Thalassoma bifasciatum

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Resource Primary Assembly Alternate Assembly
GenBank fThaBif2: GCA_977007655.1
ENA fThaBif2: GCA_977007655.1
UCSC Genome Browser fThaBif2: GCA_977007655.1

No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) fThaBif1 57.47 Gbp N/A 27.5 GiB
PacBio HiFi (.bam) fThaBif1 57.47 Gbp N/A 232.5 GiB
Arima fThaBif1 89.41 Gbp N/A 47.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 17 June 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fThaBif1 PacBio HiFi (.fq) 57.47 Gbp N/A 27.5 GiB
PacBio HiFi (.bam) 57.47 Gbp N/A 232.5 GiB
Arima 89.41 Gbp N/A 47.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 17 June 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 31 October 2025
fThaBif1.hap1.cur.20251031.fasta.gz (200.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 33.92 Mbp 2 38.89 Mbp
20 5 29.80 Mbp 5 36.87 Mbp
30 8 27.89 Mbp 7 35.67 Mbp
40 11 26.38 Mbp 9 35.10 Mbp
50 14 23.04 Mbp 11 34.72 Mbp
60 18 19.09 Mbp 13 34.69 Mbp
70 22 14.52 Mbp 16 31.59 Mbp
80 28 12.58 Mbp 18 30.81 Mbp
90 36 7.81 Mbp 21 26.75 Mbp
100 162 15.47 Kbp 51 15.47 Kbp
1.000x 162 0.79 Gbp 51 0.79 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 6 November 2025
fThaBif1.hap2.cur.20251106.fasta.gz (199.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 35.35 Mbp 2 38.79 Mbp
20 5 34.34 Mbp 5 36.52 Mbp
30 7 30.82 Mbp 7 35.38 Mbp
40 10 26.05 Mbp 9 34.82 Mbp
50 13 23.18 Mbp 11 34.31 Mbp
60 17 16.97 Mbp 13 33.90 Mbp
70 22 14.85 Mbp 16 31.01 Mbp
80 27 13.65 Mbp 18 30.78 Mbp
90 34 8.03 Mbp 21 26.22 Mbp
100 145 10.85 Kbp 60 10.85 Kbp
1.000x 145 0.77 Gbp 60 0.77 Gbp
NG based on genome size .
Individual 1 Mitochondrial Assembly
Version assembly_MT_genoscope from 31 October 2025
fThaBif1.MT.20251031.fasta.gz (5.2 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/fThaBif1.yml (view)
species: Thalassoma bifasciatum
specimen: fThaBif1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
combine_for_curation: true
hap1: s3://genomeark/species/Thalassoma_bifasciatum/fThaBif1/assembly_vgp_HiC_2.0/fThaBif1.HiC.hap1.20240624.fasta.gz
hap2: s3://genomeark/species/Thalassoma_bifasciatum/fThaBif1/assembly_vgp_HiC_2.0/fThaBif1.HiC.hap2.20240624.fasta.gz
pretext_hap1: s3://genomeark/species/Thalassoma_bifasciatum/fThaBif1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/fThaBif1_hap1_s2.pretext
pretext_hap2: s3://genomeark/species/Thalassoma_bifasciatum/fThaBif1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/fThaBif1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Thalassoma_bifasciatum/fThaBif1/assembly_vgp_HiC_2.0/evaluation/merqury/hap1_purged/fThaBif1_png/
pacbio_read_dir: s3://genomeark/species/Thalassoma_bifasciatum/fThaBif1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Thalassoma_bifasciatum/fThaBif1/genomic_data/arima/
pipeline: 
  - hifiasm (0.19.8+galaxy1)
  - purge_dups (1.2.6+galaxy0)
  - yahs (1.2a.2+galaxy1)
notes: This was a Hifiasm-HiC assembly of fThaBif1, resulting in two complete haplotypes. Each haplotype underwent purging (while keeping repeats), and then the scaffolding consisted of YaHS.  The HiC prep kit used was Arima, so the HiC reads require trimming 5 bp off the 5' end. The assembly was performed on the Rockefeller University VGL instance. 
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.