Peponocephala electra

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Raw Data

No raw data.

Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_vgp_HiC_2.0 from 20 August 2024
mPepEle1.HiC.hap1.20240820.fasta.gz (704.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 124.03 Mbp 2 180.98 Mbp
20 5 107.05 Mbp 3 172.24 Mbp
30 7 100.24 Mbp 5 142.97 Mbp
40 10 81.32 Mbp 7 124.70 Mbp
50 14 63.16 Mbp 9 110.61 Mbp
60 19 39.36 Mbp 11 105.54 Mbp
70 26 31.97 Mbp 14 91.95 Mbp
80 35 25.21 Mbp 17 86.95 Mbp
90 46 16.51 Mbp 20 64.67 Mbp
100 372 12.44 Kbp 329 12.44 Kbp
1.000x 372 2.55 Gbp 329 2.55 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_vgp_HiC_2.0 from 20 August 2024
mPepEle1.HiC.hap2.20240820.fasta.gz (704.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 124.03 Mbp 2 180.98 Mbp
20 5 107.05 Mbp 3 172.24 Mbp
30 7 100.24 Mbp 5 142.97 Mbp
40 10 81.32 Mbp 7 124.70 Mbp
50 14 63.16 Mbp 9 110.61 Mbp
60 19 39.36 Mbp 11 105.54 Mbp
70 26 31.97 Mbp 14 91.95 Mbp
80 35 25.21 Mbp 17 86.95 Mbp
90 46 16.51 Mbp 20 64.67 Mbp
100 372 12.44 Kbp 329 12.44 Kbp
1.000x 372 2.55 Gbp 329 2.55 Gbp
NG based on genome size .
Assembly Metadata
assembly_vgp_HiC_2.0/mPepEle1.yml (view)
species: Peponocephala electra
specimen: mPepEle1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
combine_for_curation: true
hap1: s3://genomeark/species/Peponocephala_electra/mPepEle1/assembly_vgp_HiC_2.0/mPepEle1.HiC.hap1.20240820.fasta.gz
hap2: s3://genomeark/species/Peponocephala_electra/mPepEle1/assembly_vgp_HiC_2.0/mPepEle1.HiC.hap2.20240820.fasta.gz
pretext_hap1: s3://genomeark/species/Peponocephala_electra/mPepEle1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/mPepEle1_hap1_s2.pretext
pretext_hap2: s3://genomeark/species/Peponocephala_electra/mPepEle1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/mPepEle1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Peponocephala_electra/mPepEle1/assembly_vgp_HiC_2.0/evaluation/merqury/mPepEle1_png/
pacbio_read_type: hifi
pipeline: 
  - hifiasm (0.19.8+galaxy0)
  - yahs (1.2a.2+galaxy1)
notes: This was a Hifiasm-HiC assembly of mPepEle1, resulting in two complete haplotypes. The HiC data was Dovetail OmniC. The original assembly for this individual is available at this DOI: https://doi.org/10.57760/sciencedb.j00139.00033 . This 20240820 assembly on GenomeArk is a re-assembly, using hifiasm in Hi-C phsaing mode. The SRA data is available on NCBI attached to this biosample: SAMN25233148. 
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.