GS_00BUJN5.1

Display Name: USA/GS_00BUJN5.1/2025-01-16
Gruner, W. E.; Muehleman, D. M.; Fries, A. C.; Hanson, J. F.; Kramer, D. L.; Demarcus, L. S.; Wasik, P. M.; Robbins, A. S.; Macias, E. A.; Garcia, J. M.; Renkas, M. C.; Hartless, T. R.; Hardy, J.

Submission details

Submission ID
PV200307.1.seg2/PV200306.1.seg3/PV200305.1.seg4
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-03-11 10:32:49 UTC
Date released
2025-03-11 11:08:10 UTC

Authors

Author affiliations
United States Air Force School of Aerospace Medicine Public Health Submission Group, 711th Human Performance Wing

Clade

Clade ha
V1A.3a.2

Alignment states and QC metrics seg3

Completeness seg3
97.15%
Length seg3
2181
Total ambiguous nucs seg3
0
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
0
Total SNPs seg3
44
Total unknown nucs seg3
0

Alignment states and QC metrics seg4

Completeness seg4
93.26%
Length seg4
1749
Total ambiguous nucs seg4
0
Total deleted nucs seg4
9
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
53
Total unknown nucs seg4
0

Sample details

Collection country
USA
Collection subdivision level 1
Virginia
Collection date
2025-01-16
Isolate name
USAFSAM-15174

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession seg2
PV200307.1
INSDC accession seg3
PV200306.1
INSDC accession seg4
PV200305.1
NCBI release date
2025-02-28

Alignment states and QC metrics seg2

Length seg2
2313

INSDC seg4

Lineage seg4
vic

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

seg3

  • seg3:T111C
  • seg3:C117T
  • seg3:T339C
  • seg3:G414A
  • seg3:T423C
  • seg3:T471C
  • seg3:G549A
  • seg3:A618G
  • seg3:T654C
  • seg3:A771G
  • seg3:C813T
  • seg3:G867A
  • seg3:C897T
  • seg3:A935G
  • seg3:G936A
  • seg3:C949A
  • seg3:A987G
  • seg3:C1006T

    • seg4

  • seg4:C252A
  • seg4:G267A
  • seg4:C270T
  • seg4:G297A
  • seg4:G312T
  • seg4:A318G
  • seg4:A351G
  • seg4:C375T
  • seg4:C378T
  • seg4:A417G
  • seg4:A427G
  • seg4:C441T
  • seg4:T444C
  • seg4:G457A
  • seg4:G460A
  • seg4:A463G
  • seg4:A484G
  • seg4:C509T
    • Deletions
    seg4:562-570
    Insertions
    None

    Amino acid mutations

    Mutations 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:A154T
  • HA1:E183K
  • HA1:G184E
  • HA1:N197E
  • HA1:K203R
  • HA1:R279K

    • HA2

  • HA2:K50E

    • PA

  • PA:K312R
  • PA:T352A
  • PA:S530T
  • PA:F709V
  • PA:N714S
  • PA:I723V
    • Deletions
    HA1:162-164
    Insertions
    None