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VicPac3.2

Organism name:
Vicugna pacos (alpaca)
Isolate:
Carlotta (AHFN-0088)
Sex:
female
BioSample:
SAMN01096418
BioProject:
PRJNA544883
Submitter:
Deakin University
Date:
2019/07/15
Release type:
minor
Assembly level:
Scaffold
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_000164845.5 (latest)
RefSeq assembly accession:
GCF_000164845.4 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
ABRR03
Assembly method:
MaSuRCA, Metassembler, DoveTail HiRise v. JUN-17
Expected final version:
yes
Reference guided assembly:
GCA_000164845.3; GCF_000164845.2
Genome coverage:
260.0x
Sequencing technology:
Illumina HiSeq; PacBio RSII; Dovetail genomics

IDs: 12788251 [UID] 33410318 [GenBank] 33410338 [RefSeq]

See Genome Information for Vicugna pacos

There are 3 assemblies for this organism

See more

History (Show revision history)

Comment

In May 2022 1 sequence was suppressed because it was found to be a contaminant.

Global statistics

Total sequence length2,118,870,233
Total ungapped length2,030,454,818
Gaps between scaffolds0
Number of scaffolds77,389
Scaffold N5024,022,313
Scaffold L5025
Number of contigs243,661
Contig N5029,521
Contig L5018,016
Total number of chromosomes and plasmids38
Number of component sequences (WGS or clone)77,389

Supplemental Content

PubMed articles for this assembly

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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_000164855.4)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1n/an/an/a5
Chromosome 2n/an/an/a1
Chromosome 3n/an/an/a3
Chromosome 4n/an/an/a3
Chromosome 5n/an/an/a1
Chromosome 6n/an/an/a2
Chromosome 7n/an/an/a1
Chromosome 8n/an/an/a1
Chromosome 9n/an/an/a3
Chromosome 10n/an/an/a1
Chromosome 11n/an/an/a5
Chromosome 12n/an/an/a2
Chromosome 13n/an/an/a3
Chromosome 14n/an/an/a2
Chromosome 15n/an/an/a2
Chromosome 16n/an/an/a6
Chromosome 17n/an/an/a1
Chromosome 18n/an/an/a2
Chromosome 19n/an/an/a1
Chromosome 20n/an/an/a2
Chromosome 21n/an/an/a3
Chromosome 22n/an/an/a1
Chromosome 23n/an/an/a2
Chromosome 24n/an/an/a1
Chromosome 25n/an/an/a3
Chromosome 26n/an/an/a2
Chromosome 27n/an/an/a1
Chromosome 28n/an/an/a1
Chromosome 29n/an/an/a2
Chromosome 30n/an/an/a3
Chromosome 31n/an/an/a1
Chromosome 32n/an/an/a3
Chromosome 33n/an/an/a1
Chromosome 34n/an/an/a1
Chromosome 35n/an/an/a4
Chromosome 36n/an/an/a3
Chromosome Xn/an/an/a7
unplacedn/an/an/a77,302

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
AllAssembled molecule2,118,853,58177,3882,030,438,16624,022,313166,2720
Chromosome 1AllAssembled moleculeUnlocalized scaffolds101,041,2330101,041,23350597,812,416097,812,41627,143,056027,143,0567,18907,189000
Chromosome 2AllAssembled moleculeUnlocalized scaffolds121,370,6200121,370,620101117,484,2540117,484,254121,370,6200121,370,6209,20509,205000
Chromosome 3AllAssembled moleculeUnlocalized scaffolds83,363,794083,363,79430380,817,439080,817,43965,747,404065,747,4045,93405,934000
Chromosome 4AllAssembled moleculeUnlocalized scaffolds65,636,945065,636,94530363,756,833063,756,83343,451,823043,451,8233,95603,956000
Chromosome 5AllAssembled moleculeUnlocalized scaffolds96,274,254096,274,25410193,479,546093,479,54696,274,254096,274,2546,75206,752000
Chromosome 6AllAssembled moleculeUnlocalized scaffolds74,791,714074,791,71420272,762,768072,762,76863,770,147063,770,1474,11804,118000
Chromosome 7AllAssembled moleculeUnlocalized scaffolds31,168,711031,168,71110130,244,708030,244,70831,168,711031,168,7112,06902,069000
Chromosome 8AllAssembled moleculeUnlocalized scaffolds70,270,077070,270,07710168,336,020068,336,02070,270,077070,270,0774,65504,655000
Chromosome 9AllAssembled moleculeUnlocalized scaffolds53,761,482053,761,48230352,165,586052,165,58630,167,013030,167,0133,32103,321000
Chromosome 10AllAssembled moleculeUnlocalized scaffolds39,582,034039,582,03410138,395,188038,395,18839,582,034039,582,0342,62602,626000
Chromosome 11AllAssembled moleculeUnlocalized scaffolds74,979,631074,979,63150572,291,087072,291,08718,667,169018,667,1695,18805,188000
Chromosome 12AllAssembled moleculeUnlocalized scaffolds48,986,614048,986,61420247,417,673047,417,67348,142,004048,142,0043,58503,585000
Chromosome 13AllAssembled moleculeUnlocalized scaffolds61,008,235061,008,23530359,246,871059,246,87118,253,595018,253,5954,02404,024000
Chromosome 14AllAssembled moleculeUnlocalized scaffolds67,111,318067,111,31820264,513,462064,513,46236,104,741036,104,7415,44105,441000
Chromosome 15AllAssembled moleculeUnlocalized scaffolds32,418,436032,418,43620231,401,654031,401,65431,125,524031,125,5242,18902,189000
Chromosome 16AllAssembled moleculeUnlocalized scaffolds39,074,364039,074,36460637,664,811037,664,81124,459,858024,459,8582,74502,745000
Chromosome 17AllAssembled moleculeUnlocalized scaffolds46,944,759046,944,75910145,673,032045,673,03246,944,759046,944,7592,93202,932000
Chromosome 18AllAssembled moleculeUnlocalized scaffolds29,910,177029,910,17720228,860,801028,860,80117,793,591017,793,5912,12102,121000
Chromosome 19AllAssembled moleculeUnlocalized scaffolds24,022,313024,022,31310123,368,720023,368,72024,022,313024,022,3131,26001,260000
Chromosome 20AllAssembled moleculeUnlocalized scaffolds38,741,345038,741,34520237,408,731037,408,73121,123,902021,123,9022,78002,780000
Chromosome 21AllAssembled moleculeUnlocalized scaffolds29,520,914029,520,91430328,601,971028,601,97111,290,377011,290,3772,12902,129000
Chromosome 22AllAssembled moleculeUnlocalized scaffolds25,522,599025,522,59910124,665,082024,665,08225,522,599025,522,5991,83301,833000
Chromosome 23AllAssembled moleculeUnlocalized scaffolds29,440,657029,440,65720228,825,992028,825,99226,462,452026,462,4521,44001,440000
Chromosome 24AllAssembled moleculeUnlocalized scaffolds18,346,407018,346,40710117,773,441017,773,44118,346,407018,346,4071,29501,295000
Chromosome 25AllAssembled moleculeUnlocalized scaffolds60,195,357060,195,35730358,098,863058,098,86320,942,430020,942,4304,56204,562000
Chromosome 26AllAssembled moleculeUnlocalized scaffolds27,987,978027,987,97820226,966,820026,966,82015,017,617015,017,6172,48302,483000
Chromosome 27AllAssembled moleculeUnlocalized scaffolds22,699,463022,699,46310121,987,411021,987,41122,699,463022,699,4631,53501,535000
Chromosome 28AllAssembled moleculeUnlocalized scaffolds16,162,605016,162,60510115,573,339015,573,33916,162,605016,162,6051,31101,311000
Chromosome 29AllAssembled moleculeUnlocalized scaffolds26,137,040026,137,04020225,120,907025,120,90714,278,588014,278,5882,27302,273000
Chromosome 30AllAssembled moleculeUnlocalized scaffolds13,130,742013,130,74230312,636,419012,636,4199,688,54009,688,5401,04901,049000
Chromosome 31AllAssembled moleculeUnlocalized scaffolds13,602,737013,602,73710113,059,931013,059,93113,602,737013,602,7371,15001,150000
Chromosome 32AllAssembled moleculeUnlocalized scaffolds22,732,685022,732,68530321,809,606021,809,60620,187,997020,187,9971,75301,753000
Chromosome 33AllAssembled moleculeUnlocalized scaffolds16,261,182016,261,18210115,689,090015,689,09016,261,182016,261,1821,23501,235000
Chromosome 34AllAssembled moleculeUnlocalized scaffolds22,097,801022,097,80110121,329,119021,329,11922,097,801022,097,8011,76601,766000
Chromosome 35AllAssembled moleculeUnlocalized scaffolds18,484,027018,484,02740417,321,731017,321,7316,682,74406,682,7441,91801,918000
Chromosome 36AllAssembled moleculeUnlocalized scaffolds5,377,76505,377,7653034,677,26004,677,2602,828,35102,828,3519810981000
Chromosome XAllAssembled moleculeUnlocalized scaffolds34,309,508034,309,50870733,003,848033,003,8486,359,22806,359,2282,07002,070000
unplacedAssembled molecule516,386,05877,302480,195,7366,680,80253,3990
MoleculeTotal
Length
Mitochondrion MT16,652