This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

LOC_000P59Y.1

Display Name: China/LOC_000P59Y.1/1980
Moming, A.; Zhu, Q.; Bai, Y.; Jin, J.; Wu, Q.; Su, Z.; Tang, S.; Zhang, Y.; Shen, S.; Deng, F.

Submission details

Submission ID
OR047175.1.L/OR047155.1.M/OR047135.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-29 12:41:48 UTC
Date released
2024-12-29 12:46:35 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-29 12:41insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

Author affiliations
Wuhan Institute of Virology, Chinese Academy of Sciences

Alignment states and QC metrics L

Completeness L
100.00%
Length L
12430
Total ambiguous nucs L
0
Total deleted nucs L
3
Total frame shifts L
0
Total inserted nucs L
325
Total SNPs L
1571
Total unknown nucs L
0

Alignment states and QC metrics M

Completeness M
97.34%
Length M
5340
Total ambiguous nucs M
0
Total deleted nucs M
12
Total frame shifts M
0
Total inserted nucs M
129
Total SNPs M
995
Total unknown nucs M
0

Alignment states and QC metrics S

Completeness S
100.00%
Length S
1800
Total ambiguous nucs S
0
Total deleted nucs S
1
Total frame shifts S
0
Total inserted nucs S
129
Total SNPs S
210
Total unknown nucs S
0

Sample details

Earliest release date
2023-08-21
Collection country
China
Collection date
1980
Collection date (lower bound)
1980-01-01
Collection date (upper bound)
1980-12-31

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession L
OR047175.1
INSDC accession M
OR047155.1
INSDC accession S
OR047135.1
NCBI release date
2023-08-21

Nucleotide mutations

Substitutions

L

  • L:T1C
  • L:T10G
  • L:A14G
  • L:T16A
  • L:G23T
  • L:T33C
  • L:A35G
  • L:G43C
  • L:T49C
  • L:C63G
  • L:C64T
  • L:T65C
  • L:T66C
  • L:G69A
  • L:G71T
  • L:G93A
  • L:A109G
  • L:T121A

    • M

  • M:C2A
  • M:C4T
  • M:T12A
  • M:A13G
  • M:T29C
  • M:G50T
  • M:A51G
  • M:G56A
  • M:A57C
  • M:A69G
  • M:A70G
  • M:T71A
  • M:A75G
  • M:A80G
  • M:C81T
  • M:G84T
  • M:C85T
  • M:T86C

    • S

  • S:A7C
  • S:T48C
  • S:G54A
  • S:A61G
  • S:C64T
  • S:G67A
  • S:G99A
  • S:A118G
  • S:C142T
  • S:C154A
  • S:T157C
  • S:C166T
  • S:C178A
  • S:T181C
  • S:T182C
  • S:G229A
  • S:G232A
  • S:C235T
    • Deletions
    L:11981, L:11982, L:12034, M:271-273, M:5209-5217, S:1615
    Insertions
    ins_S:9:TATCTT, ins_S:1672:CTGCGCTTCTTGCCGCTCCTCCGTCGC, ins_S:1667:C, ins_S:1577:A, ins_S:0:GTAACCATCAACCATGTTTATTTTAACTGCTTATATAATCCTGCTTTATTAACT, ins_S:3:TCTTATTTCTTTCGTTTTAAACACTTAAAGGGCTGTGCGG, ins_M:5171:C, ins_M:15:CGTAGTTGGATCTTGGGAGCGG, ins_M:8:TTGCTGCAGTTA, ins_M:263:CTT, ins_M:0:GGAATGAGTCCACTTTAAATCCTTTAACGAGGATCCATTGGAGGGCAAGTCTGGTGCCAGCAGCCGCGGTAATTCCAGCTCCAATAGCGTA, ins_L:12059:GGTTAACCATTACTATCCTG, ins_L:12081:TCTTTTGCGGCTCTAGCCT, ins_L:12073:TTGCTGTTTATATCAGTTT, ins_L:12096:GCTAGCGCTCCTGCGAACATGGTGAACGTGCCTAAAACCCGCCGGACATTCTGCA, ins_L:4:G, ins_L:12076:TATTTGCAGGGTGTGGGGGGAA, ins_L:19:TGATTCCCCGTCACCCGTGGTCACAC, ins_L:10:TCCTGTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCGGA, ins_L:12108:AGCACCAACCCCACAAGGTGACACAGTACAAGAA, ins_L:11973:A, ins_L:11930:AA, ins_L:58:T, ins_L:12053:TTACAGTTCTCTCA, ins_L:12027:C, ins_L:11977:A

    Amino acid mutations

    Substitutions

    GPC

  • GPC:H2Y
  • GPC:I3T
  • GPC:S4P
  • GPC:M6L
  • GPC:Y7C
  • GPC:I9V
  • GPC:C15W
  • GPC:G16S
  • GPC:G18E
  • GPC:E19G
  • GPC:T20S
  • GPC:S23L
  • GPC:H24S
  • GPC:E26K
  • GPC:R28Q
  • GPC:N30S
  • GPC:K31N
  • GPC:D33S

    • NP

  • NP:R15K
  • NP:D116E
  • NP:T124A
  • NP:N150H
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S275N
  • NP:I277V
  • NP:S301G
  • NP:V436I

    • RdRp

  • RdRp:S6N
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:G83D
  • RdRp:G113D
  • RdRp:I114V
  • RdRp:T163A
  • RdRp:E167G
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:K275R
    • Deletions
    GPC:197, GPC:209, GPC:210
    Insertions
    ins_GPC:212:QPV