Skip to main content

Table 5 Comparison of single-copy read predictions by different sequencing platforms mapped to characterized gene contigs (including singletons) of Ae. tauschi i accession AL8/78 sequenced with Roche 454

From: Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence

Sequencing platform and DNA source Roche 454 contigs mapped Contigs shared with SOLiD(a) Cut-off value for single-copy prediction Single- copy Roche 454 contigs (% of mapped contigs) Single-copy contigs shared(a) Contingency χ2test P value
SOLiD (~10.7X)(b) 378,185   53 347,199 (91.8%)   
Solexa (~2.1X) 305,495 299,673 8 281,513 (92.2%) 260,261 (86.8%) 0.0001
Roche 454 (~1.6X) 104,030 101,800 8 97,399 (93.6%) 78,963 (77.6%) 0.0001
  1. (a) Number of Roche 454 contigs to which reads generated with an indicated platform and SOLiD were mapped. (b) The coverage estimate is the average depth of sequences mapped to Roche 454 contigs.
\