Sebastes umbrosus

honeycomb rockfish

Included in the VGP.

- S3 File Index -- S3 Interactive Viewer -- NCBI Taxonomy Browser -


Resource Primary Assembly Alternate Assembly
GenBank fSebUmb1: GCA_015220745.1 fSebUmb1: GCA_015220095.1
ENA fSebUmb1: GCA_015220745.1 fSebUmb1: GCA_015220095.1
UCSC Genome Browser fSebUmb1: GCA_015220745.1 fSebUmb1: GCA_015220095.1

metadata.yaml (view) (edit on github)
species:
  common_name: honeycomb rockfish
  family:
    name: Sebastidae
  genome_size: 1000000000
  genome_size_method: null
  individuals:
  - short_name: fSebUmb1
  name: Sebastes umbrosus
  order:
    name: Scorpaeniformes
  short_name: fSebUmb
  taxon_id: 72105
  project: [ vgp ]
Copyright David R. Andrew, used with permission
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR fSebUmb1 45.13 Gbp 45.13x 76.8 GiB
10x fSebUmb1 53.67 Gbp 53.67x 27.0 GiB
Bionano fSebUmb1 N/A 1114.12x 1.9 GiB
Arima fSebUmb1 31.45 Gbp 31.45x 12.9 GiB
Illumina fSebUmb1 42.48 Gbp 42.48x 18.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.00 Gbp.
Last upload on 26 November 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fSebUmb1 PacBio CLR 45.13 Gbp 45.13x 76.8 GiB
10x 53.67 Gbp 53.67x 27.0 GiB
Bionano N/A 1114.12x 1.9 GiB
Arima 31.45 Gbp 31.45x 12.9 GiB
Illumina 42.48 Gbp 42.48x 18.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.00 Gbp.
Last upload on 26 November 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 7 September 2020
fSebUmb1.pri.cur.20200907.fasta.gz (229.2 MiB)

Quality: 111.6 errors/Mb (QV=39.52)

Contigs Scaffolds
NG LG Len LG Len
10 4 20.90 Mbp 2 41.17 Mbp
20 9 18.80 Mbp 4 38.61 Mbp
30 15 15.67 Mbp 7 36.01 Mbp
40 23 11.45 Mbp 10 34.91 Mbp
50 33 8.30 Mbp 13 32.63 Mbp
60 47 5.85 Mbp 16 30.65 Mbp
70 69 3.49 Mbp 20 27.31 Mbp
80 0 105 39.23 Kbp
90 0 0
100 0 0
0.800x 353 0.80 Gbp 138 0.80 Gbp
NG based on genome size 1.00 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 7 September 2020
fSebUmb1.alt.cur.20200907.fasta.gz (221.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 51 1.44 Mbp 51 1.44 Mbp
20 136 0.97 Mbp 136 0.97 Mbp
30 252 0.74 Mbp 252 0.74 Mbp
40 414 0.54 Mbp 413 0.54 Mbp
50 626 400.77 Kbp 624 409.76 Kbp
60 920 280.66 Kbp 915 282.70 Kbp
70 1392 156.67 Kbp 1384 157.87 Kbp
80 0 0
90 0 0
100 0 0
0.766x 2152 0.77 Gbp 2131 0.77 Gbp
NG based on genome size 1.00 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 3 December 2019
fSebUmb1.MT.20191203.fasta.gz (5.0 KiB)

Quality: not computed
Data Use Policy

Samples and data come from a variety of sources. To support fair and productive use of this data, please abide by the Data Use Policy and contact Erich D. Jarvis, ejarvis@rockefeller.edu, with any questions.