Anomalurus derbianus

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Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mAnoDer1 229.90 Gbp N/A 108.2 GiB
PacBio HiFi (.bam) mAnoDer1 234.69 Gbp N/A 765.0 GiB
Arima mAnoDer1 186.70 Gbp N/A 101.2 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 15 April 2026.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mAnoDer1 PacBio HiFi (.fq) 229.90 Gbp N/A 108.2 GiB
PacBio HiFi (.bam) 234.69 Gbp N/A 765.0 GiB
Arima 186.70 Gbp N/A 101.2 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 15 April 2026.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 28 May 2026
mAnoDer1.hap1.cur.20260528.fasta.gz (735.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 134.25 Mbp 2 147.86 Mbp
20 4 120.43 Mbp 4 137.74 Mbp
30 7 100.32 Mbp 6 122.23 Mbp
40 9 99.28 Mbp 8 118.15 Mbp
50 12 94.46 Mbp 10 112.38 Mbp
60 15 75.05 Mbp 13 100.32 Mbp
70 19 65.33 Mbp 16 94.46 Mbp
80 24 43.48 Mbp 19 77.24 Mbp
90 31 29.33 Mbp 22 58.68 Mbp
100 296 2.83 Kbp 223 17.06 Kbp
1.000x 296 2.60 Gbp 223 2.60 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 28 May 2026
mAnoDer1.hap2.cur.20260528.fasta.gz (666.9 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 127.78 Mbp 2 147.09 Mbp
20 5 106.43 Mbp 4 136.43 Mbp
30 7 99.92 Mbp 6 120.23 Mbp
40 10 97.10 Mbp 8 114.60 Mbp
50 12 86.10 Mbp 10 110.54 Mbp
60 15 73.16 Mbp 13 98.89 Mbp
70 19 62.70 Mbp 15 92.16 Mbp
80 24 39.83 Mbp 18 78.94 Mbp
90 32 23.69 Mbp 22 50.71 Mbp
100 314 8.93 Kbp 223 16.66 Kbp
1.000x 314 2.53 Gbp 223 2.53 Gbp
NG based on genome size .
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 4 May 2026
mAnoDer1.MT.20260504.fasta.gz (5.3 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mAnoDer1.yml (view)
species: Anomalurus derbianus
specimen: mAnoDer1
projects:
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
combine_for_curation: true
hap1: s3://genomeark/species/Anomalurus_derbianus/mAnoDer1/assembly_vgp_HiC_2.0/mAnoDer1.HiC.hap1.20260504.fasta.gz
hap2: s3://genomeark/species/Anomalurus_derbianus/mAnoDer1/assembly_vgp_HiC_2.0/mAnoDer1.HiC.hap2.20260504.fasta.gz
pretext_hap1: s3://genomeark/species/Anomalurus_derbianus/mAnoDer1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/s2/mAnoDer1_hap1_s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Anomalurus_derbianus/mAnoDer1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/s2/mAnoDer1_hap2_s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Anomalurus_derbianus/mAnoDer1/assembly_vgp_HiC_2.0/evaluation/merqury/mAnoDer1_png/
pacbio_read_dir: s3://genomeark/species/Anomalurus_derbianus/mAnoDer1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Anomalurus_derbianus/mAnoDer1/genomic_data/arima/
pipeline:
  - hifiasm (0.25.0+galaxy3)
  - yahs (1.2a.2+galaxy3)
  - VGP0 mitoHiFi workflow (v0.2.2)
  - VGP1 genomic profiling workflow (v20260331 update)
  - VGP4 HiFi HiC assembly workflow (v0.6)
  - VGP8 HiC scaffolding workflow (v3.5) with mapq=10
  - VGP9 decontamination workflow (v1.3)
  - Pre-curation workflow (v20260430 update) with mapq=10, keep HiC duplicates and generate high-resolution map
notes: This was a Hifiasm-HiC assembly of mAnoDer1 resulting in two haplotype assemblies. HiC data were generated using the Arima library prep kit, and require trimming the first 5 bp off from the 5' end of both read files. The restriction enzymes used were the Arima v2 kit, so the cutting sites are GATC, GANTC, CTNAG, TTAA.
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.