8448f5b01d0af06b0b56d5c40f62bac9e5ff202c hiram Fri Apr 11 11:38:08 2025 -0700 VGP update refs #29545 diff --git src/hg/makeDb/doc/asmHubs/master.run.list src/hg/makeDb/doc/asmHubs/master.run.list index f4c1423518e..ab493ecce22 100644 --- src/hg/makeDb/doc/asmHubs/master.run.list +++ src/hg/makeDb/doc/asmHubs/master.run.list @@ -1294,30 +1294,31 @@ ./runBuild GCA_020745775.1_bTheCae1.pri.cur birds Theristicus_caerulescens ./runBuild GCA_020745805.1_bTheCae1.alt.cur birds Theristicus_caerulescens ./runBuild GCA_020746095.1_bTroSur1.alt.cur birds Trogon_surrucura ./runBuild GCA_020746105.1_bTroSur1.pri.cur birds Trogon_surrucura ./runBuild GCA_020800215.1_PR-102_v3_p invertebrate Phytophthora_ramorum ./runBuild GCA_020800235.1_ASM2080023v1 invertebrate Phytophthora_ramorum ./runBuild GCA_020800305.1_bPorHoc1.mat.Z.cur birds Porphyrio_hochstetteri ./runBuild GCA_020801775.1_bPorHoc1.pat.decon birds Porphyrio_hochstetteri ./runBuild GCA_020826835.1_mDicBic1.pat.decon mammals Diceros_bicornis_minor ./runBuild GCA_020826845.1_mDicBic1.mat.cur mammals Diceros_bicornis_minor ./runBuild GCA_020844765.3_17XNL_PSU_2 invertebrate Plasmodium_yoelii_yoelii ./runBuild GCA_020854095.1_UniMelb_DasViv_v1.0 mammals Dasyurus_viverrinus ./runBuild GCA_021018645.1_ASM2101864v1 mammals Antilocapra_americana ./runBuild GCA_021020595.1_ASM2102059v1 invertebrate Acanthamoeba_castellanii ./runBuild GCA_021020605.1_ASM2102060v1 invertebrate Acanthamoeba_castellanii +./runBuild GCA_021292165.1_IOZ_Scro_1.0 vertebrate Shinisaurus_crocodilurus ./runBuild GCA_021461655.1_ASM2146165v1 invertebrate Schistosoma_japonicum ./runBuild GCA_021462225.2_DD_fGirMul_XY1 fish Girardinichthys_multiradiatus ./runBuild GCA_021498455.1_ASM2149845v1 primates Colobus_guereza ./runBuild GCA_021498465.1_ASM2149846v1 primates Hylobates_pileatus ./runBuild GCA_021498475.1_ASM2149847v1 primates Saguinus_midas ./runBuild GCA_021527665.1_ASM2152766v1 invertebrate Aphanomyces_euteiches ./runBuild GCA_021556685.1_UTH_Rnor_SHRSP_BbbUtx_1.0 mammals Rattus_norvegicus ./runBuild GCA_021653915.1_ASM2165391v1 invertebrate Aedes_aegypti ./runBuild GCA_021821965.1_FI-F-10_v._1 fungi Ordospora_pajunii ./runBuild GCA_021869935.1_xbMytCali1.0.a invertebrate Mytilus_californianus ./runBuild GCA_021950905.1_HG002.pat.cur.20211005 primates Homo_sapiens ./runBuild GCA_021951015.1_HG002.mat.cur.20211005 primates Homo_sapiens ./runBuild GCA_021963965.1_bArtBel1.0.p birds Artemisiospiza_belli ./runBuild GCA_021966175.1_bArtBel1.0.a birds Artemisiospiza_belli ./runBuild GCA_022045225.1_xgHalCrac1.a invertebrate Haliotis_cracherodii @@ -1866,45 +1867,47 @@ ./runBuild GCA_039877575.1_fChaTrf1.hap2 fish Chaetodon_trifascialis ./runBuild GCA_039877785.1_fChaTrf1.hap1 fish Chaetodon_trifascialis ./runBuild GCA_039878515.1_bCotChi1.hap1 birds Excalfactoria_chinensis ./runBuild GCA_039878825.1_bCotChi1.hap2 birds Excalfactoria_chinensis ./runBuild GCA_039880925.1_mMolNig1.hap2 mammals Molossus_nigricans ./runBuild GCA_039880945.1_mMolNig1.hap1 mammals Molossus_nigricans ./runBuild GCA_039881165.1_ASM3988116v1 mammals Bos_indicus ./runBuild GCA_039906465.1_bAegAlb1.hap2 birds Aegotheles_albertisi ./runBuild GCA_039906515.1_mPseCra1.hap1 mammals Pseudorca_crassidens ./runBuild GCA_039906525.1_mPseCra1.hap2 mammals Pseudorca_crassidens ./runBuild GCA_039906565.1_bAegAlb1.hap1 birds Aegotheles_albertisi ./runBuild GCA_040206675.1_aAscTru1.hap2 vertebrate Ascaphus_truei ./runBuild GCA_040206685.1_aAscTru1.hap1 vertebrate Ascaphus_truei ./runBuild GCA_040207535.1_USC_Ccil_1.0 vertebrate Correlophus_ciliatus ./runBuild GCA_040436485.1_ASM4043648v1 invertebrate Corcyra_cephalonica +./runBuild GCA_040805955.1_T2T-sheep1.0 mammals Ovis_aries ./runBuild GCA_040807015.1_bStrCam1.hap2 birds Struthio_camelus ./runBuild GCA_040894005.1_aEngPut4.maternal vertebrate Engystomops_pustulosus ./runBuild GCA_040894015.1_aEngPut4.paternal vertebrate Engystomops_pustulosus ./runBuild GCA_040894355.1_rMyuGeo1.pri.20230808 vertebrate Myuchelys_georgesi ./runBuild GCA_040894355.2_rMyuGeo1.pri vertebrate Myuchelys_georgesi ./runBuild GCA_040937895.1_aHypRig1.alt vertebrate Hyperolius_riggenbachi ./runBuild GCA_040939525.1_ASM4093952v1 vertebrate Protopterus_annectens ./runBuild GCA_040954595.1_ASM4095459v1 invertebrate Saccoglossus_sp._HW-2024a ./runBuild GCA_040954595.2_keBalMisa1.hap2 invertebrate Saccoglossus_sp._HW-2024a ./runBuild GCA_040954625.1_ASM4095462v1 invertebrate Saccoglossus_sp._HW-2024a ./runBuild GCA_040954625.2_keBalMisa1.hap1 invertebrate Saccoglossus_sp._HW-2024a ./runBuild GCA_040954845.1_fLepOcu1.hap1 vertebrate Lepisosteus_oculatus ./runBuild GCA_040955645.1_LycPic1.final.hap1 mammals Lycaon_pictus ./runBuild GCA_040955705.1_LycPic1.final.hap2 mammals Lycaon_pictus ./runBuild GCA_041222355.1_F344_StmMcwi mammals Rattus_norvegicus +./runBuild GCA_041735815.1_T2T-goat2.0 mammals Capra_hircus ./runBuild GCA_041753875.1_ASM4175387v1 fish Acanthopagrus_schlegelii ./runBuild GCA_041834305.1_ASM4183430v1 mammals Megaptera_novaeangliae ./runBuild GCA_041902795.1_ASM4190279v1 fish Electrophorus_electricus ./runBuild GCA_041903045.1_ASM4190304v1 fish Epinephelus_lanceolatus ./runBuild GCA_042242105.1_fPemKlu1.hap1 fish Pempheris_klunzingeri ./runBuild GCA_042242115.1_fArrGeo1.hap1 fish Arripis_georgiana ./runBuild GCA_042242125.1_fPemKlu1.hap2 fish Pempheris_klunzingeri ./runBuild GCA_042242135.1_fArrGeo1.hap2 fish Arripis_georgiana ./runBuild GCA_043159975.1_mMacNem.hap1 primates Macaca_nemestrina ./runBuild GCA_043161795.1_mMacNem.hap2 primates Macaca_nemestrina ./runBuild GCA_043250625.1_fSebFas1.pri fish Sebastes_fasciatus ./runBuild GCA_043290065.1_mRhyPet1.hap2 mammals Rhynchocyon_petersi ./runBuild GCA_043290085.1_mRhyPet1.hap1 mammals Rhynchocyon_petersi ./runBuild GCA_043640875.1_fEnoArm2.hap2 fish Enoplosus_armatus ./runBuild GCA_043727835.1_ASM4372783v1 mammals Aselliscus_stoliczkanus @@ -1973,30 +1976,31 @@ ./runBuild GCA_048127205.1_SpiSpi1_v1.hap2 fish Spinachia_spinachia ./runBuild GCA_048128725.1_fSymNem1.1_haplotype_1 fish Symphorus_nematophorus ./runBuild GCA_048128805.1_fCenGer3.hap1.cur.20231027 fish Centroberyx_gerrardi ./runBuild GCA_048129025.1_fCaeTer1.1_haplotype_2 fish Caesio_teres ./runBuild GCA_048129055.1_fCaeTer1.1_haplotype_1 fish Caesio_teres ./runBuild GCA_048129065.1_fEpiMut1.hap2.cur.20240206 fish Epinephelus_rankini ./runBuild GCA_048129085.1_fCenGer3.hap2.cur.20231027 fish Centroberyx_gerrardi ./runBuild GCA_048129235.1_fEpiMut1.hap1.cur.20240206 fish Epinephelus_rankini ./runBuild GCA_048164845.1_mCanLup2.hap2 mammals Canis_lupus_baileyi ./runBuild GCA_048164855.1_mCanLup2.hap1 mammals Canis_lupus_baileyi ./runBuild GCA_048301445.1_SynTyp1_v1.hap1 fish Syngnathus_typhle ./runBuild GCA_048301465.1_ASM4830146v1 fish Aulostomus_maculatus ./runBuild GCA_048301475.1_ASM4830147v1 fish Aulostomus_maculatus ./runBuild GCA_048301585.1_ASM4830158v1 fish Rhinogobio_nasutus ./runBuild GCA_048301605.1_SynTyp1_v1.hap2 fish Syngnathus_typhle +./runBuild GCA_048338725.1_T2T_pig1.0 mammals Sus_scrofa ./runBuild GCA_048537225.1_ASM4853722v1 fish Polymixia_cf._hollisterae ./runBuild GCA_048537235.1_ASM4853723v1 fish Polymixia_cf._hollisterae ./runBuild GCA_048544195.1_ASM4854419v1 fish Menidia_menidia ./runBuild GCA_048544215.1_fCoiMys1.hap1 fish Coilia_mystus ./runBuild GCA_048544225.1_fCoiMys1.hap2 fish Coilia_mystus ./runBuild GCA_048565335.1_aManAur1.hap2 vertebrate Mantella_aurantiaca ./runBuild GCA_048565345.1_aManAur1.hap1 vertebrate Mantella_aurantiaca ./runBuild GCA_048565385.1_mSaiBol1.pri primates Saimiri_boliviensis ./runBuild GCA_048569125.1_fDirArg3.hap1 fish Diretmus_argenteus ./runBuild GCA_048569135.1_fDirArg3.hap2 fish Diretmus_argenteus ./runBuild GCA_048569465.1_aAnoBae1.hap2 vertebrate Anomaloglossus_baeobatrachus ./runBuild GCA_048569485.1_aAnoBae1.hap1 vertebrate Anomaloglossus_baeobatrachus ./runBuild GCA_048593225.1_ASM4859322v1 mammals Sarcophilus_harrisii ./runBuild GCA_048593235.1_ASM4859323v1 mammals Sminthopsis_crassicaudata ./runBuild GCA_048593245.1_ASM4859324v1 mammals Dasyurus_maculatus @@ -2427,30 +2431,31 @@ ./runBuild GCA_963513975.1_bFriCoe1.1 birds Fringilla_coelebs ./runBuild GCA_963514005.1_sRajBra1.1 vertebrate Raja_brachyura ./runBuild GCA_963514075.1_fConCon1.1 fish Conger_conger ./runBuild GCA_963514085.1_fCheLab1.1 fish Chelon_labrosus ./runBuild GCA_963514095.1_fEutGur1.1 fish Eutrigla_gurnardus ./runBuild GCA_963662255.1_bCinCin1.1 birds Cinclus_cinclus ./runBuild GCA_963675345.1_kaTriClin1.1 invertebrate Trididemnum_clinides ./runBuild GCA_963691815.1_fEchVip8.1 fish Echiichthys_vipera ./runBuild GCA_963691925.1_fScoSco1.1 fish Scomber_scombrus ./runBuild GCA_963692335.1_fOsmEpe2.1 fish Osmerus_eperlanus ./runBuild GCA_963693515.1_mPipNat.pri mammals Pipistrellus_nathusii ./runBuild GCA_963853865.1_ilHelHell1.1 invertebrate Helleia_helle ./runBuild GCA_963854185.1_fSarPil1.1 fish Sardina_pilchardus ./runBuild GCA_963854745.1_fScoMax1.1 fish Scophthalmus_maximus ./runBuild GCA_963855885.1_ilCoeGlyc1.1 invertebrate Coenonympha_glycerion +./runBuild GCA_963921485.1_norwegian_landrace mammals Sus_scrofa ./runBuild GCA_963921795.1_fNanAch1.1 fish Nannobrachium_achirus ./runBuild GCA_963921805.1_bPhaCar2.1 birds Phalacrocorax_carbo ./runBuild GCA_963924005.1_fProBol1.1 fish Protomyctophum_bolini ./runBuild GCA_963924245.1_bChrRid1.1 birds Chroicocephalus_ridibundus ./runBuild GCA_963924515.1_mVesMur1.1 mammals Vespertilio_murinus ./runBuild GCA_963924565.1_kaAscAspe10.1 invertebrate Ascidiella_aspersa ./runBuild GCA_963924665.1_mMicMin1.1 mammals Micromys_minutus ./runBuild GCA_963924675.1_mPhoPho1.1 mammals Phocoena_phocoena ./runBuild GCA_963924715.1_fThuThy2.1 fish Thunnus_thynnus ./runBuild GCA_963930665.1_mMunRee1.1_alternate_haplotype mammals Muntiacus_reevesi ./runBuild GCA_963930695.1_fLabBer1.1 fish Labrus_bergylta ./runBuild GCA_963932015.1_bAnaAcu1.1 birds Anas_acuta ./runBuild GCA_963932225.1_bLarFus1.1 birds Larus_fuscus ./runBuild GCA_963969265.1_fRhaChi2.1 fish Rhamphochromis_sp._chilingali ./runBuild GCA_963971535.1_fNotCoa1.1 fish Notolepis_coatsorum @@ -2512,31 +2517,33 @@ ./runBuild GCA_964196065.2_bCalBor7.hap2.2 birds Calonectris_borealis ./runBuild GCA_964197995.1_fScaEry2.hap1.1 fish Scardinius_erythrophthalmus ./runBuild GCA_964198595.1_kcLamFluv1.1 vertebrate Lampetra_fluviatilis ./runBuild GCA_964199725.1_bLarMic1.1_alternate_haplotype birds Larus_michahellis ./runBuild GCA_964199755.1_bLarMic1.1 birds Larus_michahellis ./runBuild GCA_964204655.1_aTriCri1.1 vertebrate Triturus_cristatus ./runBuild GCA_964204865.1_kaStyClav1.hap1.1 invertebrate Styela_clava ./runBuild GCA_964204955.1_kaStyClav1.hap2.1 invertebrate Styela_clava ./runBuild GCA_964205295.1_aBomVar4.maternal.1 vertebrate Bombina_variegata ./runBuild GCA_964205305.1_aBomVar4.paternal.1 vertebrate Bombina_variegata ./runBuild GCA_964211785.1_bAnsAns1.hap2.1 birds Anser_anser ./runBuild GCA_964211795.1_bAytFer1.hap2.1 birds Aythya_ferina ./runBuild GCA_964211825.1_bAytFer1.hap1.1 birds Aythya_ferina ./runBuild GCA_964211835.1_bAnsAns1.hap1.1 birds Anser_anser ./runBuild GCA_964212025.1_mMyoNat1.hap2.1 mammals Myotis_nattereri +./runBuild GCA_964212025.2_mMyoNat1.hap2.2 mammals Myotis_nattereri ./runBuild GCA_964212035.1_mMyoNat1.hap1.1 mammals Myotis_nattereri +./runBuild GCA_964212035.2_mMyoNat1.hap1.2 mammals Myotis_nattereri ./runBuild GCA_964212085.1_pySymPilo4.1 invertebrate Symbiodinium_pilosum ./runBuild GCA_964212145.1_pySymPilo4.1_alternate_haplotype invertebrate Symbiodinium_pilosum ./runBuild GCA_964213995.1_sMusAst1.hap1.1 vertebrate Mustelus_asterias ./runBuild GCA_964214025.1_sMusAst1.hap2.1 vertebrate Mustelus_asterias ./runBuild GCA_964234715.1_rPodMel1.hap1.1 vertebrate Podarcis_melisellensis ./runBuild GCA_964234825.1_rPodMel1.hap2.1 vertebrate Podarcis_melisellensis ./runBuild GCA_964237395.1_bGalChl1.hap2.1 birds Gallinula_chloropus ./runBuild GCA_964237555.1_mOryCun1.1 mammals Oryctolagus_cuniculus ./runBuild GCA_964237585.1_bGalChl1.hap1.1 birds Gallinula_chloropus ./runBuild GCA_964251985.1_rPodErh1.hap2.1 vertebrate Podarcis_erhardii ./runBuild GCA_964252035.1_rPodErh1.hap1.1 vertebrate Podarcis_erhardii ./runBuild GCA_964261635.1_aLisHel1.1 vertebrate Lissotriton_helveticus ./runBuild GCA_964263255.1_aLisVul1.1 vertebrate Lissotriton_vulgaris ./runBuild GCA_964263835.1_fCorLav1.hap2.1 fish Coregonus_lavaretus ./runBuild GCA_964263955.1_fCorLav1.hap1.1 fish Coregonus_lavaretus @@ -2717,30 +2724,31 @@ ./runBuild GCF_000006925.2_ASM692v2 bacteria Shigella_flexneri_2a_str._301 ./runBuild GCF_000006945.2_ASM694v2 bacteria Salmonella_enterica ./runBuild GCF_000007345.1_ASM734v1 archaea Methanosarcina_acetivorans_C2A ./runBuild GCF_000008325.1_ASM832v1 bacteria Methylococcus_capsulatus_str._Bath ./runBuild GCF_000008865.2_ASM886v2 bacteria Escherichia_coli_O157_H7_str._Sakai ./runBuild GCF_000009045.1_ASM904v1 bacteria Bacillus_subtilis_subsp._subtilis_str._168 ./runBuild GCF_000009085.1_ASM908v1 bacteria Campylobacter_jejuni_subsp._jejuni_NCTC_11168__ATCC_700819 ./runBuild GCF_000009205.2_ASM920v2 bacteria Clostridioides_difficile_630 ./runBuild GCF_000009225.2_ASM922v1 bacteria Pseudomonas_fluorescens_SBW25 ./runBuild GCF_000009765.2_ASM976v2 bacteria Streptomyces_avermitilis_MA-4680__NBRC_14893 ./runBuild GCF_000010085.1_ASM1008v1 bacteria Sodalis_glossinidius_str._morsitans ./runBuild GCF_000011425.1_ASM1142v1 fungi Aspergillus_nidulans_FGSC_A4 ./runBuild GCF_000011945.1_ASM1194v1 bacteria Anaplasma_marginale_str._St._Maries ./runBuild GCF_000012525.1_ASM1252v1 bacteria Synechococcus_elongatus_PCC_7942__FACHB-805 ./runBuild GCF_000013145.1_ASM1314v1 bacteria Ehrlichia_chaffeensis +./runBuild GCF_000014805.1_ASM1480v1 bacteria Aeromonas_hydrophila_subsp._hydrophila_ATCC_7966 ./runBuild GCF_000015425.1_ASM1542v1 bacteria Acinetobacter_baumannii_ATCC_17978 ./runBuild GCF_000018145.1_ASM1814v1 bacteria Dinoroseobacter_shibae_DFL_12__DSM_16493 ./runBuild GCF_000018525.1_ASM1852v1 bacteria Brucella_canis_ATCC_23365 ./runBuild GCF_000018905.1_ASM1890v1 bacteria Brucella_suis_ATCC_23445 ./runBuild GCF_000020025.1_ASM2002v1 bacteria Nostoc_punctiforme_PCC_73102 ./runBuild GCF_000020305.1_ASM2030v1 bacteria Anaplasma_marginale_str._Florida ./runBuild GCF_000021325.1_ASM2132v1 bacteria Gluconacetobacter_diazotrophicus_PA1_5 ./runBuild GCF_000021865.1_ASM2186v1 bacteria Rhodobacter_capsulatus_SB_1003 ./runBuild GCF_000024505.1_ASM2450v1 bacteria Anaplasma_centrale_str._Israel ./runBuild GCF_000026365.1_ASM2636v1 fungi Zygosaccharomyces_rouxii ./runBuild GCF_000026945.1_ASM2694v1 fungi Candida_dubliniensis_CD36 ./runBuild GCF_000027005.1_ASM2700v1 fungi Komagataella_phaffii_GS115 ./runBuild GCF_000068585.1_ASM6858v1 bacteria Chlamydia_trachomatis ./runBuild GCF_000090745.1_AnoCar2.0 vertebrate Anolis_carolinensis ./runBuild GCF_000090745.2_AnoCar2.0 vertebrate Anolis_carolinensis @@ -4443,30 +4451,31 @@ ./runBuild GCF_014356525.2_ASM1435652v1 invertebrate Nilaparvata_lugens ./runBuild GCF_014441545.1_ROS_Cfam_1.0 mammals Canis_lupus_familiaris ./runBuild GCF_014461135.1_ASM1446113v1 fungi Mycena_indigotica ./runBuild GCF_014466165.1_ASM1446616v1 fungi Pleurotus_ostreatus ./runBuild GCF_014466175.1_ASM1446617v1 invertebrate Vespula_pensylvanica ./runBuild GCF_014490615.1_ASM1449061v1 fungi Yarrowia_lipolytica ./runBuild GCF_014529535.1_BU_Bcop_v1 invertebrate Bradysia_coprophila ./runBuild GCF_014570535.1_YNU_ManJav_2.0 mammals Manis_javanica ./runBuild GCF_014570555.1_YNU_ManPten_2.0 mammals Manis_pentadactyla ./runBuild GCF_014595645.1_ASM1459564v1 fungi Diaporthe_citri ./runBuild GCF_014621545.1_ASM1462154v1 viral Monkeypox_virus ./runBuild GCF_014633365.1_ASM1463336v1 plants Diospyros_lotus ./runBuild GCF_014633375.1_OchPri4.0 mammals Ochotona_princeps ./runBuild GCF_014636115.1_ASM1463611v1 fungi Clavispora_lusitaniae ./runBuild GCF_014656585.1_ASM1465658v1 bacteria Lactobacillus_kefiranofaciens +./runBuild GCF_014706615.1_ASM1470661v1 bacteria Candidatus_Vesicomyosocius_sp._SY067_SCS001 ./runBuild GCF_014743375.2_RU_Dsub_v1.1 invertebrate Drosophila_subpulchrella ./runBuild GCF_014754425.2_SCBI_Odam_1.1 mammals Oryx_dammah ./runBuild GCF_014773155.1_arast.V10309.gnm1.PFL2 plants Arachis_stenosperma ./runBuild GCF_014805625.1_Yale_Gfus_2 invertebrate Glossina_fuscipes ./runBuild GCF_014805625.2_Yale_Gfus_2 invertebrate Glossina_fuscipes ./runBuild GCF_014805655.1_ASM1480565v1 birds Passer_montanus ./runBuild GCF_014805675.1_ASM1480567v1.1 invertebrate Mercenaria_mercenaria ./runBuild GCF_014805685.1_ASM1480568v1 fish Silurus_meridionalis ./runBuild GCF_014824575.1_WHU_Shon_v2 mammals Sturnira_hondurensis ./runBuild GCF_014824575.2_WHU_Shon_v2.1 mammals Sturnira_hondurensis ./runBuild GCF_014824575.3_WHU_Shon_v2.1 mammals Sturnira_hondurensis ./runBuild GCF_014825515.1_WHU_Ajam_v2 mammals Artibeus_jamaicensis ./runBuild GCF_014825855.1_ASM1482585v1 invertebrate Bombus_pyrosoma ./runBuild GCF_014839805.1_JHU_Msex_v1.0 invertebrate Manduca_sexta ./runBuild GCF_014839835.1_bDryPub1.pri birds Dryobates_pubescens