ed866720a585eac35edb86496962b06889122c9e hiram Sat Mar 25 17:14:01 2023 -0700 adding one per user request refs #29545 diff --git src/hg/makeDb/doc/birdsAsmHub/birds.orderList.tsv src/hg/makeDb/doc/birdsAsmHub/birds.orderList.tsv index 4944f7a..4603f33 100644 --- src/hg/makeDb/doc/birdsAsmHub/birds.orderList.tsv +++ src/hg/makeDb/doc/birdsAsmHub/birds.orderList.tsv @@ -1,239 +1,240 @@ GCA_009769605.1_bBucAby1.pri Abyssinian ground-hornbill (2019) GCA_009769595.1_bBucAby1.alt Abyssinian ground-hornbill (alternate hap 2019) GCF_000699105.1_ASM69910v1 Adelie penguin GCF_000698965.1_ASM69896v1 African ostrich GCF_000691975.1_ASM69197v1 American crow GCA_009819775.1_bPhoRub2.pri American flamingo (2019) GCA_009819805.1_bPhoRub2.alt American flamingo (alternate hap 2019) GCA_003957575.1_bCalAnn1_v1.h Anna's hummingbird (alternate hap BGI_N300 2018) GCF_003957555.1_bCalAnn1_v1.p Anna's hummingbird (BGI_N300 2019 refseq) GCF_000737465.1_Haliaeetus_leucocephalus-4.0 bald eagle GCF_000703405.1_ASM70340v1 bar-tailed trogon GCF_018691265.1_T.alba_DEE_v4.0 barn owl (U. Lausanne 2021) GCA_015227815.3_bHirRus1.alt.v3 Barn swallow (bHirRus1 v3 alternate hap 2021) GCA_015227805.3_bHirRus1.pri.v3 Barn swallow (bHirRus1 v3 primary hap 2021) GCF_005870125.1_lonStrDom2 Bengalese finch GCA_028500815.1_bRisTri1.patW.cur.20221130 black-legged kittiwake (bRisTri1.patW 2023) GCA_028501385.1_bRisTri1.mat.cur.20221130 black-legged kittiwake (bRisTri1.mat 2023) GCA_009819655.1_bSylAtr1.pri blackcap (2019) GCA_009819715.1_bSylAtr1.alt blackcap (alternate hap 2019) GCF_013377495.2_CAtr_DNAZoo_HiC_assembly black swan (v2 Queensland, Australia AKBS03 2022) GCA_019023105.1_LSU_DiBr_2.0 black-throated flowerpiercer GCF_002901205.1_cyaCae2 blue tit GCF_001604755.1_Lepidothrix_coronata-1.0 blue-crowned manakin GCA_017639355.1_Aaes_hic blue-fronted amazon (AMXYW 2021) GCA_001420675.1_ASM142067v1 blue-fronted amazon (FVVF132 2015) GCA_019593555.1_cma1 brown eared-pheasant GCF_012460135.1_BPBGC_Mater_1.0 brown headed cowbird GCF_001039765.1_AptMant0 brown kiwi GCF_000695765.1_ASM69576v1 brown roatelo GCF_000238935.1_Melopsittacus_undulatus_6.3 budgerigar (v6.3 2021 WashU) GCA_012275265.1_bMelUnd1.mat budgerigar (maternal 2020) GCF_012275295.1_bMelUnd1.mat.Z budgerigar (maternal Z 2020 refseq) GCA_012275275.1_bMelUnd1.pat budgerigar (paternal 2020) GCF_003259725.1_athCun1 burrowing owl GCF_018139145.2_ASM1813914v2 California condor (v2 813 2022 refseq) GCA_006130075.1_GSC_cangoose_1.0 Canada goose (SJ_97 2019) GCA_009819585.1_bMerNub1.alt carmine bee-eater alternate hap pseudohaplotype 2019) GCA_009819595.1_bMerNub1.pri carmine bee-eater (2019) GCF_000002315.6_GRCg6a chicken (GRCg6a 2018) GCA_027408205.1_bGalGal5.alt chicken (Cobb bGalGal5 alternate hap 2022) GCA_027408225.1_bGalGal5.pri chicken (Cobb bGalGal5 primary hap 2022) GCA_024206055.2_ASM2420605v2 chicken (Huxu 2023) GCA_027408255.1_bGalGal4.alt chicken (Ross bGalGal4 alternate hap 2022) GCA_027557775.1_bGalGal4.pri chicken (Ross bGalGal4 primary hap 2023) GCF_016700215.2_bGalGal1.pat.whiteleghornlayer.GRCg7w chicken white leghorn layer X broiler (leghorn haplotype v2 2021) GCF_016699485.2_bGalGal1.mat.broiler.GRCg7b chicken white leghorn layer X broiler (broiler haplotype 2021 v2 2021) GCF_003342845.1_notPer1 Chilean tinamou GCF_000747805.2_ChaPel_1.1 chimney swift (M959 v1.1 2014) GCF_000700745.2_ASM70074v2 chuck-will's-widow (BGI_N321 v2 2014) GCF_000247815.1_FicAlb1.5 collared flycatcher GCF_007115625.1_cibio_Scana_2019 common canary (domestic yellow sc_yellow_7_cibi 2019) GCF_022539315.1_serCan2020 common canary (serCan28SL12 2022) GCA_017976305.1_bCucCan1.alt common cuckoo (bCucCan1 alternate hap 2021) GCA_017976375.1_bCucCan1.pri common cuckoo (bCucCan1 primary hap 2021) GCA_027559525.1_bAcrTri1.alt common myna (bArcTri1 alternate hap 2023) GCA_027559615.1_bAcrTri1.pri common myna (bArcTri1 primary hap 2023) GCF_001447265.1_Sturnus_vulgaris-1.0 common starling GCA_020740585.1_bApuApu2.alt.cur common swift (bApuApu2 alternate hap 2021) GCF_020740795.1_bApuApu2.pri.cur common swift (bApuApu2 primary hap 2021 refseq) GCA_009819645.1_bSteHir1.alt common tern (alternate hap 2019) GCA_009819605.1_bSteHir1.pri common tern (2019) GCA_009764545.1_bGeoTri1.alt common yellowthroat (alternate hap 2019) GCA_009764595.1_bGeoTri1.pri common yellowthroat (2019) GCF_000708225.1_ASM70822v1 crested ibis GCF_000691785.1_ASM69178v1 cuckoo roller GCF_000687375.1_ASM68737v1 Dalmatian pelican GCA_014839825.1_bDryPub1.alt Downy woodpecker (bDryPub1 alternate hap 2020) GCA_014839835.1_bDryPub1.pri downy woodpecker (bDryPub1 primary hap 2020) GCF_000709895.1_ASM70989v1 East African grey crowned-crane GCA_011004865.1_bBalReg1.alt East African grey crowned-crane (alternate hap 2020) GCA_011004875.1_bBalReg1.pri East African grey crowned-crane (bBalReg1 2020) GCF_000699145.1_ASM69914v1 emperor penguin GCA_016128335.2_ZJU2.0 emu (v2 ZJU1.0 2023) GCF_003342905.1_droNov1 emu (2018) GCA_907165095.1_bCapEur3.1_alternate_haplotype Eurasian nightjar (alternate hap 2021) GCA_907165065.1_bCapEur3.1 Eurasian nightjar (primary hap 2021) GCF_014805655.1_ASM1480565v1 Eurasian tree sparrow GCA_017639475.1_bPluApr1.alt Eurpoean golden plover (bPluApr1 alternate hap 2021) GCA_017639485.1_bPluApr1.pri European golden plover (bPluApr1 primary hap 2021) GCA_903797565.2_bEriRub2.2_alternate_haplotype European robin (alternate hap 2021) GCA_903797595.2_bEriRub2.2 European robin (primary hap 2021) GCA_901699165.2_bStrTur1.2_alternate_haplotype European turtle dove (v1.2 alternate hap 2021) GCA_901699155.2_bStrTur1.2 European turtle dove (v1.2 2021) GCA_014839765.1_bSylBor1.alt garden warbler (bSylBor1 alternate hap 2020) GCA_014839755.1_bSylBor1.pri garden warbler (bSylBor1 primary hap 2020) GCF_001715985.3_ASM171598v3 golden-collared manakin GCA_902153765.2_bAquChr1.4_alternate_haplotype golden eagle (v1.4 alternate hap 2021) GCF_900496995.4_bAquChr1.4 golden eagle (v1.4 2021) GCA_003413605.1_Chrysolophus_pictus_GenomeV1.0 golden pheasant GCF_000708925.1_ASM70892v1 great cormorant GCA_013368595.1_bNycGra1.alt great potoo (bNycGra1 alternate hap 2020) GCA_013368605.1_bNycGra1.pri great potoo (bNycGra1 primary hap 2020) GCF_001522545.3_Parus_major1.1 great tit GCA_001870855.1_T_cupido_pinnatus_GPC_3440_v1 greater prairie chicken GCA_003343005.1_rheAme1 greater rhea GCF_019232065.1_USGS_Curo_1.0 greater sage-grouse GCA_016647715.1_ASM1664771v1 green peafowl GCA_009867235.1_ASM986723v1 grey parrot (MU2MI4XJKV 2020) GCA_015220155.1_bFalRus1.alt gyrfalcon (bFalRus1 alternate hap 2020) GCF_015220075.1_bFalRus1.pri gyrfalcon (bFalRus1 primary hap 2020) GCA_026419925.1_bHarHar1 Harpy eagle (bHarHar1 alternate hap 2022) GCF_026419915.1_bHarHar1_primary_haplotype Harpy eagle (bHarHar1 primary hap 2022) GCA_020740675.1_bCorHaw1.alt.cur Hawaiian crow (bCorHaw1 alternate hap 2021) GCF_020740725.1_bCorHaw1.pri.cur Hawaiian crow (bCorHaw1 primary hap 2021 refseq) GCF_002078875.1_NumMel1.0 helmeted guineafowl GCF_000692075.1_ASM69207v1 hoatzin GCF_000738735.5_ASM73873v5 hooded crow (2021) GCA_027406555.1_bHaeMex1.alt house finch (bHaeMex1 alternate hap 2022) GCA_027477595.1_bHaeMex1.pri house finch (bHaeMex1 primary hap 2022) GCA_027474345.1_bSphHub1.alt Humboldt's penguin (bSphHub1 alternate hap 2022) GCA_027474245.1_bSphHub1.pri Humboldt's penguin (bSphHub1 primary hap 2022) GCA_009936445.2_ASM993644v2 hyacinth macaw (LEKZKR9XQ3 2022) GCA_013407035.1_ASM1340703v1 jackdaw GCF_001577835.2_Coturnix_japonica_2.1 Japanese quail GCA_027595965.1_bRhyJub1.alt kagu (bRhyJub1 alternate hap 2023) GCA_027574665.1_bRhyJub1.pri kagu (bRhyJub1 primary hap 2023) GCA_004011185.1_bStrHab1_v1.h kakapo (Jane alternate hap 2019) GCF_004027225.2_bStrHab1.2.pri kakapo (Jane v2 2020 refseq) GCF_000696875.1_ASM69687v1 kea GCF_000708025.1_ASM70802v2 killdeer GCA_028017155.1_bGypBar2.alt lammergeier (bGypBar2 alternate hap 2023) GCA_028022735.1_bGypBar2.pri lammergeier (bGypBar2 primary hap 2023) GCF_009829145.1_bChiLan1.pri lance-tailed manakin (2020) GCA_009829205.1_bChiLan1.alt lance-tailed manakin (alternate hap 2020) GCA_023634305.1_bFalBia1.alt lanner falcon (bFalBia1 alternate hap 2022) GCA_023638135.1_bFalBia1.pri lanner falcon (bFalBia1 primary hap 2022) GCA_017639645.1_bFalNau1.mat lesser kestrel (alternate hap 2021) GCF_017639655.2_bFalNau1.pat lesser kestrel (v2 2021) GCF_026119805.1_pur_lepc_1.0 lesser prairie-chicken (F22 2022) GCA_028389885.1_bPtePen1.alt lesser rhea (bPtePen1 alternate hap 2023) GCA_028389875.1_bPtePen1.pri lesser rhea (bPtePen1 primary hap 2023) GCA_003342835.1_rhePen1 lesser rhea (206185 2018) GCF_000687185.1_ASM68718v1 little egret GCA_023637925.1_DD_ASM_B1a long-tailed hermit (PSU5 alternate hap 2022) GCA_023637945.1_DD_ASM_B1 long-tailed hermit (PSU5 primary hap 2022) GCF_000695195.1_ASM69519v1 Macqueen's bustard GCA_017639665.1_bCicMag1.alt maguari stork (bCicMag1 alternate hap 2021) GCA_017639555.1_bCicMag1.pri maguari stork (bCicMag1 primary hap 2021) GCA_008746955.1_CAU_Wild1.0 mallard CAU_Wild1.0 GCF_003850225.1_IASCAAS_PekingDuck_PBH1.5 mallard PBH1.5 GCF_015476345.1_ZJU1.0 mallard ZJU1.0 GCF_017639235.1_C.kubaryi_AGA036_p1.0 Mariana crow GCF_000277835.1_GeoFor_1.0 medium ground-finch GCA_017639245.1_MMon_1.0 monk parakeet GCA_009769485.2_bCygOlo1.alt.v2 mute swan (bCygOlo1 v2 alternate hap 2021) GCF_009769625.2_bCygOlo1.pri.v2 mute swan (bCygOlo1 v2 primary hap 2021) GCA_027579665.1_bAmmNel1.alt Nelson's sparrow (bAmmNel1 alternate hap 2023) GCA_027579445.1_bAmmNel1.pri Nelson's sparrow (bAmmNel1 primary hap 2023) GCF_009650955.1_bCorMon1.pri New Caledonian crow (2019) GCA_009651025.1_bCorMon1.alt New Caledonian crow (alternate hap 2019) GCA_008692595.2_Cv_LA_2.0 northern bobwhite GCF_000690835.1_ASM69083v1 northern fulmar GCA_929447715.1_bAccGen1.1_alternate_haplotype northern goshawk (bAccGen1 v1 alternate hap 2022) GCA_929443795.2_bAccGen1.2 northern goshawk (bAccGen1 primary hap v2 2022 genbank) GCF_929443795.1_bAccGen1.1 northern goshawk (bAccGen1 primary hap v1 2022 refseq) +GCA_014706295.1_ASM1470629v1 Obi paradise-crow (lycPyr6 2020) GCF_003343035.1_aptRow1 Okarito brown kiwi GCA_023634185.1_bFalPer1.alt peregrine falcon (bFalPer1 alternate hap 2022) GCA_023634155.1_bFalPer1.pri peregrine falcon (bFalPer1 primary hap 2022) GCF_000337955.1_F_peregrinus_v1.0 peregrine falcon (BGI 2013) GCA_020745805.1_bTheCae1.alt.cur plumbeous ibis (bTheCae1 alternate hap 2021) GCA_020745775.1_bTheCae1.pri.cur plumbeous ibis (bTheCae1 primary hap 2021) GCA_000332375.2_ASM33237v2 Puerto Rican parrot (LU 182127 2020) GCA_008658365.1_bAlcTor1_primary razorbill (2006_11_07_Graehlm_vinge_78 2019) GCA_008658355.1_bAlcTor1_alternate razorbill (alternate hap 2006_11_07_Graehlm_vinge_78 2019) GCA_009769465.1_bTauEry1.pri red-crested turaco (2019) GCA_009764505.1_bTauEry1.alt red-crested turaco (alternate hap 2019) GCA_015220175.1_bPogPus1.alt Red-fronted tinkerbird (bPogPus1 alternate hap 2020) GCA_015220805.1_bPogPus1.pri red-fronted tinkerbird (bPogPus1 primary hap 2020) GCA_019345075.1_ASM1934507v1 red-legged partridge GCA_009819825.1_bCarCri1.pri red-legged seriema (2019) GCA_009819485.1_bCarCri1.alt red-legged seriema (alternate hap 2019) GCF_000690875.1_ASM69087v1 red-throated loon GCF_000710305.1_ASM71030v1 rhinoceros hornbill GCA_016880875.1_bAcaChl1.alt rifleman (bAcaChl1 alternate hap 2021) GCA_016904835.1_bAcaChl1.pri rifleman (bAcaChl1 primary hap 2021) GCF_004143745.1_ASM414374v1 ring-necked pheasant GCF_000337935.1_Cliv_1.0 rock pigeon (Danish tumbler 2013 BGI) GCA_023344045.1_bLagMut1_alternate rock ptarmigan (bLagMut1 alternate hap 2022) GCF_023343835.1_bLagMut1_primary rock ptarmigan (bLagMut1 primary hap 2022) GCF_011077185.1_BPBGC_Ojam_1.0 ruddy duck GCF_001431845.1_ASM143184v1 ruff GCF_017590135.1_ASM1759013v1 rufous-necked snowfinch GCF_022539395.1_myiCay2020 rusty-margined flycatcher (MyiCay16 2022) GCF_003984885.1_ASM398488v2 saffron-crested tyrant-manakin GCA_023634115.1_bFalChe1.alt Saker falcon (bFalChe1 alternate hap 2022) GCA_023634085.1_bFalChe1.pri Saker falcon (bFalChe1 primary hap 2022) GCF_000337975.1_F_cherrug_v1.0 Saker falcon (BGI 2013) GCA_027887135.1_bAmmCau1.alt saltmarsh sparrow (bAmmCau1 alternate hap 2023) GCA_027887145.1_bAmmCau1.pri saltmarsh sparrow (bAmmCau1 primary hap 2023) GCF_901933205.1_STF_HiC small tree finch (2019) GCA_902806625.1_Camarhynchus_parvulus_V1.1 small tree finch (2020) GCA_020801775.1_bPorHoc1.pat.decon South Island takahe (alternate 2021) GCA_020800305.1_bPorHoc1.mat.Z.cur South Island takahe (primary 2021) GCF_000690715.1_ASM69071v1 speckled mousebird GCA_026979555.1_bVidCha1_purged_dups_haplotype steelblue widowfinch (purged dups hap OUT-0048 2022) GCA_026979565.1_bVidCha1_merged_haplotype steelblue widowfinch (merged hap OUT-0048 2022) GCA_902168055.1_ARATINGA-SOLSTITIALIS-ASSEMBLY-PRJEB33153 sun parakeet (2019) GCF_000690775.1_ASM69077v1 sunbittern GCA_020746095.1_bTroSur1.alt.cur Suruca trogon (bTroSur1 alternate hap 2021) GCA_020746105.1_bTroSur1.pri.cur Suruca trogon (bRtoSur1 primary hap 2021) GCA_009819505.2_bCatUst1.alt.v2 Swainson's thrush (bCatUst1 v2 alternate hap 2020) GCF_009819885.2_bCatUst1.pri.v2 Swainson's thrush (bCatUst1 v2 primary hap 2020) GCA_028019105.1_bMelGeo1.alt swamp sparrow (bMelGeo1 alternate hap 2023) GCA_028018845.1_bMelGeo1.pri swamp sparrow (bMelGeo1 primary hap 2023) GCF_002166845.1_GooseV1.0 swan goose (Sichuan white goose 2017) GCA_013030995.1_ASM1303099v1 swan goose (Tianfu 2020) GCF_000971095.1_AnsCyg_PRJNA183603_v1.0 swan goose (Zhedong 2015) GCA_028020675.1_bPodStr1.alt tawny frogmouth (bPodStr1 alternate hap 2023) GCA_028020825.1_bPodStr1.pri tawny frogmouth (bPodStr1 primary hap 2023) GCF_000331425.1_PseHum1.0 Tibetan ground-tit GCA_009819845.1_bAytFul2.alt tufted duck (alternate hap 2019) GCF_009819795.1_bAytFul2.pri tufted duck (2019) GCF_000146605.3_Turkey_5.1 turkey (Aviagen NT-WF06-2002-E0010 2014) GCA_905368555.1_MGAL_WU_HG_1.0 turkey (WU_HG_1 2021) GCA_020745695.1_bHemCom1.alt.cur whiskered treeswift (bHemCom1 alternate hap 2021) GCA_020745705.1_bHemCom1.pri.cur whiskered treeswift (bHemCor1 primary hap 2021) GCF_015832195.1_Motacilla_alba_V1.0_pri white wagtail GCF_025592945.1_ASM2559294v1 white-collared manakin (Guabito, Panama 608988 2022) GCF_003945725.1_ASM394572v1 white-ruffed manakin GCF_017590055.1_ASM1759005v1 white-rumped snowfinch GCF_000691405.1_ASM69140v1 white-tailed eagle (BGI_N329 2014) GCA_947461875.1_bHalAlb1.1 white-tailed eagle (bHalAlb1.1 2022) GCA_947461935.1_bHalAlb1.1_alternate_haplotype white-tailed eagle (bHalAlb1.1 alternate hap 2022) GCF_019238085.1_USGS_WTPT01 white-tailed ptarmigan GCF_000687285.1_ASM68728v1 white-tailed tropicbird GCF_000385455.1_Zonotrichia_albicollis-1.0.1 white-throated sparrow GCF_000705375.1_ASM70537v2 white-throated tinamou GCF_003031625.1_ASM303162v1 willow flycatcher GCF_003945595.2_ASM394559v2 wire-tailed manakin (2020) GCA_009769525.1_bPteGut1.pri yellow-throated sandgrouse (2019) GCA_009769505.1_bPteGut1.alt yellow-throated sandgrouse (alternate hap 2019) GCA_003957525.2_bTaeGut1.4.alt zebra finch (Black17 v1.4 alternate hap 2021) GCF_003957565.2_bTaeGut1.4.pri zebra finch (Blue55 v1.4 primary hap 2021) GCA_009859065.2_bTaeGut2.pri.v2 zebra finch (Blue55 2020) GCA_003957525.1_bTaeGut1_v1.h zebra finch (alternate hap Black17 2018) GCA_009859025.1_bTaeGut2.p.v1.alt zebra finch (alternate hap Blue55 v1 2020) GCA_008822115.3_bTaeGut2.mat.v3 zebra finch (Blue55 maternal v3 2020) GCA_008822125.1_bTaeGut2pat zebra finch (Blue55 paternal 2019) GCF_008822105.2_bTaeGut2.pat.W.v2 zebra finch (Blue55 paternal W 2020)