Raw Data
| Datatype | Approximate Coverage | Download Size |
|---|---|---|
| 10x | 95.20x | 114.690 GB |
| Arima | 165.27x | 167.949 GB |
| Bionano | 1549.31x | 4.938 GB |
| PacBio Scraps | N/A | 1821.173 GB |
| PacBio SubReads | 128.24x | 467.477 GB |
Coverage based on genome size 2.07 Gbp.
Last upload on 23 April 2019.
Download each datatype using the AWS Command Line Interface:
aws s3 --no-sign-request sync s3://genomeark/species/Amblyraja_radiata/sAmbRad1/genomic_data/10x/ .
aws s3 --no-sign-request sync s3://genomeark/species/Amblyraja_radiata/sAmbRad1/genomic_data/arima/ .
aws s3 --no-sign-request sync s3://genomeark/species/Amblyraja_radiata/sAmbRad1/genomic_data/bionano/ .
aws s3 --no-sign-request sync s3://genomeark/species/Amblyraja_radiata/sAmbRad1/genomic_data/pacbio/ . --exclude "*scraps.bam* --exclude "*ccs.bam*"
aws s3 --no-sign-request sync s3://genomeark/species/Amblyraja_radiata/sAmbRad1/genomic_data/arima/ .
aws s3 --no-sign-request sync s3://genomeark/species/Amblyraja_radiata/sAmbRad1/genomic_data/bionano/ .
aws s3 --no-sign-request sync s3://genomeark/species/Amblyraja_radiata/sAmbRad1/genomic_data/pacbio/ . --exclude "*scraps.bam* --exclude "*ccs.bam*"
Assemblies
Individual 1 Primary Assembly
Version assembly_vgp_nhgri_1.5 from 15 July 2019
sAmbRad1.pri.asm.20190715.fasta.gz (756 MB)
Version assembly_vgp_nhgri_1.5 from 15 July 2019
sAmbRad1.pri.asm.20190715.fasta.gz (756 MB)
| Contigs | Scaffolds | |||
|---|---|---|---|---|
| NG | LG | Len | LG | Len |
| 10 | 30 | 5.00 Mbp | 0 | 213.25 Mbp |
| 20 | 79 | 3.50 Mbp | 2 | 149.09 Mbp |
| 30 | 146 | 2.68 Mbp | 3 | 133.14 Mbp |
| 40 | 234 | 2.15 Mbp | 5 | 105.59 Mbp |
| 50 | 343 | 1.67 Mbp | 8 | 76.84 Mbp |
| 60 | 479 | 1.37 Mbp | 10 | 71.59 Mbp |
| 70 | 650 | 1.06 Mbp | 14 | 51.62 Mbp |
| 80 | 882 | 0.77 Mbp | 18 | 43.57 Mbp |
| 90 | 1206 | 0.53 Mbp | 23 | 38.10 Mbp |
| 100 | 1706 | 0.33 Mbp | 29 | 32.22 Mbp |
| 1.242x | 6385 | 2.57 Gbp | 2113 | 3.78 Gbp |
Individual 1 Alternate Assembly
Version assembly_vgp_nhgri_1.5 from 15 July 2019
sAmbRad1.alt.asm.20190715.fasta.gz (545 MB)
Version assembly_vgp_nhgri_1.5 from 15 July 2019
sAmbRad1.alt.asm.20190715.fasta.gz (545 MB)
| Contigs | Scaffolds | |||
|---|---|---|---|---|
| NG | LG | Len | LG | Len |
| 10 | 1097 | 0.14 Mbp | 1097 | 0.14 Mbp |
| 20 | 2835 | 0.10 Mbp | 2835 | 0.10 Mbp |
| 30 | 5092 | 82.32 Kbp | 5092 | 82.32 Kbp |
| 40 | 7855 | 68.81 Kbp | 7855 | 68.81 Kbp |
| 50 | 11118 | 58.81 Kbp | 11118 | 58.81 Kbp |
| 60 | 14941 | 50.06 Kbp | 14941 | 50.06 Kbp |
| 70 | 19476 | 41.57 Kbp | 19476 | 41.57 Kbp |
| 80 | 25096 | 32.27 Kbp | 25096 | 32.27 Kbp |
| 90 | - | - | - | - |
| 100 | - | - | - | - |
| 0.896x | 33692 | 1.86 Gbp | 33692 | 1.86 Gbp |
NG based on genome size 2.07 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 20 August 2019
sAmbRad1.MT.20190820.fasta.gz (5 KB)
Version assembly_MT_rockefeller from 20 August 2019
sAmbRad1.MT.20190820.fasta.gz (5 KB)
Data Use Policy
VGP 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 us with any questions.