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Info • Jaapia argillacea v1.0

Status

This draft release was produced using shredded consensus from Velvet-assembled Illumina data, Roche (454) standard and Roche (454) paired end. Newbler was the assembler. Gap closure with gapResolution closed 597 gaps (32%) in initial assembly. The nuclear genome sequence from this finished assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses.

Summary statistics for the Jaapia argillacea v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 45.05
Sequencing read coverage depth 20.58
# of contigs 1182
# of scaffolds 295
# of scaffolds >= 2Kbp 295
Scaffold N50 13
Scaffold L50 (Mbp) 1.09
# of gaps 887
% of scaffold length in gaps 3.9%
Three largest Scaffolds (Mbp) 3.43, 2.56, 2.07


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters EstClusters 43770 41468 94.7%


Gene Models FilteredModels1
length (bp) of: average median
gene 1668 1402
transcript 1355 1142
exon 245 152
intron 71 59
description:
protein length (aa) 394 322
exons per gene 5.53 4
# of gene models 16419


Collaborators

Genome Reference(s)

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.