Anadara tuberculosa

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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 10 July 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 10 July 2023.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 10 July 2023
xbAnaTube1.hap1.decontam.20230710.fasta.gz (212.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 10 7.64 Mbp 2 54.75 Mbp
20 24 5.57 Mbp 4 52.79 Mbp
30 42 4.71 Mbp 6 48.43 Mbp
40 64 3.56 Mbp 7 48.05 Mbp
50 92 2.89 Mbp 9 47.65 Mbp
60 127 2.33 Mbp 11 46.13 Mbp
70 171 1.82 Mbp 13 45.94 Mbp
80 230 1.32 Mbp 15 38.95 Mbp
90 313 0.87 Mbp 18 33.04 Mbp
100 833 8.50 Kbp 377 8.50 Kbp
1.000x 833 0.91 Gbp 377 0.91 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 10 July 2023
xbAnaTube1.hap2.decontam.20230710.fasta.gz (210.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 10 7.87 Mbp 2 56.98 Mbp
20 23 5.91 Mbp 3 56.77 Mbp
30 40 4.95 Mbp 5 52.03 Mbp
40 59 4.28 Mbp 7 48.90 Mbp
50 82 3.60 Mbp 9 44.78 Mbp
60 109 2.93 Mbp 10 44.69 Mbp
70 144 2.24 Mbp 12 43.83 Mbp
80 187 1.80 Mbp 15 38.20 Mbp
90 249 1.07 Mbp 17 34.32 Mbp
100 567 12.39 Kbp 178 12.39 Kbp
1.000x 567 0.88 Gbp 178 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.