GS_00JYS5H.1

USA/GS_00JYS5H.1/2026-09-30
E. B. Fox, J. M. Garrigues & N. M. Green

Los Angeles County Public Health Lab microbial pathogen submission group, Los Angeles County Public Health Laboratories

Submission details

Submission ID
QB275536.1.seg1/QB275537.1.seg2/QB275538.1.seg3/QB275539.1.seg4/QB275540.1.seg5/QB275541.1.seg6/QB275542.1.seg7/QB275543.1.seg8
Submitting group
Date submitted
2026-11-04 03:53:13 UTC
Date released
2026-11-04 03:53:51 UTC

INSDC

bioprojectAccession
biosampleAccession
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
2026-11-02

Clade

Clade HA
K
Clade NA
None

Sample details

Collection country
USA
Collection subdivision level 1
California
Collection date
2026-09-30
Isolate name
A/California/LACPHL-INF02866/2026

Host

Host

INSDC seg4

subtype_seg4
H3

INSDC seg6

subtype_seg6
N2

Alignment and QC

Length seg1
2278 (97.3%)
Total SNPs seg1
106
Length seg2
2256 (96.3%)
Total ambiguous nucs seg2
1
Total SNPs seg2
112
Length seg3
2151 (96.3%)
Total SNPs seg3
93
Length seg4
1701 (97.9%)
Total SNPs seg4
122
Length seg5
1491 (95.2%)
Total SNPs seg5
57
Length seg6
1410 (98%)
Total SNPs seg6
21
Length seg7
979 (95.3%)
Total SNPs seg7
29
Length seg8
827 (92.9%)
Total SNPs seg8
31

Nucleotide mutations

Mutations called relative to the NC_007373.1, NC_007372.1, NC_007371.1, CY163680.1, NC_007369.1, CY114383.1, NC_007367.1 & NC_007370.1 references

Substitutions

seg1

  • G51A
  • C54T
  • G57A
  • T75C
  • G87A
  • C192T
  • C198T
  • T255C
  • G272A
  • A282G
  • C289A
  • A336G
  • G342T
  • G343A
  • G347A
  • A369G
  • G375A
  • A402G

seg2

  • A45G
  • C46T
  • G57A
  • C84A
  • A129G
  • A132T
  • A135G
  • C141T
  • T171C
  • G180A
  • G186A
  • A213T
  • A219G
  • G258A
  • C282T
  • C306T
  • T327C
  • G336A

seg3

  • A99G
  • A120C
  • C144T
  • A156G
  • T174C
  • T177C
  • G210A
  • T222C
  • G243A
  • A324T
  • A333G
  • C340T
  • A342G
  • A345G
  • T349C
  • G363A
  • T369C
  • A396G

seg4

  • A24G
  • T42A
  • G56T
  • A71C
  • C72A
  • T74A
  • C77T
  • C89T
  • G155A
  • A163G
  • C189T
  • G199A
  • C203A
  • C208T
  • G213A
  • G214A
  • G222A
  • A250G

seg5

  • G81A
  • G96A
  • G207A
  • G219A
  • C249T
  • G270A
  • A345C
  • A351G
  • G390A
  • G432T
  • G436T
  • T447C
  • A451C
  • C459T
  • G492A
  • A513G
  • T525C
  • A582C

seg6

  • C40T
  • A64G
  • T100C
  • G251A
  • T325C
  • C349A
  • G456A
  • C575T
  • A603C
  • C797A
  • C832A
  • T1015C
  • A1044G
  • A1079G
  • A1160G
  • A1167C
  • G1206A
  • C1249A

seg7

  • A37T
  • C188T
  • G205A
  • G214T
  • A241G
  • T292C
  • T298C
  • T316C
  • G343A
  • A448G
  • A466G
  • A481G
  • C493T
  • A517G
  • G523A
  • G616A
  • A637G
  • A658G

seg8

  • C53T
  • G83A
  • G102A
  • A104C
  • C116T
  • C123A
  • T125C
  • G192T
  • T205C
  • T218C
  • A238G
  • T271C
  • C275G
  • G353A
  • G398A
  • G416A
  • G430A
  • A442G
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_007373.1, NC_007372.1, NC_007371.1, CY163680.1, NC_007369.1, CY114383.1, NC_007367.1 & NC_007370.1 references

Substitutions

HA1

  • HA1:K2N
  • HA1:L3I
  • HA1:Q33R
  • HA1:S45N
  • HA1:T48I
  • HA1:G50K
  • HA1:D53N
  • HA1:E62G
  • HA1:K83E
  • HA1:K92R
  • HA1:Y94N
  • HA1:N96S
  • HA1:N121K
  • HA1:T131K
  • HA1:T135K
  • HA1:S138A
  • HA1:R142G
  • HA1:N145S

HA2

  • HA2:I32R
  • HA2:N46D
  • HA2:I77V
  • HA2:R121K
  • HA2:G155E
  • HA2:D160N
  • HA2:I193M
  • HA2:V200I

M1

  • M1:V219I

M2

  • M2:P25L
  • M2:S31N
  • M2:L54F
  • M2:N82S

NA

  • NA:A82T
  • NA:R150H
  • NA:K199T
  • NA:H264N
  • NA:D346G
  • NA:N358D
  • NA:N385D
  • NA:K387T
  • NA:R400K
  • NA:H468R
  • NA:I469T

NP

  • NP:A131S
  • NP:I136L
  • NP:V197I
  • NP:R236K
  • NP:E421D
  • NP:T472A

NS1

  • NS1:E26N
  • NS1:L33I
  • NS1:A56S
  • NS1:V60A
  • NS1:E71G
  • NS1:V82A
  • NS1:M124I
  • NS1:S135N
  • NS1:D139G
  • NS1:I171V
  • NS1:L185F
  • NS1:K221E
  • NS1:K229E

PA

  • PA:N142K
  • PA:I155M
  • PA:K158R
  • PA:S208T
  • PA:K222N
  • PA:K256Q
  • PA:N272S
  • PA:I311M
  • PA:Y321C
  • PA:D382E
  • PA:D396E
  • PA:N409S
  • PA:I421V
  • PA:Y437H
  • PA:I602V
  • PA:K605R
  • PA:V668I
  • PA:N675K

PA-X

  • PA-X:N142K
  • PA-X:I155M
  • PA-X:K158R
  • PA-X:E209G
  • PA-X:V212A
  • PA-X:N222T

PB1

  • PB1:V113A
  • PB1:V423I
  • PB1:L576I
  • PB1:R586K
  • PB1:A587T
  • PB1:E618D
  • PB1:N667I
  • PB1:*758Q

PB1-F2

  • PB1-F2:E4G
  • PB1-F2:Q5L
  • PB1-F2:D6G
  • PB1-F2:P8L
  • PB1-F2:I18T
  • PB1-F2:R21K
  • PB1-F2:S23N
  • PB1-F2:H32L
  • PB1-F2:N34S
  • PB1-F2:S47N
  • PB1-F2:T55I
  • PB1-F2:S63F
  • PB1-F2:V70A
  • PB1-F2:R73K
  • PB1-F2:H75L
  • PB1-F2:S82P
  • PB1-F2:K85R
  • PB1-F2:W88*

PB2

  • PB2:S82N
  • PB2:A106T
  • PB2:S107N
  • PB2:I147T
  • PB2:T184S
  • PB2:E249G
  • PB2:K340R
  • PB2:E341D
  • PB2:K353R
  • PB2:I394V
  • PB2:I451V
  • PB2:V560I
  • PB2:I588T
  • PB2:T613A

SigPep

  • SigPep:T3A
  • SigPep:Y9N
Deletions
N/A
Insertions
N/A