Lophostoma evotis

Davis' round-eared bat

Included in the VGP and BAT1K.

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


metadata.yaml (view) (edit on github)
species:
  short_name: mLopEvo
  name: Lophostoma evotis
  taxon_id: 574022
  common_name: Davis' round-eared bat
  order:
    name: Chiroptera
  family:
    name: Phyllostomidae
  individuals:
    - short_name: mLopEvo1
  genome_size: 2454780000
  genome_size_method: GoaT
  project: [ vgp , bat1k ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mLopEvo1 105.59 Gbp 43.01x 83.4 GiB
Dovetail Genomics mLopEvo1 188.57 Gbp 76.82x 108.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.45 Gbp.
Last upload on 27 October 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mLopEvo1 PacBio HiFi (.fq) 105.59 Gbp 43.01x 83.4 GiB
Dovetail Genomics 188.57 Gbp 76.82x 108.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.45 Gbp.
Last upload on 27 October 2023.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_vgp_HiC_2.0 from 7 November 2023
mLopEvo1.HiC.hap1.20231107.fasta.gz (663.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 124.90 Mbp 2 225.12 Mbp
20 5 88.37 Mbp 3 220.70 Mbp
30 8 76.04 Mbp 4 216.45 Mbp
40 11 60.72 Mbp 5 180.43 Mbp
50 16 53.22 Mbp 6 172.89 Mbp
60 21 41.98 Mbp 8 117.25 Mbp
70 27 32.04 Mbp 10 98.07 Mbp
80 36 19.20 Mbp 13 67.40 Mbp
90 67 3.59 Mbp 23 5.61 Mbp
100 612 10.90 Kbp 549 10.90 Kbp
1.000x 612 2.43 Gbp 549 2.43 Gbp
NG based on genome size 2.45 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_vgp_HiC_2.0 from 7 November 2023
mLopEvo1.HiC.hap2.20231107.fasta.gz (617.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 130.83 Mbp 1 223.68 Mbp
20 4 108.07 Mbp 2 219.75 Mbp
30 6 84.34 Mbp 3 216.51 Mbp
40 9 77.41 Mbp 4 216.35 Mbp
50 12 61.01 Mbp 6 170.64 Mbp
60 16 48.27 Mbp 7 145.66 Mbp
70 21 38.94 Mbp 9 108.68 Mbp
80 27 29.49 Mbp 11 96.81 Mbp
90 40 12.85 Mbp 14 50.19 Mbp
100 308 16.78 Kbp 248 16.78 Kbp
1.000x 308 2.17 Gbp 248 2.17 Gbp
NG based on genome size 2.45 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 21 May 2024
mLopEvo1.MT.20240521.fasta.gz (571.8 MiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mLopEvo1.yml (view)
species: Lophostoma evotis 
specimen: mLopEvo1 
projects:  
  - vgp 
  - bat1k 
assembled_by_group: Rockefeller 
data_location: S3 
release_to: S3 
primary: s3://genomeark/species/Lophostoma_evotis/mLopEvo1/assembly_vgp_HiC_2.0/mLopEvo1.HiC.hap1.20231107.fasta.gz 
haplotigs: s3://genomeark/species/Lophostoma_evotis/mLopEvo1/assembly_vgp_HiC_2.0/mLopEvo1.HiC.hap2.20231107.fasta.gz 
pretext: s3://genomeark/species/Lophostoma_evotis/mLopEvo1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mLopEvo1_hap1_s2.pretext 
pretext: s3://genomeark/species/Lophostoma_evotis/mLopEvo1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mLopEvo1_hap2_s2.pretext 
kmer_spectra_img: s3://genomeark/species/Lophostoma_evotis/mLopEvo1/assembly_vgp_HiC_2.0/evaluation/merqury/mLopEvo1_png/ 
pacbio_read_dir: s3://genomeark/species/Lophostoma_evotis/mLopEvo1/genomic_data/pacbio_hifi/ 
pacbio_read_type: hifi 
hic_read_dir: s3://genomeark/species/Lophostoma_evotis/mLopEvo1/genomic_data/dovetail/ 
pipeline:  
  - hifiasm (0.19.3+galaxy0) 
  - yahs (1.2a.2+galaxy1) 
notes: This was a Hifiasm-HiC assembly of mLopEvo1. 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 Dovetail OmniC. 
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.