GS_00J1PNE.1

USA/GS_00J1PNE.1/2026-06-18
A. Rothstein, G. Muir, A. Sum, A. Simas, B. Lu, B. Girinathan, H. Mammadova, P. Leeson & D. Gratalo

Perimeter

Submission details

Submission ID
PZ653937.1.seg1/PZ653938.1.seg2/PZ653936.1.seg3/PZ653931.1.seg4/PZ653934.1.seg5/PZ653933.1.seg6/PZ653932.1.seg7/PZ653935.1.seg8
Submitting group
Date submitted
2026-07-09 05:01:37 UTC
Date released
2026-07-09 05:02:04 UTC

INSDC

bioprojectAccession
INSDC accession seg1
INSDC accession seg2
INSDC accession seg3
INSDC accession seg4
INSDC accession seg5
INSDC accession seg6
INSDC accession seg7
INSDC accession seg8
NCBI release date
2026-07-07

Clade

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

Sample details

Collection country
USA
Collection subdivision level 1
New York
Collection date
2026-06-18
Isolate name
B/New York/GKISBBBJ79800/2026

INSDC seg4

lineage_seg4
vic

Alignment and QC

Length seg1
2356 (100%)
Total inserted nucs seg1
22
Total SNPs seg1
40
Length seg2
2383 (100%)
Total inserted nucs seg2
25
Total SNPs seg2
46
Length seg3
2290 (100%)
Total inserted nucs seg3
45
Total SNPs seg3
45
Length seg4
1849 (98.6%)
Total deleted nucs seg4
9
Total SNPs seg4
49
Length seg5
1828 (100%)
Total inserted nucs seg5
78
Total SNPs seg5
34
Length seg6
1543 (100%)
Total inserted nucs seg6
142
Total SNPs seg6
35
Length seg7
1170 (100%)
Total inserted nucs seg7
23
Total SNPs seg7
20
Length seg8
1083 (99.6%)
Total inserted nucs seg8
21
Total SNPs seg8
23

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

seg1

  • C113T
  • A200G
  • T219C
  • G251A
  • G383A
  • T386C
  • C434T
  • T522C
  • C528A
  • C746A
  • A764G
  • C830T
  • C854T
  • A950G
  • T962C
  • T968C
  • C1037T
  • G1064A

seg2

  • G12A
  • A54G
  • G81A
  • T171C
  • G193A
  • T240C
  • T300A
  • T330C
  • C342T
  • A405G
  • G441A
  • G447A
  • A576G
  • T586C
  • A594G
  • A705G
  • G768A
  • A801G

seg3

  • T111C
  • C117T
  • T339C
  • G414A
  • T423C
  • G549A
  • A618G
  • T654C
  • A771G
  • C813T
  • G867A
  • G888A
  • C897T
  • A935G
  • G936A
  • A987G
  • C1006T
  • A1054G

seg4

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

seg5

  • C3T
  • T46C
  • C172T
  • C178T
  • A224G
  • A235G
  • T298C
  • C313T
  • G361A
  • A373G
  • C380T
  • G435A
  • A454G
  • C523T
  • C608T
  • A634G
  • T742C
  • A763G

seg6

  • T9C
  • C125A
  • T155C
  • T212C
  • C318A
  • A358G
  • C394T
  • C399T
  • C429T
  • A504G
  • C519T
  • A557G
  • A660C
  • T714A
  • G825A
  • C849T
  • T879C
  • T885G

seg7

  • C33T
  • C46T
  • A83G
  • T125A
  • A377G
  • A419G
  • G482A
  • G500T
  • T515C
  • G521A
  • A524G
  • G536A
  • C542T
  • A566G
  • C656T
  • G668A
  • A919G
  • C928T
  • A967G
  • T1075C

seg8

  • G26A
  • A118G
  • T163C
  • G190A
  • T341C
  • A352C
  • T391C
  • T400C
  • T401C
  • C419T
  • A426G
  • C604T
  • A610T
  • C632T
  • G652A
  • G661A
  • G685A
  • T775C
Deletions

seg4

562-570
Insertions

seg1

ins_0:GCCTTTA, ins_2334:GGCTCGTGTTTCTAC

seg2

ins_0:GCGTTTTC, ins_2358:AATGCTCGTGTTTCTAC

seg3

ins_0:GCGTTTGATTTATCATA, ins_2241:AGAAAC, ins_2245:ATCAAAAATGCTCGTGTTTCTA

seg5

ins_0:GCATTTTCTTGTAAACTCCA, ins_1750:CGTTTGGAATATGGGTGTTTATTCTCATTAAAATAAATATAAAAAATGCTGTTGTTTC

seg6

ins_0:ATCTTCTCAAAACTGAAGCAAATAGGCCAAAAAATGAACA, ins_1401:TGGGGGAGTGGTTAAGTCTGTTCTAAACCCTTTGTTCCTATTTTATTTGAACAATTGTCCTTACTAAACTTAATTGTTTCTGAAAAATGCTCTTGTTACTAC

seg7

ins_0:TTCTTA, ins_1147:AAAAGTGCGTTGTTTCT

seg8

ins_1066:TAAAAATCCTCTTGTTACTAC

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:M156V
  • HA1:G184E
  • HA1:A199T
  • HA1:K203R
  • HA1:R279K

M1

  • M1:T15I

NA

  • NA:P42Q
  • NA:L52S
  • NA:V71A
  • NA:I120V
  • NA:K186R
  • NA:K220N
  • NA:S295R
  • NA:N340D
  • NA:K343E
  • NA:E358K
  • NA:G378E
  • NA:D384G
  • NA:S391N
  • NA:A395I
  • NA:V401I

NEP

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

NP

  • NP:T66A
  • NP:R136K
  • NP:V453A

NS1

  • NS1:Y104H
  • NS1:K107N
  • NS1:S124P
  • NS1:L130F
  • NS1:D132G
  • NS1:H201Y

PA

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

PB1

  • PB1:V474I
  • PB1:V590I

PB2

  • PB2:G64S
  • PB2:X303I
  • PB2:I492T
  • PB2:X582E
Deletions

HA1

HA1:162-164
Insertions
N/A