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NHGRI_mPanTro3-v1.1-hic.freeze_alt

Organism name:
Pan troglodytes (chimpanzee)
Isolate:
AG18354
Sex:
male
BioSample:
SAMN30216104
BioProject:
PRJNA916737
Submitter:
National Human Genome Research Institute, National Institutes of Health
Date:
2023/02/27
Assembly type:
alternate-pseudohaplotype
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_028858805.1 (replaced)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
JAQQLO01
Assembly method:
Verkko v. 1.1
Expected final version:
no
Genome coverage:
70.0x
Sequencing technology:
PacBio Sequel; Oxford Nanopore PromethION
Linked assembly:
GCA_028858775.1 (principal pseudohaplotype of diploid)

IDs: 16013991 [UID] 41093768 [GenBank]

See Genome Information for Pan troglodytes

Pathogen Detection Resources

There are 10 assemblies for this organism

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History (Show revision history)

Comment

The unspecified linkage evidence came from assembly graph analysis

Global statistics

Total sequence length3,015,383,096
Total ungapped length3,008,750,638
Gaps between scaffolds0
Number of scaffolds119
Scaffold N50140,748,209
Scaffold L509
Number of contigs141
Contig N50100,838,580
Contig L5011
Total number of chromosomes and plasmids23
Number of component sequences (WGS or clone)141

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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 (GCA_028858815.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM054411.1n/an/a0
Chromosome 2ACM054412.1n/an/a0
Chromosome 2BCM054413.1n/an/a0
Chromosome 3CM054414.1n/an/a0
Chromosome 4CM054415.1n/an/a0
Chromosome 5CM054416.1n/an/a0
Chromosome 6CM054417.1n/an/a0
Chromosome 7CM054418.1n/an/a0
Chromosome 8CM054419.1n/an/a0
Chromosome 9CM054420.1n/an/a0
Chromosome 10CM054421.1n/an/a0
Chromosome 11CM054422.1n/an/a0
Chromosome 12CM054423.1n/an/a0
Chromosome 13CM054424.1n/an/a0
Chromosome 14CM054425.1n/an/a0
Chromosome 15CM054426.1n/an/a0
Chromosome 16CM054427.1n/an/a0
Chromosome 17CM054428.1n/an/a0
Chromosome 18CM054429.1n/an/a0
Chromosome 19CM054430.1n/an/a0
Chromosome 20CM054431.1n/an/a0
Chromosome 21CM054432.1n/an/a0
Chromosome 22CM054433.1n/an/a0
unplacedn/an/an/a96

Assembly statistics

MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
All3,015,383,0961193,008,750,638140,748,209220
Chromosome 1233,312,4531232,882,165233,312,45320
Chromosome 2A126,935,7961126,935,796126,935,79600
Chromosome 2B140,748,2091140,501,837140,748,20910
Chromosome 3200,344,6051200,344,605200,344,60500
Chromosome 4193,045,0041192,836,917193,045,00420
Chromosome 5178,806,4211178,389,893178,806,42110
Chromosome 6180,078,6621180,078,662180,078,66200
Chromosome 7174,453,1501173,937,154174,453,15030
Chromosome 8163,861,4271160,117,380163,861,42710
Chromosome 9121,990,3381121,990,338121,990,33800
Chromosome 10146,345,9721146,345,972146,345,97200
Chromosome 11136,987,5291136,929,039136,987,52910
Chromosome 12140,160,2981140,160,298140,160,29800
Chromosome 13103,384,5841103,129,381103,384,58410
Chromosome 14102,012,1271102,012,027102,012,12710
Chromosome 1597,361,126196,857,94897,361,12620
Chromosome 16100,838,5801100,838,580100,838,58000
Chromosome 1798,881,500198,881,40098,881,50010
Chromosome 1885,025,117184,858,79985,025,11720
Chromosome 1973,835,649173,835,64973,835,64900
Chromosome 2078,832,678178,832,47878,832,67820
Chromosome 2147,412,730147,412,63047,412,73010
Chromosome 2252,281,434152,281,43452,281,43400
unplaced38,447,7079638,360,2566,937,31910