8fc2eaf789628409583e42e05e55609052c3f660 hiram Sun Mar 23 18:05:23 2025 -0700 VGP update and user request additions refs #29545 diff --git src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt index 6fdd42255f8..3b0e2454f8f 100644 --- src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt +++ src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt @@ -204,97 +204,103 @@ GCA_016432865.1_AdamAnt mammals GCA_017916325.1_LU_Lmar_1.0 invertebrate GCA_017916335.1_LU_Lori_1.0 invertebrate GCA_017976375.1_bCucCan1.pri birds GCA_017976425.1_fToxJac2.pri fish GCA_018139145.1_ASM1813914v1 birds GCA_018296145.1_Otsh_v2.0 fish GCA_018691715.1_ASM1869171v1 invertebrate GCA_018852605.1_HG002.alt.pat.f1_v2 primates GCA_018852615.1_HG002.pri.mat.f1_v2 primates GCA_019393635.1_mDroGli1.pri mammals GCA_019925205.1_ASM1992520v1 invertebrate GCA_020740725.1_bCorHaw1.pri.cur birds GCA_020740795.1_bApuApu2.pri.cur birds GCA_020745735.1_sHemOce1.pat.X.cur. vertebrate +GCA_020800215.1_PR-102_v3_p invertebrate GCA_020826845.1_mDicBic1.mat.cur mammals GCA_021462225.2_DD_fGirMul_XY1 fish GCA_021950905.1_HG002.pat.cur.20211005 primates GCA_021951015.1_HG002.mat.cur.20211005 primates GCA_022059095.1_T.mel.1 invertebrate GCA_022577435.1_fEmbJac1.0.p fish +GCA_022682395.1_HLdesRot8B mammals GCA_022682495.1_HLdesRot8A mammals +GCA_022682495.2_HLdesRot8A.1 mammals +GCA_023055355.1_bAgeTri1.0.p birds GCA_023343835.1_bLagMut1_primary birds GCA_023634085.1_bFalChe1.pri birds GCA_023634155.1_bFalPer1.pri birds GCA_023637945.1_DD_ASM_B1 birds GCA_023638135.1_bFalBia1.pri birds GCA_025091365.1_ASM2509136v1 invertebrate GCA_025265405.1_mMesDen1_primary_haplotype mammals GCA_025583915.1_AnoSag2.1 vertebrate GCA_026419915.1_bHarHar1_primary_haplotype birds GCA_026419965.1_mKogBre1_haplotype_1 mammals GCA_027172205.1_rPodRaf1.pri vertebrate GCA_027358585.1_fPanHyp1.pri fish GCA_027406575.1_mNycCou1.pri primates GCA_027409825.1_fScoJap1.pri fish GCA_027477595.1_bHaeMex1.pri birds GCA_027579445.1_bAmmNel1.pri birds GCA_027579695.1_fNeoGra1.pri fish GCA_027579735.1_aBomBom1.pri vertebrate GCA_027789765.1_aDenEbr1.pat vertebrate GCA_027887145.1_bAmmCau1.pri birds GCA_027887155.1_rMalTer1.hap1 vertebrate GCA_027887165.1_mMonDom1.pri mammals -GCA_020800215.1_PR-102_v3_p invertebrate GCA_028018385.1_mNeoNeb1.pri mammals GCA_028018845.1_bMelGeo1.pri birds GCA_028023285.1_mBalRic1.hap2 mammals GCA_028389875.1_bPtePen1.pri birds GCA_028390025.1_aPseCor3.hap2 vertebrate GCA_028500815.1_bRisTri1.patW.cur.20221130 birds +GCA_028538775.1_mMyoYum1.0.hap1 mammals GCA_028564815.1_mEubGla1.hap2 mammals GCA_028858705.1_bGruAme1.mat birds GCA_028858805.1_NHGRI_mPanTro3-v1.1-hic.freeze_alt primates GCA_028878055.2_NHGRI_mSymSyn1-v2.0_pri primates GCA_028885525.1_NHGRI_mPonPyg2-v1.1-hic.freeze_alt primates GCA_029207755.1_bChaFas1.0.hap1 birds +GCA_029215685.1_rPitCat1.0.hap2 vertebrate GCA_029281585.2_NHGRI_mGorGor1-v2.0_pri primates GCA_029499605.1_aHylSar1.hap1 vertebrate GCA_029633855.1_fHopMal1.hap1 fish GCA_029633865.1_fLamInc1.hap2 fish GCA_029633875.1_fHopMal1.hap2 fish GCA_030028045.1_mHipAmp2.hap2 mammals GCA_030144855.1_sHypSab1.hap1 vertebrate GCA_030435805.1_mMusLut2.pri mammals GCA_030684315.1_sSteTig4.hap1 vertebrate GCA_030867065.1_rAllMis1 vertebrate GCA_030867095.1_rAllMis1 vertebrate GCA_030936135.1_bGavSte3.hap2 birds GCA_031021105.1_rEryReg1.hap1 vertebrate GCA_035083965.1_klBraLanc5.hap2 invertebrate GCA_036373705.1_fAmiCal2.hap1 fish GCA_036850765.1_mSacBil1_pri_phased_curated mammals GCA_036850995.1_mSacLep1_pri_phased_curated mammals GCA_036971445.1_sNarBan1.hap1 vertebrate GCA_036971685.1_bPatFas1.hap2 birds GCA_038363095.1_mArtLit.hap1 mammals GCA_039877785.1_fChaTrf1.hap1 fish GCA_040894355.1_rMyuGeo1.pri.20230808 vertebrate GCA_042242105.1_fPemKlu1.hap1 fish GCA_043159975.1_mMacNem.hap1 primates GCA_044704955.1_sPriJap1.hap1 vertebrate +GCA_047511675.1_mMarFla1.hap1 mammals GCA_900006655.3_Susie3 primates GCA_900094665.2_CAROLI_EIJ_v1.1 mammals GCA_900324465.2_fAnaTes1.2 fish GCA_900634415.1_fCotGob3.1 fish GCA_900634775.1_fGouWil2.1 fish GCA_901343595.1_MONAX5 mammals GCA_901699155.1_bStrTur1.1 birds GCA_901699165.1_bStrTur1.1_alternate_haplotype birds GCA_901709675.1_fSynAcu1.1 fish GCA_902153765.1_bAquChr1.2_alternate_haplotype birds GCA_902459505.1_aGeoSer1.1 vertebrate GCA_902500255.1_fThaAma1.1 fish GCA_902686455.1_mSciVul1.1 mammals GCA_902713425.1_fAciRut3.1_maternal_haplotype fish GCA_902713425.2_fAciRut3.2_maternal_haplotype fish @@ -499,48 +505,52 @@ GCF_015227805.1_bHirRus1.pri.v2 birds GCF_015228065.1_NSTDA_Pmon_1 invertebrate GCF_015237465.1_rCheMyd1.pri vertebrate GCF_016086655.2_UVic_Lsal_1.1 invertebrate GCF_016699345.1_BCM_Sbol_2.0 primates GCF_016700215.1_bGalGal1.pat.whiteleghornlayer.GRCg7w birds GCF_016746245.1_Prin_Dsan_1.0 invertebrate GCF_016746365.1_Prin_Dyak_Tai18E2_2.0 invertebrate GCF_016746395.1_Prin_Dsim_3.0 invertebrate GCF_016801865.1_TS_Cpip_V1 invertebrate GCF_016920785.1_Ixodes_scapularus_ComboLowHiFi invertebrate GCF_017639655.1_bFalNau1.pat birds GCF_021218885.1_Marmota_monax_Labrador192_V1.0 mammals GCF_021288785.1_ASM2128878v2 mammals GCF_022539665.1_CSIRO_AGI_Dcar_v0.2 invertebrate +GCF_022682495.1_HLdesRot8A mammals GCF_023065955.1_UrsArc1.0 mammals GCF_023343755.1_ASM2334375v1 fungi GCF_027563975.1_ilPloInte3.1 invertebrate GCF_028858775.1_NHGRI_mPanTro3-v1.1-hic.freeze_pri primates GCF_028878055.1_NHGRI_mSymSyn1-v1.1-hic.freeze_pri primates GCF_028878055.2_NHGRI_mSymSyn1-v2.0_pri primates GCF_028885625.1_NHGRI_mPonPyg2-v1.1-hic.freeze_pri primates GCF_028885655.1_NHGRI_mPonAbe1-v1.1-hic.freeze_pri primates GCF_029281585.1_NHGRI_mGorGor1-v1.1-0.2.freeze_pri primates GCF_029289425.1_NHGRI_mPanPan1-v1.1-0.1.freeze_pri primates +GCF_030445035.1_mDasNov1.hap2 mammals +GCF_042477335.1_ARS-UI_OviCan_v1 mammals GCF_900094665.1_CAROLI_EIJ_v1.1 mammals GCF_900246225.1_fAstCal1.2 fish GCF_900324465.1_fAnaTes1.1 fish GCF_900324465.2_fAnaTes1.2 fish GCF_900324485.1_fMasArm1.1 fish GCF_900496995.1_bAquChr1.2 birds GCF_900634625.1_fParRan2.1 fish GCF_900634775.1_fGouWil2.1 fish GCF_900634795.2_fBetSpl5.2 fish GCF_900634795.3_fBetSpl5.3 fish GCF_900700375.1_fDenClu1.1 fish GCF_900700415.1_Ch_v2.0.2 fish GCF_900747795.1_fErpCal1.1 fish GCF_900880675.1_fSpaAur1.1 fish GCF_900963305.1_fEcheNa1.1 fish GCF_901001135.1_aRhiBiv1.1 vertebrate GCF_901001165.1_fSalTru1.1 fish GCF_902150015.1_genome_assembly_l500 birds GCF_902459505.1_aGeoSer1.1 vertebrate GCF_902713615.1_sScyCan1.1 vertebrate +GCF_902827115.1_fPseGeo1.1 fish GCF_903992535.1_mArvAmp1.1 mammals GCF_922984935.1_mMelMel3.1_paternal_haplotype mammals GCF_932274485.1_xgPatVulg1.1 invertebrate