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Table 1 Annotation results

From: MotifAdjuster: a tool for computational reassessment of transcription factor binding site annotations

Gene ID Gene name No. BS BS length No. removed BSs No. shifted BSs Percentage
b3357 crp 218 22 20 31 23.4%
b1221 narL 74 7 2 11 17.6%
b3261 fis 68 21 13 17 44.1%
b1334 fnr 54 14 2 3 9.3%
b0683 fur 46 15 1 43 95.7%
b0889 lrp 43 12 4 23 62.8%
b3912 cpxR 33 15 9 6 45.5%
Total   536   51 134 34.5%
  1. Summary of the results of the application of MotifAdjuster to all data sets of CoryneRegNet 4.0 from Escherichia coli with at least 30 BSs and of at most 25 bp length. Columns 1 and 2 show the gene ID and gene name of the TF; columns 3 and 4 show the number of BSs stored in the database and their lengths; columns 5 and 6 show the number of BSs proposed to be removed and to be shifted; and column 7 shows the percentage of BSs to be removed or shifted. Interestingly, the percentage of proposed adjustments varies strongly from TF to TF, ranging from 9.3% for Fnr to 95.7% for Fur. In summary, we find in the complete data set of 536 BSs that 51 BSs are proposed to be removed and 134 BSs are proposed to be shifted, resulting in 34.5% of the data set being proposed for adjustments.