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_000P5DQ.1

Display Name: China/LOC_000P5DQ.1/1976
Moming, A.; Zhu, Q.; Bai, Y.; Jin, J.; Wu, Q.; Su, Z.; Tang, S.; Zhang, Y.; Shen, S.; Deng, F.

Submission details

Submission ID
OR047179.1.L/OR047159.1.M/OR047139.1.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
99.95%
Length L
12157
Total ambiguous nucs L
0
Total deleted nucs L
8
Total frame shifts L
0
Total inserted nucs L
63
Total SNPs L
1592
Total unknown nucs L
0

Alignment states and QC metrics M

Completeness M
100.00%
Length M
5609
Total ambiguous nucs M
0
Total deleted nucs M
12
Total frame shifts M
0
Total inserted nucs M
255
Total SNPs M
597
Total unknown nucs M
0

Alignment states and QC metrics S

Completeness S
100.00%
Length S
1883
Total ambiguous nucs S
0
Total deleted nucs S
1
Total frame shifts S
0
Total inserted nucs S
212
Total SNPs S
220
Total unknown nucs S
0

Sample details

Earliest release date
2023-08-21
Collection country
China
Collection date
1976
Collection date (lower bound)
1976-01-01
Collection date (upper bound)
1976-12-31

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession L
OR047179.1
INSDC accession M
OR047159.1
INSDC accession S
OR047139.1
NCBI release date
2023-08-21

Nucleotide mutations

Substitutions

L

  • L:T10C
  • L:G23T
  • L:A35G
  • L:G43C
  • L:T49C
  • L:A50G
  • L:C63G
  • L:C64T
  • L:T65C
  • L:T66C
  • L:G69A
  • L:G71T
  • L:G88A
  • L:G93A
  • L:A109G
  • L:A124G
  • L:T131A
  • L:C136T

    • M

  • M:A7G
  • M:T12G
  • M:A13G
  • M:T15G
  • M:T16G
  • M:T68C
  • M:G76A
  • M:A80G
  • M:C85T
  • M:A88G
  • M:C92T
  • M:A107G
  • M:A112G
  • M:A117G
  • M:C119T
  • M:C126T
  • M:A128G
  • M:G136A

    • S

  • S:A5C
  • S:A7T
  • S:A11G
  • S:G15T
  • S:T48C
  • S:G54A
  • S:A61G
  • S:C64T
  • S:G67A
  • S:G91A
  • S:G99A
  • S:A118G
  • S:C142T
  • S:T157C
  • S:C166T
  • S:C178A
  • S:T182C
  • S:C187A
    • Deletions
    L:11966, L:11967, L:11981, L:11982, L:12044-12047, M:3, M:5289-5299, S:1615
    Insertions
    ins_S:17:GATGGGAGGG, ins_S:1530:T, ins_S:7:TTTGCCCCTGAACGCGCCCGATCTCGTCTGATCTCG, ins_S:1672:TTTTGTTTTTCAGGACGCTTTGCAAGGGTAGCTGGGGTGAATTTGCACCAAGGCAGCAGCATAGTCGCCGCAGTT, ins_S:1577:A, ins_S:0:ATTTCCTTTCTTGAACTCTTCAAACCACTTGTTCATTTCATCTTTGTTATTCACCTCGATTTTAT, ins_S:12:TAAGCAGGGTCGGGCCTGGTTAGT, ins_M:5361:CATCCACCGC, ins_M:10:GGCAGC, ins_M:5366:GACATCCCGAGCCAACCTTCCGGAAGCCTCCCCATCAGCACCATGAACCCAAGTGCTGCCGTCATTTTCTGCCTCATCCTGCTGGGTCTGAGTGGGACTCAAGGGATCCCTCTCGCAAGGACGGTCCGCTGCAACTGCATCCATATCGATGACGGGCCAGTGAGAATGAG, ins_M:5168:G, ins_M:0:TGGTGACCACGGGTGACGGGGAATCAGGGTTCGATTCCGGAGAGGGAGCCTGAGAAACGGCTACCACA, ins_L:12061:CACAACT, ins_L:12027:CTCT, ins_L:11973:A, ins_L:11977:A, ins_L:12083:GCTATTT, ins_L:11922:T, ins_L:11961:GT, ins_L:12053:CT, ins_L:12108:ATTTCCAGGGTGTGGGGGGAACGATTTCTT, ins_L:12096:GTTT, ins_L:11924:G, ins_L:12101:AG, ins_L:58:T

    Amino acid mutations

    Substitutions

    GPC

  • GPC:Y7C
  • GPC:I9V
  • GPC:C15Y
  • GPC:H24S
  • GPC:R28E
  • GPC:D33N
  • GPC:T34V
  • GPC:M35V
  • GPC:N41S
  • GPC:P42Q
  • GPC:S44P
  • GPC:P47L
  • GPC:S49G
  • GPC:A51T
  • GPC:S53P
  • GPC:I54V
  • GPC:P58S
  • GPC:S68G

    • NP

  • NP:R15K
  • NP:D44E
  • NP:D116E
  • NP:T124A
  • NP:G125N
  • NP:N150H
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S275N
  • NP:S301G
  • NP:N399D
  • NP:V436I

    • RdRp

  • RdRp:S6N
  • RdRp:S19T
  • RdRp:T54K
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:I114V
  • RdRp:T163A
  • RdRp:E167G
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:K275R
  • RdRp:I279V
    • Deletions
    None
    Insertions
    None