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Info • Aspergillus carbonarius ITEM 5010 v3

Status

Assembly v3 (14 Dec 2009) is a 'hybrid' assembly of 454 and Sanger,gDNA reads improved by the JGI Finishing Pipeline. 963 scaffolds and 36.3 Mbp were assembled :

Nuclear Genome Assembly v3.0

Main genome scaffold total 963
Main genome contig total 1346
Main genome scaffold sequence total 36.3 Mbp
Main genome contig sequence total 34.2 Mbp
Estimated % sequence bases in gaps 5.6 %
Main genome scaffold N50 / L50 8 / 1.8 Mbp
Main genome contig N50 / L50 80 / 131.2 kbp
Number of scaffolds >50 Kbp 28
% main genome in scaffolds >50 93.0%
Percent GC 51%
Coverage 17.78X

Annotation v3 (14 Dec 2009) is a consensus gene set predicted by the JGI Annotation Pipeline, using a variety of cDNA-based , protein-based, and ab initio gene modelers. After filtering for homology and expression support, a total of 11624 genes were structurally and functionally annotated:

Nuclear Genome Annotation v3.0

# of genes 11624
Gene density 320.3 genes / Mbp scaffold
Ave.gene length 2241.3 nt
Ave. protein length 460.2 aa
Ave. exon frequency 3,5 exons / gene
% genes with introns 83%
% models with start+stop codons 94%
% genes with NR hits 95%
% genes with Pfam domains 64%
% genes with TM domains 21%
% genes with ESTs 91%
% genes in multigene families 63%

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 .