Gadus morhua

Atlantic cod

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fGadMor3: GCA_902167405.1 fGadMor3: GCA_902167395.1
ENA fGadMor3: GCA_902167405.1 fGadMor3: GCA_902167395.1
UCSC Genome Browser fGadMor3: GCA_902167405.1 fGadMor3: GCA_902167395.1

metadata.yaml (view) (edit on github)
species:
  short_name: fGadMor
  name: Gadus morhua
  taxon_id: 8049
  common_name: Atlantic cod
  order:
    name: Gadiformes
  family:
    name: Gadidae
  individuals:
    - short_name: fGadMor1
      biosample_id: SAMEA5574046
      sex:
  genome_size:
  genome_size_method:
  project: [ vgp ]
CC BY-SA 4.0, Hans Hillewaert (wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR fGadMor1 87.34 Gbp 130.37x 271.7 GiB
10x fGadMor1 111.84 Gbp 166.94x 73.6 GiB
Bionano fGadMor1 N/A 1416.82x 1.1 GiB
Arima fGadMor1 106.89 Gbp 159.54x 69.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.67 Gbp.
Last upload on 1 May 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fGadMor1 PacBio CLR 87.34 Gbp 130.37x 271.7 GiB
10x 111.84 Gbp 166.94x 73.6 GiB
Bionano N/A 1416.82x 1.1 GiB
Arima 106.89 Gbp 159.54x 69.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.67 Gbp.
Last upload on 1 May 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 10 July 2019
fGadMor1.pri.cur.20190710.fasta.gz (180.5 MiB)

Quality: 97.4 errors/Mb (QV=40.11)

Contigs Scaffolds
NG LG Len LG Len
10 12 3.75 Mbp 1 34.79 Mbp
20 35 2.28 Mbp 3 30.95 Mbp
30 67 1.71 Mbp 5 30.88 Mbp
40 111 1.27 Mbp 8 29.59 Mbp
50 168 1.02 Mbp 10 28.73 Mbp
60 240 0.77 Mbp 12 27.76 Mbp
70 336 0.58 Mbp 15 25.30 Mbp
80 471 378.81 Kbp 17 24.90 Mbp
90 691 221.23 Kbp 20 22.36 Mbp
100 1441 1 bp 225 3.51 Kbp
1.000x 1442 0.65 Gbp 226 0.67 Gbp
NG based on genome size 0.67 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 10 July 2019
fGadMor1.alt.cur.20190710.fasta.gz (163.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 57 0.76 Mbp 57 0.76 Mbp
20 152 0.54 Mbp 152 0.54 Mbp
30 275 421.20 Kbp 275 421.20 Kbp
40 430 340.42 Kbp 430 340.87 Kbp
50 621 278.23 Kbp 620 278.68 Kbp
60 853 225.45 Kbp 853 225.45 Kbp
70 1142 181.36 Kbp 1142 181.36 Kbp
80 1515 134.84 Kbp 1514 134.97 Kbp
90 2063 82.64 Kbp 2061 82.74 Kbp
100 3594 252 bp 3591 252 bp
1.000x 3595 0.58 Gbp 3592 0.58 Gbp
NG based on genome size 0.67 Gbp.
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.