Squalius cephalus

European chub

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fSquCep2: GCA_949319135.1 fSquCep2: GCA_949319155.1
ENA fSquCep2: GCA_949319135.1 fSquCep2: GCA_949319155.1
UCSC Genome Browser fSquCep2: GCA_949319135.1 fSquCep2: GCA_949319155.1

metadata.yaml (view) (edit on github)
species:
  short_name: fSquCep
  name: Squalius cephalus
  taxon_id: 8284
  common_name: European chub
  order:
    name: Cypriniformes
  family:
    name: Cyprinidae
  individuals:
    - short_name: fSquCep2
      biosample_id: SAMEA11296547
      sex:
  genome_size: 1300740000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) fSquCep2 50.82 Gbp 39.07x 179.0 GiB
Arima fSquCep2 142.26 Gbp 109.37x 42.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.30 Gbp.
Last upload on 11 February 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fSquCep2 PacBio HiFi (.bam) 50.82 Gbp 39.07x 179.0 GiB
Arima 142.26 Gbp 109.37x 42.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.30 Gbp.
Last upload on 11 February 2023.
Assemblies
Individual 2 Primary Assembly
Version assembly_curated from 16 August 2023
fSquCep2.pri.cur.20230816.fasta.gz (307.5 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 18 5.90 Mbp 2 64.82 Mbp
20 43 4.76 Mbp 5 51.32 Mbp
30 73 4.10 Mbp 7 48.07 Mbp
40 108 3.20 Mbp 10 45.67 Mbp
50 153 2.55 Mbp 13 39.40 Mbp
60 213 1.87 Mbp 17 37.31 Mbp
70 294 1.36 Mbp 20 36.00 Mbp
80 430 0.60 Mbp 24 31.98 Mbp
90 0 0
100 0 0
0.847x 694 1.10 Gbp 106 1.10 Gbp
NG based on genome size 1.30 Gbp.
Individual 2 Alternate Assembly
Version assembly_curated from 16 August 2023
fSquCep2.alt.cur.20230816.fasta.gz (276.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 117 0.80 Mbp 116 0.80 Mbp
20 318 0.54 Mbp 316 0.54 Mbp
30 604 386.38 Kbp 601 387.18 Kbp
40 1009 270.25 Kbp 1005 272.02 Kbp
50 1596 180.96 Kbp 1590 181.60 Kbp
60 2594 92.45 Kbp 2584 92.57 Kbp
70 4935 37.39 Kbp 4923 37.41 Kbp
80 0 0
90 0 0
100 0 0
0.753x 7437 0.98 Gbp 7425 0.98 Gbp
NG based on genome size 1.30 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 12 February 2023
fSquCep2.MT.20230212.fasta.gz (5.4 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.