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GSD_000MSC9.1

USA/GSD_000MSC9.1/2026-05-31
M. Kirby, R. Garten, T. Davis & V. Dugan

Centers for Disease Control and Prevention, Influenza Division

Submission details

Submission ID
PZ977527.1.seg2/PZ977528.1.seg3/PZ977522.1.seg4/PZ977521.1.seg5/PZ977519.1.seg6/PZ977523.1.seg7/PZ977533.1.seg8
Submitting group
Date submitted
2026-09-16 05:05:11 UTC
Date released
2026-09-16 05:27:22 UTC

INSDC

bioprojectAccession
INSDC accession seg2
INSDC accession seg3
INSDC accession seg4
INSDC accession seg5
INSDC accession seg6
INSDC accession seg7
INSDC accession seg8
NCBI release date
2026-09-10

Clade

Clade HA
V1A.3a.2
Clade NA
B.7.1

Sample details

Collection country
USA
Collection subdivision level 1
Arizona
Collection date
2026-05-31
Isolate name
B/Arizona/27/2026

INSDC seg4

lineage_seg4
vic

Alignment and QC

Length seg2
2367 (100%)
Total inserted nucs seg2
9
Total SNPs seg2
49
Length seg3
2275 (100%)
Total inserted nucs seg3
30
Total SNPs seg3
50
Length seg4
1847 (98.5%)
Total deleted nucs seg4
9
Total SNPs seg4
52
Length seg5
1815 (100%)
Total inserted nucs seg5
65
Total SNPs seg5
32
Length seg6
1529 (100%)
Total inserted nucs seg6
128
Total SNPs seg6
36
Length seg7
1154 (100%)
Total inserted nucs seg7
7
Total SNPs seg7
23
Length seg8
1066 (99.6%)
Total inserted nucs seg8
4
Total SNPs seg8
26

Nucleotide mutations

Mutations called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

Substitutions

seg2

  • G12A
  • A54G
  • G81A
  • T171C
  • T240C
  • T300A
  • T330C
  • C342T
  • A405G
  • G441A
  • G447A
  • C513T
  • A561G
  • A576G
  • T586C
  • A594G
  • G663A
  • A705G

seg3

  • T111C
  • C117T
  • T297C
  • T339C
  • G414A
  • T423C
  • T471C
  • G549A
  • A618G
  • T654C
  • A771G
  • C813T
  • G867A
  • G888A
  • C897T
  • A935G
  • G936A
  • A987G

seg4

  • T159C
  • C252A
  • C270T
  • G297A
  • G312T
  • A318G
  • C375T
  • C378T
  • A427G
  • C441T
  • T444C
  • C453T
  • G457A
  • G460A
  • A463G
  • A484G
  • C509T
  • T510C

seg5

  • C3T
  • T46C
  • C178T
  • A224G
  • A235G
  • T298C
  • C313T
  • G361A
  • A373G
  • C380T
  • A454G
  • C523T
  • C608T
  • A634G
  • T742C
  • A763G
  • C841T
  • A851G

seg6

  • T9C
  • C125A
  • T155C
  • T212C
  • C227A
  • C317T
  • C318A
  • A358G
  • C394T
  • C399T
  • C429T
  • A504G
  • C519T
  • A557G
  • A660C
  • T714A
  • C769A
  • C849T

seg7

  • C33T
  • C46T
  • A83G
  • T125A
  • G371A
  • A377G
  • A419G
  • G482A
  • G500T
  • T515C
  • G521A
  • A524G
  • G536A
  • C542T
  • A566G
  • C656T
  • G668A
  • A919G

seg8

  • G26A
  • C91T
  • A118G
  • T163C
  • G190A
  • A322G
  • T341C
  • A352C
  • T391C
  • T400C
  • C419T
  • A426G
  • C604T
  • A610T
  • C632T
  • G661A
  • G685A
  • T775C
Deletions

seg4

562-570
Insertions

seg2

ins_0:GTTTTC, ins_2358:AAT

seg3

ins_0:GTTTGATTTATCATA, ins_2241:AGAAAC, ins_2245:ATCAAAAAT

seg5

ins_0:ATTTTCTTGTAAACTCCA, ins_1750:CGTTTGGAATATGGGTGTTTATTCTCATTAAAATAAATATAAAAAAT

seg6

ins_0:ATCTTCTCAAAACTGAAGCAAATAGGCCAAAAAATGAACA, ins_1401:TGGGGGAGTGGTTAAGTCTGTTCTAAACCCTTTGTTCCTATTTTATTTGAACAATTGTCCTTGCTAAACTTAATTGTTTCTGAAAAAT

seg7

ins_0:TCTTA, ins_1147:AA

seg8

ins_1066:TAAA

Amino acid substitutions

Substitutions called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

Substitutions

HA1

  • HA1:I117V
  • HA1:A127T
  • HA1:E128K
  • HA1:N129D
  • HA1:K136E
  • HA1:P144L
  • HA1:N150K
  • HA1:A154E
  • HA1:G184E
  • HA1:A199T
  • HA1:K203R
  • HA1:R279K

HA2

  • HA2:N46D

M1

  • M1:T15I

NA

  • NA:P42Q
  • NA:L52S
  • NA:V71A
  • NA:P76Q
  • NA:T106I
  • NA:I120V
  • NA:K186R
  • NA:K220N
  • NA:S295K
  • NA:N340D
  • NA:K343E
  • NA:E358K
  • NA:G378E
  • NA:D384G
  • NA:A395I
  • NA:V401I

NEP

  • NEP:L30S
  • NEP:S93P
  • NEP:V115I

NP

  • NP:T66A
  • NP:T275A
  • NP:V453A

NS1

  • NS1:Y104H
  • NS1:K107N
  • NS1:L130F
  • NS1:D132G
  • NS1:H201Y

PA

  • PA:K312R
  • PA:T352A
  • PA:Q357H
  • PA:Y458F
  • PA:S530T
  • PA:S547G
  • PA:G673S
  • PA:F709I
  • PA:N714S
  • PA:I723V

PB2

  • PB2:X303I
  • PB2:I492T
  • PB2:X582E
Deletions

HA1

HA1:162-164
Insertions
N/A