Table 5. Bioinformatics analysis of high throughput sequencing data from selection rounds.
| Initial library | HeLa-CCR7 cell-SELEX | HeLa-CD2 cell-SELEX | |||||||
|---|---|---|---|---|---|---|---|---|---|
| Round 3 | Round 5 | Round 6 | Round 7 | Round 3 | Round 5 | Round 6 | Round 7 | ||
| Total Reads | 40,174,712 | 57,383,383 | 49,925,077 | 57,778,216 | 51,453,049 | 15,346,437 | 16,615,193 | 18,644,363 | 21,236,560 |
| Usable reads | 37,951,292 | 54,654,814 | 45,474,572 | 51,503,799 | 44,593,424 | 13,682,508 | 14,585,023 | 16,629,267 | 19,596,020 |
| % Usable | 94.47% | 95.25% | 91.09% | 89.14% | 86.67% | 89.16% | 87.78% | 89.19% | 92.27% |
| Total reads of top 1000 unique sequences | 3,169 | 5,797 | 226,559 | 564,840 | 771,042 | 326,175 | 6,766,517 | 9,237,787 | 16,182,954 |
| Frequencies of top 1000 in all the usable reads | 0.008% | 0.011% | 0.498% | 1.097% | 1.729% | 2.384% | 46.394% | 55.551% | 82.583% |
| Molecular enrichment (fold) (top 1000) | 1.00 | 1.83 | 71.49 | 178.24 | 243.31 | 102.93 | 2135.22 | 2915.05 | 5106.64 |
The total reads and useful reads were defined. The most frequent 1,000 unique sequences and their percent in all the usable reads were identified. The molecular enrichment at each round was calculated by the formula: total reads of top 1000 unique sequences at round X/unselected round (initial library).