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Effective URL: https://outbreak.info/situation-reports?pango=BA.2&loc=ZAF&loc=GBR&loc=USA&selected=Worldwide&overlay=false
Submission: On January 28 via api from US — Scanned from DE
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We're sorry but outbreak.info doesn't work properly without JavaScript enabled. Please enable it to continue. outbreak.info * Cases & Deaths Compare locations over time Explore interactive mapsFind similar locationsExplore regionsView doubling ratesAccess data tables * Variants Lineage | Mutation Tracker Location Tracker Lineage Comparison Intrepreting Reports * Research Library Find research Download metadata View & adapt schema * API * About AboutData sourcesBlogFAQLatest changesHow to citeVideo demosIn the media SELECT REPORT LOCATIONS × CURRENT LOCATIONS South Africa United Kingdom United States Clear additionsSave changes CHANGE SELECTED LOCATION × CURRENT LOCATIONS Worldwide South Africa United Kingdom United States GENERATE CUSTOM MUTATION REPORT × 1 Choose variant type PANGO lineage PANGO lineage + mutation(s) Mutation(s) Clear selectionGo Close back add locations copied to clipboard LINEAGE | MUTATION TRACKER BA.2 LINEAGE REPORT change mutation(s) view on PANGO lineages Updated 1d ago with 18,751 sequences from GISAID Enabled by data from How to interpret these reports Daily prevalenceGeographic prevalencePublications CHARACTERISTIC MUTATIONS IN LINEAGE Mutations in at least 75% of BA.2 sequences (read more) Compare to other lineagesView S-gene mutations ORF1aORF1bS61L24S203K1315C614G3395H679K681H223I969K655Y954H314L9I1307S3255I796Y1566V842I135R63T3027F3090I204R413R19I13L3201F84L213G764K2163I373P405N339D375F371F376A408S417N493R501Y498R505H484A478K477N142D440K19EΔ31:33Δ25:27Δ3675:3677 MUTATIONS none DELETIONS none ViewHide mutation table copying figure to the clipboard CHARACTERISTIC MUTATIONS OF BA.2 gene amino acid ORF1a S135R ORF1a T842I ORF1a G1307S ORF1a L3027F ORF1a T3090I ORF1a L3201F ORF1a T3255I ORF1a P3395H ORF1a del3675/3677 ORF1b P314L ORF1b R1315C ORF1b I1566V ORF1b T2163I S T19I S L24S S del25/27 S G142D S V213G S G339D S S371F S S373P S S375F S T376A S D405N S R408S S K417N S N440K S S477N S T478K S E484A S Q493R S Q498R S N501Y S Y505H S D614G S H655Y S N679K S P681H S N764K S D796Y S Q954H S N969K ORF3a T223I E T9I M Q19E M A63T ORF6 D61L ORF8 S84L N P13L N del31/33 N R203K N G204R N S413R SUMMARY As of 27 January 2022 11:02 PM, 18,751 sequences in the BA.2 lineage have been detected since the lineage was identified: location BA.2 found when found** total cumulative prevalence* first last South Africa 120 3% 17 Nov 2021 18 Jan 2022 United Kingdom 1,371 < 0.5% 6 Dec 2021 20 Jan 2022 Worldwide 18,751 < 0.5% 4 Jan 2021 24 Jan 2022 United States 127 < 0.5% 14 Dec 2021 18 Jan 2022 view change over timechange locations * Apparent cumulative prevalence is the ratio of the sequences containing BA.2 to all sequences collected since the identification of BA.2 in that location.** Dates are based on the sample collection date Read about biases The strain has been detected in at least 54 countries and 24 U.S. states. view geographic prevalence AVERAGE DAILY BA.2 PREVALENCE GLOBALLY Based on reported sample collection date WorldwideSouth AfricaUnited KingdomUnited StatesChange locations 7 day rolling average of percent of BA.2-positive sequences 95% confidence intervalmissing recent data AprilJulyOctober20220%5%10%15%20%25%30%35%Latest dates are noisy due to fewer samples, or missing from sequencing delays 2022045,517045,517 Total samples sequenced per dayBA.2 detected copying figure to the clipboard CUMULATIVE BA.2 PREVALENCE WorldwideSouth AfricaUnited KingdomUnited StatesChange locations Estimates are biased by sampling (read more) Est. BA.2 prevalence since identification 0-11-55-1010-2020-3535-5050-7575-100% sequenced < 25 samples not detectedno sequencing minimum number of total samples252,379,170 No reported sequencing copying figure to the clipboard show not detected sort by prevalencetotal sequencedname CUMULATIVE PREVALENCE Est. BA.2 prevalence since identification 0-11-55-1010-2020-3535-5050-7575-100% 95% confidence interval 0%1%2%3%4%5%0%1%2%3%4%5%DenmarkNepalSingaporeMyanmarGeorgiaBotswanaIndiaSri LankaMoldovaQatarMaldivesHong KongSouth AfricaNew ZealandIndonesiaArmeniaCambodiaPakistanSwedenJordanAustriaPhilippinesBangladeshMalawiMalaysiaThailandVietnamChinaUnited KingdomBelgiumGermanyNorwayPortugalIsraelPolandJapanAustraliaNetherlandsSenegalSlovakiaKenyaSwitzerlandCzech RepublicSpainItalyRomaniaFranceCanadaLuxembourgSouth KoreaUnited StatesLithuaniaIrelandBrazil NUMBER OF SAMPLES SEQUENCED BA.2-positive samples all sequenced samples 1100k1100kDenmarkNepalSingaporeMyanmarGeorgiaBotswanaIndiaSri LankaMoldovaQatarMaldivesHong KongSouth AfricaNew ZealandIndonesiaArmeniaCambodiaPakistanSwedenJordanAustriaPhilippinesBangladeshMalawiMalaysiaThailandVietnamChinaUnited KingdomBelgiumGermanyNorwayPortugalIsraelPolandJapanAustraliaNetherlandsSenegalSlovakiaKenyaSwitzerlandCzech RepublicSpainItalyRomaniaFranceCanadaLuxembourgSouth KoreaUnited StatesLithuaniaIrelandBrazil14,371/321,34943/1,010233/12,4392/11420/1,16244/2,7451,249/100,65234/2,7402/19239/4,3695/1,00422/4,860120/27,07627/6,14454/13,9551/3046/2,2163/1,620247/142,1572/1,25125/15,76320/12,6406/4,2121/9499/8,60613/12,8172/2,4181/1,2311,371/1,795,10061/81,800269/364,12827/41,79515/26,10622/40,29323/48,92979/187,10522/58,96231/92,2141/3,1805/18,6541/5,73219/113,8314/25,52011/96,30010/91,8411/9,49520/194,11224/259,1832/22,1542/23,581127/2,379,1701/30,2251/50,3731/98,399 No reported sequencing copying figure to the clipboard BA.2 PUBLICATIONS & RESOURCES 3 results 10 results 50 results 100 results Publication The Geometry of ATG-Walks of the Omicron SARS CoV-2 Virus RNAs Guennadi Kouzaev bioRxiv22 December 2021 Publication Investigation of the N-shaped environmental Kuznets curve for COVID-19 mitigation in the KSA. Abdussalam Aljadani et al.Environmental science and pollution research international13 August 2021 Publication Aurintricarboxylic acid and its metal ion complexes in comparative virtual screening versus Lopinavir and Hydroxychloroquine in fighting COVID-19 pandemic: Synthesis and characterization. Moamen S Refat et al.Inorganic chemistry communications14 January 2021 viewing results 1 − 3 of 3view all METHODOLOGY All SARS-CoV sequences are downloaded from the GISAID Initiative daily and subsequently processed using Bjorn, which relies heavily on minimap2 and datafunk. View full methods SARS-CoV-2 (hCoV-19) sequencing is not a random sample of mutations. As a result, this report does not indicate the true prevalence of the undefined but rather our best estimate now. How to interpret this report CITING THIS REPORT BA.2 Lineage Report. Alaa Abdel Latif, Julia L. Mullen, Manar Alkuzweny, Ginger Tsueng, Marco Cano, Emily Haag, Jerry Zhou, Mark Zeller, Emory Hufbauer, Nate Matteson, Chunlei Wu, Kristian G. Andersen, Andrew I. Su, Karthik Gangavarapu, Laura D. Hughes, and the Center for Viral Systems Biology. outbreak.info, (available at https://outbreak.info/situation-reports?pango=BA.2&loc=ZAF&loc=GBR&loc=USA&selected=Worldwide&overlay=false). Accessed 28 January 2022. copied to clipboard We would like to thank the GISAID Initiative and are grateful to all of the data contributors, i.e.the Authors, the Originating laboratories responsible for obtaining the specimens, and the Submitting laboratories for generating the genetic sequence and metadata and sharing via the GISAID Initiative, on which this research is based. GISAID data provided on this website are subject to GISAID’s Terms and Conditions. Elbe, S., and Buckland-Merrett, G. (2017) Data, disease and diplomacy: GISAID’s innovative contribution to global health. Global Challenges, 1:33-46. DOI: 10.1002/gch2.1018 PMCID: 31565258 This work was supported by the National Institute for Allergy and Infectious Diseases (5 U19 AI135995-04S3), National Center for Data to Health (5 U24 TR00230), and Centers for Disease Control and Prevention (75D30120C09795). COVID-19 Cases & Deaths * Compare locations over time * Explore interactive maps * Find similar locations * Explore regions * View doubling rates * Access data tables Variants * Lineage | Mutation Tracker * Location Tracker * Lineage Comparison * Interpreting Reports Research Library * Find research * Download metadata * View & adapt schema About * About us * Data sources * Blog * FAQ * Latest changes * How to cite * Video demos * In the media Contact us * help@outbreak.info * Submit an issue on Github Receive email updates Supported with funding from * How to Cite * Privacy Policy * Terms * All content copyright SuLab © 2022 * All rights reserved