GS_00G4B4R.3

USA/GS_00G4B4R.3/2025-08-06

Direct Submission

Center for Research on Influenza Pathogenesis (CRIP), CEIRS Data Processing and Coordinating Center

Submission details

Submission ID

PX400121.1.seg1/PX468504.1.seg2/PX400118.1.seg3/PX400122.1.seg4/PX400123.1.seg5/PX400124.1.seg6/PX400120.1.seg7/PX400119.1.seg8

Submitting group

Automated Ingest from INSDC/NCBI Virus by Loculus

Date submitted

2026-01-19 09:53:38 UTC

Date released

2026-01-19 23:09:32 UTC

INSDC

Bioproject accession

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

2025-09-22

Clade

Clade HA

D.3.1

Clade NA

Sample details

Collection country

USA

Collection date

2025-08-06

Isolate name

A/New York City/PX22901/2025

Host

Homo sapiens

INSDC seg4

Subtype seg4

INSDC seg6

Subtype seg6

Alignment and QC

Length seg1

2341 (100%)

Total inserted nucs seg1

Total SNPs seg1

Length seg2

2341 (100%)

Total inserted nucs seg2

Total SNPs seg2

Length seg3

2233 (100%)

Total inserted nucs seg3

Total SNPs seg3

Length seg4

1777 (100%)

Total inserted nucs seg4

Total SNPs seg4

111

Length seg5

1565 (100%)

Total inserted nucs seg5

Total SNPs seg5

Length seg6

1459 (100%)

Total inserted nucs seg6

Total SNPs seg6

Length seg7

1027 (100%)

Total inserted nucs seg7

Total SNPs seg7

Length seg8

890 (100%)

Total inserted nucs seg8

Total SNPs seg8

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

seg1:A18G

seg1:A90C

seg1:A96G

seg1:A108G

seg1:A132G

seg1:A138G

seg1:G161A

seg1:A174G

seg1:G198A

seg1:T201C

seg1:A225G

seg1:C242T

seg1:A243G

seg1:C285A

seg1:A291G

seg1:G375A

seg1:A441G

seg1:T459C

seg2

seg2:G42A

seg2:A63G

seg2:T81C

seg2:A159G

seg2:G168A

seg2:G180A

seg2:C192A

seg2:G204A

seg2:T207A

seg2:T210C

seg2:T222C

seg2:G225A

seg2:C297T

seg2:G312A

seg2:A345G

seg2:A366G

seg2:T384C

seg2:C447T

seg3

seg3:G40A

seg3:R53A

seg3:A56G

seg3:T81C

seg3:G84C

seg3:A88G

seg3:C90T

seg3:C99T

seg3:A114T

seg3:C153T

seg3:C162T

seg3:C165T

seg3:G187A

seg3:G204A

seg3:G298A

seg3:G423A

seg3:C468T

seg3:G477A

seg4

seg4:A38G

seg4:C42A

seg4:A47G

seg4:G57A

seg4:A119G

seg4:T161C

seg4:C164T

seg4:G188A

seg4:A231C

seg4:C281A

seg4:C293G

seg4:C318T

seg4:G322A

seg4:G360A

seg4:G409A

seg4:G416A

seg4:A429G

seg4:C443T

seg5

seg5:G42T

seg5:C87T

seg5:A97G

seg5:C132T

seg5:C141A

seg5:C171T

seg5:T177C

seg5:C180T

seg5:C249A

seg5:A288C

seg5:G298A

seg5:G309A

seg5:T314C

seg5:G315A

seg5:R341A

seg5:T365A

seg5:A390G

seg5:T402C

seg6

seg6:T72C

seg6:C285T

seg6:A392G

seg6:T413C

seg6:C452A

seg6:G607A

seg6:G659A

seg6:C728A

seg6:G748A

seg6:A785G

seg6:T799C

seg6:A818G

seg6:C893T

seg6:G914T

seg6:C929T

seg6:G950A

seg6:T1016C

seg6:A1049G

seg7

seg7:C42A

seg7:G75A

seg7:C124A

seg7:G238A

seg7:G258A

seg7:G284A

seg7:A293G

seg7:G306A

seg7:G339A

seg7:G342A

seg7:C375A

seg7:C390T

seg7:T432C

seg7:G441T

seg7:G492A

seg7:C507A

seg7:A574G

seg7:C622A

seg8

seg8:C6A

seg8:C42T

seg8:C54T

seg8:T99C

seg8:C108A

seg8:T159C

seg8:G163A

seg8:C192T

seg8:C204T

seg8:A226T

seg8:A238G

seg8:G250A

seg8:C264T

seg8:C268A

seg8:C315T

seg8:A367G

seg8:A375T

seg8:A391G

Deletions

None

Insertions

ins_seg1:0:AGCAAAAGCAGGTCAAATATATTCAAT, ins_seg1:2280:TGTCGAATTGTTTAAAAACGACCTTGTTTCTACT, ins_seg2:0:AGCAAAAGCAGGCAAACCATTTGA, ins_seg2:2274:TGAATTTAACTTGTCCTTCATGAAAAAATGCCTTGTTTCTACT, ins_seg3:0:AGCAAAAGCAGGTACTGATCCAAA, ins_seg3:2151:TTGTGGCAATGCTACTATTTGCTATCCATATTGTCCAAAAAAGTACCTTGTTTCTACT, ins_seg4:0:AGCAAAAGCAGG, ins_seg4:1752:CCTTGTTTCTACT,...

Amino acid 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

HA1

HA1:K54Q

HA1:S74R

HA1:P83S

HA1:S84N

HA1:D97N

HA1:R113K

HA1:T120A

HA1:N129D

HA1:K130N

HA1:P137S

HA1:A139D

HA1:K142R

HA1:N156K

HA1:L161I

HA1:S162N

HA1:K163Q

HA1:S164T

HA1:S183P

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:R95K

M1:K98R

M1:M192V

M1:Q208K

M1:K230R

M2

M2:D21G

M2:S23N

NA

NA:P93S

NA:S200N

NA:S247N

NA:I264T

NA:M314I

NA:V453M

NA:K469N

NEP

NEP:D2E

NEP:M14T

NEP:T48A

NEP:M83I

NP

NP:E14D

NP:I33V

NP:V100I

NP:M105T

NP:X114E

NP:L122Q

NP:I136L

NP:V217I

NP:V425I

NP:S498N

NS1

NS1:D2E

NS1:E55K

NS1:T76S

NS1:T80A

NS1:V84I

NS1:L90I

NS1:I123V

NS1:E125D

NS1:K131E

NS1:A155T

NS1:P164S

NS1:N205S

PA

PA:V14I

PA:X18E

PA:K19R

PA:I30V

PA:V63I

PA:V100I

PA:P224S

PA:S225C

PA:R262K

PA:N321R

PA:I330V

PA:A337T

PA:K339N

PA:R362K

PA:I438V

PA:I505V

PA-X

PA-X:V14I

PA-X:X18E

PA-X:K19R

PA-X:I30V

PA-X:V63I

PA-X:V100I

PA-X:R199K

PA-X:R206K

PA-X:R221Q

PA-X:L229S

PB1

PB1:G154D

PB1:V200I

PB1:K386R

PB1:I397M

PB1:I435T

PB1:K757R

PB2

PB2:R54K

PB2:M66I

PB2:T81M

PB2:D195N

PB2:G225S

PB2:R293K

PB2:R299K

PB2:V344M

PB2:I354L

PB2:S453T

PB2:M473V

PB2:L475M

PB2:V667I

PB2:V731I

SigPep

SigPep:L8M

SigPep:A13T

Deletions

None

Insertions

None

Organisms

GS_00G4B4R.3

Center for Research on Influenza Pathogenesis (CRIP), CEIRS Data Processing and Coordinating Center

Submission details

INSDC

Clade

Sample details

Host

INSDC seg4

INSDC seg6

Alignment and QC

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

seg1

seg2

seg3

seg4

seg5

seg6

seg7

seg8

Amino acid 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

HA1

HA2

M1

M2

NA

NEP

NP

NS1

PA

PA-X

PB1

PB2

SigPep