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bTaeGut1.pri.v2

Organism name:
Taeniopygia guttata (zebra finch)
Isolate:
Black17
Sex:
male
BioSample:
SAMN02981239
BioProject:
PRJNA489098
Submitter:
Vertebrate Genomes Project
Date:
2020/10/02
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_003957565.3 (replaced)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
RRCB01
Assembly method:
FALCON v. 5.1.1; FALCON unzip v. 1.0.2; scaff10X v. git 4.28.2018; Bionano Solve v. BspQI/BssSI 3.2.1; Salsa2 v. HiC 2.0; smrtanalysis Arrow polishing & gap filling v. 5.1.0.26412; longranger align v. 2.2.2; freebayes v. 1.2.0; purge_haplotigs v. bit 7.10.2018; gEVAL manual curation v. 2018-09-07
Expected final version:
no
Genome coverage:
88.2x
Sequencing technology:
PacBio RSII; 10X Genomics linked reads; Bionano Genomics DLS; Arima Genomics HiC

IDs: 8220751 [UID] 22448748 [GenBank]

See Genome Information for Taeniopygia guttata

Pathogen Detection Resources

There are 15 assemblies for this organism

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History (Show revision history)

Comment

This assembly represents the primary haplotype of the diploid genome Taeniopygia guttata and includes the chromosomes. The alternate haplotype sequences are in WGS project RRCC00000000.
In May 2019 the mitochondrial sequence (RRCB01000135) was added to this 01 version of RRCB00000000.
In ... October 2020 chromosomes 31-35 (CM025860-CM025865) were identified within the sequences of this 01 version of RRCB00000000 and the assembly name was updated to bTaeGut1.pri.v2.  more

Global statistics

Total sequence length1,058,012,133
Total ungapped length1,055,677,902
Gaps between scaffolds0
Number of scaffolds135
Scaffold N5070,430,603
Scaffold L506
Number of contigs444
Contig N5011,998,827
Contig L5022
Total number of chromosomes and plasmids40
Number of component sequences (WGS or clone)135

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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 (GCA_003957595.2)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM012081.1=NC_044211.10
Chromosome 1ACM012082.1=NC_044212.11
Chromosome 2CM012083.1=NC_044213.12
Chromosome 3CM012084.1=NC_044214.11
Chromosome 4CM012085.1=NC_044215.10
Chromosome 4ACM012086.1=NC_044216.10
Chromosome 5CM012087.1=NC_044217.11
Chromosome 6CM012088.1=NC_044218.10
Chromosome 7CM012089.1=NC_044219.10
Chromosome 8CM012090.1=NC_044220.10
Chromosome 9CM012091.1=NC_044221.10
Chromosome 10CM012092.1=NC_044222.10
Chromosome 11CM012093.1=NC_044223.11
Chromosome 12CM012094.1=NC_044224.10
Chromosome 13CM012095.1=NC_044225.10
Chromosome 14CM012096.1=NC_044226.10
Chromosome 15CM012097.1=NC_044227.10
Chromosome 16CM012098.1=NC_044228.11
Chromosome 17CM012099.1=NC_044229.10
Chromosome 18CM012100.1=NC_044230.10
Chromosome 19CM012101.1=NC_044231.10
Chromosome 20CM012102.1=NC_044232.10
Chromosome 21CM012103.1=NC_044233.10
Chromosome 22CM012104.1=NC_044234.10
Chromosome 23CM012105.1=NC_044235.10
Chromosome 24CM012106.1=NC_044236.10
Chromosome 25CM012107.1=NC_044237.10
Chromosome 26CM012108.1=NC_044238.11
Chromosome 27CM012110.1=NC_044239.10
Chromosome 28CM012112.1=NC_044240.10
Chromosome ZCM012113.1=NC_044241.10
Chromosome 29CM012109.1=NC_044242.11
Chromosome 30CM012111.1=NC_044243.10
Chromosome 31CM025860.1n/an/a1
Chromosome 32CM025861.1n/an/a0
Chromosome 33CM025862.1n/an/a0
Chromosome 34CM025863.1n/an/a1
Chromosome 35CM025864.1n/an/a2
Chromosome 36CM025865.1n/an/a0
unplacedn/an/an/a82

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,057,995,2801341,055,661,04970,430,6033090
Chromosome 1Assembled molecule114,557,4151114,492,779114,557,415120
Chromosome 1AAllAssembled moleculeUnlocalized scaffolds72,109,23270,430,6031,678,62921171,999,31470,429,3911,569,92370,430,60370,430,6031,678,629853000
Chromosome 2AllAssembled moleculeUnlocalized scaffolds152,411,694150,688,7991,722,895312152,300,461150,580,8871,719,574150,688,799150,688,7991,587,67228208000
Chromosome 3AllAssembled moleculeUnlocalized scaffolds113,723,694113,228,359495,335211113,720,585113,226,750493,835113,228,359113,228,359495,33513103000
Chromosome 4Assembled molecule71,552,918171,551,38671,552,91890
Chromosome 4AAssembled molecule19,824,313119,824,10219,824,31330
Chromosome 5AllAssembled moleculeUnlocalized scaffolds62,318,54462,005,366313,17821162,316,92362,004,245312,67862,005,36662,005,366313,1781091000
Chromosome 6Assembled molecule35,665,034135,619,29035,665,03450
Chromosome 7Assembled molecule38,060,014138,059,01838,060,01440
Chromosome 8Assembled molecule32,610,028132,569,39232,610,02870
Chromosome 9Assembled molecule25,575,665125,571,27925,575,66540
Chromosome 10Assembled molecule22,017,011122,016,95922,017,01140
Chromosome 11AllAssembled moleculeUnlocalized scaffolds21,384,94321,012,354372,58921121,311,42020,938,831372,58921,012,35421,012,354372,589330000
Chromosome 12Assembled molecule20,435,652120,399,59120,435,65210
Chromosome 13Assembled molecule18,281,482118,280,86918,281,48240
Chromosome 14Assembled molecule16,673,467116,673,45416,673,46710
Chromosome 15Assembled molecule14,326,562114,326,52314,326,56230
Chromosome 16AllAssembled moleculeUnlocalized scaffolds1,460,9441,219,933241,0112111,460,2511,219,240241,0111,219,9331,219,933241,011330000
Chromosome 17Assembled molecule11,687,202111,686,67711,687,20260
Chromosome 18Assembled molecule11,044,519111,021,41011,044,51930
Chromosome 19Assembled molecule8,580,90618,580,5938,580,90640
Chromosome 20Assembled molecule15,678,767115,678,14115,678,76740
Chromosome 21Assembled molecule8,891,56318,891,5138,891,56340
Chromosome 22Assembled molecule5,497,28915,497,2655,497,28920
Chromosome 23Assembled molecule6,829,92216,829,7226,829,92210
Chromosome 24Assembled molecule7,666,38517,659,2957,666,38530
Chromosome 25Assembled molecule3,022,30313,022,1033,022,30310
Chromosome 26AllAssembled moleculeUnlocalized scaffolds7,306,2396,859,188447,0512117,306,0396,858,988447,0516,859,1886,859,188447,051110000
Chromosome 27Assembled molecule5,426,59715,408,6775,426,59730
Chromosome 28Assembled molecule6,094,60816,055,8296,094,60850
Chromosome ZAssembled molecule75,459,706174,718,65175,459,706250
Chromosome 29AllAssembled moleculeUnlocalized scaffolds4,331,5064,210,262121,2442114,330,4944,209,250121,2444,210,2624,210,262121,244660000
Chromosome 30Assembled molecule6,068,15016,061,8616,068,150190
Chromosome 31AllAssembled moleculeUnlocalized scaffolds3,187,6843,082,989104,6952113,181,3003,077,602103,6983,082,9893,082,989104,69516142000
Chromosome 32Assembled molecule2,911,36312,907,8722,911,363110
Chromosome 33Assembled molecule2,037,63012,033,5402,037,63090
Chromosome 34AllAssembled moleculeUnlocalized scaffolds2,020,4021,283,594736,8082112,017,6191,280,911736,7081,283,5941,283,594736,808871000
Chromosome 35AllAssembled moleculeUnlocalized scaffolds1,779,836842,684937,1523121,775,648841,091934,557842,684842,684878,7521046000
Chromosome 36Assembled molecule1,556,94211,554,9501,556,94240
unplacedAssembled molecule7,927,149826,948,254195,830420
MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
Mitochondrion MT16,853116,85316,85300