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Source database (GenBank or RefSeq) File type

fCycLum1.pri

Organism name:

Cyclopterus lumpus (lumpfish)

Isolate:

fCycLum1

Sex:

male

BioSample:

SAMN12629502

BioProject:

PRJNA562003

Submitter:

Vertebrate Genomes Project

Date:

2019/12/23

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_009769545.1 (latest)

RefSeq assembly accession:

GCF_009769545.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in GenBank: chromosome MT

Data displayed for RefSeq version

WGS Project:

WNNC01

Assembly method:

FALCON v. 2018.31.08-03.06; FALCON-Unzip v. 6.0.0.47841; purge_dups v. 51544-08-31; scaff10x v. 6.0.0.4784; Bionano Solve DLS v. 3.2.1; Salsa HiC v. 2.2; Arrow smrtanalysis Pacbio polishing & gap filling v. 2019-10-11; longranger align v. 2.2.2; freebayes Illumina polishing v. 1.3.1; gEVAL manual curation v. 2019-10-11; VGP assembly pipeline individual v. 1.6

Expected final version:

Genome coverage:

55.96x

Sequencing technology:

PacBio Sequel I CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS

Linked assembly:

GCA_009769515.1 (alternate pseudohaplotype of diploid)

IDs: 5409951 [UID] 15675268 [GenBank] 18723038 [RefSeq]

See Genome Information for Cyclopterus lumpus

Pathogen Detection Resources

There are 5 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_009769545.1	≠	GCF_009769545.1	fCycLum1.pri	Chromosome	Latest GenBank, Latest RefSeq

Comment

This assembly represents the principal haplotype of the diploid genome Cyclopterus lumpus and includes the chromosomes. The alternate haplotype sequences are in WGS project WNND00000000

Global statistics

Total sequence length	572,885,595
Total ungapped length	562,703,391
Gaps between scaffolds	0
Number of scaffolds	48
Scaffold N50	23,863,342
Scaffold L50	11
Number of contigs	395
Contig N50	4,950,682
Contig L50	35
Total number of chromosomes and plasmids	25
Number of component sequences (WGS or clone)	48

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM020114.1	=	NC_046966.1	0
Chromosome 2	CM020115.1	=	NC_046967.1	0
Chromosome 3	CM020116.1	=	NC_046968.1	0
Chromosome 4	CM020117.1	=	NC_046969.1	0
Chromosome 5	CM020118.1	=	NC_046970.1	0
Chromosome 6	CM020119.1	=	NC_046971.1	0
Chromosome 7	CM020120.1	=	NC_046972.1	0
Chromosome 8	CM020121.1	=	NC_046973.1	0
Chromosome 9	CM020122.1	=	NC_046974.1	0
Chromosome 10	CM020123.1	=	NC_046975.1	0
Chromosome 11	CM020124.1	=	NC_046976.1	0
Chromosome 12	CM020125.1	=	NC_046977.1	0
Chromosome 13	CM020126.1	=	NC_046978.1	0
Chromosome 14	CM020127.1	=	NC_046979.1	0
Chromosome 15	CM020128.1	=	NC_046980.1	0
Chromosome 16	CM020129.1	=	NC_046981.1	0
Chromosome 17	CM020130.1	=	NC_046982.1	0
Chromosome 18	CM020131.1	=	NC_046983.1	0
Chromosome 19	CM020132.1	=	NC_046984.1	0
Chromosome 20	CM020133.1	=	NC_046985.1	0
Chromosome 21	CM020134.1	=	NC_046986.1	0
Chromosome 22	CM020135.1	=	NC_046987.1	0
Chromosome 23	CM020136.1	=	NC_046988.1	0
Chromosome 24	CM020137.1	=	NC_046989.1	0
Chromosome 25	CM020138.1	=	NC_046990.1	0
unplaced	n/a	n/a	n/a	23

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	572,885,595	48	562,703,391	23,863,342	347
Chromosome 1	27,387,776	1	27,044,453	27,387,776	15
Chromosome 2	12,788,815	1	12,379,853	12,788,815	14
Chromosome 3	31,498,552	1	30,990,635	31,498,552	12
Chromosome 4	28,177,795	1	27,566,305	28,177,795	16
Chromosome 5	28,050,196	1	27,684,710	28,050,196	11
Chromosome 6	27,064,420	1	26,488,297	27,064,420	19
Chromosome 7	26,633,010	1	25,696,099	26,633,010	24
Chromosome 8	21,980,463	1	21,657,528	21,980,463	9
Chromosome 9	27,995,395	1	27,490,374	27,995,395	17
Chromosome 10	26,151,603	1	25,585,110	26,151,603	19
Chromosome 11	22,947,575	1	22,393,369	22,947,575	21
Chromosome 12	21,746,117	1	21,473,186	21,746,117	9
Chromosome 13	21,873,678	1	21,597,976	21,873,678	17
Chromosome 14	23,863,342	1	23,404,034	23,863,342	13
Chromosome 15	25,263,199	1	24,441,584	25,263,199	18
Chromosome 16	16,278,110	1	16,276,897	16,278,110	9
Chromosome 17	23,584,696	1	23,358,804	23,584,696	18
Chromosome 18	16,667,136	1	16,604,932	16,667,136	3
Chromosome 19	19,600,944	1	19,540,146	19,600,944	10
Chromosome 20	20,970,387	1	20,715,078	20,970,387	10
Chromosome 21	25,790,955	1	24,788,064	25,790,955	16
Chromosome 22	23,786,847	1	23,462,410	23,786,847	17
Chromosome 23	17,613,290	1	17,479,325	17,613,290	11
Chromosome 24	21,858,148	1	21,432,219	21,858,148	10
Chromosome 25	12,494,197	1	12,333,554	12,494,197	8
unplaced	818,949	23	818,449	52,054	1

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fCycLum1.pri

See Genome Information for Cyclopterus lumpus

Pathogen Detection Resources

There are 5 assemblies for this organism

History (Show revision history)

Comment

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