Denticeps clupeoides

denticle herring

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fDenClu1: GCA_900700375.2 fDenClu1: GCA_900700345.2
ENA fDenClu1: GCA_900700375.2 fDenClu1: GCA_900700345.2
UCSC Genome Browser fDenClu1: GCA_900700375.2 fDenClu1: GCA_900700345.2

metadata.yaml (view) (edit on github)
species:
  short_name: fDenClu
  name: Denticeps clupeoides
  taxon_id: 299321
  common_name: denticle herring
  order:
    name: Clupeiformes
  family:
    name: Denticipitidae
  individuals:
    - short_name: fDenClu1
  genome_size:
  genome_size_method:
  project: [ vgp ]
Copyright Ralf Britz/NHM, used with permission
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR fDenClu1 36.64 Gbp 64.57x 64.2 GiB
10x fDenClu1 117.70 Gbp 207.43x 73.0 GiB
Bionano fDenClu1 N/A 1270.66x 1.0 GiB
Arima fDenClu1 54.73 Gbp 96.45x 27.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.57 Gbp.
Last upload on 2 September 2018.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fDenClu1 PacBio CLR 36.64 Gbp 64.57x 64.2 GiB
10x 117.70 Gbp 207.43x 73.0 GiB
Bionano N/A 1270.66x 1.0 GiB
Arima 54.73 Gbp 96.45x 27.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.57 Gbp.
Last upload on 2 September 2018.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 5 March 2019
fDenClu1.pri.cur.20190305.fasta.gz (162.2 MiB)

Quality: 107.2 errors/Mb (QV=39.70)

Contigs Scaffolds
NG LG Len LG Len
10 5 7.60 Mbp 1 39.02 Mbp
20 14 6.22 Mbp 2 36.91 Mbp
30 24 4.99 Mbp 4 34.21 Mbp
40 36 3.91 Mbp 6 25.34 Mbp
50 52 3.06 Mbp 8 22.79 Mbp
60 74 2.25 Mbp 11 22.54 Mbp
70 105 1.57 Mbp 14 21.43 Mbp
80 150 0.94 Mbp 16 20.35 Mbp
90 261 252.12 Kbp 19 19.30 Mbp
100 923 193 bp 459 8.88 Kbp
1.000x 924 0.56 Gbp 460 0.57 Gbp
NG based on genome size 0.57 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 5 March 2019
fDenClu1.alt.cur.20190305.fasta.gz (133.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 30 1.16 Mbp 30 1.16 Mbp
20 79 0.80 Mbp 79 0.80 Mbp
30 146 0.61 Mbp 146 0.61 Mbp
40 229 497.30 Kbp 229 497.30 Kbp
50 333 384.27 Kbp 333 384.27 Kbp
60 465 309.83 Kbp 465 309.83 Kbp
70 630 244.54 Kbp 630 244.59 Kbp
80 848 176.35 Kbp 848 176.65 Kbp
90 1159 115.29 Kbp 1158 115.32 Kbp
100 1975 164 bp 1971 191 bp
1.000x 1976 457.70 Mbp 1972 457.70 Mbp
NG based on genome size 0.57 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 2 October 2019
fDenClu1.MT.20191002.fasta.gz (5.1 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.