Tringa totanus

Included in the VGP.

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


metadata.yaml (view) (edit on github)
species:
  short_name: bTriTot
  name: Tringa totanus
  taxon_id: 171271
  common_name: 
  order:
    name: Charadriiformes
  family:
    name: Scolopacidae
  individuals:
    - short_name: bTriTot1
      biosample_id: SAMEA115433012
      sex: female
  genome_size: 1320300000
  genome_size_method: GoaT
  project: [ vgp ]
No image
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.bam) bTriTot1 65.30 Gbp 49.46x 22.4 GiB
Arima bTriTot1 73.82 Gbp 55.91x 20.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.32 Gbp.
Last upload on 20 July 2024.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bTriTot1 PacBio HiFi (.bam) 65.30 Gbp 49.46x 22.4 GiB
Arima 73.82 Gbp 55.91x 20.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 1.32 Gbp.
Last upload on 20 July 2024.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_cambridge from 20 July 2024
bTriTot1.hap1.asm.20240720.fasta.gz (302.1 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 13 9.08 Mbp 1 140.83 Mbp
20 29 6.92 Mbp 3 83.53 Mbp
30 50 5.78 Mbp 5 76.81 Mbp
40 77 4.50 Mbp 6 75.49 Mbp
50 109 3.55 Mbp 8 56.29 Mbp
60 154 2.59 Mbp 12 29.47 Mbp
70 215 1.84 Mbp 18 21.98 Mbp
80 305 1.19 Mbp 25 14.60 Mbp
90 481 424.55 Kbp 50 1.35 Mbp
100 0 0
0.963x 1600 1.27 Gbp 1001 1.27 Gbp
NG based on genome size 1.32 Gbp.
Individual 1 Haplotype 2 Assembly
Version assembly_cambridge from 20 July 2024
bTriTot1.hap2.asm.20240720.fasta.gz (289.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 11 10.17 Mbp 1 138.84 Mbp
20 26 7.48 Mbp 3 82.69 Mbp
30 48 5.20 Mbp 5 75.15 Mbp
40 76 4.26 Mbp 6 70.23 Mbp
50 111 3.18 Mbp 10 29.50 Mbp
60 160 2.30 Mbp 15 23.67 Mbp
70 228 1.59 Mbp 21 17.68 Mbp
80 331 1.00 Mbp 31 8.72 Mbp
90 602 192.00 Kbp 143 299.05 Kbp
100 0 0
0.928x 1216 1.23 Gbp 675 1.23 Gbp
NG based on genome size 1.32 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_cambridge from 20 July 2024
bTriTot1.MT.20240720.fasta.gz (5.0 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.