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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 |
102 |
57 |
|
B |
B |
B (Major agrees Nested with high confidence) |
| Detailed result for env (major) |
Outlierness: 1.34882 (all), 1.30257 (group) |
|
| Subtype |
Posterior Probability |
| 01_AE |
0.0000000896058 |
| A |
0.00000000234007 |
| B |
0.97025 |
| C |
0.010795 |
| D |
0.0000000000000117372 |
| F |
0.0110601 |
| G |
0.00789351 |
| H |
0.00000126659 |
| J |
0.00000000163426 |
| K |
0.000000373807 |
|
| Cross-Validation of Discriminant Models |
| Miss-Classification Rate: 206 / 1175 at 10 Dimensional MDS |
Predicted
Objective 01_AE A B C D F G J
01_AE 67 1 2 0 0 0 0 0
A 0 78 1 1 0 1 0 1
B 0 0 413 40 1 0 0 0
C 0 4 104 355 1 0 0 0
D 0 0 7 3 50 0 0 0
F 0 0 7 9 0 0 0 0
G 0 2 10 5 0 0 6 0
H 0 2 0 0 0 0 1 0
J 0 0 0 0 0 0 0 0
K 0 0 1 1 0 0 0 0
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| Plot in the First 3 Principal Coordinates |
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| Detailed result for env (nested) |
Outlierness: 1.82677 (all), 1.69854 (group) |
|
| Subtype |
Posterior Probability |
| 03_AB |
0.00323919 |
| 05_DF |
0.0000184446 |
| 07_BC |
0.0000320253 |
| 08_BC |
0.000034304 |
| 10_CD |
0.000000503664 |
| 12_BF |
0.000281986 |
| 14_BG |
0.0733388 |
| 15_01B |
0.0000145136 |
| B |
0.920614 |
| C |
0.000694211 |
| F |
0.00173214 |
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| Cross-Validation of Discriminant Models |
| Miss-Classification Rate: 190 / 970 at 10 Dimensional MDS |
Predicted
Objective 08_BC 10_CD 15_01B B C
03_AB 0 0 0 0 0
05_DF 0 0 0 0 3
07_BC 0 0 0 1 9
08_BC 0 0 0 0 2
10_CD 0 1 0 2 0
12_BF 0 0 0 2 8
14_BG 0 0 0 2 1
15_01B 0 0 0 4 0
B 0 3 2 418 31
C 1 3 2 97 361
F 0 0 0 4 12
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| Plot in the First 3 Principal Coordinates |
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