Ara ararauna

blue-and-yellow macaw

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bAraAra1: GCA_028858555.1 bAraAra1: GCA_028858755.1
ENA bAraAra1: GCA_028858555.1 bAraAra1: GCA_028858755.1
UCSC Genome Browser bAraAra1: GCA_028858555.1 bAraAra1: GCA_028858755.1

metadata.yaml (view) (edit on github)
species:
  name: Ara ararauna
  individuals:
  - short_name: bAraAra1
  short_name: bAraAra
  taxon_id: 9226
  common_name: blue-and-yellow macaw
  genome_size: 1412000000
  genome_size_method: GoAT
  order:
    name: Psittaciformes
  family:
    name: Psittacidae
  project: [ vgp ]
CC0 Bernard Spragg (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) bAraAra1 54.99 Gbp 38.95x 41.2 GiB
Bionano bAraAra1 N/A 244.45x 610.3 MiB
Arima bAraAra1 64.99 Gbp 46.03x 33.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.41 Gbp.
Last upload on 3 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bAraAra1 PacBio HiFi (.fq) 54.99 Gbp 38.95x 41.2 GiB
Bionano N/A 244.45x 610.3 MiB
Arima 64.99 Gbp 46.03x 33.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.41 Gbp.
Last upload on 3 May 2022.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 18 January 2023
bAraAra1.hap1.cur.20230118.fasta.gz (346.9 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 1 72.32 Mbp 0 169.34 Mbp
20 3 68.24 Mbp 1 164.30 Mbp
30 5 61.80 Mbp 2 134.34 Mbp
40 8 42.47 Mbp 3 126.90 Mbp
50 12 31.40 Mbp 5 93.60 Mbp
60 17 21.31 Mbp 6 91.21 Mbp
70 26 13.17 Mbp 8 44.21 Mbp
80 42 4.59 Mbp 15 10.79 Mbp
90 0 0
100 0 0
0.866x 353 1.22 Gbp 246 1.22 Gbp
NG based on genome size 1.41 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 18 January 2023
bAraAra1.hap2.cur.20230118.fasta.gz (356.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 1 86.88 Mbp 0 169.78 Mbp
20 3 83.00 Mbp 1 164.48 Mbp
30 5 64.21 Mbp 2 134.14 Mbp
40 8 34.92 Mbp 3 127.37 Mbp
50 13 21.93 Mbp 5 95.51 Mbp
60 21 14.65 Mbp 6 89.27 Mbp
70 32 10.43 Mbp 8 44.71 Mbp
80 49 5.16 Mbp 15 13.85 Mbp
90 132 0.59 Mbp 66 0.81 Mbp
100 0 0
0.921x 404 1.30 Gbp 274 1.30 Gbp
NG based on genome size 1.41 Gbp.
Assembly Metadata
assembly_vgp_HiC_2.0/bAraAra1.yaml (view)
species: Ara ararauna
specimen: bAraAra1
projects:
  - vgp
hap1: s3://genomeark/species/Ara_ararauna/bAraAra1/assembly_vgp_HiC_2.0/bAraAra1.HiC.hap1.20220601.fasta.gz
hap2: s3://genomeark/species/Ara_ararauna/bAraAra1/assembly_vgp_HiC_2.0/bAraAra1.HiC.hap2.20220601.fasta.gz
hap1_hic_bam: s3://genomeark/species/Ara_ararauna/bAraAra1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bAraAra1_hap1__s2.bam
hap2_hic_bam: s3://genomeark/species/Ara_ararauna/bAraAra1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bAraAra1_hap2__s2.bam
hap1_pretext: s3://genomeark/species/Ara_ararauna/bAraAra1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bAraAra1_hap1__s2_heatmap.pretext
hap2_pretext: s3://genomeark/species/Ara_ararauna/bAraAra1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bAraAra1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Ara_ararauna/bAraAra1/assembly_vgp_HiC_2.0/evaluation/merqury/bAraAra1_png/
pipeline:
  - hifiasm (0.16.1+galaxy2)
  - solve (3.7)
  - salsa (2.3+galaxy2)
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.