968cb710e3fb2ba7e3697161aae71112666f063c hiram Wed Dec 27 18:18:17 2023 -0800 VGP update before primary alternate rearragement 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 905d966..44a6ba4 100644 --- src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt +++ src/hg/makeDb/doc/vgpAsmHub/vgp.taxId.asmId.class.txt @@ -169,30 +169,31 @@ 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 99487 GCA_024166345.1_mEleMax1_alternate_haplotype mammals 246179 GCA_024294585.1_rVipLat1.pri reptiles 246179 GCA_024294605.1_rVipLat1.alt reptiles 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 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 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 @@ -215,31 +216,30 @@ 42254 GCA_027595995.1_mSorAra2.alt mammals 150705 GCA_027789725.1_aDenEbr1.mat amphibians 150705 GCA_027789765.1_aDenEbr1.pat amphibians 69262 GCA_027887135.1_bAmmCau1.alt birds 69262 GCA_027887145.1_bAmmCau1.pri birds 2991368 GCA_027887205.1_rMalTer1.hap2 reptiles 13616 GCA_027917375.1_mMonDom1.alt mammals 8429 GCA_027917415.1_aGasCar1.hap2 amphibians 8429 GCA_027917425.1_aGasCar1.pri amphibians 219752 GCA_027942865.1_fOdoBon6.hap1 fish 219752 GCA_027942885.1_fOdoBon6.hap2 fish 33610 GCA_028017155.1_bGypBar2.alt birds 2746895 GCA_028017805.1_mBalRic1.hap1 mammals 82168 GCA_028017835.1_rEmyOrb1.hap1 reptiles 82168 GCA_028017845.1_rEmyOrb1.hap2 reptiles -61452 GCF_028018385.1_mNeoNeb1.pri mammals 61452 GCA_028018655.1_mNeoNeb1.alt mammals 44398 GCA_028018845.1_bMelGeo1.pri birds 44398 GCA_028019105.1_bMelGeo1.alt birds 8905 GCA_028020675.1_bPodStr1.alt birds 8905 GCA_028020825.1_bPodStr1.pri birds 9764 GCA_028021215.1_mEscRob2.pri mammals 9764 GCA_028021475.1_mEscRob2.alt mammals 1772091 GCA_028021495.1_fLycPai1.hap1 fish 1772091 GCA_028022725.1_fLycPai1.hap2 fish 33610 GCA_028022735.1_bGypBar2.pri birds 2746895 GCA_028023285.1_mBalRic1.hap2 mammals 9315 GCA_028372415.1_mMacEug1.pri mammals 8795 GCA_028389875.1_bPtePen1.pri birds 8795 GCA_028389885.1_bPtePen1.alt birds 9315 GCA_028389975.1_mMacEug1.alt mammals @@ -277,42 +277,46 @@ 1983395 GCA_030035685.1_sMobBir1.hap2 sharks 261503 GCA_030035715.1_rRhiFlo1.hap1 reptiles 79690 GCA_030144785.1_sHypSab1.hap2 sharks 79690 GCA_030144855.1_sHypSab1.hap1 sharks 118683 GCA_030412085.1_rCycPin1.hap2 reptiles 118683 GCA_030412105.1_rCycPin1.hap1 reptiles 9978 GCA_030435715.1_mOchPri1.hap2 mammals 9666 GCA_030435785.1_mMusLut2.alt mammals 9361 GCA_030445055.1_mDasNov1.hap1 mammals 930266 GCA_030448965.1_fSalBra1.hap1 fish 36300 GCA_030449815.1_bPelCri1.alt birds 930266 GCA_030463535.1_fSalBra1.hap2 fish 36300 GCA_030463565.1_bPelCri1.pri birds 48891 GCA_030490855.1_bPoeAtr1.hap2 birds 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 +142480 GCA_032164245.1_rSteOdo2_p1.0 reptiles +44489 GCA_033958435.1_ASM3395843v1 reptiles +3026461 GCA_033349115.1_rMacSuw1.hap2 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 158456 GCA_900651605.2_fBetSpl5.4_alternate_haplotype fish 299321 GCA_900700345.2_fDenClu1.1_alternate_haplotype fish @@ -394,30 +398,31 @@ 40830 GCA_936446605.1_fBarBab1.1_alternate_haplotype fish 9733 GCA_937001455.1_mOrcOrc1.1_alternate_haplotype mammals 7955 GCA_944039255.1_fDanRer4.1_alternate_haplotype fish 7955 GCA_944039275.1_fDanRer4.1 fish 933932 GCA_946807865.1_fSilAri3.1_alternate_haplotype fish 933932 GCA_946808225.1_fSilAri3.1 fish 135647 GCA_947034865.1_fBarBar1.1 fish 135647 GCA_947034905.1_fBarBar1.1_alternate_haplotype fish 10129 GCA_947179515.1_mApoSyl1.1 mammals 10129 GCA_947179525.1_mApoSyl1.1_alternate_haplotype mammals 103942 GCA_947247025.1_rVipUrs1.1_alternate_haplotype reptiles 103942 GCA_947247035.1_rVipUrs1.1 reptiles 8262 GCA_947347695.1_fPlePla1.1_alternate_haplotype fish 8969 GCA_947461875.1_bHalAlb1.1 birds 8969 GCA_947461935.1_bHalAlb1.1_alternate_haplotype birds +38561 GCA_947561715.1_kaAscMent1.1 otherChordates 161584 GCA_948146095.1_fSynAcu2.1_alternate_haplotype fish 161584 GCA_948146105.1_fSynAcu2.1 fish 58324 GCA_949152265.1_fPhoPho1.1 fish 58324 GCA_949152275.1_fPhoPho1.1_alternate_haplotype fish 8260 GCA_949316195.1_fPlaFle2.1_alternate_haplotype fish 8260 GCA_949316205.1_fPlaFle2.1 fish 134920 GCA_949316245.1_fPunPun2.1_alternate_haplotype fish 10090 GCA_949316305.1_mMusMuc1.1_alternate_haplotype mammals 10090 GCA_949316315.1_mMusMuc1.1 mammals 134920 GCA_949316345.1_fPunPun2.1 fish 8284 GCA_949319135.1_fSquCep2.1 fish 8284 GCA_949319155.1_fSquCep2.1_alternate_haplotype fish 27704 GCA_949357685.1_fGobGob1.1 fish 27704 GCA_949357705.1_fGobGob1.1_alternate_haplotype fish 1484357 GCA_949357725.1_fHypImm3.1 fish @@ -468,30 +473,31 @@ 187126 GCA_963082525.1_bNesMay2.1 birds 217509 GCA_963082795.1_fCarCar2.1_alternate_haplotype fish 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 +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 89673 GCF_004126475.1_mPhyDis1_v1.p mammals 89673 GCF_004126475.2_mPhyDis1.pri.v3 mammals 63155 GCF_007364275.1_fArcCen1 fish 1825980 GCF_007399415.2_rGopEvg1_v1.p reptiles 61383 GCF_007474595.1_mLynCan4_v1.p mammals 61383 GCF_007474595.2_mLynCan4.pri.v2 mammals 42100 GCF_008692025.1_mPhoSin1.pri mammals @@ -572,32 +578,34 @@ 286002 GCF_025201925.1_rGopFla2.mat.asm reptiles 202280 GCF_026419915.1_bHarHar1_primary_haplotype birds 27615 GCF_026419965.1_mKogBre1_haplotype_1 mammals 81927 GCF_026979565.1_bVidCha1_merged_haplotype birds 65483 GCF_027172205.1_rPodRaf1.pri reptiles 310915 GCF_027358585.1_fPanHyp1.pri fish 233779 GCF_027358695.1_aSpeBom1.2.pri amphibians 9470 GCF_027406575.1_mNycCou1.pri mammals 13676 GCF_027409825.1_fScoJap1.pri fish 2857394 GCF_027579445.1_bAmmNel1.pri birds 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 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 327740 GCF_029499605.1_aHylSar1.hap1 amphibians 2546036 GCF_029633865.1_fLamInc1.hap2 fish 460621 GCF_029931775.1_rEulEur1.hap1 reptiles 143292 GCF_030020395.1_mManPen7.hap1 mammals 575201 GCF_030028045.1_mHipAmp2.hap2 mammals 9978 GCF_030435755.1_mOchPri1.hap1 mammals 9666 GCF_030435805.1_mMusLut2.pri mammals 9361 GCF_030445035.1_mDasNov1.hap2 mammals 48891 GCF_030490865.1_bPoeAtr1.hap1 birds 3053191 GCF_030684315.1_sSteTig4.hap1 sharks 8496 GCF_030867095.1_rAllMis1 reptiles 8154 GCF_900246225.1_fAstCal1.2 fish 64144 GCF_900324465.2_fAnaTes1.2 fish 205130 GCF_900324485.2_fMasArm1.2 fish