Dasypus novemcinctus

nine-banded armadillo

Included in the VGP.

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


metadata.yaml (view) (edit on github)
species:
  name: Dasypus novemcinctus
  individuals:
  - short_name: mDasNov1
  short_name: mDasNov
  taxon_id: 9361
  common_name: nine-banded armadillo
  genome_size: 5291000000
  genome_size_method: GoAT
  order:
    name: Cingulata
  family:
    name: Dasypodidae
  project: [ vgp ]
CC BY 2.0 Gail Hampshire (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mDasNov1 89.90 Gbp 16.99x 74.4 GiB
Bionano mDasNov1 N/A 174.22x 1.6 GiB
Arima mDasNov1 667.64 Gbp 126.18x 308.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 5.29 Gbp.
Last upload on 26 April 2022.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mDasNov1 PacBio HiFi (.fq) 89.90 Gbp 16.99x 74.4 GiB
Bionano N/A 174.22x 1.6 GiB
Arima 667.64 Gbp 126.18x 308.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size 5.29 Gbp.
Last upload on 26 April 2022.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 26 April 2023
mDasNov1.hap1.cur.20230426.fasta.gz (0.9 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 11 37.95 Mbp 3 185.45 Mbp
20 29 22.29 Mbp 6 137.87 Mbp
30 59 14.64 Mbp 10 127.76 Mbp
40 107 8.35 Mbp 15 106.69 Mbp
50 205 3.57 Mbp 21 78.44 Mbp
60 551 0.52 Mbp 30 32.36 Mbp
70 0 0
80 0 0
90 0 0
100 0 0
0.622x 1396 3.29 Gbp 559 3.31 Gbp
NG based on genome size 5.29 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 27 May 2023
mDasNov1.hap2.cur.20230527.fasta.gz (1.0 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 10 40.33 Mbp 3 189.58 Mbp
20 27 25.91 Mbp 6 168.29 Mbp
30 54 16.08 Mbp 10 130.20 Mbp
40 96 9.75 Mbp 14 112.63 Mbp
50 169 5.14 Mbp 19 88.06 Mbp
60 327 1.98 Mbp 26 63.09 Mbp
70 0 0
80 0 0
90 0 0
100 0 0
0.672x 1305 3.56 Gbp 534 3.57 Gbp
NG based on genome size 5.29 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 22 November 2022
mDasNov1.MT.20221122.fasta.gz (5.0 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mDasNov1.yaml (view)
species: Dasypus novemcinctus
specimen: mDasNov1
projects: 
  - vgp
hap1: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/assembly_vgp_HiC_2.0/evaluation/mDasNov1.HiC.hap1.20221115.fasta.gz
hap2: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/assembly_vgp_HiC_2.0/evaluation/mDasNov1.HiC.hap2.20221115.fasta.gz
pretext_hap1: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mDasNov1_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mDasNov1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/assembly_vgp_HiC_2.0/evaluation/mDasNov1_png/
pacbio_read_dir: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/genomic_data/arima/
hic_kit: Arima2
bionano_cmap_dir: s3://genomeark/species/Dasypus_novemcinctus/mDasNov1/genomic_data/bionano/
pipeline:
  - hifiasm (0.16.1+galaxy2)
  - solve (3.7.0+galaxy0)
  - salsa (2.3+galaxy3)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of mDasNov1, resulting in two complete haplotypes. The kmer spectra indicates a heterogametic specimen, consistent with sample metadata that this is a male. Because the sex chromosomes are split between the two haplotypes, we are including the file paths for both haplotypes in this single ticket. This assembly was done by Simona Secomandi.
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.