Skip to main content

Table 7 Motifs passing our set of stringent filters, ranked by their degree of conservation

From: Comparative analysis of mycobacterium and related actinomycetes yields insight into the evolution of mycobacterium tuberculosis pathogenesis

ka Cluster # Motif MAP scoreb Specificityc Knownd Palind-romicitye Conser-vationf Motif Logog
100 71 1 65.6 1.8E-29 KstR 0.93 46
250 179 1 88.6 4.8E-26 KstR 0.71 43
50 35 1 87.4 1.8E-19 KstR 0.79 40
200 182 1 94.2 5.7E-28 KstR 0.80 36
100 73 2 31.3 1.5E-32 IdeR 0.85 30
100 49 15 16.3 2.8E-18 KstR 0.71 29
250 112 1 25.5 2.1E-25 DosR 0.76 21
100 80 1 15.0 2.2E-14   0.92 21
50 29 1 15.0 2.2E-14   0.92 21 X
50 23 31 21.7 6.7E-24   0.71 18
200 47 64 7.2 1.2E-15   0.75 16
250 87 1 22.1 1.5E-13 ZurB 0.94 16
200 6 1 16.3 2.0E-12 IdeR 0.70 16
200 184 19 12.1 4.7E-13   0.75 16
250 123 18 14.5 3.7E-11   0.82 16
250 224 1 26.9 6.2E-24 DosR 0.73 15
200 46 3 19.8 1.6E-12   0.78 15
100 5 25 12.4 3.8E-15   0.71 14
200 120 62 15.3 2.0E-14   0.74 14
200 71 9 16.6 2.3E-16   0.75 14
200 195 1 25.4 7.2E-26 DosR 0.76 14
50 48 1 68.8 6.4E-35 DosR 0.86 13
100 74 1 66.9 3.6E-34 DosR 0.88 13
50 23 12 26.8 5.0E-22   0.73 13
250 89 1 46.636 4.0E-20   0.75 12
100 81 84 6.4 2.3E-16   0.71 12
250 92 6 5.7 3.7E-17 DosR 0.73 12
100 52 91 9.7 1.5E-18   0.76 11
200 91 1 47.1 4.7E-20   0.70 10
50 36 43 34.8 4.6E-30   0.72 10
100 42 4 15.3 2.8E-17   0.70 10
200 80 9 8.5 4.0E-13   0.72 10
50 43 7 15.7 8.7E-12   0.72 10
50 36 21 48.5 5.3E-12   0.71 10
200 26 17 7.5 2.1E-12   0.70 9
50 6 61 6.3 1.2E-11   0.73 9
50 11 43 13.7 1.4E-11   0.72 14
  1. ak indicates the value of k in the k-means clustering process (50, 100, 200, or 250)
  2. bMAP score indicates the AlignACE MAP score [76]
  3. cSpecificity score [77]
  4. dCompareACE score ≥ 0.7 to the alignment for this known motif
  5. eCompareACE score to its reverse complement
  6. fnumber of ScanACE hits in the genome that are conserved in ≥ 8 genomes
  7. gsequence logo [78]