Spatula clypeata

Northern Shoveler

Included in the VGP.

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


metadata.yaml (view) (edit on github)
species:
  short_name: bSpaCly
  name: Spatula clypeata
  taxon_id: 75838
  common_name: Northern Shoveler
  order:
    name: Anseriformes
  family:
    name: Anatidae
  individuals:
    - short_name: bSpaCly1
      biosample_id: SAMEA115433011
      sex: male
  genome_size: 1378980000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) bSpaCly1 66.30 Gbp 48.08x 23.9 GiB
Arima bSpaCly1 70.09 Gbp 50.83x 18.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.38 Gbp.
Last upload on 20 July 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bSpaCly1 PacBio HiFi (.bam) 66.30 Gbp 48.08x 23.9 GiB
Arima 70.09 Gbp 50.83x 18.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.38 Gbp.
Last upload on 20 July 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_cambridge from 20 July 2024
bSpaCly1.hap1.asm.20240720.fasta.gz (291.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 13 8.26 Mbp 1 206.96 Mbp
20 31 6.97 Mbp 2 158.23 Mbp
30 53 5.45 Mbp 3 119.29 Mbp
40 83 4.09 Mbp 4 85.52 Mbp
50 121 3.25 Mbp 6 64.83 Mbp
60 170 2.30 Mbp 10 26.47 Mbp
70 239 1.71 Mbp 16 20.13 Mbp
80 344 0.92 Mbp 29 4.29 Mbp
90 0 0
100 0 0
0.900x 1011 1.24 Gbp 561 1.24 Gbp
NG based on genome size 1.38 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_cambridge from 20 July 2024
bSpaCly1.hap2.asm.20240720.fasta.gz (286.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 13 8.53 Mbp 1 206.56 Mbp
20 30 7.14 Mbp 2 158.67 Mbp
30 52 5.49 Mbp 3 118.93 Mbp
40 83 4.10 Mbp 4 84.02 Mbp
50 120 3.32 Mbp 6 64.95 Mbp
60 169 2.29 Mbp 10 26.84 Mbp
70 241 1.59 Mbp 16 20.13 Mbp
80 369 0.62 Mbp 31 2.75 Mbp
90 0 0
100 0 0
0.868x 1093 1.20 Gbp 626 1.20 Gbp
NG based on genome size 1.38 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_cambridge from 20 July 2024
bSpaCly1.MT.20240720.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.