Catharus ustulatus

Swainson's thrush

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bCatUst1: GCA_009819885.2 bCatUst1: GCA_009819505.2
ENA bCatUst1: GCA_009819885.2 bCatUst1: GCA_009819505.2
UCSC Genome Browser bCatUst1: GCA_009819885.2 bCatUst1: GCA_009819505.2

metadata.yaml (view) (edit on github)
species:
  common_name: Swainson's thrush
  family:
    name: Turdidae
  genome_size: 1490000000
  genome_size_method: null
  individuals:
  - short_name: bCatUst1
  name: Catharus ustulatus
  order:
    name: Passeriformes
  short_name: bCatUst
  taxon_id: 91951
  project: [ vgp ]
CC BY 2.0 CheepShot (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bCatUst1 90.09 Gbp 60.46x 154.7 GiB
10x bCatUst1 127.92 Gbp 85.85x 65.0 GiB
Bionano bCatUst1 N/A 183.77x 395.9 MiB
Arima bCatUst1 105.37 Gbp 70.72x 66.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.49 Gbp.
Last upload on 10 September 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bCatUst1 PacBio CLR 90.09 Gbp 60.46x 154.7 GiB
10x 127.92 Gbp 85.85x 65.0 GiB
Bionano N/A 183.77x 395.9 MiB
Arima 105.37 Gbp 70.72x 66.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.49 Gbp.
Last upload on 10 September 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 6 August 2020
bCatUst1.pri.cur.20200806.fasta.gz (322.0 MiB)

Quality: 76.0 errors/Mb (QV=41.19)

Contigs Scaffolds
NG LG Len LG Len
10 11 10.63 Mbp 0 165.77 Mbp
20 27 7.84 Mbp 2 120.19 Mbp
30 48 6.11 Mbp 3 77.03 Mbp
40 77 4.67 Mbp 5 68.46 Mbp
50 117 3.16 Mbp 8 36.55 Mbp
60 171 2.37 Mbp 13 21.57 Mbp
70 256 1.16 Mbp 24 8.46 Mbp
80 0 0
90 0 0
100 0 0
0.751x 589 1.12 Gbp 160 1.13 Gbp
NG based on genome size 1.49 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 6 August 2020
bCatUst1.alt.cur.20200806.fasta.gz (327.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 26 4.06 Mbp 26 4.06 Mbp
20 74 2.59 Mbp 74 2.59 Mbp
30 140 1.94 Mbp 140 1.94 Mbp
40 231 1.38 Mbp 231 1.38 Mbp
50 368 0.82 Mbp 367 0.84 Mbp
60 621 381.83 Kbp 620 382.04 Kbp
70 1684 76.65 Kbp 1676 76.69 Kbp
80 0 0
90 0 0
100 0 0
0.757x 3614 1.13 Gbp 3601 1.13 Gbp
NG based on genome size 1.49 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 18 September 2019
bCatUst1.MT.20190918.fasta.gz (5.1 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.