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
pol 0 570 515 H 08_BC Undecided


Subtype Prediction for Associated Protein Sequences

NCBI GI ACCESSION Gene Start Stop Length Major Subtype Nested Analysis Final Decision
32185832 AAP72879 pol 0 190 177 B 08_BC Undecided


Detailed result for pol (major) Outlierness: 1.16358 (all), 13.6849 (group)
Subtype Posterior Probability
01_AE 4.70748e-29
A 1.48344e-25
B 0.000583935
C 0.030547
D 1.54911e-24
F 1.92869e-30
G 9.61168e-28
H 0.968869
J 0.00000000022274
K 0.000000000282755

Cross-Validation of Discriminant Models
Miss-Classification Rate: 7 / 735 at 10 Dimensional MDS
         Predicted
Objective 01_AE   A   B   C   D   F   G   H   K
    01_AE    57   0   0   0   0   0   0   0   0
    A         3  55   0   1   0   0   0   0   0
    B         0   0 168   0   0   0   0   0   0
    C         0   0   0 370   0   0   0   1   0
    D         0   0   1   0  45   0   0   0   0
    F         0   0   0   0   0  12   0   0   0
    G         0   0   0   0   0   0  16   0   0
    H         0   0   0   0   0   0   0   3   0
    J         0   0   0   0   0   0   0   0   0
    K         0   0   0   0   0   0   0   0   2

Download Multiple Alignment Distance Matrix GGobi XML

Plot in the First 3 Principal Coordinates


Detailed result for pol (nested) Outlierness: 0.506189 (all), 3.4e38 (group)
Subtype Posterior Probability
04_cpx 2.23453e-29
07_BC 0.139268
08_BC 0.857036
10_CD 2.05646e-37
C 0.00369641
H 2.11042e-24

Cross-Validation of Discriminant Models
Miss-Classification Rate: 2 / 382 at 10 Dimensional MDS
         Predicted
Objective 04_cpx 10_CD   C   H
   04_cpx      3     0   0   0
   07_BC       0     0   0   0
   08_BC       0     0   0   0
   10_CD       0     3   0   0
   C           0     0 371   0
   H           0     0   0   3

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