Sylvia atricapilla

Eurasian blackcap

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bSylAtr1: GCA_009819655.1 bSylAtr1: GCA_009819715.1
ENA bSylAtr1: GCA_009819655.1 bSylAtr1: GCA_009819715.1
UCSC Genome Browser bSylAtr1: GCA_009819655.1 bSylAtr1: GCA_009819715.1

metadata.yaml (view) (edit on github)
species:
  common_name: Eurasian blackcap
  family:
    name: Sylviidae
  genome_size: 1090000000
  genome_size_method: null
  individuals:
  - short_name: bSylAtr1
  name: Sylvia atricapilla
  order:
    name: Passeriformes
  short_name: bSylAtr
  taxon_id: 48155
  project: [ vgp ]
CC BY 2.0 Frank Vassen (wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bSylAtr1 72.45 Gbp 66.47x 125.8 GiB
10x bSylAtr1 90.89 Gbp 83.38x 43.3 GiB
Bionano bSylAtr1 N/A 185.76x 361.7 MiB
Arima bSylAtr1 177.70 Gbp 163.03x 89.2 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.09 Gbp.
Last upload on 9 July 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bSylAtr1 PacBio CLR 72.45 Gbp 66.47x 125.8 GiB
10x 90.89 Gbp 83.38x 43.3 GiB
Bionano N/A 185.76x 361.7 MiB
Arima 177.70 Gbp 163.03x 89.2 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.09 Gbp.
Last upload on 9 July 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 16 September 2019
bSylAtr1.pri.cur.20190916.fasta.gz (306.6 MiB)

Quality: 184.2 errors/Mb (QV=37.35)

Contigs Scaffolds
NG LG Len LG Len
10 4 19.18 Mbp 0 153.19 Mbp
20 11 15.60 Mbp 1 115.29 Mbp
30 19 12.03 Mbp 2 113.36 Mbp
40 29 10.01 Mbp 3 88.58 Mbp
50 42 7.06 Mbp 5 72.61 Mbp
60 60 5.18 Mbp 6 63.42 Mbp
70 86 3.17 Mbp 9 31.65 Mbp
80 130 1.97 Mbp 13 21.69 Mbp
90 208 0.86 Mbp 20 11.41 Mbp
100 0 0
0.968x 602 1.05 Gbp 189 1.07 Gbp
NG based on genome size 1.09 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 16 September 2019
bSylAtr1.alt.cur.20190916.fasta.gz (290.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 21 4.12 Mbp 21 4.12 Mbp
20 52 3.04 Mbp 52 3.04 Mbp
30 93 2.41 Mbp 93 2.41 Mbp
40 144 1.83 Mbp 144 1.83 Mbp
50 213 1.34 Mbp 213 1.34 Mbp
60 311 0.90 Mbp 311 0.90 Mbp
70 461 0.56 Mbp 461 0.56 Mbp
80 800 165.13 Kbp 799 166.44 Kbp
90 2906 23.40 Kbp 2904 23.40 Kbp
100 0 0
0.910x 3568 0.99 Gbp 3566 0.99 Gbp
NG based on genome size 1.09 Gbp.
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.