Geothlypis trichas

common yellowthroat

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank bGeoTri1: GCA_009764595.1 bGeoTri1: GCA_009764545.1
ENA bGeoTri1: GCA_009764595.1 bGeoTri1: GCA_009764545.1
UCSC Genome Browser bGeoTri1: GCA_009764595.1 bGeoTri1: GCA_009764545.1

metadata.yaml (view) (edit on github)
species:
  short_name: bGeoTri
  name: Geothlypis trichas
  taxon_id: 135433
  common_name: common yellowthroat
  order:
    name: Passeriformes
  family:
    name: Parulidae
  individuals:
    - short_name: bGeoTri1
  genome_size: 1440000000
  genome_size_method: Feulgen Image Analysis Densitometry
  project: [ vgp ]
CC BY-SA 2.0 Dan Pancamo (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bGeoTri1 74.94 Gbp 52.04x 133.2 GiB
10x bGeoTri1 49.03 Gbp 34.05x 28.5 GiB
Bionano bGeoTri1 N/A 1362.71x 2.8 GiB
Arima bGeoTri1 136.08 Gbp 94.50x 65.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.44 Gbp.
Last upload on 3 October 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bGeoTri1 PacBio CLR 74.94 Gbp 52.04x 133.2 GiB
10x 49.03 Gbp 34.05x 28.5 GiB
Bionano N/A 1362.71x 2.8 GiB
Arima 136.08 Gbp 94.50x 65.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.44 Gbp.
Last upload on 3 October 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 8 October 2019
bGeoTri1.pri.cur.20191008.fasta.gz (307.8 MiB)

Quality: 680.6 errors/Mb (QV=31.67)

Contigs Scaffolds
NG LG Len LG Len
10 12 9.06 Mbp 0 153.09 Mbp
20 30 6.47 Mbp 2 114.14 Mbp
30 55 4.69 Mbp 3 77.06 Mbp
40 95 2.80 Mbp 5 72.54 Mbp
50 161 1.62 Mbp 8 36.95 Mbp
60 297 0.76 Mbp 13 20.83 Mbp
70 704 149.35 Kbp 22 11.56 Mbp
80 0 0
90 0 0
100 0 0
0.739x 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 (285.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 33 3.11 Mbp 33 3.11 Mbp
20 91 1.98 Mbp 91 1.98 Mbp
30 185 1.22 Mbp 185 1.22 Mbp
40 336 0.74 Mbp 336 0.74 Mbp
50 629 340.90 Kbp 629 340.90 Kbp
60 1456 89.98 Kbp 1456 89.98 Kbp
70 0 0
80 0 0
90 0 0
100 0 0
0.678x 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 (5.0 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.