Info • Trichoderma citrinoviride TUCIM 6016 v4.0


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 citrinoviride v4.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 33.22
Sequencing read coverage depth 63.1x
# of contigs 699
# of scaffolds 533
# of scaffolds >= 2Kbp 200
Scaffold N50 7
Scaffold L50 (Mbp) 1.85
# of gaps 166
% of scaffold length in gaps 0.2%
Three largest Scaffolds (Mbp) 3.29, 2.90, 2.85

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
Other JGI_RNA_contigs 28133 1192 4.2%

Gene Models FilteredModels1
length (bp) of: average median
gene 1702 1406
transcript 1481 1227
exon 477 255
intron 107 72
protein length (aa) 484 399
exons per gene 3.10 3
# of gene models 9737

Genome Reference(s)


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.