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_001G2TC.1

Display Name: Pakistan/LOC_001G2TC.1/1965
J. W. Koehler, K. L. Delp, B. J. Kearney, T. A. Conrad, R. J. Schoepp, A. R. Garrison, L. A. Altimura, C. A. Rossi & T. D. Minogue

Sample details

Collection date
1965
Collection date (lower bound)
1965-01-01
Collection date (upper bound)
1965-12-31
Earliest release date
2017-04-02
Collection country
Pakistan
Isolate name
UCCR4413

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-02-13 18:06insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
USAMRIID, DSD

INSDC

NCBI release date
2017-04-02
INSDC accession L
INSDC accession M
INSDC accession S

Host

Host taxon id
Host name scientific
Hyalomma anatolicum

Alignment and QC metrics L

Length L
12167
Total SNPs L
1635
Total inserted nucs L
60
Total deleted nucs L
1
Total ambiguous nucs L
0
Total unknown nucs L
0
Total frame shifts L
0
Completeness L
100.00%
Total stop codons L
0

Alignment and QC metrics S

Length S
1673
Total SNPs S
221
Total inserted nucs S
16
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
91.75%
Total stop codons S
0

Alignment and QC metrics M

Length M
5326
Total SNPs M
1448
Total inserted nucs M
77
Total deleted nucs M
75
Total ambiguous nucs M
0
Total unknown nucs M
0
Total frame shifts M
2
Frame shifts M
GPC:15-33(nt:130-187),GPC:215-237(nt:730-799)
Completeness M
97.56%
Total stop codons M
0

Submission details

Submission ID
KY484039.1.L/KY484038.1.M/KY484037.1.S
Submitting group
Date submitted
2026-02-13 18:06:39 UTC
Date released
2026-02-13 18:09:50 UTC

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_005301.3, MH396653.1 & OL774851.1 references

Substitutions

L

  • L:G23T
  • L:A35G
  • L:C37T
  • 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

    • M

  • M:G34A
  • M:T35A
  • M:A38G
  • M:G46A
  • M:A47G
  • M:A48C
  • M:G51A
  • M:A53G
  • M:T54A
  • M:T55G
  • M:G56A
  • M:A57G
  • M:G58A
  • M:T63C
  • M:T64G
  • M:G65T
  • M:A66T
  • M:T67A

    • S

  • S:T16A
  • S:C31G
  • S:T63C
  • S:A65G
  • S:A84G
  • S:A93G
  • S:A98T
  • S:A102G
  • S:C150T
  • S:G153A
  • S:G155A
  • S:T156C
  • S:T166C
  • S:A173G
  • S:G174A
  • S:G180A
  • S:A186G
  • S:C192T
    • Deletions
    L:12034, M:188-195, M:230-250, M:704-729, M:5177-5196
    Insertions
    ins_L:58:T, ins_L:11917:CA, ins_L:12054:TACAATTTT, ins_L:12083:ACTATTC, ins_L:12096:GTTCATGTCCATTTTATTATTTCTGGGGTGTGGGGGGAACG, ins_M:0:TCTC, ins_M:129:ATATAAAGTTG, ins_M:463:ACTGAAAACAGTGAAAGCACAGACACA, ins_M:595:GGG, ins_M:799:GCACACTCAGAACGCTCTCAGCTGAA, ins_M:5059:GGG, ins_M:5226:TGT, ins_S:0:TCTCAAAGAAACACGT

    Amino acid mutations

    Mutations called relative to the NC_005301.3, MH396653.1 & OL774851.1 references

    Substitutions

    GPC

  • GPC:M1L
  • GPC:H2Y
  • GPC:I3A
  • GPC:S4L
  • GPC:M6A
  • GPC:Y7S
  • GPC:V9I
  • GPC:F10L
  • GPC:C11H
  • GPC:L12Q
  • GPC:Q13H
  • GPC:I82A
  • GPC:T84A
  • GPC:K85N
  • GPC:G86R
  • GPC:L87T
  • GPC:S88T
  • GPC:L89Y

    • NP

  • NP:N9S
  • NP:Y20F
  • NP:S39N
  • NP:K45R
  • NP:V83A
  • NP:D116E
  • NP:A124S
  • NP:Q179L
  • NP:D199E
  • NP:K208M
  • NP:R270K
  • NP:A307V
  • NP:E322D
  • NP:Q405L
  • NP:R428K

    • 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:S205P
  • RdRp:N206Y
  • RdRp:I223V
  • RdRp:K275R
  • RdRp:I279V
    • Deletions
    GPC:34-60, GPC:206-214
    Insertions
    ins_GPC:94:STTPKSSTKPTTHIATAHLAESDGSGETTLLLPTTASQYTTEGQTSL, ins_GPC:175:T, ins_GPC:1661:K

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