Table 1 Multiple k-mer assembly statistics
K-mer = 21 | K-mer = 25 | K-mer = 27 | K-mer = 30 | K-mer = 32 | |
|---|---|---|---|---|---|
Total # bases assembled | 389,450,068 | 578,099,292 | 608,828,249 | 631,946,102 | 637,678,571 |
Total # assembled contigs | 549,131 | 581,625 | 588,250 | 582,616 | 573,201 |
Total # Trinity ‘genes’ | 471,672 | 427,875 | 424,223 | 418,137 | 413,346 |
Total # Trinity transcripts | 68,117 | 47,537 | 36,867 | 35,325 | 30,180 |
Average contig length (bp) | 709.21 | 993.94 | 1034.98 | 1084.67 | 1112.49 |
Median contig length (bp) | 391 | 413 | 407 | 404 | 407 |
Maximum contig length (bp) | 25,218 | 42,708 | 27,081 | 26,868 | 26,979 |
N50 (bp) | 1072 | 2319 | 2584 | 2890 | 3027 |
GC count for complete assembly (%) | 38.94 | 38.47 | 38.49 | 38.51 | 38.39 |
Overall alignment (%) | 97.0 | 98.39 | 98.34 | 98.39 | 98.36 |
Reads mapped 1 time (%) | 28.26 | 11.42 | 10.55 | 9.24 | 9.51 |
Reads mapped > 1 time (%) | 63.30 | 81.10 | 82.02 | 83.48 | 83.07 |