2b8abc091c74e7db658b36d307fc822e7cf0037d hiram Thu Dec 28 10:11:44 2023 -0800 bring the VGP alternates up to date refs #29545 diff --git src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt index 5b7132a..9e94499 100644 --- src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt +++ src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt @@ -69,31 +69,31 @@ 409849 GCA_009829135.1_fPerMag1.alt fish 36723 GCA_009829165.1_mMusErm1.alt mammals 296741 GCA_009829205.1_bChiLan1.alt birds 59729 GCA_009859025.1_bTaeGut2.p.v1.alt birds 59729 GCA_009859065.2_bTaeGut2.pri.v2 birds 9771 GCA_009873245.2_mBalMus1.v2 mammals 386614 GCA_010909745.1_sAmbRad1.alt sharks 386614 GCA_010909765.1_sAmbRad1.pri sharks 7757 GCA_010993595.1_kPetMar1.alt otherChordates 8010 GCA_011004835.1_fEsoLuc1.alt fish 8010 GCA_011004845.1_fEsoLuc1.pri fish 100784 GCA_011004865.1_bBalReg1.alt birds 100784 GCA_011004875.1_bBalReg1.pri birds 9483 GCA_011078405.1_mCalJac1.mat primates 9483 GCA_011100535.1_mCalJac1.pat primates -9483 GCA_011100535.2_mCalJac1.2.pat mammals +9483 GCA_011100535.2_mCalJac1.2.pat primates 9483 GCA_011100555.1_mCalJac1.pat.X primates 9337 GCA_011100635.1_mTriVul1.pri mammals 9337 GCA_011100645.1_mTriVul1.alt mammals 61156 GCA_011750645.1_mArvNil1.mat mammals 61156 GCA_011762505.1_mArvNil1.pat.X mammals 9739 GCA_011762515.1_mTurTru1.pat mammals 9739 GCA_011762535.1_mTurTru1.mat mammals 61156 GCA_011762545.1_mArvNil1.pat mammals 9739 GCA_011762595.1_mTurTru1.mat.Y mammals 13146 GCA_012275265.1_bMelUnd1.mat birds 13146 GCA_012275275.1_bMelUnd1.pat birds 13146 GCA_012275295.1_bMelUnd1.mat.Z birds 882753 GCA_013347815.1_fAntMac1.alt fish 8005 GCA_013347915.1_fEleEle1.alt fish 882753 GCA_013358685.1_fAntMac1.pri fish @@ -112,102 +112,104 @@ 129108 GCA_014839995.1_fXenCan1.pri fish 42514 GCA_015220065.1_fPygNat1.alt fish 72105 GCA_015220095.1_fSebUmb1.alt fish 120794 GCA_015220155.1_bFalRus1.alt birds 488313 GCA_015220175.1_bPogPus1.alt birds 8469 GCA_015220195.2_rCheMyd1.alt.v2 reptiles 27675 GCA_015220265.1_mChoDid1.alt mammals 488313 GCA_015220805.1_bPogPus1.pri birds 43150 GCA_015227805.3_bHirRus1.pri.v3 birds 43150 GCA_015227815.3_bHirRus1.alt.v3 birds 10116 GCA_015244455.1_mRatBN7.1_alternate_haplotype mammals 9261 GCA_015852515.1_mTacAcu1.alt mammals 2700039 GCA_015852565.1_bf_hap-2 invertebrate 8790 GCA_016128335.1_ZJU1.0 birds 8790 GCA_016128335.2_ZJU2.0 birds -9606 GCA_016695395.2_mHomSap3.mat mammals -9606 GCA_016700455.2_mHomSap3.pat mammals +9606 GCA_016695395.2_mHomSap3.mat primates +9606 GCA_016700455.2_mHomSap3.pat primates 57068 GCA_016880875.1_bAcaChl1.alt birds 57068 GCA_016904835.1_bAcaChl1.pri birds 13397 GCA_017639455.1_sCarCar2.alt sharks 670352 GCA_017639475.1_bPluApr1.alt birds 670352 GCA_017639485.1_bPluApr1.pri birds 52777 GCA_017639555.1_bCicMag1.pri birds 148594 GCA_017639645.1_bFalNau1.mat birds 52777 GCA_017639665.1_bCicMag1.alt birds 946358 GCA_017639675.1_fAplTae1.pri fish 946358 GCA_017639685.1_fAplTae1.alt fish 1250792 GCA_017639755.1_fMelBoe1.alt fish 941984 GCA_017976295.1_fToxJac2.alt fish 55661 GCA_017976305.1_bCucCan1.alt birds 109905 GCA_017976315.1_fCheRos1.alt fish 55661 GCA_017976375.1_bCucCan1.pri birds 34773 GCA_018492705.1_fAloSap1.alt fish 2700040 GCA_019207075.1_Bb-hap invertebrate 33562 GCA_019395325.1_mDroGli1.alt mammals 75038 GCA_020382915.1_fScaArg1.alt fish 390368 GCA_020510965.1_fPhoLeu1.alt fish 390368 GCA_020510985.1_fPhoLeu1.pri fish 8895 GCA_020740585.1_bApuApu2.alt.cur birds -9447 GCA_020740595.1_mLemCat1.alt mammals +9447 GCA_020740595.1_mLemCat1.alt primates 134902 GCA_020740675.1_bCorHaw1.alt.cur birds 51337 GCA_020740715.1_mJacJac1.pat.decon mammals 8895 GCA_020740795.1_bApuApu2.pri.cur birds 34787 GCA_020745675.1_fTauAds1.alt.cur fish 34787 GCA_020745685.1_fTauAds1.pri.cur fish 243314 GCA_020745695.1_bHemCom1.alt.cur birds 243314 GCA_020745705.1_bHemCom1.pri.cur birds 170820 GCA_020745735.1_sHemOce1.pat.X.cur. sharks 170820 GCA_020745765.1_sHemOce1.mat.decon sharks 1118847 GCA_020745775.1_bTheCae1.pri.cur birds 1118847 GCA_020745805.1_bTheCae1.alt.cur birds 297711 GCA_020746095.1_bTroSur1.alt.cur birds 297711 GCA_020746105.1_bTroSur1.pri.cur birds 439704 GCA_020800305.1_bPorHoc1.mat.Z.cur birds 439704 GCA_020801775.1_bPorHoc1.pat.decon birds 77932 GCA_020826835.1_mDicBic1.pat.decon mammals 77932 GCA_020826845.1_mDicBic1.mat.cur mammals 159646 GCA_023053635.1_rElgMul1.0.p reptiles 64668 GCA_023344045.1_bLagMut1_alternate birds 345164 GCA_023634085.1_bFalChe1.pri birds 345164 GCA_023634115.1_bFalChe1.alt birds 8954 GCA_023634155.1_bFalPer1.pri birds 8954 GCA_023634185.1_bFalPer1.alt birds 345155 GCA_023634305.1_bFalBia1.alt birds 46513 GCA_023637925.1_DD_ASM_B1a birds 46513 GCA_023637945.1_DD_ASM_B1 birds 345155 GCA_023638135.1_bFalBia1.pri birds 48850 GCA_023851605.1_mTamTet1.pri mammals 48850 GCA_023853755.1_mTamTet1.alt mammals 109475 GCA_024140225.1_mSunEtr1.alt.cur mammals +9031 GCA_024206055.2_ASM2420605v2 birds 99487 GCA_024166345.1_mEleMax1_alternate_haplotype mammals 246179 GCA_024294585.1_rVipLat1.pri reptiles 246179 GCA_024294605.1_rVipLat1.alt reptiles +10013 GCA_024803745.1_mThoBot1.0.p mammals 48708 GCA_025094165.1_mMesDen1_alternate_haplotype mammals 286002 GCA_025201965.1_rGopFla2.pat.asm reptiles 48708 GCA_025265405.1_mMesDen1_primary_haplotype mammals 70687 GCA_026018925.1_mTupTan1 mammals 372063 GCA_026229955.1_mPerMan1.0.p mammals 202280 GCA_026419925.1_bHarHar1 birds 27615 GCA_026419965.1_mKogBre1_haplotype_1 mammals 27615 GCA_026419985.1_mKogBre1_haplotype_2 mammals 81927 GCA_026979555.1_bVidCha1_purged_dups_haplotype birds 81927 GCA_026979565.1_bVidCha1_merged_haplotype birds 65483 GCA_027172095.1_rPodRaf1.alt reptiles 233779 GCA_027382365.2_aSpeBom1.2.alt amphibians 310915 GCA_027382375.1_fPanHyp1.alt fish -9470 GCA_027406535.1_mNycCou1.alt mammals +9470 GCA_027406535.1_mNycCou1.alt primates 30427 GCA_027406555.1_bHaeMex1.alt birds 9031 GCA_027408205.1_bGalGal5.alt birds 9031 GCA_027408225.1_bGalGal5.pri birds 9031 GCA_027408255.1_bGalGal4.alt birds 110931 GCA_027409165.1_mCynVol1.alt mammals 110931 GCA_027409185.1_mCynVol1.pri mammals 13676 GCA_027409835.1_fScoJap1.alt fish 8351 GCA_027410445.1_aDisPic1.pri amphibians 8351 GCA_027410455.1_aDisPic1.alt amphibians 9240 GCA_027474245.1_bSphHub1.pri birds 9240 GCA_027474345.1_bSphHub1.alt birds 30427 GCA_027477595.1_bHaeMex1.pri birds 9031 GCA_027557775.1_bGalGal4.pri birds 279927 GCA_027559525.1_bAcrTri1.alt birds 279927 GCA_027559615.1_bAcrTri1.pri birds @@ -296,34 +298,39 @@ 3053191 GCA_030684295.1_sSteTig4.hap2 sharks 9823 GCA_030704935.1_ASM3070493v1 mammals 8496 GCA_030867065.1_rAllMis1 reptiles 283338 GCA_030867085.1_rLiaOli1.hap2 reptiles 283338 GCA_030867105.1_rLiaOli1.hap1 reptiles 30419 GCA_030867145.1_bOpiHoa1.hap1 birds 30419 GCA_030867165.1_bOpiHoa1.hap2 birds 37040 GCA_030936125.1_bGavSte3.hap1 birds 37040 GCA_030936135.1_bGavSte3.hap2 birds 121349 GCA_031001685.1_rEryReg1.hap3 reptiles 121349 GCA_031021085.1_rEryReg1.hap2 reptiles 121349 GCA_031021105.1_rEryReg1.hap1 reptiles 37578 GCA_031468805.1_bMorBas2.hap1 birds 37578 GCA_031468815.1_bMorBas2.hap2 birds 175524 GCA_031876335.1_mHipLar1.pri mammals +111821 GCA_031877785.1_bStrAlu1.hap2 birds 111821 GCA_031877795.1_bStrAlu1.hap1 birds +9802 GCA_031878655.1_mTapInd1.hap1 mammals +10013 GCA_031878665.1_mThoBot2.hap2 mammals 10013 GCA_031878675.1_mThoBot2.hap1 mammals 161624 GCA_031885435.1_bPasSan2.pri birds +238119 GCA_031893025.1_aLepFus1.hap1 amphibians 142480 GCA_032164245.1_rSteOdo2_p1.0 reptiles +3026461 GCA_033296515.1_rMacSuw1.hap1 reptiles 3026461 GCA_033349115.1_rMacSuw1.hap2 reptiles 44489 GCA_033958435.1_ASM3395843v1 reptiles 8154 GCA_900246225.5_fAstCal1.3 fish 64144 GCA_900324465.2_fAnaTes1.2 fish 64144 GCA_900324465.3_fAnaTes1.3 fish 205130 GCA_900324485.3_fMasArm1.3 fish 56716 GCA_900634415.1_fCotGob3.1 fish 56716 GCA_900634435.1_fCotGob3.1_alternate_haplotype fish 210632 GCA_900634625.2_fParRan2.2 fish 441366 GCA_900634775.1_fGouWil2.1 fish 441366 GCA_900634775.2_fGouWil2.2 fish 64144 GCA_900650485.1_fAnaTes1.2_alternate_haplotype fish 441366 GCA_900650505.1_fGouWil2.1_alternate_haplotype fish 210632 GCA_900651595.1_fParRan2.1_alternate_haplotype fish 158456 GCA_900651605.1_fBetSpl5.1_alternate_haplotype fish @@ -486,30 +493,31 @@ 431183 GCA_963082865.1_kaCorEumy4.1_alternate_haplotype otherChordates 431183 GCA_963082875.1_kaCorEumy4.1 otherChordates 148596 GCA_963210275.1_bFalPun1.1_alternate_haplotype birds 148596 GCA_963210335.1_bFalPun1.1 birds 98922 GCA_963242275.1_mMyoDau2.1_alternate_haplotype mammals 232653 GCA_963243765.1_bPsiEch3.1_alternate_haplotype birds 232653 GCA_963264785.1_bPsiEch3.1 birds 948025 GCA_963280865.1_fGymBra2.1 fish 948025 GCA_963281105.1_fGymBra2.1_alternate_haplotype fish 56720 GCA_963383615.1_fLipPho2.1 fish 56720 GCA_963383635.1_fLipPho2.1_alternate_haplotype fish 39082 GCA_963383645.1_mMusAve1.1 mammals 39082 GCA_963383665.1_mMusAve1.1_alternate_haplotype mammals 61862 GCA_963455305.1_mPleAur1.1 mammals 29065 GCA_963455335.1_mMarMar1.1 mammals +8103 GCA_963457625.1_fCycLum2.1 fish 90074 GCA_963457635.1_fMicVar1.1 fish 196075 GCA_963457725.1_fSprSpr1.1 fish 37598 GCA_963513975.1_bFriCoe1.1 birds 223862 GCA_963514005.1_sRajBra1.1 sharks 48171 GCA_963514085.1_fCheLab1.1 fish 426098 GCA_963514095.1_fEutGur1.1 fish 94984 GCA_963691815.1_fEchVip8.1 fish 30522 GCF_003369695.1_UOA_Brahman_1 mammals 9244 GCF_003957555.1_bCalAnn1_v1.p birds 59729 GCF_003957565.1_bTaeGut1_v1.p birds 59729 GCF_003957565.2_bTaeGut1.4.pri birds 2489341 GCF_004027225.2_bStrHab1.2.pri birds 9258 GCF_004115215.2_mOrnAna1.pri.v4 mammals 59479 GCF_004115265.1_mRhiFer1_v1.p mammals 59479 GCF_004115265.2_mRhiFer1_v1.p mammals @@ -532,31 +540,31 @@ 8869 GCF_009769625.2_bCygOlo1.pri.v2 birds 80427 GCF_009819535.1_rLacAgi1.pri reptiles 8267 GCF_009819705.1_fHipHip1.pri fish 219594 GCF_009819795.1_bAytFul2.pri birds 91951 GCF_009819885.1_bCatUst1.pri birds 91951 GCF_009819885.2_bCatUst1.pri.v2 birds 409849 GCF_009829125.1_fPerMag1.pri fish 409849 GCF_009829125.3_fPerMag1.2.pri fish 296741 GCF_009829145.1_bChiLan1.pri birds 36723 GCF_009829155.1_mMusErm1.Pri mammals 9771 GCF_009873245.2_mBalMus1.pri.v3 mammals 386614 GCF_010909765.1_sAmbRad1.pri sharks 386614 GCF_010909765.2_sAmbRad1.1.pri sharks 7757 GCF_010993605.1_kPetMar1.pri otherChordates 8010 GCF_011004845.1_fEsoLuc1.pri fish -9483 GCF_011100555.1_mCalJa1.2.pat.X mammals +9483 GCF_011100555.1_mCalJa1.2.pat.X primates 9337 GCF_011100635.1_mTriVul1.pri mammals 61156 GCF_011762505.1_mArvNil1.pat.X mammals 9739 GCF_011762595.1_mTurTru1.mat.Y mammals 13146 GCF_012275295.1_bMelUnd1.mat.Z birds 7936 GCF_013347855.1_fAngAng1.pri fish 8005 GCF_013358815.1_fEleEle1.pri fish 118141 GCF_013368585.1_fMegCyp1.pri fish 51298 GCF_014108235.1_mMyoMyo1.p mammals 59472 GCF_014108245.1_mPipKuh1.p mammals 27622 GCF_014108415.1_mMolMol1.p mammals 9407 GCF_014176215.1_mRouAeg1.p mammals 118200 GCF_014839835.1_bDryPub1.pri birds 120794 GCF_015220075.1_bFalRus1.pri birds 27675 GCF_015220235.1_mChoDid1.pri mammals 42514 GCF_015220715.1_fPygNat1.pri fish @@ -569,52 +577,52 @@ 8839 GCF_015476345.1_ZJU1.0 birds 9261 GCF_015852505.1_mTacAcu1.pri mammals 9031 GCF_016699485.2_bGalGal1.mat.broiler.GRCg7b birds 9031 GCF_016700215.1_bGalGal1.pat.whiteleghornlayer.GRCg7w birds 9031 GCF_016700215.2_bGalGal1.pat.whiteleghornlayer.GRCg7w birds 13397 GCF_017639515.1_sCarCar2.pri sharks 148594 GCF_017639655.1_bFalNau1.pat birds 148594 GCF_017639655.2_bFalNau1.pat birds 1250792 GCF_017639745.1_fMelBoe1.pri fish 109905 GCF_017976325.1_fCheRos1.pri fish 55661 GCF_017976375.1_bCucCan1.pri birds 941984 GCF_017976425.1_fToxJac2.pri fish 34773 GCF_018492685.1_fAloSap1.pri fish 33562 GCF_019393635.1_mDroGli1.pri mammals 75038 GCF_020382885.2_fScaArg1.pri fish -9447 GCF_020740605.2_mLemCat1.pri mammals +9447 GCF_020740605.2_mLemCat1.pri primates 51337 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GCF_027406575.1_mNycCou1.pri primates 13676 GCF_027409825.1_fScoJap1.pri fish 30427 GCF_027477595.1_bHaeMex1.pri birds 2857394 GCF_027579445.1_bAmmNel1.pri birds 443677 GCF_027579695.1_fNeoGra1.pri fish 8345 GCF_027579735.1_aBomBom1.pri amphibians 42254 GCF_027595985.1_mSorAra2.pri mammals 2857398 GCF_027887145.1_bAmmCau1.pri birds 2991368 GCF_027887155.1_rMalTer1.hap1 reptiles 13616 GCF_027887165.1_mMonDom1.pri mammals 61452 GCF_028018385.1_mNeoNeb1.pri mammals 44398 GCF_028018845.1_bMelGeo1.pri birds 2746895 GCF_028023285.1_mBalRic1.hap2 mammals 75485 GCF_028500815.1_bRisTri1.patW.cur.20221130 birds 27606 GCF_028564815.1_mEubGla1.1.hap2._XY mammals 9117 GCF_028858705.1_bGruAme1.mat birds