HIV2ID0001
|
PCR |
PCR primer forward |
SR74 |
21 |
392 |
GGGAGATGGGCGCGAGAAACT |
541-561 |
gag |
GGGAGATGGGCGCGAGAAACT |
1210-1231 |
95 |
63.64 |
40 |
94.99 |
66.21 |
6 |
HIV2ID0002
|
PCR |
PCR primer reverse |
SR75 |
25 |
|
GCTAGGTGGTGCTGTTGGTCTACTT |
908-932 |
gag |
AAGTAGACCAACAGCACCATCTAGC |
1578-1602 |
95 |
24 |
20 |
90.4 |
44.80 |
6 |
HIV2ID0003
|
Multiplex real-time PCR & mole(...) |
PCR primer forward |
SR64, envF |
23 |
106 |
CTCCAGGCAAGAGTCACTGCTAT |
7869-7891 |
env |
CTCCAGGCAAGAGTCACTGCTAT |
8869-8891 |
95 |
69.57 |
80 |
91.75 |
80.44 |
14; 33; |
HIV2ID0004
|
Multiplex real-time PCR & mole(...) |
PCR primer reverse |
SR65, envR |
23 |
|
CCCATGGTACAGTAGTGTGGCAG |
7952-7974 |
env |
CTGCCACACTACTGTACCATGGG |
8952-8973 |
95 |
45.45 |
40 |
94.45 |
59.97 |
14; 33; |
HIV2ID0005
|
PCR |
Probe |
SR76 |
25 |
|
TAATACTGTCTGCGTCATTTGGTGC |
782-806 |
gag |
TAATACTGTCTGCGTCATTTGGTGC |
1452-1476 |
95 |
36 |
20 |
92.85 |
49.62 |
33 |
HIV2ID0006
|
SYBR Green real time PCR |
PCR primer forward |
NP84 |
22 |
153 |
GTAGACCAACAGCACCACCTAG |
910-931 |
gag |
GTAGACCAACAGCACCATCTAG |
1580-1601 |
95 |
27.27 |
40 |
91.95 |
53.07 |
19 |
HIV2ID0007
|
SYBR Green real time PCR |
PCR primer reverse |
NP85 |
20 |
|
CTGGCACTACTTCTGCCCCG |
1043-1062 |
gag |
CGGGGCAGAAGTAGTGCCAG |
1716-1735 |
95 |
50 |
60 |
91.28 |
67.09 |
19 |
HIV2ID0008
|
SYBR Green real time PCR |
PCR primer forward |
NP86 |
22 |
138 |
GGGCAGAACAAACAGACCCAGC |
1465-1486 |
gag |
GGGCAGAACAAACAGATCCAGC |
2144-2165 |
95 |
50 |
20 |
87.37 |
52.46 |
19 |
HIV2ID0009
|
SYBR Green real time PCR |
PCR primer reverse |
NP87 |
22 |
|
GGCAGGCGGTTAGCATCTCTTC |
1581-1602 |
gag |
GAAGAGATGCTGACCGCCTGTC |
2260-2281 |
95 |
54.55 |
60 |
86.47 |
67.01 |
19 |
HIV2ID0010
|
SYBR Green real time PCR |
PCR primer forward |
NP76 |
23 |
211 |
CTCGCCTCTTGAYCGGRCTATAC |
8933-8955 |
env |
GGGGGGGACTGGAAGGGATGTTT |
9983-10005 |
95 |
47.83 |
40 |
94.15 |
60.66 |
19 |
HIV2ID0011
|
SYBR Green real time PCR |
PCR primer reverse |
NP77 |
22 |
|
CCCGCAAGAGTCTCTCTCGTAG |
8602-8623 |
env |
CTACAAGAGAGACTCTTGCGGG |
9635-9656 |
95 |
27.27 |
0 |
84.24 |
37.17 |
19 |
HIV2ID0012
|
Reverse Transcription�Loop-M(...) |
Primer forward |
A-F3 |
21 |
|
CCTTACAATCCACAAAGCCAA |
4481-4501 |
pol |
CCTTACAATCCACAGAGCCAA |
5260-5280 |
95 |
61.9 |
60 |
86.49 |
69.46 |
34 |
HIV2ID0013
|
Reverse Transcription�Loop-M(...) |
Primer reverse |
A-B3 |
23 |
|
ATTGTATTTCTTGTTCTGTGGTG |
4657-4679 |
pol |
AATCAATATGATCACCACAGAAC |
5436-5458 |
95 |
52.17 |
40 |
88.33 |
60.17 |
34 |
HIV2ID0014
|
Reverse Transcription�Loop-M(...) |
Primer forward |
A-Loop F |
18 |
|
ACTTATCTGATTTTTTAG |
6562-6579 |
env |
AGATAAGTGAGGATACTC |
7451-7468 |
95 |
0 |
0 |
62.43 |
20.81 |
34 |
HIV2ID0015
|
Reverse Transcription�Loop-M(...) |
Primer reverse |
A-Loop B |
21 |
|
AATTTTAAAAGAAGGGGAGGA |
4607-4627 |
pol |
AATTTTAAAAGAAGGGGGGGA |
5386-5406 |
95 |
85.71 |
100 |
99.7 |
95.14 |
34 |
HIV2ID0016
|
|
Probe |
S65GAG2 |
23 |
|
TAGGTTACGGCCCGGCGGAAAGA |
602-624 |
gag |
CAGGTTACGGCCCGGCGGAAAGA |
1272-1294 |
95 |
39.13 |
40 |
88.61 |
55.91 |
|
HIV2ID0017
|
Reverse transcriptase PCR |
Primer forward |
Seq.ID.NO.19 |
26 |
|
CCTCAATTCTCTCTTTGGAAAAGACC |
2084-2109 |
gag |
CCTCAATTCTCTCTTTGGAAAAGACC |
2853-2878 |
95 |
73.08 |
80 |
95.66 |
82.91 |
35 |
HIV2ID0018
|
Reverse transcriptase PCR |
Primer reverse |
Seq.ID.NO.20 |
26 |
|
AAATGTTGATTGGGGTATCTCCTGTC |
2311-2336 |
pol |
GACAGGCGACACCCCAATCAACATTT |
3081-3106 |
95 |
65.38 |
80 |
88.89 |
78.09 |
35 |
HIV2ID0019
|
Reverse transcriptase PCR |
Probe |
Seq.ID.NO.21 |
17 |
|
CCAAAAATAGTAGGGGG |
2213-2229 |
? |
CCAAAAATAGTAGGGGG |
2983-2999 |
95 |
47.06 |
60 |
92.73 |
66.60 |
35 |
HIV2ID0020
|
Reverse transcriptase PCR |
Probe |
Seq.ID.NO.22 |
17 |
|
ATAGTAGCAGGAATAGA |
2177-2193 |
? |
ATAGTAGCAGGAATAGA |
2947-2963 |
95 |
52.94 |
40 |
89.47 |
60.80 |
35 |
HIV2ID0021
|
Reverse transcriptase PCR |
Primer forward |
Seq.ID.NO.23 |
25 |
|
CAATAGTAGCAGGAATAGAGTTAGG |
2175-2199 |
? |
CAATAGTAGCAGGAATAGAGTTAGG |
2945-2969 |
95 |
48 |
40 |
87.32 |
58.44 |
35 |
HIV2ID0022
|
Reverse transcriptase PCR |
Primer forward |
Seq.ID.NO.16 |
33 |
|
ACTGATGGCAGTTCATTGCATGAATTTTAA(...) |
4585-4617 |
pol |
ACTAATGGCAATTCATTGCATGAATTTTAA(...) |
5364-5396 |
95 |
60.61 |
60 |
94.22 |
71.61 |
35 |
HIV2ID0023
|
Reverse transcriptase PCR |
Probe |
Seq.ID.NO.18 |
20 |
|
CAGAACAAGAAATACAATTC |
4674-4693 |
pol |
CAGAACAAGAGATACAATTC |
5453-5472 |
95 |
50 |
40 |
93.92 |
61.31 |
35 |
HIV2ID0024
|
Reverse transcriptase PCR |
Primer reverse |
Seq.ID.NO.17 |
27 |
|
TTCCACAGCTGATCTCTGCCTTCTCTG |
4738-4764 |
pol |
CAGAGAAGGCAGAGATCAGTTGTGGAA |
5517-5543 |
95 |
62.96 |
80 |
94.38 |
79.11 |
35 |
HIV2ID0025
|
Taqman real-time PCR |
Primer forward |
HIV-2TMfpr1 |
20 |
81 |
AACAAACCACGACGGAGTGC |
379-398 |
? |
AACAAACCACGACGGAGTGC |
1022-1041 |
88 |
25 |
40 |
93.19 |
52.73 |
36 |
HIV2ID0026
|
Taqman real-time PCR |
Primer reverse |
HIV-2TMrpr1 |
19 |
|
CCACACGCTGCCTTTGGTA |
422-440 |
? |
TACCAAAGGCAGCGTGTGG |
1071-1090 |
89 |
25 |
20 |
90.05 |
45.02 |
36 |
HIV2ID0027
|
Taqman real-time PCR |
Probe |
Tmprobe 1 |
20 |
|
TCGGCCCGCGCITTTCTAGG |
400-419 |
? |
CCTAGAAAGGCGCGGGCCGA |
1043-1055 |
88 |
30.77 |
40 |
90.02 |
53.60 |
36 |
HIV2ID0028
|
Taqman real-time PCR |
Primer forward |
HIV-2TMfpr2 |
19 |
67 |
GGCTGCACGCCCTATGATA |
1083-1101 |
gag |
GGCTGCACGCCCTATGATA |
1756-1774 |
95 |
52.63 |
40 |
86.08 |
59.57 |
36 |
HIV2ID0029
|
Taqman real-time PCR |
Primer reverse |
HIV-2TMrpr2 |
19 |
|
TCTGCATGGCTGCTTGATG |
1131-1149 |
gag |
CATCAAGCAGCCATGCAGA |
1804-1822 |
95 |
68.42 |
80 |
88.29 |
78.90 |
36 |
HIV2ID0030
|
Taqman real-time PCR |
Probe |
Tmprobe 2.1 |
27 |
|
TCGCCCACACAATTAAGCATTTGGTTG |
1103-1129 |
gag |
CAACCAAATGCTTAATTGTGTGGGCGA |
1776-1802 |
95 |
62.96 |
80 |
88.66 |
77.21 |
36 |
HIV2ID0031
|
Taqman real-time PCR |
Probe |
Tmprobe 2.2 |
27 |
|
TCGCCCACACAATTAAGCATTTGATTA |
1103-1129 |
gag |
CAACCAAATGCTTAATTGTGTGGGCGA |
1776-1802 |
95 |
62.96 |
80 |
88.66 |
77.21 |
36 |
HIV2ID0032
|
Taqman real-time PCR |
Primer forward |
HIV-2TM1sfpr |
21 |
355 |
CGCCTGGTCATTCGGTGTTCA |
207-227 |
LTR |
CGCCTGGTCATTCGGTGTTCA |
823-844 |
65 |
0 |
0 |
82.05 |
27.35 |
36 |
HIV2ID0033
|
Taqman real-time PCR |
Primer reverse |
HIV-2TM1srpr |
20 |
|
AGTTTCTCGCGCCCATCTCC |
542-561 |
gag |
GGAGATGGGCGCGAGAAACT |
1211-1231 |
95 |
61.9 |
60 |
94.74 |
72.21 |
36 |
HIV2ID0034
|
Taqman real-time PCR |
Primer forward |
HIV-2TM2sfpr |
19 |
417 |
AGGAACTGCAGAGAAAATG |
881-899 |
gag |
AGGAACTGCAGAGAAAATG |
1551-1569 |
95 |
0 |
0 |
80.63 |
26.88 |
36 |
HIV2ID0035
|
Taqman real-time PCR |
Primer reverse |
HIV-2TM2srpr |
24 |
|
GTGCTTGTTGTCCCTGCTATGTCA |
1250-1273 |
gag |
TGACATAGCAGGGACAACAAGCAC |
1929-1952 |
95 |
62.5 |
60 |
84.08 |
68.86 |
36 |
HIV2ID0036
|
Long PCR (XL PCR) and nested P(...) |
Primer forward |
LTR1 |
22 |
|
TTCCCTGCTRGACTCTCACCAG |
75-96 |
LTR |
TTCCCTGCTAGACTCTCACCAG |
684-705 |
47 |
45.45 |
40 |
97.21 |
60.89 |
37 |
HIV2ID0037
|
Long PCR (XL PCR) and nested P(...) |
Primer reverse |
LTR2 |
19 |
|
ACATCCCTTCCAGTCCCCC |
8935-8953 |
LTR |
GGGGGACTGGAAGGGATGT |
9985-10003 |
95 |
57.89 |
40 |
96.12 |
64.67 |
37 |
HIV2ID0038
|
Long PCR (XL PCR) and nested P(...) |
Primer forward |
ENVF |
27 |
|
TATAGGCCWGTTTTCTCTTCCCCYCCC |
8265-8291 |
env |
TATAGGCCTGTTTTCTCTTCCCCCCCC |
9277-9303 |
95 |
51.85 |
20 |
91.57 |
54.47 |
37 |
HIV2ID0039
|
Nested PCR |
Primer forward |
GAGOG AS1 |
20 |
|
TTCAGGCACTCTCAGAAGGC |
1066-1085 |
gag |
TTCAGGCACTCTCAGAAGGC |
1739-1758 |
95 |
60 |
60 |
88.91 |
69.64 |
38 |
HIV2ID0040
|
Long PCR (XL PCR) and nested P(...) |
Primer forward |
EB0 |
25 |
|
ATACAGTGCTTRCCAGACAATGATG |
6300-6324 |
env |
ATACAGTGCTTGCCTGACAATGATG |
7141-7165 |
95 |
48 |
60 |
84.51 |
64.17 |
37 |
HIV2ID0041
|
Long PCR (XL PCR) and nested P(...) |
Primer reverse |
EB6 |
20 |
|
CCATTRAAGCCAAACCAWGT |
6945-6964 |
env |
ACATGGTTTGGCTTTAATGG |
7861-7880 |
95 |
70 |
80 |
93.95 |
81.32 |
37 |
HIV2ID0042
|
Long PCR (XL PCR) and nested P(...) |
Primer forward |
EB2 |
22 |
|
TCATGTGAYAARCAYTATTGGG |
6783-6804 |
env |
TCATGTGACAAGCACTATTGGG |
7699-7720 |
95 |
63.64 |
80 |
91.16 |
78.27 |
37 |
HIV2ID0043
|
Long PCR (XL PCR) and nested P(...) |
Primer reverse |
EB5 |
20 |
|
CTCCTCTGCAGTTAGTCCAC |
7310-7329 |
env |
GTGGACTAACTGCAGAGGAG |
8247-8266 |
95 |
70 |
80 |
91.83 |
80.61 |
37 |
HIV2ID0044
|
Long PCR (XL PCR) and nested P(...) |
Primer forward |
EB7 |
17 |
|
CCYAGGCAAGCATGGTG |
7149-7165 |
env |
CCCAGACAAGCATGGTG |
8068-8084 |
95 |
64.71 |
100 |
85.7 |
83.47 |
37 |
HIV2ID0045
|
Long PCR (XL PCR) and nested P(...) |
Primer reverse |
ENVE |
20 |
|
GCACATCCCCATGAATTTAG |
7920-7939 |
env |
CTAAATTCATGGGGATGTGC |
8920-8939 |
95 |
60 |
40 |
91.45 |
63.82 |
37 |
HIV2ID0046
|
Nested PCR |
Primer forward |
ENVA |
33 |
|
GCTAGGGTTCTTGGGTTTTCTCGCRACAGC(...) |
7691-7723 |
env |
GCTAGGGTTCTTGGGTTTTCTCGCAACAGC(...) |
8688-8720 |
95 |
45.45 |
80 |
93 |
72.82 |
39 |
HIV2ID0047
|
Nested PCR |
Primer reverse |
ENVB |
30 |
|
CAAGAGGCGTATCAGCTGGCGGATCAGGAA |
8415-8444 |
env |
TTCCTGATCCGCCAGCTGATTCGCCTCTTG |
9427-9456 |
95 |
33.33 |
40 |
87.3 |
53.54 |
39 |
HIV2ID0048
|
Long PCR (XL PCR) and nested P(...) |
Primer reverse |
ENVG |
24 |
|
CTTCTTGGATCCACTCGCACCCAT |
8557-8580 |
env |
ATGGGTGCGAGTGGATCCAAGAAG |
9590-9613 |
95 |
37.5 |
100 |
77.59 |
71.70 |
37 |
HIV2ID0049
|
Nested PCR |
Primer forward |
LTR9432 |
22 |
|
AGGAGCTGGTGGGGAACGCCCT |
9432-9453 |
LTR |
AGGAGCTGGTGGGGAACGCCCT |
10539-10559 |
75 |
33.33 |
60 |
82.35 |
58.56 |
40 |
HIV2ID0050
|
Nested PCR |
Primer reverse |
GAG OG S1 INV |
23 |
|
AGTTTCTCGCGCCCATCTCCCAC |
539-561 |
gag |
GTGGGAGATGGGCGCGAGAAACT |
1208-1231 |
95 |
62.5 |
80 |
95.33 |
79.28 |
40 |
HIV2ID0051
|
Nested PCR |
Primer forward |
GAG OG S1 |
23 |
|
GTGGGAGATGGGCGCGAGAAACT |
539-561 |
gag |
GTGGGAGATGGGCGCGAGAAACT |
1208-1231 |
95 |
62.5 |
40 |
95.33 |
65.94 |
38 |
HIV2ID0052
|
Nested PCR |
Primer reverse |
GAG OG AS1 |
24 |
|
GGATTTCAGGCACTCTCAGAAGGC |
1062-1085 |
gag |
GGATTTCAGGCACTCTCAGAAGGC |
1735-1758 |
95 |
58.33 |
60 |
90 |
69.44 |
38 |
HIV2ID0053
|
Nested PCR |
Primer forward |
GAGOG AS1 INV RAC |
24 |
|
CCAGGATTTCAGGCACTCTCAGAG |
1059-1082 |
gag |
CCAGGATTTCAGGCACTCTCAGAA |
1732-1755 |
95 |
54.17 |
60 |
92.11 |
68.76 |
40 |
HIV2ID0054
|
Nested PCR |
Primer reverse |
RTC DR INV |
20 |
|
GATTGGGGTGTCTCCTGTCA |
2310-2329 |
pol |
TGACAGGCGACACCCCAATC |
3080-3099 |
95 |
65 |
80 |
88.25 |
77.75 |
40 |
HIV2ID0055
|
Nested PCR |
Primer forward |
X410 |
21 |
|
CACCTCAATTCTCTCTTTGGA |
2082-2102 |
gag |
CACCTCAATTCTCTCTTTGGA |
2851-2871 |
95 |
80.95 |
60 |
99.31 |
80.09 |
40 |
HIV2ID0056
|
Nested PCR |
Primer reverse |
RT4 |
30 |
|
TCCCCAAATGACTAGTGCTTCTTTTCCTAT |
3500-3529 |
pol |
ATAGGAAAAGAAGCACTAGTCATTTGGGGA |
4276-4305 |
95 |
43.33 |
60 |
90.01 |
64.45 |
39 |
HIV2ID0057
|
Nested PCR |
Primer reverse |
PFD INV |
21 |
|
CTGCCTTCTCTGAAATAGACC |
4729-4749 |
pol |
GGTCTATTTCAGAGAAGGCAG |
5508-5528 |
95 |
76.19 |
80 |
97.93 |
84.71 |
40 |
HIV2ID0058
|
Nested PCR |
Primer forward |
RT SEQ1 |
21 |
|
GGATGGGCTATGAACTATGGC |
3066-3086 |
pol |
GGATGGGCTATGAACTATGGC |
3839-3859 |
95 |
47.62 |
40 |
87.93 |
58.52 |
40 |
HIV2ID0059
|
Nested PCR |
Primer forward |
POL OG 450 |
23 |
|
GGAGTAGTAGAAGCAATGAATCA |
4502-4524 |
pol |
GGAGTAGTAGAAGCAATGAATCA |
5281-5303 |
95 |
52.17 |
20 |
92.48 |
54.88 |
38 |
HIV2ID0060
|
Nested PCR |
Primer reverse |
POL OG 479 |
23 |
|
CCTACCTTGACTAGGACTGCTCC |
4796-4818 |
pol |
GGAGCAGTCCTAGTCAAGGTAGG |
5575-5597 |
95 |
69.57 |
80 |
92.89 |
80.82 |
38 |
HIV2ID0061
|
Nested PCR |
Primer forward |
POL OG 479 INV |
23 |
|
GGAGCAGTCCTAGTCAAGGTAGG |
4796-4818 |
pol |
GGAGCAGTCCTAGTCAAGGTAGG |
5575-5597 |
95 |
69.57 |
100 |
92.89 |
87.49 |
38 |
HIV2ID0062
|
Nested PCR |
Primer reverse |
DR TAT1 |
20 |
|
TTGAGTGCCGACATCCCCCT |
5915-5934 |
tat |
AGCAGGATGTGGCCACTCAA |
6735-6754 |
95 |
20 |
20 |
74.83 |
38.28 |
40 |
HIV2ID0063
|
Nested PCR |
Primer forward |
ENV4 |
24 |
|
AGTAACAGAGCAAGCAGTGGAAGA |
6380-6403 |
env |
AGTAACAGAACAAGCAATAGAAGA |
7221-7244 |
95 |
45.83 |
40 |
91.24 |
59.02 |
40 |
HIV2ID0064
|
Nested PCR |
Primer reverse |
SLTR5 |
24 |
|
ACCTGCTAGTGCTGGAGAGAACCT |
39-62 |
LTR |
AGGTTCTCTCCAGCACTAGCAGGT |
648-671 |
46 |
37.5 |
20 |
97.64 |
51.71 |
40 |
HIV2ID0065
|
Nested PCR |
Primer reverse |
LTR 9574 |
19 |
|
TGGTGAGAGTCTAGCAGGG |
9574-9592 |
LTR |
CCCTGCTAGACTCTCACCA |
10682-10701 |
46 |
55 |
0 |
97.24 |
50.75 |
41 |