poreCov Summary Report
Run information
40 / 41 of samples passed QC criteria.1 / 41 of samples failed QC criteria.
1 / 1 of control samples correctly did not produce an assembly that passed QC criteria.
Note: samples are considered negative controls if their name contains certain keywords ('control', 'negative') - please check if these assignments were correct.
WARNING: There were frameshifts in one or more samples. This is most likely an error due to incorrect consensus calling as frameshifts are biologically very unlikely. CAUTION: This error can cause masking of downstream mutations, deletions and insertions in affected protein regions! Basecalling with superior accuracy ('sup') models and/or using --nanopolish for consensus calling can fix these errors.
poreCov version: 1.3.0
PangoLEARN version: 2022-02-02
Nextclade data version: 2022-02-07
Run type: Genome reconstruction and classification from raw sequencing data (fastq)
ARTIC version: 1.3.0
ARTIC primer version: V1200
Medaka model: r941_min_sup_g507
poreCov command:
nextflow run replikation/poreCov -r 1.3.0 -profile ukj_cloud --update --extended --primerV V1200 --medaka_model r941_min_sup_g507 --rapid --minLength 150 --fastq_pass /home/ricc/nano-server/GRIDION_DISK/2022-03-03-111438_20220302_covid_routine_batch73_rapid96/20220302_covid_routine_batch73_rapid96/20220302_covid_routine_batch73_rapid96/20220302_1145_X1_FAR86275_243af679/fastq_pass/ --samples /home/ricc/nano-server/GRIDION_DISK/2022-03-03-111438_20220302_covid_routine_batch73_rapid96/20220302_covid_routine_batch73.csv --output /home/ricc/SARS_CoV_2/20220302_covid_routine_batch73_fastqReport created: 2022-03-04 09:40:16 UTC
Sample results
| Sample | %reads SARS-CoV-2 (#reads) |
%reads human (#reads) |
%reads unclass. (#reads) |
%ident. (mism.) |
%Ns (#Ns) |
QC pass |
Lineage (conflict) Variant type |
Constellation (conflict) |
Clade | Mutations (on spike) |
Deletions (on spike) |
Insertions (on spike) |
Frameshifts (on spike) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 621ce0964e1f1670da0409f4 | 86.13 (85.3k) |
0.56 (551) |
13.31 (13.2k) |
95.96 (68) |
3.72 (1112) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 50E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da0409f6 | 85.48 (135.8k) |
10.05 (16.0k) |
4.47 (7.1k) |
95.97 (68) |
3.72 (1111) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 50E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da0409f8 | 91.10 (160.3k) |
2.40 (4.2k) |
6.49 (11.4k) |
95.94 (71) |
3.73 (1115) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 53E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:A1352V, ORF1a:D1532G, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF7a:A64S, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da0409f9 | 91.25 (139.9k) |
4.19 (6.4k) |
4.56 (7.0k) |
98.02 (58) |
1.67 (500) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 46E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF1b:M2269V, ORF9b:P10S, S:T95I, S:Y145D, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 14N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143- |
Number found: 1S:214:EQ |
- |
| 621ce0964e1f1670da0409fa | 88.52 (140.1k) |
2.80 (4.4k) |
8.68 (13.7k) |
99.04 (59) |
0.63 (189) |
YES | BA.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 48E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K564N, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:A67V, S:T95I, S:S98F, S:Y145D, S:L212I, S:G339D, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 16N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621ce0964e1f1670da0409fb | 87.50 (97.6k) |
1.45 (1.6k) |
11.05 (12.3k) |
95.96 (70) |
3.72 (1110) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 51E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:R402C, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da0409fc | 95.83 (224.5k) |
0.51 (1.2k) |
3.67 (8.6k) |
95.96 (69) |
3.72 (1111) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 52E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:A2909V, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:L140F, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da0409fd | 94.91 (175.4k) |
0.66 (1.2k) |
4.43 (8.2k) |
95.96 (68) |
3.72 (1112) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 50E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da0409fe | 91.61 (107.2k) |
2.85 (3.3k) |
5.54 (6.5k) |
95.96 (68) |
3.73 (1114) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 50E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da0409ff | 91.92 (89.0k) |
2.42 (2.3k) |
5.65 (5.5k) |
95.96 (68) |
3.72 (1112) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 50E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da040a00 | 93.85 (123.2k) |
1.07 (1.4k) |
5.08 (6.7k) |
95.96 (70) |
3.72 (1112) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 52E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:D2506G, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:C1880Y, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da040a01 | 92.53 (94.1k) |
1.26 (1.3k) |
6.21 (6.3k) |
95.97 (69) |
3.72 (1110) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 51E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:S245A, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da040a02 | 84.60 (62.0k) |
0.31 (229) |
15.08 (11.1k) |
98.75 (60) |
0.92 (275) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 21E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1a:A4162V, ORF1b:P314L, ORF1b:L1504F, ORF1b:I1566V, ORF3a:V202A, ORF3a:L203I, ORF9b:P10S, S:A67V |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:I68-, S:H69- |
- | Number found: 1S:70-1274 |
| 621ce0964e1f1670da040a03 | 93.23 (98.6k) |
3.16 (3.3k) |
3.61 (3.8k) |
95.94 (71) |
3.74 (1116) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 52E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:L730F, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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:T716I, S:N764K, S:D796Y, S:Q954H, S:N969K |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da040a04 | 95.02 (182.8k) |
0.20 (394) |
4.77 (9.2k) |
98.94 (61) |
0.63 (189) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0169) |
21K (Omicron) | Number found: 51E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:R207C, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:D2833G, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF3a:T175I, ORF8:I39T, ORF9b:P10S, S:A67V, S:T95I, S:Y145D, S:L212I, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:I834V, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 25N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF6:F22-, ORF6:K23-, ORF6:V24-, ORF6:S25-, ORF6:I26-, ORF6:W27-, ORF6:N28-, ORF6:L29-, ORF6:D30-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621ce0964e1f1670da040a05 | 92.72 (205.5k) |
1.23 (2.7k) |
6.04 (13.4k) |
95.96 (70) |
3.72 (1112) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 51E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:H78Y, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da040a06 | 80.48 (47.3k) |
2.82 (1.7k) |
16.71 (9.8k) |
97.60 (58) |
2.08 (620) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 47E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:V675A, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:T95I, S:Y145D, S:L212I, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 16N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621ce0964e1f1670da040a07 | 93.39 (123.9k) |
3.16 (4.2k) |
3.45 (4.6k) |
95.97 (67) |
3.72 (1110) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 50E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621ce0964e1f1670da040a08 | 82.35 (36.7k) |
0.36 (159) |
17.29 (7.7k) |
98.22 (58) |
1.48 (441) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0169) |
21K (Omicron) | Number found: 47E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF1b:M2269V, ORF9b:P10S, S:V70L, S:T95I, S:Y145D, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 14N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:A67-, S:G142-, S:V143-, S:Y144- |
Number found: 1S:214:EPE |
- |
| 621ce0964e1f1670da040a09 | 58.69 (13.7k) |
2.51 (585) |
38.80 (9.1k) |
95.84 (57) |
3.91 (1168) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 45E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:I2278T, ORF1a:T2283I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF3a:L41F, ORF9b:P10S, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 9N:E31-, N:R32-, N:S33-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29- |
- | - |
| 621ce0964e1f1670da040a0a | 89.87 (97.4k) |
4.09 (4.4k) |
6.05 (6.6k) |
95.95 (73) |
3.72 (1111) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 52E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:T1822I, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:A1259S, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb32 | 93.96 (123.9k) |
1.01 (1.3k) |
5.03 (6.6k) |
95.96 (72) |
3.72 (1110) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 53E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:A2909V, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:L140F, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, S:G142D, S:V213G, S:D215E, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb33 | 93.21 (85.7k) |
1.20 (1.1k) |
5.59 (5.1k) |
n/a | 9.20 (2749) |
NO | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 46E:T9I, M:Q19E, M:A63T, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, S:T19I, S:A27S, 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 |
Number found: 6ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb34 | 94.99 (103.5k) |
0.98 (1.1k) |
4.03 (4.4k) |
95.97 (68) |
3.72 (1111) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 51E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:K82E, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb35 | 89.45 (84.6k) |
3.78 (3.6k) |
6.76 (6.4k) |
97.15 (57) |
2.55 (762) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 17E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF3a:S60F, ORF9b:P10S |
Number found: 13N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:G142-, S:V143-, S:Y144- |
- | Number found: 1S:145-1274 |
| 621e1c153189a511e29deb36 | 93.65 (77.5k) |
1.50 (1.2k) |
4.85 (4.0k) |
95.97 (67) |
3.72 (1111) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 50E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb37 | 81.89 (46.0k) |
0.61 (342) |
17.51 (9.8k) |
96.03 (59) |
3.70 (1106) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 44E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:E489K, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 10N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29- |
- | - |
| 621e1c153189a511e29deb38 | 94.99 (112.7k) |
0.74 (879) |
4.27 (5.1k) |
96.00 (57) |
3.74 (1119) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 45E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:H1213Y, ORF1b:V1402A, ORF1b:I1566V, ORF9b:P10S, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 10N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29- |
- | - |
| 621e1c153189a511e29deb39 | 90.54 (45.3k) |
0.40 (199) |
9.06 (4.5k) |
96.04 (56) |
3.70 (1106) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 44E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:G1093S, ORF1b:I1566V, ORF9b:P10S, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 10N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29- |
- | - |
| 621e1c153189a511e29deb3a | 95.14 (65.8k) |
0.94 (653) |
3.92 (2.7k) |
95.95 (69) |
3.74 (1116) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 51E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:H78Y, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb3b | 95.75 (144.8k) |
0.85 (1.3k) |
3.40 (5.1k) |
99.03 (61) |
0.63 (189) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 50E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF1b:V2178F, ORF9b:P10S, S:A67V, S:T76I, S:T95I, S:R102K, S:Y145D, S:L212I, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 16N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621e1c153189a511e29deb3c | 95.44 (103.0k) |
1.04 (1.1k) |
3.52 (3.8k) |
95.96 (71) |
3.72 (1111) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 53E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:A2909V, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:L140F, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, S:G142D, S:V213G, S:D215E, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb3d | 91.59 (63.5k) |
0.77 (536) |
7.63 (5.3k) |
98.77 (58) |
0.90 (270) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 48E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:T49I, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:A67V, S:T95I, S:Y145D, S:L212I, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 16N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621e1c153189a511e29deb3e | 93.20 (103.4k) |
1.00 (1.1k) |
5.79 (6.4k) |
98.50 (60) |
1.17 (350) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 18E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:N1540S, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:A67V |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:I68-, S:H69- |
- | Number found: 1S:70-1274 |
| 621e1c153189a511e29deb3f | 86.42 (77.0k) |
6.53 (5.8k) |
7.04 (6.3k) |
95.97 (68) |
3.72 (1110) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 51E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:H78Y, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| 621e1c153189a511e29deb40 | 91.54 (125.0k) |
0.28 (378) |
8.18 (11.2k) |
99.03 (62) |
0.63 (189) |
YES | BA.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 50E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:H374Y, ORF1a:K856R, ORF1a:T1168I, ORF1a:P1803S, ORF1a:V1887I, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:A67V, S:T95I, S:Y145D, S:L212I, S:G339D, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 16N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621e1c153189a511e29deb41 | 91.80 (67.3k) |
0.26 (191) |
7.94 (5.8k) |
97.02 (56) |
2.72 (812) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 21E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:T2283I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:N211I, S:L212V, S:V213R, S:R214S |
Number found: 10N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29- |
- | Number found: 1S:215-1274 |
| 621e1c153189a511e29deb42 | 87.75 (86.4k) |
6.39 (6.3k) |
5.86 (5.8k) |
99.02 (65) |
0.63 (189) |
YES | BA.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 49E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:P1640S, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF7b:I2N, ORF9b:P10S, S:A67V, S:T95I, S:Y145D, S:L212I, S:G339D, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F, S:H1083Y |
Number found: 16N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:H69-, S:V70-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621e1c153189a511e29deb43 | 92.78 (85.5k) |
0.33 (302) |
6.89 (6.3k) |
96.93 (58) |
2.77 (828) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 45E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF9b:P10S, S:Y145D, S:L212I, S:G339D, S:R346K, S:S371L, S:S373P, S:S375F, S:K417N, S:N440K, S:G446S, S:S477N, S:T478K, S:E484A, S:Q493R, S:G496S, S:Q498R, S:N501Y, S:Y505H, S:T547K, S:D614G, S:H655Y, S:N679K, S:P681H, S:N764K, S:D796Y, S:N856K, S:Q954H, S:N969K, S:L981F |
Number found: 14N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:G142-, S:V143-, S:Y144-, S:N211- |
Number found: 1S:214:EPE |
- |
| 621e1c153189a511e29deb44 | 93.68 (117.1k) |
0.76 (955) |
5.55 (6.9k) |
97.23 (59) |
2.51 (749) |
YES | BA.1.1 (0.0) VOC |
Omicron (BA.1-like) (0.0) |
21K (Omicron) | Number found: 18E:T9I, M:D3G, M:Q19E, M:A63T, N:P13L, N:R14C, N:R203K, N:G204R, ORF1a:K856R, ORF1a:L2084I, ORF1a:A2710T, ORF1a:T3255I, ORF1a:P3395H, ORF1a:I3758V, ORF1b:P314L, ORF1b:I1566V, ORF1b:I1755V, ORF9b:P10S |
Number found: 10N:E31-, N:R32-, N:S33-, ORF1a:S2083-, ORF1a:L3674-, ORF1a:S3675-, ORF1a:G3676-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29- |
Number found: 1S:214:EP |
Number found: 1S:215-1274 |
| 621e1c153189a511e29deb45 | 91.87 (53.8k) |
1.90 (1.1k) |
6.23 (3.6k) |
95.96 (71) |
3.72 (1110) |
YES | BA.2 (0.0) VOC |
Omicron (BA.2-like) (0.0) |
21L (Omicron) | Number found: 53E:T9I, M:Q19E, M:A63T, N:P13L, N:R203K, N:G204R, N:S413R, ORF1a:S135R, ORF1a:T842I, ORF1a:G1307S, ORF1a:A2909V, ORF1a:L3027F, ORF1a:T3090I, ORF1a:L3201F, ORF1a:T3255I, ORF1a:P3395H, ORF1b:P314L, ORF1b:R1315C, ORF1b:I1566V, ORF1b:T2163I, ORF3a:L140F, ORF3a:T223I, ORF6:D61L, ORF9b:P10S, S:T19I, S:A27S, S:G142D, S:V213G, S:D215E, 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 |
Number found: 12N:E31-, N:R32-, N:S33-, ORF1a:S3675-, ORF1a:G3676-, ORF1a:F3677-, ORF9b:E27-, ORF9b:N28-, ORF9b:A29-, S:L24-, S:P25-, S:P26- |
- | - |
| negativeControl (considered control) |
9.79 (336) |
0.17 (6) |
90.04 (3.1k) |
n/a | 100.00 (29903) |
NO | None (-) n/a |
- (-) |
n/a | - | - | - | - |
Read classification was determined against a database containing only SARS-CoV-2 and human with Kraken2 (v2.1.1).
Nucleotide identity, mismatches, Ns and QC pass status were determined with PRESIDENT (v0.6.3).
QC pass criteria are the RKI genome submission requirements: >= 90% identity to NC_045512.2, <= 5% Ns, etc. (PDF in German).
Variant type (VOC, VOI, etc.) was determined from the variants table of SARS-CoV-2-Variants.
Lineage and the corresponding tree resolution conflict measure were determined with Pangolin (v3.1.20 using PangoLEARN data release 2022-02-02).
Constellation and the corresponding tree resolution conflict measure were determined with Scorpio (v0.3.16 using Constellations version 0.1.3).
Clade, mutations, deletions, insertions and frameshifts were determined with Nextclade (v1.10.3 using nextclade data release 2022-02-07).
Coverage plots
Coverage of all samples against the SARS-CoV-2 reference genome (NC_045512.2) determined with minimap2 (v2.17) and fastcov (v0.1.3).
