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sCarCar2.pri

Organism name:
Carcharodon carcharias (great white shark)
Isolate:
sCarCar2
Sex:
male
BioSample:
SAMN12629504
BioProject:
PRJNA562007
Submitter:
Vertebrate Genomes Project
Date:
2021/03/30
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_017639515.1 (latest)
RefSeq assembly accession:
GCF_017639515.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Different: chromosome MT.
  • Data displayed for RefSeq version
WGS Project:
JAGDEE01
Assembly method:
FALCON v. DX 2.0.1; FALCON-Unzip v. DX 1.2.1; purge_dups v. DX 19-08-10; scaff10X v. DX 2.0.3; bionano Solve v. DX 3.4.0; Salsa2 HiC v. DX 2.2.0; Arrow polishing and gap filling v. DX 7.0.1.1; Longranger Align DX v. 2.2.2.1; freebayes DX v. 19-07-11; gEVAL manual curation v. 2021-02-05; VGP assembly pipeline v. 1.6
Expected final version:
no
Genome coverage:
66.84x
Sequencing technology:
PacBio Sequel I CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS
Linked assembly:
GCA_017639455.1 (alternate pseudohaplotype of diploid)

IDs: 9678721 [UID] 25887338 [GenBank] 26470268 [RefSeq]

See Genome Information for Carcharodon carcharias

Pathogen Detection Resources

There are 5 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length4,286,311,191
Total ungapped length4,267,160,962
Gaps between scaffolds0
Number of scaffolds719
Scaffold N50169,918,123
Scaffold L5011
Number of contigs3,358
Contig N506,544,962
Contig L50145
Total number of chromosomes and plasmids43
Number of component sequences (WGS or clone)719

Supplemental Content

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Assembly Information

Related Information

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
non-nuclear
Assembly Unit: Primary Assembly (GCF_017639535.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM029965.1=NC_054467.11
Chromosome 2CM029966.1=NC_054468.11
Chromosome 3CM029967.1=NC_054469.12
Chromosome 4CM029968.1=NC_054470.13
Chromosome 5CM029969.1=NC_054471.11
Chromosome 6CM029970.1=NC_054472.10
Chromosome 7CM029971.1=NC_054473.14
Chromosome 8CM029972.1=NC_054474.11
Chromosome 9CM029973.1=NC_054475.11
Chromosome 10CM029974.1=NC_054476.10
Chromosome 11CM029975.1=NC_054477.12
Chromosome 12CM029976.1=NC_054478.12
Chromosome 13CM029977.1=NC_054479.18
Chromosome 14CM029978.1=NC_054480.10
Chromosome 15CM029979.1=NC_054481.12
Chromosome 16CM029980.1=NC_054482.13
Chromosome 17CM029981.1=NC_054483.11
Chromosome 18CM029982.1=NC_054484.16
Chromosome 19CM029983.1=NC_054485.19
Chromosome 20CM029984.1=NC_054486.11
Chromosome 21CM029985.1=NC_054487.17
Chromosome 22CM029986.1=NC_054488.12
Chromosome 23CM029987.1=NC_054489.10
Chromosome 24CM029988.1=NC_054490.139
Chromosome 25CM029989.1=NC_054491.11
Chromosome 26CM029990.1=NC_054492.10
Chromosome 27CM029991.1=NC_054493.130
Chromosome 28CM029992.1=NC_054494.10
Chromosome 29CM029993.1=NC_054495.129
Chromosome 30CM029994.1=NC_054496.11
Chromosome 31CM029995.1=NC_054497.11
Chromosome 32CM029996.1=NC_054498.15
Chromosome 33CM029997.1=NC_054499.110
Chromosome 34CM029998.1=NC_054500.11
Chromosome 35CM029999.1=NC_054501.125
Chromosome 36CM030000.1=NC_054502.132
Chromosome 37CM030001.1=NC_054503.117
Chromosome 38CM030002.1=NC_054504.139
Chromosome 39CM030003.1=NC_054505.135
Chromosome 40CM030004.1=NC_054506.115
Chromosome XCM030005.1=NC_054507.123
Chromosome YCM030006.1=NC_054508.11
unplacedn/an/an/a315

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule4,286,294,4477184,267,144,218169,918,1232,6390
Chromosome 1AllAssembled moleculeUnlocalized scaffolds274,209,936274,107,945101,991211273,699,248273,597,257101,991274,107,945274,107,945101,99175750000
Chromosome 2AllAssembled moleculeUnlocalized scaffolds240,029,037239,769,335259,702211239,327,453239,067,751259,702239,769,335239,769,335259,70283830000
Chromosome 3AllAssembled moleculeUnlocalized scaffolds233,753,854233,268,383485,471312232,656,436232,171,165485,271233,268,383233,268,383342,54962611000
Chromosome 4AllAssembled moleculeUnlocalized scaffolds205,788,324205,643,877144,447413205,412,138205,267,691144,447205,643,877205,643,87745,45059590000
Chromosome 5AllAssembled moleculeUnlocalized scaffolds202,184,915201,867,306317,609211202,012,759201,696,150316,609201,867,306201,867,306317,60983812000
Chromosome 6Assembled molecule199,472,0981198,643,067199,472,098700
Chromosome 7AllAssembled moleculeUnlocalized scaffolds193,913,231193,532,774380,457514192,846,652192,466,195380,457193,532,774193,532,774148,29176760000
Chromosome 8AllAssembled moleculeUnlocalized scaffolds179,062,160178,954,087108,073211178,649,823178,541,750108,073178,954,087178,954,087108,07369690000
Chromosome 9AllAssembled moleculeUnlocalized scaffolds173,767,678173,482,188285,490211173,316,476173,031,186285,290173,482,188173,482,188285,49068671000
Chromosome 10Assembled molecule171,616,1231171,088,559171,616,123530
Chromosome 11AllAssembled moleculeUnlocalized scaffolds170,202,254169,918,123284,131312169,870,730169,586,599284,131169,918,123169,918,123176,92558580000
Chromosome 12AllAssembled moleculeUnlocalized scaffolds153,558,383153,340,763217,620312153,336,901153,119,281217,620153,340,763153,340,763196,71697970000
Chromosome 13AllAssembled moleculeUnlocalized scaffolds150,877,144146,975,2973,901,847918149,643,125145,779,8223,863,303146,975,297146,975,297609,96578744000
Chromosome 14Assembled molecule150,295,4381149,945,151150,295,438830
Chromosome 15AllAssembled moleculeUnlocalized scaffolds137,709,368137,458,834250,534312137,155,304136,904,770250,534137,458,834137,458,834126,79476760000
Chromosome 16AllAssembled moleculeUnlocalized scaffolds123,990,796123,494,552496,244413123,303,283122,807,039496,244123,494,552123,494,552165,81553530000
Chromosome 17AllAssembled moleculeUnlocalized scaffolds122,180,293122,117,42162,872211120,964,918120,902,04662,872122,117,421122,117,42162,87265650000
Chromosome 18AllAssembled moleculeUnlocalized scaffolds120,375,512118,536,0601,839,452716119,468,307117,723,3541,744,953118,536,060118,536,0601,247,20481747000
Chromosome 19AllAssembled moleculeUnlocalized scaffolds119,926,176115,848,8444,077,3321019119,152,353115,078,1204,074,233115,848,844115,848,844697,0471101037000
Chromosome 20AllAssembled moleculeUnlocalized scaffolds116,096,059115,949,147146,912211115,630,661115,483,749146,912115,949,147115,949,147146,91252520000
Chromosome 21AllAssembled moleculeUnlocalized scaffolds93,065,31891,247,6951,817,62381792,974,01091,156,9841,817,02691,247,69591,247,695255,67739372000
Chromosome 22AllAssembled moleculeUnlocalized scaffolds69,748,65269,453,865294,78731269,596,94769,302,160294,78769,453,86569,453,865162,21742420000
Chromosome 23Assembled molecule54,603,274154,433,25154,603,274280
Chromosome 24AllAssembled moleculeUnlocalized scaffolds51,521,80133,366,35818,155,4434013951,122,04632,982,82518,139,22133,366,35833,366,3581,714,4991227844000
Chromosome 25AllAssembled moleculeUnlocalized scaffolds48,938,47848,752,847185,63121148,884,96448,699,833185,13148,752,84748,752,847185,63120191000
Chromosome 26Assembled molecule46,453,226146,118,15846,453,226190
Chromosome 27AllAssembled moleculeUnlocalized scaffolds43,028,03420,355,16222,672,8723113042,566,30719,907,24922,659,0589,728,03220,355,1622,750,1191006139000
Chromosome 28Assembled molecule39,663,097139,363,65839,663,097270
Chromosome 29AllAssembled moleculeUnlocalized scaffolds39,503,11416,521,80722,981,3073012939,406,78916,451,05322,955,7364,481,20916,521,8071,314,094852659000
Chromosome 30AllAssembled moleculeUnlocalized scaffolds37,370,36337,228,811141,55221137,236,25637,094,704141,55237,228,81137,228,811141,55240400000
Chromosome 31AllAssembled moleculeUnlocalized scaffolds33,214,77333,130,58084,19321132,901,73632,817,54384,19333,130,58033,130,58084,19324240000
Chromosome 32AllAssembled moleculeUnlocalized scaffolds32,517,50630,807,3791,710,12761531,664,30729,954,1801,710,12730,807,37930,807,379618,95218180000
Chromosome 33AllAssembled moleculeUnlocalized scaffolds30,619,06822,667,1887,951,8801111029,620,99921,678,4107,942,58922,667,18822,667,1884,495,011654421000
Chromosome 34AllAssembled moleculeUnlocalized scaffolds30,232,27830,049,857182,42121129,768,04829,585,627182,42130,049,85730,049,857182,42139390000
Chromosome 35AllAssembled moleculeUnlocalized scaffolds28,719,6109,475,41719,244,1932612528,321,8859,262,37619,059,5092,573,7129,475,4171,880,735822161000
Chromosome 36AllAssembled moleculeUnlocalized scaffolds26,898,02310,280,09216,617,9313313226,621,30910,270,97116,350,3386,011,62610,280,0923,265,027622438000
Chromosome 37AllAssembled moleculeUnlocalized scaffolds25,887,3409,073,84616,813,4941811725,865,2049,069,36816,795,8366,882,1519,073,8464,312,120571542000
Chromosome 38AllAssembled moleculeUnlocalized scaffolds25,109,3602,983,59922,125,7614013924,531,7412,975,72221,556,019893,2332,983,599690,115651946000
Chromosome 39AllAssembled moleculeUnlocalized scaffolds16,522,4372,721,61113,800,8263613516,471,7182,685,64813,786,070997,4522,721,611610,15941536000
Chromosome 40AllAssembled moleculeUnlocalized scaffolds13,019,1103,712,7019,306,4091611512,999,2753,705,0269,294,2491,493,2903,712,701840,209521834000
Chromosome XAllAssembled moleculeUnlocalized scaffolds36,924,89128,814,9428,109,9492412336,844,11328,741,0208,103,09328,814,94228,814,942551,568654916000
Chromosome YAllAssembled moleculeUnlocalized scaffolds5,143,9885,000,788143,2002115,139,3784,996,178143,2005,000,7885,000,788143,20011110000
unplacedAssembled molecule18,581,92731518,568,77598,541850
MoleculeTotal
Length
Mitochondrion MT16,744