Thamnophis elegans

Western terrestrial garter snake

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank rThaEle1: GCA_009769535.1 rThaEle1: GCA_009769695.1
ENA rThaEle1: GCA_009769535.1 rThaEle1: GCA_009769695.1
UCSC Genome Browser rThaEle1: GCA_009769535.1 rThaEle1: GCA_009769695.1

metadata.yaml (view) (edit on github)
species:
  common_name: Western terrestrial garter snake
  family:
    name: Colubridae
  genome_size: 1900000000
  genome_size_method: null
  individuals:
  - short_name: rThaEle1
  name: Thamnophis elegans
  order:
    name: Squamata
  short_name: rThaEle
  taxon_id: 35005
  project: [ vgp ]
CC BY-NC 2.0 J. Maughn (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR rThaEle1 118.12 Gbp 62.17x 204.0 GiB
10x rThaEle1 204.27 Gbp 107.51x 104.3 GiB
Bionano rThaEle1 N/A 185.58x 563.7 MiB
Dovetail Genomics rThaEle1 260.54 Gbp 137.13x 147.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.90 Gbp.
Last upload on 8 May 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
rThaEle1 PacBio CLR 118.12 Gbp 62.17x 204.0 GiB
10x 204.27 Gbp 107.51x 104.3 GiB
Bionano N/A 185.58x 563.7 MiB
Dovetail Genomics 260.54 Gbp 137.13x 147.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.90 Gbp.
Last upload on 8 May 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 20 August 2019
rThaEle1.pri.cur.20190820.fasta.gz (473.1 MiB)

Quality: 390.3 errors/Mb (QV=34.09)

Contigs Scaffolds
NG LG Len LG Len
10 7 18.19 Mbp 1 174.86 Mbp
20 20 12.51 Mbp 2 152.01 Mbp
30 39 7.58 Mbp 3 145.13 Mbp
40 70 5.07 Mbp 4 142.85 Mbp
50 115 3.55 Mbp 6 88.49 Mbp
60 188 1.78 Mbp 8 80.82 Mbp
70 338 0.88 Mbp 11 71.29 Mbp
80 721 280.27 Kbp 14 49.40 Mbp
90 0 0
100 0 0
0.860x 1883 1.63 Gbp 365 1.67 Gbp
NG based on genome size 1.90 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 20 August 2019
rThaEle1.alt.cur.20190820.fasta.gz (535.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 56 2.47 Mbp 56 2.47 Mbp
20 154 1.59 Mbp 154 1.59 Mbp
30 307 1.00 Mbp 306 1.00 Mbp
40 544 0.65 Mbp 541 0.65 Mbp
50 928 379.23 Kbp 922 382.95 Kbp
60 1628 195.77 Kbp 1616 198.48 Kbp
70 3049 98.56 Kbp 3027 99.07 Kbp
80 5522 61.08 Kbp 5490 61.30 Kbp
90 9529 36.36 Kbp 9480 36.54 Kbp
100 0 0
0.954x 13642 1.81 Gbp 13623 1.81 Gbp
NG based on genome size 1.90 Gbp.
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.