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GS_001JHP0.1

Display Name: Malaysia/GS_001JHP0.1/2007-02-05
D. E. Wentworth, V. Dugan, R. Halpin, X. Lin, J. Bera, E. Ghedin, N. Fedorova, L. Overton, T. Tsitrin, T. Stockwell, D. Katzel, K. Li, P. Amedeo, S. Schobel, S. Shrivastava, S. Wang, V. Thovarai, B. Bishop, P. Edworthy, M. Kim, Y. F. Chan, I. C. Sam, S. AbuBakar, L. Y. Chang, ..., T. Tatusova

Submission details

Submission ID
CY119864.1.seg1/CY119865.1.seg2/CY119863.1.seg3/CY119858.1.seg4/CY119861.1.seg5/CY119860.1.seg6/CY119859.1.seg7/CY119862.1.seg8
Submitting group
Date submitted
2025-12-11 14:53:52 UTC
Date released
2025-12-11 14:56:15 UTC

Authors

Author affiliations
on behalf of JCVI/University Malaya/NCBI, National Center for Biotechnology Information, NIH

Clade

Clade HA
V1A
Clade NA
A

Alignment states and QC metrics seg3

Completeness seg3
100.00%
Frame shifts seg3
[]
Length seg3
2254
Total ambiguous nucs seg3
0
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
9
Total SNPs seg3
42
Total unknown nucs seg3
0

Alignment states and QC metrics seg4

Completeness seg4
95.07%
Frame shifts seg4
[]
Length seg4
1792
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
25
Total unknown nucs seg4
0

Alignment states and QC metrics seg5

Completeness seg5
100.00%
Frame shifts seg5
[]
Length seg5
1761
Total ambiguous nucs seg5
0
Total deleted nucs seg5
1
Total frame shifts seg5
0
Total inserted nucs seg5
12
Total SNPs seg5
63
Total unknown nucs seg5
0

Alignment states and QC metrics seg6

Completeness seg6
100.00%
Frame shifts seg6
[]
Length seg6
1512
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
111
Total SNPs seg6
31
Total unknown nucs seg6
0

Alignment states and QC metrics seg7

Completeness seg7
100.00%
Frame shifts seg7
[]
Length seg7
1151
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
4
Total SNPs seg7
11
Total unknown nucs seg7
0

Alignment states and QC metrics seg8

Completeness seg8
100.00%
Frame shifts seg8
[]
Length seg8
1064
Total ambiguous nucs seg8
0
Total deleted nucs seg8
3
Total frame shifts seg8
0
Total inserted nucs seg8
1
Total SNPs seg8
19
Total unknown nucs seg8
0

Sample details

Collection country
Malaysia
Collection date
2007-02-05

Host

Host name scientific
Homo sapiens
Host taxon id
Is lab host
True

INSDC

INSDC accession seg1
INSDC accession seg2
INSDC accession seg3
INSDC accession seg4
INSDC accession seg5
INSDC accession seg6
INSDC accession seg7
INSDC accession seg8
NCBI release date
2012-05-14

Alignment states and QC metrics seg1

Length seg1
2330

Alignment states and QC metrics seg2

Length seg2
2358

INSDC seg4

Lineage seg4
vic

Nucleotide mutations

Mutations called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

Substitutions

seg3

  • seg3:G30A
  • seg3:A53G
  • seg3:G90A
  • seg3:C216T
  • seg3:G276A
  • seg3:A348G
  • seg3:G375A
  • seg3:C516T
  • seg3:T555C
  • seg3:T556C
  • seg3:T603C
  • seg3:A651C
  • seg3:A771G
  • seg3:G811A
  • seg3:A852G
  • seg3:A870G
  • seg3:T871C
  • seg3:C996T

    • seg4

  • seg4:T65C
  • seg4:C123T
  • seg4:G228A
  • seg4:A273G
  • seg4:A303C
  • seg4:C412A
  • seg4:C441T
  • seg4:A514G
  • seg4:C528T
  • seg4:A573C
  • seg4:C592T
  • seg4:C666T
  • seg4:G672A
  • seg4:G673A
  • seg4:A804G
  • seg4:G873A
  • seg4:G894A
  • seg4:A1017G

    • seg5

  • seg5:C3T
  • seg5:A4G
  • seg5:G8A
  • seg5:T9C
  • seg5:A55C
  • seg5:A77G
  • seg5:T127C
  • seg5:T169G
  • seg5:G198C
  • seg5:A207C
  • seg5:G219T
  • seg5:C271T
  • seg5:G277A
  • seg5:C289T
  • seg5:C325T
  • seg5:T328C
  • seg5:T346C
  • seg5:C352T

    • seg6

  • seg6:G24A
  • seg6:A84G
  • seg6:T121C
  • seg6:C124T
  • seg6:A135T
  • seg6:T375G
  • seg6:T402C
  • seg6:G543A
  • seg6:G610A
  • seg6:A660C
  • seg6:G811A
  • seg6:C819T
  • seg6:G825A
  • seg6:C846T
  • seg6:T903C
  • seg6:T960G
  • seg6:A985G
  • seg6:C987T

    • seg7

  • seg7:G104T
  • seg7:T615C
  • seg7:C656T
  • seg7:G668A
  • seg7:G674A
  • seg7:C713T
  • seg7:A773T
  • seg7:C922T
  • seg7:A993G
  • seg7:A1089G
  • seg7:C1098T

    • seg8

  • seg8:G27A
  • seg8:A118G
  • seg8:G202A
  • seg8:G289A
  • seg8:A308G
  • seg8:T391C
  • seg8:A411G
  • seg8:G433A
  • seg8:C526T
  • seg8:C622T
  • seg8:C632T
  • seg8:C640A
  • seg8:A658G
  • seg8:G676A
  • seg8:C706T
  • seg8:C933T
  • seg8:A935G
  • seg8:G1028A
  • seg8:G1057A
    • Deletions
    seg5:14, seg8:38-40
    Insertions
    ins_seg3:0:TTTGTCATA, ins_seg5:0:TTGTGAACTTCA, ins_seg6:0:TCAAAACTGAAGCAAATAGGCCAAAAATGAACA, ins_seg6:1401:TGGAGGAATGGTTGAGTCTGTTCTAAACCCTTTGTTCCTATTTTGTTTGAACAATTGTCCTTACTGAACTTAATTGTT, ins_seg7:0:TTA, ins_seg7:1084:T, ins_seg8:26:A

    Amino acid mutations

    Mutations called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

    Substitutions

    BM2

  • BM2:T9S
  • BM2:N82S

    • HA1

  • HA1:K75N
  • HA1:I146V
  • HA1:K165N
  • HA1:P172S
  • HA1:A199T

    • HA2

  • HA2:D158N

    • NA

  • NA:S41P
  • NA:P42S
  • NA:N125K
  • NA:V204I
  • NA:K220N
  • NA:V271I
  • NA:D320E
  • NA:N329D
  • NA:E358A
  • NA:A395T
  • NA:K404E
  • NA:D463N

    • NP

  • NP:T17A
  • NP:S57T
  • NP:D60A
  • NP:R64M
  • NP:I171V
  • NP:V233L
  • NP:M374V
  • NP:S513N
  • NP:I534V

    • NS1

  • NS1:M86I
  • NS1:N93D
  • NS1:E127G
  • NS1:H201Y

    • PA

  • PA:K18R
  • PA:D271N
  • PA:T352M
  • PA:I428V
  • PA:T614S
  • PA:A632V
  • PA:V700A
  • PA:N714S

    • SigPep

  • SigPep:V11A
    • Deletions
    NEP:3, NS1:3
    Insertions
    None