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Table 2 Concentration of rotavirus in samples at each step of the capture and amplification process

From: A universal genome sequencing method for rotavirus A from human fecal samples which identifies segment reassortment and multi-genotype mixed infection

Sample ID GP type Initial input Post-viral capture Double-stranded cDNA Random amplification Genome sequencing
Ct value Target copies Ct value Target copies Ct value Target copies Ct value Target copies Total reads RoV reads (% output)
VN-0002 G1P[8] 13.25 4 × 108 22.75 7 × 105 28.25 2 × 104 16.3 5 × 107 1,009,250 951,969 (94.3)
VN-0006 G1P[8] 15.28 1 × 108 24.78 2 × 105 30.28 4 × 103 18.02 2 × 107 1,102,774 932,674 (84.6)
VN-0013 G1P[8] 14.07 2 × 108 23.57 4 × 105 29.07 9 × 103 23.18 5 × 105 1,172,366 1,087,933 (93.0)
VN-0057 G1P[8] 10.31 3 × 109 19.81 5 × 106 25.31 1 × 105 16.92 4 × 107 1,269,282 910,567 (71.7)
VN-0030 G1P[8] 11.66 1 × 109 21.16 2 × 106 26.66 5 × 104 18.45 1 × 107 1,064,026 78,217 (7.4)
VN-0062 G1P[8] 8.3 1 × 1010 20.45 3 × 105 35.65 1 × 102 20.55 3 × 106 1,037,480 778,628 (75.1)
VN-0324 G1P[8] 17.54 2 × 107 27.04 4 × 104 32.54 9 × 102 20.12 4 × 106 1,279,046 1,042,325 (81.5)
VN-0365 G1P[8] 13.82 3 × 108 23.32 5 × 105 28.82 1 × 104 15.89 7 × 107 1,305,760 1,271,769 (97.4)
VN-0299 G1P[8] 14.22 2 × 108 23.72 4 × 105 29.22 8 × 103 27.8 2 × 104 1,266,286 1,149,123 (90.8)
VN-0172 G1P[8] 14.3 1 × 1010 23.80 3 × 105 29.3 8 × 103 19.63 6 × 106 1,816,574 1,298,619 (71.5)
VN-0341 G1P[8] 12.14 9 × 108 21.64 1 × 106 27.14 3 × 104 20.61 3 × 106 1,668,438 1,514,101 (90.8)
VN-0221 UT 18.38 1 × 107 27.88 2 × 104 33.38 5 × 102 30.63 3 × 103 1,479,948 336,552 (22.7)
VN-0186 UT 17.7 2 × 107 27.20 3 × 104 32.7 8 × 102 24.78 2 × 105 1,459,470 1,440,853 (98.7)
VN-0175 UT 24.25 2 × 105 33.75 4 × 102 39.25 9 × 101 29.96 5 × 103 1,306,208 1,138,961 (87.2)
VN-0181 UT 25 1 × 105 34.50 2 × 102 40 5 × 101 30.44 4 × 103 1,285,912 140,328 (10.9)
VN-0222 G2P[4] 18.76 1 × 107 28.26 2 × 104 33.76 4 × 102 23 6 × 105 1,289,724 1,204,896 (93.4)
VN-0321 G2P[4] 21.62 1 × 106 31.12 2 × 103 36.62 5 × 101 26 7 × 104 1,113,180 724,701 (65.1)
VN-0326 G2P[4] 13.5 4 × 108 23.00 6 × 105 28.5 1 × 104 27.48 3 × 104 426,240 347,019 (81.4)
VN-0058 G26P[19] 17 1 × 1010 26.50 5 × 104 32 1 × 103 28.98 1 × 104 1,434,422 739,222 (51.5)
VN-0132 G3P[4] 16.66 4 × 107 26.16 7 × 104 31.66 2 × 103 23.68 4 × 105 1,316,574 743,642 (56.5)
VN-1221 G2P[4] 13.25 4 × 108 22.75 7 × 105 28.25 1 × 103 16.26 1 × 104 700,632 555,195 (79.2)
VN-0074 G1P[8] 14.8 2 × 108 24.30 2 × 105 29.8 6 × 103 16.87 4 × 107 991,014 153,654 (15.5)
VN-0140 G1P[8] 13.21 4 × 108 22.71 7 × 105 28.21 1 × 103 15.7 1 × 104 665,478 578,601 (87.0)
VN-0196 G9P[4] 16.18 6 × 107 25.68 9 × 104 31.18 2 × 103 17.28 3 × 107 743,184 66,378 (8.9)
VN-3096 G1P[4] 13.52 4 × 108 23.02 6 × 105 28.52 1 × 103 15.78 1 × 104 567,266 381,270 (67.2)
VN-1604 G2P[4] 15.31 1 × 108 24.81 2 × 105 30.31 4 × 103 17.55 2 × 107 670,404 330,173 (49.3)