Phocoena sinus

vaquita

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank mPhoSin1: GCA_008692025.1 mPhoSin1: GCA_008692045.1
ENA mPhoSin1: GCA_008692025.1 mPhoSin1: GCA_008692045.1
UCSC Genome Browser mPhoSin1: GCA_008692025.1 mPhoSin1: GCA_008692045.1

metadata.yaml (view) (edit on github)
species:
  common_name: vaquita
  family:
    name: Phocoenidae
  genome_size: 3000000000
  genome_size_method: null
  individuals:
  - short_name: mPhoSin1
  name: Phocoena sinus
  order:
    name: Artiodactyla
  short_name: mPhoSin
  taxon_id: 42100
  project: [ vgp ]
public domain
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR mPhoSin1 326.80 Gbp 108.93x 561.2 GiB
10x mPhoSin1 202.00 Gbp 67.33x 104.5 GiB
Bionano mPhoSin1 N/A 396.81x 2.2 GiB
Arima mPhoSin1 529.63 Gbp 176.54x 254.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.00 Gbp.
Last upload on 9 May 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mPhoSin1 PacBio CLR 326.80 Gbp 108.93x 561.2 GiB
10x 202.00 Gbp 67.33x 104.5 GiB
Bionano N/A 396.81x 2.2 GiB
Arima 529.63 Gbp 176.54x 254.9 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.00 Gbp.
Last upload on 9 May 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 23 July 2019
mPhoSin1.pri.cur.20190723.fasta.gz (690.3 MiB)

Quality: 81.7 errors/Mb (QV=40.88)

Contigs Scaffolds
NG LG Len LG Len
10 5 37.50 Mbp 1 178.56 Mbp
20 15 30.57 Mbp 3 146.13 Mbp
30 26 24.60 Mbp 5 131.66 Mbp
40 39 19.98 Mbp 8 110.41 Mbp
50 55 16.12 Mbp 10 104.12 Mbp
60 76 12.35 Mbp 14 89.76 Mbp
70 106 7.41 Mbp 17 79.89 Mbp
80 0 0
90 0 0
100 0 0
0.788x 276 2.36 Gbp 64 2.37 Gbp
NG based on genome size 3.00 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 23 July 2019
mPhoSin1.alt.cur.20190723.fasta.gz (299.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 957 204.56 Kbp 957 204.56 Kbp
20 2973 111.85 Kbp 2973 111.85 Kbp
30 6946 50.89 Kbp 6946 50.89 Kbp
40 0 0
50 0 0
60 0 0
70 0 0
80 0 0
90 0 0
100 0 0
0.332x 9470 1.00 Gbp 9469 1.00 Gbp
NG based on genome size 3.00 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 3 October 2019
mPhoSin1.MT.20191003.fasta.gz (4.9 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.