Scardinius erythrophthalmus

rudd

Included in the VGP.

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


metadata.yaml (view) (edit on github)
species:
  short_name: fScaEry
  name: Scardinius erythrophthalmus
  taxon_id: 58319
  common_name: rudd
  order:
    name: Cypriniformes
  family:
    name: Cyprinidae
  individuals:
    - short_name: fScaEry2
      biosample_id: SAMEA11296541
      sex: female
  genome_size: 1168710000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) fScaEry2 84.42 Gbp 72.23x 30.1 GiB
Arima fScaEry2 88.46 Gbp 75.69x 24.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.17 Gbp.
Last upload on 26 April 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fScaEry2 PacBio HiFi (.bam) 84.42 Gbp 72.23x 30.1 GiB
Arima 88.46 Gbp 75.69x 24.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.17 Gbp.
Last upload on 26 April 2024.
Assemblies
Individual 2 Haplotype 1 Assembly
Version assembly_curated from 6 July 2024
fScaEry2.hap1.cur.20240706.fasta.gz (334.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 16 6.01 Mbp 2 71.61 Mbp
20 39 4.51 Mbp 4 58.97 Mbp
30 68 3.72 Mbp 6 50.77 Mbp
40 102 3.09 Mbp 8 49.90 Mbp
50 144 2.49 Mbp 11 44.95 Mbp
60 197 2.01 Mbp 13 43.15 Mbp
70 262 1.61 Mbp 16 41.93 Mbp
80 347 1.15 Mbp 19 40.31 Mbp
90 477 0.72 Mbp 22 34.75 Mbp
100 730 256.00 Kbp 26 1.48 Mbp
1.052x 1591 1.23 Gbp 755 1.23 Gbp
NG based on genome size 1.17 Gbp.
Individual 2 Haplotype 2 Assembly
Version assembly_curated from 6 July 2024
fScaEry2.hap2.cur.20240706.fasta.gz (325.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 17 5.76 Mbp 2 64.57 Mbp
20 41 4.23 Mbp 4 59.44 Mbp
30 72 3.42 Mbp 6 50.02 Mbp
40 110 2.77 Mbp 8 48.75 Mbp
50 158 2.20 Mbp 11 44.61 Mbp
60 217 1.78 Mbp 14 42.41 Mbp
70 291 1.34 Mbp 16 40.29 Mbp
80 396 0.95 Mbp 19 39.00 Mbp
90 556 0.58 Mbp 23 32.62 Mbp
100 961 105.12 Kbp 94 178.10 Kbp
1.018x 1359 1.19 Gbp 449 1.19 Gbp
NG based on genome size 1.17 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 1 May 2024
fScaEry2.MT.20240501.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.