Sterna hirundo

common tern

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bSteHir1: GCA_009819605.1 bSteHir1: GCA_009819645.1
ENA bSteHir1: GCA_009819605.1 bSteHir1: GCA_009819645.1
UCSC Genome Browser bSteHir1: GCA_009819605.1 bSteHir1: GCA_009819645.1

metadata.yaml (view) (edit on github)
species:
  common_name: common tern
  family:
    name: Laridae
  genome_size: 1400000000
  genome_size_method: null
  individuals:
  - short_name: bSteHir1
  name: Sterna hirundo
  order:
    name: Charadriiformes
  short_name: bSteHir
  taxon_id: 108405
  project: [ vgp ]
CC BY 2.0 Frank Vassen (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bSteHir1 95.11 Gbp 67.94x 162.5 GiB
10x bSteHir1 120.02 Gbp 85.73x 61.7 GiB
Bionano bSteHir1 N/A 698.35x 1.7 GiB
Arima bSteHir1 111.42 Gbp 79.59x 57.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.40 Gbp.
Last upload on 5 June 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bSteHir1 PacBio CLR 95.11 Gbp 67.94x 162.5 GiB
10x 120.02 Gbp 85.73x 61.7 GiB
Bionano N/A 698.35x 1.7 GiB
Arima 111.42 Gbp 79.59x 57.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.40 Gbp.
Last upload on 5 June 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 20 August 2019
bSteHir1.pri.cur.20190820.fasta.gz (358.3 MiB)

Quality: 41.8 errors/Mb (QV=43.79)

Contigs Scaffolds
NG LG Len LG Len
10 2 45.44 Mbp 0 220.15 Mbp
20 5 35.39 Mbp 1 166.72 Mbp
30 10 26.64 Mbp 2 132.03 Mbp
40 15 22.54 Mbp 3 85.55 Mbp
50 22 18.75 Mbp 5 83.25 Mbp
60 30 13.29 Mbp 6 71.80 Mbp
70 43 7.70 Mbp 9 46.48 Mbp
80 74 2.82 Mbp 13 14.80 Mbp
90 0 0
100 0 0
0.871x 327 1.22 Gbp 122 1.23 Gbp
NG based on genome size 1.40 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 20 August 2019
bSteHir1.alt.cur.20190820.fasta.gz (347.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 8 14.14 Mbp 8 14.14 Mbp
20 20 10.03 Mbp 20 10.03 Mbp
30 36 7.48 Mbp 36 7.48 Mbp
40 58 5.88 Mbp 58 5.88 Mbp
50 85 4.33 Mbp 85 4.33 Mbp
60 126 2.68 Mbp 126 2.68 Mbp
70 198 1.27 Mbp 198 1.27 Mbp
80 750 73.03 Kbp 750 73.03 Kbp
90 0 0
100 0 0
0.840x 2235 1.18 Gbp 2235 1.18 Gbp
NG based on genome size 1.40 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 18 September 2019
bSteHir1.MT.20190918.fasta.gz (5.7 KiB)

Quality: not computed
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.