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ARS1

  • Anomalous assembly.
Description:
Old name: ASM170441v1
Organism name:
Capra hircus (goat)
Infraspecific name:
Breed: San Clemente
Sex:
male
BioSample:
SAMN03863711
BioProject:
PRJNA290100
Submitter:
USDA ARS
Date:
2016/08/24
Assembly level:
Chromosome
Genome representation:
full
Assembly anomaly:
contaminated
Excluded from RefSeq:
  • contaminated
GenBank assembly accession:
GCA_001704415.1 (replaced)
RefSeq assembly accession:
GCF_001704415.1 (replaced)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT (in non-nuclear assembly-unit)
  • Data displayed for RefSeq version
WGS Project:
LWLT01
Assembly method:
Celera Assembler v. 8.2; BioNano Genomics Irys v. APRIL-2015; Lachesis Hi-C v. JUNE-2015
Expected final version:
yes
Genome coverage:
50.0x
Sequencing technology:
PacBio

IDs: 786311 [UID] 3415568 [GenBank] 3423208 [RefSeq]

See Genome Information for Capra hircus

There are 7 assemblies for this organism

See more

History (Show revision history)

Comment

In July 2022 21 sequences were suppressed because they were found to be contaminants.

Global statistics

Total sequence length2,922,813,246
Total ungapped length2,922,775,059
Gaps between scaffolds0
Number of scaffolds29,907
Scaffold N5087,277,232
Scaffold L5013
Number of contigs30,399
Contig N5026,244,591
Contig L5032
Total number of chromosomes and plasmids31
Number of component sequences (WGS or clone)29,907

Supplemental Content

PubMed articles for this assembly

Recent activity

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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_001704425.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM004562.1=NC_030808.10
Chromosome 2CM004563.1=NC_030809.10
Chromosome 3CM004564.1=NC_030810.10
Chromosome 4CM004565.1=NC_030811.10
Chromosome 5CM004566.1=NC_030812.10
Chromosome 6CM004567.1=NC_030813.10
Chromosome 7CM004568.1=NC_030814.10
Chromosome 8CM004569.1=NC_030815.10
Chromosome 9CM004570.1=NC_030816.10
Chromosome 10CM004571.1=NC_030817.10
Chromosome 11CM004572.1=NC_030818.10
Chromosome 12CM004573.1=NC_030819.10
Chromosome 13CM004574.1=NC_030820.10
Chromosome 14CM004575.1=NC_030821.10
Chromosome 15CM004576.1=NC_030822.10
Chromosome 16CM004577.1=NC_030823.10
Chromosome 17CM004578.1=NC_030824.10
Chromosome 18CM004579.1=NC_030825.10
Chromosome 19CM004580.1=NC_030826.10
Chromosome 20CM004581.1=NC_030827.10
Chromosome 21CM004582.1=NC_030828.10
Chromosome 22CM004583.1=NC_030829.10
Chromosome 23CM004584.1=NC_030830.10
Chromosome 24CM004585.1=NC_030831.10
Chromosome 25CM004586.1=NC_030832.10
Chromosome 26CM004587.1=NC_030833.10
Chromosome 27CM004588.1=NC_030834.10
Chromosome 28CM004589.1=NC_030835.10
Chromosome 29CM004590.1=NC_030836.10
Chromosome Xn/an/an/a2
unplacedn/an/an/a29,875

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
AllAssembled molecule2,922,796,60329,9062,922,758,41687,277,2324920
Chromosome 1Assembled molecule157,403,5281157,403,278157,403,528100
Chromosome 2Assembled molecule136,510,9471136,510,747136,510,94780
Chromosome 3Assembled molecule120,038,2591120,037,984120,038,259110
Chromosome 4Assembled molecule120,734,9661120,733,315120,734,96670
Chromosome 5Assembled molecule119,020,5881119,019,111119,020,588120
Chromosome 6Assembled molecule117,642,3751117,637,248117,642,375150
Chromosome 7Assembled molecule108,433,6361108,433,436108,433,63680
Chromosome 8Assembled molecule112,672,8671112,671,558112,672,867110
Chromosome 9Assembled molecule91,568,626191,568,38191,568,62680
Chromosome 10Assembled molecule101,087,5601101,087,335101,087,56090
Chromosome 11Assembled molecule106,225,0021106,224,777106,225,00290
Chromosome 12Assembled molecule87,277,232187,276,78287,277,232180
Chromosome 13Assembled molecule83,034,183183,032,46583,034,18390
Chromosome 14Assembled molecule94,672,733194,672,53394,672,73380
Chromosome 15Assembled molecule81,904,557181,900,66881,904,557120
Chromosome 16Assembled molecule79,370,172179,367,39279,370,172120
Chromosome 17Assembled molecule71,137,785171,136,58071,137,78590
Chromosome 18Assembled molecule67,275,902167,274,92767,275,902200
Chromosome 19Assembled molecule62,516,450162,516,20062,516,450100
Chromosome 20Assembled molecule71,784,255171,782,37071,784,25550
Chromosome 21Assembled molecule69,425,955169,423,07069,425,955130
Chromosome 22Assembled molecule60,283,066160,280,84260,283,06680
Chromosome 23Assembled molecule48,866,549148,866,42448,866,54950
Chromosome 24Assembled molecule62,310,066162,310,01662,310,06620
Chromosome 25Assembled molecule42,858,509142,858,15942,858,509140
Chromosome 26Assembled molecule51,421,553151,421,35351,421,55380
Chromosome 27Assembled molecule44,709,034144,708,98444,709,03420
Chromosome 28Assembled molecule44,672,302144,672,30244,672,30200
Chromosome 29Assembled molecule51,332,696151,332,37151,332,696130
Chromosome XAllAssembled moleculeUnlocalized scaffolds115,943,5290115,943,529202115,936,1370115,936,13766,011,198066,011,1982140214000
unplacedAssembled molecule340,661,72129,875340,661,67113,52320
MoleculeTotal
Length
Mitochondrion MT16,643
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