Table 2 Summary of 454 sequencing and clustering using automatic pipeline for various tissue-type libraries (embryogenic tissues, leaf, bark, latex, and roots) and a global library combining reads from all tissues
From: Identification of the Hevea brasiliensisAP2/ERF superfamily by RNA sequencing
| Â | Embryogenic | Leaf | Bark | Latex | Root | Global |
|---|---|---|---|---|---|---|
Sequence in input | 516,589 | 574,763 | 545,237 | 576,497 | 605,730 | - |
Discarded reads | 98,364 (19%) | 123,858 (22%) | 55,035 (10%) | 93,758 (16%) | 54,396 (9%) | - |
Short reads (< 120Â bp) | 95,771 | 122,639 | 52,275 | 93,246 | 51,761 | - |
Non-coding sequence | 2,593 | 1,219 | 2,760 | 512 | 2,635 | - |
Good quality reads | 418,225 (81%) | 450,905 (78%) | 490,202 (90%) | 482,739 (84%) | 551,334 (91%) | 2,390,118 |
Max length (bp) | 925 | 582 | 614 | 880 | 641 | 925 |
Min length (bp) | 120 | 120 | 120 | 121 | 120 | 120 |
Average length (bp) | 293 | 282 | 399 | 245 | 395 | 325 |
Assembly | Â | Â | Â | Â | Â | Â |
Number of contigs | 44,988 | 29,910 | 45,114 | 29,016 | 50,146 | 94,981 |
Maximum length of contigs (bp) | 3,461 | 2,062 | 4,280 | 2,302 | 4,134 | 6,657 |
Minimum length of contigs (bp) | 83 | 113 | 97 | 121 | 93 | 62 |
Average length of contigs (bp) | 519 | 552 | 753 | 423 | 754 | 807 |