Table 1.
Summary of assembly statistics for de novo transcriptome assembly resulting from three different assemblers and their combination
| Kmer | No. of contigs | N50 | Average length | Median length | Max length | n: >500 | n: >1000 | Total (bps) | |
|---|---|---|---|---|---|---|---|---|---|
| CLC | 28 | 132,053 | 975 | 668 | 393 | 17,676 | 49,831 (37.7 %) | 22,776 (17.2 %) | 88,253035 |
| Trinity | 25 | 351,356 | 1480 | 882 | 499 | 15,932 | 175,121 (49.8 %) | 97,341 (27.7 %) | 30,9874152 |
| SOAPdenovo | 31 | 120,798 | 1420 | 792 | 418 | 16,755 | 52,789 (43.7 %) | 29,066 (24.1 %) | 957,18128 |
| 41 | 126,879 | 1367 | 761 | 393 | 19,918 | 52,362 (41.3 %) | 28,570 (22.5 %) | 965,63062 | |
| 51 | 131,612 | 1288 | 711 | 358 | 16,689 | 49,743 (37.8 %) | 27,048 (20.6 %) | 935,54138 | |
| 63 | 130,168 | 1222 | 664 | 324 | 18,719 | 44,775 (34.4 %) | 24,670 (19.0 %) | 864,87929 | |
| 71 | 110,659 | 1277 | 692 | 334 | 15,705 | 39,788 (36.0 %) | 22,709 (20.5 %) | 766,08845 | |
| 91 | 36,139 | 1480 | 946 | 635 | 12,303 | 20,425 (56.5 %) | 12,687 (35.1 %) | 341,81250 | |
| CLC_Trinity_SOAPdenovo (kmer31)_CD-HIT-EST | N.A. | 243,185 | 1561 | 907 | 505 | 17,676 | 122,493 (50.4 %) | 69,659 (28.6 %) | 220,651304 |