Launch prediction server Query precalculated results
Algorithms Prediction server Database query Output description Benchmark results

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 0 115 96 H 04_cpx Undecided


Subtype Prediction for Associated Protein Sequences

NCBI GI ACCESSION Gene Start Stop Length Major Subtype Nested Analysis Final Decision
37693940 AAP33753 tat 0 86 79 B B B (Unambiguous Nested)


Detailed result for 5tat (major) Outlierness: 2.94284 (all), 15.2638 (group)
Subtype Posterior Probability
01_AE 0.000000114246
A 0.0000000762707
B 0.000000175041
C 2.05462e-17
D 0.00000000359121
F 0.0000000635273
G 0.0000000177598
H 0.998303
J 0.000000020086
K 0.00169686

Cross-Validation of Discriminant Models
Miss-Classification Rate: 22 / 659 at 10 Dimensional MDS
         Predicted
Objective 01_AE   A   B   C   D   F   G   H   J   K
    01_AE    52   0   0   0   0   0   1   0   0   0
    A         7  51   1   0   0   0   1   0   1   2
    B         0   0 159   0   0   0   0   0   0   0
    C         0   0   0 306   0   0   0   1   0   0
    D         0   0   1   0  43   0   0   0   0   0
    F         0   0   0   0   4   8   0   0   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   2   0   0   0   0   0   0   0   0

Download Multiple Alignment Distance Matrix GGobi XML

Plot in the First 3 Principal Coordinates


Detailed result for 5tat (nested) Outlierness: -38.8947 (all), 78.5109 (group)
Subtype Posterior Probability
04_cpx 0.987877
H 0.0121231

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