Arvicola amphibius

European water vole

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank mArvAmp1: GCA_903992535.2 mArvAmp1: GCA_903992525.1
ENA mArvAmp1: GCA_903992535.2 mArvAmp1: GCA_903992525.1
UCSC Genome Browser mArvAmp1: GCA_903992535.2 mArvAmp1: GCA_903992525.1

metadata.yaml (view) (edit on github)
species:
  short_name: mArvAmp
  name: Arvicola amphibius
  taxon_id: 1047088
  common_name: European water vole
  order:
    name: Rodentia
  family:
    name: Cricetidae
  individuals:
    - short_name: mArvAmp1
      biosample_id: SAMEA994740
      sex: male
  genome_size:
  genome_size_method:
  project: [ vgp ]
CC BY 2.0, Peter Trimming (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR mArvAmp1 152.43 Gbp 66.34x 269.6 GiB
10x mArvAmp1 246.00 Gbp 107.06x 152.1 GiB
Bionano mArvAmp1 N/A 1030.11x 3.8 GiB
Dovetail Genomics mArvAmp1 84.67 Gbp 36.85x 53.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.30 Gbp.
Last upload on 2 February 2020.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mArvAmp1 PacBio CLR 152.43 Gbp 66.34x 269.6 GiB
10x 246.00 Gbp 107.06x 152.1 GiB
Bionano N/A 1030.11x 3.8 GiB
Dovetail Genomics 84.67 Gbp 36.85x 53.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.30 Gbp.
Last upload on 2 February 2020.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 24 July 2020
mArvAmp1.pri.cur.20200724.fasta.gz (667.2 MiB)

Quality: 245.6 errors/Mb (QV=36.10)

Contigs Scaffolds
NG LG Len LG Len
10 12 13.99 Mbp 1 193.96 Mbp
20 31 10.52 Mbp 2 189.60 Mbp
30 56 8.18 Mbp 3 161.33 Mbp
40 88 6.37 Mbp 5 158.92 Mbp
50 126 5.31 Mbp 6 138.66 Mbp
60 174 4.31 Mbp 8 131.41 Mbp
70 235 3.28 Mbp 10 125.09 Mbp
80 317 2.35 Mbp 11 123.99 Mbp
90 443 1.39 Mbp 14 63.16 Mbp
100 1087 819 bp 215 4.31 Kbp
1.000x 1088 2.29 Gbp 216 2.30 Gbp
NG based on genome size 2.30 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 24 July 2020
mArvAmp1.alt.cur.20200724.fasta.gz (514.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 406 337.61 Kbp 405 338.30 Kbp
20 1004 261.72 Kbp 1003 261.72 Kbp
30 1755 213.02 Kbp 1754 213.02 Kbp
40 2662 177.97 Kbp 2661 177.97 Kbp
50 3751 147.87 Kbp 3750 147.92 Kbp
60 5057 123.51 Kbp 5055 123.57 Kbp
70 6641 100.20 Kbp 6638 100.32 Kbp
80 8617 78.79 Kbp 8612 78.87 Kbp
90 11241 55.89 Kbp 11230 56.08 Kbp
100 16472 217 bp 16367 217 bp
1.000x 16473 1.76 Gbp 16368 1.76 Gbp
NG based on genome size 2.30 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.