Table 2 Categorization and abundance of tags
Summary | Â | L1 | L2 | L3 | L4 | L5 | L6 | L7 | L8 |
|---|---|---|---|---|---|---|---|---|---|
Raw tag | Total | 5986157 | 6040684 | 5895889 | 6168748 | 5865045 | 6216559 | 6198321 | 6131056 |
| Â | Distinct tag | 466332 | 351691 | 351724 | 375846 | 591374 | 504549 | 519273 | 525066 |
Clean tag | Total number | 5739999 | 5846807 | 5731901 | 5970775 | 5476878 | 5900343 | 5930716 | 5862642 |
| Â | Distinct tag number | 224154 | 162415 | 191994 | 181792 | 204639 | 206998 | 233839 | 257077 |
All Tag Mapping to Gene | Total number | 4801389 | 4749586 | 5060517 | 5106678 | 4461094 | 4703005 | 4633630 | 4622199 |
| Â | Total % of clean tag | 83.65% | 82.86% | 86.55% | 85.53% | 81.45% | 79.71% | 78.13% | 78.84% |
| Â | Distinct Tag number | 106706 | 97198 | 101471 | 103126 | 109186 | 115835 | 113282 | 120719 |
| Â | Distinct Tag % of clean tag | 47.60% | 50.63% | 62.48% | 56.73% | 53.36% | 55.96% | 48.44% | 46.96% |
| Â | Total number | 3292723 | 3227948 | 3507713 | 3554706 | 3256090 | 3434881 | 3343733 | 3402403 |
| Â | Total % of clean tag | 57.36% | 56.32% | 59.99% | 59.54% | 59.45% | 58.21% | 56.38% | 58.04% |
Unambiguous Tag Mapping to Gene | Distinct Tag number | 81596 | 75187 | 78233 | 79048 | 83632 | 88491 | 86619 | 92556 |
| Â | Distinct Tag % of clean tag | 36.40% | 39.16% | 48.17% | 43.48% | 40.87% | 42.75% | 37.04% | 36.00% |
| Â | number | 37582 | 36093 | 35450 | 35798 | 37001 | 36554 | 36752 | 38802 |
| Â | % of ref genes | 56.76% | 54.51% | 53.54% | 54.07% | 55.88% | 55.21% | 55.51% | 58.60% |
All Tag-mapped Genes | number | 29503 | 28271 | 27960 | 27977 | 29174 | 28799 | 29217 | 30581 |
| Â | % of ref genes | 44.56% | 42.70% | 42.23% | 42.25% | 44.06% | 43.50% | 44.13% | 46.19% |
Unambiguous Tag-mapped Genes | Total number | 271 | 460 | 131 | 180 | 567 | 396 | 434 | 626 |
| Â | Total % of clean tag | 0.00% | 0.01% | 0.00% | 0.00% | 0.01% | 0.01% | 0.01% | 0.01% |
Mapping to Mitochondrion | Distinct Tag number | 39 | 44 | 25 | 32 | 57 | 41 | 38 | 68 |
| Â | Distinct Tag % of clean tag | 0.02% | 0.02% | 0.02% | 0.02% | 0.03% | 0.02% | 0.02% | 0.03% |
| Â | Total number | 55363 | 40659 | 19740 | 21626 | 7022 | 6884 | 5876 | 7903 |
| Â | Total % of clean tag | 0.96% | 0.71% | 0.34% | 0.36% | 0.13% | 0.12% | 0.10% | 0.13% |
Mapping to Chloroplast | Distinct Tag number | 580 | 509 | 387 | 478 | 357 | 348 | 284 | 379 |
| Â | Distinct Tag % of clean tag | 0.26% | 0.27% | 0.24% | 0.26% | 0.17% | 0.17% | 0.12% | 0.15% |
| Â | Total number | 556745 | 583356 | 494737 | 541514 | 547827 | 615239 | 579952 | 689884 |
| Â | Total % of clean tag | 9.70% | 10.18% | 8.46% | 9.07% | 10.00% | 10.43% | 9.78% | 11.77% |
Mapping to Genome | Distinct Tag number | 76405 | 59263 | 38836 | 48896 | 47539 | 44830 | 45655 | 77752 |
| Â | Distinct Tag % of clean tag | 34.09% | 30.87% | 23.91% | 26.90% | 23.23% | 21.66% | 19.52% | 30.24% |
| Â | Total number | 326231 | 357840 | 271682 | 300777 | 460368 | 574819 | 710824 | 542030 |
| Â | Total % of clean tag | 5.68% | 6.24% | 4.65% | 5.04% | 8.41% | 9.74% | 11.99% | 9.25% |
Unknown Tag | Distinct Tag number | 40424 | 34980 | 21696 | 29260 | 47500 | 45944 | 74580 | 58159 |
| Â | Distinct Tag % of clean tag | 18.03% | 18.22% | 13.36% | 16.10% | 23.21% | 22.20% | 31.89% | 22.62% |