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bAmmCau1.pri

Organism name:
Ammospiza caudacuta (birds)
Isolate:
bAmmCau1
Sex:
female
BioSample:
SAMN28421630
BioProject:
PRJNA839452
Submitter:
Vertebrate Genomes Project
Date:
2023/01/18
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_027887145.1 (latest)
RefSeq assembly accession:
GCF_027887145.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAQIHB01
Assembly method:
HiFiasm v. 0.15.4 + galaxy0; purge_dups v. 1.2.5 + galaxy3; solve v. 3.6.1 + galaxy2; salsa v. 2.3 + galaxy2
Expected final version:
no
Genome coverage:
34.18x
Sequencing technology:
PacBio Sequel II HiFi; Bionano Genomics DLS; Arima Hi-C v2
Linked assembly:
GCA_027887135.1 (alternate pseudohaplotype of diploid)

IDs: 15455931 [UID] 39762368 [GenBank] 44997338 [RefSeq]

See Genome Information for Ammospiza caudacuta

Pathogen Detection Resources

There are 2 assemblies for this organism

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History (Show revision history)

Comment

Orientation is uncertain for chromosome 7 0-6.79mb

Global statistics

Total sequence length1,241,209,685
Total ungapped length1,238,290,578
Gaps between scaffolds0
Number of scaffolds282
Scaffold N5078,443,464
Scaffold L506
Number of contigs645
Contig N508,252,193
Contig L5039
Total number of chromosomes and plasmids40
Number of component sequences (WGS or clone)282

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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
Assembly Unit: Primary Assembly (GCF_027887225.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM051183.1=NC_080593.10
Chromosome 2CM051184.1=NC_080594.10
Chromosome 3CM051185.1=NC_080595.10
Chromosome 4CM051186.1=NC_080596.10
Chromosome 5CM051187.1=NC_080597.10
Chromosome 6CM051188.1=NC_080598.10
Chromosome 7CM051189.1=NC_080599.10
Chromosome 8CM051190.1=NC_080600.10
Chromosome 9CM051191.1=NC_080601.10
Chromosome 10CM051192.1=NC_080602.10
Chromosome 11CM051193.1=NC_080603.10
Chromosome 12CM051194.1=NC_080604.10
Chromosome 13CM051195.1=NC_080605.10
Chromosome 14CM051196.1=NC_080606.10
Chromosome 15CM051197.1=NC_080607.10
Chromosome 16CM051198.1=NC_080608.10
Chromosome 17CM051199.1=NC_080609.10
Chromosome 18CM051200.1=NC_080610.10
Chromosome 19CM051201.1=NC_080611.10
Chromosome 20CM051202.1=NC_080612.10
Chromosome 21CM051203.1=NC_080613.10
Chromosome 22CM051204.1=NC_080614.10
Chromosome 23CM051205.1=NC_080615.10
Chromosome 24CM051206.1=NC_080616.10
Chromosome 25CM051207.1=NC_080617.10
Chromosome 26CM051208.1=NC_080618.10
Chromosome 27CM051209.1=NC_080619.10
Chromosome 28CM051210.1=NC_080620.10
Chromosome 29CM051211.1=NC_080621.10
Chromosome 30CM051212.1=NC_080622.10
Chromosome 31CM051213.1=NC_080623.10
Chromosome 32CM051214.1=NC_080624.10
Chromosome 33CM051215.1=NC_080625.10
Chromosome 34CM051216.1=NC_080626.10
Chromosome 35CM051217.1=NC_080627.12
Chromosome 36CM051218.1=NC_080628.10
Chromosome 37CM051219.1=NC_080629.10
Chromosome 38CM051220.1=NC_080630.12
Chromosome 39CM051221.1=NC_080631.10
Chromosome ZCM051222.1=NC_080632.10
unplacedn/an/an/a238

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,241,209,6852821,238,290,57878,443,4643630
Chromosome 1Assembled molecule157,152,8551156,988,270157,152,855300
Chromosome 2Assembled molecule122,006,7111121,899,663122,006,711300
Chromosome 3Assembled molecule119,294,5321119,249,719119,294,532250
Chromosome 4Assembled molecule78,532,051178,459,81778,532,05190
Chromosome 5Assembled molecule78,443,464178,403,56878,443,464150
Chromosome 6Assembled molecule66,577,810166,556,02866,577,810120
Chromosome 7Assembled molecule48,796,610148,794,55848,796,61070
Chromosome 8Assembled molecule44,359,421144,350,38344,359,421110
Chromosome 9Assembled molecule39,273,983139,267,48439,273,98360
Chromosome 10Assembled molecule28,492,116128,492,09028,492,11620
Chromosome 11Assembled molecule28,002,281127,996,92828,002,28140
Chromosome 12Assembled molecule22,576,299122,573,06022,576,29910
Chromosome 13Assembled molecule22,481,186122,476,53622,481,18640
Chromosome 14Assembled molecule20,337,689120,332,52220,337,68920
Chromosome 15Assembled molecule19,942,864119,941,48819,942,86420
Chromosome 16Assembled molecule18,829,917118,825,68618,829,91730
Chromosome 17Assembled molecule17,718,754117,705,83417,718,75410
Chromosome 18Assembled molecule15,993,217115,990,27815,993,21740
Chromosome 19Assembled molecule13,147,743113,118,19713,147,74370
Chromosome 20Assembled molecule12,882,169112,878,33812,882,16930
Chromosome 21Assembled molecule12,454,605112,252,14412,454,60540
Chromosome 22Assembled molecule10,553,010110,549,74310,553,01020
Chromosome 23Assembled molecule9,378,70419,243,8729,378,70440
Chromosome 24Assembled molecule8,927,69118,688,0388,927,69180
Chromosome 25Assembled molecule8,120,54418,120,0448,120,54410
Chromosome 26Assembled molecule8,025,70617,949,6208,025,70650
Chromosome 27Assembled molecule7,633,12417,627,7867,633,12420
Chromosome 28Assembled molecule6,574,56716,574,0416,574,56730
Chromosome 29Assembled molecule6,473,97716,455,0026,473,977110
Chromosome 30Assembled molecule5,774,74015,773,7405,774,74020
Chromosome 31Assembled molecule5,330,32715,328,3275,330,32770
Chromosome 32Assembled molecule4,945,60114,940,2014,945,601150
Chromosome 33Assembled molecule4,849,41614,490,0144,849,416140
Chromosome 34Assembled molecule4,512,74914,128,6634,512,74970
Chromosome 35AllAssembled moleculeUnlocalized scaffolds2,690,2962,596,54293,7543122,619,5642,525,81093,7542,596,5422,596,54251,867990000
Chromosome 36Assembled molecule2,074,68312,071,0832,074,68390
Chromosome 37Assembled molecule1,203,31011,201,4101,203,31050
Chromosome 38AllAssembled moleculeUnlocalized scaffolds1,160,9551,088,61672,3393121,158,8551,086,51672,3391,088,6161,088,61639,931660000
Chromosome 39Assembled molecule884,5481882,848884,54840
Chromosome ZAssembled molecule88,477,388188,143,75988,477,388580
unplacedAssembled molecule66,322,07223865,791,377502,10890