VGP - Vertebrate Genomes Project assembly hubs, assembly statistics

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This assembly hub contains assemblies released by the Vertebrate Genomes Project. (set of legacy/superseded assemblies)

See also: hub access, track statistics


Data resource links

NOTE: Click on the column headers to sort the table by that column
The link to genome browser will attach only that single assembly to the genome browser.
count common name
link to genome browser		 scientific name
and data download		 NCBI assembly sequence
count		genome size
nucleotides		 gap
count		unknown bases
(gap size sum)		masking
percent
1 African grass rat (paternal X 2020) Arvicanthis niloticus GCA_011762505.1_mArvNil1.pat.X 1,596 2,496,777,707 1,624 20,289,527 37.17
2 Atlantic halibut (genbank) Hippoglossus hippoglossus GCA_009819705.1_fHipHip1.pri 57 596,792,676 290 3,413,390 24.17
3 Anna's hummingbird Calypte anna GCF_003957555.1_bCalAnn1_v1.p 159 1,059,687,259 429 16,096,788 20.87
4 barn swallow (bHirRus1 v2 primary hap 2021 refseq) Hirundo rustica GCF_015227805.1_bHirRus1.pri.v2 617 1,105,955,550 1,102 25,534,411 21.06
5 black rhinoceros (mBicDic1 primary hap 2021 genbank) Diceros bicornis minor GCA_020826845.1_mDicBic1.mat.cur 1,075 3,005,519,209 215 1,368,861 40.15
6 black-legged kittiwake (bRisTri1.patW 2023 genbank) Rissa tridactyla GCA_028500815.1_bRisTri1.patW.cur.20221130 716 1,353,621,101 283 786,373 26.72
7 blue whale (JJ_BM4_2016_0621 v2 2020) Balaenoptera musculus GCA_009873245.2_mBalMus1.v2 130 2,380,012,384 936 25,929,252 43.78
8 blue whale (alternate hap JJ_BM4_2016_0621 2019) Balaenoptera musculus GCA_008658375.1_mBalMus1_alternate 12,574 1,876,085,767 0 0 43.51
9 blunt-snouted clingfish (v1 2019 genbank) Gouania willdenowi GCA_900634775.1_fGouWil2.1 441 937,150,793 1,160 14,353,515 42.93
10 blunt-snouted clingfish (v1 2019 refseq) Gouania willdenowi GCF_900634775.1_fGouWil2.1 441 937,150,793 1,160 14,353,515 42.93
11 Bornean orangutan (v1 AG05252 alternate hap 2023 genbank) Pongo pygmaeus GCA_028885525.1_NHGRI_mPonPyg2-v1.1-hic.freeze_alt 215 3,038,229,980 36 3,505,721 54.20
12 Bornean orangutan (v1 AG05252 primary hap 2023 refseq) Pongo pygmaeus GCF_028885625.1_NHGRI_mPonPyg2-v1.1-hic.freeze_pri 1,554 3,249,335,160 39 4,474,152 54.36
13 budgerigar Melopsittacus undulatus GCA_012275295.1_bMelUnd1.mat.Z 865 1,171,635,651 284 3,236,129 22.13
14 California sea lion (v1 2019) Zalophus californianus GCA_009762305.1_mZalCal1.pri 43 2,408,658,503 122 17,343,033 43.41
15 California sea lion (alternate hap 2019) Zalophus californianus GCA_009762295.1_mZalCal1.alt 3,093 1,970,798,971 0 0 42.94
16 Canada lynx (LIC74 v1 2019) Lynx canadensis GCF_007474595.1_mLynCan4_v1.p 66 2,408,883,772 848 2,778,737 43.75
17 Canada lynx (alternate hap LIC74 2019) Lynx canadensis GCA_007474575.1_mLynCan4_v1.alt 15,033 1,415,234,291 3 143 43.55
18 channel bull blenny Cottoperca gobio GCA_900634415.1_fCotGob3.1 322 609,391,784 445 2,553,975 28.72
19 chimpanzee (v1 AG18354 alternate hap 2023 genbank) Pan troglodytes GCA_028858805.1_NHGRI_mPanTro3-v1.1-hic.freeze_alt 119 3,015,383,096 22 6,632,458 48.80
20 chimpanzee (v1 AG18354 primary hap 2023 refseq) Pan troglodytes GCF_028858775.1_NHGRI_mPanTro3-v1.1-hic.freeze_pri 1,471 3,225,356,997 29 3,176,996 50.12
21 climbing perch (v1.2 2018 genbank) Anabas testudineus GCA_900324465.2_fAnaTes1.2 50 555,641,398 266 3,606,496 21.33
22 climbing perch (v1.2 2018 refseq) Anabas testudineus GCF_900324465.2_fAnaTes1.2 51 555,658,001 266 3,606,496 21.33
23 common brushtail (genbank 2020) Trichosurus vulpecula GCA_011100635.1_mTriVul1.pri 212 3,359,347,793 1,796 18,696,463 40.57
24 common bottlenose dolphin (maternal Y genbank 2020) Tursiops truncatus GCA_011762595.1_mTurTru1.mat.Y 362 2,378,522,214 674 6,222,516 46.05
25 common cuckoo (bCucCan1 primary hap 2021 genbank) Cuculus canorus GCA_017976375.1_bCucCan1.pri 151 1,180,156,273 296 4,922,315 21.81
26 common swift (bApuApu2 2021 genbank) Apus apus GCA_020740795.1_bApuApu2.pri.cur 109 1,100,361,224 256 1,747,529 21.21
27 denticle herring (v1 2019) Denticeps clupeoides GCF_900700375.1_fDenClu1.1 460 567,401,054 464 4,648,387 28.83
28 downy woodpecker (bDryPub1 primary hap 2020) Dryobates pubescens GCA_014839835.1_bDryPub1.pri 181 1,187,956,536 187 4,003,130 32.06
29 eastern happy (v2 2018) Astatotilapia calliptera GCF_900246225.1_fAstCal1.2 249 880,445,564 490 1,186,663 30.80
30 emu (v1 ZJU1.0 2020) Dromaius novaehollandiae GCA_016128335.1_ZJU1.0 802 1,247,468,792 512 46,323 19.17
31 epaulette shark (sHemOce1 2021 genbank) Hemiscyllium ocellatum GCA_020745735.1_sHemOce1.pat.X.cur. 1,963 3,983,483,121 3,716 77,564,682 43.90
32 Eurasian red squirrel (v1.1 2019) Sciurus vulgaris GCA_902686455.1_mSciVul1.1 638 2,878,591,032 1,177 163,358,994 33.78
33 Eurasian water vole (v1 2020) Arvicola amphibius GCF_903992535.1_mArvAmp1.1 216 2,297,765,997 872 6,026,660 32.43
34 European turtle dove (v1.1 primary hap 2019) Streptopelia turtur GCA_901699155.1_bStrTur1.1 357 1,178,928,410 894 3,876,374 21.07
35 European turtle dove Streptopelia turtur GCA_901699165.1_bStrTur1.1_alternate_haplotype 3,333 1,035,214,426 0 0 20.26
36 European woodmouse (2022 genbank) Apodemus sylvaticus GCA_947179515.1_mApoSyl1.1 498 2,889,801,511 1,129 225,617 40.60
37 flier cichlid Archocentrus centrarchus GCA_007364275.2_fArcCen1 189 932,947,025 744 16,903,477 30.69
38 Gabon caecilian Geotrypetes seraphini GCA_902459505.1_aGeoSer1.1 163 3,779,413,726 433 5,502,713 52.86
39 gilthead seabream (v1 2019) Sparus aurata GCF_900880675.1_fSpaAur1.1 176 833,595,063 1,050 342,268 25.72
40 golden eagle (2019) Aquila chrysaetos chrysaetos GCF_900496995.1_bAquChr1.2 142 1,203,454,851 191 4,639,807 19.26
41 golden eagle (v1.2 alternate hap 2019) Aquila chrysaetos chrysaetos GCA_902153765.1_bAquChr1.2_alternate_haplotype 3,860 823,060,160 39 561,510 19.26
42 greater horseshoe bat (v1 MPI-CBG 2019 genbank) Rhinolophus ferrumequinum GCA_004115265.2_mRhiFer1_v1.p 135 2,075,785,400 158 7,546,098 34.90
43 greater horseshoe bat (v1 MPI-CBG 2019 refseq) Rhinolophus ferrumequinum GCF_004115265.1_mRhiFer1_v1.p 134 2,075,768,562 158 7,546,098 34.90
44 greater pipefish Syngnathus acus GCA_901709675.1_fSynAcu1.1 87 324,331,233 43 13,700 25.95
45 green sea turtle (v1 2020) Chelonia mydas GCF_015237465.1_rCheMyd1.pri 99 2,134,593,249 294 11,959,915 31.97
46 Indian glassy fish (v1 2019) Parambassis ranga GCF_900634625.1_fParRan2.1 156 551,012,959 1,523 10,561,548 25.10
47 kakapo Strigops habroptila GCA_004027225.2_bStrHab1.2.pri 90 1,148,615,375 373 10,544,081 20.53
48 Korean giant-fin mudskipper (v1 primary hap 2020 genbank) Periophthalmus magnuspinnatus GCA_009829125.1_fPerMag1.pri 124 752,621,857 700 7,178,561 39.10
49 Korean giant-fin mudskipper (v1 primary hap 2020 refseq) Periophthalmus magnuspinnatus GCF_009829125.1_fPerMag1.pri 124 752,621,858 700 7,178,561 39.10
50 lanner falcon (bFalBia1 primary hap 2022 genbank) Falco biarmicus GCA_023638135.1_bFalBia1.pri 397 1,285,492,283 158 2,152,808 23.59
51 leatherback sea turtle (v1 2019 genbank G10K) Dermochelys coriacea GCA_009764565.1_rDerCor1.pri 55 2,165,403,198 558 5,729,700 34.13
52 leatherback sea turtle (v3 2020 refseq G10K) Dermochelys coriacea GCF_009764565.2_rDerCor1.pri.v3 40 2,164,762,090 667 5,594,612 34.21
53 leatherback sea turtle (v1 alternate hap 2020) Dermochelys coriacea GCA_009762595.1_rDerCor1.alt 8,982 1,443,623,898 0 0 33.04
54 lesser kestrel (v1 2021) Falco naumanni GCF_017639655.1_bFalNau1.pat 291 1,215,719,379 298 4,077,287 19.20
55 lesser rhea (bPtePen1 primary hap 2023 genbank) Rhea pennata GCA_028389875.1_bPtePen1.pri 179 1,269,000,025 128 1,451,673 22.80
56 live sharksucker (v1 2019) Echeneis naucrates GCF_900963305.1_fEcheNa1.1 38 544,229,245 140 599,356 21.82
57 lumpfish (genbank) Cyclopterus lumpus GCA_009769545.1_fCycLum1.pri 49 572,902,877 347 10,182,204 28.09
58 mute swan (2019) Cygnus olor GCA_009769625.1_bCygOlo1.pri 181 1,135,009,278 446 10,642,469 21.24
59 mute swan (bCygOlo1 v1 alternate hap 2019) Cygnus olor GCA_009769485.1_bCygOlo1.alt 5,613 814,162,536 3 85 19.97
60 Nelson's sparrow (bAmmNel1 primary hap 2023 genbank) Ammospiza nelsoni GCA_027579445.1_bAmmNel1.pri 77 1,185,463,352 215 5,092,979 25.88
61 New Zealand spotty (genbank) Notolabrus celidotus GCA_009762535.1_fNotCel1.pri 468 846,760,650 1,135 14,268,481 33.39
62 North Atlantic right whale (hap2 2023 genbank) Eubalaena glacialis GCA_028564815.1_mEubGla1.hap2 779 2,832,194,838 363 4,859,315 44.01
63 northern pike Esox lucius GCA_011004845.1_fEsoLuc1.pri 53 918,749,000 112 1,022,735 32.97
64 pale spear-nosed bat (MPI-MPIP v1 2019) Phyllostomus discolor GCF_004126475.1_mPhyDis1_v1.p 141 2,117,764,065 831 22,966,458 30.49
65 pale spear-nosed bat (alternate hap MPI-MPIP 2019) Phyllostomus discolor GCA_004115245.1_mPhyDis1_v1.h 10,835 2,050,602,545 38 18,868 29.66
66 peregrine falcon (bFalPer1 primary hap 2022 genbank) Falco peregrinus GCA_023634155.1_bFalPer1.pri 124 1,311,580,791 232 4,014,385 24.67
67 platypus (Pmale09 v3 2020) Ornithorhynchus anatinus GCA_004115215.3_mOrnAna1.pri.v3 322 1,859,281,749 515 15,158,118 51.26
68 prehistoric monster fish Thalassophryne amazonica GCA_902500255.1_fThaAma1.1 464 2,446,592,878 2,554 12,594,266 59.92
69 pygmy chimpanzee (v1 primary hap 2023) Pan paniscus GCF_029289425.1_NHGRI_mPanPan1-v1.1-0.1.freeze_pri 443 3,271,621,005 8 1,240,299 43.81
70 pygmy sperm whale (mKogBre1 haplotype 1 2022 genbank) Kogia breviceps GCA_026419965.1_mKogBre1_haplotype_1 580 2,555,838,840 143 4,797,769 39.97
71 reedfish (v1 alternate hap 2019) Erpetoichthys calabaricus GCA_900700845.2_fErpCal1.1_alternate_haplotype 38,593 2,607,661,443 5 52,479 45.67
72 reedfish (2019) Erpetoichthys calabaricus GCF_900747795.1_fErpCal1.1 1,885 3,811,038,701 5,614 238,294,611 44.57
73 river trout (v1 2019) Salmo trutta GCF_901001165.1_fSalTru1.1 1,441 2,371,880,186 3,941 73,600,705 52.45
74 rock pigeon (v1 racing homer 2024) Columba livia GCA_036013475.1_bColLiv1.pat.W 870 1,325,583,211 248 46,800 29.94
75 Saker falcon (bFalChe1 primary hap 2022 genbank) Falco cherrug GCA_023634085.1_bFalChe1.pri 282 1,309,366,964 258 3,961,655 24.96
76 saltmarsh sparrow (bAmmCau1 primary hap 2023 genbank) Ammospiza caudacuta GCA_027887145.1_bAmmCau1.pri 282 1,241,209,685 363 2,919,107 29.04
77 San Diego alligator lizard (v1.0 HBS135686 primary hap 2022) Elgaria multicarinata webbii GCA_023053635.1_rElgMul1.0.p 85 1,790,509,355 23 2,300 40.44
78 San Diego alligator lizard (v1.1 HBS135686 primary hap 2024 genbank) Elgaria multicarinata webbii GCA_023053635.2_rElgMul1.1.pri 35 1,790,519,499 73 12,700 40.44
79 siamang (v1 Jambi primary hap 2023) Symphalangus syndactylus GCF_028878055.1_NHGRI_mSymSyn1-v1.1-hic.freeze_pri 605 3,182,923,232 1 100 56.01
80 Siamese fighting fish (v1 alternate hap 2019) Betta splendens GCA_900651605.1_fBetSpl5.1_alternate_haplotype 3,705 426,643,682 2 125 22.60
81 Siamese fighting fish (v2 primary hap 2019) Betta splendens GCF_900634795.2_fBetSpl5.2 70 441,388,503 328 29,269 23.93
82 Siamese fighting fish (v3 primary hap 2020) Betta splendens GCF_900634795.3_fBetSpl5.3 70 441,388,503 328 29,269 23.93
83 smalltooth sawfish (v2 2019 genbank) Pristis pectinata GCA_009764475.1_sPriPec2.pri 173 2,267,857,790 698 20,562,876 38.20
84 sterlet (paternal 2020) Acipenser ruthenus GCA_902713435.1_fAciRut3.1_paternal_haplotype 224 1,663,879,616 422 83,585 39.19
85 Sumatran orangutan (v1 AG06213 primary hap 2023) Pongo abelii GCF_028885655.1_NHGRI_mPonAbe1-v1.1-hic.freeze_pri 2,611 3,365,490,689 59 7,178,544 55.11
86 Swainson's thrush (v1 2019) Catharus ustulatus GCF_009819885.1_bCatUst1.pri 161 1,131,616,430 428 12,903,595 22.52
87 Swainson's thrush (bCatUst1 v1 alternate hap 2019) Catharus ustulatus GCA_009819505.1_bCatUst1.alt 3,601 1,128,658,440 13 343 22.74
88 swamp sparrow (bMelGeo1 primary hap 2023 genbank) Melospiza georgiana GCA_028018845.1_bMelGeo1.pri 40 1,162,015,399 236 1,233,091 24.53
89 thorny skate (genbank 2020) Amblyraja radiata GCA_010909765.1_sAmbRad1.pri 958 2,558,801,738 3,753 190,972,533 52.28
90 thorny skate (v1 2020) Amblyraja radiata GCF_010909765.1_sAmbRad1.pri 957 2,558,784,953 3,753 190,972,533 52.28
91 torafugu (fTakRub1.2 2019 refseq) Takifugu rubripes GCF_901000725.2_fTakRub1.2 128 384,126,662 402 3,688,529 20.93
92 village indigobird (merged hap OUT-0048 2022 genbank) Vidua chalybeata GCA_026979565.1_bVidCha1_merged_haplotype 178 1,080,457,469 458 165,531 20.96
93 western lowland gorilla (v1 KB3781 2023) Gorilla gorilla gorilla GCF_029281585.1_NHGRI_mGorGor1-v1.1-0.2.freeze_pri 637 3,600,562,452 38 5,248,239 51.22
94 white leghorn X broiler chicken (v1 leghorn haplotype v1 2021) Gallus gallus GCF_016700215.1_bGalGal1.pat.whiteleghornlayer.GRCg7w 255 953,182,234 254 3,312,879 20.28
95 white-tufted-ear marmoset (v1 paternal 2020) Callithrix jacchus GCA_011100535.1_mCalJac1.pat 336 2,682,316,413 788 11,206,679 49.24
96 zebra finch (genbank 2020 Blue55 female) Taeniopygia guttata GCA_009859065.2_bTaeGut2.pri.v2 541 1,106,297,559 789 21,820,589 20.08
97 zebra finch (refseq 2019 Black17 male) Taeniopygia guttata GCF_003957565.1_bTaeGut1_v1.p 135 1,058,012,133 312 2,334,250 21.55
98 zebra finch (genbank 2019 Black17 male) Taeniopygia guttata GCA_003957565.2_bTaeGut1_v1.p 135 1,058,012,133 312 2,334,250 21.55
99 zebra finch (alternate hap Black17 2018) Taeniopygia guttata GCA_003957525.1_bTaeGut1_v1.h 5,336 965,644,423 45 136,365 20.33
100 zig-zag eel (v1.2 2019 refseq) Mastacembelus armatus GCF_900324485.2_fMasArm1.2 123 591,951,587 238 13,231,344 23.47
TOTALS:total assembly count 100 150,261 166,990,761,714 61,501 1,488,842,700  
count common name
link to genome browser		 scientific name
and data download		 NCBI assembly sequence
count		genome size
nucleotides		 gap
count		unknown bases
(gap size sum)		masking
percent

Alternate sets of VGP assembliesNCBI Refseq
Index pages:  primary assembly alternate/haplotype trio mat/pat legacy/superseded other NCBI Refseq assemblies
Assembly statistics:  primary assembly alternate/haplotype trio mat/pat legacy/superseded other NCBI Refseq assemblies
Track statistics:  primary assembly alternate/haplotype trio mat/pat legacy/superseded other NCBI Refseq assemblies