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Info • Rhizophagus irregularis DAOM 181602 v1.0

Status

Assembly v1 (March 2012) is a draft assembly of Solexa, 454, and Sanger gDNA reads. A total of 28371 scaffolds and 91.1 Mbp were assembled by INRA using CLC Genomic Workbench.

Summary statistics for the Rhizophagus irregulare v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 91.08
Sequencing read coverage depth 0x
# of contigs 28405
# of scaffolds 28371
# of scaffolds >= 2Kbp 15535
Scaffold N50 5997
Scaffold L50 (kbp) 4.19
# of gaps 38
% of scaffold length in gaps 0.3%
Three largest Scaffolds (Mbp) 0.06, 0.06, 0.06


RNAs Data set # sequences total # mapped to genome % mapped to genome
Ests 454_ESTs 365294 291958 79.9%
Ests Sanger_ESTs 40364 29552 73.2%
RNA contigs 454_and_Sanger_EST_contigs 25906 18871 72.8%
RNA contigs Combest_RNA_contigs 121068 109128 90.1%
RNA contigs Solexa_RNA_contigs 26503 19252 72.6%


Gene Models FilteredModels1
length (bp) of: average median
gene 1188 933
transcript 890 667
exon 257 151
intron 123 81
description:
protein length (aa) 270 194
exons per gene 3.46 2
# of gene models 30282


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.