LOC_000P89V.1

Display Name: China/LOC_000P89V.1/1984

Moming, A.; Zhu, Q.; Bai, Y.; Jin, J.; Wu, Q.; Su, Z.; Tang, S.; Zhang, Y.; Shen, S.; Deng, F.

Submission details

Submission ID

OR047170.1.L/OR047150.1.M/OR047130.1.S

Submitting group

Automated Ingest from INSDC/NCBI Virus by Loculus

Date submitted

2025-03-11 18:18:53 UTC

Date released

2025-03-11 18:23:22 UTC

Data use terms

Changed	User	Data Use Terms
2025-03-11 18:18	insdc_ingest_user	OPEN

OPEN

Data use terms URL

https://#TODO-MVP/open

Authors

Author affiliations

Wuhan Institute of Virology, Chinese Academy of Sciences

Alignment and QC metrics L

Completeness L

99.95%

Length L

12186

Total ambiguous nucs L

Total deleted nucs L

Total frame shifts L

Total inserted nucs L

Total SNPs L

1628

Total unknown nucs L

Alignment and QC metrics M

Completeness M

99.78%

Length M

5508

Total ambiguous nucs M

Total deleted nucs M

Total frame shifts M

Total inserted nucs M

154

Total SNPs M

1053

Total unknown nucs M

Alignment and QC metrics S

Completeness S

99.22%

Length S

1705

Total ambiguous nucs S

Total deleted nucs S

Total frame shifts S

Total inserted nucs S

Total SNPs S

212

Total unknown nucs S

Sample details

Earliest release date

2023-08-21

Collection country

China

Collection date

1984

Collection date (lower bound)

1984-01-01

Collection date (upper bound)

1984-12-31

Host

Host name scientific

Homo sapiens

Host taxon id

9606

INSDC

INSDC accession L

OR047170.1

INSDC accession M

OR047150.1

INSDC accession S

OR047130.1

NCBI release date

2023-08-21

Nucleotide mutations

Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

Substitutions

L

L:T10C

L:G23T

L:A35G

L:G43C

L:T49C

L:G56A

L:T66G

L:G71T

L:A72T

L:A73G

L:G93A

L:A109G

L:T131A

L:C136T

L:C145T

L:A147G

L:T151C

L:T154C

M

M:A13C

M:G50T

M:A51G

M:G56A

M:A57C

M:A70G

M:T71A

M:A80G

M:C81T

M:G84T

M:C85T

M:T86C

M:A88G

M:A90G

M:C92T

M:C96T

M:T98C

M:T100C

S

S:T48C

S:G54A

S:A61G

S:C64T

S:G67A

S:G91A

S:G99A

S:A118G

S:C139T

S:C142T

S:T157C

S:C166T

S:C178A

S:T182C

S:C187A

S:T223C

S:G229A

S:C235T

Deletions

L:58, L:11921-11924, L:11974-11978, S:1615, S:1633

Insertions

ins_S:1530:T, ins_S:1667:CCGGTTTTAGCAGAGCAGGGAAGCTCCGGAGAGGTGGGC, ins_S:1672:AGCGGAG, ins_S:1577:A, ins_M:5171:C, ins_M:5366:CAAGAAGCCTAAGAAGTCCACCTGGAGGTTTCATTTGGACCTTACTCATCCAGTAGCAGAAGGAATTTTTGACTCTGGAAATTTTGAACAGTTTCTACGGGAGAAGGTTAAAGTCAATGGAAAAACTGG, ins_M:5363:GCTGCAGCTCAACATGGCGCCGAA, ins_L:12101:AG, ins_L:12064:GCCT, ins_L:12108:TGGGAAGGGCACACCTCTGACCG, ins_L:67:CCC, ins_L:12044:TCTGTCTTAATGCA, ins_L:11991:GTCG, ins_L:11987:C, ins_L:11928:TGTGTG, ins_L:12089:TCACTATTCAT, ins_L:12104:TATTATTTCCAGGGTGTGGGGGGAAC

Amino acid mutations

Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

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:D44E

NP:D116E

NP:T124A

NP:G125N

NP:N150H

NP:H195R

NP:D199E

NP:I246V

NP:R270K

NP:S275N

NP:S301G

NP:V436I

RdRp

RdRp:S6N

RdRp:S19T

RdRp:N24S

RdRp:Y60N

RdRp:R63H

RdRp:S67V

RdRp:R80K

RdRp:V82I

RdRp:I114V

RdRp:I157M

RdRp:A168T

RdRp:M172V

RdRp:R174K

RdRp:S205P

RdRp:N206Q

RdRp:K275R

RdRp:I279V

RdRp:S281T

Deletions

GPC:197, GPC:209, GPC:210

Insertions

ins_GPC:212:QPV

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