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_000P944.1

Display Name: India/LOC_000P944.1/2019
R. R. Sahay, S. Dhandore, P. D. Yadav, A. Chauhan, L. Bhatt, V. Garg, N. Gupta, D. A. Nyayanit, A. M. Shete, R. Singh, S. Patil, H. Sharma, D. Meena, J. Gupta, P. Gawande, K. Kalele, R. Jain, D. Mali, B. Malhotra, V. Nag, P. K. Khatri, H. Kaur, N. Vijay, S. Singh, M. Gopalakrishnan & P. Yadav

Sample details

Collection date
2019
Collection date (lower bound)
2019-01-01
Collection date (upper bound)
2019-12-31
Earliest release date
2020-06-27
Collection country
India
Collection subdivision level 1
Rajasthan State
Isolate name
MCL-19-T-1919

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-09-12 15:10insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
National Institue of Virology, Maximum Containment Laboratory

INSDC

NCBI release date
2020-06-27
INSDC accession L
INSDC accession M
INSDC accession S

Host

Host taxon id
Host name scientific
Ixodoidea

Alignment and QC metrics M

Length M
5336
Total SNPs M
717
Total inserted nucs M
0
Total deleted nucs M
0
Total ambiguous nucs M
0
Total unknown nucs M
0
Total frame shifts M
0
Completeness M
99.44%

Alignment and QC metrics S

Length S
1634
Total SNPs S
216
Total inserted nucs S
7
Total deleted nucs S
6
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
97.67%

Alignment and QC metrics L

Length L
11941
Total SNPs L
1617
Total inserted nucs L
5
Total deleted nucs L
2
Total ambiguous nucs L
0
Total unknown nucs L
4
Total frame shifts L
1
Frame shifts L
RdRp:3902-3903(nt:11779-11785)
Completeness L
98.56%

Submission details

Submission ID
MN866208.1.L/MN866207.1.M/MN866209.1.S
Submitting group
Date submitted
2025-09-12 15:10:31 UTC
Date released
2025-09-12 15:14:26 UTC

Files

Annotations

Nucleotide mutations

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

Substitutions

L

  • L:A35G
  • L:G43C
  • L:C63A
  • L:C64T
  • L:T65C
  • L:T66A
  • L:G69A
  • L:G71T
  • L:C85T
  • L:G88A
  • L:G93A
  • L:A109G
  • L:A124G
  • L:T131A
  • L:C133T
  • L:G142A
  • L:A147G
  • L:C148T

    • M

  • M:C82T
  • M:C85T
  • M:T86C
  • M:A107G
  • M:A117G
  • M:C119T
  • M:C120T
  • M:T122C
  • M:C126T
  • M:A128G
  • M:T137C
  • M:G143A
  • M:A146G
  • M:G149A
  • M:C153A
  • M:T155C
  • M:T159C
  • M:C160T

    • S

  • S:A50G
  • S:G54A
  • S:G67A
  • S:T79C
  • S:C82T
  • S:G99A
  • S:A109G
  • S:A118G
  • S:T157C
  • S:C166T
  • S:G169A
  • S:T172C
  • S:C178A
  • S:G190A
  • S:G196A
  • S:T199C
  • S:C208T
  • S:C217T
    • Deletions
    L:11777, L:11778, S:1530, S:1531, S:1575-1578
    Insertions
    ins_L:58:T, ins_L:11785:AA, ins_L:11931:AT, ins_S:1536:AT, ins_S:1586:AACCA

    Amino acid mutations

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

    Substitutions

    GPC

  • GPC:I9V
  • GPC:L10F
  • GPC:H21N
  • GPC:S23L
  • GPC:E26G
  • GPC:R28E
  • GPC:D33H
  • GPC:T34V
  • GPC:G39D
  • GPC:N41S
  • GPC:P42L
  • GPC:S44P
  • GPC:T50A
  • GPC:I54V
  • GPC:L56P
  • GPC:G69R
  • GPC:P80S
  • GPC:P81Q

    • NP

  • NP:R15K
  • NP:V83A
  • NP:D116E
  • NP:T124S
  • NP:G125N
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S301G
  • NP:A307V
  • NP:E322D
  • NP:Q405L
  • NP:V436I

    • RdRp

  • RdRp:S6N
  • RdRp:S19T
  • RdRp:N24S
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:I114V
  • RdRp:T163A
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:N206Y
  • RdRp:Q226H
  • RdRp:K275R
  • RdRp:I279V
  • RdRp:K288R
    • Deletions
    RdRp:3901
    Insertions
    None

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