Method name | # genomes analysed | One mismatch allowed at 3′ end of primer-template pairs | No mismatches allowed at 3′ end of primer-template pairs | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
# genomes detected | # genomes not detected | # genomes unknown | % in silico sensitivity | % average in silico sensitivity | # genomes detected | # genomes not detected | # genomes unknown | % in silico sensitivity | % average in silico sensitivity | ||
Callahan_1_g | 1359 | 1209 | 14 | 136 | [88.96–98.86] | [90.12–98.80] | 1206 | 17 | 136 | [88.74–98.61] | [89.80–98.46] |
Callahan_2_g | 1164 | 1055 | 13 | 96 | [90.64–98.78] | 1054 | 14 | 96 | [90.55–98.69] | ||
Callahan_3_g | 777 | 707 | 11 | 59 | [90.99–98.47] | 704 | 14 | 59 | [90.60–98.05] | ||
Callahan_4_g | 182 | 167 | 0 | 15 | [91.76–100] | 163 | 4 | 15 | [89.56–97.60] | ||
Callahan_1_s | 1359 | 1356 | 3 | 0 | [99.78–99.78] | [99.48–99.48] | 1287 | 72 | 0 | [94.70–94.70] | [81.99–81.99] |
Callahan_2_s | 1164 | 1150 | 14 | 0 | [98.80–98.80] | 638 | 526 | 0 | [54.81–54.81] | ||
Callahan_3_s | 777 | 777 | 0 | 0 | [100–100] | 777 | 0 | 0 | [100–100] | ||
Callahan_4_s | 182 | 181 | 1 | 0 | [99.45–99.45] | 153 | 29 | 0 | [84.07–84.07] | ||
Cecilia_4_s | 182 | 153 | 4 | 25 | [84.07–97.45] | [84.07–97.45] | 121 | 36 | 25 | [66.48–77.07] | [66.48–77.07] |
Chien_1_s | 1359 | 1357 | 2 | 0 | [99.85–99.85] | [99.11–99.11] | 4 | 1355 | 0 | [0.29–0.29] | [6.95–6.95] |
Chien_2_s | 1164 | 1138 | 26 | 0 | [97.77–97.77] | 1 | 1163 | 0 | [0.09–0.09] | ||
Chien_3_s | 777 | 777 | 0 | 0 | [100–100] | 58 | 719 | 0 | [7.46–7.46] | ||
Chien_4_s | 182 | 179 | 3 | 0 | [98.35–98.35] | 179 | 3 | 0 | [98.35–98.35] | ||
Conceicao_1_g | 1359 | 1359 | 0 | 0 | [100–100] | [99.91–99.91] | 1354 | 5 | 0 | [99.63–99.63] | [95.23–95.23] |
Conceicao_2_g | 1164 | 1163 | 1 | 0 | [99.91–99.91] | 1159 | 5 | 0 | [99.57–99.57] | ||
Conceicao_3_g | 777 | 776 | 1 | 0 | [99.87–99.87] | 623 | 154 | 0 | [80.18–80.18] | ||
Conceicao_4_g | 182 | 181 | 1 | 0 | [99.45–99.45] | 180 | 2 | 0 | [98.90–98.90] | ||
Drosten_1_g | 1359 | 1088 | 48 | 223 | [80.06–95.77] | [83.77–98.22] | 1082 | 51 | 226 | [79.62–95.50] | [82.60–97.26] |
Drosten_2_g | 1164 | 1012 | 3 | 149 | [86.94–99.70] | 979 | 28 | 157 | [84.11–97.22] | ||
Drosten_3_g | 777 | 660 | 1 | 116 | [84.94–99.85] | 658 | 1 | 118 | [84.68–99.85] | ||
Drosten_4_g | 182 | 157 | 1 | 24 | [86.26–99.37] | 157 | 1 | 24 | [86.26–99.37] | ||
Gurukumar_1_g | 1359 | 1082 | 48 | 229 | [79.62–95.75] | [79.64–96.35] | 1074 | 53 | 232 | [79.03–95.30] | [77.51–94.27] |
Gurukumar_2_g | 1164 | 1003 | 4 | 157 | [86.17–99.60] | 969 | 31 | 164 | [83.25–96.90] | ||
Gurukumar_3_g | 777 | 655 | 1 | 121 | [84.30–99.85] | 650 | 1 | 126 | [83.66–99.85] | ||
Gurukumar_4_g | 182 | 33 | 52 | 97 | [18.13–38.82] | 6 | 79 | 97 | [3.30–7.06] | ||
Ito_1_s | 1359 | 1353 | 6 | 0 | [99.56–99.56] | [99.43–99.43] | 0 | 1359 | 0 | [0.00–0.00] | [57.18–57.18] |
Ito_2_s | 1164 | 1150 | 14 | 0 | [98.80–98.80] | 1075 | 89 | 0 | [92.35–92.35] | ||
Ito_3_s | 777 | 777 | 0 | 0 | [100–100] | 737 | 40 | 0 | [94.85–94.85] | ||
Ito_4_s | 182 | 182 | 0 | 0 | [100–100] | 179 | 3 | 0 | [98.35–98.35] | ||
Johnson_1_s | 1359 | 1357 | 2 | 0 | [99.85–99.85] | [98.56–98.59] | 1125 | 234 | 0 | [82.78–82.78] | [69.04–69.06] |
Johnson_2_s | 1164 | 1150 | 13 | 1 | [98.80–98.88] | 1125 | 38 | 1 | [96.65–96.73] | ||
Johnson_3_s | 777 | 748 | 29 | 0 | [96.27–96.27] | 10 | 767 | 0 | [1.29–1.29] | ||
Johnson_4_s | 182 | 177 | 5 | 0 | [97.25–97.25] | 144 | 38 | 0 | [79.12–79.12] | ||
Kim_1_s | 1359 | 914 | 445 | 0 | [67.26–67.26] | [86.53–86.53] | 528 | 831 | 0 | [38.85–38.85] | [60.71–60.71] |
Kim_2_s | 1164 | 1146 | 18 | 0 | [98.45–98.45] | 1094 | 70 | 0 | [93.99–93.99] | ||
Kim_3_s | 777 | 774 | 3 | 0 | [99.61–99.61] | 327 | 450 | 0 | [42.08–42.08] | ||
Kim_4_s | 182 | 179 | 3 | 0 | [98.35–98.35] | 165 | 17 | 0 | [90.66–90.66] | ||
Kong_1_s | 1359 | 1254 | 105 | 0 | [92.27–92.27] | [96.12–96.12] | 0 | 1359 | 0 | [0.00–0.00] | [28.12–28.12] |
Kong_2_s | 1164 | 1147 | 17 | 0 | [98.54–98.54] | 832 | 332 | 0 | [71.48–71.48] | ||
Kong_3_s | 777 | 775 | 2 | 0 | [99.74–99.74] | 0 | 777 | 0 | [0.00–0.00] | ||
Kong_4_s | 182 | 171 | 11 | 0 | [93.96–93.96] | 147 | 35 | 0 | [80.77–80.77] | ||
Laue_1_s | 1359 | 1358 | 1 | 0 | [99.93–99.93] | [86.56–86.56] | 1027 | 332 | 0 | [75.57–75.57] | [69.30–69.30] |
Laue_2_s | 1164 | 1149 | 15 | 0 | [98.71–98.71] | 1000 | 164 | 0 | [85.91–85.91] | ||
Laue_3_s | 777 | 327 | 450 | 0 | [42.08–42.08] | 232 | 545 | 0 | [29.86–29.86] | ||
Laue_4_s | 182 | 180 | 2 | 0 | [98.90–98.90] | 154 | 28 | 0 | [84.62–84.62] | ||
Leparc_Goffart_1_g | 1359 | 1231 | 28 | 100 | [90.58–97.78] | [91.07–98.36] | 1225 | 33 | 101 | [90.14–97.38] | [90.67–97.95] |
Leparc_Goffart_2_g | 1164 | 1058 | 14 | 92 | [90.89–98.69] | 1057 | 15 | 92 | [90.81–98.60] | ||
Leparc_Goffart_3_g | 777 | 715 | 11 | 51 | [92.02–98.48] | 712 | 14 | 51 | [91.63–98.07] | ||
Leparc_Goffart_4_g | 182 | 167 | 0 | 15 | [91.76–100] | 163 | 4 | 15 | [89.56–97.60] | ||
Leparc_Goffart_1_s | 1359 | 1358 | 1 | 0 | [99.93–99.93] | [80.18–99.93] | 1340 | 19 | 0 | [98.60–98.60] | [77.83–96.99] |
Leparc_Goffart_2_s | 1164 | 475 | 1 | 688 | [40.81–99.79] | 446 | 30 | 688 | [38.32–93.70] | ||
Leparc_Goffart_3_s | 777 | 777 | 0 | 0 | [100–100] | 775 | 2 | 0 | [99.74–99.74] | ||
Leparc_Goffart_4_s | 182 | 182 | 0 | 0 | [100–100] | 149 | 33 | 0 | [81.87–81.87] | ||
Pongsiri_1_g | 1359 | 1291 | 12 | 56 | [95.00–99.08] | [95.98–99.32] | 1287 | 16 | 56 | [94.70–98.77] | [95.81–99.17] |
Pongsiri_2_g | 1164 | 1121 | 9 | 34 | [96.31–99.20] | 1122 | 8 | 34 | [96.39–99.29] | ||
Pongsiri_3_g | 777 | 750 | 2 | 25 | [96.53–99.73] | 748 | 4 | 25 | [96.27–99.47] | ||
Pongsiri_4_g | 182 | 180 | 0 | 2 | [98.90–100] | 179 | 0 | 3 | [98.35–100] | ||
Sadon_1_s | 1359 | 1358 | 1 | 0 | [99.93–99.93] | [99.66–99.66] | 1251 | 108 | 0 | [92.05–92.05] | [88.91–88.91] |
Sadon_2_s | 1164 | 1158 | 6 | 0 | [99.48–99.48] | 1004 | 160 | 0 | [86.25–86.25] | ||
Sadon_3_s | 777 | 777 | 0 | 0 | [100–100] | 666 | 111 | 0 | [85.71–85.71] | ||
Sadon_4_s | 182 | 177 | 5 | 0 | [97.25–97.25] | 175 | 7 | 0 | [96.15–96.15] | ||
Santiago_1_s | 1359 | 1358 | 1 | 0 | [99.93–99.93] | [99.83–99.86] | 1356 | 3 | 0 | [99.78–99.78] | [97.44–97.47] |
Santiago_2_s | 1164 | 1161 | 2 | 1 | [99.74–99.83] | 1135 | 28 | 1 | [97.51–97.59] | ||
Santiago_3_s | 777 | 777 | 0 | 0 | [100–100] | 735 | 42 | 0 | [94.59–94.59] | ||
Santiago_4_s | 182 | 180 | 2 | 0 | [98.90–98.90] | 167 | 15 | 0 | [91.76–91.76] | ||
Warrilow_1_g | 1359 | 1231 | 20 | 108 | [90.58–98.40] | [91.13–98.63] | 1226 | 24 | 109 | [90.21–98.08] | [90.72–98.26] |
Warrilow_2_g | 1164 | 1059 | 13 | 92 | [90.98–98.79] | 1058 | 14 | 92 | [90.89–98.69] | ||
Warrilow_3_g | 777 | 716 | 11 | 50 | [92.15–98.49] | 712 | 14 | 51 | [91.63–98.07] | ||
Warrilow_4_g | 182 | 167 | 0 | 15 | [91.76–100] | 163 | 4 | 15 | [89.56–97.60] |