Peromyscus gossypinus

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Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mPerGos1 144.32 Gbp N/A 70.7 GiB
PacBio HiFi (.bam) mPerGos1 143.67 Gbp N/A 574.2 GiB
Arima mPerGos1 212.56 Gbp N/A 115.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 17 June 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mPerGos1 PacBio HiFi (.fq) 144.32 Gbp N/A 70.7 GiB
PacBio HiFi (.bam) 143.67 Gbp N/A 574.2 GiB
Arima 212.56 Gbp N/A 115.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 17 June 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 14 April 2026
mPerGos1.hap1.cur.20260414.fasta.gz (774.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 92.65 Mbp 2 179.79 Mbp
20 6 82.79 Mbp 3 178.88 Mbp
30 10 75.01 Mbp 5 160.78 Mbp
40 14 72.27 Mbp 7 143.18 Mbp
50 18 63.27 Mbp 9 122.05 Mbp
60 23 44.26 Mbp 12 99.40 Mbp
70 30 36.58 Mbp 15 82.79 Mbp
80 41 18.58 Mbp 19 72.04 Mbp
90 65 8.03 Mbp 23 64.89 Mbp
100 572 1.33 Kbp 463 15.82 Kbp
1.000x 572 2.84 Gbp 463 2.84 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 14 April 2026
mPerGos1.hap2.cur.20260414.fasta.gz (647.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 103.46 Mbp 2 175.66 Mbp
20 5 90.82 Mbp 3 170.71 Mbp
30 8 79.58 Mbp 5 145.83 Mbp
40 12 66.64 Mbp 7 123.06 Mbp
50 16 55.90 Mbp 9 114.62 Mbp
60 20 48.15 Mbp 11 101.48 Mbp
70 26 41.06 Mbp 14 84.63 Mbp
80 33 31.21 Mbp 17 74.20 Mbp
90 44 16.40 Mbp 20 68.46 Mbp
100 275 9.61 Kbp 197 14.21 Kbp
1.000x 275 2.53 Gbp 197 2.53 Gbp
NG based on genome size .
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 27 June 2024
mPerGos1.MT.20240627.fasta.gz (5.2 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mPerGos1.yml (view)
species: Peromyscus gossypinus
specimen: mPerGos1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
combine_for_curation: true
hap1: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/assembly_vgp_HiC_2.0/mPerGos1.HiC.hap1.20240627.fasta.gz
hap2: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/assembly_vgp_HiC_2.0/mPerGos1.HiC.hap2.20240627.fasta.gz
pretext_hap1: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mPerGos1_hap1_s2.pretext
pretext_hap2: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mPerGos1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/assembly_vgp_HiC_2.0/evaluation/merqury/mPerGos1_png/
mito: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/assembly_MT_rockefeller/mPerGos1.MT.20240627.fasta.gz
pacbio_read_dir: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Peromyscus_gossypinus/mPerGos1/genomic_data/arima/
pipeline: 
  - hifiasm (0.19.8+galaxy1)
  - yahs (1.2a.2+galaxy1)
notes: This was a Hifiasm-HiC assembly of mPerGos1, resulting in two complete haplotypes. The HiC prep kit used was Arima, so the HiC reads require trimming 5 bp off the 5' end. The assembly was performed on the Rockefeller University VGL instance. 
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.