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GS_006VL3B.1

Display Name: USA/GS_006VL3B.1/2025-08-09
Direct Submission

Submission details

Submission ID
PX400080.1.seg1/PX400081.1.seg3/PX400077.1.seg4/PX400079.1.seg5/PX400082.1.seg6/PX400078.1.seg7/PX400076.1.seg8
Submitting group
Date submitted
2025-10-08 14:41:09 UTC
Date released
2025-10-09 00:13:29 UTC

Authors

Author affiliations
Center for Research on Influenza Pathogenesis (CRIP), CEIRS Data Processing and Coordinating Center

INSDC

Bioproject accession
INSDC accession seg1
INSDC accession seg3
INSDC accession seg4
INSDC accession seg5
INSDC accession seg6
INSDC accession seg7
INSDC accession seg8
NCBI release date
2025-09-22

Clade

Clade HA
6B.1A.5a.2a.1
Clade NA
C.5.3

Alignment states and QC metrics seg1

Completeness seg1
100.00%
Length seg1
2341
Total ambiguous nucs seg1
0
Total deleted nucs seg1
0
Total frame shifts seg1
0
Total inserted nucs seg1
61
Total SNPs seg1
82
Total unknown nucs seg1
0

Alignment states and QC metrics seg3

Completeness seg3
100.00%
Length seg3
2233
Total ambiguous nucs seg3
0
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
82
Total SNPs seg3
76
Total unknown nucs seg3
0

Alignment states and QC metrics seg4

Completeness seg4
100.00%
Length seg4
1778
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
26
Total SNPs seg4
109
Total unknown nucs seg4
0

Alignment states and QC metrics seg5

Completeness seg5
100.00%
Length seg5
1565
Total ambiguous nucs seg5
0
Total deleted nucs seg5
0
Total frame shifts seg5
0
Total inserted nucs seg5
68
Total SNPs seg5
55
Total unknown nucs seg5
0

Alignment states and QC metrics seg6

Completeness seg6
100.00%
Length seg6
1458
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
25
Total SNPs seg6
18
Total unknown nucs seg6
0

Alignment states and QC metrics seg7

Completeness seg7
100.00%
Length seg7
1027
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
45
Total SNPs seg7
29
Total unknown nucs seg7
0

Alignment states and QC metrics seg8

Completeness seg8
100.00%
Length seg8
890
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
27
Total SNPs seg8
33
Total unknown nucs seg8
0

Sample details

Collection country
USA
Collection date
2025-08-09
Isolate name
A/New York City/PX22842/2025

Host

Host name scientific
Homo sapiens
Host taxon id

INSDC seg4

Subtype seg4
H1

INSDC seg6

Subtype seg6
N1

Nucleotide mutations

Mutations called relative to the NC_026438.1, NC_026435.1, NC_026437.1, CY121680.1, NC_026436.1, MW626056.1, NC_026431.1 & NC_026432.1 references

Substitutions

seg1

  • seg1:A18G
  • seg1:A90C
  • seg1:A96G
  • seg1:A108G
  • seg1:A132G
  • seg1:A138G
  • seg1:G161A
  • seg1:A174G
  • seg1:G198A
  • seg1:T201C
  • seg1:A225G
  • seg1:C242T
  • seg1:A243G
  • seg1:C285A
  • seg1:A291G
  • seg1:C309T
  • seg1:G375A
  • seg1:A441G

    • seg3

  • seg3:G40A
  • seg3:R53A
  • seg3:T81C
  • seg3:G84C
  • seg3:A88G
  • seg3:C90T
  • seg3:C99T
  • seg3:A114T
  • seg3:C153T
  • seg3:C162T
  • seg3:C165T
  • seg3:G187A
  • seg3:G204A
  • seg3:G298A
  • seg3:G423A
  • seg3:G477A
  • seg3:G498A
  • seg3:G504A

    • seg4

  • seg4:G2A
  • seg4:C42A
  • seg4:A47G
  • seg4:G57A
  • seg4:A119G
  • seg4:T161C
  • seg4:C164T
  • seg4:G188A
  • seg4:G209A
  • seg4:A231C
  • seg4:C281A
  • seg4:C293G
  • seg4:C318T
  • seg4:G322A
  • seg4:G360A
  • seg4:G416A
  • seg4:A429G
  • seg4:C443T

    • seg5

  • seg5:G42T
  • seg5:C87T
  • seg5:A97G
  • seg5:C141A
  • seg5:C171T
  • seg5:T177C
  • seg5:C180T
  • seg5:C249A
  • seg5:A288C
  • seg5:G298A
  • seg5:G309A
  • seg5:T314C
  • seg5:G315A
  • seg5:R341A
  • seg5:T365A
  • seg5:A390G
  • seg5:T402C
  • seg5:A406C

    • seg6

  • seg6:C164T
  • seg6:T293C
  • seg6:C452A
  • seg6:G607A
  • seg6:A785G
  • seg6:G788A
  • seg6:C809T
  • seg6:A818G
  • seg6:C893T
  • seg6:G914T
  • seg6:A1049G
  • seg6:A1091G
  • seg6:C1187T
  • seg6:A1193G
  • seg6:C1301T
  • seg6:G1365A
  • seg6:T1403C
  • seg6:G1415T

    • seg7

  • seg7:G48A
  • seg7:G75A
  • seg7:T123C
  • seg7:C124A
  • seg7:G238A
  • seg7:G258A
  • seg7:A293G
  • seg7:G306A
  • seg7:G339A
  • seg7:G342A
  • seg7:C375A
  • seg7:T432C
  • seg7:G441T
  • seg7:G492A
  • seg7:C507A
  • seg7:A574G
  • seg7:C622A
  • seg7:G660A

    • seg8

  • seg8:C6A
  • seg8:C42T
  • seg8:C54T
  • seg8:G60A
  • seg8:T99C
  • seg8:C108A
  • seg8:T159C
  • seg8:G163A
  • seg8:C192T
  • seg8:C204T
  • seg8:A238G
  • seg8:G250A
  • seg8:C264T
  • seg8:C268A
  • seg8:C315T
  • seg8:A367G
  • seg8:A375T
  • seg8:A391G
    • Deletions
    None
    Insertions
    ins_seg1:0:AGCAAAAGCAGGTCAAATATATTCAAT, ins_seg1:2280:TGTCGAATTGTTTAAAAACGACCTTGTTTCTACT, ins_seg3:0:AGCAAAAGCAGGTACTGATCCAAA, ins_seg3:2151:TTGTGGCAATGCTACTATTTGCTATCCATATTGTCCAAAAAAGTACCTTGTTTCTACT, ins_seg4:0:AGCAAAAGCAGGG, ins_seg4:1752:CCTTGTTTCTACT, ins_seg5:0:AGCAAAAGCAGGGTAGATAATCACTCAATGAGTGACATCGAAGCC, ins_seg5:1497:AGAAAAATACCCTTGTTTCTACT, ins_seg6:0:AGCAAAAGCAGG,...

    Amino acid mutations

    Mutations called relative to the NC_026438.1, NC_026435.1, NC_026437.1, CY121680.1, NC_026436.1, MW626056.1, NC_026431.1 & NC_026432.1 references

    Substitutions

    HA1

  • HA1:K54Q
  • HA1:S74R
  • HA1:P83S
  • HA1:S84N
  • HA1:D97N
  • HA1:T120A
  • HA1:N129D
  • HA1:K130N
  • HA1:P137S
  • HA1:K142R
  • HA1:N156K
  • HA1:L161I
  • HA1:S162N
  • HA1:K163Q
  • HA1:S164T
  • HA1:S183P
  • HA1:S185I
  • HA1:A186T

    • HA2

  • HA2:E29D
  • HA2:I45V
  • HA2:E47K
  • HA2:I91V
  • HA2:S124H
  • HA2:I133T
  • HA2:E172K
  • HA2:E179D
  • HA2:V193A

    • M1

  • M1:L42I
  • M1:V80I
  • M1:K98R
  • M1:M192V
  • M1:Q208K
  • M1:K230R

    • M2

  • M2:R18K
  • M2:D21G
  • M2:S23N
  • M2:I28T

    • NA

  • NA:S200N
  • NA:V453M
  • NA:K469N

    • NEP

  • NEP:D2E
  • NEP:N29S
  • NEP:T48A
  • NEP:M83I

    • NP

  • NP:E14D
  • NP:I33V
  • NP:V100I
  • NP:M105T
  • NP:X114E
  • NP:L122Q
  • NP:I136L
  • NP:V425I
  • NP:S498N

    • NS1

  • NS1:D2E
  • NS1:E55K
  • NS1:T80A
  • NS1:V84I
  • NS1:L90I
  • NS1:I123V
  • NS1:E125D
  • NS1:K131E
  • NS1:A155T
  • NS1:N205S

    • PA

  • PA:V14I
  • PA:X18E
  • PA:I30V
  • PA:V63I
  • PA:V100I
  • PA:P224S
  • PA:S225C
  • PA:R262K
  • PA:N321K
  • PA:I330V
  • PA:A337T
  • PA:K339N
  • PA:R362K
  • PA:I438V
  • PA:I505V

    • PA-X

  • PA-X:V14I
  • PA-X:X18E
  • PA-X:I30V
  • PA-X:V63I
  • PA-X:V100I
  • PA-X:R199K
  • PA-X:N204S
  • PA-X:R206K
  • PA-X:R221Q
  • PA-X:L229S

    • PB2

  • PB2:R54K
  • PB2:M66I
  • PB2:T81M
  • PB2:D195N
  • PB2:G225S
  • PB2:R293K
  • PB2:R299K
  • PB2:V344M
  • PB2:I354L
  • PB2:S453T
  • PB2:L475M
  • PB2:V667I
  • PB2:V731I

    • SigPep

  • SigPep:L8M
  • SigPep:A13T
    • Deletions
    None
    Insertions
    None