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Table 4 Summary of SNP discovery results for F. grandifolia using the reference transcriptomes generated by DNASTAR NGEN and Newbler

From: Genome-wide association study identifies a major gene for beech bark disease resistance in American beech (Fagus grandifolia Ehrh.)

Statistics DNASTAR Reference Transcriptome Newbler Reference Transcriptome
Number of Contigs in Reference 43,212 14,977
Number of Bases in Reference 28,676,242 11,580,835
Number of Mapped Reads (%) 1,357,629 (96.55%) 938,418 (88.82%)
Number of Mapped Bases (%) 494,805,288 (97.45%) 312,081,222 (85.48%)
Fully Mapped Reads (%) 444,838 (31.64%) 396,609 (37.54%)
Partially Mapped Reads (%) 35,728 (2.54%) 135,858 (12.86%)
Non-Unique Mapped Reads (%) 871,685 (61.99%) 147,210 (13.93%)
Chimeric Reads (%) 5378 (0.38%) 258,741 (24.49%)
Unmapped Reads (%) 32,025 (2.28%) 101,623 (9.62%)
Reads Too Short (%) 16,470 (1.17%) 16,470 (1.56%)
High Confidence SNP Calls 2119 (12,069) 15,542 (14,574)
HC SNP Calls (Not Ambiguous) 10,971 (10,934) 15,541 (14,573)