Anadara tuberculosa

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


CC0 1.0 Hans Muller (Naturalis Biodiversity Center/Wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 29 May 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 29 May 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 29 April 2026
xbAnaTube1.hap1.cur.20260429.fasta.gz (236.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 10 7.41 Mbp 2 56.64 Mbp
20 25 5.53 Mbp 4 52.71 Mbp
30 42 4.82 Mbp 5 52.12 Mbp
40 64 3.70 Mbp 7 48.57 Mbp
50 91 2.95 Mbp 9 48.05 Mbp
60 125 2.38 Mbp 11 46.49 Mbp
70 169 1.84 Mbp 13 45.94 Mbp
80 226 1.33 Mbp 15 40.66 Mbp
90 308 0.88 Mbp 17 35.69 Mbp
100 847 326 bp 338 8.50 Kbp
1.000x 847 0.90 Gbp 338 0.90 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 29 April 2026
xbAnaTube1.hap2.cur.20260429.fasta.gz (210.5 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 10 7.87 Mbp 2 56.87 Mbp
20 24 5.68 Mbp 4 52.61 Mbp
30 41 4.88 Mbp 5 51.66 Mbp
40 60 4.23 Mbp 7 48.95 Mbp
50 84 3.46 Mbp 9 47.46 Mbp
60 112 2.77 Mbp 11 45.42 Mbp
70 148 2.20 Mbp 13 44.93 Mbp
80 193 1.72 Mbp 15 40.03 Mbp
90 259 1.03 Mbp 17 38.26 Mbp
100 609 406 bp 156 12.39 Kbp
1.000x 609 0.89 Gbp 156 0.89 Gbp
NG based on genome size .
Assembly Metadata
assembly_vgp_HiC_2.0/xbAnaTube1.yml (view)
species: Anadara tuberculosa
specimen: xbAnaTube1
projects: 
  - vgp
hap1: s3://genomeark/species/Anadara_tuberculosa/xbAnaTube1/assembly_vgp_HiC_2.0/xbAnaTube1.HiC.hap1.20230710.fasta.gz
hap2: s3://genomeark/species/Anadara_tuberculosa/xbAnaTube1/assembly_vgp_HiC_2.0/xbAnaTube1.HiC.hap2.20230710.fasta.gz
pretext_hap1: s3://genomeark/species/Anadara_tuberculosa/xbAnaTube1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/xbAnaTube1_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Anadara_tuberculosa/xbAnaTube1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/xbAnaTube1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Anadara_tuberculosa/xbAnaTube1/assembly_vgp_HiC_2.0/evaluation/merqury/xbAnaTube1_png/
pipeline:
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy1)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of xbAnaTube1, resulting in two complete haplotypes. This individual did not bionano data. HiC scaffolding was performed with yahs. The HiC prep was Arima kit 2. The HiC reads needed to have 5 bp trimmed from the 5' end due to adapter left over from the Arima library prep kit.
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.