Mustela nivalis

least weasel

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank mMusNiv2: GCA_964662095.1 mMusNiv2: GCA_964662115.1
ENA mMusNiv2: GCA_964662095.1 mMusNiv2: GCA_964662115.1
UCSC Genome Browser mMusNiv2: GCA_964662095.1 mMusNiv2: GCA_964662115.1

metadata.yaml (view) (edit on github)
species:
  short_name: mMusNiv
  name: Mustela nivalis
  taxon_id: 36239
  common_name: least weasel
  order:
    name: Carnivora
  family:
    name: Mustelidae
  individuals:
    - short_name: mMusNiv2
      biosample_id: SAMEA113398841
      sex: female
  genome_size: 3012240000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) mMusNiv1 2421.40 Gbp 803.85x 4.1 TiB
PacBio HiFi (.fq) mMusNiv1 113.10 Gbp 37.55x 84.4 GiB
PacBio HiFi (.bam) mMusNiv1 343.90 Gbp 114.17x 1.1 TiB
mMusNiv2 103.63 Gbp 34.40x 28.7 GiB
Arima mMusNiv1 269.37 Gbp 89.43x 138.4 GiB
mMusNiv2 541.15 Gbp 179.65x 150.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.01 Gbp.
Last upload on 27 April 2026.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mMusNiv1 PacBio HiFi (subreads) 2421.40 Gbp 803.85x 4.1 TiB
PacBio HiFi (.fq) 113.10 Gbp 37.55x 84.4 GiB
PacBio HiFi (.bam) 343.90 Gbp 114.17x 1.1 TiB
Arima 269.37 Gbp 89.43x 138.4 GiB
mMusNiv2 PacBio HiFi (.bam) 103.63 Gbp 34.40x 28.7 GiB
Arima 541.15 Gbp 179.65x 150.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.01 Gbp.
Last upload on 27 April 2026.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 10 April 2026
mMusNiv1.hap1.cur.20260410.fasta.gz (779.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 67.00 Mbp 2 215.36 Mbp
20 8 55.47 Mbp 3 173.44 Mbp
30 15 41.90 Mbp 5 167.09 Mbp
40 23 30.24 Mbp 7 158.69 Mbp
50 35 19.80 Mbp 9 138.48 Mbp
60 54 12.30 Mbp 12 114.87 Mbp
70 85 7.14 Mbp 14 101.01 Mbp
80 154 2.73 Mbp 18 62.84 Mbp
90 438 457.78 Kbp 50 1.19 Mbp
100 2131 85.61 Kbp 1351 102.25 Kbp
1.043x 4777 3.14 Gbp 4177 3.16 Gbp
NG based on genome size 3.01 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 10 April 2026
mMusNiv1.hap2.cur.20260410.fasta.gz (732.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 91.13 Mbp 2 209.24 Mbp
20 7 64.43 Mbp 3 172.11 Mbp
30 12 45.99 Mbp 5 164.41 Mbp
40 21 30.57 Mbp 7 160.30 Mbp
50 32 22.11 Mbp 9 117.61 Mbp
60 49 11.77 Mbp 12 109.80 Mbp
70 85 5.08 Mbp 15 95.25 Mbp
80 211 1.21 Mbp 19 54.05 Mbp
90 1080 164.61 Kbp 617 180.54 Kbp
100 0 0
0.984x 4723 2.96 Gbp 4263 2.97 Gbp
NG based on genome size 3.01 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 15 December 2023
mMusNiv1.MT.20231215.fasta.gz (5.3 KiB)

Quality: not computed
Individual 2 Haplotype 1 Assembly
Version assembly_curated from 19 December 2024
mMusNiv2.hap1.cur.20241219.fasta.gz (0.9 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 74 3.19 Mbp 2 187.21 Mbp
20 185 2.41 Mbp 4 165.13 Mbp
30 324 1.96 Mbp 5 158.07 Mbp
40 496 1.59 Mbp 7 147.41 Mbp
50 703 1.33 Mbp 10 120.18 Mbp
60 953 1.10 Mbp 12 114.20 Mbp
70 1258 0.89 Mbp 15 92.85 Mbp
80 1642 0.69 Mbp 19 61.79 Mbp
90 2149 0.51 Mbp 92 1.72 Mbp
100 2869 330.00 Kbp 379 0.66 Mbp
1.141x 6118 3.44 Gbp 3180 3.44 Gbp
NG based on genome size 3.01 Gbp.
Individual 2 Haplotype 2 Assembly
Version assembly_curated from 19 December 2024
mMusNiv2.hap2.cur.20241219.fasta.gz (781.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 80 2.94 Mbp 2 191.34 Mbp
20 199 2.20 Mbp 4 165.59 Mbp
30 357 1.70 Mbp 5 159.33 Mbp
40 555 1.38 Mbp 8 141.76 Mbp
50 799 1.10 Mbp 10 113.97 Mbp
60 1108 0.87 Mbp 13 93.90 Mbp
70 1510 0.65 Mbp 16 69.13 Mbp
80 2082 423.67 Kbp 42 2.19 Mbp
90 3191 154.01 Kbp 540 211.48 Kbp
100 0 0
0.941x 4948 2.83 Gbp 2239 2.84 Gbp
NG based on genome size 3.01 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 2 October 2024
mMusNiv2.MT.20241002.fasta.gz (5.2 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mMusNiv1.yml (view)
species: Mustela nivalis vulgaris
specimen: mMusNiv1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
hap1: s3://genomeark/species/Mustela_nivalis/mMusNiv1/assembly_vgp_HiC_2.0/mMusNiv1.HiC.hap1.20231215.fasta.gz
hap2: s3://genomeark/species/Mustela_nivalis/mMusNiv1/assembly_vgp_HiC_2.0/mMusNiv1.HiC.hap2.20231215.fasta.gz
pretext_hap1: s3://genomeark/species/Mustela_nivalis/mMusNiv1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mMusNiv1_hap1_s2.pretext
pretext_hap2: s3://genomeark/species/Mustela_nivalis/mMusNiv1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mMusNiv1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Mustela_nivalis/mMusNiv1/assembly_vgp_HiC_2.0/evaluation/merqury/mMusNiv1_png/
pacbio_read_dir: s3://genomeark/species/Mustela_nivalis/mMusNiv1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
bionano_cmap_dir: s3://genomeark/species/Mustela_nivalis/mMusNiv1/genomic_data/bionano/
hic_read_dir: s3://genomeark/species/Mustela_nivalis/mMusNiv1/genomic_data/arima/
pipeline: 
  - hifiasm (0.19.3+galaxy0)
  - solve (3.7)
  - yahs (1.2a.2+galaxy1)
notes: This was a Hifiasm-HiC assembly of mMusNiv1, resulting in two complete haplotypes. HiC scaffolding was performed with YaHS. The HiC prep kit used was Arima library prep. The HiC reads needed to have 5 bp trimmed from the 5' end due to adapter left over from the Arima library prep kit. This sample did have bionano data. Final genome size looks large compared to existing assembly, likely because of fragmented repetitive regions captured by HiFi (but not scaffolded), which were missed with previous sequencing technologies. 
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.