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_cambridge from 1 May 2024
fScaEry2.hap1.asm.20240501.fasta.gz (336.5 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 16 6.01 Mbp 2 58.17 Mbp
20 39 4.58 Mbp 4 56.98 Mbp
30 67 3.77 Mbp 6 50.77 Mbp
40 101 3.11 Mbp 9 44.22 Mbp
50 143 2.50 Mbp 11 42.75 Mbp
60 196 2.02 Mbp 14 41.93 Mbp
70 260 1.64 Mbp 17 40.27 Mbp
80 343 1.17 Mbp 20 37.38 Mbp
90 469 0.74 Mbp 24 32.07 Mbp
100 707 295.59 Kbp 46 0.94 Mbp
1.058x 1602 1.24 Gbp 801 1.24 Gbp
NG based on genome size 1.17 Gbp.
Individual 2 Haplotype 2 Assembly
Version assembly_cambridge from 1 May 2024
fScaEry2.hap2.asm.20240501.fasta.gz (324.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 17 5.76 Mbp 2 62.72 Mbp
20 41 4.23 Mbp 4 59.44 Mbp
30 72 3.42 Mbp 6 50.02 Mbp
40 110 2.77 Mbp 9 46.28 Mbp
50 157 2.22 Mbp 11 42.22 Mbp
60 216 1.78 Mbp 14 39.92 Mbp
70 291 1.32 Mbp 17 38.10 Mbp
80 396 0.93 Mbp 20 32.80 Mbp
90 559 0.57 Mbp 24 24.42 Mbp
100 1022 77.75 Kbp 166 97.81 Kbp
1.012x 1345 1.18 Gbp 472 1.18 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.