Salmo trutta

brown trout

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fSalTru1: GCA_901001165.2
ENA fSalTru1: GCA_901001165.2
UCSC Genome Browser fSalTru1: GCA_901001165.2

metadata.yaml (view) (edit on github)
species:
  short_name: fSalTru
  name: Salmo trutta
  taxon_id: 8032
  common_name: brown trout
  order:
    name: Salmoniformes
  family:
    name: Salmonidae
  individuals:
    - short_name: fSalTru1
      biosample_id: SAMEA11296537
      sex: female
  genome_size:
  genome_size_method:
  project: [ vgp ]
public domain
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR fSalTru1 163.26 Gbp 68.83x 286.4 GiB
PacBio HiFi (.bam) fSalTru1 32.24 Gbp 13.59x 21.9 GiB
10x fSalTru1 209.35 Gbp 88.26x 142.6 GiB
Bionano fSalTru1 N/A 208.45x 585.8 MiB
Arima fSalTru1 145.95 Gbp 61.53x 71.2 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.37 Gbp.
Last upload on 4 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fSalTru1 PacBio CLR 163.26 Gbp 68.83x 286.4 GiB
PacBio HiFi (.bam) 32.24 Gbp 13.59x 21.9 GiB
10x 209.35 Gbp 88.26x 142.6 GiB
Bionano N/A 208.45x 585.8 MiB
Arima 145.95 Gbp 61.53x 71.2 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.37 Gbp.
Last upload on 4 May 2022.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 3 April 2019
fSalTru1.pri.cur.20190403.fasta.gz (623.9 MiB)

Quality: 99.0 errors/Mb (QV=40.04)

Contigs Scaffolds
NG LG Len LG Len
10 22 7.53 Mbp 2 86.25 Mbp
20 59 5.36 Mbp 5 74.75 Mbp
30 112 3.65 Mbp 8 66.90 Mbp
40 186 2.66 Mbp 12 59.76 Mbp
50 294 1.69 Mbp 17 52.21 Mbp
60 464 1.07 Mbp 21 49.36 Mbp
70 740 0.65 Mbp 26 46.38 Mbp
80 1197 384.60 Kbp 31 44.89 Mbp
90 2068 177.55 Kbp 38 25.48 Mbp
100 5380 1 bp 1439 6.00 Kbp
1.000x 5381 2.30 Gbp 1440 2.37 Gbp
NG based on genome size 2.37 Gbp.
Individual 1 Alternate Assembly
Version assembly_cambridge from 16 October 2018
fSalTru1.alt.asm.20181016.fasta.gz (54.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 184 82.68 Kbp 184 82.68 Kbp
20 434 70.31 Kbp 434 70.31 Kbp
30 720 63.17 Kbp 720 63.17 Kbp
40 1035 57.51 Kbp 1035 57.51 Kbp
50 1379 53.13 Kbp 1379 53.13 Kbp
60 1751 48.87 Kbp 1751 48.87 Kbp
70 2161 43.87 Kbp 2161 43.87 Kbp
80 2624 37.88 Kbp 2624 37.88 Kbp
90 3183 29.83 Kbp 3183 29.83 Kbp
100 4193 164 bp 4193 164 bp
1.000x 4194 189.98 Mbp 4194 189.98 Mbp
NG based on genome size 2.37 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 3 October 2019
fSalTru1.MT.20191003.fasta.gz (5.1 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.