Table 1 Summary statistics for 454 sequencing and de novo assembly.
From: A garter snake transcriptome: pyrosequencing, de novo assembly, and sex-specific differences
| Â | Female | Male | Total |
|---|---|---|---|
Total number of raw reads | 538,706 | 753,163 | 1,291,869 |
Number of reads after cleaning | 507,466 | 730,814 | 1,238,280 |
Amount of cleaned data | 207 Mbp | 246 Mbp | 453 Mbp |
Average length of cleaned reads (bp) | 408 | 337 | 366 |
NEWBLER contigs (large > 500 bp) | NA | NA | 82,134 (30,520) |
NEWBLER contig bp total | NA | NA | 48 Mbp |
NEWBLER contig length (bp) | NA | NA | 90-10,680 (avg 581) |
Average coverage (NEWBLER) | NA | NA | 7.6× |
Reads placed (NEWBLER) | NA | NA | 1,035,854 |
Singletons (after NEWBLER) | NA | NA | 134,971 |
MIRA contigs | NA | NA | 14,245 |
Reads placed (MIRA) | NA | NA | 33,093 |
Singletons mapped by BLAST to contigs | NA | NA | 5846 |
Reads discarded1 | NA | NA | 70,926 (5.7%) |
Remaining Singletons | NA | NA | 92,561 (7.5%) |
Total reads placed | NA | AN | 1,074,793 (86.8%) |
Total number of contigs | NA | NA | 96,379 |
SNPs | NA | NA | 95,295 |
INDELs | NA | NA | 31,651 |