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Table 2 General statistics of the Illumina sequencing, assembly and number of reliable SNPs identified by QualitySNP in RF and the onion cultivars. RF and cultivars Bravo and Jumbo were analyzed in a seperate run (three genotypes in one lane). In the other run two cDNA samples of eight cultivars were multiplexed per lane

From: SNP-markers in Allium species to facilitate introgression breeding in onion

Genotype Number of bases Number of reads Number of contigs N50 a Number of contigs with reliable SNPs b
RF 276,285,871 5,662,574 10,361 395 7990
Bravo 572,211,306 11,727,836 46,596 309 6920
Jumbo 346,687,223 7,108,700 36,897 276 6709
Babosa 2,682,844,988 25,031,165 99,010 602 38,520
California Red 1,965,911,851 18,940,653 81,574 623 31,471
Pukekohe Longkeeper 2,274,863,215 21,244,183 99,761 649 35,203
Rio Tinto 2,017,823,470 19,525,723 81,975 588 30,996
Rumba 2,054,901,823 18,835,004 103,178 561 38,735
Sapporo Yellow Globe 3,215,089,647 34,561,122 69,206 519 27,093
South Port White Globe 2,071,923,107 29,319,916 76,187 558 28,232
  1. a Average contig length in base pairs
  2. b A SNP is called a reliable SNP when every allele is present in at least 4 reads (Tang et al. [29])