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bGruAme1.mat

Organism name:
Grus americana (Whooping crane)
Isolate:
bGruAme1
Sex:
male
BioSample:
SAMN32775697
BioProject:
PRJNA924953
Submitter:
Vertebrate Genomes Project
Date:
2023/02/24
Assembly type:
haploid (maternal haplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_028858705.1 (latest)
RefSeq assembly accession:
GCF_028858705.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JARBUS01
Assembly method:
TrioCanu v. 2.1; purge_dups v. 1.0.0; Scaff 10x v. 4.1.0; salsa v. 2.2; Arrow polishing & gap filling v. 2.0.2; Merfin polishing v. 1.0; Freebayes polishing v. 1.3.1
Expected final version:
no
Genome coverage:
232.6x
Sequencing technology:
PacBio Sequel II CLR; 10X Gemonics linked reads; Arima Hi-C v1; Bionano DLS
Linked assembly:
GCA_028858595.1 (paternal haplotype of diploid)

IDs: 16004271 [UID] 41069308 [GenBank] 41865038 [RefSeq]

See Genome Information for Grus americana

Pathogen Detection Resources

There are 4 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length1,257,837,975
Total ungapped length1,253,161,805
Gaps between scaffolds0
Number of scaffolds930
Scaffold N5082,903,739
Scaffold L505
Number of contigs1,191
Contig N5028,324,902
Contig L5011
Total number of chromosomes and plasmids41
Number of component sequences (WGS or clone)930

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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
non-nuclear
Assembly Unit: Primary Assembly (GCF_028858715.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM054305.1=NC_072852.10
Chromosome 2CM054306.1=NC_072853.10
Chromosome 3CM054307.1=NC_072854.11
Chromosome 4CM054308.1=NC_072855.10
Chromosome 5CM054309.1=NC_072856.10
Chromosome 6CM054310.1=NC_072857.10
Chromosome 7CM054311.1=NC_072858.10
Chromosome 8CM054312.1=NC_072859.10
Chromosome 9CM054313.1=NC_072860.10
Chromosome 10CM054314.1=NC_072861.13
Chromosome 11CM054315.1=NC_072862.10
Chromosome 12CM054316.1=NC_072863.10
Chromosome 13CM054317.1=NC_072864.10
Chromosome 14CM054318.1=NC_072865.10
Chromosome 15CM054319.1=NC_072866.10
Chromosome 16CM054320.1=NC_072867.12
Chromosome 17CM054321.1=NC_072868.10
Chromosome 18CM054322.1=NC_072869.10
Chromosome 19CM054323.1=NC_072870.10
Chromosome 20CM054324.1=NC_072871.10
Chromosome 21CM054325.1=NC_072872.10
Chromosome 22CM054326.1=NC_072873.10
Chromosome 23CM054327.1=NC_072874.10
Chromosome 24CM054328.1=NC_072875.10
Chromosome 25CM054329.1=NC_072876.10
Chromosome 26CM054330.1=NC_072877.13
Chromosome 27CM054331.1=NC_072878.114
Chromosome 28CM054332.1=NC_072879.10
Chromosome 29CM054333.1=NC_072880.10
Chromosome 30CM054334.1=NC_072881.17
Chromosome 31CM054335.1=NC_072882.10
Chromosome 32CM054336.1=NC_072883.18
Chromosome 33CM054337.1=NC_072884.10
Chromosome 34CM054338.1=NC_072885.13
Chromosome 35CM054339.1=NC_072886.10
Chromosome 36CM054340.1=NC_072887.10
Chromosome 37CM054341.1=NC_072888.13
Chromosome 38CM054342.1=NC_072889.11
Chromosome 39CM054343.1=NC_072890.10
Chromosome ZCM054344.1=NC_072891.10
unplacedn/an/an/a844

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,257,821,3249291,253,145,15482,903,7392610
Chromosome 1Assembled molecule219,868,3381219,827,266219,868,338130
Chromosome 2Assembled molecule169,576,3381169,354,043169,576,338170
Chromosome 3AllAssembled moleculeUnlocalized scaffolds126,410,211126,354,54855,663211126,409,785126,354,12255,663126,354,548126,354,54855,663440000
Chromosome 4Assembled molecule82,903,739182,903,33982,903,73920
Chromosome 5Assembled molecule71,429,449171,429,37271,429,44910
Chromosome 6Assembled molecule43,753,202143,752,88943,753,20230
Chromosome 7Assembled molecule41,636,128141,092,45741,636,12840
Chromosome 8Assembled molecule36,571,742136,386,83736,571,74260
Chromosome 9Assembled molecule29,554,108129,553,90829,554,10810
Chromosome 10AllAssembled moleculeUnlocalized scaffolds24,810,55424,657,738152,81641324,809,45424,656,638152,81624,657,73824,657,73846,359880000
Chromosome 11Assembled molecule24,535,929124,535,62924,535,92920
Chromosome 12Assembled molecule23,934,719123,934,71923,934,71900
Chromosome 13Assembled molecule23,241,324123,241,22423,241,32410
Chromosome 14Assembled molecule22,274,825122,218,14322,274,82560
Chromosome 15Assembled molecule19,134,714119,134,71419,134,71400
Chromosome 16AllAssembled moleculeUnlocalized scaffolds18,096,23317,983,681112,55231218,095,63317,983,081112,55217,983,68117,983,68157,408330000
Chromosome 17Assembled molecule17,853,208117,852,79517,853,20830
Chromosome 18Assembled molecule14,354,086114,353,18614,354,08650
Chromosome 19Assembled molecule13,183,500113,183,50013,183,50000
Chromosome 20Assembled molecule12,865,507112,865,50712,865,50700
Chromosome 21Assembled molecule9,559,83519,559,2369,559,83540
Chromosome 22Assembled molecule9,105,88919,024,8599,105,889100
Chromosome 23Assembled molecule8,480,83118,480,6318,480,83110
Chromosome 24Assembled molecule8,312,81518,312,4158,312,81520
Chromosome 25Assembled molecule7,705,04817,704,8487,705,04810
Chromosome 26AllAssembled moleculeUnlocalized scaffolds6,629,8726,287,166342,7064136,629,3726,286,666342,7066,287,1666,287,166132,531330000
Chromosome 27AllAssembled moleculeUnlocalized scaffolds6,604,3084,385,0722,219,236151146,151,3044,370,6201,780,6844,385,0724,385,0721,241,80321156000
Chromosome 28Assembled molecule6,477,07316,476,4736,477,07330
Chromosome 29Assembled molecule3,547,36513,546,9663,547,36530
Chromosome 30AllAssembled moleculeUnlocalized scaffolds3,218,9521,408,1271,810,8258173,157,9291,406,9091,751,0201,064,5231,408,1271,064,52319109000
Chromosome 31Assembled molecule3,116,04013,115,7433,116,04020
Chromosome 32AllAssembled moleculeUnlocalized scaffolds2,699,5372,287,669411,8689182,698,3412,286,473411,8682,287,6692,287,66953,620770000
Chromosome 33Assembled molecule1,824,24211,823,6431,824,24240
Chromosome 34AllAssembled moleculeUnlocalized scaffolds1,089,689514,131575,5584131,089,489513,931575,558310,163514,131310,163220000
Chromosome 35Assembled molecule1,053,97111,053,1351,053,97180
Chromosome 36Assembled molecule1,012,29411,011,5951,012,29440
Chromosome 37AllAssembled moleculeUnlocalized scaffolds747,257541,644205,613413747,160541,547205,613541,644541,644123,574110000
Chromosome 38AllAssembled moleculeUnlocalized scaffolds602,587565,89736,690211601,888565,19836,690565,897565,89736,690440000
Chromosome 39Assembled molecule548,6641548,264548,66420
Chromosome ZAssembled molecule87,566,084187,496,42287,566,08480
unplacedAssembled molecule51,931,11784448,981,04169,282730
MoleculeTotal
Length
Mitochondrion MT16,651