Table 1 Statistics following ConDeTri cleaning and Trinity assembly
Accessions | CPP27 | Pmnk6 | CPP02 |
|---|---|---|---|
Number of raw reads | 279,109 | 396,022 | 423,426 |
Number of raw bases (bp) | 112,337,841 | 247,596,818 | 158,214,933 |
Number of clean reads | 257,015 | 381,166 | 348,529 |
Cleaned reads / Raw reads (%) | 92.1% | 71.0% | 82.3% |
Number of clean bases (bp) | 75,672,645 | 124,810,371 | 87,666,889 |
Mean clean read length (bp) | 294 | 444 | 252 |
Number of aligned reads | 99,248 | 116,524 | 119,452 |
Aligned read / Cleaned reads (%) | 38.6% | 41.4% | 34.3% |
Number of contigs | 18,325 | 15,736 | 18,412 |
Number of bases in contigs (bp) | 11,703,977 | 15,640,762 | 11,892,992 |
Mean contig length (bp) | 639 | 994 | 646 |
N50 (bp) | 755 | 1256 | 759 |
Longest contig (bp) | 4335 | 4815 | 6221 |
Number of singletons | 60,869 | 45,306 | 73,994 |
Singletons / Cleaned reads (%) | 23.7% | 16.1% | 21.2% |
Number of bases in singletons (bp) | 17,591,281 | 20,431,176 | 18,048,611 |
Mean singleton length (bp) | 289 | 451 | 244 |
Number of transcripts (contigs + singletons) | 79,194 | 61,042 | 92,406 |