Pungitius pungitius

ninespine stickleback

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fPunPun2: GCA_949316345.1 fPunPun2: GCA_949316245.1
ENA fPunPun2: GCA_949316345.1 fPunPun2: GCA_949316245.1
UCSC Genome Browser fPunPun2: GCA_949316345.1 fPunPun2: GCA_949316245.1

metadata.yaml (view) (edit on github)
species:
  short_name: fPunPun
  name: Pungitius pungitius
  taxon_id: 134920
  common_name: ninespine stickleback
  order:
    name: Gasterosteiformes
  family:
    name: Gasterosteidae
  individuals:
    - short_name: fPunPun2
      biosample_id: SAMEA11296545
      sex: male
  genome_size: 625920000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) fPunPun2 25.35 Gbp 40.50x 89.6 GiB
Arima fPunPun2 108.54 Gbp 173.41x 33.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.63 Gbp.
Last upload on 9 February 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fPunPun2 PacBio HiFi (.bam) 25.35 Gbp 40.50x 89.6 GiB
Arima 108.54 Gbp 173.41x 33.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.63 Gbp.
Last upload on 9 February 2023.
Assemblies
Individual 2 Primary Assembly
Version assembly_curated from 16 August 2023
fPunPun2.pri.cur.20230816.fasta.gz (132.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 12 3.69 Mbp 2 34.23 Mbp
20 33 2.66 Mbp 4 25.92 Mbp
30 62 1.72 Mbp 7 22.49 Mbp
40 105 1.29 Mbp 10 21.01 Mbp
50 162 0.92 Mbp 13 19.61 Mbp
60 248 0.60 Mbp 16 18.95 Mbp
70 410 237.97 Kbp 20 16.73 Mbp
80 0 0
90 0 0
100 0 0
0.767x 913 480.30 Mbp 175 480.45 Mbp
NG based on genome size 0.63 Gbp.
Individual 2 Alternate Assembly
Version assembly_curated from 16 August 2023
fPunPun2.alt.cur.20230816.fasta.gz (115.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 32 1.51 Mbp 32 1.51 Mbp
20 85 0.92 Mbp 85 0.92 Mbp
30 170 0.62 Mbp 170 0.62 Mbp
40 300 387.04 Kbp 300 387.04 Kbp
50 512 223.08 Kbp 512 223.08 Kbp
60 955 80.92 Kbp 955 80.92 Kbp
70 0 0
80 0 0
90 0 0
100 0 0
0.660x 1934 413.34 Mbp 1934 413.34 Mbp
NG based on genome size 0.63 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 26 January 2023
fPunPun2.MT.20230126.fasta.gz (5.3 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.