Table 1 Transcriptome assembly statistics
From: Novel insights into the insect trancriptome response to a natural DNA virus
| Â | SOAP transdenovo | Trinity | ||
|---|---|---|---|---|
| Â | kmer size =25 | kmer size=31 | Edge threshold =0.05 | Edge threshold =0.16 |
Max contig length | 46,673 | 46,631 | 62,936 | 62,936 |
Mean contig length | 1,053 | 1,036 | 1,037 | 905 |
Standard deviation of contig length | 1,595 | 1,559 | 1,736 | 1,542 |
Median contig length | 424 | 428 | 393 | 375 |
N50 contig length | 2,539 | 2,452 | 2,617 | 2,125 |
Number of contigs | 80,425 | 82,753 | 135,990 | 127,665 |
Number of contigs>=1kb | 20,249 | 20,725 | 32,900 | 26,818 |
Number of contigs in N50 | 8,933 | 9,330 | 14,198 | 13,689 |
Number of bases in all contigs | 84,708,481 | 85,762,961 | 140,975,202 | 115,544,987 |
Number of bases in contigs>=1kb | 60,770,939 | 60,961,055 | 101,519,875 | 77,125,576 |
GC Content of contigs | 38.82% | 38.95% | 39.35% | 38.96% |