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597 accessions

Taxonomy:

root › cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Sauropsida › Sauria › Archelosauria

Taxonomy information:

View on NCBI (taxonomy ID: 1329799)

•Gallus gallus(chicken white leghorn layer X broiler (v2 broiler haplotype 2021 2021))(info)GCF_016699485.2

•Gallus gallus(chicken (Huxu 2023))(info)GCA_024206055.2

•Gallus gallus(chicken (Cobb bGalGal5 alternate hap 2022))(info)GCA_027408205.1

•Gallus gallus(chicken (Cobb bGalGal5 primary hap 2022))(info)GCA_027408225.1

•Gallus gallus(chicken (Ross bGalGal4 alternate hap 2022))(info)GCA_027408255.1

•Gallus gallus(chicken (Ross bGalGal4 primary hap 2023))(info)GCA_027557775.1

•Gallus gallus(white leghorn X broiler chicken (v1 leghorn haplotype v1 2021))(info)GCF_016700215.1

•Gallus gallus(white leghorn X broiler chicken (v2 leghorn haplotype 2021))(info)GCF_016700215.2

•Gallus gallus(chicken (GRCg6a 2018))(info)GCF_000002315.6

•Gallus gallus(chicken (Silkie 2023))(info)GCA_034509865.1

•Gallus gallus(chicken (Wuding W17 2024))(info)GCA_030914275.2

Crossoptilon

•Crossoptilon mantchuricum(brown eared-pheasant)(info)GCA_019593555.1

Chrysolophus

•Chrysolophus pictus(golden pheasant)(info)GCA_003413605.1

Pavo

•Pavo muticus(green peafowl)(info)GCA_016647715.1

Phasianus

•Phasianus colchicus(ring-necked pheasant)(info)GCF_004143745.1

Tetraoninae

Lagopus

Lagopus muta

•Lagopus muta(rock ptarmigan (bLagMut1 alternate hap 2022))(info)GCA_023344045.1

•Lagopus muta(rock ptarmigan (primary hap 2022 refseq))(info)GCF_023343835.1

•Lagopus muta(rock ptarmigan (primary hap 2022 genbank))(info)GCA_023343835.1

•Lagopus leucura(white-tailed ptarmigan)(info)GCF_019238085.1

Tetrao

Tetrao urogallus

•Tetrao urogallus(western capercaillie (alternate hap 2023))(info)GCA_951394355.1

•Tetrao urogallus(western capercaillie (primary hap 2023))(info)GCA_951394365.1

Tympanuchus

Tympanuchus cupido

•Tympanuchus cupido pinnatus(greater prairie chicken)(info)GCA_001870855.1

•Tympanuchus pallidicinctus(lesser prairie-chicken (F22 2022))(info)GCF_026119805.1

Centrocercus

•Centrocercus urophasianus(greater sage-grouse)(info)GCF_019232065.1

Excalfactoria

Excalfactoria chinensis

•Excalfactoria chinensis(bird E.chinensis (hap1 2024))(info)GCA_039878515.1

•Excalfactoria chinensis(bird E.chinensis (hap2 2024))(info)GCA_039878825.1

•Excalfactoria chinensis(king quail (bCotChi1hap2 2024))(info)GCF_039878825.1

Perdicinae

Coturnix

Coturnix japonica

•Coturnix japonica(Japanese quail)(info)GCF_001577835.2

•Coturnix japonica(Japanese quail)(info)GCF_001577835.1

Alectoris

•Alectoris rufa(red-legged partridge)(info)GCA_019345075.1

Meleagridinae

Meleagris

Meleagris gallopavo

•Meleagris gallopavo(turkey (Aviagen NT-WF06-2002-E0010 2014))(info)GCF_000146605.3

•Meleagris gallopavo(turkey (WU_HG_1 2021))(info)GCA_905368555.1

Odontophoridae

Callipepla

Callipepla californica

Callipepla californica brunnescens

•Callipepla californica brunnescens(California quail (MVZ:Bird:193975 alternate hap 2022))(info)GCA_023055725.1

•Callipepla californica brunnescens(California quail (MVZ:Bird:193975 primary hap 2022))(info)GCA_023055505.1

Cyrtonyx

•Cyrtonyx montezumae(Montezuma quail (F1298 2024))(info)GCF_038088225.1

Colinus

•Colinus virginianus(northern bobwhite)(info)GCA_008692595.2

Numididae

Numida

•Numida meleagris(helmeted guineafowl)(info)GCF_002078875.1

•Cygnus olor(mute swan (bCygOlo1 v1 alternate hap 2019))(info)GCA_009769485.1

•Cygnus olor(mute swan (bCygOlo1 v2 alternate hap 2021))(info)GCA_009769485.2

•Cygnus olor(mute swan (v1 primary hap 2019))(info)GCA_009769625.1

•Cygnus olor(mute swan (v2 primary hap 2021))(info)GCF_009769625.2

•Cygnus columbianus(tundra swan (primary hap 2025))(info)GCA_965151615.1

Cygnus atratus

•Cygnus atratus(black swan (v2 Queensland, Australia AKBS03 2022))(info)GCF_013377495.2

•Cygnus atratus(black swan (v1 Queensland, Australia AKBS03 2020))(info)GCF_013377495.1

Anser

•Anser brachyrhynchus(pink-footed goose (primary hap 2024))(info)GCA_964034855.1

Anser anser

•Anser anser(Domestic goose (bAnsAns1.hap2.1 2024))(info)GCA_964211785.1

•Anser anser(Domestic goose (bAnsAns1.hap1.1 2024))(info)GCA_964211835.1

Anser cygnoides

•Anser cygnoides(Swan (goose HZ-2024a 2024))(info)GCF_040182565.1

•Anser cygnoides(swan goose (Sichuan white goose 2017))(info)GCF_002166845.1

•Anser cygnoides(swan goose (Tianfu 2020))(info)GCA_013030995.1

Branta

Branta canadensis

•Branta canadensis(Canada goose (primary hap 2025))(info)GCA_965231335.1

•Branta canadensis(Canada goose (SJ_97 2019))(info)GCA_006130075.1

Aythyinae

Aythya

Aythya fuligula

•Aythya fuligula(tufted duck (alternate hap 2019))(info)GCA_009819845.1

•Aythya fuligula(tufted duck (2019))(info)GCF_009819795.1

Aythya ferina

•Aythya ferina(common pochard (bAytFer1.hap2.1 2024))(info)GCA_964211795.1

•Aythya ferina(common pochard (bAytFer1.hap1.1 2024))(info)GCA_964211825.1

Aythya marila

•Aythya marila(greater scaup (hap1 2025))(info)GCA_965140915.1

•Aythya marila(greater scaup (hap2 2025))(info)GCA_965140925.1

Netta

•Netta rufina(red-crested pochard (primary hap 2024))(info)GCA_964035555.1

Anatinae

Mergus

Mergus octosetaceus

•Mergus octosetaceus(Brazilian merganser (hap2 2024))(info)GCA_036850655.1

•Mergus octosetaceus(Brazilian merganser (hap1 2024))(info)GCA_036873955.1

Anas

Anas acuta

•Anas acuta(northern pintail (primary hap 2024 genbank))(info)GCA_963932015.1

•Anas acuta(northern pintail (primary hap 2024 refseq))(info)GCF_963932015.1

Anas platyrhynchos

•Anas platyrhynchos(mallard (hap2 2024))(info)GCA_964188335.1

•Anas platyrhynchos(mallard (hap1 2024))(info)GCA_964188345.1

•Anas platyrhynchos(mallard (Pekin duck Z2 2020 Zhejiang U))(info)GCF_015476345.1

•Anas platyrhynchos(mallard (CAU_Wild1.0 2019))(info)GCA_008746955.1

•Anas platyrhynchos(mallard (Pekin duck ZD024472 2025))(info)GCF_047663525.1

•Anas platyrhynchos(mallard PBH1.5)(info)GCF_003850225.1

•Anas platyrhynchos platyrhynchos(mallard (Pekin duck 2017))(info)GCA_002743455.1

Clangula

•Clangula hyemalis(long-tailed duck (primary hap 2024))(info)GCA_963989345.1

Bucephala

•Bucephala clangula(common goldeneye (primary hap 2024))(info)GCA_964059595.1

Oxyura

•Oxyura jamaicensis(ruddy duck)(info)GCF_011077185.1

Melanerpes formicivorus

•Melanerpes formicivorus(acorn woodpecker (bairdi alternate hap 2022))(info)GCA_026170555.1

•Melanerpes formicivorus(acorn woodpecker (bairdi primary hap 2022))(info)GCA_026170545.1

•Melanerpes formicivorus(acorn woodpecker (bairdi primary hap 2022))(info)GCF_026170545.1

Dryobates

Dryobates pubescens

•Dryobates pubescens(Downy woodpecker (alternate hap 2020))(info)GCA_014839825.1

•Dryobates pubescens(downy woodpecker (bDryPub1 primary hap 2020))(info)GCA_014839835.1

•Dryobates pubescens(downy woodpecker (primary hap 2020))(info)GCF_014839835.1

•Dryobates pubescens(downy woodpecker (BGI 2014))(info)GCF_000699005.1

Lybiidae

Pogoniulus

Pogoniulus pusillus

•Pogoniulus pusillus(red-fronted tinkerbird (bPogPus1 alternate hap 2020))(info)GCA_015220175.1

•Pogoniulus pusillus(red-fronted tinkerbird (primary hap 2020 genbank))(info)GCA_015220805.1

•Pogoniulus pusillus(red-fronted tinkerbird (primary hap 2020 refseq))(info)GCF_015220805.1

Indicatoridae

Indicator

•Indicator indicator(greater honeyguide (239-I01 2023))(info)GCF_027791375.1

•Bucorvus abyssinicus(Abyssinian ground-hornbill (alternate hap 2019))(info)GCA_009769595.1

•Bucorvus abyssinicus(Abyssinian ground-hornbill (primary hap 2019))(info)GCA_009769605.1

Bucerotidae

Buceros

Buceros rhinoceros

•Buceros rhinoceros silvestris(rhinoceros hornbill)(info)GCF_000710305.1

•Merops nubicus(carmine bee-eater (alternate hap 2019))(info)GCA_009819585.1

•Merops nubicus(carmine bee-eater (primary hap 2019))(info)GCA_009819595.1

•Merops nubicus(carmine bee-eater (2014 BGI))(info)GCF_000691845.1

•Trogon surrucura(Suruca trogon (bTroSur1 alternate hap 2021))(info)GCA_020746095.1

•Trogon surrucura(Suruca trogon (primary hap 2021))(info)GCA_020746105.1

Apaloderma

•Apaloderma vittatum(bar-tailed trogon)(info)GCF_000703405.1

•Colius striatus(speckled mousebird (v1 hap2 2023))(info)GCA_028858625.1

•Colius striatus(speckled mousebird (v2 hap2 2023))(info)GCA_028858625.2

•Colius striatus(speckled mousebird (hap1 2023 genbank))(info)GCA_028858725.1

•Colius striatus(speckled mousebird (hap1 2023 refseq))(info)GCF_028858725.1

•Colius striatus(speckled mousebird (BGI_N325 2014))(info)GCF_000690715.1

•Leptosomus discolor(cuckoo roller (hap1 2023))(info)GCA_034619455.1

•Leptosomus discolor(cuckoo roller (hap2 2023))(info)GCA_034619465.1

•Leptosomus discolor(cuckoo roller (BGI_N330 2014))(info)GCF_000691785.1

•Artemisiospiza belli(sage sparrow (canescens MVZ Bird 192114 alternate hap 2022))(info)GCA_021966175.1

•Artemisiospiza belli(sage sparrow (canescens MVZ Bird 192114 primary hap 2022))(info)GCA_021963965.1

Passerculus

Passerculus sandwichensis

•Passerculus sandwichensis(Savannah sparrow (primary hap 2023))(info)GCA_031885435.1

Passerculus sandwichensis alaudinus

•Passerculus sandwichensis alaudinus(Savannah sparrow (FMNH 499929 alternate hap 2022))(info)GCA_022578375.1

•Passerculus sandwichensis alaudinus(Savannah sparrow (FMNH 499929 primary hap 2022))(info)GCA_022577445.1

Melospiza

Melospiza melodia

•Melospiza melodia(song sparrow (gouldii PMB2087b alternate hap 2022))(info)GCA_022749775.1

•Melospiza melodia(song sparrow (gouldii PMB2087b primary hap 2022))(info)GCA_022749695.1

Melospiza melodia melodia

•Melospiza melodia melodia(song sparrow (primary hap 2024 genbank))(info)GCA_035770615.1

•Melospiza melodia melodia(song sparrow (primary hap 2024 refseq))(info)GCF_035770615.1

Melospiza georgiana

•Melospiza georgiana(swamp sparrow (bMelGeo1 primary hap 2023 genbank))(info)GCA_028018845.1

•Melospiza georgiana(swamp sparrow (bMelGeo1 alternate hap 2023))(info)GCA_028019105.1

•Melospiza georgiana(swamp sparrow (bMelGeo1 primary hap 2023 refseq))(info)GCF_028018845.1

Ammospiza

Ammospiza nelsoni

•Ammospiza nelsoni(Nelson's sparrow (bAmmNel1 primary hap 2023 genbank))(info)GCA_027579445.1

•Ammospiza nelsoni(Nelson's sparrow (bAmmNel1 alternate hap 2023))(info)GCA_027579665.1

•Ammospiza nelsoni(Nelson's sparrow (bAmmNel1 primary hap 2023 refseq))(info)GCF_027579445.1

Ammospiza caudacuta

•Ammospiza caudacuta(saltmarsh sparrow (bAmmCau1 alternate hap 2023))(info)GCA_027887135.1

•Ammospiza caudacuta(saltmarsh sparrow (bAmmCau1 primary hap 2023 genbank))(info)GCA_027887145.1

•Ammospiza caudacuta(saltmarsh sparrow (bAmmCau1 primary hap 2023 refseq))(info)GCF_027887145.1

Ammospiza maritima

•Ammospiza maritima maritima(seaside sparrow (bAmmMar1 primary hap 2024))(info)GCA_036010785.1

Zonotrichia

Zonotrichia albicollis

•Zonotrichia albicollis(white-throated sparrow (hap2 2025))(info)GCA_047774235.1

•Zonotrichia albicollis(white-throated sparrow (hap1 2025))(info)GCA_047830755.1

•Zonotrichia albicollis(white-throated sparrow (bZonAlb1hap1 2025))(info)GCF_047830755.1

•Zonotrichia albicollis(white-throated sparrow (Tan morph 2013))(info)GCF_000385455.1

Zonotrichia leucophrys

•Zonotrichia leucophrys gambelii(bird Z.leucophrys gambelii (GWCS_2022_RI 2023))(info)GCF_028769735.1

Melozone

•Melozone crissalis(California towhee (CALT 2023))(info)GCF_028551555.1

•Cyanocitta stelleri(Steller's jay (frontalis alternate hap 2022))(info)GCA_026168045.1

•Cyanocitta stelleri(Steller's jay (frontalis primary hap 2022))(info)GCA_026167965.1

Cyanocitta cristata

•Cyanocitta cristata(blue jay (hap2 2024))(info)GCA_046129645.1

•Cyanocitta cristata(blue jay (hap1 2024))(info)GCA_046129655.1

Aphelocoma

Aphelocoma californica

•Aphelocoma californica(western scrub-jay (CA MVZ Bird 193978 2023))(info)GCA_028536645.1

•Aphelocoma californica(western scrub-jay (CA MVZ Bird 193978 2023))(info)GCA_028536675.1

•Aphelocoma coerulescens(scrub jay (FSJ_1873_10779 2024))(info)GCF_041296385.1

Corvus

Corvus moneduloides

•Corvus moneduloides(New Caledonian crow (alternate hap 2019))(info)GCA_009651025.1

•Corvus moneduloides(New Caledonian crow (primary hap 2019))(info)GCF_009650955.1

Corvus hawaiiensis

•Corvus hawaiiensis(Hawaiian crow (bCorHaw1 alternate hap 2021))(info)GCA_020740675.1

•Corvus hawaiiensis(Hawaiian crow (primary hap 2021 refseq))(info)GCF_020740725.1

•Corvus hawaiiensis(Hawaiian crow (2021 genbank))(info)GCA_020740725.1

•Corvus brachyrhynchos(American crow)(info)GCF_000691975.1

Corvus cornix

Corvus cornix cornix

•Corvus cornix cornix(hooded crow (v6 S_Up_H32 2022))(info)GCF_000738735.6

•Corvus cornix cornix(hooded crow (v2 S_Up_H32 2017))(info)GCF_000738735.2

•Corvus cornix cornix(hooded crow (v5 S_Up_H32 2021))(info)GCF_000738735.5

•Corvus kubaryi(Mariana crow)(info)GCF_017639235.1

Coloeus

Coloeus monedula

•Coloeus monedula(jackdaw (hap2.1 2025))(info)GCA_965178535.1

•Coloeus monedula(jackdaw (hap1.1 2025))(info)GCA_965178545.1

•Coloeus monedula(jackdaw (S_Up_J01 2020))(info)GCA_013407035.1

Paradisaeidae

Lycocorax

Lycocorax pyrrhopterus

•Lycocorax pyrrhopterus obiensis(Obi paradise-crow (lycPyr6 2020))(info)GCA_014706295.1

•Agelaius tricolor(tricolored blackbird (1412-34295 alternate hap 2022))(info)GCA_023055385.1

•Agelaius tricolor(tricolored blackbird (1412-34295 primary hap 2022 genbank))(info)GCA_023055355.1

•Agelaius tricolor(tricolored blackbird (1412-34295 primary hap 2022 refseq))(info)GCF_023055355.1

Agelaius phoeniceus

•Agelaius phoeniceus(red-winged blackbird (BioBank_ID:100140 2023))(info)GCF_020745825.1

•Agelaius phoeniceus(red-winged blackbird (hap1 2025))(info)GCF_051311805.1

Molothrus

•Molothrus aeneus(bronzed cowbird (106 2024))(info)GCF_037042795.1

Molothrus ater

•Molothrus ater(brown headed cowbird (v1.1 BHLD 08-10-18 2022))(info)GCF_012460135.2

•Molothrus ater(brown headed cowbird (v1.0 BHLD 08-10-18 2020))(info)GCF_012460135.1

Parulidae

Setophaga

Setophaga petechia

•Setophaga petechia(yellow warbler (LACM:Birds122168 alternate hap 2022))(info)GCA_024372515.1

•Setophaga petechia(yellow warbler (LACM:Birds122168 primary hap 2022))(info)GCA_024362935.1

Geothlypis

Geothlypis trichas

•Geothlypis trichas(common yellowthroat (alternate hap 2019))(info)GCA_009764545.1

•Geothlypis trichas(common yellowthroat (primary hap 2019))(info)GCA_009764595.1

•Taeniopygia guttata(zebra finch (alternate hap Black17 2018))(info)GCA_003957525.1

•Taeniopygia guttata(zebra finch (Black17 v1.4 alternate hap 2021))(info)GCA_003957525.2

•Taeniopygia guttata(zebra finch (v1 Black17 male 2019 genbank))(info)GCA_003957565.2

•Taeniopygia guttata(zebra finch (v1.4 Blue55 primary hap 2021 genbank))(info)GCA_003957565.4

•Taeniopygia guttata(zebra finch (v3 Blue55 maternal 2020))(info)GCA_008822115.3

•Taeniopygia guttata(zebra finch (Blue55 paternal 2019))(info)GCA_008822125.1

•Taeniopygia guttata(zebra finch (alternate hap Blue55 v1 2020))(info)GCA_009859025.1

•Taeniopygia guttata(zebra finch (Blue55 female 2020 genbank))(info)GCA_009859065.2

•Taeniopygia guttata(zebra finch (bTaeGut7 maternal hap 2025))(info)GCA_048771995.1

•Taeniopygia guttata(zebra finch (bTaeGut7 paternal hap 2025))(info)GCA_048772025.1

•Taeniopygia guttata(zebra finch (v1 Black17 2019 refseq))(info)GCF_003957565.1

•Taeniopygia guttata(zebra finch (v1.4 Blue55 female primary hap 2021 refseq))(info)GCF_003957565.2

•Taeniopygia guttata(zebra finch (Blue55 paternal W 2020))(info)GCF_008822105.2

•Taeniopygia guttata(zebra finch (2025))(info)GCF_048771995.1

Lonchura

Lonchura striata

•Lonchura striata(white-rumped munia (maternal hap 2024))(info)GCA_046129695.1

•Lonchura striata(white-rumped munia (paternal hap 2024))(info)GCA_046129705.1

•Lonchura striata(Bengalese finch)(info)GCF_005870125.1

•Lonchura striata(Bengalese finch (primary hap 2025))(info)GCA_050655825.1

Viduinae

Vidua

Vidua chalybeata

•Vidua chalybeata(village indigobird (purged dups hap OUT-0048 2022))(info)GCA_026979555.1

•Vidua chalybeata(village indigobird (merged hap OUT-0048 2022 genbank))(info)GCA_026979565.1

•Vidua chalybeata(village indigobird (merged hap OUT-0048 2022 refseq))(info)GCF_026979565.1

•Vidua macroura(pin-tailed whydah (BioBank_ID:100142 2022))(info)GCF_024509145.1

•Haemorhous mexicanus(house finch (bHaeMex1 alternate hap 2022))(info)GCA_027406555.1

•Haemorhous mexicanus(house finch (primary hap 2022 genbank))(info)GCA_027477595.1

•Haemorhous mexicanus(house finch (primary hap 2022 refseq))(info)GCF_027477595.1

Serinus

Serinus canaria

•Serinus canaria(common canary (domestic yellow sc_yellow_7_cibi 2019))(info)GCF_007115625.1

•Serinus canaria(common canary (serCan28SL12 2022))(info)GCF_022539315.1

Fringillinae

Fringilla

•Fringilla coelebs(chaffinch (primary hap 2023))(info)GCA_963513975.1

Passeridae

Passer

Passer domesticus

•Passer domesticus(house sparrow (hap1 2024 genbank))(info)GCA_036417665.1

•Passer domesticus(house sparrow (hap2 2024))(info)GCA_036417895.1

•Passer domesticus(house sparrow (hap1 2024 refseq))(info)GCF_036417665.1

•Passer montanus(Eurasian tree sparrow)(info)GCF_014805655.1

Anomalospiza

•Anomalospiza imberbis(bird A.imberbis (Cuckoo-Finch-1a 21T00152 2023))(info)GCF_031753505.1

Pyrgilauda

•Pyrgilauda ruficollis(rufous-necked snowfinch)(info)GCF_017590135.1

Onychostruthus

•Onychostruthus taczanowskii(white-rumped snowfinch)(info)GCF_017590055.1

Motacillidae

Motacilla

Motacilla alba

•Motacilla alba alba(white wagtail)(info)GCF_015832195.1

Sylvioidea

Sylviidae

Sylviidae incertae sedis

Chamaea

Chamaea fasciata

•Chamaea fasciata(wrentit (frontalis MVZ Bird 193981 alternate hap 2023))(info)GCA_029207785.1

•Chamaea fasciata(wrentit (frontalis MVZ Bird 193981 primary hap 2023 genbank))(info)GCA_029207755.1

•Chamaea fasciata(wrentit (frontalis MVZ Bird 193981 primary hap 2023 refseq))(info)GCF_029207755.1

Sylviinae

Sylvia

Sylvia atricapilla

•Sylvia atricapilla(blackcap (primary hap 2019 genbank))(info)GCA_009819655.1

•Sylvia atricapilla(blackcap (alternate hap 2019))(info)GCA_009819715.1

•Sylvia atricapilla(blackcap (primary hap 2019 refseq))(info)GCF_009819655.1

Sylvia borin

•Sylvia borin(garden warbler (primary hap 2020))(info)GCA_014839755.1

•Sylvia borin(garden warbler (bSylBor1 alternate hap 2020))(info)GCA_014839765.1

Hirundinidae

Hirundo

Hirundo rustica

•Hirundo rustica(barn swallow (v3 primary hap 2021 genbank))(info)GCA_015227805.3

•Hirundo rustica(Barn swallow (bHirRus1 v3 alternate hap 2021))(info)GCA_015227815.3

•Hirundo rustica(barn swallow (v2 primary hap 2021 refseq))(info)GCF_015227805.1

•Hirundo rustica(barn swallow (v3 primary hap 2021 refseq))(info)GCF_015227805.2

•Hirundo rustica(barn swallow (bHirRus1 v2 primary hap genbank 2021))(info)GCA_015227805.2

Tachycineta

•Tachycineta bicolor(tree swallow (Ithaca 2401-50270 2024))(info)GCA_007636935.2

Zosteropidae

Zosterops

Zosterops lateralis

•Zosterops lateralis(silver-eye (hap2.1 2025))(info)GCA_965231245.1

•Zosterops lateralis(silver-eye (hap1.1 2025))(info)GCA_965231275.1

Cisticolidae

Prinia

•Prinia subflava(tawny-flanked prinia (Zambia CZ2003 2024))(info)GCF_021018805.1

Turdidae

Catharus

Catharus ustulatus

•Catharus ustulatus(Swainson's thrush (bCatUst1 v1 alternate hap 2019))(info)GCA_009819505.1

•Catharus ustulatus(Swainson's thrush (bCatUst1 v2 alternate hap 2020))(info)GCA_009819505.2

•Catharus ustulatus(Swainson's thrush (v1 primary hap 2019))(info)GCF_009819885.1

•Catharus ustulatus(Swainson's thrush (v2 primary hap 2020))(info)GCF_009819885.2

Erithacus

Erithacus rubecula

•Erithacus rubecula(European robin (alternate hap 2021))(info)GCA_903797565.2

•Erithacus rubecula(European robin (primary hap 2021))(info)GCA_903797595.2

Pipridae

Chiroxiphia

Chiroxiphia lanceolata

•Chiroxiphia lanceolata(lance-tailed manakin (alternate hap 2020))(info)GCA_009829205.1

•Chiroxiphia lanceolata(lance-tailed manakin (2020))(info)GCF_009829145.1

Pseudopipra

Pseudopipra pipra

•Pseudopipra pipra(white-crowned manakin (hap1 2024 genbank))(info)GCA_036250125.1

•Pseudopipra pipra(white-crowned manakin (hap2 2024))(info)GCA_036250135.1

•Pseudopipra pipra(white-crowned manakin (hap1 2024 refseq))(info)GCF_036250125.1

Lepidothrix

•Lepidothrix coronata(blue-crowned manakin)(info)GCF_001604755.1

Manacus

•Manacus vitellinus(golden-collared manakin)(info)GCF_001715985.3

•Manacus candei(white-collared manakin (Guabito, Panama 608988 2022))(info)GCF_025592945.1

Neopelma

•Neopelma chrysocephalum(saffron-crested tyrant-manakin)(info)GCF_003984885.1

Corapipo

•Corapipo altera(white-ruffed manakin)(info)GCF_003945725.1

Pipra

Pipra filicauda

•Pipra filicauda(wire-tailed manakin (2020))(info)GCF_003945595.2

•Pipra filicauda(wire-tailed manakin (2018))(info)GCF_003945595.1

Acanthisittidae

Acanthisitta

Acanthisitta chloris

•Acanthisitta chloris(rifleman (bAcaChl1 alternate hap 2021))(info)GCA_016880875.1

•Acanthisitta chloris(rifleman (primary hap 2021))(info)GCA_016904835.1

•Acanthisitta chloris(rifleman (BGI 2014))(info)GCF_000695815.1

Sturnidae

Acridotheres

Acridotheres tristis

•Acridotheres tristis(common myna (bArcTri1 alternate hap 2023))(info)GCA_027559525.1

•Acridotheres tristis(common myna (bArcTri1 primary hap 2023))(info)GCA_027559615.1

Sturnus

•Sturnus vulgaris(common starling)(info)GCF_001447265.1

Paridae

Poecile

Poecile atricapillus

•Poecile atricapillus(black-capped chickadee (hap2 2023))(info)GCA_030490855.1

•Poecile atricapillus(black-capped chickadee (hap1 2023))(info)GCF_030490865.1

Cyanistes

•Cyanistes caeruleus(blue tit)(info)GCF_002901205.1

Parus

•Parus major(great tit)(info)GCF_001522545.3

Pseudopodoces

•Pseudopodoces humilis(Tibetan ground-tit)(info)GCF_000331425.1

Thamnophilidae

Willisornis

Willisornis vidua

•Willisornis vidua(Xingu scale-backed antbird (hap1 2024))(info)GCA_045364795.1

•Willisornis vidua(Xingu scale-backed antbird (hap2 2024))(info)GCA_045364805.1

Pithys

Pithys albifrons

•Pithys albifrons albifrons(white-plumed antbird (INPA30051 2025))(info)GCF_047495875.1

Cinclidae

Cinclus

Cinclus cinclus

•Cinclus cinclus(white-throated dipper (primary hap 2023 genbank))(info)GCA_963662255.1

•Cinclus cinclus(white-throated dipper (primary hap 2023 refseq))(info)GCF_963662255.1

Muscicapidae

Oenanthe

•Oenanthe melanoleuca(Eastern black-eared wheatear (GR-GAL-2019-014 2023))(info)GCF_029582105.1

Ficedula

•Ficedula albicollis(collared flycatcher)(info)GCF_000247815.1

Thraupidae

Diglossa

•Diglossa brunneiventris(black-throated flowerpiercer)(info)GCA_019023105.1

Geospiza

•Geospiza fortis(medium ground-finch)(info)GCF_000277835.1

Camarhynchus

Camarhynchus parvulus

•Camarhynchus parvulus(small tree finch (2019))(info)GCF_901933205.1

•Camarhynchus parvulus(small tree finch (2020))(info)GCA_902806625.1

Meliphagoidea

Maluridae

Malurus

•Malurus melanocephalus(red-backed fairy wren (Western Australia 2023))(info)GCF_030028575.1

Tyrannidae

Myiozetetes

•Myiozetetes cayanensis(rusty-margined flycatcher (MyiCay16 2022))(info)GCF_022539395.1

Empidonax

•Empidonax traillii(willow flycatcher)(info)GCF_003031625.1

•Strigops habroptila(kakapo (Jane alternate hap 2019))(info)GCA_004011185.1

•Strigops habroptila(kakapo (Jane v2 2020 genbank))(info)GCA_004027225.2

•Strigops habroptila(kakapo (v2 Jane 2020 refseq))(info)GCF_004027225.2

•Strigops habroptila(kakapo (Jane v1 2019))(info)GCF_004027225.1

Ara

Ara ararauna

•Ara ararauna(blue-and-yellow macaw (hap2 2023))(info)GCA_028858555.1

•Ara ararauna(blue-and-yellow macaw (hap1 2023))(info)GCA_028858755.1

Lathamus

Lathamus discolor

•Lathamus discolor(Swift parrot (hap2 2024))(info)GCA_037157625.1

•Lathamus discolor(swift parrot (hap1 2024))(info)GCF_037157495.1

Amazona

Amazona ochrocephala

•Amazona ochrocephala(yellow-crowned parrot (bAmaOch1hap2 2024))(info)GCA_039720425.1

•Amazona ochrocephala(yellow-crowned parrot (bAmaOch1hap1 2024))(info)GCA_039720435.1

Amazona aestiva

•Amazona aestiva(blue-fronted amazon (AMXYW 2021))(info)GCA_017639355.1

•Amazona aestiva(blue-fronted amazon (FVVF132 2015))(info)GCA_001420675.1

•Amazona vittata(Puerto Rican parrot (LU 182127 2020))(info)GCA_000332375.2

Guaruba

Guaruba guarouba

•Guaruba guarouba(golden parakeet (hap1 2024))(info)GCA_045345405.1

•Guaruba guarouba(golden parakeet (hap2 2024))(info)GCA_045519325.1

Psittacula

Psittacula echo

•Psittacula echo(Mauritius parakeet (alternate hap 2023))(info)GCA_963243765.1

•Psittacula echo(Mauritius parakeet (primary hap 2023))(info)GCA_963264785.1

Pezoporus

•Pezoporus flaviventris(bird P.flaviventris (CSIRO_AGI_PZ_B2104156 2023))(info)GCF_033815535.1

•Pezoporus wallicus(ground parrot (Strahan ANWC-B61680 2023))(info)GCF_028554395.1

•Pezoporus occidentalis(night parrot (Australia 2023))(info)GCF_034315485.1

Neopsephotus

•Neopsephotus bourkii(Bourke's parrot (Australia Nb327-2 2023))(info)GCF_033783945.1

Psittacus

•Psittacus erithacus(grey parrot (MU2MI4XJKV 2020))(info)GCA_009867235.1

Anodorhynchus

•Anodorhynchus hyacinthinus(hyacinth macaw (LEKZKR9XQ3 2022))(info)GCA_009936445.2

Nestor

•Nestor notabilis(kea)(info)GCF_000696875.1

Myiopsitta

•Myiopsitta monachus(monk parakeet)(info)GCA_017639245.1

Aratinga

•Aratinga solstitialis(sun parakeet (2019))(info)GCA_902168055.1

Psittaculidae

Melopsittacus

Melopsittacus undulatus

•Melopsittacus undulatus(budgerigar (maternal 2020))(info)GCA_012275265.1

•Melopsittacus undulatus(budgerigar (paternal hap 2020))(info)GCA_012275275.1

•Melopsittacus undulatus(budgerigar (maternal Z 2020 genbank))(info)GCA_012275295.1

•Melopsittacus undulatus(budgerigar (maternal Z 2020 refseq))(info)GCF_012275295.1

•Melopsittacus undulatus(budgerigar (v6.3 2021 WashU))(info)GCF_000238935.1

•Cariama cristata(red-legged seriema (alternate hap 2019))(info)GCA_009819485.1

•Cariama cristata(red-legged seriema (primary hap 2019))(info)GCA_009819825.1

•Cariama cristata(red-legged seriema (BGI_N322 2014 BGI))(info)GCF_000690535.1

•Falco rusticolus(gyrfalcon (bFalRus1 alternate hap 2020))(info)GCA_015220155.1

•Falco rusticolus(gyrfalcon (primary hap 2020))(info)GCF_015220075.1

Falco naumanni

•Falco naumanni(lesser kestrel (alternate hap 2021))(info)GCA_017639645.1

•Falco naumanni(lesser kestrel (v1 2021))(info)GCF_017639655.1

•Falco naumanni(lesser kestrel (v2 2021))(info)GCF_017639655.2

Falco cherrug

•Falco cherrug(Saker falcon (bFalChe1 primary hap 2022 genbank))(info)GCA_023634085.1

•Falco cherrug(Saker falcon (bFalChe1 alternate hap 2022))(info)GCA_023634115.1

•Falco cherrug(Saker falcon (primary hap 2022 refseq))(info)GCF_023634085.1

•Falco cherrug(Saker falcon (BGI 2013))(info)GCF_000337975.1

Falco peregrinus

•Falco peregrinus(peregrine falcon (bFalPer1 primary hap 2022 genbank))(info)GCA_023634155.1

•Falco peregrinus(peregrine falcon (bFalPer1 alternate hap 2022))(info)GCA_023634185.1

•Falco peregrinus(peregrine falcon (bFalPer1 primary hap 2022 refseq))(info)GCF_023634155.1

•Falco peregrinus(peregrine falcon (BGI 2013))(info)GCF_000337955.1

Falco biarmicus

•Falco biarmicus(lanner falcon (bFalBia1 alternate hap 2022))(info)GCA_023634305.1

•Falco biarmicus(lanner falcon (bFalBia1 primary hap 2022 genbank))(info)GCA_023638135.1

•Falco biarmicus(lanner falcon (bFalBia1 primary hap 2022 refseq))(info)GCF_023638135.1

Falco punctatus

•Falco punctatus(Mauritius kestrel (alternate hap 2023))(info)GCA_963210275.1

•Falco punctatus(Mauritius kestrel (primary hap 2023))(info)GCA_963210335.1

•Falco sparverius(American kestrel (FMNH 100283 2023))(info)GCA_034782035.1

•Harpia harpyja(Harpy eagle (bHarHar1 alternate hap 2022))(info)GCA_026419925.1

•Harpia harpyja(Harpy eagle (primary hap 2022 refseq))(info)GCF_026419915.1

•Harpia harpyja(Harpy eagle (primary hap 2022 genbank))(info)GCA_026419915.1

Gypaetus

Gypaetus barbatus

•Gypaetus barbatus(lammergeier (bGypBar2 alternate hap 2023))(info)GCA_028017155.1

•Gypaetus barbatus(lammergeier (bGypBar2 primary hap 2023))(info)GCA_028022735.1

Morphnus

Morphnus guianensis

•Morphnus guianensis(crested eagle (hap1 2024))(info)GCA_045345505.1

•Morphnus guianensis(crested eagle (hap2 2024))(info)GCA_045345515.1

Aquila

Aquila chrysaetos

Aquila chrysaetos chrysaetos

•Aquila chrysaetos chrysaetos(golden eagle (v1.2 alternate hap 2019))(info)GCA_902153765.1

•Aquila chrysaetos chrysaetos(golden eagle (v1.4 alternate hap 2021))(info)GCA_902153765.2

•Aquila chrysaetos chrysaetos(golden eagle (v1.2 2019))(info)GCF_900496995.1

•Aquila chrysaetos chrysaetos(golden eagle (v1.4 2021))(info)GCF_900496995.4

Astur

Astur gentilis

•Astur gentilis(northern goshawk (v2 primary hap 2022 genbank))(info)GCA_929443795.2

•Astur gentilis(northern goshawk (bAccGen1 v1 alternate hap 2022))(info)GCA_929447715.1

•Astur gentilis(northern goshawk (v1 primary hap 2022 refseq))(info)GCF_929443795.1

Haliaeetus

Haliaeetus albicilla

•Haliaeetus albicilla(white-tailed eagle (primary hap 2022 genbank))(info)GCA_947461875.1

•Haliaeetus albicilla(white-tailed eagle (bHalAlb1.1 alternate hap 2022))(info)GCA_947461935.1

•Haliaeetus albicilla(white-tailed eagle (primary hap 2022 refseq))(info)GCF_947461875.1

•Haliaeetus albicilla(white-tailed eagle (BGI_N329 2014))(info)GCF_000691405.1

•Haliaeetus leucocephalus(bald eagle)(info)GCF_000737465.1

Buteo

Buteo buteo

•Buteo buteo(common buzzard (bButBut1.hap1.1 2024 genbank))(info)GCA_964188355.1

•Buteo buteo(common buzzard (bButBut1.hap2.1 2024))(info)GCA_964188375.1

•Buteo buteo(common buzzard (bButBut1.hap1.1 2024 refseq))(info)GCF_964188355.1

Parabuteo

•Parabuteo unicinctus(Harris's hawk (TCWC 14879 2022))(info)GCA_025311615.1

Cathartidae

Sarcoramphus

Sarcoramphus papa

•Sarcoramphus papa(king vulture (hap2 2024))(info)GCA_037950955.1

•Sarcoramphus papa(king vulture (hap1 2024))(info)GCA_037962945.1

Gymnogyps

Gymnogyps californianus

•Gymnogyps californianus(California condor (v2 813 2022 refseq))(info)GCF_018139145.2

•Gymnogyps californianus(California condor (v1 813 2021 genbank))(info)GCA_018139145.1

•Strix aluco(tawny owl (hap2 2023))(info)GCA_031877785.1

•Strix aluco(tawny owl (hap1 2023))(info)GCA_031877795.1

•Strix aluco(Tawny owl (bStrAlu1hap1 2023))(info)GCF_031877795.1

•Strix occidentalis(spotted owl (hap2 2023))(info)GCA_030819815.1

•Strix uralensis(Ural owl (ZFMK-TIS-50842 2025))(info)GCF_047716275.1

Athene

Athene noctua

•Athene noctua(little owl (hap2.1 2025))(info)GCA_965140185.1

•Athene noctua(little owl (hap1.1 2025))(info)GCA_965140245.1

•Athene noctua(little owl (bAthNoc1.hap1.1 2025))(info)GCF_965140245.1

•Athene cunicularia(burrowing owl)(info)GCF_003259725.1

Otus

•Otus sunia(Oriental scops-owl (oso-nibr-517 2020))(info)GCA_010365825.1

Tytonidae

Tyto

Tyto alba

•Tyto alba(barn owl (U. Lausanne 2021))(info)GCF_018691265.1

•Tyto alba(barn owl BGI_N341 (2014))(info)GCF_000687205.1

•Tyto alba alba(barn owl (2020))(info)GCF_902150015.1

Gruiformes

Rallidae

Laterallus

Laterallus jamaicensis

Laterallus jamaicensis coturniculus

•Laterallus jamaicensis coturniculus(California black rail (168171201 alternate hap 2022))(info)GCA_022605925.1

•Laterallus jamaicensis coturniculus(California black rail (168171201 primary hap 2022))(info)GCA_022605575.1

Rallus

Rallus limicola

•Rallus limicola(Virginia rail (171378401 alternate hap 2022))(info)GCA_022605895.1

•Rallus limicola(Virginia rail (171378401 primary hap 2022))(info)GCA_022605955.1

Porphyrio

Porphyrio hochstetteri

•Porphyrio hochstetteri(South Island takahe (primary hap 2021))(info)GCA_020800305.1

•Porphyrio hochstetteri(South Island takahe (alternate hap 2021))(info)GCA_020801775.1

Gallinula

Gallinula chloropus

•Gallinula chloropus(common moorhen (bGalChl1.hap2.1 2024))(info)GCA_964237395.1

•Gallinula chloropus(common moorhen (bGalChl1.hap1.1 2024))(info)GCA_964237585.1

Gruidae

Balearica

Balearica regulorum

Balearica regulorum gibbericeps

•Balearica regulorum gibbericeps(East African grey crowned-crane (alternate hap 2020))(info)GCA_011004865.1

•Balearica regulorum gibbericeps(East African grey crowned-crane (primary hap 2020 genbank))(info)GCA_011004875.1

•Balearica regulorum gibbericeps(East African grey crowned-crane)(info)GCF_000709895.1

•Balearica regulorum gibbericeps(East African grey crowned-crane (primary hap 2020 refseq))(info)GCF_011004875.1

Grus

Grus americana

•Grus americana(whooping crane (paternal hap 2023))(info)GCA_028858595.1

•Grus americana(whooping crane (maternal hap 2023 refseq))(info)GCF_028858705.1

•Grus americana(whooping crane (maternal hap 2023 genbank))(info)GCA_028858705.1

•Grus grus(Eurasian crane (hap1 2024))(info)GCA_964106855.1

•Calypte anna(Anna's hummingbird (BGI_N300 2019 genbank))(info)GCA_003957555.2

•Calypte anna(Anna's hummingbird (alternate hap BGI_N300 2018))(info)GCA_003957575.1

•Calypte anna(Anna's hummingbird (BGI_N300 2019 refseq))(info)GCF_003957555.1

Phaethornis

Phaethornis superciliosus

•Phaethornis superciliosus(long-tailed hermit (PSU5 alternate hap 2022))(info)GCA_023637925.1

•Phaethornis superciliosus(long-tailed hermit (v1 PSU5 primary hap 2022))(info)GCA_023637945.1

•Phaethornis superciliosus(long-tailed hermit (v2 PSU5 primary hap 2025))(info)GCA_023637945.2

Heliangelus

Heliangelus exortis

•Heliangelus exortis(tourmaline sunangel (hap1 2024 genbank))(info)GCA_036169615.1

•Heliangelus exortis(tourmaline sunangel (hap2 2024))(info)GCA_036172335.1

•Heliangelus exortis(tourmaline sunangel (hap1 2024 refseq))(info)GCF_036169615.1

•Apus apus(common swift (bApuApu2 alternate hap 2021))(info)GCA_020740585.1

•Apus apus(common swift (bApuApu2 2021 genbank))(info)GCA_020740795.1

•Apus apus(common swift (primary hap 2021 refseq))(info)GCF_020740795.1

Chaetura

Chaetura pelagica

•Chaetura pelagica(chimney swift (M959 v1.1 2014))(info)GCF_000747805.2

•Chaetura pelagica(chimney swift (M959 v1.0 2014))(info)GCF_000747805.1

Hemiprocninae

Hemiprocne

Hemiprocne comata

•Hemiprocne comata(whiskered treeswift (bHemCom1 alternate hap 2021))(info)GCA_020745695.1

•Hemiprocne comata(whiskered treeswift (primary hap 2021))(info)GCA_020745705.1

•Nyctibius grandis(great potoo (bNycGra1 alternate hap 2020))(info)GCA_013368595.1

•Nyctibius grandis(great potoo (primary hap 2020 genbank))(info)GCA_013368605.1

•Nyctibius grandis(great potoo (primary hap 2020 refseq))(info)GCF_013368605.1

•Podargus strigoides(tawny frogmouth (bPodStr1 alternate hap 2023))(info)GCA_028020675.1

•Podargus strigoides(tawny frogmouth (bPodStr1 primary hap 2023))(info)GCA_028020825.1

Aegothelidae

Aegotheles

Aegotheles albertisi

•Aegotheles albertisi(bird A.albertisi (hap2 2024))(info)GCA_039906465.1

•Aegotheles albertisi(bird A.albertisi (hap1 2024))(info)GCA_039906565.1

Caprimulgidae

Caprimulginae

Caprimulgus

Caprimulgus europaeus

•Caprimulgus europaeus(Eurasian nightjar (primary hap 2021))(info)GCA_907165065.1

•Caprimulgus europaeus(Eurasian nightjar (alternate hap 2021))(info)GCA_907165095.1

Antrostomus

Antrostomus carolinensis

•Antrostomus carolinensis(chuck-will's-widow (BGI_N321 v2 2014))(info)GCF_000700745.2

•Antrostomus carolinensis(chuck-will's-widow (BGI_N321 v1 2014))(info)GCF_000700745.1

•Alca torda(razorbill (alternate hap 2006_11_07_Graehlm_vinge_78 2019))(info)GCA_008658355.1

•Alca torda(razorbill (2006_11_07_Graehlm_vinge_78 2019))(info)GCA_008658365.1

Laridae

Sterna

Sterna hirundo

•Sterna hirundo(common tern (primary hap 2019))(info)GCA_009819605.1

•Sterna hirundo(common tern (alternate hap 2019))(info)GCA_009819645.1

Rissa

Rissa tridactyla

•Rissa tridactyla(black-legged kittiwake (bRisTri1.patW 2023 genbank))(info)GCA_028500815.1

•Rissa tridactyla(black-legged kittiwake (bRisTri1.mat 2023))(info)GCA_028501385.1

•Rissa tridactyla(black-legged kittiwake (bRisTri1 2023 refseq))(info)GCF_028500815.1

Chroicocephalus

Chroicocephalus ridibundus

•Chroicocephalus ridibundus(black-headed gull (Kunming 2023))(info)GCA_030820635.1

•Chroicocephalus ridibundus(black-headed gull (primary hap 2024 genbank))(info)GCA_963924245.1

•Chroicocephalus ridibundus(black-headed gull (primary hap 2024 refseq))(info)GCF_963924245.1

Larus

•Larus fuscus(lesser black-backed gull (primary hap 2024))(info)GCA_963932225.1

Larus michahellis

•Larus michahellis(yellow-legged gull (bLarMic1.1_alternate_haplotype 2024))(info)GCA_964199725.1

•Larus michahellis(yellow-legged gull (primary hap 2024))(info)GCA_964199755.1

•Larus michahellis(yellow-legged gull (primary hap 2024))(info)GCF_964199755.1

Larus argentatus

•Larus argentatus(herring gull (hap2 2024))(info)GCA_964417125.1

•Larus argentatus(herring gull (hap1 2024))(info)GCA_964417175.1

Charadriidae

Pluvialis

Pluvialis apricaria

•Pluvialis apricaria(Eurpoean golden plover (bPluApr1 alternate hap 2021))(info)GCA_017639475.1

•Pluvialis apricaria(European golden plover (primary hap 2021))(info)GCA_017639485.1

Vanellus

•Vanellus vanellus(northern lapwing (hap1.1 2025))(info)GCA_965231255.1

Charadrius

•Charadrius vociferus(killdeer)(info)GCF_000708025.1

Scolopacidae

Numenius

Numenius arquata

•Numenius arquata(Eurasian curlew (hap2 2024))(info)GCA_964059295.1

•Numenius arquata(Eurasian curlew (hap1 2024))(info)GCA_964106895.1

•Numenius arquata(Eurasian curlew (bNumArq3.hap1.1 2024))(info)GCF_964106895.1

Calidris

•Calidris pugnax(ruff)(info)GCF_001431845.1

Tauraco erythrolophus

•Tauraco erythrolophus(red-crested turaco (alternate hap 2019))(info)GCA_009764505.1

•Tauraco erythrolophus(red-crested turaco (primary hap 2019))(info)GCA_009769465.1

•Tauraco erythrolophus(red-crested turaco (2014 BGI))(info)GCF_000709365.1

•Cuculus canorus(common cuckoo (bCucCan1 alternate hap 2021))(info)GCA_017976305.1

•Cuculus canorus(common cuckoo (bCucCan1 primary hap 2021 genbank))(info)GCA_017976375.1

•Cuculus canorus(common cuckoo (bCucCan1 primary hap 2021 refseq))(info)GCF_017976375.1

•Cuculus canorus(common cuckoo (BGI 2014))(info)GCF_000709325.1

Phaenicophaeus

•Phaenicophaeus curvirostris(chestnut-breasted malkoha (KB17595 2023))(info)GCF_032191515.1

Otidiformes

Otididae

Chlamydotis

Chlamydotis macqueenii

•Chlamydotis macqueenii(Macqueen's bustard (maternal hap 2024))(info)GCA_036417535.1

•Chlamydotis macqueenii(Macqueen's bustard (paternal 2024))(info)GCA_036418225.1

•Chlamydotis macqueenii(Macqueen's bustard (BGI_N324 2014))(info)GCF_000695195.1

•Pterocles gutturalis(yellow-throated sandgrouse (alternate hap 2019))(info)GCA_009769505.1

•Pterocles gutturalis(yellow-throated sandgrouse (primary hap 2019))(info)GCA_009769525.1

•Pterocles gutturalis(yellow-throated sandgrouse (BGI_N339 2014 BGI))(info)GCF_000699245.1

•Columba livia(rock pigeon (Tarim TR01 2023))(info)GCA_032719375.1

•Columba livia(rock pigeon (v1 racing homer maternal hap 2024))(info)GCA_036010775.1

•Columba livia(rock pigeon (v2 racing homer maternal hap 2024))(info)GCA_036010775.2

•Columba livia(rock pigeon (v1 racing homer paternal W 2024))(info)GCA_036013475.1

•Columba livia(rock pigeon (v2 racing homer 2024 genbank))(info)GCA_036013475.2

•Columba livia(rock pigeon (v2 racing homer 2024 refseq))(info)GCF_036013475.1

•Columba livia(rock pigeon (Danish tumbler 2013 BGI))(info)GCF_000337935.1

Caloenas

Caloenas nicobarica

•Caloenas nicobarica(Nicobar pigeon (hap2 2024))(info)GCA_036010745.1

•Caloenas nicobarica(Nicobar pigeon (hap1 2024 genbank))(info)GCA_036013445.1

•Caloenas nicobarica(Nicobar pigeon (hap1 2024 refseq))(info)GCF_036013445.1

Patagioenas

Patagioenas fasciata

•Patagioenas fasciata(band-tailed pigeon (v1 hap2 2024 genbank))(info)GCA_036971685.1

•Patagioenas fasciata(band-tailed pigeon (v2 hap2 2025))(info)GCA_036971685.2

•Patagioenas fasciata(band-tailed pigeon (v1 hap2 2024 refseq))(info)GCF_036971685.1

•Patagioenas fasciata(band-tailed pigeon (hap1 2025))(info)GCF_037038585.1

Streptopelia

Streptopelia turtur

•Streptopelia turtur(European turtle dove (v1.1 primary hap 2019))(info)GCA_901699155.1

•Streptopelia turtur(European turtle dove (v1.2 2021))(info)GCA_901699155.2

•Streptopelia turtur(European turtle dove (v1.1 alternate hap 2019))(info)GCA_901699165.1

•Streptopelia turtur(European turtle dove (v1.2 alternate hap 2021))(info)GCA_901699165.2

Streptopelia decaocto

•Streptopelia decaocto(Eurasian collared-dove (bStrDea1.hap1.1 2024))(info)GCA_964273445.1

•Streptopelia decaocto(Eurasian collared-dove (bStrDea1.hap2.1 2024))(info)GCA_964273585.1

Nesoenas

Nesoenas mayeri

•Nesoenas mayeri(pink pigeon (alternate hap 2023))(info)GCA_963082445.1

•Nesoenas mayeri(pink pigeon (primary hap 2023))(info)GCA_963082525.1

Mesitornithiformes

Mesitornithidae

Mesitornis

•Mesitornis unicolor(brown roatelo)(info)GCF_000695765.1

Phoenicopterus ruber ruber

•Phoenicopterus ruber ruber(American flamingo (primary hap 2019))(info)GCA_009819775.1

•Phoenicopterus ruber ruber(American flamingo (alternate hap 2019))(info)GCA_009819805.1

•Ciconia maguari(maguari stork (primary hap 2021))(info)GCA_017639555.1

•Ciconia maguari(maguari stork (bCicMag1 alternate hap 2021))(info)GCA_017639665.1

•Ciconia boyciana(Oriental stork (2023))(info)GCF_034638445.1

Mycteria

•Mycteria americana(wood stork (Jacksonville Zoo and Gardens JAX WOST 10 2024))(info)GCF_035582795.1

Pelecaniformes

Threskiornithidae

Theristicus

Theristicus caerulescens

•Theristicus caerulescens(plumbeous ibis (primary hap 2021))(info)GCA_020745775.1

•Theristicus caerulescens(plumbeous ibis (bTheCae1 alternate hap 2021))(info)GCA_020745805.1

Platalea

Platalea leucorodia

•Platalea leucorodia(Eurasian spoonbill (hap2.1 2025))(info)GCA_965183785.1

•Platalea leucorodia(Eurasian spoonbill (hap1.1 2025))(info)GCA_965183815.1

Nipponia

•Nipponia nippon(crested ibis (BGI_Y956 2014))(info)GCF_000708225.1

Pelecanidae

Pelecanus

Pelecanus crispus

•Pelecanus crispus(Dalmatian pelican (alternate hap 2023))(info)GCA_030449815.1

•Pelecanus crispus(Dalmatian pelican (primary hap 2023 genbank))(info)GCA_030463565.1

•Pelecanus crispus(Dalmatian pelican (BGI_N334 2014))(info)GCF_000687375.1

•Pelecanus crispus(Dalmatian pelican (primary hap 2023 refseq))(info)GCF_030463565.1

Ardeidae

Ardea

•Ardea alba(great egret (B10K-D-DBG-74 2024))(info)GCA_045788385.1

Egretta

•Egretta garzetta(little egret)(info)GCF_000687185.1

•Spheniscus humboldti(Humboldt's penguin (bSphHub1 primary hap 2022))(info)GCA_027474245.1

•Spheniscus humboldti(Humboldt's penguin (bSphHub1 alternate hap 2022))(info)GCA_027474345.1

Pygoscelis

•Pygoscelis adeliae(Adelie penguin)(info)GCF_000699105.1

Aptenodytes

•Aptenodytes forsteri(emperor penguin)(info)GCF_000699145.1

•Aptenodytes patagonicus(king penguin (2025))(info)GCF_965638725.1

•Gavia stellata(red-throated loon (hap1 2023))(info)GCA_030936125.1

•Gavia stellata(red-throated loon (hap2 2023 genbank))(info)GCA_030936135.1

•Gavia stellata(red-throated loon (hap2 2023 refseq))(info)GCF_030936135.1

•Gavia stellata(red-throated loon (BGI_N328 2014))(info)GCF_000690875.1

•Morus bassanus(northern gannet (hap1 2023))(info)GCA_031468805.1

•Morus bassanus(northern gannet (hap2 2023))(info)GCA_031468815.1

Phalacrocoracidae

Phalacrocorax

Phalacrocorax aristotelis

•Phalacrocorax aristotelis(European shag (alternate hap 2023))(info)GCA_949628205.1

•Phalacrocorax aristotelis(European shag (primary hap 2023 genbank))(info)GCA_949628215.1

•Phalacrocorax aristotelis(European shag (primary hap 2023 refseq))(info)GCF_949628215.1

Phalacrocorax carbo

•Phalacrocorax carbo(great cormorant (primary hap 2024 genbank))(info)GCA_963921805.1

•Phalacrocorax carbo(great cormorant (primary hap 2024 refseq))(info)GCF_963921805.1

•Phalacrocorax carbo(great cormorant (BGI_N336 2014))(info)GCF_000708925.1

•Calonectris borealis(Cory's shearwater (hap1.1 2024))(info)GCA_964195595.1

•Calonectris borealis(Cory's shearwater (hap1.2 2024 genbank))(info)GCA_964195595.2

•Calonectris borealis(Cory's shearwater (hap2.1 2024))(info)GCA_964196065.1

•Calonectris borealis(Cory's shearwater (hap2.2 2024))(info)GCA_964196065.2

•Calonectris borealis(Cory's shearwater (hap1.2 2024 refseq))(info)GCF_964195595.1

Fulmarus

•Fulmarus glacialis(northern fulmar)(info)GCF_000690835.1

•Rhynochetos jubatus(kagu (bRhyJub1 primary hap 2023))(info)GCA_027574665.1

•Rhynochetos jubatus(kagu (bRhyJub1 alternate hap 2023))(info)GCA_027595965.1

Eurypygidae

Eurypyga

•Eurypyga helias(sunbittern)(info)GCF_000690775.1

•Phaethon aethereus(red-billed tropicbird (maternal hap 2024))(info)GCA_964289735.1

•Phaethon aethereus(red-billed tropicbird (paternal hap 2024))(info)GCA_964289755.1

•Phaethon lepturus(white-tailed tropicbird)(info)GCF_000687285.1

•Opisthocomus hoazin(hoatzin (hap1 2023 genbank))(info)GCA_030867145.1

•Opisthocomus hoazin(hoatzin (hap2 2023))(info)GCA_030867165.1

•Opisthocomus hoazin(hoatzin (BGI_N306 2014))(info)GCF_000692075.1

•Opisthocomus hoazin(hoatzin (hap1 2023 refseq))(info)GCF_030867145.1

Dromaius novaehollandiae

•Dromaius novaehollandiae(emu (v1 ZJU1.0 2020))(info)GCA_016128335.1

•Dromaius novaehollandiae(emu (v2 ZJU1.0 2023))(info)GCA_016128335.2

•Dromaius novaehollandiae(emu (hap2 2024))(info)GCA_036417515.1

•Dromaius novaehollandiae(emu (hap1 2024))(info)GCF_036370855.1

•Dromaius novaehollandiae(emu (2018))(info)GCF_003342905.1

•Rhea pennata(lesser rhea (primary hap 2023 genbank))(info)GCA_028389875.1

•Rhea pennata(lesser rhea (bPtePen1 alternate hap 2023))(info)GCA_028389885.1

•Rhea pennata(lesser rhea (bPtePen1 primary hap 2023 refseq))(info)GCF_028389875.1

•Rhea pennata(lesser rhea (206185 2018))(info)GCA_003342835.1

•Rhea americana(greater rhea)(info)GCA_003343005.1

•Apteryx mantelli(North Island brown kiwi (hap1 2024 genbank))(info)GCA_036417845.1

•Apteryx mantelli(North Island brown kiwi (hap2 2024))(info)GCA_036417975.1

•Apteryx mantelli(North Island brown kiwi (hap1 2024 refseq))(info)GCF_036417845.1

•Apteryx mantelli mantelli(brown kiwi)(info)GCF_001039765.1

•Apteryx rowi(Okarito brown kiwi)(info)GCF_003343035.1

•Struthio camelus(African ostrich (bStrCam1hap2 2024))(info)GCA_040807015.1

•Struthio camelus(African ostrich (bStrCam1hap1 2024))(info)GCF_040807025.1

•Struthio camelus australis(African ostrich)(info)GCF_000698965.1

•Eudromia elegans(elegant crested-tinamou (YG026_01 alternate hap 2025))(info)GCA_047922975.1

•Eudromia elegans(elegant crested-tinamou (YG026_01 primary hap 2025))(info)GCA_047922985.1

Nothoprocta

•Nothoprocta perdicaria(Chilean tinamou)(info)GCF_003342845.1

Tinamus

•Tinamus guttatus(white-throated tinamou)(info)GCF_000705375.1

•Gavialis gangeticus(gharial (hap2 2023))(info)GCA_030020295.1

•Gavialis gangeticus(gharial (hap1 2023))(info)GCA_030020385.1

•Gavialis gangeticus(gharial (Ggan-Ray 2016))(info)GCF_001723915.1

Crocodylidae

Crocodylus

•Crocodylus porosus(Australian saltwater crocodile)(info)GCF_001723895.1

Alligatoridae

Alligatorinae

Alligator

Alligator mississippiensis

•Alligator mississippiensis(American alligator (2023 genbank))(info)GCA_030867065.1

•Alligator mississippiensis(American alligator (2023 refseq))(info)GCF_030867095.1

•Alligator mississippiensis(American alligator (chrom assembly 2023 genbank))(info)GCA_030867095.1

•Alligator mississippiensis(American alligator (KSC_2009_1 2016))(info)GCF_000281125.3

•Alligator sinensis(Chinese alligator)(info)GCF_000455745.1

•Actinemys marmorata(Northwestern pond turtle (WTP2003 alternate hap 2022))(info)GCA_022086895.1

•Actinemys marmorata(Northwestern pond turtle (WTP2003 primary hap 2022))(info)GCA_022086475.1

Actinemys pallida

•Actinemys pallida(Southwestern pond turtle (HBS135687 alternate hap 2022))(info)GCA_023634275.1

•Actinemys pallida(Southwestern pond turtle (HBS135687 primary hap 2022))(info)GCA_023634205.1

Malaclemys

Malaclemys terrapin

Malaclemys terrapin pileata

•Malaclemys terrapin pileata(diamondback terrapin (hap2 rMalTer1 2023))(info)GCA_027887205.1

•Malaclemys terrapin pileata(diamondback terrapin (hap1 2023 refseq))(info)GCF_027887155.1

•Malaclemys terrapin pileata(diamondback terrapin (hap1 2023 genbank))(info)GCA_027887155.1

Emys

Emys orbicularis

•Emys orbicularis(European pond turtle (hap1 2023 genbank))(info)GCA_028017835.1

•Emys orbicularis(European pond turtle (hap2 rEmyOrb1 2023))(info)GCA_028017845.1

•Emys orbicularis(European pond turtle (hap1 2023 refseq))(info)GCF_028017835.1

Chrysemys

Chrysemys picta

Chrysemys picta bellii

•Chrysemys picta bellii(western painted turtle (v303 2014))(info)GCF_000241765.3

•Chrysemys picta bellii(western painted turtle (v304 RCT428 2020))(info)GCF_000241765.4

•Chrysemys picta bellii(western painted turtle (hap1 R12L10 2024))(info)GCA_035221575.1

•Chrysemys picta bellii(western painted turtle (hap2 R12L10 2024))(info)GCA_035221595.1

•Chrysemys picta bellii(western painted turtle (R12L10 2023 refseq))(info)GCF_011386835.1

•Chrysemys picta bellii(western painted turtle (v5 RCT428 2020))(info)GCF_000241765.5

Trachemys

Trachemys scripta

•Trachemys scripta elegans(red-eared slider turtle)(info)GCF_013100865.1

Terrapene

•Terrapene triunguis(three-toed box turtle)(info)GCF_002925995.2

Testudinidae

Gopherus

Gopherus evgoodei

•Gopherus evgoodei(Goodes thornscrub tortoise (Sinaloan alternate hap 2019))(info)GCA_007399395.1

•Gopherus evgoodei(Goodes thornscrub tortoise (Sinaloan 2019))(info)GCF_007399415.2

Gopherus flavomarginatus

•Gopherus flavomarginatus(Mexican gopher tortoise (WGS:JAMKFD01 2022))(info)GCA_025201965.1

•Gopherus flavomarginatus(Mexican gopher tortoise (WGS:JAMKFC01 2022))(info)GCF_025201925.1

Chelonoidis

Chelonoidis nigra species complex

Chelonoidis abingdonii

•Chelonoidis abingdonii(Abingdon island giant tortoise (Lonesome George 2018))(info)GCF_003597395.1

•Chelonoidis abingdonii(Abingdon island giant tortoise (Lonesome George 2025))(info)GCF_003597395.2

•Pangshura tecta(Indian roofed turtle (hap2 2024))(info)GCA_045781085.1

•Pangshura tecta(Indian roofed turtle (hap1 2024))(info)GCA_045781095.1

Geoemydinae

Mauremys

•Mauremys reevesii(Reeves's turtle)(info)GCF_016161935.1

•Mauremys mutica(yellowpond turtle (Southern MM-2020 2021))(info)GCF_020497125.1

•Dermochelys coriacea(leatherback sea turtle (v1 alternate hap 2019))(info)GCA_009762595.1

•Dermochelys coriacea(leatherback sea turtle (v2 alternate hap 2020))(info)GCA_009762595.2

•Dermochelys coriacea(leatherback sea turtle (v1 2019 genbank G10K))(info)GCA_009764565.1

•Dermochelys coriacea(leatherback sea turtle (v3 2020 refseq G10K))(info)GCF_009764565.2

•Dermochelys coriacea(leatherback sea turtle (v4 primary hap 2021 refseq))(info)GCF_009764565.3

Cheloniidae

Chelonia

Chelonia mydas

•Chelonia mydas(green sea turtle (v2 alternate hap 2021))(info)GCA_015220195.2

•Chelonia mydas(green sea turtle (v1 2020))(info)GCF_015237465.1

•Chelonia mydas(green sea turtle (v2 primary hap 2021))(info)GCF_015237465.2

•Chelonia mydas(green sea turtle (BGI 2013))(info)GCF_000344595.1

Caretta

Caretta caretta

•Caretta caretta(loggerhead turtle (hap1 2025 genbank))(info)GCA_965140235.1

•Caretta caretta(loggerhead turtle (hap2 2025))(info)GCA_965140275.1

•Caretta caretta(loggerhead turtle (SJ_126:Eziel1 2022))(info)GCF_023653815.1

•Caretta caretta(loggerhead turtle (hap1 2025 refseq))(info)GCF_965140235.1

Lepidochelys

Lepidochelys olivacea

•Lepidochelys olivacea(Pacific ridley (hap2 2025))(info)GCA_965140255.1

•Lepidochelys olivacea(Pacific ridley (hap1 2025))(info)GCA_965140295.1

Lepidochelys kempii

•Lepidochelys kempii(Atlantic ridley (rLepKem1 hap2 2025 genbank))(info)GCA_965140265.1

•Lepidochelys kempii(Atlantic ridley (rLepKem1 hap1 2025))(info)GCA_965140285.1

•Lepidochelys kempii(Atlantic ridley (rLepKem1 hap2 2025 refseq))(info)GCF_965140265.1

Natator

Natator depressus

•Natator depressus(flatback sea turtle (hap2 2025))(info)GCA_965152195.1

•Natator depressus(flatback sea turtle (hap1 2025 genbank))(info)GCA_965152275.1

•Natator depressus(flatback sea turtle (hap1 2025 refseq))(info)GCF_965152275.1

Eretmochelys

Eretmochelys imbricata

•Eretmochelys imbricata(hawksbill sea turtle (hap1 2025))(info)GCA_965152235.1

•Eretmochelys imbricata(hawksbill sea turtle (hap2 2025))(info)GCA_965152285.1

•Eretmochelys imbricata(hawksbill sea turtle (B2_1 2023))(info)GCA_030012505.1

Chelydroidea

Kinosternidae

Sternotherus

•Sternotherus odoratus(eastern musk turtle (primary hap 2023))(info)GCA_032164245.1

Chelydridae

Macrochelys

Macrochelys suwanniensis

•Macrochelys suwanniensis(Suwannee snapping turtle (hap1 2023))(info)GCA_033296515.1

•Macrochelys suwanniensis(Suwannee snapping turtle (hap2 2023))(info)GCA_033349115.1

Trionychia

Carettochelyidae

Carettochelys

Carettochelys insculpta

•Carettochelys insculpta(pitted-shelled turtle (YL-2023 2023 genbank))(info)GCA_033958435.1

•Carettochelys insculpta(pitted-shelled turtle (YL-2023 2023 refseq))(info)GCF_033958435.1

Trionychidae

Pelodiscus

Pelodiscus sinensis

•Pelodiscus sinensis(Chinese soft-shelled turtle (Daiwa-1 2012))(info)GCF_000230535.1

•Pelodiscus sinensis(Chinese soft-shelled turtle (JC-2024 2025))(info)GCF_049634645.1

•Myuchelys georgesi(Bellinger river turtle (v1 BRST_UC0152H_USYD 2024))(info)GCA_040894355.1

•Myuchelys georgesi(Bellinger river turtle (v2 BRST_UC0152H_USYD 2025))(info)GCA_040894355.2

Emydura

Emydura macquarii

•Emydura macquarii macquarii(Murray river turtle (Brisbane River MOO-44397 2024))(info)GCF_026122565.2

Podocnemididae

Podocnemis

Podocnemis expansa

•Podocnemis expansa(giant South American river turtle (hap1 2024))(info)GCA_045364785.1

•Podocnemis expansa(giant South American river turtle (hap2 2024))(info)GCA_045364815.1