7fc5d8aed70f1a512a512495ac49d936ccb9a5ac hiram Tue Apr 23 09:55:48 2024 -0700 adding RefSeq GRCr8 aka rn8 per user request refs #29545 diff --git src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv index b328192..2953733 100644 --- src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv +++ src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv @@ -1,508 +1,509 @@ GCF_000298275.1_OryAfe1.0 aardvark (SDZICR_OR568_19922 2012 Broad) GCA_011750645.1_mArvNil1.mat African grass rat (maternal 2020) GCA_011762545.1_mArvNil1.pat African grass rat (paternal 2020) GCF_011762505.1_mArvNil1.pat.X African grass rat (paternal X 2020) GCA_001887905.1_LycPicSAfr1.0 African hunting dog GCF_000001905.1_Loxafr3.0 African savanna elephant (2009 refseq) GCA_030020305.1_mLoxAfr1.hap1 African savanna elephant (hap1 mLoxAfr1 2023) GCA_030014295.1_mLoxAfr1.hap2 African savanna elephant (hap2 mLoxAfr1 2023) GCF_016433145.1_AgileGrace agile gracile mouse opossum GCF_000164845.4_VicPac3.2 alpaca (v3.2 Carlotta AHFN-0088 2019 Deakin U) GCF_001458135.2_marMar Alpine marmot (2019) GCA_031001765.1_BBF_mMolAlv_v1 Alvarez's mastiff bat (A012 2023) GCF_001984765.1_C.can_genome_v1.0 American beaver (Ward 2017 refseq) GCF_000754665.1_Bison_UMD1.0 American bison (2014 refseq) GCA_024610745.1_mUrsAme1.0.a American black bear (L20-20 alternate hap 2022) GCA_024610735.1_mUrsAme1.0.p American black bear (L20-20 primary hap 2022) GCF_020975775.1_gsc_jax_bbear_1.0 American black bear (UA15103 2021) GCA_900108605.1_NNQGG.v01 American mink (2018) GCF_020171115.1_ASM_NN_V1 American mink (M4711 2021 Dalhousie U) GCF_000292845.1_OchPri3.0 American pika 3.0 (2012 Broad refseq) GCF_014633375.1_OchPri4.0 American pika 4.0 (UAM:Mamm:113957 2020) GCF_030435755.1_mOchPri1.hap1 American pika (hap1 2023) GCA_030435715.1_mOchPri1.hap2 American pika (hap2 2023) GCF_000464555.1_PanTig1.0 Amur tiger (TaeGuk 2013 refseq) GCA_000978805.1_ASM97880v1 Antarctic minke whale GCA_004026545.1_MorMeg_v1_BIUU Antillean ghost-faced bat GCA_002201775.1_ALER1.0 aoudad GCF_000803125.2_CamDro3 Arabian camel (Drom800 2019 refseq) GCA_036321535.1_mCamDro1.pat Arabian camel (paternal 2024) GCA_036321565.1_mCamDro1.hap2 Arabian camel (hap2 2024) GCF_018345385.1_ASM1834538v1 Arctic fox (Blue_001 2021 refseq) GCF_003426925.1_ASM342692v1 Arctic ground squirrel GCA_004024585.1_ParHer_v1_BIUU Asian palm civet GCA_024166345.1_mEleMax1_alternate_haplotype Asiatic elephant (mEleMax1 alternate hap 2022) GCF_024166365.1_mEleMax1_primary_haplotype Asiatic elephant (mEleMax1 primary hap 2022) GCA_031878655.1_mTapInd1.hap1 Asiatic tapir (hap1 2023) GCA_031878705.1_mTapInd1.hap2 Asiatic tapir (hap2 2023) GCF_016077325.2_ASM1607732v2 ass (Dezhou 2021) GCF_001305755.1_ASM130575v1 ass (Maral har 2015 refseq) GCA_015852515.1_mTacAcu1.alt Australian echidna (mTacAcu1 alternate hap 2020) GCF_015852505.1_mTacAcu1.pri Australian echidna (mTacAcu1 primary hap 2020) GCF_000767855.1_Ca_bactrianus_MBC_1.0 Bactrian camel (Alxa 2014 refseq) GCA_004023785.1_MunMun_v1_BIUU banded mongoose GCF_902806735.1_Bank_vole1_10x bank vole GCF_019054845.1_ASM1905484v1 banner-tailed kangaroo rat GCA_009917745.1_GSC_cook_1.0 beluga whale (Cook Inlet, Alaska, USA DL-CIB17-05 2020) GCF_002288925.2_ASM228892v3 beluga whale (GAN/ISIS: 26980492/103006 v3 2019) GCF_000308155.1_EptFus1.0 big brown bat (BU_THK_EF1 2012) GCF_027574615.1_DD_ASM_mEF_20220401 big brown bat (TK198812 2023) GCA_004026945.1_OviCan_v1_BIUU bighorn sheep GCF_000325575.1_ASM32557v1 black flying fox GCF_022355385.1_MUSNIG.SB6536 black-footed ferret (SB6536 2022) GCF_011064425.1_Rrattus_CSIRO_v1 black rat GCA_004023925.1_FelNig_v1_BIUU black-footed cat GCF_017591425.1_NIBS_Ocur_1.0 black-lipped pika GCF_020826845.1_mDicBic1.mat.cur black rhinoceros (mBicDic1 primary hap 2021) GCA_020826835.1_mDicBic1.pat.decon black rhinoceros (mBicDic1 alternate hap 2021) GCA_004027315.1_DicBicMic_v1_BIUU black rhinoceros (BS38 2019 Broad) GCA_025094165.1_mMesDen1_alternate_haplotype Blainville's beaked whale (alternate hap 2022) GCF_025265405.1_mMesDen1_primary_haplotype Blainville's beaked whale (primary hap 2022 refseq) GCA_008658375.1_mBalMus1_alternate blue whale (alternate hap JJ_BM4_2016_0621 2019) GCA_008658375.2_mBalMus1.alt.v2 Blue whale (JJ_BM4_2016_0621 v2 alternate hap 2020) GCF_009873245.2_mBalMus1.pri.v3 blue whale (JJ_BM4_2016_0621 v3 primary hap 2020) GCA_022079275.1_mLynRuf1.a bobcat (Redwood Valley CCGP_SWC_20201006 alternate hap 2022) GCF_022079265.1_mLynRuf1.p bobcat (Redwood Valley CCGP_SWC_20201006 primary hap 2022) GCA_019903745.2_ULRtarCaribou_2v2 boreal woodland reindeer (boreal CA-31 2023) GCA_024803775.1_mThoBot1.0.a Botta's pocket gopher (bottae MVZ:Mamm:240275 alternate hap 2022) GCA_024803745.1_mThoBot1.0.p Botta's pocket gopher (bottae MVZ:Mamm:240275 primary hap 2022) GCA_031878675.1_mThoBot2.hap1 Botta's pocket gopher (hap1 2023) GCA_031878665.1_mThoBot2.hap2 Botta's pocket gopher (hap2 2023) GCA_036417435.1_mIniGeo1.hap1 boutu (hap1 2024) GCA_036417475.1_mIniGeo1.hap2 boutu (hap2 2024) GCF_000412655.1_ASM41265v1 Brandt's bat GCA_030848825.1_DD_mTadBra1_pri Brazilian free-tailed bat (primary hap 2023) GCA_000688575.1_CavAp1.0 Brazilian guinea pig GCA_004025025.1_TapTer_v1_BIUU Brazilian tapir GCF_023065955.2_UrsArc2.0 brown bear (v2.0 North America Adak 2023) GCF_003584765.2_ASM358476v2 brown bear (GAN/ISIS:MIG12 v2 2018) GCA_963455305.1_mPleAur1.1 brown big-eared bat (primary hap 2023) GCA_004027775.1_BraVar_v1_BIUU brown-throated sloth GCF_949786415.1_PerEre_H2_v1 cactus mouse (2023) GCF_007827085.1_ASM782708v3 California mouse (IS 2022) GCA_009762295.2_mZalCal1.alt.v2 California sea lion (mZalCal1 alternate hap 2020) GCA_009762295.1_mZalCal1.alt California sea lion (alternate hap 2019) GCF_009762305.2_mZalCal1.pri.v2 California sea lion (v2 primary hap 2020) GCF_900631625.1_zalCal2.2 California sea lion (LMU 2018 refseq) GCA_028537955.1_mMicCal1.0.hap1 California vole (kernensis MVZ Mamm 240107 primary hap 2023) GCA_028537755.1_mMicCal1.0.hap2 California vole (kernensis MVZ Mamm 240107 alternate hap 2023) GCA_007474575.1_mLynCan4_v1.alt Canada lynx (alternate hap LIC74 2019) GCA_007474575.2_mLynCan4.alt.v2 Canada lynx (LIC74 v2 alternate hap 2020) GCF_007474595.2_mLynCan4.pri.v2 Canada lynx (LIC74 v2 primary hap 2020) GCA_004027415.1_HipGal_v1_BIUU Cantor's roundleaf bat GCF_000299155.1_EleEdw1.0 Cape elephant shrew GCF_000296735.1_ChrAsi1.0 Cape golden mole (2012 Broad) GCA_004026925.1_ProCapCap_v1_BIUU Cape rock hyrax (US060 2019 Broad) GCA_004027455.1_HydHyd_v1_BIUU capybara GCF_029407905.1_PCC_UOA_SB_1v2 carabao (swamp buffalo K-KA32 2023) GCF_002263795.3_ARS-UCD2.0 cattle (Hereford L1 Dominette 01449 42190680 v2.0 2023 USDA) GCF_000003055.6_Bos_taurus_UMD_3.1.1 cattle (Hereford UMD_3.1.1 2014) GCA_004024745.2_CatWag_v2_BIUU_UCD Chacoan peccary (BS20 v2 2019 Broad) GCF_027475565.1_VMU_Ajub_asm_v1.0 cheetah (Ajub_Pintada_27869175 2022) GCF_003709585.1_Aci_jub_2 cheetah (Rico 2018) GCF_022376915.1_ASM2237691v1 Chinese forest musk deer (Sichuan 2022) GCF_003668045.3_CriGri-PICRH-1.0 Chinese hamster (17A/GY CHO 2020) GCF_000223135.1_CriGri_1.0 Chinese hamster (CHO v1 2011 BGI) GCA_900186095.1_CHOK1S_HZDv1 Chinese hamster (CHO v2 2017 Eagle Genomics Ltd) GCA_026545065.1_CHOZN_v2.4 Chinese hamster (CHO-K1 CHOZN v2.4 2022) GCF_030020395.1_mManPen7.hap1 Chinese pangolin (hap1 mManPen7 2023) GCA_030020945.1_mManPen7.hap2 Chinese pangolin (hap2 mManPen7 2023) GCF_014570555.1_YNU_ManPten_2.0 Chinese pangolin (2020 Yunnan U) GCA_000738955.1_M_pentadactyla-1.1.1 Chinese pangolin (MPE899 2014 WashU) GCA_001888835.1_ASM188883v1 Chinese rufous horseshoe bat GCF_000334495.1_TupChi_1.0 Chinese tree shrew GCA_000400835.1_PHO1.0 chiru GCA_028018655.1_mNeoNeb1.alt clouded leopard (mNeoNeb1 alternate hap 2023) GCF_028018385.1_mNeoNeb1.pri clouded leopard (mNeoNeb1 primary hap 2023 refseq) GCA_011762515.1_mTurTru1.pat common bottlenose dolphin (paternal 2020) GCA_011762535.1_mTurTru1.mat common bottlenose dolphin (maternal 2020) GCF_011762595.1_mTurTru1.mat.Y common bottlenose dolphin (maternal Y refseq 2020) GCF_001922835.1_NIST_Tur_tru_v1 common bottlenose dolphin (MMES2002162SC 2016 refseq) GCA_011100645.1_mTriVul1.alt common brushtail (alternate hap 2020) GCF_011100635.1_mTriVul1.pri common brushtail (refseq 2020) GCA_903992545.1_mPipPip1.1 common pipistrelle (2020) GCA_903992515.1_mPipPip1.1_alternate_haplotype common pipistrelle (alternate hap 2020) GCA_004026625.1_PipPip_v1_BIUU common pipistrelle (Broad 2019) GCF_022682495.1_HLdesRot8A common vampire bat (HL8 primary hap 2022 refseq) GCA_022682395.1_HLdesRot8B common vampire bat (HL8 alternate hap 2022) GCF_002940915.2_ASM294091v3 common vampire bat (v3 DRU21DN04 2018) GCF_016906955.1_ROS_Pafr_v1 common warthog (WHEZ1 2021) GCF_900497805.2_bare-nosed_wombat_genome_assembly common wombat GCF_018167655.1_Mior012 creeping vole GCA_004026905.1_HysCri_v1_BIUU crested porcupine GCA_004364475.1_ZipCav_v1_BIUU Cuvier's beaked whale GCF_000743615.1_DMR_v1.0 Damara mole-rat DMR 1.0 (2014 BGI) GCF_012274545.1_DMR_v1.0_HiC Damara mole-rat DMR 1.0 HiC (2020 DNA Zoo) GCA_004026965.1_PetTyp_v1_BIUU dassie-rat GCF_963259705.1_mMyoDau2.1 Daubenton's bat (primary hap 2023 refseq) GCA_963242275.1_mMyoDau2.1_alternate_haplotype Daubenton's bat (alternate hap 2023) GCA_002406435.1_ASM240643v1 Daurian ground squirrel GCF_000327345.1_ASM32734v1 David's myotis bat GCF_000260255.1_OctDeg1.0 degu (3935 2012 refseq) GCF_943737965.1_PHOROB desert hamster (2022) GCA_004027915.1_CapPil_v1_BIUU Desmarest's hutia GCF_012295265.1_UNSW_AlpineDingo_1.0 dingo (2020 Alpine COOINDA U.NSW) GCF_003254725.2_ASM325472v2 dingo (Sandy 2020 James Cook U) GCF_000002285.3_CanFam3.1 dog (boxer Tasha 2011) GCF_000002285.5_Dog10K_Boxer_Tasha dog (boxer Tasha 2020) GCF_011100685.1_UU_Cfam_GSD_1.0 dog (German shepard Mischka 2020) GCF_014441545.1_ROS_Cfam_1.0 dog (labrador SID07034 2020) GCA_000181335.5_felCat9.1_X domestic cat (Abyssinian Cinnamon 2021 WashU) GCF_000181335.3_Felis_catus_9.0 domestic cat (Abyssinian Cinnamon 2017 WashU) GCF_018350175.1_F.catus_Fca126_mat1.0 domestic cat (Fca126 2021 Texas A&M U) GCF_011764305.1_ASM1176430v1.1 domestic ferret (JIRA1106 JCVI 2020) GCA_000239315.1_MusPutFurMale1.0 domestic ferret (Sable 2011 Broad) GCF_000151735.1_Cavpor3.0 domestic guinea pig (2N 2008 refseq) GCA_030035585.1_mDugDug1.hap1 dugong (hap1 mDugDug1 2023) GCA_030020955.1_mDugDug1.hap2 dugong (hap2 mDugDug1 2023) GCA_004023845.1_HelPar_v1_BIUU dwarf mongoose GCA_949820135.1_mSylFlo1.10 eastern cottontail (primary hap 2023) GCA_004024925.1_ScaAqu_v1_BIUU eastern mole GCA_020854095.1_UniMelb_DasViv_v1.0 eastern quoll GCF_001466805.2_Raegyp2.0 Egyptian rousette (1219 2016 Boston U) GCF_014176215.1_mRouAeg1.p Egyptian rousette (v1 2020 refseq) GCA_004027535.1_AcoCah_v1_BIUU Egyptian spiny mouse GCF_019320065.1_ASM1932006v1 elk (wapiti) GCA_009829165.1_mMusErm1.alt ermine (alternate hap 2020) GCF_009829155.1_mMusErm1.Pri ermine (2020) GCA_922984935.2_mMelMel3.2_paternal_haplotype Eurasian badger (v3.2 2022) GCA_922990625.1_mMelMel3.1_maternal_haplotype_uncurated Eurasian badger (2021) GCA_902685485.1_mSciVul1.1_alternate_haplotype Eurasian red squirrel (alternate hap 2019) GCA_902686455.2_mSciVul1.2 Eurasian red squirrel (v1.2 2020) GCF_902655055.1_mLutLut1.2 Eurasian river otter (2020) GCA_902653095.1_mLutLut1.1_alternate_haplotype Eurasian river otter (alternate hap 2019) GCF_903992535.2_mArvAmp1.2 Eurasian water vole (v2 2021) GCA_903992525.1_mArvAmp1.1_alternate_haplotype Eurasian water vole (alternate hap 2020) GCA_963924665.1_mMicMin1.1 European harvest mouse (primary hap 2024) GCA_030435785.1_mMusLut2.alt European mink (alternate hap 2023) GCF_030435805.1_mMusLut2.pri European mink (primary hap 2023 refseq) GCA_963455335.1_mMarMar1.1 European pine marten (primary hap 2023) GCF_000181275.1_SorAra2.0 European shrew (GB8-d 2012) GCA_027595995.1_mSorAra2.alt European shrew (alternate hap 2023) GCF_027595985.1_mSorAra2.pri European shrew (primary hap 2023) GCA_950005115.1_mChiNiv1.1_alternate_haplotype European snow vole (alternate hap 2023) GCF_950005125.1_mChiNiv1.1 European snow vole (primary hap 2023 refseq) GCF_947179515.1_mApoSyl1.1 European woodmouse (2022 refseq) GCA_947179525.1_mApoSyl1.1_alternate_haplotype European woodmouse (alternate hap 2022) GCA_004027185.1_GliGli_v1_BIUU fat dormouse (US078 2019) GCF_907164565.1_mPsaObe1.curated_primary_1811 fat sand rat (mPsaObe1 2021) GCA_002215935.1_ASM221593v1 fat sand rat (Psa_ob012049795 2017) GCF_022837055.1_UM_Priviv_1.0 fishing cat (Anna 2022 U Missouri) GCA_030013775.1_ASM3001377v1 Florida manatee (CSIC 2023) GCF_000243295.1_TriManLat1.0 Florida manatee (Lorelei 2012 refseq) GCA_004023885.1_CryFer_v1_BIUU fossa GCA_004027575.1_CriGam_v1_BIUU Gambian giant pouched rat GCA_017311355.1_CVASU_Gayal_001 gayal (CVASU_BF_001 2021) GCA_007844835.1_NRC_Mithun_1 gayal (Nagaland 2019) GCF_018350155.1_O.geoffroyi_Oge1_pat1.0 Geoffroy's cat GCA_004026745.1_MyrTri_v1_BIUU giant anteater GCA_004024605.1_PteBra_v1_BIUU giant otter GCF_002007445.2_ASM200744v3 giant panda (Jingjing v3 2020) GCF_001704415.2_ARS1.2 goat (v2 San Clemente 2016 USDA) GCA_004027895.1_AllBul_v1_BIUU Gobi jerboa GCF_017639785.1_BCM_Maur_2.0 golden hamster (Baylor 2021) GCF_000349665.1_MesAur1.0 golden hamster (Broad 2013 refseq) GCF_903995435.1_mAcoRus1.1 golden spiny mouse (2020) GCA_004024945.1_UroGra_v1_BIUU gracile shrew mole GCF_012393455.1_Tufts_HGry_1.1 gray seal GCF_000002295.2_MonDom5 gray short-tailed opossum (MonDom5 2007) GCA_027917375.1_mMonDom1.alt gray short-tailed opossum (mMonDom1 alternate hap 2023) GCF_027887165.1_mMonDom1.pri gray short-tailed opossum (mMonDom1 primary hap 2023 refseq) GCF_902686445.1_mSciCar1.2 gray squirrel (2020) GCA_902685475.1_mSciCar1.1_alternate_haplotype gray squirrel (alternate hap 2019) GCA_905319855.2_mCanLor1.2 gray wolf (2021) GCA_905319845.1_mCanLor1.1_alternate_haplotype gray wolf (alternate hap 2021) GCF_001890085.2_ASM189008v1 great roundleaf bat (v2 ML-2016 2016) GCA_004026585.1_NocLep_v1_BIUU greater bulldog bat GCA_004025085.1_ThrSwi_v1_BIUU Greater cane rat GCA_004115295.1_mRhiFer1_v1.h greater horseshoe bat (MPI-CBG alternate hap 2019) GCF_004115265.2_mRhiFer1_v1.p greater horseshoe bat (v2 MPI-CBG 2019) GCF_014108235.1_mMyoMyo1.p greater mouse-eared bat (2020 Bat1K) GCF_019186645.2_TTU_PhHast_1.1 greater spear-nosed bat (2021 Texas Tech U) GCA_004363415.1_EscRob_v1_BIUU grey whale GCA_028021475.1_mEscRob2.alt grey whale (mEscRob2 alternate hap 2023) GCA_028021215.1_mEscRob2.pri grey whale (mEscRob2 primary hap 2023) GCA_004026765.1_MicHir_v1_BIUU hairy big-eared bat (US037 2019 Broad) GCA_963924675.1_mPhoPho1.1 harbor porpoise (primary hap 2024) GCF_004348235.1_GSC_HSeal_1.0 harbor seal GCF_002201575.2_ASM220157v2 Hawaiian monk seal (2021 Johns Hopkins U) GCA_004027005.1_MusAve_v1_BIUU hazel dormouse GCA_963383665.1_mMusAve1.1_alternate_haplotype hazel dormouse (alternate hap 2023) GCA_963383645.1_mMusAve1.1 hazel dormouse (primary hap 2023) GCA_004027065.1_HipAmp_v1_BIUU hippopotamus (BS01 2019 Broad) GCA_002995585.1_ASM299558v1 hippopotamus (HIP001 2018) GCA_030028035.1_mHipAmp2.hap1 hippopotamus (mHipAmp2 hap1 2023) GCF_030028045.1_mHipAmp2.hap2 hippopotamus (v2 hap2 2023 refseq) GCA_004027495.1_BeaHun_v1_BIUU hirola (BS46 2019 Broad) GCA_004363575.1_SolPar_v1_BIUU Hispaniolan solenodon GCA_004025045.1_SigHis_v1_BIUU hispid cotton rat GCA_000164785.2_C_hoffmanni-2.0.1 Hoffmann's two-fingered sloth GCA_004027555.1_CraTho_v1_BIUU hog-nosed bat GCF_014824575.3_WHU_Shon_v2.1 Honduran yellow-shouldered bat (v2.1 Veracruz 20B 2020) GCF_002863925.1_EquCab3.0 horse (Twilight 2018) GCA_036418255.1_mEquCab1.mat horse (maternal 2024) GCA_036426135.1_mEquCab1.pat horse (paternal 2024) GCA_949316315.1_mMusMuc1.1 house mouse (primary hap 2023) GCA_949316305.1_mMusMuc1.1_alternate_haplotype house mouse (alternate hap 2023) GCA_001624185.1_129S1_SvImJ_v1 house mouse (129S1_SvImJv1 2016) GCA_921998555.2_129S1_SvImJ_v3 house mouse (129S1_SvImJ_v3 2022) GCA_922000895.2_AKR_J_v3 house mouse (AKR_J v3 2022) GCA_921998355.2_A_J_v3 house mouse (A_J v3 2022) GCA_921997145.2_BALB_cJ_v3 house mouse (BALB_cJ v3 2022) GCA_921997125.2_C3H_HeJ_v3 house mouse (C3H_HeJ v3 2022) GCF_000001635.27_GRCm39 house mouse C57BL/6J 2020 GRC GCA_001632555.1_C57BL_6NJ_v1 house mouse C57BL_6NJ GCA_001624445.1_CAST_EiJ_v1 house mouse CAST_EiJ GCA_921998905.2_CBA_J_v3 house mouse (CBA_J v3 2022) GCA_921998315.2_DBA_2J_v3 house mouse (DBA_2J v3 2022) GCA_921998635.2_FVB_NJ_v3 house mouse (FVB_NJ v3 2022) GCA_947599735.1_LP_J_v3 house mouse (LP_J v3 2022) GCA_921998325.2_NOD_ShiLtJ_v3 house mouse (NOD_ShiLtJ v3 2022) GCA_947593165.1_NZO_HlLtJ_v3 house mouse (NZO_HlLtJ v3 2022) GCA_921998335.2_PWK_PhJ_v3 eastern European house mouse (PWK_PhJ v2 2022) GCA_003369685.2_UOA_Angus_1 hybrid cattle (Angus x Brahman F1 Angus haplotype 2018) GCF_003369695.1_UOA_Brahman_1 hybrid cattle (Angus x Brahman F1 Brahman haplotype 2018) GCF_014898055.3_MPIMG_talOcc4v2.1 Iberian mole (v2.1 TD23 2020) GCA_004026885.1_MegLyr_v1_BIUU Indian false vampire GCF_902729225.1_Ma_sr-lr_union100 Indian flying fox GCA_004027635.1_CroInd_v1_BIUU Indochinese shrew (US011 2019 Broad) GCA_004363435.1_PlaMin_v1_BIUU Indus River dolphin GCA_031876335.1_mHipLar1.pri intermediate roundleaf bat (primary hap 2023) GCA_004023805.1_PanOnc_v1_BIUU jaguar (BS21 2019) GCF_028533385.1_Panthera_onca_HiC jaguar (Sample0147 2023) GCF_014898765.1_PumYag jaguarundi GCF_014825515.1_WHU_Ajam_v2 Jamaican fruit-eating bat (1a 2020 Wuhan U) GCF_021234435.1_CSHL_Jam_final Jamaican fruit-eating bat (2021) GCA_921999095.2_JF1_MsJ_v3 Japanese wild mouse (2022) GCA_004024965.1_TraJav_v1_BIUU Java mouse-deer (US108 2019 Broad) GCF_000331955.2_Oorc_1.1 killer whale (Morgan 2013) GCF_937001465.1_mOrcOrc1.1 killer whale (2022) GCA_937001455.1_mOrcOrc1.1_alternate_haplotype killer whale (alternate hap 2022) GCA_003287225.2_phaCin_HiC koala (Bilbo 61053 2022) GCF_014108245.1_mPipKuh1.p Kuhl's pipistrelle (2020) GCF_000151845.1_Pvam_2.0 large flying fox GCA_026018925.1_mTupTan1 large tree shrew (BS70 2022) GCF_001857705.1_PanPar1.0 leopard (Maewha 2016 refseq) GCF_024362965.1_ASM2436296v1 leopard (Hobbes primary hap 2022) GCF_016509475.1_Fcat_Pben_1.1_paternal_pri leopard cat GCF_000280705.1_JacJac1.0 lesser Egyptian jerboa (JJ0015 2012 refseq) GCA_020740715.1_mJacJac1.pat.decon lesser Egyptian jerboa (alternate hap 2021) GCF_020740685.1_mJacJac1.mat.Y.cur lesser Egyptian jerboa (2021) GCA_002007465.1_ASM200746v1 lesser panda GCF_018350215.1_P.leo_Ple1_pat1.1 lion GCF_000147115.1_Myoluc2.0 little brown bat GCA_024363435.1_mPerLon1.0.a little pocket mouse (longimembris alternate hap 2022) GCA_024363575.1_mPerLon1.0.p little pocket mouse (longimembris primary hap 2022) GCA_004026665.1_MurFea_v1_BIUU little tube-nosed bat GCF_963455315.1_mGloMel1.1 long-finned pilot whale (primary hap 2023) GCF_006547405.1_ASM654740v1 long-finned pilot whale (X-22926-18 2019) GCF_000276665.1_ChiLan1.0 long-tailed chinchilla GCA_004027375.1_MacSob_v1_BIUU long-tongued fruit bat (US102 2019 Broad) GCA_004365215.1_CunPac_v1_BIUU Lowland paca GCF_001685135.1_ManJav1.0 Malayan pangolin (MP_PG03-UM 2016 refseq) GCF_014570535.1_YNU_ManJav_2.0 Malayan pangolin YNU ManJav 2.0 GCA_024711525.1_mDipMer1.0.a Merriam's kangaroo rat (MVZ:Mamm:240054 alternate hap 2022) GCA_024711535.1_mDipMer1.0.p Merriam's kangaroo rat (MVZ:Mamm:240054 primary hap 2022) GCA_001651235.1_ASM165123v1 Masai giraffe (MA1 2016 Penn St) GCA_004024765.1_ZapHud_v1_BIUU meadow jumping mouse GCF_006229205.1_meerkat_22Aug2017_6uvM2_HiC meerkat (VVHF042 2019 DNA Zoo refseq) GCF_000493695.1_BalAcu1.0 minke whale (2013 refseq) GCA_950005055.1_mBalAcu1.1_alternate_haplotype minke whale (alternate hap 2023) GCF_949987535.1_mBalAcu1.1 minke whale (primary hap 2023 refseq) GCF_002204375.1_MunDraft-v1.0 Mongolian gerbil (243 2017 Lucigen Corp.) GCA_008131255.1_ASM813125v1 Mongolian gerbil (EAM2014 2019 BGI) GCF_030254825.1_Bangor_MerUng_6.1 Mongolian gerbil (TT.TT164.6M 2023) GCA_019395325.1_mDroGli1.alt monito del monte (mDroGli1 alternate hap 2021) GCF_019393635.1_mDroGli1.pri monito del monte (mDroGli1 primary hap 2021 refseq) GCA_004027695.1_CavTsc_v1_BIUU Montane guinea pig GCA_004027875.1_AplRuf_v1_BIUU mountain beaver GCA_004026605.1_OndZib_v1_BIUU muskrat GCF_000247695.1_HetGla_female_1.0 naked mole-rat (NMR 29 2012 refseq) GCA_014060925.1_Heter_glaber.v1.7_hic_pac naked mole-rat (MEF-2018 2020) GCF_005190385.1_NGI_Narwhal_1 narwhal (Baffin Bay 2019) GCF_001595765.1_Mnat.v1 Natal long-fingered bat GCF_014824575.2_WHU_Shon_v2.1 neotropical fruit bat GCA_004026825.1_HemHyl_v1_BIUU Nilgiri tahr GCF_000208655.3_Dasnov3.2 nine-banded armadillo (v3.2 3-136 2012 Baylor) GCA_030445055.1_mDasNov1.hap1 nine-banded armadillo (mDasNov1 hap1 2023) GCF_030445035.1_mDasNov1.hap2 nine-banded armadillo (mDasNov1 hap2 2023) GCA_026167925.1_mPerMan1.0.a North American deer mouse (MVZ:Mamm:240117 alternate hap 2022) GCA_026229955.1_mPerMan1.0.p North American deer mouse (MVZ:Mamm:240117 primary hap 2022) GCA_028500835.1_mEreDor1.alt North American porcupine (mEreDor1 alternate hap 2023) GCA_028451465.1_mEreDor1.pri North American porcupine (mEreDor1 primary hap 2023) GCA_028571275.1_mEubGla1.hap1 North Atlantic right whale (hap1 2023) GCF_028564815.1_mEubGla1.1.hap2._XY North Atlantic right whale (hap2 + XY 2023 refseq) GCA_004363455.1_EubJap_v1_BIUU North Pacific right whale GCF_010015895.1_GSC_riverotter_1.0 northern American river otter GCA_951640545.1_mEptNil1.1_alternate_haplotype northern bat (alternate hap 2023) GCA_951640355.1_mEptNil1.1 northern bat (primary hap 2023) GCA_026936385.1_BBF_mMolNig1_v1 northern black mastiff bat (mMolNig1 2022) GCA_949752845.1_mHypAmp2.1_alternate_haplotype northern bottlenose whale (alternate hap 2023) GCA_949752795.1_mHypAmp2.1 northern bottlenose whale (primary hap 2023) GCA_029215635.1_mMirAng1.0.hap2 northern elephant seal (CCGP_5_RB_7025 alternate hap 2023) GCA_029215605.1_mMirAng1.0.hap1 northern elephant seal (CCGP_5_RB_7025 primary hap 2023) GCF_021288785.2_ASM2128878v3 northern elephant seal (v3 JK_09032017 2022) GCA_004023865.1_MirAng_v1_BIUU northern elephant seal (BS05 2019 Broad) GCF_003265705.1_ASM326570v1 northern fur seal GCA_004027205.1_CteGun_v1_BIUU northern gundi GCA_001685095.1_ETalpinus_0.1 northern mole vole GCA_004027795.1_CerCot_v1_BIUU northern white rhinoceros -GCA_036323735.1_GRCr8 Norway rat (BN/NHsdMcwi 2024) +GCA_036323735.1_GRCr8 Norway rat (BN/NHsdMcwi 2024 genbank) +GCF_036323735.1_GRCr8 Norway rat (BN/NHsdMcwi 2024 refseq) GCA_015244455.1_mRatBN7.1_alternate_haplotype Norway rat BN7 haplotype GCF_015227675.2_mRatBN7.2 Norway rat BN7.2 GCF_000002265.2_Rn_Celera Norway rat celera GCF_000001895.5_Rnor_6.0 Norway rat Rnor6.0 GCA_023515785.1_UTH_Rnor_SHR_Utx Norway rat SHR/Utx RGD_8142385 2022 GCA_021556685.1_UTH_Rnor_SHRSP_BbbUtx_1.0 Norway rat SHRSP/BppUtx 2022 GCA_023515805.1_UTH_Rnor_WKY_Bbb_1.0 Norway rat WKY/Bbb 2022 GCA_004027025.1_MyoCoy_v1_BIUU nutria GCA_001660835.1_ASM166083v1 okapi GCF_000151885.1_Dord_2.0 Ord's kangaroo rat GCA_004027595.1_DinBra_v1_BIUU pacarana GCA_004363475.1_PerLonPac_v1_BIUU Pacific pocket mouse (BS65 2019 Broad) GCF_023159225.1_ASM2315922v1 Pacific pocket mouse (PPM17 2022 San Diego Zoo) GCF_000321225.1_Oros_1.0 Pacific walrus GCF_003676395.1_ASM367639v1 Pacific white-sided dolphin GCA_004115245.1_mPhyDis1_v1.h pale spear-nosed bat (alternate hap MPI-MPIP 2019) GCA_004115245.2_mPhyDis1.alti.v3 pale spear-nosed bat (MPI-MPIP v3 mPhyDis1 alternate hap 2020) GCF_004126475.2_mPhyDis1.pri.v3 pale spear-nosed bat (MPI-MPIP v3 mPhyDis1 primary hap 2020) GCF_014108415.1_mMolMol1.p Pallas's mastiff bat GCA_027563665.1_DD_ASM_mAP_20210503 pallid bat (TK200870 primary hap 2023) GCA_000465405.1_ASM46540v1 Parnell's mustached bat (2013) GCF_021234165.1_CSHL_Meso_final Parnell's mustached bat (Mesoamerican 2021) GCA_963924515.1_mVesMur1.1 particolored bat (primary hap 2024) GCA_004027295.1_DolPat_v1_BIUU Patagonian cavy GCA_002443075.1_Milu1.0 Pere David's deer GCA_027409165.1_mCynVol1.alt Philippine flying lemur (mCynVol1 alternate hap 2022) GCA_027409185.1_mCynVol1.pri Philippine flying lemur (mCynVol1 primary hap 2022) GCA_030704935.1_ASM3070493v1 pig (Bamei 2023) GCF_000003025.6_Sscrofa11.1 pig (Duroc 2017) GCA_002844635.1_USMARCv1.0 pig (USMARCv1 2017) GCF_021613505.1_UCLA_HA_Equagga_1.0 plains zebra (Etosha38 2022 UCLA) GCA_004115175.2_mOrnAna1.alt.v3 platypus (alternate hap Pmale09 2020) GCF_004115215.2_mOrnAna1.pri.v4 platypus (Pmale09 v4 2020) GCF_000687225.1_UrsMar_1.0 polar bear (Baiyulong BGI 2014 refseq) GCF_017311325.1_ASM1731132v1 polar bear (UCSC 2021) GCF_000500345.1_Pman_1.0 prairie deer mouse (Baylor 2013) GCF_003704035.1_HU_Pman_2.1.3 prairie deer mouse (Harvard 2020) GCF_000317375.1_MicOch1.0 prairie vole GCA_021018645.1_ASM2101864v1 pronghorn (PH2016 2021) GCF_000696695.1_Burgud Przewalski's horse (Burgud 2014 refseq) GCF_003327715.1_PumCon1.0 puma (SC36_Marlon 2018 refseq) GCA_028749985.1_mPumCon1.0.hap1 puma (L17-30 primary hap 2023) GCA_028749965.1_mPumCon1.0.hap2 puma (L17-30 alternate hap 2023) GCA_004363535.1_DasPun_v1_BIUU punctate agouti GCA_004363705.1_KogBre_v1_BIUU pygmy sperm whale GCF_026419965.1_mKogBre1_haplotype_1 pygmy sperm whale (mKogBre1 2022 refseq) GCA_026419985.1_mKogBre1_haplotype_2 pygmy sperm whale (mKogBre1 haplotype 2 2022) GCF_009806435.1_UM_NZW_1.0 rabbit (New Zealand White DNA-2018 2021 refseq) GCF_000003625.3_OryCun2.0 rabbit (Thorbecke 2009 Broad refseq) GCF_905146905.1_NYPRO_anot_genome raccoon dog (2021) GCF_002742125.1_Oar_rambouillet_v1.0 Rambouillet sheep (Baylor 2017) GCF_016772045.1_ARS-UI_Ramb_v2.0 Rambouillet sheep (U.Idaho 2021) GCA_004024625.1_MelCap_v1_BIUU ratel GCA_004026805.1_LasBor_v1_BIUU red bat GCF_910594005.1_mCerEla1.1 red deer (2021) GCA_910593805.1_mCerEla1.1_alternate_haplotype red deer (alternate hap 2021) GCF_003160815.1_VulVul2.2 red fox GCF_014885135.2_M_Fortis_MF-2015_v1.1 reed vole (MF-2015 2020) GCA_963930665.1_mMunRee1.1_alternate_haplotype Reeves' muntjac (alternate hap 2024) GCA_004026565.1_RanTarSib_v1_BIUU reindeer (US061 2019) GCA_963422255.1_RTA_final reindeer (2023) GCA_028017805.1_mBalRic1.hap1 Rice's whale (hap1 2023) GCF_028023285.1_mBalRic1.hap2 Rice's whale (hap2 2023 refseq) GCF_900094665.2_CAROLI_EIJ_v1.1 Ryukyu mouse (v2 2017) GCA_015443085.1_Saanen_v1 Saanen dairy goat GCA_949987525.1_mDelDel1.1_alternate_haplotype saddleback dolphin (alternate hap 2023) GCF_949987515.1_mDelDel1.1 saddleback dolphin (primary hap 2023 refseq) GCA_004024985.1_SaiTat_v1_BIUU saiga antelope GCA_004026525.1_MinSch_v1_BIUU Schreibers' long-fingered bat GCF_014754425.2_SCBI_Odam_1.1 scimitar-horned oryx GCA_004027955.1_ChaVel_v1_BIUU Screaming hairy armadillo GCF_002288905.1_ASM228890v2 sea otter (GAN:26980312 2017 refseq) GCA_004027735.1_CarPer_v1_BIUU Seba's short-tailed bat GCF_016772045.2_ARS-UI_Ramb_v3.0 sheep (OAR_USU_Benz2616 2023) GCA_000298735.2_Oar_v4.0 sheep (Texel 2015) GCF_900095145.1_PAHARI_EIJ_v1.1 shrew mouse GCA_023856395.1_Psun_UM_1.1 Siberian hamster (SSSS 2022) GCA_004024705.1_MosMos_v1_BIUU Siberian musk deer (BS20 2019 Broad) GCF_000313985.2_ASM31398v2 small Madagascar hedgehog GCF_029834395.1_SorFum_2.1 smoky shrew (2023) GCF_023721935.1_Puncia_PCG_1.0 snow leopard (11264 2022) GCA_004026855.1_LepAme_v1_BIUU snowshoe hare GCA_004027165.1_CteSoc_v1_BIUU social tuco-tuco GCA_949987765.1_mPipPyg2.1_alternate_haplotype soprano pipistrelle (alternate hap 2023) GCA_949987585.1_mPipPyg2.1 soprano pipistrelle (primary hap 2023) GCA_004024805.1_XerIna_v1_BIUU South African ground squirrel GCA_921999005.2_CAST_EiJ_v3 Southeastern Asian house mouse (2022) GCF_011800145.1_KU_Mleo_1.0 southern elephant seal GCF_903995425.1_mOncTor1.1 southern grasshopper mouse (2020) GCF_008632895.1_UCSF_Mcou_1 southern multimammate mouse GCA_023853755.1_mTamTet1.alt southern tamandua (mTamTet1 alternate hap 2022) GCA_023851605.1_mTamTet1.pri southern tamandua (mTamTet1 primary hap 2022) GCA_004025125.1_TolMat_v1_BIUU southern three-banded armadillo GCA_015220265.1_mChoDid1.alt southern two-toed sloth (mChoDid1 alternate hap 2020) GCF_015220235.1_mChoDid1.pri southern two-toed sloth (mChoDid1 primary hap 2020) GCF_000283155.1_CerSimSim1.0 southern white rhinoceros (SDZICR_KB13650 2012 refseq) GCA_004027085.1_MesBid_v1_BIUU Sowerby's beaked whale GCF_002837175.3_ASM283717v5 sperm whale (SW-GA 2023) GCF_000260355.1_ConCri1.0 star-nosed mole GCF_004028035.1_ASM402803v1 Steller sea lion GCA_004024685.1_DipSte_v1_BIUU Stephens's kangaroo rat GCA_003336285.1_MUSP714 steppe mouse (ZRU 2018) GCA_000465285.1_ASM46528v1 straw-colored fruit bat GCA_004024845.1_TonSau_v1_BIUU stripe-headed round-eared bat GCA_951394445.1_mSteCoe1.1_alternate_haplotype striped dolphin (alternate hap 2023) GCA_951394435.1_mSteCoe1.1 striped dolphin (primary hap 2023) GCA_004023945.1_HyaHya_v1_BIUU striped hyena (BS54 2019 Broad) GCF_003009895.1_ASM300989v1 striped hyena (Hyena2069 2018 Potsdam U) GCA_002844835.1_ASM284483v1 Sumatran rhinoceros (Ipuh 2017) GCF_000696425.1_G_variegatus-3.0.2 Sunda flying lemur (2014 WashU) GCA_004027255.1_GalVar_v1_BIUU Sunda flying lemur (US047 2019 Broad) GCA_004027475.1_AnoCau_v1_BIUU tailed tailless bat GCF_023091745.1_Takin1.1 takin (Tak-1 2022) GCA_004026705.1_MicTal_v1_BIUU Talazac's shrew tenrec GCA_028372415.1_mMacEug1.pri tammar wallaby (mMacEug1 primary hap 2023) GCA_028389975.1_mMacEug1.alt tammar wallaby (mMacEug1 alternate hap 2023) GCF_902635505.1_mSarHar1.11 Tasmanian devil GCF_016881025.1_HiC_Itri_2 thirteen-lined ground squirrel (2021 HiC) GCF_018350195.1_P.tigris_Pti1_mat1.1 tiger GCA_026230055.1_mCorTow1.0.hap1 Townsend's big-eared bat (haplotype 1 of 2 COTO_CA2020_CCGP 2022) GCA_026230045.1_mCorTow1.0.hap2 Townsend's big-eared bat (haplotype 2 of 2 COTO_CA2020_CCGP 2022) GCA_001685075.1_ASM168507v1 Transcaucasian mole vole GCF_000622305.1_S.galili_v1.0 Upper Galilee mountains blind mole rat (2095 2014 refseq) GCA_005458795.1_GSC_VIM_1.0 Vancouver Island marmot (RANI-1049 2019) GCA_008692045.1_mPhoSin1.alt vaquita (alternate hap mPhoSin1 2019) GCF_008692025.1_mPhoSin1.pri vaquita (mPhoSin1 2019) GCF_003121395.1_ASM312139v1 water buffalo (Mediterranean 2018) GCF_019923935.1_NDDB_SH_1 water buffalo (Murrah 2021) GCF_000349705.1_LepWed1.0 Weddell seal (WS11-02 2013 refseq) GCF_000296755.1_EriEur2.0 western European hedgehog (2012 refseq) GCA_950295305.1_mEriEur2.1_alternate_haplotype western European hedgehog (alternate hap 2023) GCF_950295315.1_mEriEur2.1 western European hedgehog (primary hap 2023 refseq) GCA_921998345.2_WSB_EiJ_v3 western European house mouse (WSB_EiJ v3 2022) GCA_004023965.1_SpiGra_v1_BIUU western spotted skunk GCA_949774935.1_mLagAlb1.1_alternate_haplotype white-beaked dolphin (alternate hap 2023) GCF_949774975.1_mLagAlb1.1 white-beaked dolphin (primary hap 2023 refseq) GCF_004664715.2_UCI_PerLeu_2.1 white-footed mouse GCF_002102435.1_Ovir.te_1.0 white-tailed deer (Pink-7 2017 refseq) GCA_024140225.1_mSunEtr1.alt.cur white-toothed pygmy shrew (mSunEtr1 alternate hap 2022) GCF_024139225.1_mSunEtr1.pri.cur white-toothed pygmy shrew (mSunEtr1 primary hap 2022) GCF_009834535.1_BCGSAC_Cfer_1.0 wild Bactrian camel (BCGSAC Cfer 1.0 YT-003-E 2020) GCF_000311805.1_CB1 wild Bactrian camel (CB1 Naran 2013 refseq) GCA_000978405.1_CapAeg_1.0 wild goat GCA_921997135.2_SPRET_EiJ_v3 western wild mouse (SPRET_EiJ v3 2022) GCF_000298355.1_BosGru_v2.0 wild yak GCF_021218885.2_Marmota_monax_Labrador192_F-V1.1 woodchuck (v1.1 L192 2022) GCA_004027655.1_GraMur_v1_BIUU woodland dormouse GCF_004785775.1_NIH_TR_1.0 woodland thicket rat GCF_003031525.2_Neophocaena_asiaeorientalis_V1.1 Yangtze finless porpoise (v2 wild 2018 refseq) GCF_000442215.2_Lipotes_vexillifer_v1.1 Yangtze River dolphin (v1.1 BGI 2013 refseq) GCF_003676075.3_GSC_YBM_2.1 yellow-bellied marmot (SJ_83 v2.1 2019) GCF_016432865.1_AdamAnt_v2 yellow-footed antechinus (v2 Samford, QLD, Australia AdamAnt 2021) GCA_004026845.1_HetBruBak_v1_BIUU yellow-spotted hyrax GCA_028571665.1_mHetBru1.alt yellow-spotted hyrax (mHetBru1 alternate hap 2023) GCA_028571685.1_mHetBru1.pri yellow-spotted hyrax (mHetBru1 2023) GCA_028536395.1_mMyoYum1.0.hap2 Yuma myotis (MYYU_CA2020_CCGP alternate hap 2023) GCA_028538775.1_mMyoYum1.0.hap1 Yuma myotis (MYYU_CA2020_CCGP primary hap 2023) GCF_000247795.1_Bos_indicus_1.0 zebu cattle (Nelore 2014 refseq)