Syngnathus acus

greater pipefish

Included in the VGP.

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


Resource Primary Assembly Alternate Assembly
GenBank fSynAcu1: GCA_901709675.2 fSynAcu2: GCA_948146105.1 fSynAcu1: GCA_901709685.1 fSynAcu2: GCA_948146095.1
ENA fSynAcu1: GCA_901709675.2 fSynAcu2: GCA_948146105.1 fSynAcu1: GCA_901709685.1 fSynAcu2: GCA_948146095.1
UCSC Genome Browser fSynAcu1: GCA_901709675.2 fSynAcu2: GCA_948146105.1 fSynAcu1: GCA_901709685.1 fSynAcu2: GCA_948146095.1

metadata.yaml (view) (edit on github)
species:
  short_name: fSynAcu
  name: Syngnathus acus
  taxon_id: 161584
  common_name: greater pipefish
  order:
    name: Syngnathiformes
  family:
    name: Syngnathidae
  individuals:
    - short_name: fSynAcu1
      biosample_id: SAMEA104381750
      sex:
    - short_name: fSynAcu2
      biosample_id: SAMEA13854528
      sex:
  genome_size:
  genome_size_method:
  project: [ vgp ]
CC BY 3.0 Roberto Pillon (wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR fSynAcu1 29.02 Gbp 89.49x 50.4 GiB
PacBio HiFi (.bam) fSynAcu2 28.94 Gbp 89.24x 101.5 GiB
10x fSynAcu1 143.29 Gbp 441.81x 82.0 GiB
Arima fSynAcu2 123.31 Gbp 380.19x 37.0 GiB
Dovetail Genomics fSynAcu1 107.67 Gbp 331.98x 72.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 324.33 Mbp.
Last upload on 9 February 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
fSynAcu1 PacBio CLR 29.02 Gbp 89.49x 50.4 GiB
10x 143.29 Gbp 441.81x 82.0 GiB
Dovetail Genomics 107.67 Gbp 331.98x 72.4 GiB
fSynAcu2 PacBio HiFi (.bam) 28.94 Gbp 89.24x 101.5 GiB
Arima 123.31 Gbp 380.19x 37.0 GiB
Bases and Coverage are approximate.
Coverage based on genome size 324.33 Mbp.
Last upload on 9 February 2023.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 23 May 2019
fSynAcu1.pri.cur.20190523.fasta.gz (87.1 MiB)

Quality: 46.9 errors/Mb (QV=43.29)

Contigs Scaffolds
NG LG Len LG Len
10 1 21.59 Mbp 1 25.82 Mbp
20 2 20.01 Mbp 2 21.53 Mbp
30 5 14.54 Mbp 4 18.45 Mbp
40 7 12.36 Mbp 5 17.68 Mbp
50 10 11.96 Mbp 7 14.97 Mbp
60 12 11.04 Mbp 10 14.38 Mbp
70 16 8.69 Mbp 12 12.11 Mbp
80 20 7.08 Mbp 15 10.59 Mbp
90 25 5.33 Mbp 18 8.88 Mbp
100 129 3.53 Kbp 86 28.06 Kbp
1.000x 130 324.32 Mbp 87 324.33 Mbp
NG based on genome size 324.33 Mbp.
Individual 1 Alternate Assembly
Version assembly_curated from 23 May 2019
fSynAcu1.alt.cur.20190523.fasta.gz (70.6 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 39 423.41 Kbp 39 423.41 Kbp
20 102 326.76 Kbp 102 326.76 Kbp
30 182 262.91 Kbp 182 262.91 Kbp
40 283 211.92 Kbp 283 212.28 Kbp
50 406 169.50 Kbp 406 170.06 Kbp
60 560 138.94 Kbp 559 139.50 Kbp
70 749 111.39 Kbp 748 111.88 Kbp
80 985 89.40 Kbp 983 89.52 Kbp
90 1288 65.63 Kbp 1286 65.63 Kbp
100 1849 160 bp 1847 160 bp
1.000x 1850 234.86 Mbp 1848 234.86 Mbp
NG based on genome size 324.33 Mbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 3 October 2019
fSynAcu1.MT.20191003.fasta.gz (5.0 KiB)

Quality: not computed
Individual 2 Primary Assembly
Version assembly_curated from 8 March 2023
fSynAcu2.pri.cur.20230308.fasta.gz (98.9 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 4 7.31 Mbp 1 26.17 Mbp
20 9 6.45 Mbp 2 22.32 Mbp
30 14 5.92 Mbp 4 18.93 Mbp
40 21 5.36 Mbp 6 17.52 Mbp
50 28 4.93 Mbp 8 15.28 Mbp
60 36 3.59 Mbp 11 13.90 Mbp
70 47 3.03 Mbp 13 12.68 Mbp
80 61 2.12 Mbp 17 10.14 Mbp
90 87 0.96 Mbp 20 8.59 Mbp
100 345 1.00 Kbp 250 1.00 Kbp
1.000x 346 359.20 Mbp 251 359.22 Mbp
NG based on genome size 324.33 Mbp.
Individual 2 Alternate Assembly
Version assembly_curated from 8 March 2023
fSynAcu2.alt.cur.20230308.fasta.gz (94.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 63 336.40 Kbp 63 336.40 Kbp
20 188 225.53 Kbp 188 225.53 Kbp
30 361 170.13 Kbp 361 170.13 Kbp
40 580 136.13 Kbp 580 136.13 Kbp
50 858 106.99 Kbp 858 106.99 Kbp
60 1214 81.92 Kbp 1214 81.92 Kbp
70 1678 63.68 Kbp 1678 63.68 Kbp
80 2296 46.10 Kbp 2296 46.10 Kbp
90 3156 33.07 Kbp 3156 33.07 Kbp
100 4532 8.36 Kbp 4532 8.36 Kbp
1.000x 4533 334.24 Mbp 4533 334.24 Mbp
NG based on genome size 324.33 Mbp.
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.