Myotis tricolor

Temminck's myotis

Included in the VGP and BAT1K.

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


metadata.yaml (view) (edit on github)
species:
  short_name: mMyoTri
  name: Myotis tricolor
  taxon_id: 233765
  common_name: Temminck's myotis
  order:
    name: Chiroptera
  family:
    name: Vespertilionidae
  individuals:
    - short_name: mMyoTri1
  genome_size: 2210280000
  genome_size_method: GoaT
  project: [ vgp , bat1k ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) mMyoTri1 105.53 Gbp 47.75x 74.1 GiB
PacBio HiFi (.bam) mMyoTri1 104.51 Gbp 47.28x 359.0 GiB
Arima mMyoTri1 155.54 Gbp 70.37x 63.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.21 Gbp.
Last upload on 31 January 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
mMyoTri1 PacBio HiFi (.fq) 105.53 Gbp 47.75x 74.1 GiB
PacBio HiFi (.bam) 104.51 Gbp 47.28x 359.0 GiB
Arima 155.54 Gbp 70.37x 63.5 GiB
Bases and Coverage are approximate.
Coverage based on genome size 2.21 Gbp.
Last upload on 31 January 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_vgp_HiC_2.0 from 12 February 2024
mMyoTri1.HiC.hap1.20240212.fasta.gz (604.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 88.39 Mbp 1 352.10 Mbp
20 5 85.18 Mbp 2 271.23 Mbp
30 8 74.59 Mbp 3 217.59 Mbp
40 11 65.63 Mbp 4 181.41 Mbp
50 14 59.72 Mbp 5 177.10 Mbp
60 18 52.45 Mbp 6 115.01 Mbp
70 23 37.54 Mbp 8 96.39 Mbp
80 29 27.26 Mbp 11 79.74 Mbp
90 45 7.26 Mbp 14 57.08 Mbp
100 320 12.61 Kbp 214 12.61 Kbp
1.000x 320 2.13 Gbp 214 2.13 Gbp
NG based on genome size 2.21 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_vgp_HiC_2.0 from 12 February 2024
mMyoTri1.HiC.hap2.20240212.fasta.gz (558.2 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 103.81 Mbp 1 237.14 Mbp
20 4 87.80 Mbp 2 216.59 Mbp
30 7 69.43 Mbp 3 163.14 Mbp
40 10 57.08 Mbp 5 114.14 Mbp
50 13 55.23 Mbp 7 110.06 Mbp
60 17 48.39 Mbp 8 106.09 Mbp
70 22 35.63 Mbp 10 95.27 Mbp
80 28 24.67 Mbp 13 81.96 Mbp
90 40 9.75 Mbp 15 66.96 Mbp
100 243 14.58 Kbp 137 14.58 Kbp
1.000x 243 1.94 Gbp 137 1.94 Gbp
NG based on genome size 2.21 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 12 February 2024
mMyoTri1.MT.20240212.fasta.gz (5.4 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/mMyoTri1.yml (view)
species: Myotis tricolor
specimen: mMyoTri1
projects: 
  - vgp
  - bat1k
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
primary: s3://genomeark/species/Myotis_tricolor/mMyoTri1/assembly_vgp_HiC_2.0/mMyoTri1.HiC.hap1.20240212.fasta.gz
haplotigs: s3://genomeark/species/Myotis_tricolor/mMyoTri1/assembly_vgp_HiC_2.0/mMyoTri1.HiC.hap2.20240212.fasta.gz
pretext: s3://genomeark/species/Myotis_tricolor/mMyoTri1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mMyoTri1_hap1_s2.pretext
pretext: s3://genomeark/species/Myotis_tricolor/mMyoTri1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mMyoTri1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Myotis_tricolor/mMyoTri1/assembly_vgp_HiC_2.0/evaluation/merqury/mMyoTri1_png/
pacbio_read_dir: s3://genomeark/species/Myotis_tricolor/mMyoTri1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Myotis_tricolor/mMyoTri1/genomic_data/arima/
mito: s3://genomeark/species/Myotis_tricolor/mMyoTri1/assembly_MT_rockefeller/mMyoTri1.MT.20240212.fasta.gz
pipeline: 
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy1)
notes: This was a Hifiasm-HiC assembly of mMyoTri1. 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.