Dryobates pubescens

downy woodpecker

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bDryPub1: GCA_014839835.1 bDryPub1: GCA_014839825.1
ENA bDryPub1: GCA_014839835.1 bDryPub1: GCA_014839825.1
UCSC Genome Browser bDryPub1: GCA_014839835.1 bDryPub1: GCA_014839825.1

metadata.yaml (view) (edit on github)
species:
  common_name: downy woodpecker
  family:
    name: Picidae
  genome_size: 1400000000
  genome_size_method: null
  individuals:
  - short_name: bDryPub1
  name: Dryobates pubescens
  order:
    name: Piciformes
  short_name: bDryPub
  taxon_id: 118200
  project: [ vgp ]
CC BY-SA 3.0 Wolfgang Wander (wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bDryPub1 87.23 Gbp 62.31x 148.4 GiB
10x bDryPub1 166.14 Gbp 118.67x 79.5 GiB
Bionano bDryPub1 N/A 418.12x 0.9 GiB
Arima bDryPub1 115.36 Gbp 82.40x 62.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.40 Gbp.
Last upload on 15 October 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bDryPub1 PacBio CLR 87.23 Gbp 62.31x 148.4 GiB
10x 166.14 Gbp 118.67x 79.5 GiB
Bionano N/A 418.12x 0.9 GiB
Arima 115.36 Gbp 82.40x 62.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.40 Gbp.
Last upload on 15 October 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 16 July 2020
bDryPub1.pri.cur.20200716.fasta.gz (338.4 MiB)

Quality: 9.6 errors/Mb (QV=50.20)

Contigs Scaffolds
NG LG Len LG Len
10 3 39.62 Mbp 0 140.16 Mbp
20 7 31.18 Mbp 3 49.94 Mbp
30 11 27.07 Mbp 6 47.22 Mbp
40 18 19.88 Mbp 9 43.95 Mbp
50 25 15.85 Mbp 12 34.20 Mbp
60 36 10.26 Mbp 17 24.56 Mbp
70 54 6.21 Mbp 24 17.78 Mbp
80 92 1.67 Mbp 33 9.87 Mbp
90 0 0
100 0 0
0.846x 367 1.18 Gbp 180 1.19 Gbp
NG based on genome size 1.40 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 16 July 2020
bDryPub1.alt.cur.20200716.fasta.gz (310.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 11 9.39 Mbp 11 9.39 Mbp
20 31 5.33 Mbp 31 5.33 Mbp
30 63 3.30 Mbp 63 3.30 Mbp
40 118 2.11 Mbp 118 2.11 Mbp
50 202 1.34 Mbp 202 1.34 Mbp
60 334 0.82 Mbp 334 0.82 Mbp
70 570 414.46 Kbp 570 414.46 Kbp
80 0 0
90 0 0
100 0 0
0.773x 1346 1.08 Gbp 1342 1.08 Gbp
NG based on genome size 1.40 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 5 October 2019
bDryPub1.MT.20191005.fasta.gz (5.0 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.