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Info • Schizopora paradoxa KUC8140 v1.0

Status

Dec 2013. The Schizopora paradoxa KUC8140 genome was sequenced using the Illumina platform and subsequently assembled with AllPathsLG release version R44008 (Gnerre et al., 2010) to produce an assembly that was used as input to PBJelly for PacBio patching. The genome was annotated with the JGI annotation pipeline and custom analyses.

Summary statistics for the Schizopora paradoxa KUC8140 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 44.41
Sequencing read coverage depth 133.3x
# of contigs 1374
# of scaffolds 1291
# of scaffolds >= 2Kbp 988
Scaffold N50 103
Scaffold L50 (Mbp) 0.12
# of gaps 51
% of scaffold length in gaps 0.1%
Three largest Scaffolds (Mbp) 1.18, 0.79, 0.55


ESTs Data set # sequences total # mapped to genome % mapped to genome
Other EST_contigs 37696 36437 96.7%


Gene Models FilteredModels1
length (bp) of: average median
gene 1735 1497
transcript 1419 1200
exon 246 145
intron 68 58
description:
protein length (aa) 413 339
exons per gene 5.78 4
# of gene models 17098


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.