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mEleMax1 primary haplotype

Organism name:
Elephas maximus indicus (Asiatic elephant)
Isolate:
mEleMax1
Sex:
male
BioSample:
SAMN29174328
BioProject:
PRJNA850184
Submitter:
Vertebrate Genomes Project
Date:
2022/07/06
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_024166365.1 (latest)
RefSeq assembly accession:
GCF_024166365.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAMZQU01
Assembly method:
Hifiasm v. 0.16.1; purge_dups v. 07.12.21; Bionano solve v. 3.3; Salsa v. 2.3
Expected final version:
no
Genome coverage:
43.0x
Sequencing technology:
PacBio Sequel II HiFi; Bionano optical mapping; Arima HiC
Linked assembly:
GCA_024166345.1 (alternate pseudohaplotype of diploid)

IDs: 13211691 [UID] 34530248 [GenBank] 34886518 [RefSeq]

See Genome Information for Elephas maximus

Pathogen Detection Resources

There are 12 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length3,401,247,148
Total ungapped length3,397,913,467
Gaps between scaffolds0
Number of scaffolds64
Scaffold N50127,432,672
Scaffold L5010
Number of contigs190
Contig N5087,987,108
Contig L5013
Total number of chromosomes and plasmids29
Number of component sequences (WGS or clone)64

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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_024166375.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM044020.1=NC_064819.10
Chromosome 2CM044021.1=NC_064820.10
Chromosome 3CM044022.1=NC_064821.12
Chromosome 4CM044023.1=NC_064822.10
Chromosome 5CM044024.1=NC_064823.10
Chromosome 6CM044025.1=NC_064824.10
Chromosome 7CM044026.1=NC_064825.12
Chromosome 8CM044027.1=NC_064826.10
Chromosome 9CM044028.1=NC_064827.10
Chromosome 10CM044029.1=NC_064828.10
Chromosome 11CM044030.1=NC_064829.10
Chromosome 12CM044031.1=NC_064830.10
Chromosome 13CM044032.1=NC_064831.10
Chromosome 14CM044033.1=NC_064832.11
Chromosome 15CM044034.1=NC_064833.10
Chromosome 16CM044035.1=NC_064834.10
Chromosome 17CM044036.1=NC_064835.10
Chromosome 18CM044037.1=NC_064836.12
Chromosome 19CM044038.1=NC_064837.11
Chromosome 20CM044039.1=NC_064838.10
Chromosome 21CM044040.1=NC_064839.10
Chromosome 22CM044041.1=NC_064840.10
Chromosome 23CM044042.1=NC_064841.10
Chromosome 24CM044043.1=NC_064842.11
Chromosome 25CM044044.1=NC_064843.10
Chromosome 26CM044045.1=NC_064844.10
Chromosome 27CM044046.1=NC_064845.10
Chromosome XCM044047.1=NC_064846.10
Chromosome YCM044048.1=NC_064847.16
unplacedn/an/an/a20

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule3,401,247,148643,397,913,467127,432,6721260
Chromosome 1Assembled molecule243,826,0211243,825,595243,826,02140
Chromosome 2Assembled molecule236,636,8291236,636,116236,636,82930
Chromosome 3AllAssembled moleculeUnlocalized scaffolds225,919,828221,642,1604,277,668312225,735,725221,458,0574,277,668221,642,160221,642,1602,575,30016160000
Chromosome 4Assembled molecule197,257,0461197,256,646197,257,04620
Chromosome 5Assembled molecule166,437,4681166,437,442166,437,46820
Chromosome 6Assembled molecule144,996,5261144,252,295144,996,52660
Chromosome 7AllAssembled moleculeUnlocalized scaffolds141,770,232138,054,9693,715,263312141,769,019138,053,7563,715,263138,054,969138,054,9692,733,587770000
Chromosome 8Assembled molecule134,521,6541134,521,128134,521,65430
Chromosome 9Assembled molecule127,432,6721127,431,572127,432,67240
Chromosome 10Assembled molecule120,120,7161120,120,116120,120,71630
Chromosome 11Assembled molecule117,052,1571117,047,571117,052,15780
Chromosome 12Assembled molecule110,876,0291110,875,416110,876,02940
Chromosome 13Assembled molecule106,010,5861105,931,147106,010,58670
Chromosome 14AllAssembled moleculeUnlocalized scaffolds100,655,512100,093,644561,868211100,654,073100,092,205561,868100,093,644100,093,644561,86810100000
Chromosome 15Assembled molecule96,493,520196,492,72096,493,52040
Chromosome 16Assembled molecule95,037,378194,519,08195,037,37860
Chromosome 17Assembled molecule91,502,332191,502,09391,502,33240
Chromosome 18AllAssembled moleculeUnlocalized scaffolds89,344,48884,764,9194,579,56931289,344,08884,764,5194,579,56984,764,91984,764,9192,688,458220000
Chromosome 19AllAssembled moleculeUnlocalized scaffolds88,308,21585,783,6272,524,58821188,286,64885,762,0602,524,58885,783,62785,783,6272,524,588110000
Chromosome 20Assembled molecule84,109,276184,108,79384,109,27630
Chromosome 21Assembled molecule83,887,677183,886,77783,887,67730
Chromosome 22Assembled molecule81,976,604181,976,20481,976,60420
Chromosome 23Assembled molecule79,875,053179,874,65379,875,05320
Chromosome 24AllAssembled moleculeUnlocalized scaffolds70,152,63967,738,3742,414,26521170,152,42667,738,1612,414,26567,738,37467,738,3742,414,265220000
Chromosome 25Assembled molecule68,857,337168,857,13768,857,33710
Chromosome 26Assembled molecule48,605,916148,605,51648,605,91620
Chromosome 27Assembled molecule38,378,272138,377,47238,378,27240
Chromosome XAssembled molecule181,417,0501180,605,867181,417,05050
Chromosome YAllAssembled moleculeUnlocalized scaffolds24,256,16815,906,4748,349,69471623,298,68414,948,9908,349,69415,906,47415,906,4744,629,437550000
unplacedAssembled molecule5,531,947205,531,4471,325,54710