Neoarius graeffei

lesser salmon catfish

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fNeoGra1: GCA_027579695.1 fNeoGra1: GCA_027579805.1
ENA fNeoGra1: GCA_027579695.1 fNeoGra1: GCA_027579805.1
UCSC Genome Browser fNeoGra1: GCA_027579695.1 fNeoGra1: GCA_027579805.1

metadata.yaml (view) (edit on github)
species:
  name: Neoarius graeffei
  individuals:
  - short_name: fNeoGra1
  short_name: fNeoGra
  taxon_id: '443677'
  common_name: lesser salmon catfish
  genome_size: 2416000000
  genome_size_method: GoAT
  order:
    name: Siluriformes
  family:
    name: Ariidae
  project: [ vgp ]
CC0 Richard Fuller (iNaturalist)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) fNeoGra1 490.41 Gbp 202.98x 1.0 TiB
PacBio HiFi (.fq) fNeoGra1 79.92 Gbp 33.08x 66.2 GiB
PacBio HiFi (.bam) fNeoGra1 79.90 Gbp 33.07x 279.4 GiB
Bionano fNeoGra1 N/A 224.76x 707.0 MiB
Arima fNeoGra1 375.53 Gbp 155.44x 174.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.42 Gbp.
Last upload on 3 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fNeoGra1 PacBio HiFi (subreads) 490.41 Gbp 202.98x 1.0 TiB
PacBio HiFi (.fq) 79.92 Gbp 33.08x 66.2 GiB
PacBio HiFi (.bam) 79.90 Gbp 33.07x 279.4 GiB
Bionano N/A 224.76x 707.0 MiB
Arima 375.53 Gbp 155.44x 174.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.42 Gbp.
Last upload on 3 May 2022.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 11 March 2022
fNeoGra1.pri.cur.20220311.fasta.gz (656.5 MiB)

Quality: 0.9 errors/Mb (QV=60.23)

Contigs Scaffolds
NG LG Len LG Len
10 5 33.00 Mbp 1 128.05 Mbp
20 13 23.61 Mbp 3 116.86 Mbp
30 24 20.98 Mbp 6 101.09 Mbp
40 37 17.63 Mbp 8 94.38 Mbp
50 52 14.67 Mbp 11 83.21 Mbp
60 70 12.08 Mbp 14 77.72 Mbp
70 94 8.08 Mbp 17 70.27 Mbp
80 129 5.70 Mbp 21 61.23 Mbp
90 191 2.34 Mbp 25 57.12 Mbp
100 0 0
0.964x 372 2.33 Gbp 38 2.34 Gbp
NG based on genome size 2.42 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 23 December 2022
fNeoGra1.alt.cur.20221223.fasta.gz (568.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 75 2.16 Mbp 75 2.16 Mbp
20 212 1.50 Mbp 212 1.50 Mbp
30 398 1.15 Mbp 397 1.16 Mbp
40 636 0.90 Mbp 635 0.90 Mbp
50 941 0.70 Mbp 941 0.70 Mbp
60 1340 0.52 Mbp 1340 0.52 Mbp
70 1896 363.19 Kbp 1894 363.28 Kbp
80 2796 187.70 Kbp 2795 187.70 Kbp
90 5754 32.88 Kbp 5753 32.88 Kbp
100 0 0
0.909x 6593 2.20 Gbp 6590 2.20 Gbp
NG based on genome size 2.42 Gbp.
Assembly Metadata
assembly_vgp_standard_2.0/fNeoGra1.yaml (view)
species: Neoarius graeffei
specimen: fNeoGra1
projects:
  - vgp
primary: s3://genomeark/species/Neoarius_graeffei/fNeoGra1/assembly_vgp_standard_2.0/fNeoGra1.pri.asm.20211203.fasta.gz
haplotigs: s3://genomeark/species/Neoarius_graeffei/fNeoGra1/assembly_vgp_standard_2.0/fNeoGra1.alt.asm.20211203.fasta.gz
hic_bam: s3://genomeark/species/Neoarius_graeffei/fNeoGra1/assembly_vgp_standard_2.0/evaluation/pretext/s2/fNeoGra1_s2.bam
pretext: s3://genomeark/species/Neoarius_graeffei/fNeoGra1/assembly_vgp_standard_2.0/evaluation/pretext/s2/fNeoGra1_s2.pretext
kmer_spectra_img: s3://genomeark/species/Neoarius_graeffei/fNeoGra1/assembly_vgp_standard_2.0/evaluation/merqury/p/fNeoGra1_images/
pipeline:
  - hifiasm (0.15.4+galaxy0)
  - purge_dups (1.2.5+galaxy3)
  - bionano scaffold (3.6.1+galaxy2)
  - salsa (2.3+galaxy1)
notes: smudgeplot images at s3://genomeark/species/Neoarius_graeffei/fNeoGra1/assembly_vgp_standard_2.0/evaluation/smudgeplot/
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.