Due to the emerging COVID-19 pandemic, JGI will not be accepting or processing any samples because of reduced onsite staffing until further notice.
Info • Aspergillus carbonarius v1.0
Please note that this organism is for archival use only. Please see the current Aspergillus carbonarius ITEM 5010 v3 site for the latest data and information.

Status

Assembly v1 (19 May 2009) is a 'hybrid' assembly of 454 and Sanger gDNA reads. 88 scaffolds and 34.9 Mbp were assembled using Newbler v2 with an average coverage of 16.38X.

Nuclear Genome Assembly v1.0:

Scaffold total: 873
Contig totall: 7508
Scaffold sequence total: 34.9 Mb
Contig sequence total: 33.2 MB (-> 4.9% gaps)
Scaffold N50: 1.8 Mb
Contig N50: 69.6 Kb
Number of scaffolds > 50 KB: 26
% in scaffolds >50 KB: 92.2%
Percent GC: 51

Annotation v1 (19 May 2009) of the v1.0 assembly was produced by the JGI Annotation Pipeline, using a variety of homology-based and ab initio gene predictors. After filtering for homology support, a total of 10238 genes were structurally and functionally annotated.

Nuclear Genome Annotation v1.0

# gene models: 10238
Gene density: 294 genes per Mbp
Ave. gene length: 1702 nt
Ave. protein length: 504 aa
Ave. exon frequency: 3.2 exons per gene
Ave. exon length: 468 nt
Ave. intron length: 88 nt
% complete gene models
(with start and stop codons)
95%
% genes with homology support 99%
% genes with Pfam domains: 68%

Collaborators

Links

Funding

This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory under contract No. DE-AC02-05CH11231, Lawrence Livermore National Laboratory under Contract No. DE-AC52-07NA27344, and Los Alamos National Laboratory under contract No. DE-AC02-06NA25396 .