Cygnus olor

mute swan

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bCygOlo1: GCA_009769625.2 bCygOlo1: GCA_009769485.2
ENA bCygOlo1: GCA_009769625.2 bCygOlo1: GCA_009769485.2
UCSC Genome Browser bCygOlo1: GCA_009769625.2 bCygOlo1: GCA_009769485.2

metadata.yaml (view) (edit on github)
species:
  short_name: bCygOlo
  name: Cygnus olor
  taxon_id: 8869
  common_name: mute swan
  order:
    name: Anseriformes
  family:
    name: Anatidae
  individuals:
    - short_name: bCygOlo1
    - short_name: bCygOlo2
      biosample_id: SAMEA113398849
      sex: male
  genome_size: 1480000000
  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 bCygOlo1 89.10 Gbp 60.20x 155.2 GiB
PacBio HiFi (.bam) bCygOlo2 59.91 Gbp 40.48x 17.4 GiB
10x bCygOlo1 73.81 Gbp 49.87x 37.6 GiB
Bionano bCygOlo1 N/A 348.05x 809.3 MiB
Arima bCygOlo1 96.55 Gbp 65.23x 62.0 GiB
bCygOlo2 61.36 Gbp 41.46x 18.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.48 Gbp.
Last upload on 5 March 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bCygOlo1 PacBio CLR 89.10 Gbp 60.20x 155.2 GiB
10x 73.81 Gbp 49.87x 37.6 GiB
Bionano N/A 348.05x 809.3 MiB
Arima 96.55 Gbp 65.23x 62.0 GiB
bCygOlo2 PacBio HiFi (.bam) 59.91 Gbp 40.48x 17.4 GiB
Arima 61.36 Gbp 41.46x 18.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.48 Gbp.
Last upload on 5 March 2024.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 30 November 2020
bCygOlo1.pri.cur.20201130.fasta.gz (329.2 MiB)

Quality: 154.4 errors/Mb (QV=38.11)

Contigs Scaffolds
NG LG Len LG Len
10 6 19.51 Mbp 0 209.52 Mbp
20 15 14.59 Mbp 1 160.82 Mbp
30 26 11.46 Mbp 2 121.08 Mbp
40 41 7.74 Mbp 4 77.82 Mbp
50 65 4.99 Mbp 6 40.61 Mbp
60 104 2.98 Mbp 11 22.22 Mbp
70 190 0.93 Mbp 19 12.20 Mbp
80 0 0
90 0 0
100 0 0
0.760x 621 1.12 Gbp 170 1.13 Gbp
NG based on genome size 1.48 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 30 November 2020
bCygOlo1.alt.cur.20201130.fasta.gz (238.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 149 0.74 Mbp 149 0.74 Mbp
20 408 461.45 Kbp 408 461.45 Kbp
30 811 293.21 Kbp 811 293.21 Kbp
40 1468 165.22 Kbp 1468 165.59 Kbp
50 3123 48.93 Kbp 3122 48.95 Kbp
60 0 0
70 0 0
80 0 0
90 0 0
100 0 0
0.550x 5640 0.81 Gbp 5626 0.81 Gbp
NG based on genome size 1.48 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 28 September 2019
bCygOlo1.MT.20190928.fasta.gz (5.4 KiB)

Quality: not computed
Individual 2 Haplotype 1 Assembly
Version assembly_cambridge from 8 March 2024
bCygOlo2.hap1.asm.20240308.fasta.gz (320.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 18 6.61 Mbp 1 212.12 Mbp
20 44 4.97 Mbp 2 160.61 Mbp
30 78 3.75 Mbp 3 123.17 Mbp
40 123 2.97 Mbp 5 75.86 Mbp
50 179 2.31 Mbp 7 41.15 Mbp
60 256 1.64 Mbp 12 23.12 Mbp
70 369 1.04 Mbp 19 14.53 Mbp
80 572 466.90 Kbp 63 1.04 Mbp
90 0 0
100 0 0
0.875x 1549 1.30 Gbp 828 1.30 Gbp
NG based on genome size 1.48 Gbp.
Individual 2 Haplotype 2 Assembly
Version assembly_cambridge from 8 March 2024
bCygOlo2.hap2.asm.20240308.fasta.gz (319.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 17 6.93 Mbp 1 210.90 Mbp
20 42 5.21 Mbp 2 161.28 Mbp
30 77 3.76 Mbp 3 122.46 Mbp
40 121 2.93 Mbp 5 79.44 Mbp
50 180 2.12 Mbp 7 41.15 Mbp
60 261 1.52 Mbp 12 23.17 Mbp
70 376 1.06 Mbp 19 13.65 Mbp
80 581 451.67 Kbp 61 1.23 Mbp
90 0 0
100 0 0
0.871x 1307 1.29 Gbp 600 1.29 Gbp
NG based on genome size 1.48 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 8 March 2024
bCygOlo2.MT.20240308.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.