923105258f47bd9b394d707c53e8626856403bfb hiram Mon Mar 13 16:39:26 2023 -0700 adding four to catch up RefSeq assemblies refs #29545 diff --git src/hg/makeDb/doc/fishAsmHub/fish.orderList.tsv src/hg/makeDb/doc/fishAsmHub/fish.orderList.tsv index 325c58e..0e84260 100644 --- src/hg/makeDb/doc/fishAsmHub/fish.orderList.tsv +++ src/hg/makeDb/doc/fishAsmHub/fish.orderList.tsv @@ -1,246 +1,248 @@ GCF_017589495.1_AALO_Geno_1.1 allis shad GCF_000485575.1_Poecilia_formosa-5.1.2 Amazon molly GCA_018492705.1_fAloSap1.alt American shad (fAloSap1 alternate hap 2021) GCF_018492685.1_fAloSap1.pri American shad (fAloSap1 primary hap 2021) GCF_001266775.1_Austrofundulus_limnaeus-1.0 annual killifish GCF_002910315.2_ASM291031v2 Arctic char GCA_946807865.1_fSilAri3.1_alternate_haplotype Aristotle's catfish (alternate hap 2022) GCA_946808225.1_fSilAri3.1 Aristotle's catfish (primary hap 2022) GCF_013103735.1_CSU_Ecrag_1.0 Arkansas darter GCF_900964775.1_fSclFor1.1 Asian bonytongue (2019) GCA_900964985.2_fSclFor1.1_alternate_haplotype Asian bonytongue (alternate hap) GCF_902167405.1_gadMor3.0 Atlantic cod (2019) GCA_902167395.1_gadMor3.0_alternate_haplotype Atlantic cod (alternate hap) GCF_009819705.1_fHipHip1.pri Atlantic halibut (2019 refseq) GCA_009819745.1_fHipHip1.alt Atlantic halibut (alternate hap 2019) GCF_900700415.2_Ch_v2.0.2 Atlantic herring (v2) GCA_905171655.2_fTraTra1.2_alternate_haplotype Atlantic horse mackerel (alternate hap 2021) GCA_905171665.2_fTraTra1.2 Atlantic horse mackerel (primary hap 2021) GCF_905237065.1_Ssal_v3.1 Atlantic salmon (refseq 2021) GCF_000233375.1_ICSASG_v2 Atlantic salmon (Sally 2015) GCF_013347765.1_ASM1334776v1 Atlantic turbot (AOZZmale01 2020) GCF_900080235.1_BallGen_V1 ballan wrasse GCA_017976295.1_fToxJac2.alt banded archerfish (fToxJac2 alternate hap 2021) GCF_017976425.1_fToxJac2.pri banded archerfish (fToxJac2 primary hap 2021) GCA_936446605.1_fBarBab1.1_alternate_haplotype barbel (alternate hap 2022) GCA_936440315.1_fBarBab1.1 barbel (primary hap 2022) GCF_001640805.2_TLL_Latcal_v3 barramundi perch (ASB-BC8 2022) GCF_000690725.1_Stegastes_partitus-1.0.2 bicolor damselfish GCF_000735185.1_NC01 black rockcod GCA_028021495.1_fLycPai1.hap1 blackbelly eelpout (fLycPai1 haplotype 1 2023) GCA_028022725.1_fLycPai1.hap2 blackbelly eelpout (fLycPai1 haplotype 2 2023) GCF_023375685.1_Billie_1.0 blue catfish (D&B 2022) GCF_005870065.1_ASM587006v1 blue tilapia (BGI-SZ) GCF_013358895.1_ZZ_aureus blue tilapia (Guangdong) GCA_900634775.2_fGouWil2.2 blunt-snouted clingfish (v2 2020 genbank) GCA_900650505.1_fGouWil2.1_alternate_haplotype blunt-snouted clingfish (alternate hap) GCA_017639755.1_fMelBoe1.alt Boeseman's rainbowfish (fMelBoe1 alternate hap 2021) GCF_017639745.1_fMelBoe1.pri Boeseman's rainbowfish (fMelBoe1 primary hap 2021) GCA_933228925.1_fTelBon1.1_alternate_haplotype bonti-bonti (fTelBon1 alternate hap 2022) GCA_933228915.1_fTelBon1.1 bonti-bonti (fTelBon1 primary hap 2022) GCF_009829125.1_fPerMag1.pri bony fishes GCF_011397635.1_E.fuscoguttatus.final_Chr_v1 brown-marbled grouper (2020) GCF_000239415.1_AstBur1.0 Burton's mouthbrooder (Broad 2011) GCF_018398535.1_NCSU_Asbu1 Burton's mouthbrooder (NCSU 2021) GCA_020382915.1_fScaArg1.alt butterfish (fScaArg1 alternate hap 2021) GCF_020382885.2_fScaArg1.pri butterfish (fScaArg1 primary hap 2021) GCF_001660625.3_Coco_2.0 channel catfish (USDA103 v2.0 2022) GCF_900634415.1_fCotGob3.1 channel bull blenny (2019 refseq) GCA_900634435.1_fCotGob3.1_alternate_haplotype channel bull blenny (alternate hap 2019) GCF_900408965.1_fSimDia1.1 chichlid (S. diagramma) GCF_014805685.1_ASM1480568v1 Chinese large-mouth catfish (SWU-2019-XX 2020) +GCF_019703515.2_UBuf_Myxa_2 Chinese sucker (Aquarium Trade MX2 2022) GCF_018296145.1_Otsh_v2.0 Chinook salmon (v2 Ot180627B 2021 male rfseq) GCF_002872995.1_Otsh_v1.0 Chinook salmon (v1 2018 female) GCA_027409835.1_fScoJap1.alt chub mackerel (fScoJap1 alternate hap 2022) GCF_027409825.1_fScoJap1.pri chub mackerel (fScoJap1 primary hap 2022) GCF_012931545.1_Oket_V1 chum salmon (Oke142-1_Chum_Gynogen 2020) GCF_023373465.1_Oket_V2 chum salmon (PuntledgeMale-10-30-2019 2022) GCA_900324465.3_fAnaTes1.3 climbing perch (v1.3 2021) GCA_900650485.1_fAnaTes1.2_alternate_haplotype climbing perch (alternate hap 2019) GCF_002776465.1_AmpOce1.0 clown anemonefish GCF_002021735.2_Okis_V2 coho salmon (150728-3 2019) GCF_018340385.1_ASM1834038v1 common carp SPL01 (2021) GCA_020510965.1_fPhoLeu1.alt convict blenny (fPhoLeu1 alternate hap 2021) GCA_020510985.1_fPhoLeu1.pri convict blenny (fPhoLeu1 primary hap 2021) GCA_017976315.1_fCheRos1.alt copperband butterflyfish (fCheRos1 alternate hap 2021) GCF_017976325.1_fCheRos1.pri copperband butterflyfish (fCheRos1 primary hap 2021) GCA_020745675.1_fTauAds1.alt.cur cunner (fTauAds1 alternate hap 2021) GCA_020745685.1_fTauAds1.pri.cur cunner (fRauAds1 primary hap 2021) GCF_021462225.1_DD_fGirMul_XY1 dark-edged splitfin GCF_021917145.1_fHypTra1 delta smelt GCA_900700375.2_fDenClu1.2 denticle herring (v2 2020) GCA_900700345.2_fDenClu1.1_alternate_haplotype denticle herring (alternate hap 2019) GCF_025434085.1_ASM2543408v3 dwarf seahorse (Florida 2022) GCA_900246225.5_fAstCal1.3 eastern happy (v3 2021) GCA_013347915.1_fEleEle1.alt electric eel (fEleEle1 alternate hap 2020) GCF_013358815.1_fEleEle1.pri electric eel (fEleEle1 primary hap 2020) GCF_003665695.1_Ee_SOAP_WITH_SSPACE electric eel (MRS-EE1 2018 U Wisconsin) GCF_023856365.1_BBRACH_0.4 elephant fish B.brachyistius (T26 2022) GCF_902827165.1_fTreBer1.1 emerald rockcod GCF_010015445.1_GENO_Pfluv_1.0 European perch GCA_947347695.1_fPlePla1.1_alternate_haplotype European plaice (alternate hap 2022) GCF_947347685.1_fPlePla1.1 European plaice (primary hap 2022) GCF_905237075.1_dlabrax2021 European seabass (2021) GCF_016745375.1_EPA_FHM_2.0 fathead minnow GCF_022458985.1_CIBA_Mcephalus_1.1 flathead mullet GCF_007364275.1_fArcCen1 flier cichlid (MPI-CPG 2019 refseq) GCA_007364235.1_fArcCen1_v1.h flier cichlid (alternate hap MPI-CPG 2019) GCA_014839645.1_fXenCan1.alt freshwater garfish (fXenCan1 alternate hap 2020) GCA_014839995.1_fXenCan1.pri freshwater garfish (fXenCan1 primary hap 2020) GCF_005281545.1_ASM528154v1 giant grouper GCA_900880675.2_fSpaAur1.2 gilthead seabream (v2 2021) GCA_900880695.1_fSpaAur1.1_alternate_haplotype gilthead seabream (alternate hap 2019) GCF_001515645.1_SAMN03320097.WGS_v1.1 golden-line barbel GCF_003368295.1_ASM336829v1 goldfish GCF_019924925.1_HZGC01 grass carp (HZGC_01 2021) GCF_000788275.1_BP.fa great blue-spotted mudskipper GCF_002260705.1_Sdu_1.0 greater amberjack GCF_901709675.1_fSynAcu1.2 greater pipefish (v1.2 2020) GCA_901709685.1_fSynAcu1.1_alternate_haplotype greater pipefish (alternate hap 2019) GCF_003331165.1_Xiphophorus_hellerii-4.1 green swordtail GCF_024217435.1_RoL_Ssco_1.1 Gulf pipefish (Florida 2022) GCF_000633615.1_Guppy_female_1.0_MT guppy GCA_015220095.1_fSebUmb1.alt honeycomb rockfish (fSebUmb1 alternate hap 2020) GCF_015220745.1_fSebUmb1.pri honeycomb rockfish (fSebUmb1 primary hap 2020) GCF_001515625.1_SAMN03320098_v1.1 horned golden-line barbel GCF_018320785.1_ASM1832078v1 humphead wrasse GCF_002922805.2_ASM292280v2 Indian medaka GCA_900634625.2_fParRan2.2 Indian glassy fish (v2 2020) GCA_900651595.1_fParRan2.1_alternate_haplotype Indian glassy fish (alternate hap 2019) GCF_013368585.1_fMegCyp1.pri Indo-Pacific tarpon (2020) GCF_001970005.1_Flounder_ref_guided_V1.0 Japanese flounder GCF_002234675.1_ASM223467v1 Japanese medaka GCF_902148845.1_fSalaFa1.1 jewelled blenny (2019) GCA_902148835.1_fSalaFa1.1_alternate_haplotype jewelled blenny (alternate hap 2019) GCF_006386435.1_YSFRI_EMoa_1.0 kelp grouper (mb 2019) GCF_016432855.1_SaNama_1.0 lake trout GCF_018398675.1_ASM1839867v1 lake whitefish (EN20210322 male 2021 Laval U) GCF_020615455.1_ASM2061545v1 lake whitefish (EN_2021a female 2021 Laval U) GCF_000972845.2_L_crocea_2.0 large yellow croaker GCF_014851395.1_ASM1485139v1 largemouth bass GCA_014839705.1_fAnaAna1.alt largescale foureyes (fAnaAna1 alternate hap 2020) GCA_014839685.1_fAnaAna1.pri largescale foureyes (fAnaAna1 primary hap 2020) GCF_008729295.1_YSFRI_Pleo_2.0 leopard coralgrouper GCA_027579805.1_fNeoGra1.alt lesser salmon catfish (fNeoGra1 alternate hap 2023) GCA_027579695.1_fNeoGra1.pri lesser salmon catfish (fNeoGra1 primary hap 2023) GCA_900963305.2_fEcheNa1.2 live sharksucker (v2 2021) GCA_900963505.1_fEcheNa1.1_alternate_haplotype live sharksucker (alternate hap 2019) GCA_910589325.1_fTauBub2.1_alternate_haplotype longspined bullhead (fTauBub2.1 alternate hap 2021) GCA_910589615.1_fTauBub2.1 longspined bullhead (fTauBub2.1 primary hap 2021) GCF_009769545.1_fCycLum1.pri lumpfish (2019 refseq) GCA_009769515.1_fCycLum1.alt lumpfish (alternate hap 2019) GCF_000239395.1_NeoBri1.0 lyretail cichlid GCF_020085105.1_ASM2008510v1 mandarin fish GCF_001649575.2_ASM164957v2 mangrove rivulus GCF_000372685.2_Astyanax_mexicanus-2.0 Mexican tetra (2017 WashU) GCA_019721115.1_AMEX_1.1 Mexican tetra (Pach_M1 Pachon cave 2021) GCF_023375975.1_AstMex3_surface Mexican tetra (ESR-SI-001 2022) GCF_902362185.1_fChaCha1.1 milkfish (2019) GCA_902362175.1_fChaCha1.1_alternate_haplotype milkfish (alternate hap 2019) GCF_001444195.1_X_couchianus-1.0 Monterrey platyfish GCA_009829125.1_fPerMag1.pri mudskipper P.magnuspinnatus (2020) GCA_009829135.1_fPerMag1.alt mudskipper P.magnuspinnatus (alternate hap 2020) GCF_000826765.1_Fundulus_heteroclitus-3.0.2 mummichog (Maine) GCF_011125445.2_MU-UCD_Fhet_4.1 mummichog (U. Missouri) GCA_009762535.1_fNotCel1.pri New Zealand spotty (2019) GCA_009762545.1_fNotCel1.alt New Zealand spotty (alternate hap 2019) GCF_001858045.2_O_niloticus_UMD_NMBU Nile tilapia GCF_902500615.1_NSP_V7 ninespine stickleback GCF_024256425.1_CGAR_prim_01v2 North African catfish (Netherlands MV-2021 2022) GCF_004634155.1_Eluc_v4 northern pike GCA_011004835.1_fEsoLuc1.alt northern pike (alternate hap 2020) GCF_011004845.1_fEsoLuc1.pri northern pike (2020 refseq) GCF_002872115.1_PKINGS_0.1 Old Calabar mormyrid GCF_008692095.1_UIUC_Espe_1.0 orangethroat darter GCF_902148855.1_fSphaOr1.1 orbiculate cardinalfish (2019) GCA_902148825.1_fSphaOr1.1_alternate_haplotype orbiculate cardinalfish (alternate hap 2019) GCF_000239375.1_PunNye1.0 P.nyererei 1_Seehausen GCF_013339905.1_IPHC_HiSten_1.0 Pacific halibut (PH-IPHC-18 2020) GCF_022539355.2_HSTE1.2 Pacific halibut (QCI-W04-F060 2022) GCA_027942865.1_fOdoBon6.hap1 pejerrey (fOdoBon6 haplotype 1 2023) GCA_027942885.1_fOdoBon6.hap2 pejerrey (fOdoBon6 haplotype 2 2023) GCA_017639685.1_fAplTae1.alt peladilla (fAplTae1 alternate hap 2021) GCA_017639675.1_fAplTae1.pri peladilla (fAplTae1 primary hap 2021) GCF_008315115.2_SLUC_FBN_1.2 pike-perch GCF_902150065.1_fMyrMur1.1 pinecone soldierfish (2019) GCA_902148815.1_fMyrMur1.1_alternate_haplotype pinecone soldierfish (alternate hap 2019) GCF_021184085.1_OgorEven_v1.0 pink salmon GCF_902827175.1_fGymAcu1.1 ploughfish GCF_902500255.1_fThaAma1.1 prehistoric monster fish (2019 refseq) GCA_902500245.1_fThaAma1.1_alternate_haplotype prehistoric monster fish (alternate hap 2019) GCF_002163495.1_Omyk_1.0 rainbow trout (Swanson) GCF_013265735.2_USDA_OmykA_1.1 rainbow trout (Arlee) GCA_014183145.1_ASM1418314v1 red drum (XU1910 2020) GCA_015220065.1_fPygNat1.alt red-bellied piranha (fPygNat1 alternate hap 2020) GCF_015220715.1_fPygNat1.pri red-bellied piranha (fPygNat1 primary hap 2020) GCF_001682695.1_Pygocentrus_nattereri-1.0.2 red-bellied piranha (Pna-1 2016) GCF_900747795.2_fErpCal1.3 reedfish (2021) GCA_900700845.2_fErpCal1.1_alternate_haplotype reedfish (alternate hap) GCF_014905685.2_NemWhi1 Rio pearlfish (Nwh7 v2 2021) GCA_901001165.2_fSalTru1.2 river trout (v2 2021) GCA_910591705.2_fPhoGun1.2_alternate_haplotype rock gunnel (alternate hap 2021) GCA_910591455.2_fPhoGun1.2 rock gunnel (primary hap 2021) GCF_022985175.1_IGBB_LRoh.1.0 rohu (BAU-BD-2019 2022) GCF_001443285.1_P_latipinna-1.0 sailfin molly GCF_019176455.1_IFAPA_SoseM_1 Senegalese sole GCF_000732505.1_C_variegatus-1.0 sheepshead minnow GCF_001443325.1_P_mexicana-1.0 shortfin molly GCF_900634795.3_fBetSpl5.3 Siamese fighting fish (v3 2020) GCA_900651605.1_fBetSpl5.1_alternate_haplotype Siamese fighting fish (alternate hap 2019) +GCF_023724105.1_carGib1.2-hapl.c silver crucian carp (wild population from Czech Republic Cgi1373 2022) GCF_021292245.1_ASM2129224v1 smallmouth bass GCF_006149115.2_Oner_1.1 sockeye salmon (On170113-E2 v2 2019) GCF_902827115.1_fPseGeo1.1 South Georgia icefish GCF_002775205.1_X_maculatus-5.0-male southern platyfish GCA_910596085.1_fThuMac1.1_alternate_haplotype southern bluefin tuna (alternate hap 2021) GCF_910596095.1_fThuMac1.1 southern bluefin tuna (primary hap 2021) GCF_001515605.1_SAMN03320099.WGS_v1.1 Southwestern China cavefish GCF_002109545.1_ASM210954v1 spiny chromis (Palm Islands 2017) GCF_021347895.1_KAUST_Apoly_ChrSc spiny chromis (Palm Island Apoly-LR-REF 2022) GCA_902713425.1_fAciRut3.1_maternal_haplotype sterlet (maternal 2020) GCA_902713435.1_fAciRut3.1_paternal_haplotype sterlet (paternal 2020) GCA_947034905.1_fBarBar1.1_alternate_haplotype stone loach (alternate hap 2022) GCA_947034865.1_fBarBar1.1 stone loach (primary hap 2022) GCA_027382375.1_fPanHyp1.alt striped catfish (fPanHyp1 alternate hap 2022) GCF_027358585.1_fPanHyp1.pri striped catfish (fPanHyp1 primary hap 2022) GCF_003671635.1_VN_pangasius striped catfish Vietnam GCF_004916995.1_NCSU_SB_2.0 striped sea-bass GCF_009078355.1_GENO_Phyp_1.0 striped catfish Indonesia GCF_018831695.1_ASM1883169v1 Sumatra barb GCF_001952655.1_M_albus_1.0 swamp eel GCF_016859285.1_ASM1685928v1 swordfish GCF_904425465.1_Colossoma_macropomum tambaqui GCF_016920845.1_GAculeatus_UGA_version5 three-spined stickleback GCF_001891065.2_H_comes_QL1_v1.1 tiger tail seahorse (QL1 v2 2016) GCF_000523025.1_Cse_v1.0 tongue sole GCF_901000725.2_fTakRub1.2 torafugu (fTakRub1.2 2019 refseq) GCA_901000725.3_fTakRub1.3 torafugu (fTakRub1.3 2021 genbank) GCA_901000745.3_fTakRub1.2_alternate_haplotype torafugu (alternate hap 2019) GCF_022379125.1_ASM2237912v1 turbot (ysfricsl-2021 2022) GCF_001465895.1_Nfu_20140520 turquoise killifish GCA_013347815.1_fAntMac1.alt warty frogfish (fAntMac1 alternate hap 2020) GCA_013358685.1_fAntMac1.pri warty frogfish (fAntMac1 primary hap 2020) GCF_019740435.1_SWU_Gaff_1.0 western mosquitofish GCF_016077235.1_ASM1607723v1 White Sands pupfish GCF_004355925.1_GSC_Weel_1.0 wolf-eel GCA_023055335.1_fCliAna1.0.p woolly sculpin (CAN_PGR_092001 2022) GCA_023055415.1_fCliAna1.0.a woolly sculpin (alternate hap CAN_PGR_092001 2022) GCF_018812025.1_ASM1881202v1 Wuchang bream GCF_022655615.1_HZAU_PFXX_2.0 yellow catfish (hzauxx_2018 2022) GCF_003724035.1_ASM372403v1 yellow catfish (Tf-2017 2018) GCF_004354835.1_PFLA_1.0 yellow perch (YP-PL-M2 2019) GCA_904848175.1_fAcaLat1.1_alternate_haplotype yellowfin seabream (v.2019 alternate hap 2020) GCF_904848185.1_fAcaLat1.1 yellowfin seabream (v.2019 primary hap 2020) GCA_914744365.1_fThuAlb1.1_alternate_haplotype yellowfin tuna (alternate hap 2021) GCF_914725855.1_fThuAlb1.1 yellowfin tuna (primary hap 2021) GCF_002814215.1_Sedor1 yellowtail amberjack GCF_009762535.1_fNotCel1.pri Zealand spotty GCF_000238955.4_M_zebra_UMD2a zebra mbuna GCA_018400075.1_ASM1840007v1 zebrafish (T5D 2021) GCA_903684865.1_fDreABH1.1 zebrafish (WGS:CAHPTA01 2020) GCA_903684855.2_fDreTuH1.2 zebrafish (WGS:CAHPTB02 2020) GCA_944039255.1_fDanRer4.1_alternate_haplotype zebrafish (fDanRer4 alternate hap 2022) GCA_944039275.1_fDanRer4.1 zebrafish (fDanRer4 primary hap 2022) GCF_000002035.6_GRCz11 zebrafish GRCz11 GCA_900700395.1_fMasArm1.2_alternate_haplotype zig-zag eel (alternate hap) GCF_900324485.2_fMasArm1.2 zig-zag eel (v1.2 2019 refseq) GCA_900324485.3_fMasArm1.3 zig-zag eel (v1.3 2021 genbank)