Table 2. Israeli HBV/HDV mNGS and xGen metrics.
| Specimen ID | Virus | Genotype | Viral load / Ct | Final sequence length (nt) | Bootstrap | Library Type | Total Reads | HBV or HDV reads | % virus reads | Genome Coverage% | Avg coverage depth |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 2000166 | HBV | B2 | - | 203 | 89 | mNGS | 526,669 | 211 | 0.04% | 6% | 41 |
| - | - | - | not detected | - | - | xGen | 8,105 | 2 | 0.02% | 2% | 1 |
| - | HDV | 1 | - | 654 | 100 | mNGS | 599,442 | 10 | 0.002% | 48% | 1.48 |
| - | - | - | - | - | - | xGen | 9,056 | 1,594 | 17.60% | 40% | 138.03 |
| 2000208 | HBV | nd | 148.45 | nd | nd | mNGS | 1,221,334 | 0 | 0% | 0% | 0 |
| - | - | - | 34.64 | - | - | xGen | 154,910 | 0 | 0% | 0% | 0 |
| - | HDV | 1 | 1150000 | 1541 | 100 | mNGS | 1,221,334 | 6,859 | 0.56% | 94% | 406.72 |
| - | - | - | - | - | - | xGen | 154,910 | 137,271 | 88.61% | 96% | 8390.27 |
| 2000234 | HBV | nd | - | nd | nd | mNGS | 354,688 | 20 | 0.01% | 1% | 0.17 |
| - | - | - | - | - | - | xGen | 5,856 | 2 | 0.03% | 1% | 1.68 |
| - | HDV | 1 | 248000 | 894 | 100 | mNGS | 354,688 | 189 | 0.05% | 50% | 21.37 |
| - | - | - | - | - | - | xGen | 5,856 | 1,124 | 19.19% | 62% | 95.74 |
| 2000236 | HBV | nd | 5.09 | 185 | nd | mNGS | 2,006,742 | 434 | 0.02% | 2% | 104 |
| - | - | - | 37.11 | - | - | xGen | 970,261 | 226,990 | 23.39% | 4% | 71192 |
| - | HDV | 1 | 2140000 | 1600 | 100 | mNGS | 2,328,818 | 12,717 | 0.55% | 94% | 896.85 |
| - | - | - | - | - | - | xGen | 1,006,436 | 440,930 | 43.81% | 96% | 32627.18 |
| 2000319 | HBV | nd | 0.98 | nd | nd | mNGS | 827,658 | 0 | 0% | 0% | 0 |
| - | - | - | 42.94 | - | - | xGen | 11,286 | 0 | 0% | 0% | 0 |
| - | HDV | 1 | 54750 | 1419 | 100 | mNGS | 827,658 | 43 | 0.01% | 79% | 4.1 |
| - | - | - | - | - | - | xGen | 11,286 | 77 | 0.68% | 79% | 6.78 |
| 2000320 | HBV | nd | Indeter. | 58 | nd | mNGS | 61,370 | 2 | 0.003% | 1% | 1 |
| - | - | - | - | - | - | xGen | 5,556 | 0 | 0% | 0% | 0 |
| - | HDV | 1 | 173563 | 1119 | 100 | mNGS | 65,364 | 5 | 0.01% | 20% | 2.18 |
| - | - | - | - | - | - | xGen | 5,556 | 4,342 | 78.15% | 30% | 1240.82 |
| 2000322 | HBV | nd | 410.94 | 138 | nd | mNGS | 1,505,468 | 1 | 0.0001% | 2% | 1 |
| - | - | - | 33.08 | - | - | xGen | 2,349,944 | 1 | 0.0000% | 2% | 0.01 |
| - | HDV | 1 | 40000 | 1641 | 100 | mNGS | 1,505,468 | 6,048 | 0.40% | 95% | 369.02 |
| - | - | - | - | - | - | xGen | 2,349,944 | 1,144,523 | 48.70% | 98% | 84759.81 |
| 2000324 | HBV | nd | - | 85 | nd | mNGS | 1,068,387 | 120 | 0.01% | 2% | 62 |
| - | - | - | not detected | - | - | xGen | 312,189 | 7,363 | 2.36% | 2% | 3561 |
| - | HDV | 1 | - | 1210 | 100 | mNGS | 1,154,948 | 467 | 0.04% | 87% | 32.5 |
| - | - | - | - | - | - | xGen | 313,010 | 242,129 | 77.36% | 85% | 15973.34 |
| 2000372 | HBV | nd | - | 139 | nd | mNGS | 1,933,208 | 380 | 0.02% | 2% | 26 |
| - | - | - | not detected | - | - | xGen | 2,167,747 | 26 | 0.001% | 4% | 6 |
| - | HDV | 1 | 21800000 | 1642 | 100 | mNGS | 2,215,648 | 62,193 | 2.81% | 90% | 4319.08 |
| - | - | - | - | - | - | xGen | 2,236,978 | 1,060,712 | 47.42% | 98% | 72427.13 |
| 2000563 | HBV | nd | 16.58 | 66 | nd | mNGS | 522,433 | 111 | 0.02% | 2% | 25 |
| - | - | - | 35.57 | - | - | xGen | 79,266 | 0 | 0% | 0% | 0 |
| - | HDV | 1 | 1.4x10(8) | 1471 | 100 | mNGS | 580,988 | 1,747 | 0.30% | 90% | 133.92 |
| - | - | - | - | - | - | xGen | 79,266 | 61,293 | 77.33% | 90% | 4422.76 |
| 2000570 | HBV | D, basal | Indeter. | 449 | 75 | mNGS | 120,604 | 0 | 0% | 0% | 0 |
| - | - | - | - | - | - | xGen | 165,848 | 904 | 0.55% | 14% | 96 |
| - | HDV | 1 | 1.24x10(9) | 1676 | 100 | mNGS | 120,604 | 11,661 | 9.67% | 90% | 1039.97 |
| - | - | - | - | - | - | xGen | 165,436 | 96,813 | 58.52% | 98% | 7365.02 |
| 2000741 | HBV | nd | - | nd | nd | mNGS | 376,532 | 0 | 0% | 0% | 0 |
| - | - | - | 41.06 | - | - | xGen | 2,400 | 0 | 0% | 0% | 0 |
| - | HDV | 1 | - | 1103 | 100 | mNGS | 376,532 | 32 | 0.01% | 55% | 4.1 |
| - | - | - | - | - | - | xGen | 2,400 | 15 | 0.63% | 40% | 2.24 |
| 2000742 | HBV | A1 | 218.75 | 1810 | 79 | mNGS | 2,171,531 | 38 | 0.002% | 13% | 1 |
| - | - | - | 35.07 | - | - | xGen | 33,656 | 1,361 | 4.04% | 54% | 26 |
| - | HDV | 1 | 44800 | 1510 | 100 | mNGS | 4,415,132 | 1,180 | 0.03% | 93% | 43.65 |
| - | - | - | - | - | - | xGen | 37,374 | 28,799 | 77.06% | 90% | 1380.97 |
| 2000744 | HBV | D | 984.64 | 1779 | 100 | mNGS | 2,342,415 | 179 | 0.01% | 5% | 1 |
| - | - | - | 32.80 | - | - | xGen | 4,680,211 | 1,697 | 0.04% | 55% | 58 |
| - | HDV | 1 | 87400 | 1634 | 100 | mNGS | 2,835,334 | 17,587 | 0.62% | 94% | 1286.69 |
| - | - | - | - | - | - | xGen | 4,767,854 | 1,734,301 | 36.37% | 98% | 123135.8 |
| 2000999 | HBV | B | 514 | 98 | mNGS | 4,026,934 | 52 | 0.001% | 28% | 2.02 | |
| - | - | - | not detected | - | - | xGen | 2,155,897 | 169 | 0.01% | 15% | 26 |
| - | HDV | 1 | 1150000 | 1675 | 100 | mNGS | 4,026,934 | 22,098 | 0.55% | 99% | 1426.64 |
| - | - | - | - | - | - | xGen | 2,218,134 | 1,279,533 | 57.69% | 99% | 84602.53 |
| 2001063 | HBV | nd | - | 173 | nd | mNGS | 49,274 | 0 | 0% | 0% | 0 |
| - | - | - | not detected | - | - | xGen | 31,248 | 3 | 0.01% | 5% | 1 |
| - | HDV | 1 | 3.03x10(7) | 1531 | 100 | mNGS | 49,274 | 3,141 | 6.37% | 91% | 267.68 |
| - | - | - | - | - | - | xGen | 32,590 | 11,334 | 34.78% | 91% | 920.13 |
| 2001073 | HBV | A2 | - | 2038 | 100 | mNGS | 2,371,838 | 127 | 0.01% | 10% | 1 |
| - | - | - | 25.09 | - | - | xGen | 426,656 | 6,000 | 1.41% | 63% | 174 |
| - | HDV | 1 | 1.26x10(6) | 1675 | 100 | mNGS | 2,918,854 | 11,643 | 0.40% | 94% | 790.47 |
| - | - | - | - | - | - | xGen | 464,694 | 203,456 | 43.78% | 100% | 12967.16 |
| 2001149 | HBV | (B/D dual) | - | 2346 | 100 | mNGS | 2,167,544 | 110 | 0.01% | 8% | 1 |
| - | - | - | 29.18 | - | - | xGen | 3,467,598 | 756 | 0.02% | 69% | 20 |
| - | HDV | 1 | - | 1677 | 100 | mNGS | 2,523,132 | 151,554 | 6.01% | 99% | 10179.87 |
| - | - | - | 16.8 | - | - | xGen | 3,775,760 | 1,236,439 | 32.75% | 99% | 84803.89 |
| 2001167 | HBV | nd | - | nd | nd | mNGS | 3,613,434 | 47 | 0.001% | 22% | 2.23 |
| - | - | - | not detected | - | - | xGen | 761,172 | 856 | 0.11% | 2% | 568.18 |
| - | HDV | 1 | - | 1677 | 100 | mNGS | 3,613,434 | 30,647 | 0.85% | 96% | 2109.39 |
| - | - | - | 22.2 | - | - | xGen | 761,172 | 340,999 | 44.80% | 98% | 23133.83 |
| 2001178 | HBV | A | - | 530 | 76 | mNGS | 2,601,041 | 515 | 0.02% | 1% | 1 |
| - | - | - | not detected | - | - | xGen | 21,182 | 568 | 2.68% | 16% | 75 |
| - | HDV | 1 | - | 1526 | 100 | mNGS | 3,387,460 | 669 | 0.02% | 95% | 45.54 |
| - | - | - | - | - | - | xGen | 23,480 | 12,194 | 51.93% | 91% | 841.31 |
| 2001190 | HBV | D basal | - | 486 | 75 | mNGS | 3,579,444 | 129 | 0.004% | 18% | 7.38 |
| - | - | - | not detected | - | - | xGen | 2,662,835 | 38 | 0.001% | 15% | 4 |
| - | HDV | 1 | - | 1683 | 100 | mNGS | 3,579,444 | 130144 | 3.64% | 100% | 8261.17 |
| - | - | - | 17.17 | - | - | xGen | 2,913,414 | 1382215 | 47.44% | 100% | 88874.32 |
| 2001210 | HBV | nd | - | nd | nd | mNGS | 4,217,318 | 56 | 0.001% | 34% | 1.73 |
| - | - | - | not detected | - | - | xGen | 99,342 | 0 | 0% | 0% | 0 |
| - | HDV | 1 | - | 1538 | 100 | mNGS | 4,217,318 | 1232 | 0.03% | 92% | 85.4 |
| - | - | - | 24.7 | - | - | xGen | 99,342 | 59937 | 60.33% | 93% | 4347.25 |
| 2001212 | HBV | nd | 39 IU/ml | 239 | nd | mNGS | 1,866,015 | 65 | 0.003% | 7% | 2 |
| - | - | - | - | 295 | 40 | xGen | 851,225 | 681 | 0.08% | 9% | 147 |
| - | HDV | 1 | 5.3x10(6) | 1521 | 100 | mNGS | 2,377,234 | 2694 | 0.11% | 89% | 198.87 |
| - | - | - | - | - | - | xGen | 866,568 | 509708 | 58.82% | 92% | 34959.53 |
| 2001222 | HBV | nd | - | 110 | nd | mNGS | 1,610,506 | 16 | 0.001% | 8% | 2.11 |
| - | - | - | not detected | - | - | xGen | 522,338 | 1079 | 0.21% | 3% | 266 |
| - | HDV | 1 | 9.11x10(6) | 1423 | 100 | mNGS | 1,610,506 | 1929 | 0.12% | 89% | 157.42 |
| - | - | - | - | - | - | xGen | 532,072 | 343668 | 64.59% | 90% | 26124.36 |
| 2001228 | HBV | nd | - | 244 | nd | mNGS | 5,186,758 | 56 | 0.001% | 32% | 1.91 |
| - | - | - | not detected | - | - | xGen | 3,975,042 | 4 | 0.0001% | 8% | 0.0127 |
| - | HDV | 1 | 7.52x10(7) | 1683 | 100 | mNGS | 5,186,758 | 73594 | 1.42% | 100% | 4697.18 |
| - | - | - | - | - | - | xGen | 3,975,042 | 1393290 | 35.05% | 100% | 91278.85 |
| 2001234 | HBV | D | - | 494 | 86 | mNGS | 2,821,662 | 20 | 0.001% | 13% | 1.7 |
| - | - | - | not detected | - | - | xGen | 14,849 | 44 | 0.30% | 15% | 9 |
| - | HDV | 1 | 1.66x10(5) | 1509 | 100 | mNGS | 2,821,662 | 230 | 0.01% | 86% | 15.5 |
| - | - | - | - | - | - | xGen | 16,784 | 7154 | 42.62% | 90% | 499.78 |
Summary of results for HBV and HDV sequencing of Israeli specimens.