Phyllonycteris poeyi

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


No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mPhyPoe1 104.28 Gbp N/A 87.0 GiB
PacBio HiFi (.bam) mPhyPoe1 102.71 Gbp N/A 366.3 GiB
Arima mPhyPoe1 146.91 Gbp N/A 80.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 17 April 2026.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mPhyPoe1 PacBio HiFi (.fq) 104.28 Gbp N/A 87.0 GiB
PacBio HiFi (.bam) 102.71 Gbp N/A 366.3 GiB
Arima 146.91 Gbp N/A 80.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 17 April 2026.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_vgp_HiC_2.0 from 18 May 2026
mPhyPoe1.HiC.hap1.20260518.fasta.gz (592.5 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 216.17 Mbp 1 223.35 Mbp
20 3 134.81 Mbp 2 218.36 Mbp
30 4 122.76 Mbp 3 216.17 Mbp
40 6 108.89 Mbp 5 176.78 Mbp
50 8 94.11 Mbp 6 170.02 Mbp
60 11 74.44 Mbp 7 143.98 Mbp
70 14 63.73 Mbp 9 116.40 Mbp
80 18 54.02 Mbp 11 108.63 Mbp
90 22 41.14 Mbp 13 69.55 Mbp
100 108 27.29 Kbp 83 27.29 Kbp
1.000x 108 2.19 Gbp 83 2.19 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_vgp_HiC_2.0 from 18 May 2026
mPhyPoe1.HiC.hap2.20260518.fasta.gz (569.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 1 218.24 Mbp 1 221.40 Mbp
20 2 216.05 Mbp 2 218.24 Mbp
30 4 144.04 Mbp 3 216.05 Mbp
40 5 131.51 Mbp 4 213.57 Mbp
50 7 110.19 Mbp 6 170.17 Mbp
60 9 108.63 Mbp 7 144.04 Mbp
70 11 93.91 Mbp 8 134.91 Mbp
80 14 62.51 Mbp 10 108.63 Mbp
90 17 51.09 Mbp 12 68.99 Mbp
100 88 12.61 Kbp 64 12.61 Kbp
1.000x 88 2.10 Gbp 64 2.10 Gbp
NG based on genome size .
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 18 May 2026
mPhyPoe1.MT.20260518.fasta.gz (1.4 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mPhyPoe1.yml (view)
species: Phyllonycteris poeyi
specimen: mPhyPoe1
projects:
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
combine_for_curation: true
hap1: s3://genomeark/species/Phyllonycteris_poeyi/mPhyPoe1/assembly_vgp_HiC_2.0/mPhyPoe1.HiC.hap1.20260518.fasta.gz
hap2: s3://genomeark/species/Phyllonycteris_poeyi/mPhyPoe1/assembly_vgp_HiC_2.0/mPhyPoe1.HiC.hap2.20260518.fasta.gz
pretext_hap1: s3://genomeark/species/Phyllonycteris_poeyi/mPhyPoe1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/s2/mPhyPoe1_hap1_s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Phyllonycteris_poeyi/mPhyPoe1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/s2/mPhyPoe1_hap2_s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Phyllonycteris_poeyi/mPhyPoe1/assembly_vgp_HiC_2.0/evaluation/merqury/mPhyPoe1_png/
pacbio_read_dir: s3://genomeark/species/Phyllonycteris_poeyi/mPhyPoe1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Phyllonycteris_poeyi/mPhyPoe1/genomic_data/arima/
pipeline:
  - hifiasm (0.25.0+galaxy3)
  - yahs (1.2a.2+galaxy3)
  - VGP0 mitoHiFi workflow (v0.2.2)
  - VGP1 genomic profiling workflow (v0.9)
  - VGP4 HiFi HiC assembly workflow (v0.6)
  - VGP8 HiC scaffolding workflow (v3.5) with mapq=10
  - VGP9 decontamination workflow (v1.3)
  - Pre-curation workflow (v2.4) with mapq=10, keep HiC duplicates and generate high-resolution map
notes: This was a Hifiasm-HiC assembly of mPhyPoe1 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.