Aythya fuligula

tufted duck

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bAytFul2: GCA_009819795.1 bAytFul2: GCA_009819845.1
ENA bAytFul2: GCA_009819795.1 bAytFul2: GCA_009819845.1
UCSC Genome Browser bAytFul2: GCA_009819795.1 bAytFul2: GCA_009819845.1

metadata.yaml (view) (edit on github)
species:
  short_name: bAytFul
  name: Aythya fuligula
  taxon_id: 219594
  common_name: tufted duck
  order:
    name: Anseriformes
  family:
    name: Anatidae
  individuals:
    - short_name: bAytFul2
    - short_name: bAytFul3
      biosample_id: SAMEA113398827
      sex: female
  genome_size: 1200000000
  genome_size_method: null
  project: [ vgp ]
CC BY-SA 3.0 Charles J Sharp (wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bAytFul2 76.89 Gbp 64.07x 130.2 GiB
PacBio HiFi (.bam) bAytFul3 58.37 Gbp 48.64x 17.6 GiB
10x bAytFul2 132.96 Gbp 110.80x 58.2 GiB
Bionano bAytFul2 N/A 371.51x 0.9 GiB
Arima bAytFul2 109.64 Gbp 91.37x 55.7 GiB
bAytFul3 48.04 Gbp 40.04x 13.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.20 Gbp.
Last upload on 1 April 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bAytFul2 PacBio CLR 76.89 Gbp 64.07x 130.2 GiB
10x 132.96 Gbp 110.80x 58.2 GiB
Bionano N/A 371.51x 0.9 GiB
Arima 109.64 Gbp 91.37x 55.7 GiB
bAytFul3 PacBio HiFi (.bam) 58.37 Gbp 48.64x 17.6 GiB
Arima 48.04 Gbp 40.04x 13.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.20 Gbp.
Last upload on 1 April 2024.
Assemblies
Individual 2 Primary Assembly
Version assembly_curated from 20 September 2019
bAytFul2.pri.cur.20190920.fasta.gz (326.2 MiB)

Quality: 68.9 errors/Mb (QV=41.62)

Contigs Scaffolds
NG LG Len LG Len
10 1 50.92 Mbp 0 207.02 Mbp
20 4 37.75 Mbp 1 159.65 Mbp
30 9 22.59 Mbp 1 159.65 Mbp
40 14 21.34 Mbp 2 119.49 Mbp
50 21 16.30 Mbp 4 76.88 Mbp
60 29 13.04 Mbp 6 39.51 Mbp
70 40 9.77 Mbp 9 26.50 Mbp
80 54 6.04 Mbp 15 18.74 Mbp
90 92 1.33 Mbp 24 7.51 Mbp
100 0 0
0.931x 267 1.12 Gbp 104 1.13 Gbp
NG based on genome size 1.20 Gbp.
Individual 2 Alternate Assembly
Version assembly_curated from 20 September 2019
bAytFul2.alt.cur.20190920.fasta.gz (298.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 8 11.21 Mbp 8 11.21 Mbp
20 22 7.99 Mbp 22 7.99 Mbp
30 39 6.17 Mbp 39 6.17 Mbp
40 62 4.64 Mbp 62 4.64 Mbp
50 90 3.65 Mbp 90 3.65 Mbp
60 130 2.56 Mbp 130 2.56 Mbp
70 189 1.63 Mbp 189 1.63 Mbp
80 326 459.52 Kbp 326 459.52 Kbp
90 0 0
100 0 0
0.845x 781 1.01 Gbp 780 1.01 Gbp
NG based on genome size 1.20 Gbp.
Individual 3 Primary Assembly
Version assembly_cambridge from 10 May 2024
bAytFul3.pri.asm.20240510.fasta.gz (335.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 12 8.83 Mbp 1 207.31 Mbp
20 27 6.95 Mbp 2 159.66 Mbp
30 46 5.93 Mbp 2 159.66 Mbp
40 68 4.79 Mbp 3 119.97 Mbp
50 95 3.96 Mbp 5 75.81 Mbp
60 128 3.26 Mbp 7 39.86 Mbp
70 170 2.44 Mbp 10 26.44 Mbp
80 232 1.49 Mbp 16 17.91 Mbp
90 339 0.79 Mbp 27 6.42 Mbp
100 0 0
0.977x 1113 1.17 Gbp 532 1.17 Gbp
NG based on genome size 1.20 Gbp.
Individual 3 Alternate Assembly
Version assembly_cambridge from 10 May 2024
bAytFul3.alt.asm.20240510.fasta.gz (292.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 21 4.71 Mbp 21 4.71 Mbp
20 51 3.54 Mbp 51 3.54 Mbp
30 89 2.75 Mbp 89 2.75 Mbp
40 138 2.19 Mbp 138 2.19 Mbp
50 198 1.79 Mbp 198 1.79 Mbp
60 280 1.28 Mbp 280 1.28 Mbp
70 396 0.86 Mbp 396 0.86 Mbp
80 589 440.04 Kbp 589 440.04 Kbp
90 1137 100.31 Kbp 1137 100.31 Kbp
100 0 0
0.960x 3492 1.15 Gbp 3492 1.15 Gbp
NG based on genome size 1.20 Gbp.
Individual 3 Mitochondrial Assembly
Version assembly_MT_cambridge from 10 May 2024
bAytFul3.MT.20240510.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.