Due to a planned NERSC power outage, JGI portals will be unavailable 6:00am PDT July 10 - 11:59pm PDT July 14. System Status updates available here.
Info • Usnea florida ATCC18376 v1.0

Status

Assembly v1 (June 2015) is a standard draft assembly of Illumina gDNA reads using AllPathsLG.

Annotation v1 (April 2016) is a standard draft annotation using Illumina RNA-Seq reads assembled with Trinity and modeled and filtered by the JGI Annotation Pipeline.

Summary statistics for the Usnea florida ATCC18376 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 44.32
Sequencing read coverage depth 87.6x
# of contigs 1774
# of scaffolds 274
# of scaffolds >= 2Kbp 195
Scaffold N50 29
Scaffold L50 (Mbp) 0.50
# of gaps 1500
% of scaffold length in gaps 5.9%
Three largest Scaffolds (Mbp) 1.34, 1.02, 1.02


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 58417 55842 95.6%
Ests est.fasta 109440685 105175194 96.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 1722 1464
transcript 1549 1296
exon 501 299
intron 84 60
description:
protein length (aa) 454 366
exons per gene 3.09 3
# of gene models 12649


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.