Info • Chlorokybus atmophyticus CCAC 0220

Status

The Chlorokybus atmophyticus CCAC 0220 genome assembly and gene models have not been determined by the JGI, but were downloaded from the CNGB Nucleotide Sequence Archive (accession CNP0000228) on July 21, 2020. In order to ensure this genome is comparable to those sequenced by the JGI, we applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, 4) alleles on secondary scaffolds and 5) unsupported short models. This resulted in the removal of 607 models and the generation of the FilteredModels1 (GeneCatalog) gene track. All published models are available in the ExternalModels track. Please note that this copy of the genome is not maintained by CNGB and is therefore not automatically updated. In order to allow comparative analyses with other algal genomes sequenced by the JGI, a copy of this genome is incorporated into PhycoCosm. The JGI Annotation Pipeline was used to add functional annotation to the genes.

Genome Assembly
Genome Assembly size (Mbp) 74.34
Sequencing read coverage depth 775.68X
# of contigs 6220
# of scaffolds 3836
# of scaffolds >= 2Kbp 399
Scaffold N50 30
Scaffold L50 (Mbp) 0.75
# of gaps 2384
% of scaffold length in gaps 2.5%
Three largest Scaffolds (Mbp) 2.71, 1.99, 1.98


Gene Models FilteredModels1
length (bp) of: average median
gene 2657 2291
transcript 1448 1173
exon 173 127
intron 166 109
description:
protein length (aa) 483 391
exons per gene 8.35 7
# of gene models 8693


Genome Reference(s)

Funding

This project was not sequenced at the JGI.