Equus caballus

horse

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


metadata.yaml (view) (edit on github)
species:
  name: Equus caballus
  short_name: mEquCab
  common_name: horse
  taxon_id: 9796
  order:
    name: Perissodactyla
  family:
    name: Equidae
  individuals:
  - 
    short_name: mEquCab1
    biosample_id: null
    description: null
    provider: null
  - 
    short_name: mEquCab2
    biosample_id: null
    description: null
    provider: null
  - 
    short_name: mEquCab3
    biosample_id: null
    description: null
    provider: null
  - 
    short_name: mEquCab4
    biosample_id: null
    strain: null
    alt_ids:
    - 3958
    sex: female
    description: >
      This individual is the dam for a mule trio (mEquAca1).
      The sire for the trio is mEquAsi1.
    provider: Ted Kalbfleisch (University of Kentucky)
    mother: null
    father: null
  genome_size: 3110000000
  genome_size_method: GoaT
  project: [ ]
CC BY-SA 4.0 Emőke Dénes (Wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) mEquCab1 2126.81 Gbp 683.86x 3.6 TiB
PacBio HiFi (.fq) mEquCab1 101.07 Gbp 32.50x 68.0 GiB
PacBio HiFi (.bam) mEquCab1 310.47 Gbp 99.83x 1.0 TiB
Dovetail Genomics mEquCab1 197.33 Gbp 63.45x 101.7 GiB
Illumina mEquCab2 121.01 Gbp 38.91x 57.0 GiB
mEquCab3 92.96 Gbp 29.89x 44.9 GiB
mEquCab4 144.38 Gbp 46.42x 61.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.11 Gbp.
Last upload on 14 June 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mEquCab1 PacBio HiFi (subreads) 2126.81 Gbp 683.86x 3.6 TiB
PacBio HiFi (.fq) 101.07 Gbp 32.50x 68.0 GiB
PacBio HiFi (.bam) 310.47 Gbp 99.83x 1.0 TiB
Dovetail Genomics 197.33 Gbp 63.45x 101.7 GiB
mEquCab2 Illumina 121.01 Gbp 38.91x 57.0 GiB
mEquCab3 Illumina 92.96 Gbp 29.89x 44.9 GiB
mEquCab4 Illumina 144.38 Gbp 46.42x 61.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.11 Gbp.
Last upload on 14 June 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 1 November 2023
mEquCab1.hap1.cur.20231101.fasta.gz (735.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 80.87 Mbp 2 140.16 Mbp
20 8 67.25 Mbp 5 116.88 Mbp
30 13 56.24 Mbp 8 101.37 Mbp
40 20 45.73 Mbp 11 90.61 Mbp
50 27 38.36 Mbp 14 86.88 Mbp
60 36 29.33 Mbp 19 61.87 Mbp
70 50 17.98 Mbp 24 49.99 Mbp
80 98 1.97 Mbp 31 30.43 Mbp
90 0 0
100 0 0
0.835x 715 2.60 Gbp 601 2.60 Gbp
NG based on genome size 3.11 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 1 November 2023
mEquCab1.hap2.cur.20231101.fasta.gz (658.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 71.71 Mbp 2 121.96 Mbp
20 9 57.16 Mbp 5 99.60 Mbp
30 15 46.00 Mbp 9 94.22 Mbp
40 23 31.77 Mbp 12 85.76 Mbp
50 35 23.74 Mbp 16 66.74 Mbp
60 52 11.91 Mbp 21 49.30 Mbp
70 136 1.38 Mbp 29 26.95 Mbp
80 0 0
90 0 0
100 0 0
0.750x 1034 2.33 Gbp 824 2.33 Gbp
NG based on genome size 3.11 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 10 February 2023
mEquCab1.MT.20230210.fasta.gz (5.3 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.