Geotrypetes seraphini

Gaboon caecilian

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank aGeoSer1: GCA_902459505.2 aGeoSer1: GCA_902459495.1
ENA aGeoSer1: GCA_902459505.2 aGeoSer1: GCA_902459495.1
UCSC Genome Browser aGeoSer1: GCA_902459505.2 aGeoSer1: GCA_902459495.1

metadata.yaml (view) (edit on github)
species:
  short_name: aGeoSer
  name: Geotrypetes seraphini
  taxon_id: 260995
  common_name: Gaboon caecilian
  order:
    name: Apoda
  family:
    name: Dermophiidae
  individuals:
    - short_name: aGeoSer1
      biosample_id: SAMEA104387963
      sex:
  genome_size:
  genome_size_method:
  project: [ vgp ]
Copyright Mark Wilkinson, used with permission
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR aGeoSer1 274.65 Gbp 72.67x 488.1 GiB
10x aGeoSer1 222.66 Gbp 58.91x 164.5 GiB
Bionano aGeoSer1 N/A 370.46x 2.1 GiB
Dovetail Genomics aGeoSer1 273.04 Gbp 72.24x 169.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.78 Gbp.
Last upload on 25 April 2019.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
aGeoSer1 PacBio CLR 274.65 Gbp 72.67x 488.1 GiB
10x 222.66 Gbp 58.91x 164.5 GiB
Bionano N/A 370.46x 2.1 GiB
Dovetail Genomics 273.04 Gbp 72.24x 169.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 3.78 Gbp.
Last upload on 25 April 2019.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 12 August 2019
aGeoSer1.pri.cur.20190812.fasta.gz (1.1 GiB)

Quality: 42.7 errors/Mb (QV=43.70)

Contigs Scaffolds
NG LG Len LG Len
10 5 55.77 Mbp 0 0.55 Gbp
20 12 38.59 Mbp 1 0.53 Gbp
30 23 32.09 Mbp 2 413.75 Mbp
40 36 26.17 Mbp 3 326.38 Mbp
50 52 20.66 Mbp 4 272.61 Mbp
60 72 16.18 Mbp 5 260.40 Mbp
70 98 12.29 Mbp 7 193.86 Mbp
80 137 7.98 Mbp 9 146.68 Mbp
90 196 4.96 Mbp 12 83.87 Mbp
100 595 405 bp 162 2.39 Kbp
1.000x 596 3.77 Gbp 163 3.78 Gbp
NG based on genome size 3.78 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 12 August 2019
aGeoSer1.alt.cur.20190812.fasta.gz (0.9 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 189 1.34 Mbp 189 1.34 Mbp
20 476 1.01 Mbp 476 1.01 Mbp
30 842 0.81 Mbp 842 0.81 Mbp
40 1291 0.66 Mbp 1291 0.66 Mbp
50 1828 0.56 Mbp 1828 0.56 Mbp
60 2463 472.02 Kbp 2463 472.02 Kbp
70 3230 382.90 Kbp 3230 382.90 Kbp
80 4223 280.87 Kbp 4223 280.87 Kbp
90 5697 168.59 Kbp 5697 168.59 Kbp
100 9650 253 bp 9649 253 bp
1.000x 9651 3.27 Gbp 9650 3.27 Gbp
NG based on genome size 3.78 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 3 October 2019
aGeoSer1.MT.20191003.fasta.gz (4.8 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.