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bHaeMex1.pri

Organism name:
Haemorhous mexicanus (house finch)
Isolate:
bHaeMex1
Sex:
female
BioSample:
SAMN28453576
BioProject:
PRJNA839499
Submitter:
Vertebrate Genomes Project
Date:
2022/12/29
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_027477595.1 (latest)
RefSeq assembly accession:
GCF_027477595.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JAPYKC01
Assembly method:
HiFiasm v. 0.15.4 + galaxy; purge_dups v. 1.2.5 + galaxy3; Bionano Solve v. 3.6.1 + galaxy2; Salsa v. 2.3 + galaxy0
Expected final version:
no
Genome coverage:
36.85x
Sequencing technology:
PacBio Sequel II HiFi; Bionano Genomics DLS; Arima Hi-C v2
Linked assembly:
GCA_027406555.1 (alternate pseudohaplotype of diploid)

IDs: 15210331 [UID] 39182678 [GenBank] 47593938 [RefSeq]

See Genome Information for Haemorhous mexicanus

Pathogen Detection Resources

There are 2 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length1,148,233,018
Total ungapped length1,137,025,873
Gaps between scaffolds0
Number of scaffolds184
Scaffold N5077,212,160
Scaffold L506
Number of contigs479
Contig N5016,787,335
Contig L5022
Total number of chromosomes and plasmids42
Number of component sequences (WGS or clone)184

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_027477605.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM050224.1=NC_082341.10
Chromosome 2CM050225.1=NC_082342.10
Chromosome 3CM050226.1=NC_082343.15
Chromosome 4CM050227.1=NC_082344.10
Chromosome 5CM050228.1=NC_082345.11
Chromosome 6CM050229.1=NC_082346.10
Chromosome 7CM050230.1=NC_082347.10
Chromosome 8CM050231.1=NC_082348.10
Chromosome 9CM050232.1=NC_082349.10
Chromosome 10CM050233.1=NC_082350.10
Chromosome 11CM050234.1=NC_082351.10
Chromosome 12CM050235.1=NC_082352.10
Chromosome 13CM050236.1=NC_082353.10
Chromosome 14CM050237.1=NC_082354.10
Chromosome 15CM050238.1=NC_082355.10
Chromosome 16CM050239.1=NC_082356.10
Chromosome 17CM050240.1=NC_082357.10
Chromosome 18CM050241.1=NC_082358.10
Chromosome 19CM050242.1=NC_082359.10
Chromosome 20CM050243.1=NC_082360.10
Chromosome 21CM050244.1=NC_082361.10
Chromosome 22CM050245.1=NC_082362.10
Chromosome 23CM050246.1=NC_082363.10
Chromosome 24CM050247.1=NC_082364.10
Chromosome 25CM050248.1=NC_082365.10
Chromosome 26CM050249.1=NC_082366.10
Chromosome 27CM050250.1=NC_082367.10
Chromosome 28CM050251.1=NC_082368.10
Chromosome 29CM050252.1=NC_082369.11
Chromosome 30CM050253.1=NC_082370.10
Chromosome 31CM050254.1=NC_082371.10
Chromosome 32CM050255.1=NC_082372.15
Chromosome 33CM050256.1=NC_082373.10
Chromosome 34CM050257.1=NC_082374.10
Chromosome 35CM050258.1=NC_082375.16
Chromosome 36CM050259.1=NC_082376.11
Chromosome 37CM050260.1=NC_082377.10
Chromosome 38CM050261.1=NC_082378.10
Chromosome 39CM050262.1=NC_082379.12
Chromosome WCM050263.1=NC_082380.10
Chromosome ZCM050264.1=NC_082381.10
unplacedn/an/an/a121

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,148,216,1961831,137,009,05177,212,1602950
Chromosome 1Assembled molecule159,305,0151159,281,230159,305,015280
Chromosome 2Assembled molecule122,820,3851122,812,537122,820,38590
Chromosome 3AllAssembled moleculeUnlocalized scaffolds121,870,360118,570,4363,299,924615118,908,173115,608,2493,299,924118,570,436118,570,4362,621,44413130000
Chromosome 4Assembled molecule78,191,299178,184,39678,191,29980
Chromosome 5AllAssembled moleculeUnlocalized scaffolds77,287,65577,212,16075,49521177,096,15477,020,65975,49577,212,16077,212,16075,495770000
Chromosome 6Assembled molecule66,865,462166,834,24766,865,46250
Chromosome 7Assembled molecule42,994,098142,993,89842,994,09810
Chromosome 8Assembled molecule31,663,447131,661,55531,663,44710
Chromosome 9Assembled molecule31,627,783131,283,13831,627,78310
Chromosome 10Assembled molecule26,782,592126,779,47426,782,59220
Chromosome 11Assembled molecule24,390,514124,378,66124,390,51420
Chromosome 12Assembled molecule22,991,849122,987,05222,991,84910
Chromosome 13Assembled molecule22,531,087122,229,78222,531,08710
Chromosome 14Assembled molecule20,964,063120,963,86320,964,06310
Chromosome 15Assembled molecule18,320,441118,320,44118,320,44100
Chromosome 16Assembled molecule17,439,200116,808,91617,439,200160
Chromosome 17Assembled molecule16,812,747116,809,79416,812,74730
Chromosome 18Assembled molecule15,922,158115,921,95815,922,15810
Chromosome 19Assembled molecule14,260,284114,257,83314,260,28420
Chromosome 20Assembled molecule13,168,035113,165,83613,168,03540
Chromosome 21Assembled molecule11,671,694111,668,94011,671,69410
Chromosome 22Assembled molecule11,661,466111,658,98411,661,46610
Chromosome 23Assembled molecule8,355,88918,355,6768,355,88920
Chromosome 24Assembled molecule7,938,74917,938,7497,938,74900
Chromosome 25Assembled molecule7,043,78417,039,6537,043,78420
Chromosome 26Assembled molecule6,997,00216,813,7016,997,00220
Chromosome 27Assembled molecule6,949,11316,948,2136,949,11330
Chromosome 28Assembled molecule6,497,94716,495,1476,497,94780
Chromosome 29AllAssembled moleculeUnlocalized scaffolds6,324,1356,273,06251,0732116,319,5076,268,43451,0736,273,0626,273,06251,073330000
Chromosome 30Assembled molecule5,329,70315,329,0035,329,70320
Chromosome 31Assembled molecule4,544,39514,540,8954,544,395100
Chromosome 32AllAssembled moleculeUnlocalized scaffolds4,110,7323,311,729799,0036154,098,4623,302,459796,0033,311,7293,311,729247,436826000
Chromosome 33Assembled molecule2,792,06912,786,6692,792,069150
Chromosome 34Assembled molecule2,156,86912,150,5692,156,869180
Chromosome 35AllAssembled moleculeUnlocalized scaffolds1,837,7371,131,694706,0437161,829,9371,126,394703,5431,131,6941,131,694123,36618135000
Chromosome 36AllAssembled moleculeUnlocalized scaffolds1,360,2611,285,79874,4632111,351,8611,277,39874,4631,285,7981,285,79874,46321210000
Chromosome 37Assembled molecule1,251,64411,247,8441,251,644100
Chromosome 38Assembled molecule777,6911773,791777,691120
Chromosome 39AllAssembled moleculeUnlocalized scaffolds711,722616,51695,206312710,022614,81695,206616,516616,51649,281770000
Chromosome WAssembled molecule9,455,35519,431,2679,455,35520
Chromosome ZAssembled molecule89,315,722182,924,68089,315,722290
unplacedAssembled molecule4,924,0431214,916,54345,565150
MoleculeTotal
Length
Mitochondrion MT16,822