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_000P8L6.1

Display Name: India/LOC_000P8L6.1/2016
P. D. Yadav

Sample details

Collection date
2016
Collection date (lower bound)
2016-01-01
Collection date (upper bound)
2016-12-31
Earliest release date
2020-03-22
Collection country
India
Collection subdivision level 1
Vadodara District, Gujarat State

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-12-19 17:45insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
National Institute of Virology, Maximum Containment Laboratory

INSDC

NCBI release date
2020-03-22
INSDC accession L
INSDC accession M
INSDC accession S

Host

Host taxon id
Host name scientific
Homo sapiens

Alignment and QC metrics L

Length L
12141
Total SNPs L
1642
Total inserted nucs L
47
Total deleted nucs L
0
Total ambiguous nucs L
0
Total unknown nucs L
0
Total frame shifts L
0
Completeness L
99.88%
Total stop codons L
0

Alignment and QC metrics M

Length M
5402
Total SNPs M
1566
Total inserted nucs M
88
Total deleted nucs M
40
Total ambiguous nucs M
0
Total unknown nucs M
0
Total frame shifts M
0
Completeness M
99.78%
Total stop codons M
0

Alignment and QC metrics S

Length S
1823
Total SNPs S
226
Total inserted nucs S
165
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
99.16%
Total stop codons S
0

Submission details

Submission ID
MH396664.1.L/MH396665.1.M/MH396666.1.S
Submitting group
Date submitted
2025-12-19 17:45:14 UTC
Date released
2025-12-19 17:50:21 UTC

Lineage

Segment S Lineage
IV.1

Files

Annotations

Nucleotide mutations

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

Substitutions

L

  • L:G23T
  • L:A35G
  • L:G43T
  • L:T49C
  • L:C63G
  • L:C64T
  • L:T65C
  • L:T66C
  • L:T68C
  • L:G69A
  • L:G71C
  • L:C85T
  • L:G88A
  • L:G93A
  • L:A109G
  • L:C117A
  • L:A124G
  • L:T131A

    • M

  • M:T3G
  • M:A5T
  • M:A6C
  • M:G8T
  • M:A9C
  • M:A10C
  • M:A11G
  • M:A13T
  • M:T16G
  • M:G50C
  • M:A51G
  • M:A52T
  • M:G56T
  • M:T58A
  • M:T59A
  • M:T65A
  • M:C66T
  • M:T67C

    • S

  • S:A50G
  • S:G54A
  • S:G67A
  • S:C82T
  • S:G99A
  • S:G100A
  • S:A118G
  • S:C142T
  • S:C154A
  • S:T163C
  • S:C166T
  • S:G169A
  • S:T172C
  • S:C178A
  • S:T182C
  • S:G190A
  • S:T199C
  • S:C208T
    • Deletions
    M:18, M:297-305, M:628-630, M:678-689, M:5172-5186
    Insertions
    ins_L:58:T, ins_L:11917:CA, ins_L:12053:CTAC, ins_L:12086:CTACTATCCCAC, ins_L:12108:TTTATTATTTCTGGGGTGTGGGGGGAAC, ins_M:0:CACACCGATCACATCACTCTTTCCCTACACC, ins_M:236:CCGTCAACAGACACTGCC, ins_M:365:GTTGCCATTGTCCAAACACAAGAAACAGAAGCACCC, ins_M:5202:CA, ins_M:5248:C, ins_S:1672:ACTCGGCCTCAGTTAGGACGCCCTCCCCACTGTTACCAACATGAAGCTGCTCGCAGCAACTGTGCTACTCATCACCATCTGCAGCCTTGAAGGAGCTTTGGTTCGGAGACAGTC...

    Amino acid mutations

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

    Substitutions

    GPC

  • GPC:M1S
  • GPC:H2M
  • GPC:I3L
  • GPC:S4L
  • GPC:L5T
  • GPC:M6N
  • GPC:Y7F
  • GPC:A8I
  • GPC:I9L
  • GPC:L10C
  • GPC:C11Q
  • GPC:Q13F
  • GPC:L14W
  • GPC:C15S
  • GPC:L17S
  • GPC:E19V
  • GPC:H21S
  • GPC:S23G

    • NP

  • NP:R15K
  • NP:S52G
  • NP:V83A
  • NP:D116E
  • NP:T124S
  • NP:G125N
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S301G
  • NP:A307V
  • NP:Q405L
  • NP:V436I

    • RdRp

  • RdRp:S6N
  • RdRp:A14D
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:I114V
  • RdRp:T163A
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:A202V
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:I223V
  • RdRp:K275R
    • Deletions
    GPC:176-210
    Insertions
    ins_GPC:77:ESSTDPSVTNKDTSP, ins_GPC:229:NTTGQTNPTTLVTSPKTQTIQGQQTTTPVT

    Report an issue with this sequence or metadata

    Create GitHub issue