Table 2 Summary of bulked GbS data, GbS read processing and variant detection
Diploid pool | Mophead pool | |
|---|---|---|
Description of pooled plants | 99 diploid F1 plants independent of inflorescence type | 65 diploid and triploid mophead F1 plants |
Total number of high-quality read pairs used for read mapping | 92,144,015 | 58,117,508 |
Total number of mapped reads | 173,568,387 (94.2%) | 109,338,937 (94.1%) |
Number of contigs with read matches | 603,104 (39.7%) | 527,059 (34.7%) |
Number of reads per scored contig | 1 to 765,278 | 1 to 367,469 |
Sum of covered nucleotides of the draft genome | 248.9 million (15.3%) | 196.0 million (12.1%) |
Average coverage excluding zero coverage regions (± standard deviation) | 98.7 ± 596.76 | 78.9 ± 388.36 |
Total number of polymorphic calls with allele frequencies between 18 and 100% | 1,603,884 | 1,808,537 |
Total number of polymorphic positions with allele frequencies between 25 and 75% indicating heterozygosity | 606,317 | n.d. |