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Info • Xanthoria parietina 46-1-SA22 v1.1

Status

Assembly v1.0 (January 2011) is a draft assembly of 454 gDNA reads and shredded Velvet contigs. The latter were assembled from Solexa gDNA reads. A total of 39 scaffolds and 31.9 Mbp were assembled using Newbler.

Annotation v1.1 (October 2014) is a draft annotation using RNASeq data available September 2014.

Summary statistics for the Xanthoria parietina 46-1-SA22 v1.1 release are below.
Genome Assembly
Genome Assembly size (Mbp) 31.90
Sequencing read coverage depth 43.84x
# of contigs 302
# of scaffolds 39
# of scaffolds >= 2Kbp 39
Scaffold N50 7
Scaffold L50 (Mbp) 1.73
# of gaps 263
% of scaffold length in gaps 0.3%
Three largest Scaffolds (Mbp) 3.93, 2.80, 2.31


ESTs Data set # sequences total # mapped to genome % mapped to genome
Other JGI_lichen_RNA_contigs 239449 34663 14.5%
Other JGI_mycobiont_RNA_contigs 27817 26125 93.9%


Gene Models FilteredModels1
length (bp) of: average median
gene 1691 1437
transcript 1529 1269
exon 510 302
intron 83 59
description:
protein length (aa) 434 342
exons per gene 3.00 3
# of gene models 11065


Collaborators

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.