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ASM1180010v1

Organism name:
Rattus rattus (black rat)
Infraspecific name:
Ecotype: USA
Isolate:
CP-5999
Sex:
male
BioSample:
SAMN14087596
BioProject:
PRJNA607436
Submitter:
Max Planck Institute for the Science of Human History
Date:
2020/04/01
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_011800105.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
JAALGF01
Assembly method:
Meraculous v. 2.2.5; Dovetail HiRise v. June-21-2019
Expected final version:
yes
Genome coverage:
117.0x
Sequencing technology:
Illumina HiSeq; Chicago; Dovetail HiC

IDs: 6489551 [UID] 18187168 [GenBank]

See Genome Information for Rattus rattus

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

Global statistics

Total sequence length2,250,262,423
Total ungapped length2,231,842,072
Gaps between scaffolds0
Number of scaffolds6,805
Scaffold N50145,848,398
Scaffold L506
Number of contigs188,027
Contig N5031,539
Contig L5019,634
Total number of chromosomes and plasmids20
Number of component sequences (WGS or clone)6,805

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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_011800575.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM022304.1n/an/a0
Chromosome 2CM022305.1n/an/a0
Chromosome 3CM022306.1n/an/a0
Chromosome 4CM022307.1n/an/a0
Chromosome 5CM022308.1n/an/a0
Chromosome 6CM022309.1n/an/a0
Chromosome 7CM022310.1n/an/a0
Chromosome 8CM022311.1n/an/a0
Chromosome 9CM022312.1n/an/a0
Chromosome 10CM022313.1n/an/a0
Chromosome 11CM022314.1n/an/a0
Chromosome 12CM022315.1n/an/a0
Chromosome 13CM022316.1n/an/a0
Chromosome 14CM022317.1n/an/a0
Chromosome 15CM022318.1n/an/a0
Chromosome 16CM022319.1n/an/a0
Chromosome 17CM022320.1n/an/a0
Chromosome 18CM022321.1n/an/a0
Chromosome Xn/an/an/a781
Chromosome Yn/an/an/a420
unplacedn/an/an/a5,586

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
AllAssembled molecule2,250,262,4236,8052,231,842,072145,848,398181,2220
Chromosome 1Assembled molecule260,800,7561259,090,819260,800,75617,4740
Chromosome 2Assembled molecule218,546,4381216,829,427218,546,43817,8090
Chromosome 3Assembled molecule207,948,2811206,497,664207,948,28114,8000
Chromosome 4Assembled molecule175,986,2341174,816,788175,986,23411,7450
Chromosome 5Assembled molecule145,848,3981144,865,838145,848,39810,2800
Chromosome 6Assembled molecule152,412,6581151,321,777152,412,65810,8850
Chromosome 7Assembled molecule122,318,0401121,563,708122,318,0407,8310
Chromosome 8Assembled molecule110,503,6801109,826,282110,503,6806,8420
Chromosome 9Assembled molecule98,244,131197,597,55198,244,1316,1440
Chromosome 10Assembled molecule91,604,108190,990,13791,604,1086,6550
Chromosome 11Assembled molecule91,879,568191,252,82591,879,5686,2160
Chromosome 12Assembled molecule86,217,925185,590,22986,217,9256,2390
Chromosome 13Assembled molecule73,320,161172,800,72973,320,1615,0450
Chromosome 14Assembled molecule75,955,046175,407,69775,955,0465,5740
Chromosome 15Assembled molecule74,290,221173,810,72874,290,2214,6360
Chromosome 16Assembled molecule41,571,554141,211,68341,571,5543,6810
Chromosome 17Assembled molecule52,092,236151,715,61752,092,2363,5870
Chromosome 18Assembled molecule46,685,619146,265,92946,685,6193,9860
Chromosome XAllAssembled moleculeUnlocalized scaffolds110,930,2570110,930,2577810781109,290,4270109,290,42768,004,138068,004,13815,685015,685000
Chromosome YAllAssembled moleculeUnlocalized scaffolds2,138,09802,138,09842004202,087,09202,087,0929,83309,8333860386000
unplacedAssembled molecule10,969,0145,5869,009,1251,98415,7220