Apodemus sylvaticus

wood mouse

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank mApoSyl1: GCA_947179515.1 mApoSyl1: GCA_947179525.1
ENA mApoSyl1: GCA_947179515.1 mApoSyl1: GCA_947179525.1
UCSC Genome Browser mApoSyl1: GCA_947179515.1 mApoSyl1: GCA_947179525.1

metadata.yaml (view) (edit on github)
species:
  short_name: mApoSyl
  name: Apodemus sylvaticus
  taxon_id: 10129
  common_name: wood mouse
  order:
    name: Rodentia
  family:
    name: Muridae
  individuals:
    - short_name: mApoSyl1
      biosample_id: SAMEA7702024
      sex: male
    - short_name: mApoSyl2
      biosample_id: SAMEA7702026
      sex: female
  genome_size:
  genome_size_method:
  project: [ vgp ]
CC BY-SA 4.0, Christian Fischer (wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) mApoSyl1 54.35 Gbp 18.81x 197.9 GiB
10x mApoSyl1 90.27 Gbp 31.24x 44.4 GiB
Arima mApoSyl2 455.95 Gbp 157.78x 212.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.89 Gbp.
Last upload on 3 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mApoSyl1 PacBio HiFi (.bam) 54.35 Gbp 18.81x 197.9 GiB
10x 90.27 Gbp 31.24x 44.4 GiB
mApoSyl2 Arima 455.95 Gbp 157.78x 212.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.89 Gbp.
Last upload on 3 May 2022.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 9 March 2023
mApoSyl1.pri.cur.20230309.fasta.gz (808.9 MiB)

Quality: 48.8 errors/Mb (QV=43.12)

Contigs Scaffolds
NG LG Len LG Len
10 21 11.28 Mbp 1 188.06 Mbp
20 51 8.38 Mbp 3 170.26 Mbp
30 90 6.59 Mbp 4 165.11 Mbp
40 139 5.39 Mbp 6 147.57 Mbp
50 198 4.45 Mbp 8 120.94 Mbp
60 271 3.56 Mbp 11 108.32 Mbp
70 364 2.58 Mbp 14 91.74 Mbp
80 502 1.70 Mbp 17 82.79 Mbp
90 727 0.91 Mbp 21 63.78 Mbp
100 1626 1.00 Kbp 497 1.00 Kbp
1.000x 1627 2.89 Gbp 498 2.89 Gbp
NG based on genome size 2.89 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 9 March 2023
mApoSyl1.alt.cur.20230309.fasta.gz (668.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 156 1.07 Mbp 156 1.07 Mbp
20 415 0.80 Mbp 415 0.80 Mbp
30 751 0.63 Mbp 751 0.63 Mbp
40 1172 0.52 Mbp 1172 0.52 Mbp
50 1682 425.00 Kbp 1682 425.00 Kbp
60 2311 340.01 Kbp 2311 340.01 Kbp
70 3107 265.74 Kbp 3107 265.74 Kbp
80 4163 191.03 Kbp 4163 191.18 Kbp
90 5766 113.19 Kbp 5765 113.29 Kbp
100 10862 352 bp 10860 3.16 Kbp
1.000x 10863 2.39 Gbp 10861 2.39 Gbp
NG based on genome size 2.89 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.