Gastrophryne carolinensis

eastern narrow-mouthed toad

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank aGasCar1: GCA_027917415.1 aGasCar1: GCA_027917425.1
ENA aGasCar1: GCA_027917415.1 aGasCar1: GCA_027917425.1
UCSC Genome Browser aGasCar1: GCA_027917415.1 aGasCar1: GCA_027917425.1

metadata.yaml (view) (edit on github)
species:
  name: Gastrophryne carolinensis
  individuals:
  - short_name: aGasCar1
  short_name: aGasCar
  taxon_id: 8429
  common_name: eastern narrow-mouthed toad
  genome_size: 4548000000
  genome_size_method: GoAT
  order:
    name: Anura
  family:
    name: Microhylidae
  project: [ vgp ]
CC BY-NC 2.0 Dave Huth (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) aGasCar1 477.05 Gbp 104.89x 1.1 TiB
PacBio HiFi (.fq) aGasCar1 134.71 Gbp 29.62x 101.8 GiB
PacBio HiFi (.bam) aGasCar1 102.24 Gbp 22.48x 350.2 GiB
Arima aGasCar1 487.24 Gbp 107.13x 245.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 4.55 Gbp.
Last upload on 3 May 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
aGasCar1 PacBio HiFi (subreads) 477.05 Gbp 104.89x 1.1 TiB
PacBio HiFi (.fq) 134.71 Gbp 29.62x 101.8 GiB
PacBio HiFi (.bam) 102.24 Gbp 22.48x 350.2 GiB
Arima 487.24 Gbp 107.13x 245.6 GiB
Bases and Coverage are approximate.
Coverage based on genome size 4.55 Gbp.
Last upload on 3 May 2022.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 13 July 2022
aGasCar1.hap1.cur.20220713.fasta.gz (1.1 GiB)

Quality: 0.4 errors/Mb (QV=64.30)

Contigs Scaffolds
NG LG Len LG Len
10 26 13.82 Mbp 0 0.66 Gbp
20 64 9.93 Mbp 1 0.63 Gbp
30 117 7.47 Mbp 2 0.53 Gbp
40 183 6.12 Mbp 2 0.53 Gbp
50 269 4.62 Mbp 3 489.28 Mbp
60 381 3.54 Mbp 4 459.08 Mbp
70 533 2.53 Mbp 5 441.14 Mbp
80 756 1.64 Mbp 7 208.51 Mbp
90 1167 0.64 Mbp 10 172.28 Mbp
100 0 0
0.953x 2747 4.34 Gbp 1002 4.34 Gbp
NG based on genome size 4.55 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 13 July 2022
aGasCar1.hap2.cur.20220713.fasta.gz (1.1 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 27 13.44 Mbp 0 0.66 Gbp
20 66 9.99 Mbp 1 0.63 Gbp
30 119 7.27 Mbp 2 0.52 Gbp
40 189 5.75 Mbp 3 483.86 Mbp
50 278 4.46 Mbp 3 483.86 Mbp
60 396 3.33 Mbp 4 459.95 Mbp
70 555 2.43 Mbp 5 441.38 Mbp
80 791 1.54 Mbp 7 207.53 Mbp
90 1231 0.60 Mbp 10 162.84 Mbp
100 0 0
0.947x 2363 4.31 Gbp 590 4.31 Gbp
NG based on genome size 4.55 Gbp.
Assembly Metadata
assembly_vgp_HiC_2.0/aGasCar1.yaml (view)
species: Gastrophryne carolinensis
specimen: aGasCar1
projects:
  - vgp
hap1: s3://genomeark/species/Gastrophryne_carolinensis/aGasCar1/assembly_vgp_HiC_2.0/aGasCar1.HiC.hap1.s2.fasta.gz
hap2: s3://genomeark/species/Gastrophryne_carolinensis/aGasCar1/assembly_vgp_HiC_2.0/aGasCar1.HiC.hap2.s2.fasta.gz
hap1_hic_bam: s3://genomeark/species/Gastrophryne_carolinensis/aGasCar1/assembly_vgp_HiC_2.0/evaluation/pretext/aGasCar1.HiC.hap1.s2.bam
hap2_hic_bam: s3://genomeark/species/Gastrophryne_carolinensis/aGasCar1/assembly_vgp_HiC_2.0/evaluation/pretext/aGasCar1.HiC.hap2.s2.bam
hap1_pretext: s3://genomeark/species/Gastrophryne_carolinensis/aGasCar1/assembly_vgp_HiC_2.0/evaluation/pretext/aGasCar1.HiC.hap1.s2.pretext
hap2_pretext: s3://genomeark/species/Gastrophryne_carolinensis/aGasCar1/assembly_vgp_HiC_2.0/evaluation/pretext/aGasCar1.HiC.hap2.s2.pretext
kmer_spectra_img: s3://genomeark/species/Gastrophryne_carolinensis/aGasCar1/assembly_vgp_HiC_2.0/evaluation/merqury/aGasCar1_png/
pipeline:
  - hifiasm (0.16.1+galaxy2)
  - yahs (1.1a)
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.