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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 |
| gag |
0 |
343 |
238 |
|
B |
B |
B (Unambiguous Nested) |
| Detailed result for gag (major) |
Outlierness: 0.331539 (all), 0.817766 (group) |
|
| Subtype |
Posterior Probability |
| 01_AE |
1.47609e-38 |
| A |
5.31245e-36 |
| B |
1 |
| C |
0.00000000000229888 |
| D |
0.000000000143982 |
| F |
0.0000000000000441802 |
| G |
5.53513e-43 |
| H |
3.56548e-37 |
| J |
3.5166e-18 |
| K |
0.000000000000454211 |
|
| Cross-Validation of Discriminant Models |
| Miss-Classification Rate: 11 / 1142 at 10 Dimensional MDS |
Predicted
Objective 01_AE A B C D F G H J K
01_AE 72 0 0 0 0 0 0 0 0 0
A 0 131 0 0 0 0 1 1 0 0
B 0 0 263 0 1 1 0 0 0 0
C 0 0 0 551 0 0 0 0 2 0
D 0 1 1 0 74 0 0 0 0 0
F 0 0 0 0 0 15 0 0 0 0
G 0 0 0 0 0 0 21 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 0 0 0 0 2 0 0 0 1
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| Plot in the First 3 Principal Coordinates |
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| Detailed result for gag (nested) |
Outlierness: 0.547583 (all), 0.950631 (group) |
|
| Subtype |
Posterior Probability |
| 03_AB |
1.92191e-34 |
| 07_BC |
2.30287e-17 |
| 08_BC |
1.72145e-18 |
| 12_BF |
0.00000000118124 |
| 14_BG |
3.91724e-32 |
| 15_01B |
0 |
| B |
1 |
|
| Cross-Validation of Discriminant Models |
| Miss-Classification Rate: 8 / 290 at 10 Dimensional MDS |
Predicted
Objective 07_BC 08_BC 12_BF 15_01B B
03_AB 0 0 0 0 0
07_BC 1 2 0 0 0
08_BC 1 4 0 0 0
12_BF 0 0 8 0 2
14_BG 0 0 0 0 0
15_01B 0 0 0 5 0
B 0 0 1 0 264
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| Plot in the First 3 Principal Coordinates |
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