Morus bassanus

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Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) bMorBas2 49.62 Gbp N/A 37.4 GiB
Arima bMorBas2 125.43 Gbp N/A 61.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 21 February 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bMorBas2 PacBio HiFi (.fq) 49.62 Gbp N/A 37.4 GiB
Arima 125.43 Gbp N/A 61.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 21 February 2023.
Assemblies
Individual 2 Haplotype 1 Assembly
Version assembly_curated from 27 June 2023
bMorBas2.hap1.cur.20230627.fasta.gz (392.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 5 27.27 Mbp 1 170.32 Mbp
20 11 18.70 Mbp 2 135.26 Mbp
30 19 16.88 Mbp 3 116.62 Mbp
40 29 12.21 Mbp 5 85.79 Mbp
50 42 9.13 Mbp 7 67.72 Mbp
60 61 6.12 Mbp 9 45.46 Mbp
70 88 4.29 Mbp 13 30.86 Mbp
80 128 2.70 Mbp 19 14.15 Mbp
90 207 1.04 Mbp 37 2.69 Mbp
100 1092 10.74 Kbp 829 10.74 Kbp
1.000x 1092 1.38 Gbp 829 1.38 Gbp
NG based on genome size .
Individual 2 Haplotype 2 Assembly
Version assembly_curated from 27 June 2023
bMorBas2.hap2.cur.20230627.fasta.gz (373.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 27.06 Mbp 1 170.18 Mbp
20 10 19.00 Mbp 2 135.25 Mbp
30 19 14.02 Mbp 3 117.81 Mbp
40 28 12.17 Mbp 5 85.67 Mbp
50 40 10.18 Mbp 6 85.62 Mbp
60 55 7.60 Mbp 8 46.53 Mbp
70 75 4.87 Mbp 11 37.27 Mbp
80 106 3.48 Mbp 15 25.35 Mbp
90 165 1.44 Mbp 24 9.16 Mbp
100 668 9.93 Kbp 420 9.93 Kbp
1.000x 668 1.29 Gbp 420 1.29 Gbp
NG based on genome size .
Individual 2 Mitochondrial Assembly
Version assembly_MT_rockefeller from 11 April 2023
bMorBas2.MT.20230411.fasta.gz (4.9 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/bMorBas2_hap1.yml (view)
species: Morus bassanus
specimen: bMorBas2
projects: 
  - vgp
data_location: S3
release_to: S3
haplotype_to_curate: hap1
hap1: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/bMorBas2.HiC.hap1.20230417.fasta.gz
hap2: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/bMorBas2.HiC.hap2.20230417.fasta.gz
pretext_hap1: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bMorBas2_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bMorBas2_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/evaluation/merqury/bMorBas2_png/
mito: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_MT_rockefeller/bMorBas2.MT.20230411.fasta.gz
pacbio_read_dir: s3://genomeark/species/Morus_bassanus/bMorBas2/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Morus_bassanus/bMorBas2/genomic_data/arima/
pipeline:
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy0)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of bMorBas2 (VGL ID is VGL-bMorBas1), resulting in two complete haplotypes. This individual did not have bionano data. HiC scaffolding was performed with yahs. K-mer spectra indicates a homogametic specimen. 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/bMorBas2_hap2.yml (view)
species: Morus bassanus
specimen: bMorBas2
projects: 
  - vgp
data_location: S3
release_to: S3
haplotype_to_curate: hap1
hap1: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/bMorBas2.HiC.hap1.20230417.fasta.gz
hap2: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/bMorBas2.HiC.hap2.20230417.fasta.gz
pretext_hap1: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bMorBas2_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bMorBas2_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_vgp_HiC_2.0/evaluation/merqury/bMorBas2_png/
mito: s3://genomeark/species/Morus_bassanus/bMorBas2/assembly_MT_rockefeller/bMorBas2.MT.20230411.fasta.gz
pacbio_read_dir: s3://genomeark/species/Morus_bassanus/bMorBas2/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Morus_bassanus/bMorBas2/genomic_data/arima/
pipeline:
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy0)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of bMorBas2 (VGL ID is VGL-bMorBas1), resulting in two complete haplotypes. This individual did not have bionano data. HiC scaffolding was performed with yahs. K-mer spectra indicates a homogametic specimen. The HiC prep was Arima kit 2. I am submitting both hap1 & hap2 for dual curation. This is the curation ticket for hap1. 
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.