TIS annotation for <i>E</i>. <i>coli</i> K12 MG1655.

(a) The majority of TISs that are different in the PCA-based and Prodigal-based annotation are located close to the RefSeq TIS. For the PCA-based predictions: 548 were not in agreement with RefSeq, 199 of these where within 30 nt distance and 56 at 3nt distance; For the Prodigal predictions: 241 (6%) were not in agreement with RefSeq (and 74 (2%) were missed): 96 of these were within 30 nt distance and 30 at 3nt distance. The NCBI RefSeq file contained 4141 annotated genes. The position of the TISs was compared between the PCA-based prediction, the Prodigal-based prediction and the RefSeq annotation. Recently, the EcoGene annotation has been updated and 13 TISs have been adjusted (b0259, b0552, b0656, b1994, b2030, b2192, b3218, b3505, b4543, b2803, b1331, b2982 and b3093). The adaptations were compared to the PCA-based and Prodigal-based predictions.