Mobula birostris

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Resource Primary Assembly Alternate Assembly
GenBank sMobBir1: GCA_030028105.1 sMobBir1: GCA_030035685.1
ENA sMobBir1: GCA_030028105.1 sMobBir1: GCA_030035685.1
UCSC Genome Browser sMobBir1: GCA_030028105.1 sMobBir1: GCA_030035685.1

No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) sMobBir1 112.85 Gbp N/A 85.0 GiB
Bionano sMobBir1 N/A N/A 1.6 GiB
Arima sMobBir1 584.33 Gbp N/A 269.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 6 April 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
sMobBir1 PacBio HiFi (.fq) 112.85 Gbp N/A 85.0 GiB
Bionano N/A N/A 1.6 GiB
Arima 584.33 Gbp N/A 269.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 6 April 2023.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 4 April 2023
sMobBir1.hap1.cur.20230404.fasta.gz (1.1 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 10 28.84 Mbp 1 250.74 Mbp
20 26 21.96 Mbp 3 211.04 Mbp
30 48 16.37 Mbp 5 198.12 Mbp
40 76 12.03 Mbp 7 171.00 Mbp
50 117 7.30 Mbp 9 148.67 Mbp
60 193 4.21 Mbp 13 99.80 Mbp
70 320 2.33 Mbp 18 72.12 Mbp
80 572 1.05 Mbp 24 64.43 Mbp
90 1260 306.63 Kbp 32 31.25 Mbp
100 6521 135 bp 4713 10.34 Kbp
1.000x 6522 3.98 Gbp 4714 4.01 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 5 April 2023
sMobBir1.hap2.cur.20230405.fasta.gz (1.0 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 9 36.05 Mbp 2 241.39 Mbp
20 22 22.99 Mbp 3 231.26 Mbp
30 41 17.34 Mbp 5 201.65 Mbp
40 66 12.00 Mbp 7 187.82 Mbp
50 100 8.61 Mbp 9 152.35 Mbp
60 153 5.30 Mbp 12 113.28 Mbp
70 239 3.22 Mbp 16 76.22 Mbp
80 399 1.57 Mbp 22 63.89 Mbp
90 768 0.61 Mbp 28 46.42 Mbp
100 3300 1.30 Kbp 1558 11.73 Kbp
1.000x 3300 3.58 Gbp 1558 3.63 Gbp
NG based on genome size .
Assembly Metadata
assembly_vgp_hic_2.0/sMobBir1_hap1.yaml (view)
species: Mobula birostris
specimen: sMobBir1
projects:
  - vgp
hap1: s3://genomeark/species/Mobula_giorna/sMobGio1/assembly_vgp_HiC_2.0/sMobGio1.HiC.hap1.20220921.fasta.gz
hap1_pretext: s3://genomeark/species/Mobula_giorna/sMobGio1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/sMobGio1_hap1__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Mobula_giorna/sMobGio1/assembly_vgp_HiC_2.0/evaluation/merqury/sMobGio1_png/
pacbio_read_dir: s3://genomeark/species/Mobula_giorna/sMobGio1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Mobula_giorna/sMobGio1/genomic_data/arima/
pipeline:
  - hifiasm (0.16.1+galaxy2)
  - yahs (1.2a+galaxy1)
assembled_by_group: Rockefeller
notes: This is sMobBir1 (VGL-sMobGio1). This individual did not have bionano data. This assembly was done with Hifiasm-HiC mode, resulting in two complete haplotypes. Kmer spectra probably indicate a heterogametic specimen, so there might be a need for fishing for the sex chromosomes between the two haplotypes, so I am submitting both haplotypes as separate tikets.    
assembly_vgp_hic_2.0/sMobBir1_hap2.yaml (view)
species: Mobula birostris
specimen: sMobBir1
projects:
  - vgp
hap2: s3://genomeark/species/Mobula_giorna/sMobGio1/assembly_vgp_HiC_2.0/sMobGio1.HiC.hap2.20220921.fasta.gz
hap2_pretext: s3://genomeark/species/Mobula_giorna/sMobGio1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/sMobGio1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Mobula_giorna/sMobGio1/assembly_vgp_HiC_2.0/evaluation/merqury/sMobGio1_png/
pacbio_read_dir: s3://genomeark/species/Mobula_giorna/sMobGio1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Mobula_giorna/sMobGio1/genomic_data/arima/
pipeline:
  - hifiasm (0.16.1+galaxy2)
  - yahs (1.2a+galaxy1)
assembled_by_group: Rockefeller
notes: This is sMobBir1 (VGL-sMobGio1). This individual did not have bionano data. This assembly was done with Hifiasm-HiC mode, resulting in two complete haplotypes. Kmer spectra probably indicate a heterogametic specimen, so there might be a need for fishing for the sex chromosomes between the two haplotypes, so I am submitting both haplotypes as separate tikets.  
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.