Ficedula hypoleuca

Pied Flycatcher

Included in the VGP.

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


metadata.yaml (view) (edit on github)
species:
  short_name: bFicHyp
  name: Ficedula hypoleuca
  taxon_id: 46689
  common_name: Pied Flycatcher
  order:
    name: Passeriformes
  family:
    name: Muscicapidae
  individuals:
    - short_name: bFicHyp2
      biosample_id: SAMEA112468131
      sex: female
  genome_size: 1234725000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) bFicHyp2 122.39 Gbp 99.12x 48.1 GiB
Arima bFicHyp2 134.39 Gbp 108.84x 42.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.23 Gbp.
Last upload on 15 March 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bFicHyp2 PacBio HiFi (.bam) 122.39 Gbp 99.12x 48.1 GiB
Arima 134.39 Gbp 108.84x 42.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.23 Gbp.
Last upload on 15 March 2024.
Assemblies
Individual 2 Primary Assembly
Version assembly_cambridge from 10 May 2024
bFicHyp2.pri.asm.20240510.fasta.gz (331.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 8 12.89 Mbp 1 151.80 Mbp
20 20 8.49 Mbp 2 117.26 Mbp
30 36 6.88 Mbp 3 115.59 Mbp
40 55 5.87 Mbp 5 68.48 Mbp
50 79 4.61 Mbp 7 57.83 Mbp
60 110 3.47 Mbp 10 32.06 Mbp
70 151 2.54 Mbp 16 20.60 Mbp
80 214 1.44 Mbp 25 8.03 Mbp
90 343 0.68 Mbp 65 1.04 Mbp
100 624 290.80 Kbp 297 323.47 Kbp
1.088x 1553 1.34 Gbp 1158 1.34 Gbp
NG based on genome size 1.23 Gbp.
Individual 2 Alternate Assembly
Version assembly_cambridge from 10 May 2024
bFicHyp2.alt.asm.20240510.fasta.gz (338.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 18 6.03 Mbp 18 6.03 Mbp
20 42 4.56 Mbp 42 4.56 Mbp
30 74 3.46 Mbp 74 3.46 Mbp
40 113 2.82 Mbp 113 2.82 Mbp
50 163 2.17 Mbp 163 2.17 Mbp
60 228 1.64 Mbp 228 1.64 Mbp
70 317 1.16 Mbp 317 1.16 Mbp
80 451 0.69 Mbp 451 0.69 Mbp
90 740 248.40 Kbp 740 248.40 Kbp
100 2211 33.97 Kbp 2211 33.97 Kbp
1.044x 4683 1.29 Gbp 4683 1.29 Gbp
NG based on genome size 1.23 Gbp.
Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 10 May 2024
bFicHyp2.MT.20240510.fasta.gz (5.5 KiB)

Quality: not computed
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.