Cyclopterus_lumpus

Cyclopterus lumpus

lumpfish

Included in the VGP.

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

Resource	Primary Assembly	Alternate Assembly
GenBank	fCycLum1: GCA_009769545.1	fCycLum1: GCA_009769515.1
ENA	fCycLum1: GCA_009769545.1	fCycLum1: GCA_009769515.1
UCSC Genome Browser	fCycLum1: GCA_009769545.1	fCycLum1: GCA_009769515.1

metadata.yaml (view) (edit on github)
species: short_name: fCycLum name: Cyclopterus lumpus taxon_id: 8103 common_name: lumpfish order: name: Scorpaeniformes family: name: Cyclopteridae individuals: - short_name: fCycLum1 biosample_id: sex: - short_name: fCycLum2 biosample_id: SAMEA112789128 sex: genome_size: 1000000000 genome_size_method: null project: [ vgp ]

CC BY-SA 3.0 Simon Pierre Barrette (wikimedia)

Datatype	Individual	Bases	Coverage	Bytes
PacBio CLR	fCycLum1	55.78 Gbp	55.78x	96.7 GiB
PacBio HiFi (subreads)	fCycLum2	958.41 Gbp	958.41x	1.6 TiB
PacBio HiFi (.fq)	fCycLum2	41.59 Gbp	41.59x	33.2 GiB
PacBio HiFi (.bam)	fCycLum2	60.45 Gbp	60.45x	45.1 GiB
10x	fCycLum1	61.32 Gbp	61.32x	29.3 GiB
Bionano	fCycLum1	N/A	508.20x	682.5 MiB
Arima	fCycLum1	89.68 Gbp	89.68x	56.3 GiB
Arima	fCycLum2	211.14 Gbp	211.14x	83.6 GiB

Bases and Coverage are approximate.
Coverage based on genome size 1.00 Gbp.
Last upload on 13 May 2024.

Individual	Datatype	Bases	Coverage	Bytes
fCycLum1	PacBio CLR	55.78 Gbp	55.78x	96.7 GiB
	10x	61.32 Gbp	61.32x	29.3 GiB
	Bionano	N/A	508.20x	682.5 MiB
	Arima	89.68 Gbp	89.68x	56.3 GiB
fCycLum2	PacBio HiFi (subreads)	958.41 Gbp	958.41x	1.6 TiB
	PacBio HiFi (.fq)	41.59 Gbp	41.59x	33.2 GiB
	PacBio HiFi (.bam)	60.45 Gbp	60.45x	45.1 GiB
	Arima	211.14 Gbp	211.14x	83.6 GiB

Bases and Coverage are approximate.
Coverage based on genome size 1.00 Gbp.
Last upload on 13 May 2024.

Individual 1 Primary Assembly
Version assembly_curated from 11 October 2019
fCycLum1.pri.cur.20191011.fasta.gz (157.1 MiB)

Quality: 109.1 errors/Mb (QV=39.62)

	Contigs		Scaffolds
NG	LG	Len	LG	Len
10	8	10.80 Mbp	3	28.00 Mbp
20	20	6.41 Mbp	7	26.15 Mbp
30	38	4.35 Mbp	11	23.79 Mbp
40	74	1.96 Mbp	15	21.87 Mbp
50	146	0.91 Mbp	20	17.61 Mbp
60	0		0
70	0		0
80	0		0
90	0		0
100	0		0
0.563x	395	0.56 Gbp	48	0.57 Gbp

NG based on genome size 1.00 Gbp.

Individual 1 Alternate Assembly
Version assembly_curated from 11 October 2019
fCycLum1.alt.cur.20191011.fasta.gz (136.4 MiB)

Quality: not computed

	Contigs		Scaffolds
NG	LG	Len	LG	Len
10	47	1.31 Mbp	47	1.31 Mbp
20	150	0.75 Mbp	150	0.75 Mbp
30	334	403.95 Kbp	334	403.95 Kbp
40	747	151.08 Kbp	747	151.08 Kbp
50	0		0
60	0		0
70	0		0
80	0		0
90	0		0
100	0		0
0.481x	1866	480.97 Mbp	1866	480.97 Mbp

NG based on genome size 1.00 Gbp.

Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 2 October 2019
fCycLum1.MT.20191002.fasta.gz (5.2 KiB)

Quality: not computed

Individual 2 Primary Assembly
Version assembly_curated from 14 September 2023
fCycLum2.pri.cur.20230914.fasta.gz (160.6 MiB)

Quality: not computed

	Contigs		Scaffolds
NG	LG	Len	LG	Len
10	20	3.94 Mbp	4	27.87 Mbp
20	54	2.27 Mbp	8	26.38 Mbp
30	108	1.50 Mbp	11	24.91 Mbp
40	197	0.81 Mbp	16	22.46 Mbp
50	384	358.10 Kbp	20	20.00 Mbp
60	0		0
70	0		0
80	0		0
90	0		0
100	0		0
0.586x	1186	0.59 Gbp	232	0.59 Gbp

NG based on genome size 1.00 Gbp.

Individual 2 Alternate Assembly
Version assembly_curated from 14 September 2023
fCycLum2.alt.cur.20230914.fasta.gz (157.7 MiB)

Quality: not computed

	Contigs		Scaffolds
NG	LG	Len	LG	Len
10	104	0.66 Mbp	104	0.66 Mbp
20	307	393.37 Kbp	307	393.37 Kbp
30	626	249.26 Kbp	626	249.26 Kbp
40	1156	144.94 Kbp	1156	144.94 Kbp
50	2191	62.53 Kbp	2191	62.53 Kbp
60	0		0
70	0		0
80	0		0
90	0		0
100	0		0
0.570x	4450	0.57 Gbp	4450	0.57 Gbp

NG based on genome size 1.00 Gbp.

Individual 2 Mitochondrial Assembly
Version assembly_MT_cambridge from 20 August 2023
fCycLum2.MT.20230820.fasta.gz (5.6 KiB)

Quality: not computed

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.