Continued thread
Updated #CDC estimates show we'd pretty much been in a JN.1.11 soup since Dec, until late March, when LP.8.1 took majority.
Data collection continues to be a low priority nationally, as exactly zero regions have enough data for CDC to plot.
Two children of LF.7.7, dot1 and dot2, broken out by CDC, together with PA.1, a grandchild of MC.10.
Raj's dashboard was last updated a week ago today.
❖ #ThisIsOurPolio #Covid #Covid19 #SARS2 #variants #CovidIsNotOver #CovidIsAirborne #dataviz #datavis
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through April 13–26. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. LP.8.1 accounts for over two thirds; JN.1 + FLiRT for near a quarter.
For fortnight of 3/30–4/12, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
69% - LP.8.1.1 / NY† & other LP.8.1
JN.1 + FLiRT-KS [browns]:
1% - XEC.4
¾% - XEQ
10% - other XEC
JN.1 + FLiRT [reds]:
6% - LF.7.7.2
4% - LF.7.7.1, LF.7 & LF.7.2.1 / PC
2% - LB.1.3.1 / NL
JN.1.11 [greens]:
3% - MC.10.1, MC.28.1 & MC.19
2% - PA.1
½% - KP.3
2% - MC.1 & other KP.3.1.1 / MC
XEK [blue]:
⅜% - XEK
Other [greys]:
⅙% - JN.1.16
⅒% - NB.1† & other WHO-Vaccine-Target JN.1
¼% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/114/410/379/035/209/452/original/9439ad7e47d8ab14.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through April 13–26. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. LP.8.1 accounts for over two thirds; JN.1 + FLiRT for near a quarter.
For fortnight of 3/30–4/12, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
69% - LP.8.1.1 / NY† & other LP.8.1
JN.1 + FLiRT-KS [browns]:
1% - XEC.4
¾% - XEQ
10% - other XEC
JN.1 + FLiRT [reds]:
6% - LF.7.7.2
4% - LF.7.7.1, LF.7 & LF.7.2.1 / PC
2% - LB.1.3.1 / NL
JN.1.11 [greens]:
3% - MC.10.1, MC.28.1 & MC.19
2% - PA.1
½% - KP.3
2% - MC.1 & other KP.3.1.1 / MC
XEK [blue]:
⅜% - XEK
Other [greys]:
⅙% - JN.1.16
⅒% - NB.1† & other WHO-Vaccine-Target JN.1
¼% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.")
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through Mar 30–Apr 12. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. LP.8.1 accounts for over three fifths; JN.1 + FLiRT for near a quarter.
For fortnight of 3/16–3/29, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
64% - LP.8.1.1 / NY† & other LP.8.1
XEC [browns]:
2% - XEC.4
15% - other XEC
JN.1.11 + FLuQE [greens]:
5% - MC.10.1 & MC.19
1% - MC.28.1
2% - XEQ & other KP.3
3% - MC.1 & other KP.3.1.1 / MC
JN.1 + FLiRT [reds]:
4% - LF.7
2% - LB.1.3.1 / NL
¾% - LF.7.2.1 / PC
JN.1.11 + FLiRT [blues]:
½% - XEK
0% - KP.2.3
Other [greys]:
⅓% - JN.1.16
⅒% - other WHO-Vaccine-Target JN.1
0% - Other (not specified)
† Dagger variant is not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/114/333/759/840/925/358/original/cfec2b797658b166.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through Mar 30–Apr 12. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. LP.8.1 accounts for over three fifths; JN.1 + FLiRT for near a quarter.
For fortnight of 3/16–3/29, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
64% - LP.8.1.1 / NY† & other LP.8.1
XEC [browns]:
2% - XEC.4
15% - other XEC
JN.1.11 + FLuQE [greens]:
5% - MC.10.1 & MC.19
1% - MC.28.1
2% - XEQ & other KP.3
3% - MC.1 & other KP.3.1.1 / MC
JN.1 + FLiRT [reds]:
4% - LF.7
2% - LB.1.3.1 / NL
¾% - LF.7.2.1 / PC
JN.1.11 + FLiRT [blues]:
½% - XEK
0% - KP.2.3
Other [greys]:
⅓% - JN.1.16
⅒% - other WHO-Vaccine-Target JN.1
0% - Other (not specified)
† Dagger variant is not broken out by CDC, yet represent a significant share of recent GISAID sequences.")
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through March 16–29. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. LP.8.1 accounts for well over half; JN.1 + FLiRT for over a quarter.
For fortnight of 3/2–3/15, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
55% - LP.8.1.1 / NY† & other LP.8.1
XEC [browns]:
21% - XEC.2† & other XEC
2% - XEC.4
JN.1.11 + FLuQE [greens]:
6% - MC.10.1 & MC.19
3% - MC.28.1
2% - XEQ
4% - MC.1 & other KP.3.1.1 / MC
⅘% - other KP.3
JN.1 + FLiRT [reds]:
4% - LF.7
2% - LB.1.3.1 / NL
JN.1.11 + FLiRT [blues]:
½% - XEK
0% - KP.2.3 & KP.1.1.3 / LP
Other [greys]:
⅖% - JN.1.16
⅙% - other WHO-Vaccine-Target JN.1
0% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/114/259/915/273/763/471/original/d43e9777e86ef6a8.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through March 16–29. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. LP.8.1 accounts for well over half; JN.1 + FLiRT for over a quarter.
For fortnight of 3/2–3/15, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
55% - LP.8.1.1 / NY† & other LP.8.1
XEC [browns]:
21% - XEC.2† & other XEC
2% - XEC.4
JN.1.11 + FLuQE [greens]:
6% - MC.10.1 & MC.19
3% - MC.28.1
2% - XEQ
4% - MC.1 & other KP.3.1.1 / MC
⅘% - other KP.3
JN.1 + FLiRT [reds]:
4% - LF.7
2% - LB.1.3.1 / NL
JN.1.11 + FLiRT [blues]:
½% - XEK
0% - KP.2.3 & KP.1.1.3 / LP
Other [greys]:
⅖% - JN.1.16
⅙% - other WHO-Vaccine-Target JN.1
0% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.")
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through March 2–15. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over three fifths; JN.1.11 + FLiRT for near half.
For fortnight of 1/19–2/1, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
47% - LP.8.1.1 / NY† & other LP.8.1
JN.1 + FLiRT-KS [browns]:
26% - XEC.2†, XEC.8† & other XEC
2% - XEC.4
2% - XEQ
⅒% - other KS.1
JN.1.11 [greens]:
¾% - KP.3
15% - MC.10.1, MC.28.1, MC.19, MC.1 & other KP.3.1.1 / MC
JN.1 + FLiRT [reds]:
4% - LF.7
3% - LB.1.3.1 / NL
0% - LB.1
JN.1.11 + FLiRT [blues]:
½% - XEK
0% - KP.2.3 & KP.1.1.3 / LP
Other [greys]:
½% - JN.1.16
⅐% - other WHO-Vaccine-Target JN.1
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/114/163/035/799/833/179/original/9a1523ae932eddff.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through March 2–15. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over three fifths; JN.1.11 + FLiRT for near half.
For fortnight of 1/19–2/1, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
47% - LP.8.1.1 / NY† & other LP.8.1
JN.1 + FLiRT-KS [browns]:
26% - XEC.2†, XEC.8† & other XEC
2% - XEC.4
2% - XEQ
⅒% - other KS.1
JN.1.11 [greens]:
¾% - KP.3
15% - MC.10.1, MC.28.1, MC.19, MC.1 & other KP.3.1.1 / MC
JN.1 + FLiRT [reds]:
4% - LF.7
3% - LB.1.3.1 / NL
0% - LB.1
JN.1.11 + FLiRT [blues]:
½% - XEK
0% - KP.2.3 & KP.1.1.3 / LP
Other [greys]:
½% - JN.1.16
⅐% - other WHO-Vaccine-Target JN.1
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.")
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through Feb 16–Mar 1. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over three fifths; JN.1.11 + FLiRT for over two fifths.
For fortnight of 1/19–2/1, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
42% - LP.8.1.1 / NY† & other LP.8.1
XEC [browns]:
31% - XEC.2†, XEC.8† & other XEC
3% - XEC.4
JN.1.11 + FLuQE [greens]:
5% - MC.10.1 & MC.19
3% - MC.28.1
2% - XEQ
8% - MC.1 & other KP.3.1.1 / MC
½% - other KP.3
JN.1 + FLiRT [reds]:
3% - LF.7
2% - LB.1.3.1 / NL
⅛% - LB.1 & KS.1
JN.1.11 + FLiRT [blues]:
⅘% - XEK
0% - KP.2.3 & KP.1.1.3 / LP
Other [greys]:
⅕% - other Pirola BA.2.86
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/114/083/804/704/370/103/original/2a0b5c49cb4fec7d.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through Feb 16–Mar 1. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over three fifths; JN.1.11 + FLiRT for over two fifths.
For fortnight of 1/19–2/1, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
LP.8.1 [purple]:
42% - LP.8.1.1 / NY† & other LP.8.1
XEC [browns]:
31% - XEC.2†, XEC.8† & other XEC
3% - XEC.4
JN.1.11 + FLuQE [greens]:
5% - MC.10.1 & MC.19
3% - MC.28.1
2% - XEQ
8% - MC.1 & other KP.3.1.1 / MC
½% - other KP.3
JN.1 + FLiRT [reds]:
3% - LF.7
2% - LB.1.3.1 / NL
⅛% - LB.1 & KS.1
JN.1.11 + FLiRT [blues]:
⅘% - XEK
0% - KP.2.3 & KP.1.1.3 / LP
Other [greys]:
⅕% - other Pirola BA.2.86
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.")
![Chart: SARSCoV2 Variant Dashboard - USA | 30-DAY TRENDS
Source: NYITCOM Research Report (Raj Rajnarayanan)
Caption (in part): Circulating Variants in…following US States: All - Specimen Collected in…last 30 days | Updated on 2/16/2025 4:45:09 AM [GMT?] | Source (sequences): GISAID
Packed-bubble chart showing tallies of each identified variant for each state, for collection dates 1/19/2025 to 2/1/2025. Top subvariants: XEC (24.06%), LP.8.1 (11.11%), LP.8.1.1 (9.8%), MC.10.1 (5.34%), MC.1 (4.23%), XEC.2 (4.09%).
Raj has standardized bubbles to violet (BA.2.86.*), aqua green (XBB.1.16.*), forest green (XEC, a recombinant of two B.2.86 strains), and yellow (LP.8.*). although some newer Pango aliases may still be getting unique colors assigned by Tableau.
Bubbles largest and most prominent for: XEC (forest) for New York (59), Colorado (53), Minnesota (25), New Jersey, California, Illinois, Nebraska, Iowa, Pennsylvania, Virginia, Delaware, Rhode Island; LP.8.1 (yellow) for New York (43), California, Iowa, Colorado, Delaware; LP.8.1.1 (yellow) for New York (36), Illinois (33), Minnesota, California; XEC.8 (forest) for Nebraska (24); XEQ (aqua) for Colorado (23).
Many dozens of bubbles of varying sizes representing near a hundred variants across various states.
ALT-text by beadsland at ko-fi.](https://spaces.hcommons.social/media_attachments/files/114/027/937/263/011/661/original/ce98a54661c9c675.png "Chart: SARSCoV2 Variant Dashboard - USA | 30-DAY TRENDS
Source: NYITCOM Research Report (Raj Rajnarayanan)
Caption (in part): Circulating Variants in…following US States: All - Specimen Collected in…last 30 days | Updated on 2/16/2025 4:45:09 AM [GMT?] | Source (sequences): GISAID
Packed-bubble chart showing tallies of each identified variant for each state, for collection dates 1/19/2025 to 2/1/2025. Top subvariants: XEC (24.06%), LP.8.1 (11.11%), LP.8.1.1 (9.8%), MC.10.1 (5.34%), MC.1 (4.23%), XEC.2 (4.09%).
Raj has standardized bubbles to violet (BA.2.86.*), aqua green (XBB.1.16.*), forest green (XEC, a recombinant of two B.2.86 strains), and yellow (LP.8.*). although some newer Pango aliases may still be getting unique colors assigned by Tableau.
Bubbles largest and most prominent for: XEC (forest) for New York (59), Colorado (53), Minnesota (25), New Jersey, California, Illinois, Nebraska, Iowa, Pennsylvania, Virginia, Delaware, Rhode Island; LP.8.1 (yellow) for New York (43), California, Iowa, Colorado, Delaware; LP.8.1.1 (yellow) for New York (36), Illinois (33), Minnesota, California; XEC.8 (forest) for Nebraska (24); XEQ (aqua) for Colorado (23).
Many dozens of bubbles of varying sizes representing near a hundred variants across various states.
ALT-text by beadsland at ko-fi.")
![Chart: Variants by Pango-Designated Lineage: U.S. Jan 19 to Feb 1
Source: GISAID (via Raj Rajnarayanan's COVID-19 Variant Dashboard, updated Feb 16)
[ beadsland on Ko-fi ]
Pie chart of major lineages, with lesser lineages bundled together by common alphanumeric initial character. Call-outs for each pie slice list number of variants counted and provide a percentage of pie.
Percentage is in a dull grey font, to which a dark backing has been applied to aid legibility.
Color key of pie slices aligns to that of latest "Estimated Variant Proportions by Common Name" (earlier in this thread), namely:
• Browns: JN.1.11 + FLiRT
• Greens: JN.1.11 + FLuQE
• Reds: XEC
• Purple: JN.1 + FLiRT-KS
• Blues: JN.1 + FLiRT
• Greys: Other
Reading clockwise from top:
- Multiple unlabeled slivers of grey and tan brown.
4.0% - KP.3.1.1 / MC [green]
- Unlabeled slice green.
1.9% - LB.1.3.1 (1 variant) [green]
- Unlbl. sliver of grey.
4.8% - LF.7 (8 variants) [blue]
9.8% - LP.8.1.1 (1 variant) [brown]
11.7% - LP.8.1 (2 variants) [brown]
- Unlbl. sliver tan.
5.7% - MC.1 (4 variants) [green]
Unlbl. sliver green.
5.3% - MC.10.1 (1 variant) [green]
- Two unlbl. slices green.
4.3% - other MC (17 variants) [green]
- Unlbl. slice grey.
2.3% - NL (4 variants) [blue]
1.2% - NC, NF, NB, NA, … [grey]
6.1% - XEC.2 (4 variants) [red]
1.8% - XEC.4 (1 variant) [pink red]
3.1% - XEC.8 (1 variant) [red]
28.9% - other XEC (12 variants) [red]
- Unlbl. slice tan.
2.4% - XEQ (1 variant) [grey]
- Unlbl. sliver grey.](https://spaces.hcommons.social/media_attachments/files/114/027/937/672/463/754/original/d0f6d8837778dfe7.png "Chart: Variants by Pango-Designated Lineage: U.S. Jan 19 to Feb 1
Source: GISAID (via Raj Rajnarayanan's COVID-19 Variant Dashboard, updated Feb 16)
[ beadsland on Ko-fi ]
Pie chart of major lineages, with lesser lineages bundled together by common alphanumeric initial character. Call-outs for each pie slice list number of variants counted and provide a percentage of pie.
Percentage is in a dull grey font, to which a dark backing has been applied to aid legibility.
Color key of pie slices aligns to that of latest \"Estimated Variant Proportions by Common Name\" (earlier in this thread), namely:
• Browns: JN.1.11 + FLiRT
• Greens: JN.1.11 + FLuQE
• Reds: XEC
• Purple: JN.1 + FLiRT-KS
• Blues: JN.1 + FLiRT
• Greys: Other
Reading clockwise from top:
- Multiple unlabeled slivers of grey and tan brown.
4.0% - KP.3.1.1 / MC [green]
- Unlabeled slice green.
1.9% - LB.1.3.1 (1 variant) [green]
- Unlbl. sliver of grey.
4.8% - LF.7 (8 variants) [blue]
9.8% - LP.8.1.1 (1 variant) [brown]
11.7% - LP.8.1 (2 variants) [brown]
- Unlbl. sliver tan.
5.7% - MC.1 (4 variants) [green]
Unlbl. sliver green.
5.3% - MC.10.1 (1 variant) [green]
- Two unlbl. slices green.
4.3% - other MC (17 variants) [green]
- Unlbl. slice grey.
2.3% - NL (4 variants) [blue]
1.2% - NC, NF, NB, NA, … [grey]
6.1% - XEC.2 (4 variants) [red]
1.8% - XEC.4 (1 variant) [pink red]
3.1% - XEC.8 (1 variant) [red]
28.9% - other XEC (12 variants) [red]
- Unlbl. slice tan.
2.4% - XEQ (1 variant) [grey]
- Unlbl. sliver grey.")
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through February 2–15. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over half; JN.1 + FLiRT for near half.
For fortnight of 1/19–2/1, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
XEC [reds]:
37% - XEC.2†, XEC.8† & other XEC
4% - XEC.4
JN.1.11 + FLiRT [browns]:
31% - LP.8.1.1 / NY† & other LP.8.1
1% - XEK
⅒% - KP.2.3, FDA-Vaccine-Target KP.2 & KP.1.1.3 / LP
JN.1.11 + FLuQE [greens]:
3% - XEQ
17% - MC.10.1, MC.1, MC.19 & other KP.3.1.1 / MC
⅗% - other KP.3
JN.1 + FLiRT [blues]:
3% - LF.7
2% - LB.1.3.1 / NL
0% - LB.1
JN.1 + FLiRT-KS [purple]:
⅒% - other KS.1
Other [greys]:
½% - JN.1.16
⅓% - other Pirola BA.2.86
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/114/027/716/813/926/890/original/6403b3cd89efd3c3.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through February 2–15. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over half; JN.1 + FLiRT for near half.
For fortnight of 1/19–2/1, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
XEC [reds]:
37% - XEC.2†, XEC.8† & other XEC
4% - XEC.4
JN.1.11 + FLiRT [browns]:
31% - LP.8.1.1 / NY† & other LP.8.1
1% - XEK
⅒% - KP.2.3, FDA-Vaccine-Target KP.2 & KP.1.1.3 / LP
JN.1.11 + FLuQE [greens]:
3% - XEQ
17% - MC.10.1, MC.1, MC.19 & other KP.3.1.1 / MC
⅗% - other KP.3
JN.1 + FLiRT [blues]:
3% - LF.7
2% - LB.1.3.1 / NL
0% - LB.1
JN.1 + FLiRT-KS [purple]:
⅒% - other KS.1
Other [greys]:
½% - JN.1.16
⅓% - other Pirola BA.2.86
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.")
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through February 2–15. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over half; JN.1 + FLiRT for near half.
For fortnight of 1/5–1/18, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
XEC [reds]:
37% - XEC.2† & other XEC
4% - XEC.4
JN.1.11 + FLiRT [browns]:
31% - LP.8.1.1 / NY† & other LP.8.1
1% - XEK
⅒% - KP.2.3, FDA-Vaccine-Target KP.2 & KP.1.1.3 / LP
JN.1.11 + FLuQE [greens]:
17% - MC.10.1, MC.1, MC.19, MC.8.1† & other KP.3.1.1 / MC
3% - XEQ
⅗% - other KP.3
JN.1 + FLiRT [blues]:
3% - LF.7
2% - LB.1.3.1 / NL
0% - LB.1
JN.1 + FLiRT-KS [purple]:
⅒% - other KS.1
Other [greys]:
½% - JN.1.16
⅓% - other Pirola BA.2.86
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/114/004/692/397/171/374/original/12689f349ea5c8c6.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through February 2–15. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1.11 accounts for over half; JN.1 + FLiRT for near half.
For fortnight of 1/5–1/18, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
XEC [reds]:
37% - XEC.2† & other XEC
4% - XEC.4
JN.1.11 + FLiRT [browns]:
31% - LP.8.1.1 / NY† & other LP.8.1
1% - XEK
⅒% - KP.2.3, FDA-Vaccine-Target KP.2 & KP.1.1.3 / LP
JN.1.11 + FLuQE [greens]:
17% - MC.10.1, MC.1, MC.19, MC.8.1† & other KP.3.1.1 / MC
3% - XEQ
⅗% - other KP.3
JN.1 + FLiRT [blues]:
3% - LF.7
2% - LB.1.3.1 / NL
0% - LB.1
JN.1 + FLiRT-KS [purple]:
⅒% - other KS.1
Other [greys]:
½% - JN.1.16
⅓% - other Pirola BA.2.86
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.")
![Chart: SARSCoV2 Variant Dashboard - USA | 30-DAY TRENDS
Source: NYITCOM Research Report (Raj Rajnarayanan)
Caption (in part): Circulating Variants in…following US States: All - Specimen Collected in…last 30 days | Updated on 1/31/2025 6:43:47 AM [GMT?] | Source (sequences): GISAID
Packed-bubble chart showing tallies of each identified variant for each state, for collection dates 1/5/2025 to 1/18/2025. Top subvariants: XEC (26.32%), KP.3.1.1 (8.61%), LP.8.1 (5.74%), XEC.2 (4.23%), MC.10.1 (4.18%).
Raj has standardized bubbles to violet (BA.2.86.*), aqua green (XBB.1.16.*), forest green (XEC, a recombinant of two B.2.86 strains), and yellow (LP.8.*). although some newer Pango aliases may still be getting unique colors assigned by Tableau.
Bubbles largest and most prominent for: XEC (forest) in Ohio (171), New York (85), Colorado (58), Minnesota (46), New Jersey, Iowa, Utah; KP.3.1.1 (violet) for Ohio (58), Minnesota, New York; MC.8.1 (violet) for Ohio (51); XEQ (aqua) for Colorado (34); LP.8.1 (yellow) for New York, Ohio.
Many dozens of bubbles of varying sizes representing over a hundred variants across various states.
ALT-text by beadsland at ko-fi.](https://spaces.hcommons.social/media_attachments/files/113/925/598/052/682/439/original/4b72cd6231c464fe.png "Chart: SARSCoV2 Variant Dashboard - USA | 30-DAY TRENDS
Source: NYITCOM Research Report (Raj Rajnarayanan)
Caption (in part): Circulating Variants in…following US States: All - Specimen Collected in…last 30 days | Updated on 1/31/2025 6:43:47 AM [GMT?] | Source (sequences): GISAID
Packed-bubble chart showing tallies of each identified variant for each state, for collection dates 1/5/2025 to 1/18/2025. Top subvariants: XEC (26.32%), KP.3.1.1 (8.61%), LP.8.1 (5.74%), XEC.2 (4.23%), MC.10.1 (4.18%).
Raj has standardized bubbles to violet (BA.2.86.*), aqua green (XBB.1.16.*), forest green (XEC, a recombinant of two B.2.86 strains), and yellow (LP.8.*). although some newer Pango aliases may still be getting unique colors assigned by Tableau.
Bubbles largest and most prominent for: XEC (forest) in Ohio (171), New York (85), Colorado (58), Minnesota (46), New Jersey, Iowa, Utah; KP.3.1.1 (violet) for Ohio (58), Minnesota, New York; MC.8.1 (violet) for Ohio (51); XEQ (aqua) for Colorado (34); LP.8.1 (yellow) for New York, Ohio.
Many dozens of bubbles of varying sizes representing over a hundred variants across various states.
ALT-text by beadsland at ko-fi.")
![Chart: Variants by Pango-Designated Lineage: U.S. Jan 5 to 18
Source: GISAID (via Raj Rajnarayanan's COVID-19 Variant Dashboard, updated Jan 31)
[ beadsland on Ko-fi ]
Pie chart of major lineages, with lesser lineages bundled together by common alphanumeric initial character. Call-outs for each pie slice list number of variants counted and provide a percentage of pie.
Percentage is in a dull grey font, to which a dark backing has been applied to aid legibility.
Color key of pie slices aligns to that of latest "Estimated Variant Proportions by Common Name" (earlier in this thread), namely:
• Purples: JN.1.11
• Reds/Pinks: JN.1.11 + FLiRT
• Browns: JN.1.11 + FLiRT-LP
• Blues: XEC
• Greens: JN.1 + FLiRT
• Greys: Other
Reading clockwise from top:
- Multiple unlabeled slivers of grey and pink.
8.6% - KP.3.1.1 / MC [purple]
- Unlabeled purple sliver & grey sliver
2.2% - LB.1.3.1 (1 var) [green]
- Unlabeled green sliver
3.4% - LF.7 (10 variants) [green]
3.9% - LP.8.1.1 (1 var) [brown]
5.9% - LP.8.1 (2 variants) [brown]
- Unlabeled brown and grey silvers
5.2% - MC.1 (5 variants) [purple]
3.4% - MC.8.1 (2 variants) [purple]
4.2% - MC.10.1 (1 var) [purple]
- Two unlabeled purple slices
8.5% - other MC (22 variants) [purple]
- Unlabeled grey slice
1.4% - NL (4 variants) [green]
- Unlabeled grey slice
5.7% - XEC.2 (5 variants) [blue]
2.0% - XEC.4 (1 var) [blue]
34% - other XEC (10 variants) [blue]
1.6% - XEK (4 variants) [red orange]
3.0% - XEQ (1 var) [grey]
- Unlabeled grey slice](https://spaces.hcommons.social/media_attachments/files/113/925/598/461/876/410/original/409a1e8fa79e0fd6.png "Chart: Variants by Pango-Designated Lineage: U.S. Jan 5 to 18
Source: GISAID (via Raj Rajnarayanan's COVID-19 Variant Dashboard, updated Jan 31)
[ beadsland on Ko-fi ]
Pie chart of major lineages, with lesser lineages bundled together by common alphanumeric initial character. Call-outs for each pie slice list number of variants counted and provide a percentage of pie.
Percentage is in a dull grey font, to which a dark backing has been applied to aid legibility.
Color key of pie slices aligns to that of latest \"Estimated Variant Proportions by Common Name\" (earlier in this thread), namely:
• Purples: JN.1.11
• Reds/Pinks: JN.1.11 + FLiRT
• Browns: JN.1.11 + FLiRT-LP
• Blues: XEC
• Greens: JN.1 + FLiRT
• Greys: Other
Reading clockwise from top:
- Multiple unlabeled slivers of grey and pink.
8.6% - KP.3.1.1 / MC [purple]
- Unlabeled purple sliver & grey sliver
2.2% - LB.1.3.1 (1 var) [green]
- Unlabeled green sliver
3.4% - LF.7 (10 variants) [green]
3.9% - LP.8.1.1 (1 var) [brown]
5.9% - LP.8.1 (2 variants) [brown]
- Unlabeled brown and grey silvers
5.2% - MC.1 (5 variants) [purple]
3.4% - MC.8.1 (2 variants) [purple]
4.2% - MC.10.1 (1 var) [purple]
- Two unlabeled purple slices
8.5% - other MC (22 variants) [purple]
- Unlabeled grey slice
1.4% - NL (4 variants) [green]
- Unlabeled grey slice
5.7% - XEC.2 (5 variants) [blue]
2.0% - XEC.4 (1 var) [blue]
34% - other XEC (10 variants) [blue]
1.6% - XEK (4 variants) [red orange]
3.0% - XEQ (1 var) [grey]
- Unlabeled grey slice")
![Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through January 5–18. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1 + FLiRT accounts for well over half; XEC for near half.
For fortnight of 1/5–1/18, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
XEC [blues]:
47% - XEC.2† & other XEC
3% - XEC.4
JN.1.11 [purples]:
23% - MC.10.1, MC.1, MC.19, MC.8.1† & other KP.3.1.1 / MC
1% - KP.3 & XEQ†
JN.1.11 + FLiRT-LP [browns]:
15% - LP.8.1.1 / NY† & other LP.8.1
⅛% - LP.1 & other KP.1.1.3 / LP
JN.1 + FLiRT [greens]:
4% - LF.7
2% - LB.1.3.1 / NL
1% - JN.1.18.6 / LY
⅒% - LB.1
JN.1.11 + FLiRT [reds]:
4% - XEK
⅒% - FDA-Vaccine-Target KP.2
⅑% - other KP.2.3
Other [greys]:
⅒% - other WHO-Vaccine-Target JN.1
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.](https://spaces.hcommons.social/media_attachments/files/113/925/353/197/745/222/original/94093d6ec2405a9c.jpg "Chart: Estimated U.S. Variant Proportions by Common Name
Sources: Centers for Disease Control, CoV-Lineages, NYITCOM Research, Daniele Focosi, World Health Network, others
[ beadsland on Ko-fi ]
Reskin of CDC's Variants Nowcast, and any significant variants in GISAID not broken out by CDC.
Five bar-style tree-charts, for fortnights through January 5–18. Legend of last fortnight, organized by subheadings of color-grouped families and convergent clusters. Percentages overlay each color key, reflecting share as of most recent tree-chart.
Essentially all WHO-Vaccine-Target JN.1. JN.1 + FLiRT accounts for well over half; XEC for near half.
For fortnight of 1/5–1/18, packed bubble charts fill single-variant tiles, indicating diversification of those variants (per GISAID) that wouldn't otherwise be apparent from CDC's Nowcast.
Legend:
XEC [blues]:
47% - XEC.2† & other XEC
3% - XEC.4
JN.1.11 [purples]:
23% - MC.10.1, MC.1, MC.19, MC.8.1† & other KP.3.1.1 / MC
1% - KP.3 & XEQ†
JN.1.11 + FLiRT-LP [browns]:
15% - LP.8.1.1 / NY† & other LP.8.1
⅛% - LP.1 & other KP.1.1.3 / LP
JN.1 + FLiRT [greens]:
4% - LF.7
2% - LB.1.3.1 / NL
1% - JN.1.18.6 / LY
⅒% - LB.1
JN.1.11 + FLiRT [reds]:
4% - XEK
⅒% - FDA-Vaccine-Target KP.2
⅑% - other KP.2.3
Other [greys]:
⅒% - other WHO-Vaccine-Target JN.1
⅒% - Other (not specified)
† Dagger variants are not broken out by CDC, yet represent a significant share of recent GISAID sequences.")