GS_00G4PDV.1

USA/GS_00G4PDV.1/2025-08-11
A. P. Rothstein, S. Collins, G. Muir, A. Simas, B. Lu, B. Cosca, B. Girinathan, P. Leeson, A. M. Plocik & B. Simen

Ginkgo Bioworks, Ginkgo Biosecurity

Submission details

Submission ID
PX422909.1.seg1/PX422908.1.seg3/PX422903.1.seg4/PX422906.1.seg5/PX422905.1.seg6/PX422904.1.seg7/PX422907.1.seg8
Submitting group
Date submitted
2025-09-27 09:34:34 UTC
Date released
2025-09-27 09:40:39 UTC

Clade

Clade HA
D.3.1
Clade NA
D.1

Sample details

Collection country
USA
Collection subdivision level 1
New York
Collection date
2025-08-11
Isolate name
A/New York/GKISBBBG69186/2025

Host

Host

INSDC

INSDC accession seg1
INSDC accession seg3
INSDC accession seg4
INSDC accession seg5
INSDC accession seg6
INSDC accession seg7
INSDC accession seg8
NCBI release date
2025-09-26

INSDC seg4

subtype_seg4
H1

INSDC seg6

subtype_seg6
N1

Alignment and QC

Length seg1
2318 (100%)
Total inserted nucs seg1
38
Total SNPs seg1
87
Length seg3
2208 (100%)
Total inserted nucs seg3
57
Total SNPs seg3
79
Length seg4
1752 (100%)
Total SNPs seg4
107
Length seg5
1542 (100%)
Total inserted nucs seg5
45
Total SNPs seg5
63
Length seg6
1433 (100%)
Total SNPs seg6
22
Length seg7
1002 (100%)
Total inserted nucs seg7
20
Total SNPs seg7
30
Length seg8
878 (100%)
Total inserted nucs seg8
15
Total SNPs seg8
33

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

  • A18G
  • G66A
  • A90C
  • A96G
  • A108G
  • A132G
  • A138G
  • G161A
  • A174G
  • T201C
  • A225G
  • A226T
  • C242T
  • A243G
  • C261T
  • C285A
  • A291G
  • C309T

seg3

  • A21G
  • G40A
  • R53A
  • T81C
  • G84C
  • A88G
  • C90T
  • C99T
  • A114T
  • C153T
  • C162T
  • C165T
  • G187A
  • G204A
  • G298A
  • G423A
  • G477A
  • G498A

seg4

  • C42A
  • A47G
  • G57A
  • A119G
  • T161C
  • C164T
  • G188A
  • A231C
  • C281A
  • C293G
  • C318T
  • G322A
  • G360A
  • G416A
  • A429G
  • C443T
  • A456G
  • A461T

seg5

  • A33G
  • G42T
  • C87T
  • A97G
  • C141A
  • C171T
  • T177C
  • C180T
  • C249A
  • A288C
  • G296A
  • G298A
  • C303T
  • G309A
  • T314C
  • G315A
  • R341A
  • A345G

seg6

  • C20T
  • C285T
  • C301T
  • C452A
  • C571T
  • G607A
  • A785G
  • T799C
  • A818G
  • G867A
  • C874T
  • C893T
  • G914T
  • T923C
  • A1049G
  • C1187T
  • A1193G
  • A1208G

seg7

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

seg8

  • C6A
  • C42T
  • C54T
  • G60A
  • T99C
  • C108A
  • T159C
  • G163A
  • C192T
  • C204T
  • A238G
  • G250A
  • C264T
  • C268A
  • C315T
  • A367G
  • A375T
  • A391G
Deletions
N/A
Insertions

seg1

ins_0:GGTCAAATATATTCAAT, ins_2280:TGTCGAATTGTTTAAAAACGA

seg3

ins_0:TACTGATCCAAA, ins_2151:TTGTGGCAATGCTACTATTTGCTATCCATATTGTCCAAAAAAGTA

seg5

ins_0:GGGTAGATAATCACTCAATGAGTGACATCGAAGCC, ins_1497:AGAAAAATAC

seg7

ins_0:TAGATGTTTAAAG, ins_982:AAAACTA

seg8

ins_0:GTGACAAAAACATA, ins_863:T

Amino acid substitutions

Substitutions 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:P93S
  • NA:A98V
  • NA:T188I
  • NA:S200N
  • NA:I264T
  • NA:E287K
  • NA:T289I
  • NA:V453M
  • NA:K469N

NEP

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

NP

  • NP:E14D
  • NP:I33V
  • NP:R99K
  • NP:V100I
  • NP:M105T
  • NP:X114E
  • NP:L122Q
  • NP:I136L
  • NP:V217I
  • 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:T76S
  • PB2:T81M
  • PB2:K187R
  • PB2:D195N
  • PB2:G225S
  • PB2:R293K
  • PB2:R299K
  • PB2:V344M
  • PB2:I354L
  • PB2:S453T
  • PB2:L475M
  • PB2:I559M
  • PB2:V667I
  • PB2:V731I

SigPep

  • SigPep:L8M
  • SigPep:A13T
Deletions
N/A
Insertions
N/A