Strix aluco

Tawny owl

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bStrAlu1: GCA_031877785.1 bStrAlu1: GCA_031877795.1
ENA bStrAlu1: GCA_031877785.1 bStrAlu1: GCA_031877795.1
UCSC Genome Browser bStrAlu1: GCA_031877785.1 bStrAlu1: GCA_031877795.1

metadata.yaml (view) (edit on github)
species:
  short_name: bStrAlu
  name: Strix aluco
  taxon_id: 111821
  common_name: Tawny owl
  order:
    name: Strigiformes
  family:
    name: Strigidae
  individuals:
    - short_name: bStrAlu2
      biosample_id: SAMEA114594455
      sex:
  genome_size: 1555020000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) bStrAlu1 1258.34 Gbp 809.21x 2.1 TiB
PacBio HiFi (.fq) bStrAlu1 60.81 Gbp 39.11x 41.5 GiB
PacBio HiFi (.bam) bStrAlu1 187.60 Gbp 120.64x 629.8 GiB
bStrAlu2 80.80 Gbp 51.96x 28.0 GiB
Arima bStrAlu1 96.51 Gbp 62.06x 49.0 GiB
bStrAlu2 359.33 Gbp 231.08x 101.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.56 Gbp.
Last upload on 14 June 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bStrAlu1 PacBio HiFi (subreads) 1258.34 Gbp 809.21x 2.1 TiB
PacBio HiFi (.fq) 60.81 Gbp 39.11x 41.5 GiB
PacBio HiFi (.bam) 187.60 Gbp 120.64x 629.8 GiB
Arima 96.51 Gbp 62.06x 49.0 GiB
bStrAlu2 PacBio HiFi (.bam) 80.80 Gbp 51.96x 28.0 GiB
Arima 359.33 Gbp 231.08x 101.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.56 Gbp.
Last upload on 14 June 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 22 July 2023
bStrAlu1.hap1.cur.20230722.fasta.gz (379.5 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 32.99 Mbp 1 173.08 Mbp
20 9 25.64 Mbp 2 138.11 Mbp
30 15 20.54 Mbp 3 133.21 Mbp
40 23 16.58 Mbp 4 132.25 Mbp
50 32 12.12 Mbp 6 89.39 Mbp
60 46 9.67 Mbp 8 45.34 Mbp
70 63 6.18 Mbp 12 29.28 Mbp
80 92 3.78 Mbp 18 22.21 Mbp
90 142 2.09 Mbp 26 10.63 Mbp
100 480 3.10 Kbp 200 20.89 Kbp
1.000x 480 1.41 Gbp 200 1.41 Gbp
NG based on genome size 1.56 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 22 July 2023
bStrAlu1.hap2.cur.20230722.fasta.gz (336.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 36.35 Mbp 1 173.56 Mbp
20 6 27.04 Mbp 2 137.13 Mbp
30 11 21.91 Mbp 3 132.98 Mbp
40 18 17.92 Mbp 4 132.66 Mbp
50 25 13.78 Mbp 5 89.68 Mbp
60 34 12.40 Mbp 7 42.50 Mbp
70 47 8.06 Mbp 10 26.39 Mbp
80 66 4.84 Mbp 15 21.93 Mbp
90 102 2.33 Mbp 23 10.85 Mbp
100 387 14.22 Kbp 182 14.22 Kbp
1.000x 387 1.21 Gbp 182 1.22 Gbp
NG based on genome size 1.56 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 13 February 2023
bStrAlu1.MT.20230213.fasta.gz (5.8 KiB)

Quality: not computed
Individual 2 Haplotype 1 Assembly
Version assembly_curated from 18 July 2026
bStrAlu2.hap1.cur.20260718.fasta.gz (369.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 14 8.89 Mbp 1 171.08 Mbp
20 33 7.28 Mbp 3 131.17 Mbp
30 58 5.56 Mbp 4 129.77 Mbp
40 89 4.34 Mbp 5 94.53 Mbp
50 129 3.32 Mbp 7 45.26 Mbp
60 186 2.26 Mbp 12 25.31 Mbp
70 275 1.35 Mbp 18 17.50 Mbp
80 481 376.32 Kbp 42 1.43 Mbp
90 0 0
100 0 0
0.840x 1083 1.31 Gbp 513 1.31 Gbp
NG based on genome size 1.56 Gbp.
Individual 2 Haplotype 2 Assembly
Version assembly_curated from 18 July 2026
bStrAlu2.hap2.cur.20260718.fasta.gz (379.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 15 8.66 Mbp 1 170.86 Mbp
20 35 6.93 Mbp 3 131.65 Mbp
30 60 5.48 Mbp 4 130.51 Mbp
40 91 4.39 Mbp 5 92.69 Mbp
50 131 3.45 Mbp 7 45.03 Mbp
60 186 2.47 Mbp 12 25.02 Mbp
70 261 1.74 Mbp 19 16.92 Mbp
80 375 0.98 Mbp 42 2.54 Mbp
90 688 191.26 Kbp 222 288.93 Kbp
100 0 0
0.920x 1138 1.43 Gbp 594 1.43 Gbp
NG based on genome size 1.56 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 31 May 2024
bStrAlu2.MT.20240531.fasta.gz (5.4 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/bStrAlu1_hap1.yml (view)
species: Strix aluco
specimen: bStrAlu1
projects: 
  - vgp
data_location: S3
release_to: S3
haplotype_to_curate: hap1
hap1: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/bStrAlu1.HiC.hap1.20230506.fasta.gz
hap2: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/bStrAlu1.HiC.hap2.20230506.fasta.gz
pretext_hap1: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bStrAlu1_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bStrAlu1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/evaluation/merqury_postpurge/bStrAlu1_png/
mito: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_MT_rockefeller/bStrAlu1.MT.20230213.fasta.gz
mito_gb: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_MT_rockefeller/bStrAlu1.MT.20230213.gb
pacbio_read_dir: s3://genomeark/species/Strix_aluco/bStrAlu1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
bionano_cmap_dir: s3://genomeark/species/Strix_aluco/bStrAlu1/genomic_data/bionano/
hic_read_dir: s3://genomeark/species/Strix_aluco/bStrAlu1/genomic_data/arima/
pipeline:
  - hifiasm (0.18.5+galaxy1)
  - purge_dups (1.2.6+galaxy0)
  - solve (3.7)
  - yahs (1.2a.2+galaxy0)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of bStrAlu1, resulting in two complete haplotypes. This individual did have bionano data. HiC scaffolding was performed with yahs. The HiC prep was Arima kit 2. I am submitting both hap1 & hap2 for dual curation. This is the curation ticket for hap1. 
assembly_vgp_HiC_2.0/bStrAlu1_hap2.yml (view)
species: Strix aluco
specimen: bStrAlu1
projects: 
  - vgp
data_location: S3
release_to: S3
haplotype_to_curate: hap2
hap1: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/bStrAlu1.HiC.hap1.20230506.fasta.gz
hap2: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/bStrAlu1.HiC.hap2.20230506.fasta.gz
pretext_hap1: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bStrAlu1_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bStrAlu1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_vgp_HiC_2.0/evaluation/merqury_postpurge/bStrAlu1_png/
mito: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_MT_rockefeller/bStrAlu1.MT.20230213.fasta.gz
mito_gb: s3://genomeark/species/Strix_aluco/bStrAlu1/assembly_MT_rockefeller/bStrAlu1.MT.20230213.gb
pacbio_read_dir: s3://genomeark/species/Strix_aluco/bStrAlu1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
bionano_cmap_dir: s3://genomeark/species/Strix_aluco/bStrAlu1/genomic_data/bionano/
hic_read_dir: s3://genomeark/species/Strix_aluco/bStrAlu1/genomic_data/arima/
pipeline:
  - hifiasm (0.18.5+galaxy1)
  - purge_dups (1.2.6+galaxy0)
  - solve (3.7)
  - yahs (1.2a.2+galaxy0)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of bStrAlu1, resulting in two complete haplotypes. This individual did have bionano data. HiC scaffolding was performed with yahs. The HiC prep was Arima kit 2. I am submitting both hap1 & hap2 for dual curation. This is the curation ticket for hap2. 
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.