Table 1 Summary of the de novo assembly statistics of C. sapidus ovigerous setae transcriptome and mapping. Transcriptome: prepuberty females at early (OE) and late premolt (OL), and adult stages (AO). De novo assembly statistics are based on all contigs
Applied software | Assembly statistics | Trinity | Trinity95 | ||
|---|---|---|---|---|---|
FastQC (evalulation) & Trimmomatic (processing) | Total assembled bp | 153,813,359 | 102,627,517 | ||
Trinity & CD-HIT-EST | Number Trinity genes | 99,046 | 96,684 | ||
Trinity & CD-HIT-EST | Number Trinity transcripts | 158,749 | 124,128 | ||
| Â | Average contig (bp) | 968.9 | 826.8 | ||
| Â | GC (%) | 44.3 | 44.2 | ||
| Â | N50 | 2,001 | 1,615 | ||
| Â | Mapping | OE | OL | AO | |
| Â | Total raw reads | 37,084,746 | 37,793,011 | 48,109,102 | |
FastQC (evalulation) & Trimmomatic (processing) | Total clean reads | 33,584,743 | 34,742,059 | 44,216,393 | |
Bowtie2 | % reads mapped to Trinity95 | 96.1% | 92.1% | 91.5% | |
Bowtie2 | Total number of contigs | 56,432 | 91,353 | 99,493 | |
|  | Number of filtered contigs (TPM ≥ 1) | 18,867 | 31,605 | 32,021 | |
| Â | Average filtered contig (bp) | 1,191.4 | 1,321.0 | 1,425.9 | |