GS_000XQTU.1

Display Name: GS_000XQTU.1/2024-03-11
Rothstein, A. P.; Qiu, X.; Collins, S.; Muir, G.; Simas, A.; Sum, A.; Lu, B.; Cosca, B.; Girinathan, B.; Leeson, P.; Phillipson, C. W.; Plocik, A.; Simen, B.

Submission details

Submission ID
PQ117650.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-11-21 13:21:37 UTC
Date released
2024-11-21 13:42:51 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-11-21 13:22insdc_ingest_userOPEN

Authors

Author affiliations
Ginkgo Bioworks, Ginkgo Biosecurity

Alignment states and QC metrics

Completeness
99.81%
Length
15218
Total ambiguous nucs
0
Total deleted nucs
6
Total frame shifts
0
Total inserted nucs
28
Total SNPs
207
Total unknown nucs
0

Sample details

Collection country
USA
Collection subdivision level 1
California
Collection date
2024-03-11
Isolate name
H20-360-0626

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession
PQ117650.1
NCBI release date
2024-08-07
NCBI update date
2024-08-07

Clade & Lineage

Lineage
A.D.3

Nucleotide mutations

Substitutions

  • T59C
  • T66A
  • A67G
  • G74A
  • C90T
  • C165T
  • C183T
  • T195C
  • T231C
  • A342G
  • C411T
  • T454C
  • A562C
  • G587T
  • T619C
  • C1012T
  • G1034A
  • G1050A
    • Deletions
    4592, 15096-15100
    Insertions
    ins_15115:TT, ins_3150:T, ins_15225:GTTTTTGACACTTTTTTTC, ins_15053:CAAAAA

    Amino acid mutations

    Substitutions

    F

  • F:T12I

    • G

  • G:H67N
  • G:P71L
  • G:H90Y
  • G:L101F
  • G:G106R
  • G:T113I
  • G:V131D
  • G:I134K
  • G:N178G
  • G:K209N
  • G:K221R
  • G:G224E
  • G:S243I
  • G:H258Q
  • G:K262E
  • G:I265L
  • G:H266L
  • G:P274L

    • L

  • L:P171L
  • L:R256K
  • L:Y598H
  • L:L835M
  • L:L1438Q
  • L:D1644E
  • L:N1723S
  • L:E1725G
  • L:G1731D
  • L:L2058F

    • N

  • N:V352A

    • NS1

  • NS1:G2D

    • P

  • P:L55P
  • P:T92M
    • Deletions
    None
    Insertions
    None