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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 |
| env |
0 |
105 |
58 |
|
B |
B |
B (Major agrees Nested with high confidence) |
| Detailed result for env (major) |
Outlierness: 0.137394 (all), 0.420186 (group) |
|
| Subtype |
Posterior Probability |
| 01_AE |
0.0000127669 |
| A |
0.00000311963 |
| B |
0.886221 |
| C |
0.102464 |
| D |
0.0000000209544 |
| F |
0.00815354 |
| G |
0.0030637 |
| H |
0.00000149535 |
| J |
0.000000149626 |
| K |
0.0000801809 |
|
| Cross-Validation of Discriminant Models |
| Miss-Classification Rate: 212 / 1175 at 10 Dimensional MDS |
Predicted
Objective 01_AE A B C D G J
01_AE 66 1 2 0 0 0 1
A 0 78 1 2 0 1 0
B 1 0 412 39 1 1 0
C 0 5 107 351 1 0 0
D 0 0 6 3 51 0 0
F 0 0 8 8 0 0 0
G 0 2 10 6 0 5 0
H 0 3 0 0 0 0 0
J 0 0 0 0 0 0 0
K 0 0 1 1 0 0 0
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| Plot in the First 3 Principal Coordinates |
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| Detailed result for env (nested) |
Outlierness: 0.418072 (all), 0.478695 (group) |
|
| Subtype |
Posterior Probability |
| 03_AB |
0.0000630969 |
| 07_BC |
0.00401639 |
| 08_BC |
0.000210051 |
| 10_CD |
0.000000704587 |
| 12_BF |
0.00356096 |
| 14_BG |
0.00755032 |
| 15_01B |
0.00126135 |
| B |
0.869959 |
| C |
0.113378 |
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| Cross-Validation of Discriminant Models |
| Miss-Classification Rate: 184 / 951 at 10 Dimensional MDS |
Predicted
Objective 03_AB 08_BC 10_CD 15_01B B C
03_AB 0 0 0 0 0 0
07_BC 0 0 0 0 1 9
08_BC 0 0 0 0 0 2
10_CD 0 0 1 0 2 0
12_BF 0 0 0 0 2 8
14_BG 0 0 0 0 2 1
15_01B 0 0 0 0 4 0
B 1 0 2 2 407 42
C 0 1 3 1 100 359
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| Plot in the First 3 Principal Coordinates |
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