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Nleu_3.0

Organism name:
Nomascus leucogenys (northern white-cheeked gibbon)
Isolate:
Asia; international studbook 0098
Sex:
female
BioSample:
SAMN02981257
BioProject:
PRJNA13975
Submitter:
Gibbon Genome Sequencing Consortium
Date:
2012/12/08
Synonyms:
nomLeu3
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_000146795.3 (latest)
RefSeq assembly accession:
GCF_000146795.2 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in GenBank: 8 unlocalized scaffolds on chromosome MT (in non-nuclear assembly-unit)
  • Data displayed for RefSeq version
WGS Project:
ADFV01
Assembly method:
Arachne Assembler, assisted with Human NCBI build 36 (UCSC hg18); Phrap for mitochondrial sequences
Genome coverage:
5.6x in Q20 bases
Sequencing technology:
Sanger

IDs: 506498 [UID] 504578 [GenBank] 506498 [RefSeq]

See Genome Information for Nomascus leucogenys

History (Show revision history)

Comment

The members of the Gibbon Genome Sequencing Consortium are the Baylor College of Medicine Human Genome Sequencing Center and the Genome Sequencing Center at Washington University.
 DNA for both the BAC library and the WGS sequence was isolated from ... blood provided by Alan Mootnick (Director, Gibbon Conservation Center, Santa Clarita, California) from a female named Asia (international studbook #0098), The CHORI-271 BAC Library was constructed by Boudewijn ten Hallers and Baoli zhu in Pieter deJong's laboratory (BACPAC Resources, Children's Hospital Oakland Research Institute). DNA was sequenced using Sanger methods by the Baylor College of Medicine Human Genome Sequencing Center, and the Genome Center at Washington University. The genomic sequence was assembled by Sante Gnerre and David Reich (Broad Institute of Harvard and MIT) using the methods described (Genome Biology 2009; 10(8):R88). The mitochondrion was assembled by Yue Liu (BCM-HGSC) using Phrap (http://www.phrap.org); reads with similarity to mitochondrial sequences were assembled using Phrap with default parameters.
 Funding for the sequencing of the white-cheeked gibbon genome was provided by the National Human Genome Research Institute, National Institutes of Health (NHGRI).  more

Global statistics

Total sequence length2,962,060,179
Total assembly gap length205,468,402
Gaps between scaffolds92
Number of scaffolds17,524
Scaffold N5052,956,880
Scaffold L5021
Number of contigs197,900
Contig N5035,148
Contig L5021,558
Total number of chromosomes and plasmids26
Number of component sequences (WGS or clone)197,900

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
Assembly Unit: Primary Assembly (GCF_000146805.2)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1aCM001646.1=NC_019816.189
Chromosome 2CM001648.1=NC_019817.1100
Chromosome 3CM001649.1=NC_019818.161
Chromosome 4CM001650.1=NC_019819.179
Chromosome 5CM001651.1=NC_019820.171
Chromosome 6CM001652.1=NC_019821.186
Chromosome 7bCM001653.1=NC_019822.171
Chromosome 8CM001654.1=NC_019823.162
Chromosome 9CM001655.1=NC_019824.154
Chromosome 10CM001656.1=NC_019825.1141
Chromosome 11CM001657.1=NC_019826.167
Chromosome 12CM001658.1=NC_019827.150
Chromosome 13CM001659.1=NC_019828.171
Chromosome 14CM001660.1=NC_019829.198
Chromosome 15CM001661.1=NC_019830.146
Chromosome 16CM001662.1=NC_019831.147
Chromosome 17CM001663.1=NC_019832.1117
Chromosome 18CM001664.1=NC_019833.170
Chromosome 19CM001665.1=NC_019834.166
Chromosome 20CM001666.1=NC_019835.136
Chromosome 21CM001667.1=NC_019836.149
Chromosome 22aCM001647.1=NC_019837.157
Chromosome 23CM001668.1=NC_019838.114
Chromosome 24CM001669.1=NC_019839.141
Chromosome 25CM001670.1=NC_019840.116
Chromosome XCM001671.1=NC_019841.1232
unplacedn/an/an/a15,567

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
AllAssembled molecule2,962,060,17917,5242,756,591,77752,956,880180,37692
Chromosome 1aAllAssembled moleculeUnlocalized scaffolds125,230,669122,973,6622,257,00792389117,352,001115,402,7171,949,28466,214,65466,214,65450,5956,8836,765118440
Chromosome 2AllAssembled moleculeUnlocalized scaffolds165,715,156163,208,4352,506,7211022100155,292,746153,182,5892,110,15784,938,89484,938,89450,78110,1239,998125330
Chromosome 3AllAssembled moleculeUnlocalized scaffolds159,283,736157,873,7691,409,96764361150,404,205149,058,9131,345,29285,836,75985,836,75953,4438,0768,01561440
Chromosome 4AllAssembled moleculeUnlocalized scaffolds155,838,434152,096,3933,742,04181279146,269,733143,156,9903,112,74375,007,67076,086,723126,0389,2019,050151330
Chromosome 5AllAssembled moleculeUnlocalized scaffolds145,115,714143,122,3891,993,32574371136,751,910134,901,1781,850,73275,969,84275,969,84260,7137,2717,18784440
Chromosome 6AllAssembled moleculeUnlocalized scaffolds123,131,874121,039,9452,091,92988286114,980,510113,147,2561,833,25478,289,90278,289,90250,3037,2667,142124330
Chromosome 7bAllAssembled moleculeUnlocalized scaffolds117,020,637115,148,7301,871,90774371109,409,098107,694,5491,714,54967,069,22367,069,22359,8106,9716,863108440
Chromosome 8AllAssembled moleculeUnlocalized scaffolds118,810,995117,381,2341,429,76164262110,813,190109,537,6041,275,58666,894,01366,894,01352,3028,1578,06988330
Chromosome 9AllAssembled moleculeUnlocalized scaffolds119,739,704118,206,0361,533,66856254113,525,711112,037,1761,488,53580,956,25780,956,25752,1345,6435,58558330
Chromosome 10AllAssembled moleculeUnlocalized scaffolds109,688,956106,955,8552,733,101144314199,606,17297,325,1232,281,04938,750,07438,750,07437,06410,1349,890244440
Chromosome 11AllAssembled moleculeUnlocalized scaffolds124,855,985123,690,4571,165,52869267117,505,297116,533,276972,02162,219,96262,219,96235,3315,8105,73080330
Chromosome 12AllAssembled moleculeUnlocalized scaffolds110,702,369109,391,0731,311,29652250103,445,533102,355,5581,089,97555,432,19355,432,19363,8926,6556,60451330
Chromosome 13AllAssembled moleculeUnlocalized scaffolds111,804,714110,113,0931,691,62173271104,340,182102,840,2411,499,94169,564,75669,564,75657,5557,6787,577101330
Chromosome 14AllAssembled moleculeUnlocalized scaffolds100,336,52594,967,0815,369,44410359891,643,67187,513,1084,130,56326,445,37526,445,375361,2767,0286,654374660
Chromosome 15AllAssembled moleculeUnlocalized scaffolds111,685,687110,690,730994,95748246104,955,090104,137,974817,11663,398,71163,398,71154,6836,0305,98248330
Chromosome 16AllAssembled moleculeUnlocalized scaffolds101,088,279100,215,132873,1474924795,289,14494,472,844816,30062,503,11262,503,11235,1544,8154,76253330
Chromosome 17AllAssembled moleculeUnlocalized scaffolds102,492,77499,891,9812,600,793120311792,402,47690,426,3751,976,10151,061,57451,061,57454,8628,7028,445257440
Chromosome 18AllAssembled moleculeUnlocalized scaffolds106,525,647104,879,5491,646,0987557098,929,92197,583,1391,346,78221,337,76421,337,76446,3626,7146,595119660
Chromosome 19AllAssembled moleculeUnlocalized scaffolds83,728,52781,552,6782,175,8496936676,725,07474,742,9881,982,08636,424,67136,424,67194,1006,4526,271181440
Chromosome 20AllAssembled moleculeUnlocalized scaffolds86,256,79285,365,473891,3193933680,706,22979,887,695818,53446,903,07446,903,07440,2494,5214,49427440
Chromosome 21AllAssembled moleculeUnlocalized scaffolds88,082,42386,207,4231,875,0005344982,341,28480,664,9571,676,32728,017,68328,017,683118,9654,1694,09574550
Chromosome 22aAllAssembled moleculeUnlocalized scaffolds134,240,221133,034,5391,205,68259257126,628,334125,582,5671,045,76787,010,45587,010,45548,3117,5927,53557330
Chromosome 23AllAssembled moleculeUnlocalized scaffolds34,726,70934,552,619174,0901621431,869,50931,706,979162,53030,488,35630,488,35614,7191,9571,94611330
Chromosome 24AllAssembled moleculeUnlocalized scaffolds29,897,24228,733,2881,163,9544214126,217,94425,240,190977,75427,732,28827,732,288187,1993,5893,50188220
Chromosome 25AllAssembled moleculeUnlocalized scaffolds33,265,54432,716,333549,2111711630,667,83830,323,144344,69431,715,33331,715,33384,1201,8891,87415220
Chromosome XAllAssembled moleculeUnlocalized scaffolds148,279,508141,252,1487,027,3602342232137,701,668132,218,0215,483,647106,279,408106,279,40868,6817,9767,634342330
unplacedAssembled molecule114,515,35815,567100,817,3077,5699,0740
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