GenArk taxonomy - VGP

View list of species as table for VGP

1294 accessions

Bilateria

Deuterostomia

•Ambystoma mexicanum(axolotl (DD151 2021))(info)GCA_002915635.3

•Ambystoma mexicanum(axolotl (Mex_15411 2024))(info)GCF_040938575.1

Salamandridae

Pleurodelinae

Pleurodeles

•Pleurodeles waltl(Iberian ribbed newt (20211129_DDA 2022 genbank))(info)GCA_026652325.1

Triturus

•Triturus cristatus(warty newt (primary hap 2024))(info)GCA_964204655.1

Lissotriton

•Lissotriton helveticus(palmate newt (primary hap 2024))(info)GCA_964261635.1

•Lissotriton vulgaris(common newt (primary hap 2024))(info)GCA_964263255.1

•Spea bombifrons(plains spadefoot toad (alternate hap 2022))(info)GCA_027382365.2

•Spea bombifrons(plains spadefoot toad (primary hap 2022))(info)GCF_027358695.1

Pelobates

Pelobates fuscus

•Pelobates fuscus(common spadefoot toad (primary hap 2024 genbank))(info)GCA_036172605.1

•Pelobates fuscus(common spadefoot toad (primary hap 2024 refseq))(info)GCF_036172605.1

Pelodytidae

Pelodytes

•Pelodytes ibericus(Iberian parsley frog (aPelIbe1 2024))(info)GCA_036172795.1

•Discoglossus pictus(painted frog (primary hap 2022))(info)GCA_027410445.1

•Discoglossus pictus(painted frog (alternate hap 2022))(info)GCA_027410455.1

Bombinatoridae

Bombina

Bombina bombina

•Bombina bombina(fire-bellied toad (alternate hap 2023))(info)GCA_027579415.1

•Bombina bombina(fire-bellied toad (primary hap 2023 refseq))(info)GCF_027579735.1

Bombina variegata

•Bombina variegata(yellow-bellied toad (paternal hap 2024))(info)GCA_964205295.1

•Bombina variegata(yellow-bellied toad (maternal hap 2024))(info)GCA_964205305.1

Dendropsophus ebraccatus

•Dendropsophus ebraccatus(hourglass treefrog (maternal 2023 genbank))(info)GCA_027789725.1

•Dendropsophus ebraccatus(hourglass treefrog (paternal 2023 genbank))(info)GCA_027789765.1

•Dendropsophus ebraccatus(hourglass treefrog (paternal 2023 refseq))(info)GCF_027789765.1

Hylini

Hyla

Hyla sarda

•Hyla sarda(Sardinian treefrog (hap2 2023))(info)GCA_029493135.1

•Hyla sarda(Sardinian treefrog (hap1 2023 refseq))(info)GCF_029499605.1

•Leptodactylus fuscus(rufous frog (hap1 2023))(info)GCA_031893025.1

•Leptodactylus fuscus(rufous frog (hap2 2023))(info)GCA_031893055.1

Leiuperinae

Engystomops

Engystomops pustulosus

•Engystomops pustulosus(Tungara frog (aEngPut4 maternal hap 2024 genbank))(info)GCA_040894005.1

•Engystomops pustulosus(Tungara frog (aEngPut4 paternal hap 2024))(info)GCA_040894015.1

•Engystomops pustulosus(Tungara frog (aEngPut4 maternal hap 2024 refseq))(info)GCF_040894005.1

•Ranitomeya imitator(mimic poison frog (primary hap 2023 genbank))(info)GCA_032444005.1

•Ranitomeya imitator(mimic poison frog (primary hap 2023 refseq))(info)GCF_032444005.1

Eleutherodactylidae

Eleutherodactylinae

Eleutherodactylus

Eleutherodactylus coqui

•Eleutherodactylus coqui(Puerto Rican coqui (hap2 2024))(info)GCA_035609135.1

•Eleutherodactylus coqui(Puerto Rican coqui (hap1 2024 genbank))(info)GCA_035609145.1

•Eleutherodactylus coqui(Puerto Rican coqui (hap1 2024 refseq))(info)GCF_035609145.1

Aromobatidae

Anomaloglossinae

Anomaloglossus

Anomaloglossus baeobatrachus

•Anomaloglossus baeobatrachus(frog A.baeobatrachus (hap2 2025))(info)GCA_048569465.1

•Anomaloglossus baeobatrachus(frog A.baeobatrachus (hap1 2025))(info)GCA_048569485.1

Bufonidae

Bufo

Bufo bufo

•Bufo bufo(common toad (alternate hap 2021))(info)GCA_905171715.1

•Bufo bufo(common toad (primary hap 2021))(info)GCF_905171765.1

Gastrophryne carolinensis

•Gastrophryne carolinensis(eastern narrow-mouthed toad (hap2 2023))(info)GCA_027917415.1

•Gastrophryne carolinensis(eastern narrow-mouthed toad (primary haplotype 2023))(info)GCA_027917425.1

Hyperoliidae

Hyperolius

Hyperolius riggenbachi

•Hyperolius riggenbachi(Riggenbach's reed frog (aHypRig1 alternate hap 2024))(info)GCA_040937895.1

•Hyperolius riggenbachi(Riggenbach's reed frog (aHypRig1 primary hap 2024))(info)GCF_040937935.1

Pseudophryne corroboree

•Pseudophryne corroboree(corroboree frog (hap2 2023 genbank))(info)GCA_028390025.1

•Pseudophryne corroboree(corroboree frog (hap1 2023))(info)GCA_028390055.1

•Pseudophryne corroboree(corroboree frog (hap2 2023 refseq))(info)GCF_028390025.1

Limnodynastidae

Mixophyes

Mixophyes fleayi

•Mixophyes fleayi(Fleay's barred frog (hap1 2024))(info)GCA_038048845.1

•Mixophyes fleayi(Fleay's barred frog (hap2 2024))(info)GCA_038048865.1

madagascariensis group

Mantella aurantiaca

•Mantella aurantiaca(golden mantella (hap2 2025))(info)GCA_048565335.1

•Mantella aurantiaca(golden mantella (hap1 2025))(info)GCA_048565345.1

Ranidae

Rana

Rana temporaria

•Rana temporaria(common frog (alternate hap 2021))(info)GCA_905171725.1

•Rana temporaria(European common frog (2021))(info)GCF_905171775.1

Pelophylax

Pelophylax lessonae

•Pelophylax lessonae(pool frog (hap1 2025))(info)GCA_965119305.1

•Pelophylax lessonae(pool frog (hap2 2025))(info)GCA_965119315.1

Pipoidea

Rhinophrynidae

Rhinophrynus

Rhinophrynus dorsalis

•Rhinophrynus dorsalis(Mexican burrowing toad (hap1 2024))(info)GCA_037306005.1

•Rhinophrynus dorsalis(Mexican burrowing toad (hap2 2024))(info)GCA_037306015.1

•Xenopus petersii(Peter's clawed frog (aXenPet1 2024))(info)GCA_038501915.1

•Xenopus petersii(Peter's clawed frog (aXenPet1 2024))(info)GCA_038501925.1

Ascaphidae

Ascaphus

Ascaphus truei

•Ascaphus truei(tailed frog (A.truei hap2 2024))(info)GCA_040206675.1

•Ascaphus truei(tailed frog (A.truei hap1 2024))(info)GCA_040206685.1

Gymnophiona

Rhinatrematidae

Rhinatrema

Rhinatrema bivittatum

•Rhinatrema bivittatum(two-lined caecilian (v1.2 2021 genbank))(info)GCA_901001135.2

•Rhinatrema bivittatum(two-lined caecilian (alternate hap 2019))(info)GCA_901001175.1

•Rhinatrema bivittatum(two-lined caecilian (v1.1 2019 refseq))(info)GCF_901001135.1

Siphonopidae

Microcaecilia

Microcaecilia unicolor

•Microcaecilia unicolor(tiny Cayenne caecilian (v2 2021))(info)GCA_901765095.2

•Microcaecilia unicolor(tiny Cayenne caecilian (alternate hap 2019))(info)GCA_901765105.1

•Microcaecilia unicolor(tiny Cayenne caecilian (v1 2019))(info)GCF_901765095.1

Dermophiidae

Geotrypetes

Geotrypetes seraphini

•Geotrypetes seraphini(Gaboon caecilian (alternate hap 2019))(info)GCA_902459495.1

•Geotrypetes seraphini(Gaboon caecilian (v1.1 2019 genbank))(info)GCA_902459505.1

•Geotrypetes seraphini(Gaboon caecilian (v1.2 2021 genbank))(info)GCA_902459505.2

•Geotrypetes seraphini(Gaboon caecilian (v1.1 2019 refseq))(info)GCF_902459505.1

•Phascolarctos cinereus(koala (Bilbo 61053 2022))(info)GCA_003287225.2

Phalangeridae

Trichosurus

Trichosurus vulpecula

•Trichosurus vulpecula(common brushtail (genbank 2020))(info)GCA_011100635.1

•Trichosurus vulpecula(common brushtail (alternate hap 2020))(info)GCA_011100645.1

•Trichosurus vulpecula(common brushtail (refseq 2020))(info)GCF_011100635.1

Macropodidae

Notamacropus

Notamacropus eugenii

•Notamacropus eugenii(tammar wallaby (v1 primary hap 2023 genbank))(info)GCA_028372415.1

•Notamacropus eugenii(tammar wallaby (alternate hap 2023))(info)GCA_028389975.1

•Notamacropus eugenii(tammar wallaby (Barry hap1 2025))(info)GCA_048593335.1

•Notamacropus eugenii(tammar wallaby (Barry hap2 2025))(info)GCA_048593345.1

•Notamacropus eugenii(tammar wallaby (v2 primary hap 2023 refseq))(info)GCF_028372415.1

•Dromiciops gliroides(monito del monte (mDroGli1 alternate hap 2021))(info)GCA_019395325.1

•Dromiciops gliroides(monito del monte (primary hap 2021 refseq))(info)GCF_019393635.1

Monodelphis domestica

•Monodelphis domestica(gray short-tailed opossum (mMonDom1 alternate hap 2023))(info)GCA_027917375.1

•Monodelphis domestica(gray short-tailed opossum (mMonDom1 primary hap 2023 refseq))(info)GCF_027887165.1

Peramelemorphia

Peramelidae

Macrotis

•Macrotis lagotis(bilby (mMagLag1 2024))(info)GCA_037893015.1

Notoryctemorphia

Notoryctidae

Notoryctes

•Notoryctes typhlops(marsupial mole (Waite Creek area ABTC07570 2025))(info)GCA_048126345.1

•Sarcophilus harrisii(Tasmanian devil (McLovin hap1 2025))(info)GCA_048593225.1

•Sarcophilus harrisii(Tasmanian devil (McLovin hap2 2025))(info)GCA_048593325.1

•Sarcophilus harrisii(Tasmanian devil (primary hap 2019))(info)GCF_902635505.1

Sminthopsis

Sminthopsis crassicaudata

•Sminthopsis crassicaudata(fat-tailed dunnart (SCR6 hap1 2025))(info)GCA_048593235.1

•Sminthopsis crassicaudata(fat-tailed dunnart (SCR6 hap2 2025))(info)GCA_048593295.1

Dasyurus

Dasyurus maculatus

•Dasyurus maculatus(spotted-tailed quoll (Chaos hap2 2025))(info)GCA_048593245.1

•Dasyurus maculatus(spotted-tailed quoll (Chaos hap1 2025))(info)GCA_048593285.1

Bos indicus x Bos taurus

•Bos indicus x Bos taurus(hybrid cattle (Angus x Brahman F1 Angus haplotype 2018))(info)GCA_003369685.2

•Bos indicus x Bos taurus(hybrid cattle (Angus x Brahman F1 Brahman haplotype 2018))(info)GCF_003369695.1

Caprinae

Ovis

•Ovis aries(sheep (hu hu3095 2024))(info)GCA_040805955.1

•Ovis canadensis(bighorn sheep (v2 Bighorn MfBH-ARS-UI-01 2024))(info)GCF_042477335.2

Capra

•Capra hircus(Inner Mongolia cashmere goat (2024))(info)GCA_041735815.1

•Dama dama(fallow deer (maternal hap SK-2024 2025))(info)GCA_048126745.1

•Dama dama(fallow deer (paternal hap SK-2024 2025))(info)GCA_048127045.1

Cervus

Cervus elaphus

•Cervus elaphus(red deer (alternate hap 2021))(info)GCA_910593805.1

•Cervus elaphus(red deer (2021))(info)GCF_910594005.1

Muntiacinae

Muntiacus

Muntiacus reevesi

•Muntiacus reevesi(Reeves' muntjac (alternate hap 2024))(info)GCA_963930665.1

•Muntiacus reevesi(Reeves' muntjac (primary hap 2024))(info)GCF_963930625.1

•Monodon monoceros(narwhal (Baffin Bay Population NGI 2022))(info)GCA_005190385.3

Phocoenidae

Phocoena

Phocoena sinus

•Phocoena sinus(vaquita (alternate hap mPhoSin1 2019))(info)GCA_008692045.1

•Phocoena sinus(vaquita (mPhoSin1 2019))(info)GCF_008692025.1

Phocoena phocoena

•Phocoena phocoena(harbor porpoise (primary hap 2024 genbank))(info)GCA_963924675.1

•Phocoena phocoena(harbor porpoise (primary hap 2024 refseq))(info)GCF_963924675.1

Delphinidae

Tursiops

Tursiops truncatus

•Tursiops truncatus(common bottlenose dolphin (paternal 2020))(info)GCA_011762515.1

•Tursiops truncatus(common bottlenose dolphin (maternal 2020))(info)GCA_011762535.1

•Tursiops truncatus(common bottlenose dolphin (maternal Y genbank 2020))(info)GCA_011762595.1

•Tursiops truncatus(common bottlenose dolphin (maternal Y refseq 2020))(info)GCF_011762595.1

Pseudorca

Pseudorca crassidens

•Pseudorca crassidens(false killer whale (hap1 2024 genbank))(info)GCA_039906515.1

•Pseudorca crassidens(false killer whale (hap2 2024))(info)GCA_039906525.1

•Pseudorca crassidens(false killer whale (hap1 2024 refseq))(info)GCF_039906515.1

Orcinus

Orcinus orca

•Orcinus orca(killer whale (alternate hap 2022))(info)GCA_937001455.1

•Orcinus orca(killer whale (2022))(info)GCF_937001465.1

Lagenorhynchus

Lagenorhynchus albirostris

•Lagenorhynchus albirostris(white-beaked dolphin (alternate hap 2023))(info)GCA_949774935.1

•Lagenorhynchus albirostris(white-beaked dolphin (primary hap 2023 genbank))(info)GCA_949774975.1

•Lagenorhynchus albirostris(white-beaked dolphin (primary hap 2023 refseq))(info)GCF_949774975.1

Delphinus

Delphinus delphis

•Delphinus delphis(saddleback dolphin (v1 primary hap 2023 genbank))(info)GCA_949987515.1

•Delphinus delphis(saddleback dolphin (alternate hap 2023))(info)GCA_949987525.1

•Delphinus delphis(saddleback dolphin (v1 primary hap 2023 refseq))(info)GCF_949987515.1

•Delphinus delphis(saddleback dolphin (v2 primary hap 2024 refseq))(info)GCF_949987515.2

Stenella

Stenella coeruleoalba

•Stenella coeruleoalba(striped dolphin (primary hap 2023))(info)GCA_951394435.1

•Stenella coeruleoalba(striped dolphin (alternate hap 2023))(info)GCA_951394445.1

Globicephala

Globicephala melas

•Globicephala melas(long-finned pilot whale (v2 primary hap 2024 genbank))(info)GCA_963455315.2

•Globicephala melas(long-finned pilot whale (v1 primary hap 2023))(info)GCF_963455315.1

•Globicephala melas(long-finned pilot whale (v2 primary hap 2024 refseq))(info)GCF_963455315.2

Leucopleurus

Leucopleurus acutus

•Leucopleurus acutus(Atlantic white-sided dolphin (mLagAcu1.hap1.1 2024))(info)GCA_964270905.1

•Leucopleurus acutus(Atlantic white-sided dolphin (mLagAcu1.hap2.1 2024))(info)GCA_964270935.1

Grampus

Grampus griseus

•Grampus griseus(Risso's dolphin (hap1.1 2024))(info)GCA_964374135.1

•Grampus griseus(Risso's dolphin (hap2.1 2024))(info)GCA_964374185.1

Ziphiidae

Mesoplodon

Mesoplodon densirostris

•Mesoplodon densirostris(Blainville's beaked whale (alternate hap 2022))(info)GCA_025094165.1

•Mesoplodon densirostris(Blainville's beaked whale (primary hap 2022 genbank))(info)GCA_025265405.1

•Mesoplodon densirostris(Blainville's beaked whale (primary hap 2022 refseq))(info)GCF_025265405.1

Mesoplodon bidens

•Mesoplodon bidens(Sowerby's beaked whale (hap2 2024))(info)GCA_964148845.1

•Mesoplodon bidens(Sowerby's beaked whale (hap1 2024))(info)GCA_964165515.1

Mesoplodon mirus

•Mesoplodon mirus(True's beaked whale (hap1.1 2024))(info)GCA_964341445.1

•Mesoplodon mirus(True's beaked whale (hap2.1 2024))(info)GCA_964341485.1

Hyperoodon

Hyperoodon ampullatus

•Hyperoodon ampullatus(northern bottlenose whale (primary hap 2023))(info)GCA_949752795.1

•Hyperoodon ampullatus(northern bottlenose whale (alternate hap 2023))(info)GCA_949752845.1

Physeteridae

Kogia

Kogia breviceps

•Kogia breviceps(pygmy sperm whale (mKogBre1 haplotype 1 2022 genbank))(info)GCA_026419965.1

•Kogia breviceps(pygmy sperm whale (mKogBre1 haplotype 2 2022))(info)GCA_026419985.1

•Kogia breviceps(pygmy sperm whale (haplotype 1 2022 refseq))(info)GCF_026419965.1

Iniidae

Inia

Inia geoffrensis

•Inia geoffrensis(boutu (hap1 2024))(info)GCA_036417435.1

•Inia geoffrensis(boutu (hap2 2024))(info)GCA_036417475.1

Mysticeti

Balaenopteridae

Balaenoptera

Balaenoptera musculus

•Balaenoptera musculus(blue whale (alternate hap JJ_BM4_2016_0621 2019))(info)GCA_008658375.1

•Balaenoptera musculus(Blue whale (JJ_BM4_2016_0621 v2 alternate hap 2020))(info)GCA_008658375.2

•Balaenoptera musculus(blue whale (JJ_BM4_2016_0621 v2 2020))(info)GCA_009873245.2

•Balaenoptera musculus(blue whale (JJ_BM4_2016_0621 v3 primary hap 2020))(info)GCF_009873245.2

Balaenoptera ricei

•Balaenoptera ricei(Rice's whale (hap1 2023))(info)GCA_028017805.1

•Balaenoptera ricei(Rice's whale (hap2 2023 genbank))(info)GCA_028023285.1

•Balaenoptera ricei(Rice's whale (hap2 2023 refseq))(info)GCF_028023285.1

Balaenoptera acutorostrata

•Balaenoptera acutorostrata(minke whale (alternate hap 2023))(info)GCA_950005055.1

•Balaenoptera acutorostrata(minke whale (primary hap 2023 refseq))(info)GCF_949987535.1

Balaenoptera borealis

•Balaenoptera borealis(sei whale (hap2.1 2025))(info)GCA_965194725.1

•Balaenoptera borealis(sei whale (hap1.1 2025))(info)GCA_965194805.1

Balaenoptera physalus

•Balaenoptera physalus(fin whale (hap2.1 2025))(info)GCA_965194765.1

•Balaenoptera physalus(fin whale (hap1.1 2025))(info)GCA_965194825.1

Megaptera

•Megaptera novaeangliae(humpback whale (KW2013002 2024))(info)GCA_041834305.1

Eschrichtiidae

Eschrichtius

Eschrichtius robustus

•Eschrichtius robustus(grey whale (primary hap 2023 genbank))(info)GCA_028021215.1

•Eschrichtius robustus(grey whale (mEscRob2 alternate hap 2023))(info)GCA_028021475.1

•Eschrichtius robustus(grey whale (primary hap 2023 refseq))(info)GCF_028021215.1

Balaenidae

Eubalaena

Eubalaena glacialis

•Eubalaena glacialis(North Atlantic right whale (hap2 2023 genbank))(info)GCA_028564815.1

•Eubalaena glacialis(North Atlantic right whale (hap1 2023))(info)GCA_028571275.1

•Eubalaena glacialis(North Atlantic right whale (hap2 + XY 2023 refseq))(info)GCF_028564815.1

Ancodonta

Hippopotamidae

Hippopotamus

Hippopotamus amphibius

Hippopotamus amphibius kiboko

•Hippopotamus amphibius kiboko(hippopotamus (mHipAmp2 hap1 2023))(info)GCA_030028035.1

•Hippopotamus amphibius kiboko(hippopotamus (v2 hap2 2023 refseq))(info)GCF_030028045.1

•Sus scrofa(pig (Bamei 2023))(info)GCA_030704935.1

•Sus scrofa(pig (Wuzhishan WZS1 2025))(info)GCA_048338725.1

•Sus scrofa(pig (Norwegian landrace 2024))(info)GCA_963921485.1

•Camelus dromedarius(Arabian camel (paternal hap 2024 genbank))(info)GCA_036321535.1

•Camelus dromedarius(Arabian camel (hap2 2024))(info)GCA_036321565.1

•Camelus dromedarius(Arabian camel (paternal hap 2024 refseq))(info)GCF_036321535.1

Phyllostomus discolor

•Phyllostomus discolor(pale spear-nosed bat (alternate hap MPI-MPIP 2019))(info)GCA_004115245.1

•Phyllostomus discolor(pale spear-nosed bat (MPI-MPIP v3 mPhyDis1 alternate hap 2020))(info)GCA_004115245.2

•Phyllostomus discolor(pale spear-nosed bat (MPI-MPIP v1 2019))(info)GCF_004126475.1

•Phyllostomus discolor(pale spear-nosed bat (MPI-MPIP v3 mPhyDis1 primary hap 2020))(info)GCF_004126475.2

Desmodontinae

Desmodus

Desmodus rotundus

•Desmodus rotundus(common vampire bat (v1 HL8 alternate hap 2022 genbank))(info)GCA_022682395.1

•Desmodus rotundus(common vampire bat (v2 HL8 alternate hap 2022 genbank))(info)GCA_022682395.2

•Desmodus rotundus(common vampire bat (v1 HL8 primary hap 2022 genbank))(info)GCA_022682495.1

•Desmodus rotundus(common vampire bat (v2 HL8 primary hap 2022 genbank))(info)GCA_022682495.2

•Desmodus rotundus(common vampire bat (v1 HL8 primary hap 2022 refseq))(info)GCF_022682495.1

Stenodermatinae

Artibeus

Artibeus lituratus

•Artibeus lituratus(great fruit-eating bat (v1 hap1 2024))(info)GCA_038363095.1

•Artibeus lituratus(great fruit-eating bat (v2 hap1 2024))(info)GCA_038363095.2

•Artibeus lituratus(great fruit-eating bat (mArtLit1hap2 2024))(info)GCA_038363175.2

Artibeus intermedius

•Artibeus intermedius(great fruit-eating bat (hap1 2024))(info)GCA_038363145.1

•Artibeus intermedius(bat A.intermedius (hap2 2024))(info)GCA_038363225.1

Glossophaginae

Glossophaga

Glossophaga mutica

•Glossophaga mutica(Merriam's long-tongued bat (hap1 2024))(info)GCA_039655065.1

•Glossophaga mutica(Merriam's long-tongued bat (hap2 2024))(info)GCA_039656995.1

Vespertilionidae

Corynorhinus

Corynorhinus townsendii

•Corynorhinus townsendii(Townsend's big-eared bat (haplotype 2 of 2 COTO_CA2020_CCGP 2022))(info)GCA_026230045.1

•Corynorhinus townsendii(Townsend's big-eared bat (haplotype 1 of 2 COTO_CA2020_CCGP 2022))(info)GCA_026230055.1

Antrozous

•Antrozous pallidus(pallid bat (TK200870 primary hap 2023))(info)GCA_027563665.1

Pipistrellus

Pipistrellus pipistrellus

•Pipistrellus pipistrellus(common pipistrelle (alternate hap 2020))(info)GCA_903992515.1

•Pipistrellus pipistrellus(common pipistrelle (2020))(info)GCA_903992545.1

•Pipistrellus pipistrellus(common pipistrelle (hap1.1 2025))(info)GCA_965203405.1

•Pipistrellus pipistrellus(common pipistrelle (hap2.1 2025))(info)GCA_965204225.1

Pipistrellus pygmaeus

•Pipistrellus pygmaeus(soprano pipistrelle (primary hap 2023))(info)GCA_949987585.1

•Pipistrellus pygmaeus(soprano pipistrelle (alternate hap 2023))(info)GCA_949987765.1

Pipistrellus nathusii

•Pipistrellus nathusii(Nathusius's pipistrelle (primary hap 2024))(info)GCA_963693515.1

•Pipistrellus nathusii(Nathusius's pipistrelle (hap2.1 2025))(info)GCA_964656075.1

•Pipistrellus nathusii(Nathusius's pipistrelle (hap1.1 2025))(info)GCA_964656225.1

•Pipistrellus hanaki(Hanaki's dwarf bat (2024))(info)GCA_964339955.1

•Pipistrellus kuhlii(Kuhl's pipistrelle (2020))(info)GCF_014108245.1

Cnephaeus

Cnephaeus nilssonii

•Cnephaeus nilssonii(northern bat (primary hap 2023))(info)GCA_951640355.1

•Cnephaeus nilssonii(northern bat (alternate hap 2023))(info)GCA_951640545.1

Myotis

Myotis daubentonii

•Myotis daubentonii(Daubenton's bat (alternate hap 2023))(info)GCA_963242275.1

•Myotis daubentonii(Daubenton's bat (primary hap 2023 refseq))(info)GCF_963259705.1

Myotis mystacinus

•Myotis mystacinus(whiskered bat (hap1 2024))(info)GCA_964094495.2

•Myotis mystacinus(whiskered bat (hap2 2024))(info)GCA_964195625.1

Myotis nattereri

•Myotis nattereri(Natterer's bat (hap2.1 2024))(info)GCA_964212025.1

•Myotis nattereri(Natterer's bat (hap2.2 2025))(info)GCA_964212025.2

•Myotis nattereri(Natterer's bat (hap1.1 2024))(info)GCA_964212035.1

•Myotis nattereri(Natterer's bat (hap1.2 2025))(info)GCA_964212035.2

Myotis emarginatus

•Myotis emarginatus(Geoffroy's bat (hap1.1 2025))(info)GCA_965115925.1

•Myotis emarginatus(Geoffroy's bat (hap2.1 2025))(info)GCA_965115945.1

•Myotis myotis(greater mouse-eared bat (2020 Bat1K))(info)GCF_014108235.1

Plecotus

•Plecotus auritus(brown big-eared bat (primary hap 2023))(info)GCA_963455305.1

Vespertilio

•Vespertilio murinus(particolored bat (primary hap 2024))(info)GCA_963924515.1

Nyctalus

Nyctalus leisleri

•Nyctalus leisleri(lesser noctule (v1 hap1 2024))(info)GCA_964264875.1

•Nyctalus leisleri(lesser noctule (v2 hap1 2025))(info)GCA_964264875.2

•Nyctalus leisleri(lesser noctule (v1 hap2 2024))(info)GCA_964264895.1

•Nyctalus leisleri(lesser noctule (v2 hap2 2025))(info)GCA_964264895.2

Eptesicus

•Eptesicus fuscus(big brown bat (TK198812 2023))(info)GCF_027574615.1

Molossidae

Molossus

Molossus nigricans

•Molossus nigricans(northern black mastiff bat (mMolNig1 2022))(info)GCA_026936385.1

•Molossus nigricans(northern black mastiff bat (mMolNig1hap2 2024))(info)GCA_039880925.1

•Molossus nigricans(northern black mastiff bat (mMolNig1hap1 2024))(info)GCA_039880945.1

Molossus alvarezi

•Molossus alvarezi(Alvarez's mastiff bat (A012 2023))(info)GCA_031001765.1

•Molossus alvarezi(Alvarez's mastiff bat (hap1 2024))(info)GCA_037157525.1

•Molossus alvarezi(Alvarez's mastiff bat (hap2 2024))(info)GCA_037176705.1

•Molossus molossus(Pallas's mastiff bat)(info)GCF_014108415.1

Tadarida

•Tadarida brasiliensis(Brazilian free-tailed bat (primary hap 2023))(info)GCA_030848825.1

Mops

•Mops condylurus(Angolan free-tailed bat (Cote d'Ivoire 20210831_DDa 2024))(info)GCA_043748645.1

Emballonuridae

Emballonurinae

Saccopteryx

Saccopteryx bilineata

•Saccopteryx bilineata(greater sac-winged bat (primary hap 2024 genbank))(info)GCA_036850765.1

•Saccopteryx bilineata(greater sac-winged bat (primary hap 2024 refseq))(info)GCF_036850765.1

Saccopteryx leptura

•Saccopteryx leptura(lesser sac-winged bat (primary hap 2024 genbank))(info)GCA_036850995.1

•Saccopteryx leptura(lesser sac-winged bat (primary hap 2024 refseq))(info)GCF_036850995.1

Rhynchonycteris

Rhynchonycteris naso

•Rhynchonycteris naso(proboscis bat (hap1 2024))(info)GCA_037038545.1

•Rhynchonycteris naso(proboscis bat (hap2 2024))(info)GCA_037038555.1

Miniopteridae

Miniopterus

Miniopterus schreibersii

•Miniopterus schreibersii(Schreibers' long-fingered bat (v1 hap2 2024))(info)GCA_964145185.1

•Miniopterus schreibersii(Schreibers' long-fingered bat (v2 hap2 2025))(info)GCA_964145185.2

•Miniopterus schreibersii(Schreibers' long-fingered bat (v1 hap1 2024))(info)GCA_964146895.1

•Miniopterus schreibersii(Schreibers' long-fingered bat (v2 hap1 2025))(info)GCA_964146895.2

Rhinolophus ferrumequinum

•Rhinolophus ferrumequinum(greater horseshoe bat (v1 MPI-CBG 2019 genbank))(info)GCA_004115265.2

•Rhinolophus ferrumequinum(greater horseshoe bat (MPI-CBG alternate hap 2019))(info)GCA_004115295.1

•Rhinolophus ferrumequinum(greater horseshoe bat (mRhiFer1 2020))(info)GCA_014108255.1

•Rhinolophus ferrumequinum(greater horseshoe bat (v1 MPI-CBG 2019 refseq))(info)GCF_004115265.1

•Rhinolophus ferrumequinum(greater horseshoe bat (v2 MPI-CBG 2019))(info)GCF_004115265.2

•Rhinolophus affinis(intermediate horseshoe bat (China 20211001_DDa primary hap 2024))(info)GCA_043728065.1

•Rhinolophus trifoliatus(trefoil horseshoe bat (Malaysia primary hap 2024))(info)GCA_043728145.1

Rhinolophus perniger

•Rhinolophus perniger lanosus(northern woolly horseshoe bat (20210929_DDc primary hap 2024))(info)GCA_043748575.1

•Rhinolophus yonghoiseni(Yong Hoi Sen's woolly horseshoe bat (Malaysia 20210929_DDd primary hap 2024))(info)GCA_043880425.1

Rhinolophus hipposideros

•Rhinolophus hipposideros(lesser horseshoe bat (hap1 2024))(info)GCA_964194185.1

•Rhinolophus hipposideros(lesser horseshoe bat (hap2 2024))(info)GCA_964194215.1

Hipposideridae

Hipposideros

Hipposideros larvatus sensu lato

Hipposideros larvatus

•Hipposideros larvatus(intermediate roundleaf bat (primary hap 2023))(info)GCA_031876335.1

•Hipposideros larvatus(bat H.larvatus (China 20210929_DDb primary hap 2024))(info)GCA_043727955.1

Aselliscus

•Aselliscus stoliczkanus(Stoliczka's trident bat (China 2021113_DDA primary hap 2024))(info)GCA_043727835.1

Doryrhina

•Doryrhina cyclops(cyclops roundleaf bat (Cote d'Ivoire 20210929_DDa primary hap 2024))(info)GCA_043880285.1

Rhinopomatidae

Rhinopoma

•Rhinopoma microphyllum(greater mouse-tailed bat (20210906_DDa primary hap 2024))(info)GCA_043880545.1

Megadermatidae

Megaderma

•Megaderma spasma(lesser false vampire bat (Vietnam 20211001_DDb primary hap 2024))(info)GCA_043880595.1

•Rousettus aegyptiacus(Egyptian rousette (v1 2020 refseq))(info)GCF_014176215.1

•Lynx canadensis(Canada lynx (alternate hap LIC74 2019))(info)GCA_007474575.1

•Lynx canadensis(Canada lynx (LIC74 v2 alternate hap 2020))(info)GCA_007474575.2

•Lynx canadensis(Canada lynx (LIC74 v1 2019))(info)GCF_007474595.1

•Lynx canadensis(Canada lynx (LIC74 v2 primary hap 2020))(info)GCF_007474595.2

Pantherinae

Neofelis

Neofelis nebulosa

•Neofelis nebulosa(clouded leopard (mNeoNeb1 alternate hap 2023))(info)GCA_028018655.1

•Neofelis nebulosa(clouded leopard (mNeoNeb1 primary hap 2023 refseq))(info)GCF_028018385.1

Panthera

Panthera onca

•Panthera onca(jaguar (hap2 2025))(info)GCA_046562875.1

•Panthera onca(jaguar (hap1 2025))(info)GCA_046562885.1

Zalophus californianus

•Zalophus californianus(California sea lion (alternate hap 2019))(info)GCA_009762295.1

•Zalophus californianus(California sea lion (mZalCal1 alternate hap 2020))(info)GCA_009762295.2

•Zalophus californianus(California sea lion (v1 2019))(info)GCA_009762305.1

•Zalophus californianus(California sea lion (v2 primary hap 2020))(info)GCF_009762305.2

•Halichoerus grypus(gray seal (hap1.1 2025))(info)GCA_964656455.1

•Halichoerus grypus(gray seal (hap2.1 2025))(info)GCA_964656465.1

•Mustela erminea(ermine (alternate hap 2020))(info)GCA_009829165.1

•Mustela erminea(ermine (2020))(info)GCF_009829155.1

Mustela lutreola

•Mustela lutreola(European mink (alternate hap 2023))(info)GCA_030435785.1

•Mustela lutreola(European mink (primary hap 2023 refseq))(info)GCF_030435805.1

Mustela nivalis

•Mustela nivalis(least weasel (hap2.1 2025))(info)GCA_964662095.1

•Mustela nivalis(least weasel (hap1.1 2025))(info)GCA_964662115.1

Neogale

Neogale vison

•Neogale vison(American mink (hap2 2024))(info)GCA_964106205.1

•Neogale vison(American mink (hap1 2024))(info)GCA_964106545.1

Lutrinae

Lutra

Lutra lutra

•Lutra lutra(Eurasian river otter (alternate hap 2019))(info)GCA_902653095.1

•Lutra lutra(Eurasian river otter (2020))(info)GCF_902655055.1

Melinae

Meles

Meles meles

•Meles meles(Eurasian badger (v3.2 2022))(info)GCA_922984935.2

•Meles meles(Eurasian badger (2021))(info)GCA_922990625.1

•Meles meles(Eurasian badger (v3.1 2021))(info)GCF_922984935.1

Guloninae

Martes

•Martes martes(European pine marten (primary hap 2023))(info)GCA_963455335.1

Canidae

Lycaon

Lycaon pictus

•Lycaon pictus(African hunting dog (LycPic1hap1 2024))(info)GCA_040955645.1

•Lycaon pictus(African hunting dog (LycPic1hap2 2024))(info)GCA_040955705.1

Canis

Canis lupus

•Canis lupus(gray wolf (alternate hap 2021))(info)GCA_905319845.1

•Canis lupus(gray wolf (2021))(info)GCA_905319855.2

Canis lupus baileyi

•Canis lupus baileyi(Mexican gray wolf (hap2 2025))(info)GCA_048164845.1

•Canis lupus baileyi(Mexican gray wolf (hap1 2025 refseq))(info)GCF_048164855.1

•Canis lupus familiaris(dog (German shepard Mischka 2020))(info)GCF_011100685.1

Vulpes

Vulpes vulpes

•Vulpes vulpes(red fox (hap1 2024))(info)GCA_964106825.2

•Vulpes vulpes(red fox (hap2 2024))(info)GCA_964106925.2

Diceros bicornis minor

•Diceros bicornis minor(black rhinoceros (alternate hap 2021))(info)GCA_020826835.1

•Diceros bicornis minor(black rhinoceros (primary hap 2021 genbank))(info)GCA_020826845.1

•Diceros bicornis minor(black rhinoceros (primary hap 2021 refseq))(info)GCF_020826845.1

Tapiridae

Tapirus

Tapirus indicus

•Tapirus indicus(Asiatic tapir (hap1 2023))(info)GCA_031878655.1

•Tapirus indicus(Asiatic tapir (hap2 2023))(info)GCA_031878705.1

Equidae

Equus

Equus caballus

•Equus caballus(horse (maternal 2024))(info)GCA_036418255.1

•Equus caballus(horse (paternal hap 2024))(info)GCA_036426135.1

•Suncus etruscus(white-toothed pygmy shrew (mSunEtr1 alternate hap 2022))(info)GCA_024140225.1

•Suncus etruscus(white-toothed pygmy shrew (mSunEtr1 primary hap 2022))(info)GCF_024139225.1

Soricinae

Sorex

Sorex araneus

•Sorex araneus(European shrew (alternate hap 2023))(info)GCA_027595995.1

•Sorex araneus(European shrew (primary hap 2023))(info)GCF_027595985.1

•Erinaceus europaeus(western European hedgehog (alternate hap 2023))(info)GCA_950295305.1

•Erinaceus europaeus(western European hedgehog (primary hap 2023 genbank))(info)GCA_950295315.1

•Erinaceus europaeus(western European hedgehog (primary hap 2023 refseq))(info)GCF_950295315.1

Talpidae

Talpa

Talpa europaea

•Talpa europaea(European mole (hap1 2024))(info)GCA_964194135.1

•Talpa europaea(European mole (hap2 2024))(info)GCA_964194205.1

•Manis pentadactyla(Chinese pangolin (hap2 mManPen7 2023))(info)GCA_030020945.1

•Manis pentadactyla(Chinese pangolin (hap1 2023))(info)GCF_030020395.1

•Callithrix jacchus(white-tufted-ear marmoset (maternal 2020))(info)GCA_011078405.1

•Callithrix jacchus(white-tufted-ear marmoset (v1 paternal hap 2020))(info)GCA_011100535.1

•Callithrix jacchus(white-tufted-ear marmoset (v1.2 paternal 2021))(info)GCA_011100535.2

•Callithrix jacchus(white-tufted-ear marmoset (paternal X 2020))(info)GCA_011100555.1

•Callithrix jacchus(white-tufted-ear marmoset (v1.2 2021 genbank))(info)GCA_011100555.2

•Callithrix jacchus(white-tufted-ear marmoset (240 alternate hap 2025))(info)GCA_049354655.1

•Callithrix jacchus(white-tufted-ear marmoset (240 primary hap 2025))(info)GCA_049354715.1

•Callithrix jacchus(white-tufted-ear marmoset (v1.2 2021 refseq))(info)GCF_011100555.1

Saimiriinae

Saimiri

•Saimiri boliviensis(Bolivian squirrel monkey (mSaiBol1 primary hap 2025))(info)GCA_048565385.1

•Homo sapiens(human (mHomSap3 WGS:JACSEX01 2021))(info)GCA_016695395.2

•Homo sapiens(human (WGS:JACSEW01 2021 alternate hap))(info)GCA_016700455.2

•Homo sapiens(human (GRCh38.p14 2022))(info)GCF_000001405.40

Pan

Pan troglodytes

•Pan troglodytes(chimpanzee (v1 AG18354 alternate hap 2023 genbank))(info)GCA_028858805.1

•Pan troglodytes(chimpanzee (v2 AG18354 alternate hap 2024))(info)GCA_028858805.2

•Pan troglodytes(chimpanzee (v1 AG18354 primary hap 2023 refseq))(info)GCF_028858775.1

•Pan troglodytes(chimpanzee (v2 AG18354 primary hap 2024 refseq))(info)GCF_028858775.2

Pan paniscus

•Pan paniscus(pygmy chimpanzee (paternal 2024))(info)GCA_028858825.2

•Pan paniscus(pygmy chimpanzee (v1 primary hap 2023))(info)GCF_029289425.1

•Pan paniscus(pygmy chimpanzee (v2 primary hap 2024 refseq))(info)GCF_029289425.2

Gorilla

Gorilla gorilla

Gorilla gorilla gorilla

•Gorilla gorilla gorilla(western lowland gorilla (paternal KB3781 2024))(info)GCA_028885475.2

•Gorilla gorilla gorilla(western lowland gorilla (v2.1 KB3781 2024 genbank))(info)GCA_029281585.3

•Gorilla gorilla gorilla(western lowland gorilla (v1.1 KB3781 2023))(info)GCF_029281585.1

•Gorilla gorilla gorilla(western lowland gorilla (v2.1 KB3781 2024 refseq))(info)GCF_029281585.2

Ponginae

Pongo

Pongo pygmaeus

•Pongo pygmaeus(Bornean orangutan (v1 AG05252 alternate hap 2023 genbank))(info)GCA_028885525.1

•Pongo pygmaeus(Bornean orangutan (v2 AG05252 alternate hap 2024))(info)GCA_028885525.2

•Pongo pygmaeus(Bornean orangutan (v1 AG05252 primary hap 2023 refseq))(info)GCF_028885625.1

•Pongo pygmaeus(Bornean orangutan (v2 AG05252 primary hap 2024 refseq))(info)GCF_028885625.2

Pongo abelii

•Pongo abelii(Sumatran orangutan (v2 AG06213 alternate hap 2024))(info)GCA_028885685.2

•Pongo abelii(Sumatran orangutan (v1 AG06213 primary hap 2023))(info)GCF_028885655.1

•Pongo abelii(Sumatran orangutan (v2 AG06213 primary hap 2024 refseq))(info)GCF_028885655.2

Hylobatidae

Symphalangus

Symphalangus syndactylus

•Symphalangus syndactylus(siamang (v2 Jambi alternate hap 2024))(info)GCA_028878085.2

•Symphalangus syndactylus(siamang (v3 Jambi alternate hap 2024))(info)GCA_028878085.3

•Symphalangus syndactylus(siamang (v1 Jambi primary hap 2023))(info)GCF_028878055.1

•Symphalangus syndactylus(siamang (v2 Jambi primary hap 2024 refseq))(info)GCF_028878055.2

•Symphalangus syndactylus(siamang (v2.1 Jambi primary hap 2024 refseq))(info)GCF_028878055.3

•Macaca nemestrina(pig-tailed macaque (mMacNem1hap1 2024 genbank))(info)GCA_043159975.1

•Macaca nemestrina(pig-tailed macaque (mMacNem1hap2 2024))(info)GCA_043161795.1

•Macaca nemestrina(pig-tailed macaque (mMacNem1hap1 2024 refseq))(info)GCF_043159975.1

•Macaca fascicularis(crab-eating macaque (582-1 2024))(info)GCF_037993035.1

•Lemur catta(ring-tailed lemur (mLemCat1 alternate hap 2021))(info)GCA_020740595.1

•Lemur catta(ring-tailed lemur (primary hap 2021))(info)GCF_020740605.2

•Nycticebus coucang(slow loris (alternate hap 2022))(info)GCA_027406535.1

•Nycticebus coucang(slow loris (primary hap 2022))(info)GCF_027406575.1

Arvicanthis niloticus

•Arvicanthis niloticus(African grass rat (maternal 2020))(info)GCA_011750645.1

•Arvicanthis niloticus(African grass rat (v1 paternal X 2020 genbank))(info)GCA_011762505.1

•Arvicanthis niloticus(African grass rat (v2 paternal X 2024 genbank))(info)GCA_011762505.2

•Arvicanthis niloticus(African grass rat (v3 paternal hap 2024))(info)GCA_011762505.3

•Arvicanthis niloticus(African grass rat (paternal 2020))(info)GCA_011762545.1

•Arvicanthis niloticus(African grass rat (paternal X 2020 refseq))(info)GCF_011762505.1

Rattus

Rattus norvegicus

•Rattus norvegicus(Norway rat BN7 haplotype)(info)GCA_015244455.1

•Rattus norvegicus(Norway rat BN7.2)(info)GCF_015227675.2

Apodemus

Sylvaemus group

Apodemus sylvaticus

•Apodemus sylvaticus(European woodmouse (2022 genbank))(info)GCA_947179515.1

•Apodemus sylvaticus(European woodmouse (alternate hap 2022))(info)GCA_947179525.1

•Apodemus sylvaticus(European woodmouse (2022 refseq))(info)GCF_947179515.1

Mus

Mus musculus

•Mus musculus(house mouse (alternate hap 2023))(info)GCA_949316305.1

•Mus musculus(house mouse (primary hap 2023))(info)GCA_949316315.1

Micromys

•Micromys minutus(European harvest mouse (primary hap 2024))(info)GCA_963924665.1

Deomyinae

Acomys

•Acomys minous(Crete spiny mouse (2024))(info)GCA_964271855.1

•Acomys russatus(golden spiny mouse (2020))(info)GCF_903995435.1

Cricetidae

Neotominae

Peromyscus

Peromyscus maniculatus

•Peromyscus maniculatus sonoriensis(North American deer mouse (MVZ:Mamm:240117 primary hap 2022))(info)GCA_026229955.1

Onychomys

•Onychomys torridus(southern grasshopper mouse (2020))(info)GCF_903995425.1

Arvicolinae

Microtus

Microtus pennsylvanicus

•Microtus pennsylvanicus(meadow vole (hap1 2024))(info)GCA_037038515.1

•Microtus pennsylvanicus(meadow vole (hap2 2024))(info)GCA_037039175.1

Arvicola

Arvicola amphibius

•Arvicola amphibius(Eurasian water vole (alternate hap 2020))(info)GCA_903992525.1

•Arvicola amphibius(Eurasian water vole (v1 2020))(info)GCF_903992535.1

•Arvicola amphibius(Eurasian water vole (v2 2021))(info)GCF_903992535.2

Chionomys

Chionomys nivalis

•Chionomys nivalis(European snow vole (alternate hap 2023))(info)GCA_950005115.1

•Chionomys nivalis(European snow vole (primary hap 2023 refseq))(info)GCF_950005125.1

•Jaculus jaculus(lesser Egyptian jerboa (alternate hap 2021))(info)GCA_020740715.1

•Jaculus jaculus(lesser Egyptian jerboa (2021))(info)GCF_020740685.1

•Thomomys bottae(Botta's pocket gopher (bottae MVZ:Mamm:240275 primary hap 2022))(info)GCA_024803745.1

•Thomomys bottae(Botta's pocket gopher (hap2 2023))(info)GCA_031878665.1

•Thomomys bottae(Botta's pocket gopher (hap1 2023))(info)GCA_031878675.1

Castoridae

Castor

Castor canadensis

•Castor canadensis(American beaver (hap2 2025))(info)GCA_047511605.1

•Castor canadensis(American beaver (hap1 2025))(info)GCA_047511655.1

•Erethizon dorsatum(North American porcupine (mEreDor1 primary hap 2023))(info)GCA_028451465.1

•Erethizon dorsatum(North American porcupine (mEreDor1 alternate hap 2023))(info)GCA_028500835.1

Ctenodactylidae

Ctenodactylus

Ctenodactylus gundi

•Ctenodactylus gundi(northern gundi (hap2 2025))(info)GCA_048771865.1

•Ctenodactylus gundi(northern gundi (hap1 2025))(info)GCA_048771875.1

•Urocitellus parryii(Arctic ground squirrel (hap2 2024))(info)GCA_045843765.1

•Urocitellus parryii(Arctic ground squirrel (hap1 2024))(info)GCA_045843805.1

Marmota

Marmota flaviventris

•Marmota flaviventris(yellow-bellied marmot (hap1 2025 genbank))(info)GCA_047511675.1

•Marmota flaviventris(yellow-bellied marmot (hap2 2025))(info)GCA_047512175.1

•Marmota flaviventris(yellow-bellied marmot (hap1 2025 refseq))(info)GCF_047511675.1

Callospermophilus

Callospermophilus lateralis

•Callospermophilus lateralis(golden-mantled ground squirrel (hap1 2025))(info)GCA_048772815.1

•Callospermophilus lateralis(golden-mantled ground squirrel (hap2 2025))(info)GCA_048772825.1

Spermophilus

•Spermophilus citellus(European suslik (primary hap 2024))(info)GCA_964194105.1

•Sciurus carolinensis(gray squirrel (alternate hap 2019))(info)GCA_902685475.1

•Sciurus carolinensis(gray squirrel (2020))(info)GCF_902686445.1

Sciurus vulgaris

•Sciurus vulgaris(Eurasian red squirrel (alternate hap 2019))(info)GCA_902685485.1

•Sciurus vulgaris(Eurasian red squirrel (v1.1 2019))(info)GCA_902686455.1

•Sciurus vulgaris(Eurasian red squirrel (v1.2 2020))(info)GCA_902686455.2

Gliridae

Muscardinus

Muscardinus avellanarius

•Muscardinus avellanarius(hazel dormouse (primary hap 2023))(info)GCA_963383645.1

•Muscardinus avellanarius(hazel dormouse (alternate hap 2023))(info)GCA_963383665.1

•Ochotona princeps(American pika (hap2 2023))(info)GCA_030435715.1

•Ochotona princeps(American pika (hap1 2023))(info)GCF_030435755.1

Leporidae

Sylvilagus

•Sylvilagus floridanus(eastern cottontail (primary hap 2023))(info)GCA_949820135.1

Oryctolagus

Oryctolagus cuniculus

•Oryctolagus cuniculus(rabbit (primary hap 2024 genbank))(info)GCA_964237555.1

•Oryctolagus cuniculus(rabbit (primary hap 2024 refseq))(info)GCF_964237555.1

Scandentia

Tupaiidae

Tupaia

•Tupaia tana(large tree shrew (BS70 2022))(info)GCA_026018925.1

•Cynocephalus volans(Philippine flying lemur (mCynVol1 alternate hap 2022))(info)GCA_027409165.1

•Cynocephalus volans(Philippine flying lemur (primary hap 2022 genbank))(info)GCA_027409185.1

•Cynocephalus volans(Philippine flying lemur (primary hap 2022 refseq))(info)GCF_027409185.1

•Choloepus didactylus(southern two-toed sloth (mChoDid1 alternate hap 2020))(info)GCA_015220265.1

•Choloepus didactylus(southern two-toed sloth (mChoDid1 primary hap 2020))(info)GCF_015220235.1

Vermilingua

Myrmecophagidae

Tamandua

Tamandua tetradactyla

•Tamandua tetradactyla(southern tamandua (mTamTet1 primary hap 2022))(info)GCA_023851605.1

•Tamandua tetradactyla(southern tamandua (mTamTet1 alternate hap 2022))(info)GCA_023853755.1

•Dasypus novemcinctus(nine-banded armadillo (v1 hap1 2023))(info)GCA_030445055.1

•Dasypus novemcinctus(nine-banded armadillo (v2 hap1 2023))(info)GCA_030445055.2

•Dasypus novemcinctus(nine-banded armadillo (v1 hap2 2023))(info)GCF_030445035.1

•Dasypus novemcinctus(nine-banded armadillo (v2 hap2 2023))(info)GCF_030445035.2

Elephas maximus indicus

•Elephas maximus indicus(Asiatic elephant (mEleMax1 alternate hap 2022))(info)GCA_024166345.1

•Elephas maximus indicus(Asiatic elephant (mEleMax1 primary hap 2022))(info)GCF_024166365.1

Loxodonta

Loxodonta africana

•Loxodonta africana(African savanna elephant (hap2 2023 genbank))(info)GCA_030014295.1

•Loxodonta africana(African savanna elephant (hap1 mLoxAfr1 2023))(info)GCA_030020305.1

•Loxodonta africana(African savanna elephant (hap2 2023 refseq))(info)GCF_030014295.1

•Heterohyrax brucei(yellow-spotted hyrax (mHetBru1 alternate hap 2023))(info)GCA_028571665.1

•Heterohyrax brucei(yellow-spotted hyrax (mHetBru1 2023))(info)GCA_028571685.1

•Dugong dugon(dugong (hap2 mDugDug1 2023))(info)GCA_030020955.1

•Dugong dugon(dugong (hap1 mDugDug1 2023))(info)GCA_030035585.1

Trichechidae

Trichechus

Trichechus inunguis

•Trichechus inunguis(Amazon manatee (hap2 2025))(info)GCA_046562895.1

•Trichechus inunguis(Amazon manatee (hap1 2025))(info)GCA_046562985.1

•Rhynchocyon petersi(black and rufous elephant shrew (mRhyPet1hap2 2024))(info)GCA_043290065.1

•Rhynchocyon petersi(black and rufous elephant shrew (mRhyPet1hap1 2024))(info)GCA_043290085.1

Ornithorhynchus anatinus

•Ornithorhynchus anatinus(platypus (alternate hap Pmale09 2020))(info)GCA_004115175.2

•Ornithorhynchus anatinus(platypus (Pmale09 v3 2020))(info)GCA_004115215.3

•Ornithorhynchus anatinus(platypus (Pmale09 v4 2020))(info)GCF_004115215.2

Tachyglossidae

Tachyglossus

Tachyglossus aculeatus

•Tachyglossus aculeatus(Australian echidna (mTacAcu1 alternate hap 2020))(info)GCA_015852515.1

•Tachyglossus aculeatus(Australian echidna (mTacAcu1 primary hap 2020))(info)GCF_015852505.1

•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

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

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

Parulidae

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

•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

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

Icteridae

Agelaius

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

•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

Cyanocitta

Cyanocitta cristata

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

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

Coloeus

Coloeus monedula

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

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

Paradisaeidae

Lycocorax

Lycocorax pyrrhopterus

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

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

•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

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

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

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

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

Passerellidae

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

Melospiza

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

Melospiza melodia

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

Passerculus

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

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

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

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

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

•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

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

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

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

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

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

•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 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 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

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

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

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

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

•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

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

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

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

•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

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

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

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

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

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

Buteo

Buteo buteo

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

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

Cathartidae

Sarcoramphus

Sarcoramphus papa

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

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

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

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

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

•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

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

•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 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

Scolopacidae

Numenius

Numenius arquata

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

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

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

•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

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

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

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

•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

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

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

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))(info)GCA_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 grus(Eurasian crane (hap1 2024))(info)GCA_964106855.1

Rallidae

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

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

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

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

Pelecanidae

Pelecanus

Pelecanus crispus

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

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

•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

•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

•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))(info)GCA_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

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

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

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

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

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

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

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

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

•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

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

Branta

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

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

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

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

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

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

Phasianinae

Gallus

Gallus gallus

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

•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

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

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

•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

•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

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

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

•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

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

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

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

•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

Emydidae

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

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

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

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

•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

Caretta

Caretta caretta

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

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

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))(info)GCA_965140265.1

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

Natator

Natator depressus

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

•Natator depressus(flatback sea turtle (hap1 2025))(info)GCA_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

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(pitted-shelled turtle (YL-2023 2023))(info)GCA_033958435.1

•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

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

•Thamnophis elegans(western terrestrial garter snake (alternate hap 2019))(info)GCA_009769695.1

•Thamnophis elegans(western terrestrial garter snake (primary hap 2019))(info)GCF_009769535.1

Natrix

Natrix helvetica

•Natrix helvetica(snake N.helvetica (rNatHel1.hap1.1 2024))(info)GCA_964273705.1

•Natrix helvetica(snake N.helvetica (rNatHel1.hap2.1 2024))(info)GCA_964273795.1

•Vipera latastei(Lataste's viper (primary hap 2022))(info)GCA_024294585.1

•Vipera latastei(Lataste's viper (alternate hap 2022))(info)GCA_024294605.1

Vipera ursinii

•Vipera ursinii(meadow viper (alternate hap 2022))(info)GCA_947247025.1

•Vipera ursinii(meadow viper (primary hap 2022))(info)GCA_947247035.1

Vipera berus

•Vipera berus(adder (hap2 2024))(info)GCA_964194405.1

•Vipera berus(adder (hap1 2024))(info)GCA_964194415.1

Dipsadidae

Erythrolamprus

Erythrolamprus reginae

•Erythrolamprus reginae(royal ground snake (hap3 2023))(info)GCA_031001685.1

•Erythrolamprus reginae(royal ground snake (hap2 2023))(info)GCA_031021085.1

•Erythrolamprus reginae(royal ground snake (hap1 2023 genbank))(info)GCA_031021105.1

•Erythrolamprus reginae(royal ground snake (hap1 2023 refseq))(info)GCF_031021105.1

•Liasis olivaceus(olive python (hap2 2023))(info)GCA_030867085.1

•Liasis olivaceus(olive python (hap1 2023))(info)GCA_030867105.1

•Candoia aspera(Papuan ground boa (hap1 2024))(info)GCA_035125265.1

•Candoia aspera(Papuan ground boa (hap2 2024 genbank))(info)GCA_035149785.1

•Candoia aspera(Papuan ground boa (hap2 2024 refseq))(info)GCF_035149785.1

•Shinisaurus crocodilurus(Chinese crocodile lizard (Guangxi GXDGS128 2021))(info)GCA_021292165.1

Elgaria multicarinata

Elgaria multicarinata webbii

•Elgaria multicarinata webbii(San Diego alligator lizard (v1.0 HBS135686 primary hap 2022))(info)GCA_023053635.1

•Elgaria multicarinata webbii(San Diego alligator lizard (v1.1 HBS135686 primary hap 2024 genbank))(info)GCA_023053635.2

•Elgaria multicarinata webbii(San Diego alligator lizard (v1.1 HBS135686 primary hap 2024 refseq))(info)GCF_023053635.1

Anniellidae

Anniella

Anniella stebbinsi

•Anniella stebbinsi(San Diegan legless lizard (HBS135921 primary hap 2023))(info)GCA_029215775.1

•Anniella stebbinsi(San Diegan legless lizard (HBS135921 alternate hap 2023))(info)GCA_029215795.1

•Cyclura pinguis(Grand Cayman blue iguana (hap2 2023))(info)GCA_030412085.1

•Cyclura pinguis(Grand Cayman blue iguana (hap1 2023))(info)GCA_030412105.1

Acrodonta

Chamaeleonidae

Furcifer

•Furcifer pardalis(lizards F.pardalis (Fpa_1 2023))(info)GCA_030440675.1

Bradypodion

Bradypodion pumilum

•Bradypodion pumilum(lizards B.pumilum (Western Cape Province JTBG20231 2024))(info)GCA_035047305.1

•Bradypodion pumilum(lizards B.pumilum (Western Cape Province hap2 2025))(info)GCA_047715955.1

•Bradypodion pumilum(lizards B.pumilum (Western Cape Province hap1 2025))(info)GCA_047715975.1

•Bradypodion ventrale(Southern dwarf chameleon (Gauteng JTBG20232 2024))(info)GCA_035047345.1

Dactyloidae

Anolis

Anolis sagrei

•Anolis sagrei(brown anole (maternal hap 2024 genbank))(info)GCA_037176765.1

•Anolis sagrei(Brown anole (rAnoSag1 2024))(info)GCA_037176775.1

•Anolis sagrei(Brown anole (maternal hap 2024 refseq))(info)GCF_037176765.1

•Lacerta agilis(sand lizard (alternate hap 2019))(info)GCA_009819545.1

•Lacerta agilis(sand lizard (primary hap 2019))(info)GCF_009819535.1

Podarcis

Podarcis raffonei

•Podarcis raffonei(Aeolian wall lizard (La Canna islet alternate hap 2022))(info)GCA_027172095.1

•Podarcis raffonei(Aeolian wall lizard (La Canna islet primary hap 2022 refseq))(info)GCF_027172205.1

Podarcis cretensis

•Podarcis cretensis(Cretan wall lizard (primary hap 2023))(info)GCA_951804945.1

•Podarcis cretensis(Cretan wall lizard (alternate hap 2023))(info)GCA_951804955.1

Podarcis pityusensis

•Podarcis pityusensis(lizards P.pityusensis (rPodPit1.hap2.2 2024))(info)GCA_964106635.2

•Podarcis pityusensis(lizards P.pityusensis (rPodPit1.hap1.2 2024))(info)GCA_964106645.2

Podarcis gaigeae

•Podarcis gaigeae(Skyros wall lizard (rPodGai1.hap2.1 2024))(info)GCA_964106785.1

•Podarcis gaigeae(Skyros wall lizard (v1 hap1 2024))(info)GCA_964106915.1

•Podarcis gaigeae(Skyros wall lizard (v2 hap1 2024))(info)GCA_964106915.2

Podarcis siculus

•Podarcis siculus(Italian wall lizard (rPodSic1.hap1.1 2024))(info)GCA_964188175.1

•Podarcis siculus(Italian wall lizard (rPodSic1.hap2.1 2024))(info)GCA_964188395.1

Podarcis bocagei

•Podarcis bocagei(lizards P.bocagei (rPodBoc1.hap1.1 2024))(info)GCA_964188305.1

•Podarcis bocagei(lizards P.bocagei (rPodBoc1.hap2.1 2024))(info)GCA_964188325.1

Podarcis muralis

•Podarcis muralis(common wall lizard (hap1 2024))(info)GCA_964188315.1

•Podarcis muralis(common wall lizard (hap2 2024))(info)GCA_964188365.1

Podarcis melisellensis

•Podarcis melisellensis(lizards P.melisellensis (rPodMel1.hap1.1 2024))(info)GCA_964234715.1

•Podarcis melisellensis(lizards P.melisellensis (rPodMel1.hap2.1 2024))(info)GCA_964234825.1

Podarcis erhardii

•Podarcis erhardii(lizards P.erhardii (rPodErh1.hap2.1 2024))(info)GCA_964251985.1

•Podarcis erhardii(lizards P.erhardii (rPodErh1.hap1.1 2024))(info)GCA_964252035.1

Podarcis filfolensis

•Podarcis filfolensis(Filfola wall lizard (rPodFil1.hap2.1 2024))(info)GCA_964270875.1

•Podarcis filfolensis(Filfola wall lizard (rPodFil1.hap1.1 2024))(info)GCA_964270895.1

Podarcis liolepis

•Podarcis liolepis(Columbretes wall lizard (hap1.1 2025))(info)GCA_965112155.1

•Podarcis liolepis(Columbretes wall lizard (hap2.1 2025))(info)GCA_965178375.1

Podarcis vaucheri

•Podarcis vaucheri(lizards P.vaucheri (hap2.1 2025))(info)GCA_965113305.1

•Podarcis vaucheri(lizards P.vaucheri (hap1.1 2025))(info)GCA_965113315.1

Podarcis tiliguerta

•Podarcis tiliguerta(Tyrrhenian wall lizard (hap1 2025))(info)GCA_965153285.1

•Podarcis tiliguerta(Tyrrhenian wall lizard (hap2 2025))(info)GCA_965153305.1

Zootoca

Zootoca vivipara

•Zootoca vivipara(common lizard Z.vivipara (hap1.1 2025))(info)GCA_965207765.1

•Zootoca vivipara(common lizard Z.vivipara (hap2.1 2025))(info)GCA_965208345.1

•Zootoca vivipara(common lizard Z.vivipara (primary hap 2023))(info)GCF_963506605.1

•Rhineura floridana(Florida worm lizard (hap2 2023 genbank))(info)GCA_030035675.1

•Rhineura floridana(Florida worm lizard (hap1 rRhiFlo1 2023))(info)GCA_030035715.1

•Rhineura floridana(Florida worm lizard (hap2 2023 refseq))(info)GCF_030035675.1

Teiioidea

Teiidae

Aspidoscelis

Aspidoscelis tigris group

Aspidoscelis tigris

Aspidoscelis tigris stejnegeri

•Aspidoscelis tigris stejnegeri(San Diegan tiger whiptail (v1.0 HBS 135688 primary hap 2022))(info)GCA_023333525.1

•Aspidoscelis tigris stejnegeri(San Diegan tiger whiptail (v1.1 HBS 135688 primary hap 2025))(info)GCA_023333525.2

•Tiliqua scincoides(common blue-tongued skink (hap1 2024))(info)GCA_035046495.1

•Tiliqua scincoides(common blue-tongued skink (hap2 2024))(info)GCA_035046505.1

•Euleptes europaea(European leaf-toed gecko (hap2 2023))(info)GCA_029931755.1

•Euleptes europaea(European leaf-toed gecko (hap1 2023))(info)GCF_029931775.1

Eublepharidae

Eublepharinae

Eublepharis

•Eublepharis macularius(leopard gecko (TG4126 2023))(info)GCF_028583425.1

Dibamidae

Dibamus

Dibamus cf. smithi

•Dibamus cf. smithi(lizards D.cf. smithi (hap1 2024))(info)GCA_046126795.1

•Dibamus cf. smithi(lizards D.cf. smithi (hap2 2024))(info)GCA_046126825.1

•Protopterus annectens(West African lungfish (Aquariam Glaser DD20220218a primary hap 2024))(info)GCA_040939525.1

•Latimeria chalumnae(coelacanth (fLatCha1 primary hap 2024))(info)GCF_037176945.1

Archocentrus centrarchus

•Archocentrus centrarchus(flier cichlid (alternate hap MPI-CPG 2019))(info)GCA_007364235.1

•Archocentrus centrarchus(flier cichlid (MPI-CPG 2019 genbank))(info)GCA_007364275.2

•Archocentrus centrarchus(flier cichlid (MPI-CPG 2019 refseq))(info)GCF_007364275.1

Astatotilapia calliptera

•Astatotilapia calliptera(eastern happy (v3 2021))(info)GCA_900246225.5

•Astatotilapia calliptera(eastern happy (primary hap 2024))(info)GCA_964374335.1

•Astatotilapia calliptera(eastern happy (v2 2018))(info)GCF_900246225.1

Rhamphochromis

unclassified Rhamphochromis

•Rhamphochromis sp. 'chilingali'(Malawi cichlid R.sp.'chilingali' (2024))(info)GCA_963969265.1

Aulonocara

•Aulonocara stuartgranti(flavescent peacock cichlid (primary hap 2025))(info)GCA_965226115.1

Pholidichthyidae

Pholidichthys

Pholidichthys leucotaenia

•Pholidichthys leucotaenia(convict blenny (fPhoLeu1 alternate hap 2021))(info)GCA_020510965.1

•Pholidichthys leucotaenia(convict blenny (primary hap 2021))(info)GCA_020510985.1

•Xenentodon cancila(freshwater garfish (fXenCan1 alternate hap 2020))(info)GCA_014839645.1

•Xenentodon cancila(freshwater garfish (primary hap 2020))(info)GCA_014839995.1

•Anableps anableps(largescale foureyes (primary hap 2020))(info)GCA_014839685.1

•Anableps anableps(largescale foureyes (fAnaAna1 alternate hap 2020))(info)GCA_014839705.1

Fundulidae

Fundulus

Fundulus diaphanus

•Fundulus diaphanus(banded killifish (hap2 2024))(info)GCA_037038625.1

•Fundulus diaphanus(banded killifish (hap1 2024))(info)GCA_037039145.1

Goodeidae

Girardinichthys

•Girardinichthys multiradiatus(dark-edged splitfin (DD_20200921_A 2022 refseq))(info)GCF_021462225.1

Atheriniformes

Melanotaeniidae

Melanotaenia

Melanotaenia boesemani

•Melanotaenia boesemani(Boeseman's rainbowfish (fMelBoe1 alternate hap 2021))(info)GCA_017639755.1

•Melanotaenia boesemani(Boeseman's rainbowfish (primary hap 2021))(info)GCF_017639745.1

Atherinopsidae

Atherinopsinae

Odontesthes

Odontesthes bonariensis

•Odontesthes bonariensis(pejerrey (fOdoBon6 haplotype 1 2023))(info)GCA_027942865.1

•Odontesthes bonariensis(pejerrey (fOdoBon6 haplotype 2 2023))(info)GCA_027942885.1

Menidiinae

Menidia

Menidia menidia

•Menidia menidia(Atlantic silverside (fMenMen1 hap2 2025))(info)GCA_048544195.1

•Menidia menidia(Atlantic silverside (fMenMen1 hap1 2025))(info)GCA_048628825.1

Telmatherinidae

Telmatherina

Telmatherina bonti

•Telmatherina bonti(bonti-bonti (primary hap 2022))(info)GCA_933228915.1

•Telmatherina bonti(bonti-bonti (fTelBon1 alternate hap 2022))(info)GCA_933228925.1

•Cristiceps australis(crested weedfish (hap2 OG76 2025))(info)GCA_049082045.1

•Cristiceps australis(crested weedfish (hap1 OG76 2025))(info)GCA_049082185.1

•Salarias fasciatus(jewelled blenny (alternate hap 2019))(info)GCA_902148835.1

•Salarias fasciatus(jewelled blenny (2019))(info)GCF_902148845.1

Lipophrys

Lipophrys pholis

•Lipophrys pholis(shanny (primary hap 2023))(info)GCA_963383615.1

•Lipophrys pholis(shanny (alternate hap 2023))(info)GCA_963383635.1

Blenniinae

Blennius

•Blennius ocellaris(butterfly blenny (primary hap 2023))(info)GCA_963422515.1

•Gouania willdenowi(blunt-snouted clingfish (v1 2019 genbank))(info)GCA_900634775.1

•Gouania willdenowi(blunt-snouted clingfish (v2 2020 genbank))(info)GCA_900634775.2

•Gouania willdenowi(blunt-snouted clingfish (alternate hap))(info)GCA_900650505.1

•Gouania willdenowi(blunt-snouted clingfish (v1 2019 refseq))(info)GCF_900634775.1

Ovalentaria incertae sedis

Ambassidae

Parambassis

Parambassis ranga

•Parambassis ranga(Indian glassy fish (v2 2020))(info)GCA_900634625.2

•Parambassis ranga(Indian glassy fish (alternate hap 2019))(info)GCA_900651595.1

•Parambassis ranga(Indian glassy fish (v1 2019))(info)GCF_900634625.1

•Chelon labrosus(thicklip grey mullet (primary hap 2023))(info)GCA_963514085.1

•Notolabrus celidotus(New Zealand spotty (primary hap 2019 genbank))(info)GCA_009762535.1

•Notolabrus celidotus(New Zealand spotty (alternate hap 2019 genbank))(info)GCA_009762545.1

•Notolabrus celidotus(New Zealand spotty (primary hap refseq))(info)GCF_009762535.1

Tautogolabrus

Tautogolabrus adspersus

•Tautogolabrus adspersus(cunner (fTauAds1 alternate hap 2021))(info)GCA_020745675.1

•Tautogolabrus adspersus(cunner (primary hap 2021))(info)GCA_020745685.1

Choerodon

•Choerodon schoenleinii(blackspot tuskfish (SL-2024 2025))(info)GCA_047301625.1

Symphodus

•Symphodus melops(corkwing wrasse (primary hap 2022))(info)GCA_947650265.1

Labrus

Labrus bergylta

•Labrus bergylta(ballan wrasse (primary hap 2024 genbank))(info)GCA_963930695.1

•Labrus bergylta(ballan wrasse (primary hap 2024 refseq))(info)GCF_963930695.1

•Labrus mixtus(cuckoo wrasse (primary hap 2023))(info)GCF_963584025.1

•Cyclopterus lumpus(lumpfish (alternate hap 2019))(info)GCA_009769515.1

•Cyclopterus lumpus(lumpfish (primary hap 2019 genbank))(info)GCA_009769545.1

•Cyclopterus lumpus(lumpfish (primary hap v2.1 2023 genbank))(info)GCA_963457625.1

•Cyclopterus lumpus(lumpfish (v1 primary hap 2019 refseq))(info)GCF_009769545.1

Cottidae

Taurulus

Taurulus bubalis

•Taurulus bubalis(longspined bullhead (fTauBub2.1 alternate hap 2021))(info)GCA_910589325.1

•Taurulus bubalis(longspined bullhead (.1 primary hap 2021))(info)GCA_910589615.1

•Lycodopsis pacificus(blackbelly eelpout (fLycPai1 haplotype 1 2023))(info)GCA_028021495.1

•Lycodopsis pacificus(blackbelly eelpout (fLycPai1 haplotype 2 2023))(info)GCA_028022725.1

Gymnelinae

Melanostigma

Melanostigma gelatinosum

•Melanostigma gelatinosum(limp eelpout (alternate hap 2023))(info)GCA_949748265.1

•Melanostigma gelatinosum(limp eelpout (primary hap 2023))(info)GCA_949748355.1

•Pholis gunnellus(rock gunnel (primary hap 2021))(info)GCA_910591455.2

•Pholis gunnellus(rock gunnel (alternate hap 2021))(info)GCA_910591705.2

•Spinachia spinachia(sea stickleback (SK-2024b hap1 2025))(info)GCA_048126635.1

•Spinachia spinachia(sea stickleback (SK-2024b hap2 2025))(info)GCA_048127205.1

Pungitius

Pungitius pungitius

•Pungitius pungitius(ninespine stickleback (alternate hap 2023))(info)GCA_949316245.1

•Pungitius pungitius(ninespine stickleback (primary hap 2023 genbank))(info)GCA_949316345.1

•Pungitius pungitius(ninespine stickleback (primary hap 2023 refseq))(info)GCF_949316345.1

Gasterosteus

Gasterosteus aculeatus

•Gasterosteus aculeatus(three-spined stickleback (hap2 2024))(info)GCA_964276385.1

•Gasterosteus aculeatus(three-spined stickleback (hap1 2024))(info)GCA_964276395.1

•Sebastes umbrosus(honeycomb rockfish (fSebUmb1 alternate hap 2020))(info)GCA_015220095.1

•Sebastes umbrosus(honeycomb rockfish (primary hap 2020))(info)GCF_015220745.1

•Sebastes fasciatus(Acadian redfish (fSebFas1 primary hap 2024))(info)GCA_043250625.1

•Epinephelus lanceolatus(giant grouper (andai-2023 2024))(info)GCA_041903045.1

Epinephelus rankini

•Epinephelus rankini(Rankin cod (hap2 2025))(info)GCA_048129065.1

•Epinephelus rankini(Rankin cod (hap1 2025))(info)GCA_048129235.1

•Cottoperca gobio(channel bull blenny (2019 genbank))(info)GCA_900634415.1

•Cottoperca gobio(channel bull blenny (alternate hap 2019))(info)GCA_900634435.1

•Cottoperca gobio(channel bull blenny (2019 refseq))(info)GCF_900634415.1

Nototheniidae

Notothenia

Notothenia rossii

•Notothenia rossii(marbled rockcod (alternate hap 2023))(info)GCA_949606865.1

•Notothenia rossii(marbled rockcod (primary hap 2023))(info)GCA_949606895.1

Triglioidei

Triglidae

Eutrigla

•Eutrigla gurnardus(grey gurnard (primary hap 2023))(info)GCA_963514095.1

Percoidei

Trachinidae

Echiichthys

•Echiichthys vipera(lesser weever (primary hap 2023))(info)GCA_963691815.1

Antennarius maculatus

•Antennarius maculatus(warty frogfish (fAntMac1 alternate hap 2020))(info)GCA_013347815.1

•Antennarius maculatus(warty frogfish (primary hap 2020))(info)GCA_013358685.1

•Chelmon rostratus(copperband butterflyfish (fCheRos1 alternate hap 2021))(info)GCA_017976315.1

•Chelmon rostratus(copperband butterflyfish (primary hap 2021))(info)GCF_017976325.1

Chaetodon

Chaetodon trifascialis

•Chaetodon trifascialis(chevron butterflyfish (hap2 2024))(info)GCA_039877575.1

•Chaetodon trifascialis(chevron butterflyfish (hap1 2024 genbank))(info)GCA_039877785.1

•Chaetodon trifascialis(chevron butterflyfish (hap1 2024 refseq))(info)GCF_039877785.1

•Micropterus salmoides(largemouth bass (2-A1 2021))(info)GCA_019677235.1

Enoplosidae

Enoplosus

Enoplosus armatus

•Enoplosus armatus(old wife E.armatus (hap2 2024))(info)GCA_043640875.1

•Enoplosus armatus(old wife E.armatus (hap1 2024))(info)GCF_043641665.1

Eupercaria incertae sedis

Scatophagidae

Scatophagus

Scatophagus argus

•Scatophagus argus(butterfish (fScaArg1 alternate hap 2021))(info)GCA_020382915.1

•Scatophagus argus(butterfish (primary hap 2021))(info)GCF_020382885.2

Acropomatiformes

Lateolabracidae

Lateolabrax

•Lateolabrax maculatus(spotted sea bass (ZS-2023 2023))(info)GCA_031216445.1

Pempheridae

Pempheris

Pempheris klunzingeri

•Pempheris klunzingeri(rough bullseye (RE-2024b hap1 2024 genbank))(info)GCA_042242105.1

•Pempheris klunzingeri(rough bullseye (RE-2024b hap2 2024))(info)GCA_042242125.1

•Pempheris klunzingeri(rouch bullseye (RE-2024b hap1 2024 refseq))(info)GCF_042242105.1

Spariformes

Sparidae

Acanthopagrus

•Acanthopagrus schlegelii(black porgy (SG-2024 2024))(info)GCA_041753875.1

Acanthopagrus latus

•Acanthopagrus latus(yellowfin seabream (v.2019 alternate hap 2020))(info)GCA_904848175.1

•Acanthopagrus latus(yellowfin seabream (v.2019 primary hap 2020))(info)GCF_904848185.1

Sparus

Sparus aurata

•Sparus aurata(gilthead seabream (v2 2021))(info)GCA_900880675.2

•Sparus aurata(gilthead seabream (alternate hap 2019))(info)GCA_900880695.1

•Sparus aurata(gilthead seabream (v1 2019))(info)GCF_900880675.1

Pagrus

Pagrus pagrus

•Pagrus pagrus(common seabream (hap2.1 2025))(info)GCA_965225695.1

•Pagrus pagrus(common seabream (hap1.1 2025))(info)GCA_965226575.1

•Lethrinus nebulosus(spangled emperor (hap2 2024))(info)GCA_045362485.1

•Lethrinus nebulosus(spangled emperor (hap1 2024))(info)GCA_045362495.1

•Pristipomoides typus(sharptooth jobfish (hap2 2024))(info)GCA_045363885.1

•Pristipomoides typus(sharptooth jobfish (hap1 2024))(info)GCA_045363895.1

Paradicichthyinae

Symphorus

Symphorus nematophorus

•Symphorus nematophorus(chinamanfish (OG11 2025))(info)GCA_048128715.1

•Symphorus nematophorus(chinamanfish (OG11 2025))(info)GCA_048128725.1

Caesioninae

Caesio

Caesio teres

•Caesio teres(yellow and blueback fusilier (OG672 2025))(info)GCA_048129025.1

•Caesio teres(yellow and blueback fusilier (OG672 2025))(info)GCA_048129055.1

•Takifugu rubripes(torafugu (fTakRub1.3 2021 genbank))(info)GCA_901000725.3

•Takifugu rubripes(torafugu (alternate hap 2019))(info)GCA_901000745.3

•Takifugu rubripes(torafugu (fTakRub1.2 2019 refseq))(info)GCF_901000725.2

Uranoscopiformes

Ammodytidae

Hyperoplus

Hyperoplus immaculatus

•Hyperoplus immaculatus(greater sand-eel (primary hap 2023))(info)GCA_949357725.1

•Hyperoplus immaculatus(greater sand-eel (alternate hap 2023))(info)GCA_949358355.1

Ammodytes

Ammodytes marinus

•Ammodytes marinus(lesser sand-eel (primary hap 2023))(info)GCA_949987685.1

•Ammodytes marinus(lesser sand-eel (alternate hap 2023))(info)GCA_950004245.1

Hippoglossus hippoglossus

•Hippoglossus hippoglossus(Atlantic halibut (primary hap 2019 genbank))(info)GCA_009819705.1

•Hippoglossus hippoglossus(Atlantic halibut (alternate hap 2019))(info)GCA_009819745.1

•Hippoglossus hippoglossus(Atlantic halibut (2019 refseq))(info)GCF_009819705.1

Pleuronectes

Pleuronectes platessa

•Pleuronectes platessa(European plaice (alternate hap 2022))(info)GCA_947347695.1

•Pleuronectes platessa(European plaice (primary hap 2022 refseq))(info)GCF_947347685.1

Platichthys

Platichthys flesus

•Platichthys flesus(European flounder (alternate hap 2023))(info)GCA_949316195.1

•Platichthys flesus(European flounder (primary hap 2023 genbank))(info)GCA_949316205.1

•Platichthys flesus(European flounder (primary hap 2023 refseq))(info)GCF_949316205.1

Microstomus

•Microstomus kitt(lemon sole (primary hap 2024))(info)GCA_964266715.1

Limanda

•Limanda limanda(common dab (primary hap 2023))(info)GCF_963576545.1

Soleidae

Solea

Solea solea

•Solea solea(common sole (alternate hap 2023))(info)GCA_958295035.1

•Solea solea(common sole (primary hap 2023 refseq))(info)GCF_958295425.1

Microchirus

•Microchirus variegatus(thickback sole (primary hap 2023))(info)GCA_963457635.1

Scophthalmidae

Scophthalmus

•Scophthalmus maximus(turbot (primary hap 2023))(info)GCA_963854745.1

Carangaria incertae sedis

Toxotidae

Toxotes

Toxotes jaculatrix

•Toxotes jaculatrix(banded archerfish (alternate hap 2021))(info)GCA_017976295.1

•Toxotes jaculatrix(banded archerfish (primary hap 2021 refseq))(info)GCF_017976425.1

•Echeneis naucrates(live sharksucker (v2 2021))(info)GCA_900963305.2

•Echeneis naucrates(live sharksucker (alternate hap 2019))(info)GCA_900963505.1

•Echeneis naucrates(live sharksucker (v1 2019))(info)GCF_900963305.1

Carangidae

Trachurus

Trachurus trachurus

•Trachurus trachurus(Atlantic horse mackerel (alternate hap 2021))(info)GCA_905171655.2

•Trachurus trachurus(Atlantic horse mackerel (primary hap 2021))(info)GCA_905171665.2

Periophthalmus magnuspinnatus

•Periophthalmus magnuspinnatus(Korean giant-fin mudskipper (v1 primary hap 2020 genbank))(info)GCA_009829125.1

•Periophthalmus magnuspinnatus(Korean giant-fin mudskipper (v1 alternate hap 2020 genbank))(info)GCA_009829135.1

•Periophthalmus magnuspinnatus(Korean giant-fin mudskipper (v1 primary hap 2020 refseq))(info)GCF_009829125.1

•Periophthalmus magnuspinnatus(Korean giant-fin mudskipper (v1.2 primary hap 2023))(info)GCF_009829125.3

Gobiinae

Gobius

•Gobius niger(black goby (primary hap 2023))(info)GCA_951799975.1

Sphaeramia orbicularis

•Sphaeramia orbicularis(orbiculate cardinalfish (alternate hap 2019))(info)GCA_902148825.1

•Sphaeramia orbicularis(orbiculate cardinalfish (2019))(info)GCF_902148855.1

•Scomber japonicus(chub mackerel (fScoJap1 alternate hap 2022))(info)GCA_027409835.1

•Scomber japonicus(chub mackerel (primary hap 2022 refseq))(info)GCF_027409825.1

Scomber scombrus

•Scomber scombrus(Atlantic mackerel (primary hap 2023 genbank))(info)GCA_963691925.1

•Scomber scombrus(Atlantic mackerel (primary hap 2023 refseq))(info)GCF_963691925.1

Thunnini

Thunnus

Thunnus maccoyii

•Thunnus maccoyii(southern bluefin tuna (alternate hap 2021))(info)GCA_910596085.1

•Thunnus maccoyii(southern bluefin tuna (primary hap 2021 refseq))(info)GCF_910596095.1

Thunnus albacares

•Thunnus albacares(yellowfin tuna (alternate hap 2021))(info)GCA_914744365.1

•Thunnus albacares(yellowfin tuna (primary hap 2021))(info)GCF_914725855.1

Thunnus thynnus

•Thunnus thynnus(Atlantic bluefin tuna (primary hap 2024 genbank))(info)GCA_963924715.1

•Thunnus thynnus(Atlantic bluefin tuna (primary hap 2024 refseq))(info)GCF_963924715.1

Arripidae

Arripis

Arripis georgiana

•Arripis georgiana(Australian ruff (RE-2024a hap1 2024))(info)GCA_042242115.1

•Arripis georgiana(Australian ruff (RE-2024a hap2 2024))(info)GCA_042242135.1

Neosynchiropus ocellatus

•Neosynchiropus ocellatus(ocellated dragonet (captive hap2 2024))(info)GCA_044231645.1

•Neosynchiropus ocellatus(ocellated dragonet (captive hap1 2024))(info)GCA_044231665.1

Synchiropus

Synchiropus picturatus

•Synchiropus picturatus(picturesque dragonet (SynPic1 hap2 2024))(info)GCA_044231675.1

•Synchiropus picturatus(picturesque dragonet (SynPic1 hap1 2024))(info)GCA_044231685.1

•Syngnathus typhle(broad-nosed pipefish (SK-2024d hap1 2025))(info)GCA_048301445.1

•Syngnathus typhle(broad-nosed pipefish (SK-2024d hap2 2025))(info)GCA_048301605.1

Syngnathus acus

•Syngnathus acus(greater pipefish (v1.1 2019))(info)GCA_901709675.1

•Syngnathus acus(greater pipefish (v1 alternate hap 2019))(info)GCA_901709685.1

•Syngnathus acus(greater pipefish (v2 alternate haplotype 2023))(info)GCA_948146095.1

•Syngnathus acus(greater pipefish (v2 2023 genbank))(info)GCA_948146105.1

•Syngnathus acus(greater pipefish (v1.2 2020 refseq))(info)GCF_901709675.1

Syngnathiformes incertae sedis

Aulostomidae

Aulostomus

Aulostomus maculatus

•Aulostomus maculatus(trumpetfish (SK-2024c 2025))(info)GCA_048301465.1

•Aulostomus maculatus(trumpetfish (SK-2024c 2025))(info)GCA_048301475.1

•Anabas testudineus(climbing perch (v1.2 2018 genbank))(info)GCA_900324465.2

•Anabas testudineus(climbing perch (v1.3 2021))(info)GCA_900324465.3

•Anabas testudineus(climbing perch (alternate hap 2019))(info)GCA_900650485.1

•Anabas testudineus(climbing perch (v1.2 2018 refseq))(info)GCF_900324465.2

•Betta splendens(Siamese fighting fish (v1 alternate hap 2019))(info)GCA_900651605.1

•Betta splendens(Siamese fighting fish (v5.4 alternate hap 2023))(info)GCA_900651605.2

•Betta splendens(Siamese fighting fish (v2 primary hap 2019))(info)GCF_900634795.2

•Betta splendens(Siamese fighting fish (v3 primary hap 2020))(info)GCF_900634795.3

•Betta splendens(Siamese fighting fish (v4 primary hap 2023))(info)GCF_900634795.4

Mastacembelus armatus

•Mastacembelus armatus(zig-zag eel (v1.3 2021 genbank))(info)GCA_900324485.3

•Mastacembelus armatus(zig-zag eel (alternate hap))(info)GCA_900700395.1

•Mastacembelus armatus(zig-zag eel (v1.2 2019 refseq))(info)GCF_900324485.2

Thalassophryne amazonica

•Thalassophryne amazonica(prehistoric monster fish (alternate hap 2019))(info)GCA_902500245.1

•Thalassophryne amazonica(prehistoric monster fish (2019 genbank))(info)GCA_902500255.1

•Thalassophryne amazonica(prehistoric monster fish (2019 refseq))(info)GCF_902500255.1

•Centroberyx gerrardi(bight redfish (hap1 2025))(info)GCA_048128805.1

•Centroberyx gerrardi(bight redfish (hap2 2025))(info)GCA_048129085.1

Melamphaidae

Poromitra

Poromitra crassiceps

•Poromitra crassiceps(crested bigscale (hap1.1 2025))(info)GCA_964638095.1

•Poromitra crassiceps(crested bigscale (hap2.1 2025))(info)GCA_964638665.1

•Diretmus argenteus(silver spinyfin (hap1 2025))(info)GCA_048569125.1

•Diretmus argenteus(silver spinyfin (hap2 2025))(info)GCA_048569135.1

•Myripristis murdjan(pinecone soldierfish (alternate hap 2019))(info)GCA_902148815.1

•Myripristis murdjan(pinecone soldierfish (2019))(info)GCF_902150065.1

•Lampris incognitus(smalleye Pacific opah (hap1 2023))(info)GCA_029633845.1

•Lampris incognitus(smalleye Pacific opah (hap2 2023 refseq))(info)GCF_029633865.1

•Amblyopsis spelaea(northern cavefish (hap1 2024))(info)GCA_046255685.1

•Amblyopsis spelaea(northern cavefish (hap2 2024))(info)GCA_046255725.1

•Gadus morhua(Atlantic cod (alternate hap))(info)GCA_902167395.1

•Gadus morhua(Atlantic cod (2019))(info)GCF_902167405.1

Pollachius

Pollachius pollachius

•Pollachius pollachius(pollack (alternate hap 2023))(info)GCA_949987605.1

•Pollachius pollachius(pollack (primary hap 2023))(info)GCA_949987615.1

Micromesistius

•Micromesistius poutassou(blue whiting (primary hap 2024))(info)GCA_964030765.1

•Zeus faber(John dory (alternate hap 2023))(info)GCA_960530785.1

•Zeus faber(John dory (primary hap 2023))(info)GCA_960531495.1

•Polymixia lowei(beardfish (hap1 2025))(info)GCA_047511565.1

•Polymixia lowei(beardfish (hap2 2025))(info)GCA_047511595.1

Polymixia cf. hollisterae

•Polymixia cf. hollisterae(Bermuda beardfish (OG660 hap1 2025))(info)GCA_048537225.1

•Polymixia cf. hollisterae(Bermuda beardfish (OG660 hap2 2025))(info)GCA_048537235.1

•Electrona antarctica(Antarctic lanternfish (alternate hap 2023))(info)GCA_951214905.1

•Electrona antarctica(Antarctic lanternfish (primary hap 2023))(info)GCA_951216825.1

Gymnoscopelus

Gymnoscopelus braueri

•Gymnoscopelus braueri(Brauer's lanternfish (primary hap 2023))(info)GCA_963280865.1

•Gymnoscopelus braueri(Brauer's lanternfish (alternate hap 2023))(info)GCA_963281105.1

•Gymnoscopelus microlampas(minispotted lanternfish (primary hap 2023))(info)GCA_963454915.1

Nannobrachium

•Nannobrachium achirus(lantern fish (primary hap 2024))(info)GCA_963921795.1

Protomyctophum

•Protomyctophum bolini(Bolin's lanternfish (primary hap 2024))(info)GCA_963924005.1

Protomyctophum parallelum

•Protomyctophum parallelum(parallel lanternfish (primary hap 2024))(info)GCA_964188405.1

•Protomyctophum parallelum(parallel lanternfish (alternate hap 2024))(info)GCA_964188415.1

•Notolepis coatsorum(Antarctic jonasfish (primary hap 2024))(info)GCA_963971535.1

•Esox lucius(northern pike (alternate hap 2020))(info)GCA_011004835.1

•Esox lucius(northern pike (primary hap 2020 genbank))(info)GCA_011004845.1

•Esox lucius(northern pike (primary hap 2020 refseq))(info)GCF_011004845.1

•Aplochiton taeniatus(peladilla (primary hap 2021))(info)GCA_017639675.1

•Aplochiton taeniatus(peladilla (fAplTae1 alternate hap 2021))(info)GCA_017639685.1

•Salvelinus alpinus oquassa(Arctic char (CBP00131 primary hap 2024))(info)GCA_036784965.1

Salmo

Salmo trutta

•Salmo trutta(river trout (v2 2021))(info)GCA_901001165.2

•Salmo trutta(river trout (v1 2019))(info)GCF_901001165.1

Coregoninae

Coregonus

Coregonus lavaretus

•Coregonus lavaretus(common whitefish (fCorLav1.hap2.1 2024))(info)GCA_964263835.1

•Coregonus lavaretus(common whitefish (fCorLav1.hap1.1 2024))(info)GCA_964263955.1

•Argentina silus(greater argentine (primary hap 2023))(info)GCA_951799395.1

•Argentina silus(greater argentine (alternate hap 2023))(info)GCA_951799415.1

Microstomatidae

Nansenia

•Nansenia antarctica(pencil smelt N.antarctica (primary hap 2024))(info)GCA_963989245.1

•Osmerus mordax(rainbow smelt (fOsmMor3 primary hap 2024))(info)GCA_038355195.1

Osmerus eperlanus

•Osmerus eperlanus(European smelt (primary hap 2023 genbank))(info)GCA_963692335.1

•Osmerus eperlanus(European smelt (primary hap 2023 refseq))(info)GCF_963692335.1

Borostomias antarcticus

•Borostomias antarcticus(large-eye snaggletooth (alternate hap 2023))(info)GCA_949987545.1

•Borostomias antarcticus(large-eye snaggletooth (primary hap 2023))(info)GCA_949987555.1

Lepidogalaxias salamandroides

•Lepidogalaxias salamandroides(salamanderfish (hap2 2025))(info)GCA_049190655.1

•Lepidogalaxias salamandroides(salamanderfish (hap1 2025))(info)GCA_049190665.1

Electrophorus electricus

•Electrophorus electricus(electric eel (alternate hap 2020))(info)GCA_013347915.1

•Electrophorus electricus(electric eel (primary hap 2020 genbank))(info)GCA_013358815.1

•Electrophorus electricus(electric eel (QZ-2024a 2024))(info)GCA_041902795.1

•Electrophorus electricus(electric eel (primary hap 2020 refseq))(info)GCF_013358815.1

Pygocentrus nattereri

•Pygocentrus nattereri(red-bellied piranha (fPygNat1 alternate hap 2020))(info)GCA_015220065.1

•Pygocentrus nattereri(red-bellied piranha (primary hap 2020))(info)GCF_015220715.1

Erythrinidae

Hoplias

Hoplias malabaricus

•Hoplias malabaricus(trahira (v1 hap1 2023))(info)GCA_029633855.1

•Hoplias malabaricus(trahira (v2 hap1 2024 genbank))(info)GCA_029633855.2

•Hoplias malabaricus(trahira (v1 hap2 2023))(info)GCA_029633875.1

•Hoplias malabaricus(trahira (v2 hap2 2024))(info)GCA_029633875.2

•Hoplias malabaricus(trahira (v1 hap1 2024 refseq))(info)GCF_029633855.1

Bryconidae

Salmininae

Salminus

Salminus brasiliensis

•Salminus brasiliensis(dorado (hap1 2023))(info)GCA_030448965.1

•Salminus brasiliensis(dorado (hap2 2023 genbank))(info)GCA_030463535.1

•Salminus brasiliensis(dorado (hap2 2023 refseq))(info)GCF_030463535.1

Acestrorhamphidae

Acestrorhamphinae

Astyanax

•Astyanax mexicanus(Mexican tetra (ESR-SI-001 2022))(info)GCF_023375975.1

•Clarias gariepinus(North African catfish (Netherlands MV-2021 primary hap 2022))(info)GCA_024256435.1

•Clarias gariepinus(North African catfish (Netherlands MV-2021 alternate hap 2022))(info)GCA_024256465.1

Pangasiidae

Pangasianodon

Pangasianodon hypophthalmus

•Pangasianodon hypophthalmus(striped catfish (fPanHyp1 alternate hap 2022))(info)GCA_027382375.1

•Pangasianodon hypophthalmus(striped catfish (primary hap 2022 refseq))(info)GCF_027358585.1

Ariidae

Neoarius

Neoarius graeffei

•Neoarius graeffei(lesser salmon catfish (primary hap 2023 genbank))(info)GCA_027579695.1

•Neoarius graeffei(lesser salmon catfish (fNeoGra1 alternate hap 2023))(info)GCA_027579805.1

•Neoarius graeffei(lesser salmon catfish (primary hap 2023 refseq))(info)GCF_027579695.1

Siluridae

Silurus

Silurus aristotelis

•Silurus aristotelis(Aristotle's catfish (alternate hap 2022))(info)GCA_946807865.1

•Silurus aristotelis(Aristotle's catfish (primary hap 2022))(info)GCA_946808225.1

Loricarioidei

Trichomycteridae

Trichomycterus

Trichomycterus rosablanca

•Trichomycterus rosablanca(Andian cavefish (hap1 2023 genbank))(info)GCA_030014385.1

•Trichomycterus rosablanca(Rosablanca catfish (hap2 2023))(info)GCA_030015355.1

•Trichomycterus rosablanca(Andian cavefish (hap1 2023 refseq))(info)GCF_030014385.1

Scardinius erythrophthalmus

•Scardinius erythrophthalmus(rudd (Europe DD20220513a primary hap 2022))(info)GCA_024453875.1

•Scardinius erythrophthalmus(rudd (fScaEry2.hap1.1 2024))(info)GCA_964197995.1

Squalius

Squalius cephalus

•Squalius cephalus(European chub (primary hap 2023))(info)GCA_949319135.1

•Squalius cephalus(European chub (alternate hap 2023))(info)GCA_949319155.1

Rutilus

Rutilus rutilus

•Rutilus rutilus(roach minnow (alternate hap 2023))(info)GCA_951802655.1

•Rutilus rutilus(roach minnow (primary hap 2023))(info)GCA_951802725.1

Abramis

•Abramis brama(common bream (primary hap 2024))(info)GCA_963993115.1

Leuciscus

Leuciscus leuciscus

•Leuciscus leuciscus(common dace (hap1.1 2025))(info)GCA_965113295.1

•Leuciscus leuciscus(common dace (hap2.1 2025))(info)GCA_965113325.1

Pogonichthyinae

Cyprinella

Cyprinella venusta

•Cyprinella venusta(blacktail shiner (hap1 2024))(info)GCA_038021265.1

•Cyprinella venusta(blacktail shiner (hap2 2024))(info)GCA_038024135.1

Phoxininae

Phoxinus

Phoxinus phoxinus

•Phoxinus phoxinus(Eurasian minnow (primary hap 2023))(info)GCA_949152265.1

•Phoxinus phoxinus(Eurasian minnow (alternate hap 2023))(info)GCA_949152275.1

Gobionidae

Sarcocheilichthyinae

Rhinogobio

•Rhinogobio nasutus(bony fish R.nasutus (DBWJ_T2T 2025))(info)GCA_048301585.1

Gobioninae

Gobio

Gobio gobio

•Gobio gobio(gudgeon (primary hap 2023))(info)GCA_949357685.1

•Gobio gobio(gudgeon (alternate hap 2023))(info)GCA_949357705.1

•Danio rerio(zebrafish (WGS:CAHPTB02 2020))(info)GCA_903684855.2

•Danio rerio(zebrafish (WGS:CAHPTA01 2020))(info)GCA_903684865.1

•Danio rerio(zebrafish (fDanRer4 alternate hap 2022))(info)GCA_944039255.1

•Danio rerio(zebrafish (WGS:CALUEM01 primary hap 2022))(info)GCA_944039275.1

•Barbus barbus(barbel (primary hap 2022))(info)GCA_936440315.1

•Barbus barbus(barbel (alternate hap 2022))(info)GCA_936446605.1

Cyprininae

Carassius

Carassius carassius

•Carassius carassius(crucian carp (alternate hap 2023))(info)GCA_963082795.1

•Carassius carassius(crucian carp (primary hap 2023 refseq))(info)GCF_963082965.1

•Barbatula barbatula(stone loach (primary hap 2022))(info)GCA_947034865.1

•Barbatula barbatula(stone loach (alternate hap 2022))(info)GCA_947034905.1

•Chanos chanos(milkfish (alternate hap 2019))(info)GCA_902362175.1

•Chanos chanos(milkfish (2019))(info)GCF_902362185.1

•Alosa sapidissima(American shad (fAloSap1 alternate hap 2021))(info)GCA_018492705.1

•Alosa sapidissima(American shad (primary hap 2021))(info)GCF_018492685.1

Clupeinae

Sprattus

•Sprattus sprattus(European sprat (primary hap 2023))(info)GCA_963457725.1

Sardina

Sardina pilchardus

•Sardina pilchardus(sardine (primary hap 2023 genbank))(info)GCA_963854185.1

•Sardina pilchardus(sardine (primary hap 2023 refseq))(info)GCF_963854185.1

•Coilia mystus(Osbeck's grenadier anchovy (Shantou hap1 2025))(info)GCA_048544215.1

•Coilia mystus(Osbeck's grenadier anchovy (Shantou hap2 2025))(info)GCA_048544225.1

•Denticeps clupeoides(denticle herring (alternate hap 2019))(info)GCA_900700345.2

•Denticeps clupeoides(denticle herring (v2 2020))(info)GCA_900700375.2

•Denticeps clupeoides(denticle herring (v1 2019))(info)GCF_900700375.1

•Scleropages formosus(Asian bonytongue (alternate hap))(info)GCA_900964985.2

•Scleropages formosus(Asian bonytongue (2019))(info)GCF_900964775.1

•Megalops cyprinoides(Indo-Pacific tarpon (alternate hap 2020))(info)GCA_013368575.1

•Megalops cyprinoides(Indo-Pacific tarpon (2020))(info)GCF_013368585.1

Anguilliformes

Anguillidae

Anguilla

•Anguilla anguilla(European eel (primary hap 2020 refseq))(info)GCF_013347855.1

Congridae

Congrinae

Conger

•Conger conger(European conger (primary hap 2023 refseq))(info)GCF_963514075.1

•Amia calva(bowfin (hap2 2024))(info)GCA_036365475.1

•Amia calva(bowfin (hap1 2024 genbank))(info)GCA_036373705.1

•Amia calva(bowfin (hap1 2024 refseq))(info)GCF_036373705.1

•Lepisosteus oculatus(spotted gar (fLepOcu1hap1 2024))(info)GCA_040954845.1

•Lepisosteus oculatus(spotted gar (fLepOcu1hap2 2024))(info)GCF_040954835.1

•Acipenser ruthenus(sterlet (maternal hap 2022 genbank))(info)GCA_902713425.1

•Acipenser ruthenus(sterlet (v1 paternal hap 2020))(info)GCA_902713435.1

•Acipenser ruthenus(sterlet (v2 paternal hap 2022))(info)GCA_902713435.2

•Acipenser ruthenus(sterlet (maternal hap 2022 refseq))(info)GCF_902713425.1

Erpetoichthys calabaricus

•Erpetoichthys calabaricus(reedfish (v1 alternate hap 2019))(info)GCA_900700845.2

•Erpetoichthys calabaricus(reedfish (v3 alternate hap 2021))(info)GCA_900700845.3

•Erpetoichthys calabaricus(reedfish (2019))(info)GCF_900747795.1

•Erpetoichthys calabaricus(reedfish (2021))(info)GCF_900747795.2

•Pristis pectinata(smalltooth sawfish (v2 primary hap 2019 genbank))(info)GCA_009764475.1

•Pristis pectinata(smalltooth sawfish (alternate hap 2019))(info)GCA_009764485.1

•Pristis pectinata(smalltooth sawfish (v2.1 primary hap 2019 refseq))(info)GCF_009764475.1

•Amblyraja radiata(thorny skate (alternate hap CabotCenter1 2020))(info)GCA_010909745.1

•Amblyraja radiata(thorny skate (v1 primary hap CabotCenter1 2020 genbank))(info)GCA_010909765.1

•Amblyraja radiata(thorny skate (v1 CabotCenter1 v1 2020 refseq))(info)GCF_010909765.1

•Amblyraja radiata(thorny skate (v1.1 primary hap CabotCenter1 2020))(info)GCF_010909765.2

Raja

•Raja brachyura(blonde ray (primary hap 2023))(info)GCA_963514005.1

•Mobula birostris(giant manta (hap1 2023 genbank))(info)GCA_030028105.1

•Mobula birostris(giant manta (hap2 2023))(info)GCA_030035685.1

•Mobula birostris(giant manta (hap1 2023 refseq))(info)GCF_030028105.1

•Hypanus sabinus(Atlantic stingray (hap2 2023))(info)GCA_030144785.1

•Hypanus sabinus(Atlantic stingray (hap1 2023 genbank))(info)GCA_030144855.1

•Hypanus sabinus(Atlantic stingray (hap1 2023 refseq))(info)GCF_030144855.1

•Narcine bancroftii(Caribbean electric ray (hap2 2024))(info)GCA_036971175.1

•Narcine bancroftii(Caribbean electric ray (hap1 2024 genbank))(info)GCA_036971445.1

•Narcine bancroftii(Caribbean electric ray (hap1 2024 refseq))(info)GCF_036971445.1

Carcharodon carcharias

•Carcharodon carcharias(great white shark (alternate hap 2021))(info)GCA_017639455.1

•Carcharodon carcharias(great white shark (primary hap 2021))(info)GCF_017639515.1

Cetorhininae

Cetorhinus

Cetorhinus maximus

•Cetorhinus maximus(basking shark (sCetMax3.hap1.1 2024))(info)GCA_964194155.1

•Cetorhinus maximus(basking shark (sCetMax3.hap2.1 2024))(info)GCA_964194165.1

Orectolobiformes

Hemiscylliidae

Hemiscyllium

Hemiscyllium ocellatum

•Hemiscyllium ocellatum(epaulette shark (2021 genbank))(info)GCA_020745735.1

•Hemiscyllium ocellatum(epaulette shark (alternate hap sHemOce1 2021))(info)GCA_020745765.1

•Hemiscyllium ocellatum(epaulette shark (primary hap 2021 refseq))(info)GCF_020745735.1

Stegostomatidae

Stegostoma

Stegostoma tigrinum

•Stegostoma tigrinum(zebra shark (hap2 2023))(info)GCA_030684295.1

•Stegostoma tigrinum(zebra shark (hap1 2023 refseq))(info)GCF_030684315.1

Carcharhiniformes

Scyliorhinidae

Scyliorhinus

Scyliorhinus canicula

•Scyliorhinus canicula(smaller spotted catshark (v1.2 primary hap 2021 genbank))(info)GCA_902713615.2

•Scyliorhinus canicula(smaller spotted catshark (alternate hap 2021))(info)GCA_902713625.2

•Scyliorhinus canicula(smaller spotted catshark (v1.1 primary hap 2020 refseq))(info)GCF_902713615.1

Triakidae

Mustelus

Mustelus asterias

•Mustelus asterias(starry smooth-hound (sMusAst1.hap1.1 2024))(info)GCA_964213995.1

•Mustelus asterias(starry smooth-hound (sMusAst1.hap2.1 2024))(info)GCA_964214025.1

Heterodontus francisci

•Heterodontus francisci(horn shark (hap2 2024))(info)GCA_036365495.1

•Heterodontus francisci(horn shark (hap1 2024))(info)GCA_036365525.1

•Heterodontus francisci(horn shark (sHetFra1hap1 2024))(info)GCF_036365525.1

•Heptranchias perlo(sharpnose sevengill shark (hap2 2024))(info)GCA_035084135.1

•Heptranchias perlo(sharpnose sevengill shark (hap1 2024 refseq))(info)GCA_035084215.1

•Heptranchias perlo(sharpnose sevengill shark (hap1 2024 genbank))(info)GCF_035084215.1

Pristiophoriformes

Pristiophoridae

Pristiophorus

Pristiophorus japonicus

•Pristiophorus japonicus(Japanese sawshark (hap1 2024 genbank))(info)GCA_044704955.1

•Pristiophorus japonicus(Japanese sawshark (hap2 2024))(info)GCA_044704965.1

•Pristiophorus japonicus(Japanese sawshark (hap1 2024 refseq))(info)GCF_044704955.1

•Hydrolagus colliei(spotted ratfish (hap1 2024))(info)GCA_035084065.1

•Hydrolagus colliei(spotted ratfish (hap2 2024))(info)GCA_035084275.1

•Petromyzon marinus(sea lamprey (alternate hap 2020))(info)GCA_010993595.1

•Petromyzon marinus(sea lamprey (Great Lakes invasive population PM22_M1 primary hap 2025))(info)GCA_048934315.1

•Petromyzon marinus(sea lamprey (Great Lakes invasive population PM22_M1 alternate hap 2025))(info)GCA_048941845.1

•Petromyzon marinus(sea lamprey (primary hap 2020))(info)GCF_010993605.1

Lampetra

•Lampetra fluviatilis(European river lamprey (primary hap 2024))(info)GCA_964198595.1

•Myxine glutinosa(Atlantic hagfish (primary hap 2024))(info)GCA_964187855.1

•Myxine glutinosa(Atlantic hagfish (MG_SS 2024))(info)GCF_040869285.1

•Branchiostoma floridae x Branchiostoma japonicum(lancelets B.floridae x B.japonicum (bjbf 2020))(info)GCA_015852565.1

•Branchiostoma floridae x Branchiostoma belcheri(lancelets B.floridae x B.belcheri (bbbf 2021))(info)GCA_019207075.1

Branchiostoma lanceolatum

•Branchiostoma lanceolatum(amphioxus (hap2 2024 genbank))(info)GCA_035083965.1

•Branchiostoma lanceolatum(amphioxus (hap1 2024))(info)GCA_035149815.1

•Branchiostoma lanceolatum(amphioxus (hap1.1 2024))(info)GCA_964187965.1

•Aplidium turbinatum(tunicate A.turbinatum (primary hap 2021))(info)GCA_918807975.1

Clavelinidae

Clavelina

•Clavelina lepadiformis(light-bulb sea squirt (2022))(info)GCA_947623445.1

Didemnidae

Trididemnum

•Trididemnum clinides(tunicate T.clinides (primary hap 2023))(info)GCA_963675345.1

Phlebobranchia

Ascidiidae

Ascidia

•Ascidia mentula(pink sea squirt (2022))(info)GCA_947561715.1

Ascidiella

•Ascidiella aspersa(tunicate A.aspersa (primary hap 2024))(info)GCA_963924565.1

Corellidae

Corella

Corella eumyota

•Corella eumyota(orange-tipped seq squirt (alternate hap 2023))(info)GCA_963082865.1

•Corella eumyota(orange-tipped seq squirt (primary hap 2023))(info)GCA_963082875.1

•Styela clava(tunicate S.clava (kaStyClav1.hap1.1 2024))(info)GCA_964204865.1

•Styela clava(tunicate S.clava (kaStyClav1.hap2.1 2024))(info)GCA_964204955.1

•Thalia democratica(tunicate T.democratica (hap2.1 2025))(info)GCA_965202575.1

•Thalia democratica(tunicate T.democratica (hap1.1 2025))(info)GCA_965202585.1

unclassified Saccoglossus

Saccoglossus sp. HW-2024a

•Saccoglossus sp. HW-2024a(hemichordates Saccoglossus HW-2024a (v1 hap2 2024))(info)GCA_040954595.1

•Saccoglossus sp. HW-2024a(hemichordates Saccoglossus HW-2024a (v2 hap2 2025))(info)GCA_040954595.2

•Saccoglossus sp. HW-2024a(hemichordates Saccoglossus HW-2024a (v1 hap1 2024))(info)GCA_040954625.1

•Saccoglossus sp. HW-2024a(hemichordates Saccoglossus HW-2024a (v2 hap1 2025))(info)GCA_040954625.2

•Asterias rubens(European starfish (alternate hap 2019))(info)GCA_902459445.1

•Asterias rubens(European starfish (2020))(info)GCF_902459465.1

•Pecten maximus(great scallop (2019))(info)GCF_902652985.1

•Aricia agestis(brown argus butterfly (refseq 2021))(info)GCF_905147365.1

•Pararge aegeria(speckled wood butterfly (refseq 2021))(info)GCF_905163445.1