gene 1708 1457
transcript 1547 1290
exon 530 309
intron 86 58
protein length (aa) 439 348
exons per gene 2.92 3
# of gene models 7104


Mary Wildermuth, University of California, Berkeley.

Shauna Somerville, University of California, Berkeley.


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.