Info • Lineolata rhizophorae ATCC 16933 v1.0

Status

[April 2016] The Lineolata rhizophorae ATCC 16933 genome was sequenced using the Illumina platform and assembled with AllPathsLG release version R49403 (Gnerre et al., 2011).
Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Lineolata rhizophorae v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 31.14
Sequencing read coverage depth 97.8x
# of contigs 426
# of scaffolds 68
# of scaffolds >= 2Kbp 58
Scaffold N50 11
Scaffold L50 (Mbp) 1.11
# of gaps 358
% of scaffold length in gaps 1.9%
Three largest Scaffolds (Mbp) 2.16, 1.61, 1.58


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 38553 37125 96.3%
Ests est.fasta 117112025 114091378 97.4%


Gene Models FilteredModels1
length (bp) of: average median
gene 1720 1444
transcript 1524 1251
exon 522 322
intron 104 72
description:
protein length (aa) 433 339
exons per gene 2.92 3
# of gene models 10230


Collaborators

Jon Magnuson, Pacific Northwest National Laboratory, USA

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.