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rEmyOrb1.hap1

Organism name:
Emys orbicularis (European pond turtle)
Isolate:
rEmyOrb1
Sex:
male
BioSample:
SAMN31805221
BioProject:
PRJNA919152
Submitter:
Vertebrate Genomes Project
Date:
2023/01/30
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_028017835.1 (latest)
RefSeq assembly accession:
GCF_028017835.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAQMCU01
Assembly method:
Hifiasm + Hi-C phasing v. 0.16.1 + galaxy2; Bionano Solve v. 3.7.0 + galaxy0; salsa v. 2.3 + galaxy2
Expected final version:
no
Genome coverage:
30.12x
Sequencing technology:
PacBio Sequel II HiFi; Bionano DLS; Arima Hi-C v2

IDs: 15694751 [UID] 40292168 [GenBank] 58738658 [RefSeq]

See Genome Information for Emys orbicularis

Pathogen Detection Resources

There are 2 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length2,309,740,635
Total ungapped length2,306,416,405
Gaps between scaffolds0
Number of scaffolds106
Scaffold N50146,456,333
Scaffold L505
Number of contigs254
Contig N5091,255,289
Contig L509
Total number of chromosomes and plasmids25
Number of component sequences (WGS or clone)106

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Assembly Information

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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
Assembly Unit: Primary Assembly (GCF_028018095.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM051430.1=NC_088683.12
Chromosome 2CM051431.1=NC_088684.15
Chromosome 3CM051432.1=NC_088685.12
Chromosome 4CM051433.1=NC_088686.12
Chromosome 5CM051434.1=NC_088687.12
Chromosome 6CM051435.1=NC_088688.10
Chromosome 7CM051436.1=NC_088689.10
Chromosome 8CM051437.1=NC_088690.10
Chromosome 9CM051438.1=NC_088691.10
Chromosome 10CM051439.1=NC_088692.10
Chromosome 11CM051440.1=NC_088693.11
Chromosome 12CM051441.1=NC_088694.12
Chromosome 13CM051442.1=NC_088695.11
Chromosome 14CM051443.1=NC_088696.11
Chromosome 15CM051444.1=NC_088697.18
Chromosome 16CM051445.1=NC_088698.10
Chromosome 17CM051446.1=NC_088699.10
Chromosome 18CM051447.1=NC_088700.10
Chromosome 19CM051448.1=NC_088701.13
Chromosome 20CM051449.1=NC_088702.10
Chromosome 21CM051450.1=NC_088703.113
Chromosome 22CM051451.1=NC_088704.10
Chromosome 23CM051452.1=NC_088705.13
Chromosome 24CM051453.1=NC_088706.10
Chromosome 25CM051454.1=NC_088707.10
unplacedn/an/an/a36

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,309,740,6351062,306,416,405146,456,3331480
Chromosome 1AllAssembled moleculeUnlocalized scaffolds374,137,376373,885,020252,356312373,903,276373,650,920252,356373,885,020373,885,020167,264770000
Chromosome 2AllAssembled moleculeUnlocalized scaffolds300,966,337300,499,247467,090615300,895,376300,428,786466,590300,499,247300,499,24769,365651000
Chromosome 3AllAssembled moleculeUnlocalized scaffolds218,106,792217,678,973427,819312217,869,222217,441,403427,819217,678,973217,678,973384,042770000
Chromosome 4AllAssembled moleculeUnlocalized scaffolds158,903,704158,421,364482,340312158,894,336158,411,996482,340158,421,364158,421,364327,096660000
Chromosome 5AllAssembled moleculeUnlocalized scaffolds146,640,275146,456,333183,942312146,623,503146,439,561183,942146,456,333146,456,333148,047880000
Chromosome 6Assembled molecule137,743,3431137,732,730137,743,34340
Chromosome 7Assembled molecule131,897,7731131,897,773131,897,77300
Chromosome 8Assembled molecule114,201,7961114,200,800114,201,79630
Chromosome 9Assembled molecule107,854,3331107,854,307107,854,33320
Chromosome 10Assembled molecule91,255,289191,255,28991,255,28900
Chromosome 11AllAssembled moleculeUnlocalized scaffolds81,360,35881,296,05564,30321181,358,08381,293,78064,30381,296,05581,296,05564,303440000
Chromosome 12AllAssembled moleculeUnlocalized scaffolds56,764,31856,086,520677,79831256,762,20556,085,907676,29856,086,52056,086,520453,301743000
Chromosome 13AllAssembled moleculeUnlocalized scaffolds51,161,11751,050,369110,74821150,698,09550,587,347110,74851,050,36951,050,369110,748220000
Chromosome 14AllAssembled moleculeUnlocalized scaffolds47,321,39046,357,444963,94621147,320,87746,356,931963,94646,357,44446,357,444963,946220000
Chromosome 15AllAssembled moleculeUnlocalized scaffolds35,426,16134,905,662520,49991834,625,30834,104,809520,49934,905,66234,905,66294,80522220000
Chromosome 16Assembled molecule34,215,272134,211,84734,215,27230
Chromosome 17Assembled molecule29,610,363129,320,38229,610,36310
Chromosome 18Assembled molecule27,602,313127,602,31327,602,31300
Chromosome 19AllAssembled moleculeUnlocalized scaffolds25,732,33525,151,755580,58041325,579,87124,999,291580,58025,151,75525,151,755363,98612120000
Chromosome 20Assembled molecule24,827,515124,401,64824,827,515140
Chromosome 21AllAssembled moleculeUnlocalized scaffolds24,226,07421,976,3722,249,7021411324,165,06321,918,3612,246,70221,976,37221,976,372525,99822166000
Chromosome 22Assembled molecule24,115,629124,115,62924,115,62900
Chromosome 23AllAssembled moleculeUnlocalized scaffolds22,652,08922,044,855607,23441322,580,72321,973,489607,23422,044,85522,044,855347,010440000
Chromosome 24Assembled molecule18,487,242118,463,05818,487,24220
Chromosome 25Assembled molecule18,164,433117,997,34318,164,43320
unplacedAssembled molecule6,367,008366,087,348755,34080