Aythya marila

greater scaup

Included in the VGP.

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


metadata.yaml (view) (edit on github)
species:
  short_name: bAytMar
  name: Aythya marila
  taxon_id: 189534
  common_name: greater scaup
  order:
    name: Anseriformes
  family:
    name: Anatidae
  individuals:
    - short_name: bAytMar2
      biosample_id: SAMEA115433010
      sex: female
  genome_size: 1349640000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) bAytMar2 67.24 Gbp 49.82x 20.6 GiB
Arima bAytMar2 163.76 Gbp 121.34x 43.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.35 Gbp.
Last upload on 8 August 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bAytMar2 PacBio HiFi (.bam) 67.24 Gbp 49.82x 20.6 GiB
Arima 163.76 Gbp 121.34x 43.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.35 Gbp.
Last upload on 8 August 2024.
Assemblies
Individual 2 Haplotype 1 Assembly
Version assembly_cambridge from 6 August 2024
bAytMar2.hap1.asm.20240806.fasta.gz (292.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 16 7.24 Mbp 1 206.60 Mbp
20 37 5.57 Mbp 2 154.97 Mbp
30 64 4.29 Mbp 3 107.20 Mbp
40 99 3.55 Mbp 4 77.04 Mbp
50 142 2.86 Mbp 6 64.88 Mbp
60 197 2.06 Mbp 10 26.70 Mbp
70 277 1.27 Mbp 17 16.36 Mbp
80 425 0.60 Mbp 29 6.23 Mbp
90 1592 19.59 Kbp 958 19.91 Kbp
100 0 0
0.903x 1951 1.22 Gbp 1324 1.22 Gbp
NG based on genome size 1.35 Gbp.
Individual 2 Haplotype 2 Assembly
Version assembly_cambridge from 6 August 2024
bAytMar2.hap2.asm.20240806.fasta.gz (260.9 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 16 7.33 Mbp 1 206.78 Mbp
20 38 5.10 Mbp 2 156.78 Mbp
30 67 4.06 Mbp 3 119.41 Mbp
40 104 3.26 Mbp 4 76.46 Mbp
50 152 2.48 Mbp 7 31.97 Mbp
60 219 1.65 Mbp 12 21.73 Mbp
70 329 0.85 Mbp 20 11.99 Mbp
80 0 0
90 0 0
100 0 0
0.784x 1039 1.06 Gbp 491 1.06 Gbp
NG based on genome size 1.35 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 6 August 2024
bAytMar2.MT.20240806.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.