Artibeus lituratus

great fruit-eating 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: mArtLit
  name: Artibeus lituratus
  taxon_id: 27634
  common_name: great fruit-eating bat
  order:
    name: Chiroptera
  family:
    name: Phyllostomidae
  individuals:
  - mArtLit1
  genome_size: 2577030000
  genome_size_method: GoaT
  project: [ vgp , bat1k ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mArtLit1 125.61 Gbp 48.74x 93.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.58 Gbp.
Last upload on 30 October 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mArtLit1 PacBio HiFi (.fq) 125.61 Gbp 48.74x 93.3 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.58 Gbp.
Last upload on 30 October 2023.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_vgp_HiC_2.0 from 11 September 2023
mArtLit1.HiC.hap1.20230911.fasta.gz (641.9 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 193.24 Mbp 1 244.26 Mbp
20 3 180.62 Mbp 2 216.81 Mbp
30 4 122.86 Mbp 4 180.62 Mbp
40 6 101.11 Mbp 5 177.55 Mbp
50 9 70.48 Mbp 6 160.30 Mbp
60 12 60.70 Mbp 8 146.37 Mbp
70 16 52.15 Mbp 9 129.79 Mbp
80 21 39.55 Mbp 11 110.56 Mbp
90 28 22.54 Mbp 14 60.57 Mbp
100 561 10.28 Kbp 535 10.28 Kbp
1.000x 561 2.27 Gbp 535 2.27 Gbp
NG based on genome size 2.58 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_vgp_HiC_2.0 from 11 September 2023
mArtLit1.HiC.hap2.20230911.fasta.gz (607.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 116.16 Mbp 1 245.58 Mbp
20 4 98.51 Mbp 2 215.52 Mbp
30 7 72.71 Mbp 3 194.47 Mbp
40 10 62.55 Mbp 5 179.08 Mbp
50 13 58.23 Mbp 6 164.09 Mbp
60 17 52.29 Mbp 7 152.73 Mbp
70 22 40.72 Mbp 9 130.58 Mbp
80 28 31.05 Mbp 10 117.95 Mbp
90 37 19.40 Mbp 12 98.44 Mbp
100 375 8.62 Kbp 336 8.62 Kbp
1.000x 375 2.14 Gbp 336 2.14 Gbp
NG based on genome size 2.58 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 28 February 2024
mArtLit1.MT.20240228.fasta.gz (5.3 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mArtLit1_hap1.yml (view)
species: Artibeus lituratus
specimen: mArtLit1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
haplotype_to_curate: hap1
hap1: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/mArtLit1.HiC.hap1.20230911.fasta.gz
hap2: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/mArtLit1.HiC.hap2.20230911.fasta.gz
pretext_hap1: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mArtLit1_hap1_s2.pretext
pretext_hap2: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mArtLit1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/evaluation/merqury/mArtLit1_png/
pacbio_read_dir: s3://genomeark/species/Artibeus_lituratus/mArtLit1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Artibeus_lituratus/mArtLit1/genomic_data/arima/
mito: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_MT_rockefeller/mArtLit1.MT.20240228.fasta.gz
pipeline: 
  - hifiasm (0.16.1+galaxy4)
  - yahs (1.2a.2+galaxy0)
notes: This was a Hifiasm-HiC assembly of mArtLit1, resulting in two complete haplotypes. HiC scaffolding was performed with YaHS.  The HiC prep kit used was Swift-IDT. 
assembly_vgp_HiC_2.0/mArtLit1_hap2.yml (view)
species: Artibeus lituratus
specimen: mArtLit1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
haplotype_to_curate: hap2
hap1: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/mArtLit1.HiC.hap1.20230911.fasta.gz
hap2: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/mArtLit1.HiC.hap2.20230911.fasta.gz
pretext_hap1: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mArtLit1_hap1_s2.pretext
pretext_hap2: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mArtLit1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_vgp_HiC_2.0/evaluation/merqury/mArtLit1_png/
pacbio_read_dir: s3://genomeark/species/Artibeus_lituratus/mArtLit1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Artibeus_lituratus/mArtLit1/genomic_data/arima/
mito: s3://genomeark/species/Artibeus_lituratus/mArtLit1/assembly_MT_rockefeller/mArtLit1.MT.20240228.fasta.gz
pipeline: 
  - hifiasm (0.16.1+galaxy4)
  - yahs (1.2a.2+galaxy0)
notes: This was a Hifiasm-HiC assembly of mArtLit1, resulting in two complete haplotypes. HiC scaffolding was performed with YaHS.  The HiC prep kit used was Swift-IDT. 
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.