Eubalaena glacialis

North Atlantic right whale

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank mEubGla1: GCA_028564815.1 mEubGla1: GCA_028571275.1
ENA mEubGla1: GCA_028564815.1 mEubGla1: GCA_028571275.1
UCSC Genome Browser mEubGla1: GCA_028564815.1 mEubGla1: GCA_028571275.1

metadata.yaml (view) (edit on github)
species:
  name: Eubalaena glacialis
  individuals:
  - short_name: mEubGla1
  short_name: mEubGla
  taxon_id: 27606
  common_name: North Atlantic right whale
  genome_size: 2866000000
  genome_size_method: GoAT
  order:
    name: Artiodactyla
  family:
    name: Balaenidae
  project: [ vgp ]
CC BY-NC-SA 2.0 Sea to Shore Alliance, NOAA permit 20556 (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) mEubGla1 414.41 Gbp 144.59x 0.9 TiB
PacBio HiFi (.fq) mEubGla1 85.65 Gbp 29.89x 66.5 GiB
PacBio HiFi (.bam) mEubGla1 74.79 Gbp 26.10x 253.9 GiB
Bionano mEubGla1 N/A 212.17x 0.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.87 Gbp.
Last upload on 4 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mEubGla1 PacBio HiFi (subreads) 414.41 Gbp 144.59x 0.9 TiB
PacBio HiFi (.fq) 85.65 Gbp 29.89x 66.5 GiB
PacBio HiFi (.bam) 74.79 Gbp 26.10x 253.9 GiB
Bionano N/A 212.17x 0.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.87 Gbp.
Last upload on 4 May 2022.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 18 January 2023
mEubGla1.hap1.cur.20230118.fasta.gz (698.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 89.43 Mbp 1 195.50 Mbp
20 6 78.48 Mbp 2 191.18 Mbp
30 10 48.64 Mbp 4 150.93 Mbp
40 17 39.62 Mbp 6 125.47 Mbp
50 25 30.93 Mbp 8 124.16 Mbp
60 35 25.43 Mbp 11 99.46 Mbp
70 49 17.26 Mbp 14 93.67 Mbp
80 83 2.67 Mbp 17 66.69 Mbp
90 680 112.22 Kbp 299 126.06 Kbp
100 0 0
0.911x 1329 2.61 Gbp 945 2.61 Gbp
NG based on genome size 2.87 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 18 January 2023
mEubGla1.hap2.cur.20230118.fasta.gz (742.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 82.04 Mbp 1 196.00 Mbp
20 6 73.40 Mbp 2 195.09 Mbp
30 11 53.22 Mbp 4 156.32 Mbp
40 17 43.02 Mbp 6 138.69 Mbp
50 24 37.47 Mbp 8 129.62 Mbp
60 33 31.54 Mbp 10 122.72 Mbp
70 44 21.05 Mbp 13 94.98 Mbp
80 62 11.07 Mbp 16 90.91 Mbp
90 169 1.13 Mbp 19 63.92 Mbp
100 0 0
0.981x 1123 2.81 Gbp 765 2.81 Gbp
NG based on genome size 2.87 Gbp.
Assembly Metadata
assembly_vgp_HiC_2.0/mEubGla1.yml (view)
species: Eubalaena glacialis
specimen: mEubGla1
projects:
    - vgp
hap1:
    s3://genomeark/species/Eubalaena_glacialis/mEubGla1/assembly_vgp_HiC_2.0/mEubGla1.HiC.hap1.20220517.fasta.gz
hap2:
    s3://genomeark/species/Eubalaena_glacialis/mEubGla1/assembly_vgp_HiC_2.0/mEubGla1.HiC.hap2.20220517.fasta.gz
pretext_hap1:
    s3://genomeark/species/Eubalaena_glacialis/mEubGla1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mEubGla1_hap1__s2_heatmap.pretext
pretext_hap2:
    s3://genomeark/species/Eubalaena_glacialis/mEubGla1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mEubGla1_hap2__s2_heatmap.pretext
kmer_spectra)img:
    s3://genomeark/species/Eubalaena_glacialis/mEubGla1/assembly_vgp_HiC_2.0/evaluation/merqury/png/
pacbio_read_dir: s3://genomeark/species/Eubalaena_glacialis/mEubGla1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: N/A
bionano_cmap_dir: s3://genomeark/species/Eubalaena_glacialis/mEubGla1/genomic_data/bionano/
pipeline:
 - hifiasm (0.16.1+galaxy2)
 - solve (3.7.0+galaxy0)
 - salsa (2.3+galaxy3)
assembled_by_group:Rockefeller
notes: Specimen is male, so both haplotypes are included. HiC reads sequenced by DNAzoo are from the same individual ( https://www.ncbi.nlm.nih.gov/sra/SRX7735938[accn]).
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.