Rissa tridactyla

Black-legged kittiwake

Included in the VGP.

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


Resource Maternal Assembly Paternal Assembly
GenBank bRisTri1: GCA_028501385.1 bRisTri1: GCA_028500815.1
ENA bRisTri1: GCA_028501385.1 bRisTri1: GCA_028500815.1
UCSC Genome Browser bRisTri1: GCA_028501385.1 bRisTri1: GCA_028500815.1

metadata.yaml (view) (edit on github)
species:
  short_name: bRisTri
  name: Rissa tridactyla
  taxon_id: 75485
  common_name: Black-legged kittiwake
  order:
    name: Charadriiformes
  family:
    name: Laridae
  individuals:
    - short_name: bRisTri1
  project: [ vgp ]
Copyright Joan Ferrer Obiol, used with permission
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) bRisTri1 234.40 Gbp N/A 507.7 GiB
PacBio HiFi (.fq) bRisTri1 43.38 Gbp N/A 33.8 GiB
PacBio HiFi (.bam) bRisTri1 43.04 Gbp N/A 148.1 GiB
Bionano bRisTri1 N/A N/A 3.7 GiB
Arima bRisTri1 155.06 Gbp N/A 74.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 3 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bRisTri1 PacBio HiFi (subreads) 234.40 Gbp N/A 507.7 GiB
PacBio HiFi (.fq) 43.38 Gbp N/A 33.8 GiB
PacBio HiFi (.bam) 43.04 Gbp N/A 148.1 GiB
Bionano N/A N/A 3.7 GiB
Arima 155.06 Gbp N/A 74.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 3 May 2022.
Assemblies
Individual 1 Maternal Assembly
Version assembly_curated from 30 November 2022
bRisTri1.mat.cur.20221130.fasta.gz (350.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 40.03 Mbp 0 218.21 Mbp
20 5 33.77 Mbp 1 169.94 Mbp
30 9 31.38 Mbp 1 169.94 Mbp
40 14 22.57 Mbp 2 127.36 Mbp
50 21 18.17 Mbp 4 82.69 Mbp
60 29 12.01 Mbp 5 73.85 Mbp
70 42 6.96 Mbp 8 49.13 Mbp
80 65 4.39 Mbp 12 19.37 Mbp
90 134 0.87 Mbp 24 3.16 Mbp
100 955 14.26 Kbp 732 15.14 Kbp
1.000x 956 1.27 Gbp 733 1.27 Gbp
NG based on genome size .
Individual 1 Paternal Assembly
Version assembly_curated from 30 November 2022
bRisTri1.pat.cur.20221130.fasta.gz (366.9 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 1 43.86 Mbp 0 219.60 Mbp
20 5 35.57 Mbp 1 168.50 Mbp
30 9 26.52 Mbp 2 127.73 Mbp
40 15 18.49 Mbp 3 94.79 Mbp
50 22 16.31 Mbp 4 88.21 Mbp
60 31 12.79 Mbp 6 74.01 Mbp
70 45 8.15 Mbp 8 56.07 Mbp
80 65 4.68 Mbp 11 23.75 Mbp
90 128 0.90 Mbp 21 7.62 Mbp
100 974 13.70 Kbp 713 13.70 Kbp
1.000x 975 1.32 Gbp 714 1.32 Gbp
NG based on genome size .
Assembly Metadata
assembly_vgp_trio_2.0/bRisTri1_hap1.yaml (view)
species: Rissa tridactyla
specimen: bRisTri1
projects: 
  - vgp
paternal: s3://genomeark/species/Rissa_tridactyla/bRisTri1/assembly_vgp_trio_2.0/bRisTri1.trio.hap1.20220720.fasta.gz
pretext: s3://genomeark/species/Rissa_tridactyla/bRisTri1/assembly_vgp_trio_2.0/evaluation/hap1/pretext/bRisTri1_hap1__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Rissa_tridactyla/bRisTri1/assembly_vgp_trio_2.0/evaluation/Rissa_tridactyla_png/
pacbio_read_dir: s3://genomeark/species/Rissa_tridactyla/bRisTri1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Rissa_tridactyla/bRisTri1/genomic_data/arima/
bionano_cmap_dir: s3://genomeark/species/Rissa_tridactyla/bRisTri1/genomic_data/bionano/
pipeline:
  - hifiasm (0.16.1+galaxy2)
  - solve (3.7.0+galaxy0)
  - salsa (2.3+galaxy2)
assembled_by_group: University of Milan
assembly_vgp_trio_2.0/bRisTri1_hap2.yaml (view)
species: Rissa tridactyla
specimen: bRisTri1
projects: 
  - vgp
maternal: s3://genomeark/species/Rissa_tridactyla/bRisTri1/assembly_vgp_trio_2.0/bRisTri1.trio.hap2.20220720.fasta.gz
pretext: s3://genomeark/species/Rissa_tridactyla/bRisTri1/assembly_vgp_trio_2.0/evaluation/hap2/pretext/bRisTri1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Rissa_tridactyla/bRisTri1/assembly_vgp_trio_2.0/evaluation/merqury/Rissa_tridactyla_png/
pacbio_read_dir: s3://genomeark/species/Rissa_tridactyla/bRisTri1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Rissa_tridactyla/bRisTri1/genomic_data/arima/
bionano_cmap_dir: s3://genomeark/species/Rissa_tridactyla/bRisTri1/genomic_data/bionano/
pipeline:
  - hifiasm (0.16.1+galaxy2)
  - solve (3.7.0+galaxy0)
  - salsa (2.3+galaxy2)
assembled_by_group: University of Milan
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.