Apus apus

Common swift

Included in the VGP.

- S3 File Index -- S3 Interactive Viewer -- NCBI Taxonomy Browser -


Resource Primary Assembly Alternate Assembly
GenBank bApuApu2: GCA_020740795.1 bApuApu2: GCA_020740585.1
ENA bApuApu2: GCA_020740795.1 bApuApu2: GCA_020740585.1
UCSC Genome Browser bApuApu2: GCA_020740795.1 bApuApu2: GCA_020740585.1

metadata.yaml (view) (edit on github)
species:
  short_name: bApuApu
  name: Apus apus
  taxon_id: 8895
  common_name: Common swift
  order:
    name: Apodiformes
  family:
    name: Apodidae
  individuals:
    - short_name: bApuApu2
  project: [ vgp ]
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR bApuApu2 114.30 Gbp 103.87x 201.6 GiB
10x bApuApu2 68.99 Gbp 62.70x 32.1 GiB
Bionano bApuApu2 N/A 561.46x 1.0 GiB
Arima bApuApu2 67.00 Gbp 60.89x 30.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.10 Gbp.
Last upload on 17 June 2021.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bApuApu2 PacBio CLR 114.30 Gbp 103.87x 201.6 GiB
10x 68.99 Gbp 62.70x 32.1 GiB
Bionano N/A 561.46x 1.0 GiB
Arima 67.00 Gbp 60.89x 30.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.10 Gbp.
Last upload on 17 June 2021.
Assemblies
Individual 2 Primary Assembly
Version assembly_curated from 18 October 2021
bApuApu2.pri.cur.20211018.fasta.gz (320.3 MiB)

Quality: 9.0 errors/Mb (QV=50.44)

Contigs Scaffolds
NG LG Len LG Len
10 1 55.46 Mbp 0 206.45 Mbp
20 3 51.96 Mbp 1 157.04 Mbp
30 6 45.80 Mbp 1 157.04 Mbp
40 8 35.44 Mbp 2 118.12 Mbp
50 12 25.56 Mbp 3 115.51 Mbp
60 17 19.31 Mbp 4 77.84 Mbp
70 23 15.76 Mbp 6 39.96 Mbp
80 31 12.18 Mbp 10 21.77 Mbp
90 44 4.54 Mbp 16 14.93 Mbp
100 364 24 bp 108 5.57 Kbp
1.000x 365 1.10 Gbp 109 1.10 Gbp
NG based on genome size 1.10 Gbp.
Individual 2 Alternate Assembly
Version assembly_curated from 18 October 2021
bApuApu2.alt.cur.20211018.fasta.gz (297.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 11 6.34 Mbp 11 6.34 Mbp
20 29 4.96 Mbp 29 4.96 Mbp
30 52 4.07 Mbp 52 4.07 Mbp
40 81 3.16 Mbp 81 3.16 Mbp
50 118 2.36 Mbp 118 2.36 Mbp
60 168 1.75 Mbp 168 1.75 Mbp
70 236 1.23 Mbp 236 1.23 Mbp
80 338 0.77 Mbp 338 0.77 Mbp
90 570 235.37 Kbp 570 235.37 Kbp
100 1701 1.02 Kbp 1696 1.02 Kbp
1.000x 1702 1.02 Gbp 1697 1.02 Gbp
NG based on genome size 1.10 Gbp.
Assembly Metadata
bApuApu2.yaml (view)
species: Apus apus
specimen: bApuApu2
projects: VGP orders
release_to: S3
data_location: S3
primary: s3://genomeark/species/Apus_apus/bApuApu2/assembly_vgp_standard_1.6/bApuApu2.pri.asm.20210617.fasta.gz
haplotigs: s3://genomeark/species/Apus_apus/bApuApu2/assembly_vgp_standard_1.6/bApuApu2.alt.asm.20210617.fasta.gz
pacbio_read_dir: s3://genomeark/species/Apus_apus/bApuApu2/pacbio/
10x_read_dir: s3://genomeark/species/Apus_apus/bApuApu2/10x/
hic_read_dir: s3://genomeark/species/Apus_apus/bApuApu2/arima/
hic_kit: Arima1
pipeline:
  - falcon-kit (1.8.1)
  - falcon-unzip (1.3.7) 
  - purge-dups (0.0.3)
  - Longranger (2.2.2)
  - scaff10x (4.2)
  - Bionano solve (3.5.1)
  - salsa2 (2.2)
  - dentist (1.0.0)
  - Freebayes (1.3.2)
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.