Chanos chanos

milkfish

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fChaCha1: GCA_902362185.1 fChaCha1: GCA_902362175.1
ENA fChaCha1: GCA_902362185.1 fChaCha1: GCA_902362175.1
UCSC Genome Browser fChaCha1: GCA_902362185.1 fChaCha1: GCA_902362175.1

metadata.yaml (view) (edit on github)
species:
  short_name: fChaCha
  name: Chanos chanos
  taxon_id: 29144
  common_name: milkfish
  order:
    name: Gonorynchiformes
  family:
    name: Chanidae
  individuals:
    - short_name: fChaCha1
      biosample_id: SAMEA5159473
      sex:
  genome_size:
  genome_size_method:
  project: [ vgp ]
CC BY-SA 4.0 Hectonichus (wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR fChaCha1 48.58 Gbp 73.94x 82.9 GiB
PacBio HiFi (.bam) fChaCha1 18.63 Gbp 28.37x 14.4 GiB
10x fChaCha1 134.89 Gbp 205.34x 80.8 GiB
Bionano fChaCha1 N/A 1136.25x 1.1 GiB
Dovetail Genomics fChaCha1 122.96 Gbp 187.18x 81.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.66 Gbp.
Last upload on 4 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fChaCha1 PacBio CLR 48.58 Gbp 73.94x 82.9 GiB
PacBio HiFi (.bam) 18.63 Gbp 28.37x 14.4 GiB
10x 134.89 Gbp 205.34x 80.8 GiB
Bionano N/A 1136.25x 1.1 GiB
Dovetail Genomics 122.96 Gbp 187.18x 81.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 0.66 Gbp.
Last upload on 4 May 2022.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 5 August 2019
fChaCha1.pri.cur.20190805.fasta.gz (185.4 MiB)

Quality: 23.1 errors/Mb (QV=46.37)

Contigs Scaffolds
NG LG Len LG Len
10 1 38.48 Mbp 1 59.74 Mbp
20 3 37.80 Mbp 2 58.65 Mbp
30 5 31.75 Mbp 3 53.91 Mbp
40 7 23.79 Mbp 4 53.69 Mbp
50 10 23.13 Mbp 5 50.30 Mbp
60 13 16.20 Mbp 7 48.34 Mbp
70 19 8.84 Mbp 8 43.79 Mbp
80 29 4.91 Mbp 10 25.52 Mbp
90 49 2.43 Mbp 12 23.84 Mbp
100 140 1.59 Kbp 29 21.53 Kbp
1.000x 141 0.65 Gbp 30 0.66 Gbp
NG based on genome size 0.66 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 5 August 2019
fChaCha1.alt.cur.20190805.fasta.gz (181.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 34 1.50 Mbp 34 1.50 Mbp
20 86 1.02 Mbp 86 1.02 Mbp
30 160 0.77 Mbp 160 0.77 Mbp
40 252 0.63 Mbp 252 0.63 Mbp
50 365 0.51 Mbp 365 0.51 Mbp
60 504 411.24 Kbp 504 411.24 Kbp
70 678 326.54 Kbp 678 326.54 Kbp
80 901 244.27 Kbp 901 244.27 Kbp
90 1208 168.76 Kbp 1208 168.76 Kbp
100 1939 721 bp 1936 721 bp
1.000x 1940 0.64 Gbp 1937 0.64 Gbp
NG based on genome size 0.66 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.