GS_00F3PT3.1

Display Name: USA/GS_00F3PT3.1/2025-07-30
A. P. Rothstein, S. Collins, G. Muir, A. Simas, B. Lu, B. Cosca, B. Girinathan, P. Leeson, A. M. Plocik & B. Simen

Submission details

Submission ID
PX103440.1.seg1/PX103439.1.seg2/PX103438.1.seg3/PX103433.1.seg4/PX103436.1.seg5/PX103435.1.seg6/PX103434.1.seg7/PX103437.1.seg8
Submitting group
Date submitted
2025-08-12 17:03:59 UTC
Date released
2025-08-13 09:14:36 UTC

Authors

Author affiliations
Ginkgo Bioworks, Ginkgo Biosecurity

Clade

Clade HA
3C.2a1b.2a.2a.3a.1
Clade NA
B.4.2

Alignment states and QC metrics seg1

Completeness seg1
99.02%
Length seg1
2318
Total ambiguous nucs seg1
0
Total deleted nucs seg1
0
Total frame shifts seg1
0
Total inserted nucs seg1
0
Total SNPs seg1
105
Total unknown nucs seg1
0

Alignment states and QC metrics seg2

Completeness seg2
99.02%
Length seg2
2318
Total ambiguous nucs seg2
0
Total deleted nucs seg2
0
Total frame shifts seg2
0
Total inserted nucs seg2
0
Total SNPs seg2
108
Total unknown nucs seg2
0

Alignment states and QC metrics seg3

Completeness seg3
98.70%
Length seg3
2204
Total ambiguous nucs seg3
0
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
0
Total SNPs seg3
90
Total unknown nucs seg3
0

Alignment states and QC metrics seg4

Completeness seg4
100.00%
Length seg4
1737
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
118
Total unknown nucs seg4
0

Alignment states and QC metrics seg5

Completeness seg5
98.53%
Length seg5
1543
Total ambiguous nucs seg5
0
Total deleted nucs seg5
0
Total frame shifts seg5
0
Total inserted nucs seg5
0
Total SNPs seg5
57
Total unknown nucs seg5
0

Alignment states and QC metrics seg6

Completeness seg6
100.00%
Length seg6
1444
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
8
Total SNPs seg6
77
Total unknown nucs seg6
0

Alignment states and QC metrics seg7

Completeness seg7
97.76%
Length seg7
1004
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
0
Total SNPs seg7
24
Total unknown nucs seg7
0

Alignment states and QC metrics seg8

Completeness seg8
98.65%
Length seg8
878
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
0
Total SNPs seg8
31
Total unknown nucs seg8
0

Sample details

Collection country
USA
Collection subdivision level 1
New York
Collection date
2025-07-30
Isolate name
A/New York/GKISBBBG70245/2025

Host

Host name scientific
Homo sapiens
Host taxon id

INSDC

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
2025-08-08

INSDC seg4

Subtype seg4
H3

INSDC seg6

Subtype seg6
N2

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

  • seg1:T27C
  • seg1:C54T
  • seg1:G57A
  • seg1:T75C
  • seg1:G87A
  • seg1:C192T
  • seg1:C198T
  • seg1:T255C
  • seg1:A282G
  • seg1:C289A
  • seg1:A330G
  • seg1:A336G
  • seg1:G343A
  • seg1:G347A
  • seg1:A369G
  • seg1:G375A
  • seg1:A402G
  • seg1:T417C

    • seg2

  • seg2:C46T
  • seg2:G57A
  • seg2:C84A
  • seg2:A129G
  • seg2:A132T
  • seg2:A135G
  • seg2:C141T
  • seg2:T171C
  • seg2:A179G
  • seg2:G180A
  • seg2:A213T
  • seg2:A219G
  • seg2:G258A
  • seg2:C282T
  • seg2:C306T
  • seg2:T327C
  • seg2:G336A
  • seg2:A342T

    • seg3

  • seg3:G22A
  • seg3:A99G
  • seg3:A120C
  • seg3:C144T
  • seg3:A156G
  • seg3:T174C
  • seg3:T177C
  • seg3:G210A
  • seg3:T222C
  • seg3:G243A
  • seg3:A324T
  • seg3:A333G
  • seg3:C340T
  • seg3:A342G
  • seg3:A345G
  • seg3:G363A
  • seg3:T369C
  • seg3:A396G

    • seg4

  • seg4:A24G
  • seg4:T42A
  • seg4:G56T
  • seg4:C72A
  • seg4:T74A
  • seg4:C77T
  • seg4:C89T
  • seg4:G155A
  • seg4:A163G
  • seg4:C189T
  • seg4:G199A
  • seg4:C203A
  • seg4:C208T
  • seg4:G213A
  • seg4:G214A
  • seg4:G222A
  • seg4:A250G
  • seg4:A251G

    • seg5

  • seg5:A16G
  • seg5:C29T
  • seg5:A40C
  • seg5:G81A
  • seg5:G96A
  • seg5:G207A
  • seg5:G219A
  • seg5:C249T
  • seg5:A345C
  • seg5:A351G
  • seg5:G390A
  • seg5:G432T
  • seg5:G436T
  • seg5:T447C
  • seg5:A451C
  • seg5:C459T
  • seg5:G492A
  • seg5:A513G

    • seg6

  • seg6:C36T
  • seg6:C51A
  • seg6:A60G
  • seg6:T88C
  • seg6:T96C
  • seg6:C144T
  • seg6:C205T
  • seg6:C216T
  • seg6:T245C
  • seg6:G270A
  • seg6:A280G
  • seg6:A281G
  • seg6:T303C
  • seg6:C345A
  • seg6:C380T
  • seg6:G408A
  • seg6:C429T
  • seg6:G442A

    • seg7

  • seg7:A37T
  • seg7:C188T
  • seg7:G205A
  • seg7:G214T
  • seg7:A241G
  • seg7:T298C
  • seg7:A466G
  • seg7:A481G
  • seg7:C493T
  • seg7:A517G
  • seg7:G523A
  • seg7:A637G
  • seg7:A658G
  • seg7:G680A
  • seg7:C697T
  • seg7:T703C
  • seg7:C787T
  • seg7:G805A

    • seg8

  • seg8:C53T
  • seg8:G83A
  • seg8:G102A
  • seg8:A104C
  • seg8:C116T
  • seg8:C123A
  • seg8:T125C
  • seg8:G192T
  • seg8:T205C
  • seg8:T218C
  • seg8:A238G
  • seg8:T271C
  • seg8:C275G
  • seg8:G353A
  • seg8:G398A
  • seg8:G416A
  • seg8:G430A
  • seg8:A442G
    • Deletions
    None
    Insertions
    ins_seg6:0:GGAGTA, ins_seg6:1436:CT

    Amino acid 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

    HA1

  • 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:N144S
  • HA1:N145S

    • HA2

  • HA2:I32R
  • HA2:N46D
  • HA2:N49S
  • 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:L81P
  • NA:N93G
  • NA:P126L
  • NA:D147N
  • NA:V194I
  • NA:I215V
  • NA:K220N
  • NA:E221D
  • NA:S245N
  • NA:S247T
  • NA:H264N
  • NA:T267K
  • NA:L285P
  • NA:V303I
  • NA:Y310H
  • NA:S315R
  • NA:N329S
  • NA:D339N

    • NP

  • NP:A131S
  • NP:I136L
  • NP:V197I
  • NP:R236K
  • NP:R400K
  • 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:K52R
  • 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:R21E
  • 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:A106T
  • PB2:S107N
  • PB2:I147T
  • PB2:E249G
  • PB2:K340R
  • PB2:E341D
  • PB2:K353R
  • PB2:I394V
  • PB2:I451V
  • PB2:M473T
  • PB2:V560I
  • PB2:I588T
  • PB2:T613A

    • SigPep

  • SigPep:T3A
  • SigPep:Y9N
    • Deletions
    None
    Insertions
    None