Haplochromis burtoni

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Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (subreads) fHapBur2 964.31 Gbp N/A 1.6 TiB
PacBio HiFi (.fq) fHapBur1 36.33 Gbp N/A 25.2 GiB
fHapBur2 37.16 Gbp N/A 32.8 GiB
PacBio HiFi (.bam) fHapBur2 118.30 Gbp N/A 424.9 GiB
Arima fHapBur1 103.05 Gbp N/A 48.9 GiB
fHapBur2 55.63 Gbp N/A 27.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 10 June 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fHapBur1 PacBio HiFi (.fq) 36.33 Gbp N/A 25.2 GiB
Arima 103.05 Gbp N/A 48.9 GiB
fHapBur2 PacBio HiFi (subreads) 964.31 Gbp N/A 1.6 TiB
PacBio HiFi (.fq) 37.16 Gbp N/A 32.8 GiB
PacBio HiFi (.bam) 118.30 Gbp N/A 424.9 GiB
Arima 55.63 Gbp N/A 27.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 10 June 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 31 October 2025
fHapBur1.hap1.cur.20251031.fasta.gz (238.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 25.37 Mbp 2 74.42 Mbp
20 7 20.95 Mbp 3 66.72 Mbp
30 13 14.33 Mbp 4 66.09 Mbp
40 19 12.29 Mbp 6 42.08 Mbp
50 29 8.47 Mbp 8 40.89 Mbp
60 41 6.24 Mbp 11 37.70 Mbp
70 58 5.05 Mbp 13 36.42 Mbp
80 78 3.75 Mbp 16 35.44 Mbp
90 109 2.11 Mbp 18 33.12 Mbp
100 391 11.46 Kbp 209 11.46 Kbp
1.000x 391 0.90 Gbp 209 0.90 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 6 November 2025
fHapBur1.hap2.cur.20251106.fasta.gz (233.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 5 18.20 Mbp 2 75.39 Mbp
20 10 14.22 Mbp 3 65.00 Mbp
30 16 12.55 Mbp 4 64.25 Mbp
40 24 10.05 Mbp 6 40.92 Mbp
50 34 8.40 Mbp 8 39.61 Mbp
60 46 6.44 Mbp 11 35.98 Mbp
70 61 5.28 Mbp 13 35.67 Mbp
80 82 3.48 Mbp 16 34.43 Mbp
90 117 1.70 Mbp 18 32.48 Mbp
100 428 12.51 Kbp 217 12.51 Kbp
1.000x 428 0.88 Gbp 217 0.88 Gbp
NG based on genome size .
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 5 January 2024
fHapBur1.MT.20240105.fasta.gz (5.4 KiB)

Quality: not computed
Individual 2 Haplotype 1 Assembly
Version assembly_curated from 17 November 2025
fHapBur2.hap1.cur.20251117.fasta.gz (258.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 2 33.85 Mbp 2 77.46 Mbp
20 5 26.54 Mbp 3 66.71 Mbp
30 10 18.34 Mbp 4 66.49 Mbp
40 16 12.94 Mbp 6 42.57 Mbp
50 24 9.97 Mbp 8 41.41 Mbp
60 34 7.36 Mbp 11 37.60 Mbp
70 48 5.80 Mbp 13 36.75 Mbp
80 66 4.42 Mbp 16 35.80 Mbp
90 93 2.50 Mbp 18 33.93 Mbp
100 349 14.85 Kbp 183 14.85 Kbp
1.000x 349 0.91 Gbp 183 0.91 Gbp
NG based on genome size .
Individual 2 Haplotype 2 Assembly
Version assembly_curated from 17 November 2025
fHapBur2.hap2.cur.20251117.fasta.gz (254.8 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 21.68 Mbp 2 75.64 Mbp
20 9 17.62 Mbp 3 65.02 Mbp
30 14 16.34 Mbp 4 64.91 Mbp
40 20 13.97 Mbp 6 41.79 Mbp
50 27 10.94 Mbp 8 40.57 Mbp
60 36 8.93 Mbp 11 37.42 Mbp
70 46 7.46 Mbp 13 36.32 Mbp
80 61 4.62 Mbp 15 35.48 Mbp
90 85 2.69 Mbp 18 33.27 Mbp
100 253 21.63 Kbp 115 21.63 Kbp
1.000x 253 0.89 Gbp 115 0.89 Gbp
NG based on genome size .
Individual 2 Mitochondrial Assembly
Version assembly_MT_rockefeller from 15 June 2023
fHapBur2.MT.20230615.fasta.gz (5.4 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/fHapBur1.yml (view)
species: Haplochromis burtoni
specimen: fHapBur1
projects: 
  - vgp
hap1: s3://genomeark/species/Haplochromis_burtoni/fHapBur1/assembly_vgp_HiC_2.0/fHapBur1.HiC.hap1.20230617.fasta.gz
hap2: s3://genomeark/species/Haplochromis_burtoni/fHapBur1/assembly_vgp_HiC_2.0/fHapBur1.HiC.hap2.20230617.fasta.gz
pretext_hap1: s3://genomeark/species/Haplochromis_burtoni/fHapBur1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/fHapBur1_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Haplochromis_burtoni/fHapBur1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/fHapBur1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Haplochromis_burtoni/fHapBur1/assembly_vgp_HiC_2.0/evaluation/merqury/fHapBur1_png/
mito: s3://genomeark/species/Haplochromis_burtoni/fHapBur1/assembly_MT_rockefeller/fHapBur1.MT.20230617.fasta.gz
pipeline:
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy1)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of fHapBur1, resulting in two complete haplotypes. This individual did have not bionano data. HiC scaffolding was performed with yahs. The HiC prep was Arima kit 2.
assembly_vgp_HiC_2.0/fHapBur2.yml (view)
species: Haplochromis burtoni
specimen: fHapBur2
projects: 
  - vgp
hap1: s3://genomeark/species/Haplochromis_burtoni/fHapBur2/assembly_vgp_HiC_2.0/fHapBur2.HiC.hap1.20230615.fasta.gz
hap2: s3://genomeark/species/Haplochromis_burtoni/fHapBur2/assembly_vgp_HiC_2.0/fHapBur2.HiC.hap2.20230615.fasta.gz
pretext_hap1: s3://genomeark/species/Haplochromis_burtoni/fHapBur2/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/fHapBur2_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Haplochromis_burtoni/fHapBur2/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/fHapBur2_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Haplochromis_burtoni/fHapBur2/assembly_vgp_HiC_2.0/evaluation/merqury/fHapBur2_png/
mito: s3://genomeark/species/Haplochromis_burtoni/fHapBur2/assembly_MT_rockefeller/fHapBur2.MT.20230615.fasta.gz
pipeline:
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy1)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of fHapBur2, resulting in two complete haplotypes. This individual did have not bionano data. HiC scaffolding was performed with yahs. The HiC prep was Arima kit 2.
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.