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bPoeAtr1.hap1

Organism name:
Poecile atricapillus (Black-capped chickadee)
Isolate:
bPoeAtr1
Sex:
female
BioSample:
SAMN35074507
BioProject:
PRJNA972429
Submitter:
Vertebrate Genomes Project
Date:
2023/07/18
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_030490865.1 (latest)
RefSeq assembly accession:
GCF_030490865.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JAUKOI01
Assembly method:
Hifiasm + Hi-C phasing v. 0.16.1-r375; Bionano Solve v. 3.7; salsa v. 2.0
Expected final version:
no
Genome coverage:
40.0x
Sequencing technology:
PacBio Sequel II HiFi; Bionano DLS; Arima Hi-C v2

IDs: 17641581 [UID] 45213928 [GenBank] 46329108 [RefSeq]

See Genome Information for Poecile atricapillus

Pathogen Detection Resources

There are 4 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length1,251,133,642
Total ungapped length1,250,174,694
Gaps between scaffolds0
Number of scaffolds307
Scaffold N50107,919,339
Scaffold L505
Number of contigs710
Contig N508,462,732
Contig L5044
Total number of chromosomes and plasmids42
Number of component sequences (WGS or clone)307

Supplemental Content

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Assembly Information

Related Information

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_030490885.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM059930.1=NC_081249.10
Chromosome 2CM059931.1=NC_081250.10
Chromosome 3CM059932.1=NC_081251.13
Chromosome 4CM059933.1=NC_081252.10
Chromosome 5CM059934.1=NC_081253.10
Chromosome 6CM059935.1=NC_081254.10
Chromosome 7CM059936.1=NC_081255.10
Chromosome 8CM059937.1=NC_081256.10
Chromosome 9CM059938.1=NC_081257.10
Chromosome 10CM059939.1=NC_081258.10
Chromosome 11CM059940.1=NC_081259.10
Chromosome 12CM059941.1=NC_081260.10
Chromosome 13CM059942.1=NC_081261.10
Chromosome 14CM059943.1=NC_081262.10
Chromosome 15CM059944.1=NC_081263.10
Chromosome 16CM059945.1=NC_081264.10
Chromosome 17CM059946.1=NC_081265.10
Chromosome 18CM059947.1=NC_081266.10
Chromosome 19CM059948.1=NC_081267.10
Chromosome 20CM059949.1=NC_081268.10
Chromosome 21CM059950.1=NC_081269.10
Chromosome 22CM059951.1=NC_081270.10
Chromosome 23CM059952.1=NC_081271.10
Chromosome 24CM059953.1=NC_081272.10
Chromosome 25CM059954.1=NC_081273.10
Chromosome 26CM059955.1=NC_081274.12
Chromosome 27CM059956.1=NC_081275.10
Chromosome 28CM059957.1=NC_081276.10
Chromosome 29CM059958.1=NC_081277.10
Chromosome 30CM059959.1=NC_081278.13
Chromosome 31CM059960.1=NC_081279.11
Chromosome 32CM059961.1=NC_081280.17
Chromosome 33CM059962.1=NC_081281.10
Chromosome 34CM059963.1=NC_081282.10
Chromosome 35CM059964.1=NC_081283.12
Chromosome 36CM059965.1=NC_081284.110
Chromosome 37CM059966.1=NC_081285.10
Chromosome 38CM059967.1=NC_081286.10
Chromosome 39CM059968.1=NC_081287.12
Chromosome WCM059969.1=NC_081288.10
Chromosome ZCM059970.1=NC_081289.10
unplacedn/an/an/a235

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,251,116,8773061,250,157,952107,919,3394020
Chromosome 1Assembled molecule181,565,3731181,423,618181,565,373380
Chromosome 2Assembled molecule154,671,7241154,489,606154,671,724400
Chromosome 3AllAssembled moleculeUnlocalized scaffolds117,068,066116,923,551144,515413116,896,774116,752,259144,515116,923,551116,923,55148,21624240000
Chromosome 4Assembled molecule76,764,739176,719,70076,764,73970
Chromosome 5Assembled molecule44,576,727144,575,32744,576,72770
Chromosome 6Assembled molecule38,686,103138,675,74838,686,10340
Chromosome 7Assembled molecule34,399,279134,382,15234,399,27980
Chromosome 8Assembled molecule27,350,143127,349,94327,350,14310
Chromosome 9Assembled molecule24,498,529124,497,92924,498,52930
Chromosome 10Assembled molecule21,971,825121,971,32721,971,82520
Chromosome 11Assembled molecule21,741,905121,741,90521,741,90500
Chromosome 12Assembled molecule20,473,426120,454,11020,473,42630
Chromosome 13Assembled molecule18,739,943118,735,11418,739,94320
Chromosome 14Assembled molecule17,245,818117,238,88117,245,81830
Chromosome 15Assembled molecule16,583,650116,580,85716,583,65010
Chromosome 16Assembled molecule14,908,613114,902,50514,908,61350
Chromosome 17Assembled molecule12,036,971112,035,51112,036,97110
Chromosome 18Assembled molecule11,666,385111,662,62911,666,38530
Chromosome 19Assembled molecule11,509,110111,508,91011,509,11010
Chromosome 20Assembled molecule11,236,730111,236,73011,236,73000
Chromosome 21Assembled molecule10,923,279110,923,07910,923,27910
Chromosome 22Assembled molecule8,292,98318,285,2688,292,98350
Chromosome 23Assembled molecule7,550,07317,549,6607,550,07330
Chromosome 24Assembled molecule7,325,76817,325,7687,325,76800
Chromosome 25Assembled molecule7,229,78217,224,0787,229,78240
Chromosome 26AllAssembled moleculeUnlocalized scaffolds7,224,3227,054,485169,8373127,222,1227,052,485169,6377,054,4857,054,48592,95611101000
Chromosome 27Assembled molecule6,453,00916,452,7966,453,00920
Chromosome 28Assembled molecule6,407,12616,391,9846,407,12640
Chromosome 29Assembled molecule5,361,31015,360,5105,361,31040
Chromosome 30AllAssembled moleculeUnlocalized scaffolds4,985,0044,730,662254,3424134,982,6044,728,462254,1424,730,6624,730,66281,08712111000
Chromosome 31AllAssembled moleculeUnlocalized scaffolds4,667,5994,556,299111,3002114,665,5994,554,299111,3004,556,2994,556,299111,30010100000
Chromosome 32AllAssembled moleculeUnlocalized scaffolds4,643,6014,032,282611,3198174,642,2014,031,082611,1194,032,2824,032,28291,010761000
Chromosome 33Assembled molecule4,328,67814,326,2784,328,678120
Chromosome 34Assembled molecule3,876,95213,875,1523,876,95290
Chromosome 35AllAssembled moleculeUnlocalized scaffolds3,812,9513,535,258277,6933123,810,9513,533,458277,4933,535,2583,535,258191,5561091000
Chromosome 36AllAssembled moleculeUnlocalized scaffolds3,426,3281,848,6391,577,689111103,425,7281,848,6391,577,0891,848,6391,848,639186,089303000
Chromosome 37Assembled molecule3,420,23113,417,6313,420,231130
Chromosome 38Assembled molecule3,120,82213,120,8223,120,82200
Chromosome 39AllAssembled moleculeUnlocalized scaffolds1,745,2851,644,217101,0683121,742,4851,641,417101,0681,644,2171,644,21773,51714140000
Chromosome WAssembled molecule107,919,3391107,840,904107,919,339600
Chromosome ZAssembled molecule146,584,2611146,370,341146,584,261630
unplacedAssembled molecule14,123,11523514,122,71565,30120
MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
Mitochondrion MT16,765116,74216,76510