Eptesicus chiriquinus

Chiriquinan serotine

Included in the VGP and BAT1K.

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


metadata.yaml (view) (edit on github)
species:
  short_name: mEptChi
  name: Eptesicus chiriquinus
  taxon_id: 409022
  common_name: Chiriquinan serotine
  order:
    name: Chiroptera
  family:
    name: Vespertilionidae
  individuals:
    - short_name: mEptChi1
  genome_size: 2383875000
  genome_size_method: GoaT
  project: [ vgp , bat1k ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mEptChi1 35.76 Gbp 15.00x 75.0 GiB
PacBio HiFi (.bam) mEptChi1 88.90 Gbp 37.29x 316.4 GiB
Arima mEptChi1 138.07 Gbp 57.92x 56.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.38 Gbp.
Last upload on 13 December 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mEptChi1 PacBio HiFi (.fq) 35.76 Gbp 15.00x 75.0 GiB
PacBio HiFi (.bam) 88.90 Gbp 37.29x 316.4 GiB
Arima 138.07 Gbp 57.92x 56.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.38 Gbp.
Last upload on 13 December 2023.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 26 August 2025
mEptChi1.hap1.cur.20250826.fasta.gz (617.0 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 102.15 Mbp 2 132.72 Mbp
20 5 79.96 Mbp 4 117.41 Mbp
30 8 74.64 Mbp 6 115.03 Mbp
40 13 49.66 Mbp 8 109.51 Mbp
50 18 39.64 Mbp 11 98.50 Mbp
60 25 30.50 Mbp 13 88.36 Mbp
70 35 19.10 Mbp 16 74.23 Mbp
80 63 4.81 Mbp 20 55.42 Mbp
90 234 334.72 Kbp 30 1.78 Mbp
100 0 0
0.910x 455 2.17 Gbp 136 2.17 Gbp
NG based on genome size 2.38 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 26 August 2025
mEptChi1.hap2.cur.20250826.fasta.gz (522.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 91.87 Mbp 2 118.81 Mbp
20 6 81.02 Mbp 4 115.26 Mbp
30 9 62.54 Mbp 7 109.16 Mbp
40 13 52.05 Mbp 9 102.87 Mbp
50 18 45.55 Mbp 11 95.06 Mbp
60 25 25.79 Mbp 14 79.45 Mbp
70 38 11.11 Mbp 17 61.21 Mbp
80 109 1.32 Mbp 22 31.61 Mbp
90 0 0
100 0 0
0.837x 379 1.99 Gbp 112 1.99 Gbp
NG based on genome size 2.38 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 19 December 2023
mEptChi1.MT.20231219.fasta.gz (5.3 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mEptChi1.yml (view)
species: Eptesicus chiriquinus
specimen: mEptChi1
projects: 
  - vgp
  - bat1k
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
primary: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/assembly_vgp_HiC_2.0/mEptChi1.HiC.hap1.20231219.fasta.gz
haplotigs: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/assembly_vgp_HiC_2.0/mEptChi1.HiC.hap2.20231219.fasta.gz
pretext: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mEptChi1_hap1_s2.pretext
pretext: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mEptChi1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/assembly_vgp_HiC_2.0/evaluation/merqury/mEptChi1_png/
pacbio_read_dir: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/genomic_data/arima/
mito: s3://genomeark/species/Eptesicus_chiriquinus/mEptChi1/assembly_MT_rockefeller/mEptChi1.MT.20231219.fasta.gz
pipeline: 
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy1)
notes: This was a Hifiasm-HiC assembly of mEptChi1. This hap1 assembly and hap2 assembly underwent separate HiC scaffolding with YaHS. The HiC prep kit used was Swift-IDT. The HiC reaction was using Arima kit v2.
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.