Table 1.
Summary of assembly statistics for de novo transcriptome assembly of Cornus officinalis based on three popular assemblers and their combination
| Kmer | No. of contigs | N50 | Average length | Median length | Max length | n>500 | n>1,000 | Total (bp) | |
|---|---|---|---|---|---|---|---|---|---|
| CLC | 20 | 146,234 | 1,126 | 719 | 408 | 15,296 | 58,038 (39.7%) | 28,711 (19.6%) | 105,178,010 |
| Trinity | 25 | 404,394 | 1,230 | 734 | 403 | 15,776 | 165,229 (40.9%) | 86,837 (21.5%) | 296,953,277 |
| SOAPde novo-trans | 31 | 147,639 | 1,239 | 720 | 384 | 15,241 | 59,300 (40.2%) | 31,550 (21.4%) | 106,284,821 |
| 41 | 148,423 | 1,257 | 715 | 373 | 15,334 | 57,918 (39.0%) | 31,474 (21.2%) | 106,155,312 | |
| 51 | 146,829 | 1,212 | 687 | 355 | 15,635 | 54,376 (37.0%) | 29,330 (20.0%) | 100,898,210 | |
| 63 | 135,683 | 1,171 | 661 | 334 | 15,335 | 47,621 (35.1%) | 25,858 (19.1%) | 89,665,413 | |
| 71 | 109,186 | 1,214 | 695 | 353 | 15,321 | 41,108 (37.6%) | 22,627 (17.8%) | 75,905,071 | |
| 91 | 28,652 | 1,415 | 936 | 650 | 12,222 | 16,748 (58.5%) | 9,866 (34.4%) | 26,826,153 | |
| CLC_Trinity_SOAPde novo (kmer41)_CD-HIT-EST | N.A. | 304,371 | 1,250 | 742 | 404 | 15,776 | 124,460 (40.9%) | 65,774 (21.6%) | 22,575,399 |