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Retrieval from the Database of Pre-calcuated Genotyping/Subtyping Results

Virus: HIV-1 / Sequence Type: Nucleotide

Sequence Description: (Link to NCBI GenBank)

Multiple Substitution Correction Algorithm: Jukes-Cantor

All sites that include gaps were deleted.


Gene by Gene Subtype Prediction Summary

Gene Start Stop Length LANL Subtype Major Subtype Nested Analysis Final Decision
5tat 0 135 115 H H Undecided


Detailed result for 5tat (major) Outlierness: 1.89987 (all), 32.7222 (group)
Subtype Posterior Probability
01_AE 3.30409e-18
A 0.00000000570448
B 1.48832e-16
C 0.000000000621176
D 0.000103198
F 0.000000209671
G 1.02195e-18
H 0.99989
J 0.00000212551
K 0.0000039894

Cross-Validation of Discriminant Models
Miss-Classification Rate: 17 / 659 at 10 Dimensional MDS
         Predicted
Objective 01_AE   A   B   C   D   F   G   H   J   K
    01_AE    53   0   0   0   0   0   0   0   0   0
    A         6  53   1   0   0   0   1   0   0   2
    B         0   0 159   0   0   0   0   0   0   0
    C         0   0   0 307   0   0   0   0   0   0
    D         0   0   1   0  43   0   0   0   0   0
    F         0   0   0   0   2   9   0   1   0   0
    G         0   0   0   0   0   0  15   0   0   0
    H         0   0   0   0   0   0   0   3   0   0
    J         0   0   0   0   0   0   0   0   0   0
    K         0   1   0   0   0   0   0   0   1   0

Download Multiple Alignment Distance Matrix GGobi XML

Plot in the First 3 Principal Coordinates


Detailed result for 5tat (nested) Outlierness: 20.0859 (all), 13.7976 (group)
Subtype Posterior Probability
04_cpx 0.00000000000000354424
H 1

Cross-Validation of Discriminant Models
Miss-Classification Rate: 3 / 6 at 4 Dimensional MDS
         Predicted
Objective 04_cpx H
   04_cpx      1 2
   H           1 2

Download Multiple Alignment Distance Matrix GGobi XML

Plot in the First 3 Principal Coordinates


Copyrighted by Bio-Data Mining Lab, Department of Bioinformatics and Life Sciences, Soongsil University, Seoul, Korea