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Info • Trichoderma longibrachiatum ATCC 18648 v3.0

Status

Assembly v3 (October 2013) is an improved assembly. Solexa gDNA reads were assembled using AllPathsLG, then gaps were closed using PacBio gDNAs and PBJelly, and finally bacterial contaminant scaffolds were removed.

Summary statistics for the Trichoderma longibrachiatum ATCC 18648 v3.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 32.24
Sequencing read coverage depth 104x
# of contigs 1460
# of scaffolds 130
# of scaffolds >= 2Kbp 92
Scaffold N50 7
Scaffold L50 (Mbp) 1.61
# of gaps 1330
% of scaffold length in gaps 3.2%
Three largest Scaffolds (Mbp) 3.30, 2.89, 2.67


RNASeq reads were extracted from a mixed culture of Trichoderma longibrachiatum and T. citrinioviride, predominatantly the former.
ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests NCBI_Sanger_ESTs 1807 32 0.0%
Other JGI_RNA_contigs 28133 25504 90.7%


Gene Models FilteredModels1
length (bp) of: average median
gene 1686 1396
transcript 1482 1200
exon 546 340
intron 121 72
description:
protein length (aa) 428 336
exons per gene 2.71 2
# of gene models 10938


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.