Petromyzon marinus

sea lamprey

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank kPetMar1: GCA_010993605.1 kPetMar1: GCA_010993595.1
ENA kPetMar1: GCA_010993605.1 kPetMar1: GCA_010993595.1
UCSC Genome Browser kPetMar1: GCA_010993605.1 kPetMar1: GCA_010993595.1

metadata.yaml (view) (edit on github)
species:
  common_name: sea lamprey
  family:
    name: Petromyzontidae
  genome_size: 1500000000
  genome_size_method: null
  individuals:
  - short_name: kPetMar1
  name: Petromyzon marinus
  order:
    name: Petromyzontiformes
  short_name: kPetMar
  taxon_id: 7757
  project: [ vgp ]
CC BY-SA 2.0 T. Lawrence (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR kPetMar1 93.47 Gbp 62.31x 159.4 GiB
10x kPetMar1 101.00 Gbp 67.33x 50.5 GiB
Bionano kPetMar1 N/A 538.18x 846.3 MiB
Arima kPetMar1 106.03 Gbp 70.69x 56.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.50 Gbp.
Last upload on 18 April 2020.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
kPetMar1 PacBio CLR 93.47 Gbp 62.31x 159.4 GiB
10x 101.00 Gbp 67.33x 50.5 GiB
Bionano N/A 538.18x 846.3 MiB
Arima 106.03 Gbp 70.69x 56.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.50 Gbp.
Last upload on 18 April 2020.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 9 December 2019
kPetMar1.pri.cur.20191209.fasta.gz (283.1 MiB)

Quality: 105.5 errors/Mb (QV=39.77)

Contigs Scaffolds
NG LG Len LG Len
10 14 8.75 Mbp 6 16.78 Mbp
20 37 5.41 Mbp 15 15.30 Mbp
30 71 3.52 Mbp 25 13.66 Mbp
40 128 2.07 Mbp 37 12.49 Mbp
50 236 0.97 Mbp 50 10.96 Mbp
60 488 371.56 Kbp 67 5.88 Mbp
70 1459 56.12 Kbp 465 115.50 Kbp
80 0 0
90 0 0
100 0 0
0.716x 2363 1.07 Gbp 1434 1.09 Gbp
NG based on genome size 1.50 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 9 December 2019
kPetMar1.alt.cur.20191209.fasta.gz (227.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 127 0.86 Mbp 127 0.86 Mbp
20 351 0.54 Mbp 351 0.54 Mbp
30 688 369.94 Kbp 687 370.50 Kbp
40 1215 215.47 Kbp 1212 217.17 Kbp
50 2262 94.77 Kbp 2254 95.25 Kbp
60 0 0
70 0 0
80 0 0
90 0 0
100 0 0
0.561x 4075 0.84 Gbp 4064 0.84 Gbp
NG based on genome size 1.50 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 19 April 2020
kPetMar1.MT.20200419.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.