Serinus canaria

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Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 26 March 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 26 March 2024.
Assemblies
Individual 1 Maternal Assembly
Version assembly_curated from 2 March 2026
bSerCaa1.mat.cur.20260302.fasta.gz (349.7 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 40.40 Mbp 1 195.04 Mbp
20 8 28.12 Mbp 2 135.94 Mbp
30 13 20.24 Mbp 3 130.36 Mbp
40 21 15.03 Mbp 4 112.79 Mbp
50 32 11.62 Mbp 6 76.90 Mbp
60 46 9.31 Mbp 8 67.35 Mbp
70 66 5.30 Mbp 12 32.24 Mbp
80 97 3.43 Mbp 16 27.08 Mbp
90 152 1.80 Mbp 25 11.52 Mbp
100 626 11.87 Kbp 299 11.87 Kbp
1.000x 626 1.39 Gbp 299 1.42 Gbp
NG based on genome size .
Individual 1 Paternal Assembly
Version assembly_curated from 2 March 2026
bSerCaa1.pat.cur.20260302.fasta.gz (283.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 3 54.21 Mbp 1 174.44 Mbp
20 5 35.62 Mbp 2 133.70 Mbp
30 9 30.99 Mbp 3 130.31 Mbp
40 14 24.43 Mbp 4 86.41 Mbp
50 20 17.27 Mbp 6 69.95 Mbp
60 28 13.26 Mbp 8 38.24 Mbp
70 39 10.77 Mbp 12 31.29 Mbp
80 55 5.23 Mbp 17 19.38 Mbp
90 87 3.11 Mbp 25 10.05 Mbp
100 411 224 bp 210 12.36 Kbp
1.000x 411 1.26 Gbp 210 1.26 Gbp
NG based on genome size .
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 13 August 2024
bSerCaa1.MT.20240813.fasta.gz (5.4 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_trio_2.0/bSerCaa1.yml (view)
species: Serinus canaria
specimen: bSerCaa1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
combine_for_curation: true
mat: s3://genomeark/species/Serinus_canaria/bSerCaa1/assembly_vgp_trio_2.0/bSerCaa1.trio.mat.20240812.fasta.gz
pat: s3://genomeark/species/Serinus_canaria/bSerCaa1/assembly_vgp_trio_2.0/bSerCaa1.trio.pat.20240812.fasta.gz
pretext_mat: s3://genomeark/species/Serinus_canaria/bSerCaa1/assembly_vgp_trio_2.0/evaluation/mat/pretext/bSerCaa1_mat_s2.pretext
pretext_pat: s3://genomeark/species/Serinus_canaria/bSerCaa1/assembly_vgp_trio_2.0/evaluation/pat/pretext/bSerCaa1_pat_s2.pretext
kmer_spectra_img: s3://genomeark/species/Serinus_canaria/bSerCaa1/assembly_vgp_trio_2.0/evaluation/merqury/bSerCaa1_png/
mito: s3://genomeark/species/Serinus_canaria/bSerCaa1/assembly_MT_rockefeller/bSerCaa1.MT.20240812.fasta.gz
pacbio_read_dir: s3://genomeark/species/Serinus_canaria/bSerCaa1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
bionano_cmap_dir: s3://genomeark/species/Serinus_canaria/bSerCaa1/genomic_data/bionano/
hic_read_dir: s3://genomeark/species/Serinus_canaria/bSerCaa1/genomic_data/arima/
pipeline: 
  - hifiasm (0.19.8+galaxy1)
  - solve (3.7.0+galaxy3)
  - yahs (1.2a.2+galaxy1)
notes: This was a trio assembly of bSerCaa1, resulting in two phased haplotypes. The mother is bSerCaa2 (hap1/mat), and the father is bSerCaa3 (hap2/pat). The assemblies underwent both Bionano and HiC (Arima) scaffolding. The assembly was performed on vgp.usegalaxy.org. 
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.