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Table 1 The three executions of the motif detection procedure

From: Escherichia coli genome-wide promoter analysis: Identification of additional AtoC binding target elements

Executions

Specified positions upstream TSS

Initial promoter set

Qualified promoter set

1

from -184 to -165

All E. coli promoters

atoD, galU, yhjR-bcsE, narZ, puuP, mdlA, dmsA, crr

2

from -184 to -165

sigma-54 factor-related promoters

atoD, rtcR, ibpB

3

from -184 to -165

Two-component target promoters

atoD, dmsA, borD, csgD, pstS, glnH, dctA, yebE, nirB, torC, asr, tppB, acrD,

  1. The computational workflow was performed many times varying different parameters. Here are shown the three successful executions that corresponded to three different initial promoter sets.