Variants: distribution of case data, 13 June 2022
Updated 24 June 2022
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Changes to variant classification system
The UK Health Security Agency (UKHSA) amended its variant classification system to give a clearer indication of which variants have significant changes in biological properties compared to the current dominant variant(s).
In the new system, the variant of concern (VOC) label will be assigned to variants which are currently emerging or circulating, and for which we have confirmed or can predict:
-
a detrimental change in biological properties (changes in transmissibility, severity or immune evasion) compared to the current dominant variant(s); and
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a growth rate potentially compatible with maintaining transmission and/or displacing the current dominant variant.
There is no other categorisation of variants, including no variant under investigation (VUI) category. UKHSA will continue to designate new variants based on genomic features and growth, and these will receive a variant number (V-date-number).
Previous variants of concern which no longer meet the criteria above have been redesignated. These changes took effect as of 1 April 2022.
As of 20 May Omicron BA.4 and Omicron BA.5 have been designated variants of concern (VOCs) in the UK.
Surveillance overview
From 31 January 2022, the UKHSA has reported episodes of infection in its coronavirus (COVID-19) surveillance. Previous surveillance of COVID-19 in England was based on positive samples from the same person grouped together, so that the person is only counted once and reported using the date of the first positive result.
The ‘episode’ definition introduced groups positive results up to and including 90 days apart into episodes. Positive test results which are more than 90 days apart will be classed as separate episodes.
The UKHSA methodology for reporting of COVID-19 cases varies between England and the devolved authorities. England and Scotland report 90-day infection episodes. Wales reports 42-day infection episodes. Northern Ireland reports data at individual level (only one infection episode is reported per person) but is working towards reporting 90-day infection episodes.
Information pertaining to V-21MAR-01, B1.324.1 with E484K has been removed as this variant has been reclassified as provisionally extinct. Variants V-21FEB-01 (A.23.1 with E484K), and V-21FEB-02 (Alpha with E484K) are provisionally extinct (not detected for 12 weeks in the UK or in GISAID) therefore are no longer being included in the publication since 12 November 2021. Variant V-21MAY-01, AV.1 has been removed as of 3 December 2021 as it has been classified as provisionally extinct. Variant V-21JUL-01 (Mu) has been removed as of 17 February 2022 as it has been classified as provisionally extinct.
UK total distribution for variants with new reports in the last 90 days
| Variant* | Other names by which this variant may be known* | Lineage | Total confirmed (sequencing) and probable (genotyping) cases**^ | New cases since last update (data up to 1 June) |
|---|---|---|---|---|
| VOC-21NOV-01 | Omicron | BA.1 (B.1.1.529.1) | 2,135,001 | -338 |
| VOC-22JAN-01 | Omicron | BA.2 (B.1.1.529.2) | 475,420 | 2,548 |
| V-22APR-02 | Omicron | XE | 2,054 | 18 |
| VOC-22APR-03 | Omicron | BA.4 (B.1.1.529.4) | 637 | 162 |
| VOC-22APR-04 | Omicron | BA.5 (B.1.1.529.5) | 716 | 287 |
*Numbers based on UKHSA definitions, so these have replaced WHO naming in the variant column.
**Cumulative numbers may be revised up or down as a result of reclassification of results, re-infections and changes to diagnostic tests, new variants or public health management levels.
^Confirmed individuals are confirmed COVID-19 cases with a validated sequencing result meeting the confirmed case definitions outlined in the sections below. Probable individuals are confirmed COVID-19 cases with a genotyping result where sequencing confirmation is awaited or not available. Published figures include genotyping assay data for England, using a combination of highly specific mutations as an indicator of a probable variant. Genotyping assay data is currently only available for Alpha, Beta, Delta, Gamma, Mu and Omicron. Since mid-December genotyping has only been able to detect Omicron BA1 only with all other variants being labelled as undetermined.
UK total distribution for variants detected in the UK with no or low$ activity in the last 90 days
| Variant* | Other names by which this variant may be known* | Lineage | Total confirmed (sequencing) and probable (genotyping) cases**^ | Last reported specimen date$ |
|---|---|---|---|---|
| V-20DEC-01 | Alpha | B.1.1.7 | 281,104 | 28 April 2022 |
| V-20DEC-02$ | Beta | B.1.351 | 1,061$ | 12 November 2021 |
| V-21JAN-02 | Gamma | P.1 | 294 | 17 March 2022 |
| V-21APR-02+*** | Delta | B.1.617.2 AY.1 AY.2 | 1,732,374+ | 6 May 2022 |
| V-21OCT-01*** | V-21OCT-01 | A.Y 4.2 | 123,517 | 13 March 2022 |
| V-21JAN-01 | Zeta | P.2 | 50 | 14 April 2021 |
| V-21APR-01 | Kappa | B.1.617.1 | 464 | 14 September 2021 |
| V-21MAY-02 | V-21MAY-02 | C.36.3 | 136 | 26 June 2021 |
| V-21JUN-01 | Lambda | C.37 | 8 | 18 June 2021 |
| V-22APR-01 | V-22APR-01 | XD | 0 |
*Numbers based on UKHSA definitions, so these have replaced WHO naming in the variant column.
**Cumulative numbers may be revised up or down as a result of reclassification of results, re-infections and changes to diagnostic tests, new variants or public health management levels.
^Confirmed individuals are confirmed COVID-19 cases with a validated sequencing result meeting the confirmed case definitions outlined in the sections below. Probable individuals are confirmed COVID-19 cases with a genotyping result where sequencing confirmation is awaited or not available. Published figures include genotyping assay data for England, using a combination of highly specific mutations as an indicator of a probable variant. Genotyping assay data is currently only available for Alpha, Beta, Delta, Gamma, Mu and Omicron. Since mid-December genotyping has only been able to detect Omicron BA1 only with all other variants being labelled as undetermined.
$Fewer than 10 reports in any week during the last 90 days.
+Of which 790 had the K417N mutation.
***Confirmed V-21APR-02 with at least 2 V-21OCT-01 lineage defining positions called as alternate (variant) base and all other defining positions reported as N (unknown) or mixed bases.
Note on Omicron (VOC-21NOV-01)
As genotyping assays cannot distinguish between BA.1 and BA.2 genomes, Omicron (VOC-21NOV-01) includes cases of BA.1 and BA.2 genomes where those genomes were identified by genotyping only and not confirmed by genome sequencing.
Alpha
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 230,187 |
| Northern Ireland | 9,365 |
| Scotland | 29,108 |
| Wales | 12,444 |
| Total cases | 281,104 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 5 V-20DEC-01 lineage defining positions are called as alternate (variant) base and all other defining positions reported as N (unknown) or mixed bases. |
| Probable (genotyping) | COVID-19* confirmed case with a genotyping result where sequencing confirmation is awaited or not available |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
Beta
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 945 |
| Northern Ireland | 9 |
| Scotland | 64 |
| Wales | 43 |
| Total cases | 1,061 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case where: • at least 4 V-20DEC-02 lineage defining positions are called as alternate (variant) base, and • all other defining positions reported as N (unknown) or mixed bases or • at least 5 of the 9 non-synonymous changes. |
| Probable (genotyping) | COVID-19* confirmed case with a genotyping result where sequencing confirmation is awaited or not available |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
Gamma
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 269 |
| Northern Ireland | 0 |
| Scotland | 23 |
| Wales | 2 |
| Total cases | 294 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with: • at least 5 lineage defining non-synonymous changes called as alternate base, and • all other positions either N or mixed bases |
| Probable (genotyping) | COVID-19* confirmed case with a genotyping result where sequencing confirmation is awaited or not available |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
Delta
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 1,413,852 |
| Northern Ireland | 93,796 |
| Scotland | 133,581 |
| Wales | 91,145 |
| Total cases | 1,732,374 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 4 variant defining changes called as alternate base. |
| Probable (genotyping) | COVID-19* confirmed case with a genotyping result where sequencing confirmation is awaited or not available |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
V-21OCT-01
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 94,024 |
| Northern Ireland | 754 |
| Scotland | 13,699 |
| Wales | 15,040 |
| Total cases | 123,517 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case that are confirmed VOC-21APR-02 with at least 2 V-21OCT-01 lineage defining positions called as alternate (variant) base and all other defining positions reported as N (unknown) or mixed bases. |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
VOC-21NOV-01 (Omicron sub-lineage BA.1)
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 1,724,987 |
| Northern Ireland | 106,557 |
| Scotland | 246,343 |
| Wales | 57,114 |
| Total cases | 2,135,001 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 10 lineage defining non-synonymous changes called as alternate base and no more than 7 defining positions called as wild-type |
| Probable (genotyping) | COVID-19* confirmed case with a genotyping result where sequencing confirmation is awaited or not available |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
Zeta
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 44 |
| Northern Ireland | 0 |
| Scotland | 5 |
| Wales | 1 |
| Total cases | 50 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* case confirmed as infected with V-21JAN-01 through whole genome sequencing (WGS) where: • results of all lineage defining non-synonymous changes called as alternate base or • 6 of 7 non-synonymous changes called as alternate base, and • remaining position either N or mixed bases |
| Probable (genotyping) | COVID-19* confirmed case with a genotyping result where sequencing confirmation is awaited or not available |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
Kappa
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 417 |
| Northern Ireland | 5 |
| Scotland | 27 |
| Wales | 15 |
| Total cases | 464 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 6 variant defining changes called as alternate base and all other positions either N or mixed base. |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
V-21MAY-02
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 125 |
| Northern Ireland | 3 |
| Scotland | 4 |
| Wales | 4 |
| Total cases | 136 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 5 variant defining changes called as alternate base, and • all other positions either N or mixed base. |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
Lambda
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 8 |
| Northern Ireland | 0 |
| Scotland | 0 |
| Wales | 0 |
| Total cases | 8 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 5 V-21JUN-01 lineage defining positions are called as alternate (variant) base and all other defining positions reported as N (unknown) or mixed bases |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
VOC-22JAN-01 (Omicron sub-lineage BA.2)
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 338,867 |
| Northern Ireland | 11,083 |
| Scotland | 96,824 |
| Wales | 28,646 |
| Total cases | 475,420 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 10 lineage defining non-synonymous changes called as alternate base and no more than 3 defining positions called as wild-type |
| Probable (genotyping) | COVID-19* confirmed case with a confirmed sequencing result. |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
VOC-22APR-03 (Omicron sub-lineage BA.4)
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 532 |
| Northern Ireland | 4 |
| Scotland | 83 |
| Wales | 18 |
| Total cases | 637 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 3 lineage defining mutations called as alternate base and no defining positions called as wild-type |
| Probable (genotyping) | COVID-19* confirmed case with a confirmed sequencing result. |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).
VOC-22APR-04 (Omicron sub-lineage BA.5)
Surveillance overview
| Total confirmed and probable cases | |
|---|---|
| England | 566 |
| Northern Ireland | 8 |
| Scotland | 117 |
| Wales | 25 |
| Total cases | 716 |
Case definitions
| Genomic match | Criteria |
|---|---|
| Confirmed (sequencing) | COVID-19* confirmed case with at least 3 lineage defining mutations called as alternate base and no defining positions called as wild-type |
| Probable (genotyping) | COVID-19* confirmed case with a confirmed sequencing result. |
*A confirmed COVID-19 case: a case where the individual is confirmed to be infected with SARS-CoV-2 by polymerase chain reaction (PCR).