Supplemental material
Table 1S. Measles and non-measles samples used in the study.
# / Sample ID / Strain name / GenBank Acc number (N gene) / RNA source / Geno-type / M/a result1 / A ref / MVi/Edmonston-wt.USA/54 / U01987 / Viral isolate / A / A
2 / B1 ref / MVi/Yaounde.CAE/12.83 “Y-14” / U01998 / Viral isolate / B1 / B1
3 / B2 ref / MVi/Libreville.GAB/84 “R-96” / U01994 / Viral isolate / B2 / B2
4 / B3.1 ref / MVi/New York.USA/94 / L46753 / Viral isolate / B3.1 / B3
5 / B3.2 ref / MVi/Ibadan.NIE/97/1 / AJ232203 / Viral isolate / B3.2 / B3
6 / C1 ref / MVi/Tokyo.JPN/84/K / AY043459 / Viral isolate / C1 / C1
7 / C2 ref / MVi/Maryland.USA/77 “JM” / M89921 / Viral isolate / C2 / C2
8 / D3 ref / MVi/Illinois.USA/89/1 “Chicago-1” / U01977 / Viral isolate / D3 / D3
9 / D4 ref / MVi/Montreal.CAN/89 / U01976 / Viral isolate / D4 / D4
10 / D5.1 ref / MVi/Palau.BLA/93 / L46758 / Viral isolate / D5.1 / D5
11 / D5.2 ref / MVi/Bangkok.THA/93/1 / AF079555 / Viral isolate / D5.2 / D5
12 / D6 ref / MVi/New Jersey.USA/94/1 / L46750 / Viral isolate / D6 / D6
13 / D7.1 ref / MVi/Victoria.AUS/16.85 / AF243450 / Viral isolate / D7.1 / D7
14 / D7.2 ref / MVi/Illinois.USA/50.99 / AY037020 / Viral isolate / D7.2 / D7
15 / D9 ref / MVi/Victoria.AUS/12.99 / AF481485 / Viral isolate / D9 / D9
16 / G1 ref / MVi/Berkeley.USA/83 / U01974 / Viral isolate / G1 / G1
17 / G2 ref / MVi/Amsterdam.NET/49.97 / AF171232 / Viral isolate / G2 / G2
18 / G3 ref / MVi/Gresik.INO/17.02 / AY184218 / Viral isolate / G3 / G3
19 / H1 ref / MVi/Hunan.CHN/93/7 / AF045201 / Viral isolate / H1 / H1
20 / H2 ref / MVi/Beijing.CHN/94/1 / AF045217 / Viral isolate / H2 / H2
21 / CDC 1 / Measles Vaccine (Shanghai-191) / DQ390225 / Viral isolate / A / A
22 / CDC 2 / MVi/North Carolina. USA/20.05 / DQ390255 / Viral isolate / A / A
23 / CDC 3 / MVi/Niamey.NIG/26.03-1 / DQ390243 / Viral isolate / B3.2 / B3
24 / CDC 4 / MVi/Niamey.NIG/26.03-2 / DQ390240 / Viral isolate / B3.2 / B3
25 / CDC 5 / MVi/Niamey.NIG/26.03-3 / DQ390241 / Viral isolate / B3.2 / B3
26 / CDC 6 / Nipah virus / N. A. / Viral isolate / / Neg
27 / CDC 7 / Mumps virus / N. A. / Viral isolate / / Neg
28 / CDC 8 / MVi/IllinoisUSA/01.03 / DQ390227 / Viral isolate / D3 / D3
29 / CDC 9 / MVi/California.USA/20.04 / DQ390226 / Viral isolate / D3 / D3
30 / CDC 10 / MVi/Pennsylvannia.USA/14.03 / DQ390238 / Viral isolate / D4 / D4
31 / CDC 11 / MVi/Illinois.USA/22.05 / DQ390253 / Viral isolate / D4 / D4
32 / CDC 12 / MVi/Indiana.USA/22.05 / DQ390254 / Viral isolate / D4 / D4
33 / CDC 13 / MVi/Tokyo.JPN/00.97 / DQ390230 / Viral isolate / D5.1 / D5
34 / CDC 14 / MViAnkara.TUR/10.98-4 / AY899319 / Viral isolate / D6 / D6
35 / CDC 15 / MVi/Washington.USA/17.98 / AY037038 / Viral isolate / D6 / D6
36 / CDC 16 / MVs/Arizona.USA/04.05 / DQ390256 / Clinical / D6 / D6
37 / CDC 17 / MVi/New York.USA/32.03 / DQ390229 / Viral isolate / D7.2 / D7
38 / CDC 18 / MVi/California.USA/41.02 / DQ390235 / Viral isolate / D7.2 / D7
39 / CDC 19 / MVi/Iowa.USA/13.04 / DQ390252 / Viral isolate / D8 / D8
40 / CDC 20 / MVi/Iowa.USA/11.04 / DQ390251 / Viral isolate / D8 / D8
41 / CDC 21 / MVi/Iowa.USA/14.04 / DQ390250 / Viral isolate / D8 / D8
42 / CDC 22 / MVi/Brooklyn.USA/10.04 / DQ390245 / Viral isolate / D8 / D8
43 / CDC 23 / MVs/New York.USA/04.05 / DQ390257 / Clinical / D8 / D8
44 / CDC 24 / MVi/Santander.COL/31.02 / DQ390237 / Viral isolate / D9 / D9
45 / CDC 25 / MVs/New York.USA/1.05 / DQ390258 / Clinical / D9 / D9
46 / CDC 26 / MVi/Montreal.CAN/11.87 / AF410989 / Viral isolate / E / E
47 / CDC 27 / SMa79 / X84865 / Plasmid insert / F / F
48 / CDC 28 / MVi/Loei.THA/23.01-1 / DQ390231 / Viral isolate / G2 / G2
49 / CDC 29 / MVi/Bangkok.THA/41.00-3 / DQ390232 / Viral isolate / G2 / G2
50 / CDC 30 / MVi/Gresik.INO/17.02 / AY184217 / Viral isolate / G3 / G3
51 / CDC 31 / MVs/Majuro.RMI/35.03 / DQ390228 / Clinical / H1 / H1
52 / CDC 32 / MVi/California.USA/20.04 / DQ390249 / Viral isolate / H1 / H1
53 / CDC 33 / MVi/Mexico City.MEX/14.04-1 / DQ390248 / Viral isolate / H1 / H1
54 / CDC 34 / MVi/Mexico City.MEX/14.04-2 / DQ390247 / Viral isolate / H1 / H1
55 / CDC 35 / MVi/Mexico City.MEX/14.04-3 / DQ390244 / Viral isolate / H1 / H1
56 / CDC 36 / MVi/Mexico City.MEX/14.04-4 / DQ390246 / Viral isolate / H1 / H1
57 / CDC 37 / MVi/Majuro.RMI/44.03 / DQ390239 / Viral isolate / H1 / H1
58 / CDC 38 / MVi/Ulanbataar.MOG/50.02 / DQ390234 / Viral isolate / H1 / H1
59 / CDC 39 / MVi/Mexico City.Mex/23.03 / DQ390242 / Viral isolate / H1 / H1
60 / CDC 40 / MVi/MinnesotaUSA/36.01 / DQ390236 / Viral isolate / H2 / H2
61 / CDC 41 / MVi/Kampala.UGA/51.00 / AY 923185 / Viral isolate / D10 / D10
62 / SA 1 / MVs/Cape Town.SOA/45.02 / AY994533 / Urine / B2 / B3
63 / SA 2 / MVs/Cape Town.SOA/47.02/7 / AY994533 / Urine / B2 / B3
64 / SA 3 / MVs/Luanda.ANG/13.03/1 / AY994534 / Urine / B2 / B3
65 / SA 4 / MVs/Maputo.MOZ/21.03 / AY994533 / Urine / D2 / D2
66 / SA 5 / MVs/Bushbuckridge.SOA/29.03 / AY994533 / Serum / D4 / D4
67 / SA 6 / MVs/Paarl.SOA/37.03 / AY994534 / Urine / D2 / D2
68 / SA 7 / MVs/Beira.MOZ/38.03 / DQ400386 / Urine / D4 / D4
69 / SA 8 / MVs/Benoni.SOA/43.03 / DQ400387 / Urine / D2 / D2
70 / SA 9 / MVs/Johannesburg.SOA/45.03 / DQ400388 / Urine / D2 / D2
71 / SA 10 / MVs/Johannesburg.SOA/37.04/2 / DQ400389 / Urine / D2 / D2
72 / SA 11 / MVs/Johannesburg.SOA/37.04 / DQ400390 / Urine / D2 / D2
73 / SA 12 / MVs/Johannesburg.SOA/3.04 / DQ400391 / Urine / D2 / PCR Neg
74 / SA 13 / MVs/Maseru.LES/44.04 / DQ400392 / Urine / D2 / D2
75 / SA 14 / MVs/Boksburg.SOA/36.03 / DQ400393 / Urine / D2 / D2
76 / SA 15 / MVi/Kinshasa.COD/ 19.05 / DQ400394 / Viral isolate / B2 / B3
77 / VIDRL 1 / MVs/PNG/24.02 / DQ400395 / NTS / D3 / D3
78 / VIDRL 2 / MVs/Victoria.AU/20.03 / DQ400396 / NTS / D8 / D8
79 / VIDRL 3 / MVs/Queensland.AU/18.03 / DQ400397 / NPA / H1 / H1
80 / VIDRL 4 / MVi/Sarawak.MAS/2.05 / DQ398063 / Viral isolate / D9 / D9
81 / VIDRL 5 / Human Parvovirus B19 / N. A. / Serum / / Neg
82 / VIDRL 6 / MVs/NSW.AUS/29.01 / AF481481 / TS / D5 / PCR Neg
83 / VIDRL 7 / MVs/Victoria.AUS/26.00 / AF481494 / Serum / G2 / G2
84 / VIDRL 8 / MVi/Victoria.AUS/4.90 / AF243459 / NPA / C2 / C2
85 / VIDRL 9 / MVi/Victoria.AUS/13.98 / AF243468 / NPA / D4 / D4
86 / VIDRL 10 / MVs/Queensland.AUS/52.01 / Vaccine / TS / A / PCR Neg
87 / VIDRL 11 / MVs/Victoria.AUS/1.02 / DQ398061 / Serum / D8 / D8
88 / VIDRL 12 / MVs/Victoria.AUS/30.02 / DQ398072 / TS / H1 / H1
89 / VIDRL 13 / MVs/Queensland.AUS/38.03 / DQ398057 / Urine / D5 / D5
90 / VIDRL 14 / MVi/Victoria.AUS/43.01 / AF481484 / Serum / D5 / PCR Neg
91 / VIDRL 15 / MVi/Queensland.AUS/37.03 / DQ398058 / Viral isolate / D5 / D5
92 / VIDRL 16 / Respiratory Syncytial Virus / N. A. / NPA / / Neg
93 / VIDRL 17 / Parainfluenza Virus Type 2 / N. A. / TS / / Neg
94 / VIDRL 18 / MVi/Victoria.AUS/39.81 / AF243449 / Viral isolate / D1 / D1
95 / VIDRL 19 / MVi/Victoria.AUS/51.86 =D7.1 ref / AF243454 / NPA / D7 / D7
96 / VIDRL 20 / Rhinovirus (untyped) / N. A. / TS / / Neg
97 / VIDRL 21 / Human Herpesvirus 6 / N. A. / Plasma / / Neg
98 / VIDRL 22 / MVs/Victoria.AUS/10.03 / DQ398073 / TS / H1 / H1
99 / VIDRL 23 / MVs/Queensland.AUS/9.03 / DQ398056 / Urine / D3 / D3
100 / VIDRL 24 / MVs/Victoria.AUS/10.03 / DQ398074 / NTS / H1 / H1
101 / VIDRL 25 / Human Herpesvirus 6 / N. A. / Plasma / / Neg
102 / VIDRL 26 / MVi/Victoria.AUS/5.01 / AF481491 / Saliva / D8 / D8
103 / VIDRL 27 / MVs/Queensland.AUS/8.00 / DQ398065 / Urine / D7 / PCR Neg
104 / VIDRL 28 / MVs/Victoria.AUS/29.04 / DQ398078 / NTS / G2 / G2
105 / VIDRL 29 / MVs/Victoria.AUS/6.05 / DQ398066 / NTS / D4 / D4
106 / VIDRL 30 / Epstein-Barr Virus / N. A. / Plasma / / Neg
107 / VIDRL 31 / Human Parvovirus B19 / N. A. / Plasma / / Neg
108 / VIDRL 32 / MVs/Victoria.AUS/28.04 / DQ398079 / NTS / G3 / G3
109 / VIDRL 33 / MVs/South Australia.AUS/39.04 / DQ398062 / TS / D8 / D8
110 / VIDRL 34 / MVs/Victoria.AUS/21.02 / DQ398077 / Saliva / H2 / H2
111 / VIDRL 35 / Varicella Zoster Virus / N. A. / TS / / Neg
112 / VIDRL 36 / Rhinovirus (untyped) / N. A. / NTS / / Neg
113 / VIDRL 37 / MVi/MGL/26.02 / DQ398076 / Viral isolate / H1 / H1
114 / VIDRL 38 / MVs/Victoria.AUS/16.03 / DQ398075 / NTS / H1 / H1
115 / VIDRL 39 / MVs/Queensland.AUS/44.01 / Vaccine / NPS / A / A
116 / VIDRL 40 / MVs/Queensland.AUS/52.01 / DQ398059 / TS / D5 / D5
117 / VIDRL 41 / MVs/ PNG /48.01 / DQ398055 / Serum / D3 / D3
118 / VIDRL 42 / Cytomegalovirus / N. A. / Plasma / / Neg
119 / VIDRL 43 / Varicella Zoster Virus / N. A. / Lung tissue / / Neg
120 / VIDRL 44 / MVs/Queensland.AUS/47.03 / DQ398081 / TS / D9 / D9
121 / VIDRL 45 / MVs/Victoria.AUS/14.04 / DQ398064 / NTS / D9 / D9
122 / VIDRL 46 / Cytomegalovirus / N. A. / Sputum / / Neg
123 / VIDRL 47 / MVs/ South Australia.AUS/37.03 / DQ398071 / Urine / H1 / H1
124 / VIDRL 48 / MVs/New South Wales.AUS/4.04 / DQ398067 / NTS / D4 / D4
125 / VIDRL 49 / MVs/Queensland.AUS/12.04 / DQ398068 / TS / D4 / D4
126 / VIDRL 50 / Parainfluenza Virus Type 2 / N. A. / Sputum / / Neg
127 / VIDRL 51 / MVs/Victoria.AUS/48.04 / DQ398082 / Urine / D5 / D5
128 / VIDRL 52 / Epstein-Barr Virus / N. A. / Viral isolate / / Neg
129 / VIDRL 53 / Respiratory Syncytial Virus / N. A. / Sputum / / Neg
130 / VIDRL 54 / MVs/Victoria.AUS/2.04 / DQ398080 / NTS / G3 / G3
131 / VIDRL 55 / MVs/South Australia.AUS/20.03 / DQ398069 / Urine / D2 / D2
Note: RNA source column indicate source for viral RNA isolation. Individual fields comments: Viral isolate – RNA isolated from infected cell culture; Clinical – clinical sample (type not known); Plasmid insert – plasmid DNA was used as a template instead of cDNA; Urine – RNA isolated from urine cell sediment; TS – Throat Swab; NTS – Nose/Throat Swab; NPA – NasoPharyngeal Aspirate.
Table 2S. Oligonucleotide probes of the measles genotyping microarray.
# / Probe name / Sequence (H2N-C5…5' - 3') / Specificity / Possible cross reactivity1 / A_1 / GACACCCCTATAGTGTA / A
2 / A_1 NC / GACACCCCTAgAGTGTA
3 / A_2 / TACAATGACAGAAATCTTCTA / A
4 / A_2 NC / TACAATGACAGAgATCTTCTA
5 / A_3 / ACACCCCTATAGTGTACAAT / A / D4; F
6 / A_3 NC / ACACCCCTAgAGTGTACAAT
7 / B / ATGAGCTGCCGAGATTG / all B / D5.1; D6; E
8 / B NC / ATGAGCTaCCGAGATTG
9 / B1_1 / GAGCAGTTGGACCTAG / B1 / B3, D8
10 / B1_1 NC / GAGCgGTTGGACCcAG
11 / B1_2 / TCCTCCGACCGGCAC / B1
12 / B1_2 NC / TCCTCCaACCGGCAC
13 / B2_1 / TTGGGCCCAGACAAG / B2 / B3.1
14 / B2_1 NC / TTGGaCCCAGACAAG
15 / B2_2 / AAGGAGGATAGAAGGGT / B2
16 / B2_2 NC / AAGGAaGATAGgAGGGT
17 / B3_1 / AGGTCAGCCGACGCCCT / B3.2 / D3; D7
18 / B3_1 NC / AGGTCAGCtGACGCCCT
19 / B3_2 / CCGGGGAGAGCCACA / B3.2 / D4
20 / B3_2 NC / CCaGGGAGAGCtACA
21 / B3_3 / CAGCCGATGCCCTG / B3.2
22 / B3_3 NC / CAGCtGAcGCCCTG
23 / B3_4 / GTCAGCCGATGCCCT / B3
24 / B3_4 NC / GTCAGCtGAcGCCCT
25 / C_1 / GGAAGATATGAGGGTCA / all C
26 / C_1 NC / GGAAGATAgGAGGGTCA
27 / C_2 / TCAAAGTGAAAATGAGCTAC / all C
28 / C_2 NC / TCAAAGTGAgAATGAGCTAC
29 / C_3 / TCCAACCGACACACC / all C
30 / C_3 NC / TCCAACCagCACACC
31 / C_4 / AACCGACACACCCCT / all C
32 / C_4 NC / AACCagCACACCCCT
33 / C1_1 / AAAGTGAAAATGAGCTACC / C1 / D4
34 / C1_1 NC / AAAGTGAgAATGAGCTACC
35 / C1_2 / CAAGGAAGATATGAGGG / C1
36 / C1_2 NC / CAAGGAgGAcAgGAGGG
37 / C1_3 / GGCCCAGTAGAGCAA / C1
38 / C1_3 NC / GGtCCAGcAGAGCAA
39 / C2_1 / AGACAATCCCAAGTGTC / C2
40 / C2_1 NC / AGACAAgCCCAAGTGTC
41 / C2_2 / TCCTCCAACCGACAC / C2 / C1
42 / C2_2 NC / TCtTCCAACCagCAC
43 / D1_1 / ATGCAAGATCTGCCCAT / D1
44 / D1_1 NC / ATGCgAGAgCTGCCCAT
45 / D1_2 / ACCCCTCGAGTGTAC / D1
46 / D1_2 NC / ACCCCTaGAGTGTAC
47 / D2_1 / GCAGAACAAGCGATGC / D2 / F
48 / D2_1 NC / GCAGAgCAAGtGATGC
49 / D2_2 / CATCGGAGTCAAGCC / D2 / D7; few D1
50 / D2_2 NC / CATCGGtcgCAAGCC
51 / D3_1 / ACCAGCATGCCCCTA / D3 / D5.2
52 / D3_1 NC / ACCAGCAcaCCCCTA
53 / D3_2 / CCCCTAGGGTATACAAT / D3 / D5.1
54 / D3_2 NC / CCCCTAGaGTgTACAAT
55 / D4_1 / CTCAGGTTGCAGGCC / D4
56 / D4_1 NC / CTCAGGcTGCAaGCC
57 / D4_2 / TGACGCCTTGCTCAG / D4
58 / D4_2 NC / TGACGCCcTGCTCAG
59 / D4_3 / AGGTTGCAGGCCATG / D4
60 / D4_3 NC / AGGcTGCAcGCCATG
61 / D5 / GCGAGGCTTGTGTCA / all D5
62 / D5 NC / GCaAGGCTTGTtTCA
63 / D5.1_1 / ACAATGACAGTGATCTTCT / D5.1
64 / D5.1_1 NC / ACAATGACAGaGATCTTCT
65 / D5.1_2 / AATGAGCTCCCAGGATT / D5.1
66 / D5.1_2 NC / AATGAGCTaCCAGGATT
67 / D6_1 / GATAGGAGAGCCAAACA / D6
68 / D6_1 NC / GATAGGAGgGtCAAACA
69 / D6_2 / ATAGGAGAGCCAAACAG / D6
70 / D6_2 NC / ATAGGAGgGtCAAACAG
71 / D6_3 / CGGAGACAAGCCAAG / D6
72 / D6_3 NC / CGGAGttcgGCCAAG
73 / D6_4 / AGATCTGCAAGACAGTC / D6
74 / D6_4 NC / AGATCcGCAgGACAGTC
75 / D7_1 / GACAGCCGACGGTC / D7 all
76 / D7_1 NC / GACAGtCGAaGGTC
77 / D7_2 / GGACAGCCGACGGTC / D7 all
78 / D7_2 NC / GGACAGCtGACGGTC
79 / D7.1 / GAAACCAGGTCCAGC / D7.1
80 / D7.1 NC / GAAACCgGGcCCAGC
81 / D7.2_1 / GTCAGTTCTACATTGGC / D7.2
82 / D7.2_1 NC / GTCAGTTCcACATTGGC
83 / D7.2_2 / TTTCAGAAATCGCAATGCA / D7.2
84 / D7.2_2 NC / TTTCAGAgATtGCAATGCA
85 / D7.2_3 / ACCCAGACAGGCCCA / D7.2 / C2
86 / D7.2_3 NC / ACCCAGgCAaGCCCA
87 / D7.2_4 / CATTTCTGCACGGTGAT / D7.2
88 / D7.2_4 NC / CATTTCTaCACGGTGAT
89 / D7.2_5 / AAAGTGGGAGTGAGCTA / D7.2
90 / D7.2_5 NC / AAAGTGaGAaTGAGCTA
91 / D7.2_6 / AGGGTCGGGCAGAGT / D7.2
92 / D7.2_6 NC / AGGGTCaaaCAGAGT
93 / D8_1 / CAGACAAGCTCAAGTGT / D8
94 / D8_1 NC / CAGgCAAGCcCAAGTGT
95 / D8_2 / GGAGAGCAACAGAGAA / D8
96 / D8_2 NC / GGAGAGCtACAGAGAA
97 / D9_1 / GAAGCAAGGGAGAGC / D9
98 / D9_1 NC / GAAGCcAGGGAGAGC
99 / D9_2 / AAGCCGGATCCAGCA / D9
100 / D9_2 NC / AAGCCGGgcCCAGCA
101 / E_1 / AAGATAGGAGGGCCAAA / E / D6
102 / E_1 NC / AAGAcAGGAGGGtCAAA
103 / E_2 / AAGATCAGCAGGACAGT / E
104 / E_2 NC / AAGATCcGCAGGACAGT
105 / E_3 / ACAGTCAAAGGTCAGCT / E
106 / E_3 NC / ACAGTCgAAGGTCAGCT
107 / F_1 / CAGAGATTGCGATGCAT / F
108 / F_1 NC / CAGAGATTGCaATGCAT
109 / F_2 / ACAGAGTCAAGGAGAAG / F
110 / F_2 NC / ACAGAGTCgAGGAGAAG
111 / F_3 / AGTGACGCGAGGGCT / F
112 / F_3 NC / AGTGAtGCGAGaGCT
113 / F_4 / GATCCGCTGGACAGT / F
114 / F_4 NC / GATCCGCaGGACAGT
115 / G1_1 / CAGAGCAGGTGATGC / G1
116 / G1_1 NC / CAGAGCAaGTGATGC
117 / G1_2 / GGCACACTCCTAGAC / G1
118 / G1_2 NC / GGCACACcCCTAGAC
119 / G2,3 / ACTGGGCACAGCAGA / G2; G3
120 / G2,3 NC / ACTGGGCcCAGCAGA
121 / G2_1 / TTGGGAGGTAAGGAAGA / G2
122 / G2_1mut / TTGGGgGGcAAGGAAGA
123 / G2_2 / GAGCTATAGAGAAACTGG / G2
124 / G2_2 NC / GAGCTAcAGAGAAACTGG
125 / G2_3 / AGCTGCTGACCTTCC / G2
126 / G2_3 NC / AGCTGCccAtCTTCC
127 / G2_4 / GCAGGGATCCCGGAA / G2
128 / G2_4 NC / GCAGGaATCtCGGAA
129 / G3_1 / AGATAAGAAGGTCAAACAG / G3
130 / G3_1 NC / AGATAgGAgGGTCAAACAG
131 / G3_2 / AGCTATAGAGAAACCGG / G3
132 / G3_2 NC / AGCcAcAGAGAAACCGG
133 / G3_3 / AAGACCCACAAGACAGT / G3
134 / G3_3 NC / AAGAtCCgCAgGACAGT
135 / H / TCGGAGTACAGCCAAGA / all H
136 / H NC / TCGGAGTcCAGCCAAGA
137 / H1 / TACAACGATAGAGATCTTC / H1
138 / H1 NC / TACAAtGAcAGAGAcCTTC
139 / H2_1 / GCAGGGATTTTGGAAGA / H2
140 / H2_1 NC / GCAGGaATcTcGGAAGA
141 / H2_2 / GTACAACGACAGAGATC / H2
142 / H2_2 NC / GTACAAtGAtAGAGAcC
143 / MV_1 / GGTCAGTTCCACATTGGCAT / Common for all strains
144 / MV_2 / GGTCAGTTCCACACTGGC
145 / Ref_end / GCTATGCCATGGGAGTAGGA / Partial Forvard primer