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_000P4XN.1

Display Name: China/LOC_000P4XN.1/2004
Moming, A.; Zhu, Q.; Bai, Y.; Jin, J.; Wu, Q.; Su, Z.; Tang, S.; Zhang, Y.; Shen, S.; Deng, F.

Submission details

Submission ID
OR047158.1.M
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-29 12:41:48 UTC
Date released
2024-12-29 12:45:35 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 M

Completeness M
99.98%
Frame shifts M
GPC:5-15(nt:104-137),GPC:20-24(nt:150-164),GPC:28-34(nt:174-192),GPC:46-57(nt:228-261),GPC:94-97(nt:372-382),GPC:107-113(nt:409-431),GPC:126-137(nt:466-503),GPC:196-198(nt:676-685),GPC:207-211(nt:709-724),GPC:224-227(nt:760-773)
Length M
5401
Total ambiguous nucs M
0
Total deleted nucs M
167
Total frame shifts M
10
Total inserted nucs M
203
Total SNPs M
1335
Total unknown nucs M
0

Sample details

Earliest release date
2023-08-21
Collection country
China
Collection date
2004
Collection date (lower bound)
2004-01-01
Collection date (upper bound)
2004-12-31

Host

Host name scientific
Ixodoidea
Host taxon id
297308

INSDC

INSDC accession M
OR047158.1
NCBI release date
2023-08-21

Nucleotide mutations

Substitutions

M

  • M:T1G
  • M:T3C
  • M:A6G
  • M:A7C
  • M:A9C
  • M:A13C
  • M:T15C
  • M:T16C
  • M:G19C
  • M:A22G
  • M:A27G
  • M:G28C
  • M:T29G
  • M:A30G
  • M:G36A
  • M:A42C
  • M:T54G
  • M:T58A
    • Deletions
    M:43-48, M:59-62, M:92, M:102, M:103, M:120, M:121, M:215-217, M:255-257, M:262-265, M:288-314, M:347-355, M:383-386, M:405-408, M:432, M:433, M:465, M:494-496, M:579-581, M:648-653, M:666-675, M:789-809, M:991-993, M:1668-1670, M:5171-5176, M:5182-5187, M:5197-5202, M:5209-5212, M:5218, M:5219, M:5225-5234, M:5261-5264, M:5270, M:5271, M:5296, M:5299-5302, M:5308
    Insertions
    ins_M:5357:A, ins_M:5353:CCTTGCCAATGATTAATGGT, ins_M:1657:GGG, ins_M:728:CTAACG, ins_M:503:AACA, ins_M:5157:GTTCTC, ins_M:704:ACCAGT, ins_M:708:C, ins_M:164:AGGGCGCCACAGCACCCTCGATCACCCCG, ins_M:380:AAGCA, ins_M:149:GAGGCCAGAACGA, ins_M:81:TGTTCCA, ins_M:33:GGG, ins_M:5287:AGC, ins_M:685:C, ins_M:773:CC, ins_M:173:TCCCC, ins_M:5332:GCCACGGC, ins_M:614:GAA, ins_M:9:CG, ins_M:395:CCG, ins_M:192:GAAGCAG, ins_M:485:GTC, ins_M:137:A, ins_M:5239:T, ins_M:5146:ACG, ins_M:227:ACATTAGACACACAGG, ins_M:759:C, ins_M:976:CAA, ins_M:108:CTTCGT, ins_M:39:GGCG, ins_M:724:TCCGG, ins_M:371:GAGAAACATACAGC, ins_M:5327:ATGTTCTT

    Amino acid mutations

    Substitutions

    GPC

  • GPC:H2L
  • GPC:G18A
  • GPC:E19D
  • GPC:M35S
  • GPC:T36I
  • GPC:G39N
  • GPC:N41T
  • GPC:S59T
  • GPC:V61E
  • GPC:P63L
  • GPC:T64D
  • GPC:P66Q
  • GPC:S79N
  • GPC:P80L
  • GPC:I82T
  • GPC:G85A
  • GPC:E91T
  • GPC:T93S
    • Deletions
    GPC:4, GPC:58, GPC:98, GPC:105, GPC:106, GPC:114, GPC:125, GPC:154-164, GPC:168-172, GPC:192-195, GPC:234-240
    Insertions
    ins_GPC:200:ISIQTSP, ins_GPC:106:PA, ins_GPC:1685:R, ins_GPC:180:TASEEAASTESQQTAT, ins_GPC:41:S, ins_GPC:2:L, ins_GPC:83:REAAPPPPTITVQPPATEKH