Geothlypis trichas
common yellowthroat
Information
| Resource | |
|---|---|
| NCBI Taxonomy Browser | NCBI:txid135433 |
| Resource | Primary Assembly | Alternate Assembly |
|---|---|---|
| GenBank | GCA_009764595.1 | GCA_009764545.1 |
| ENA | GCA_009764595.1 | GCA_009764545.1 |
| UCSC Genome Browser | GCA_009764595.1 | GCA_009764545.1 |
CC BY-SA 2.0 Dan Pancamo (flickr)
Raw Data
| Datatype | Approximate Size | Download Size | |
|---|---|---|---|
| Bases | Coverage | ||
| 10x | 49.03 Gbp | 34.05x | 28.521 GB |
| Arima | 136.08 Gbp | 94.50x | 65.322 GB |
| Bionano | 1962.30 Gbp | 1362.71x | 2.877 GB |
| PacBio SubReads | 75.04 Gbp | 52.11x | 133.351 GB |
Coverage based on genome size 1.44 Gbp.
Last upload on 3 October 2019.
Download each datatype using the AWS Command Line Interface:
aws s3 --no-sign-request sync s3://genomeark/species/Geothlypis_trichas/bGeoTri1/genomic_data/10x/ .
aws s3 --no-sign-request sync s3://genomeark/species/Geothlypis_trichas/bGeoTri1/genomic_data/arima/ .
aws s3 --no-sign-request sync s3://genomeark/species/Geothlypis_trichas/bGeoTri1/genomic_data/bionano/ .
aws s3 --no-sign-request sync s3://genomeark/species/Geothlypis_trichas/bGeoTri1/genomic_data/pacbio/ . --exclude "*ccs*bam*"
aws s3 --no-sign-request sync s3://genomeark/species/Geothlypis_trichas/bGeoTri1/genomic_data/arima/ .
aws s3 --no-sign-request sync s3://genomeark/species/Geothlypis_trichas/bGeoTri1/genomic_data/bionano/ .
aws s3 --no-sign-request sync s3://genomeark/species/Geothlypis_trichas/bGeoTri1/genomic_data/pacbio/ . --exclude "*ccs*bam*"
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 8 October 2019
bGeoTri1.pri.cur.20191008.fasta.gz (308 MB)
Version assembly_curated from 8 October 2019
bGeoTri1.pri.cur.20191008.fasta.gz (308 MB)
| Contigs | Scaffolds | |||
|---|---|---|---|---|
| NG | LG | Len | LG | Len |
| 10 | 8 | 9.55 Mbp | 0 | 153.09 Mbp |
| 20 | 20 | 8.34 Mbp | 1 | 116.84 Mbp |
| 30 | 35 | 6.14 Mbp | 2 | 114.14 Mbp |
| 40 | 54 | 4.69 Mbp | 3 | 77.06 Mbp |
| 50 | 81 | 3.25 Mbp | 5 | 72.54 Mbp |
| 60 | 120 | 2.26 Mbp | 6 | 63.30 Mbp |
| 70 | 178 | 1.38 Mbp | 9 | 31.78 Mbp |
| 80 | 281 | 0.82 Mbp | 13 | 20.83 Mbp |
| 90 | 482 | 0.32 Mbp | 19 | 14.38 Mbp |
| 100 | 1756 | 3 bp | 277 | 1.63 Kbp |
| 1.000x | 1757 | 1.06 Gbp | 278 | 1.08 Gbp |
NG based on genome size 1.44 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 8 October 2019
bGeoTri1.alt.cur.20191008.fasta.gz (286 MB)
Version assembly_curated from 8 October 2019
bGeoTri1.alt.cur.20191008.fasta.gz (286 MB)
| Contigs | Scaffolds | |||
|---|---|---|---|---|
| NG | LG | Len | LG | Len |
| 10 | 19 | 3.72 Mbp | 19 | 3.72 Mbp |
| 20 | 51 | 2.70 Mbp | 51 | 2.70 Mbp |
| 30 | 93 | 1.97 Mbp | 93 | 1.97 Mbp |
| 40 | 152 | 1.39 Mbp | 152 | 1.39 Mbp |
| 50 | 234 | 1.05 Mbp | 234 | 1.05 Mbp |
| 60 | 350 | 0.70 Mbp | 350 | 0.70 Mbp |
| 70 | 531 | 0.42 Mbp | 531 | 0.42 Mbp |
| 80 | 857 | 0.21 Mbp | 857 | 0.21 Mbp |
| 90 | 1640 | 71.36 Kbp | 1639 | 71.62 Kbp |
| 100 | 4976 | 564 bp | 4975 | 564 bp |
| 1.000x | 4977 | 0.98 Gbp | 4976 | 0.98 Gbp |
NG based on genome size 1.44 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 16 December 2019
bGeoTri1.MT.20191216.fasta.gz (5 KB)
Version assembly_MT_rockefeller from 16 December 2019
bGeoTri1.MT.20191216.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.