Phoenicopterus ruber

American flamingo

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bPhoRub2: GCA_009819775.1 bPhoRub2: GCA_009819805.1
ENA bPhoRub2: GCA_009819775.1 bPhoRub2: GCA_009819805.1
UCSC Genome Browser bPhoRub2: GCA_009819775.1 bPhoRub2: GCA_009819805.1

metadata.yaml (view) (edit on github)
species:
  common_name: American flamingo
  family:
    name: Phoenicopteridae
  genome_size: 1250000000
  genome_size_method: null
  individuals:
  - short_name: bPhoRub1
  name: Phoenicopterus ruber
  order:
    name: Phoenicopteriformes
  short_name: bPhoRub
  taxon_id: 9217
  project: [ vgp ]
CC BY 2.0 Paul Asman and Jill Lenoble (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bPhoRub1 76.75 Gbp 61.40x 132.8 GiB
10x bPhoRub1 103.00 Gbp 82.40x 49.2 GiB
Bionano bPhoRub1 N/A 455.07x 0.9 GiB
Arima bPhoRub1 244.61 Gbp 195.69x 121.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.25 Gbp.
Last upload on 11 January 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bPhoRub1 PacBio CLR 76.75 Gbp 61.40x 132.8 GiB
10x 103.00 Gbp 82.40x 49.2 GiB
Bionano N/A 455.07x 0.9 GiB
Arima 244.61 Gbp 195.69x 121.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.25 Gbp.
Last upload on 11 January 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 13 August 2019
bPhoRub1.pri.cur.20190813.fasta.gz (364.3 MiB)

Quality: 199.7 errors/Mb (QV=37.00)

Contigs Scaffolds
NG LG Len LG Len
10 2 34.81 Mbp 0 220.92 Mbp
20 6 28.88 Mbp 1 171.13 Mbp
30 11 20.53 Mbp 1 171.13 Mbp
40 18 17.49 Mbp 2 128.78 Mbp
50 25 14.70 Mbp 4 85.47 Mbp
60 35 11.73 Mbp 5 72.97 Mbp
70 48 8.36 Mbp 8 36.88 Mbp
80 65 5.45 Mbp 12 25.17 Mbp
90 100 2.07 Mbp 18 17.03 Mbp
100 0 0
0.990x 370 1.24 Gbp 90 1.25 Gbp
NG based on genome size 1.25 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 13 August 2019
bPhoRub1.alt.cur.20190813.fasta.gz (347.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 27 3.50 Mbp 27 3.50 Mbp
20 69 2.67 Mbp 69 2.67 Mbp
30 122 2.11 Mbp 122 2.11 Mbp
40 189 1.68 Mbp 189 1.68 Mbp
50 274 1.30 Mbp 274 1.30 Mbp
60 382 1.02 Mbp 382 1.02 Mbp
70 534 0.65 Mbp 534 0.65 Mbp
80 809 308.95 Kbp 809 308.95 Kbp
90 2014 46.63 Kbp 2014 46.63 Kbp
100 0 0
0.934x 3529 1.17 Gbp 3529 1.17 Gbp
NG based on genome size 1.25 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.