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Info • Hanseniaspora nectarophila Y1191 v1.0

Status

[November 2020] The Hanseniaspora nectarophila Y1191 v1.0 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Hanseniaspora nectarophila Y1191 is likely a diploid genome, and this is reflected in an assembly and annotation with significant separation of alleles. Many of the smaller scaffolds are very similar to larger scaffolds and are predicted to constitute an alternate or secondary haplotype. To represent these primary and secondary haplotypes in the Portal, we have created 'primary alleles' and 'secondary alleles' gene model tracks, comprising the models found on each haplotype. The goal of the GeneCatalog (GC) is to produce a non-redundant set of models which captures the full functional repertoire of the genome, and so the few secondary alleles that are unique were included in the GC, while all others were not.

Summary statistics for the Hanseniaspora nectarophila v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 20.16
Sequencing read coverage depth 755.17x
# of contigs 104
# of scaffolds 104
# of scaffolds >= 2Kbp 104
Scaffold N50 25
Scaffold L50 (Mbp) 0.22
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.00, 0.88, 0.70


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 8158 6791 83.2%
Ests est.fasta 111542629 108723878 97.5%


Gene Models FilteredModels2
length (bp) of: average median
gene 1672 1448
transcript 1608 1390
exon 924 662
intron 88 47
description:
protein length (aa) 476 399
exons per gene 1.74 1
# of gene models 4288


Collaborators

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.