AME (Analysis of Motif Enrichment): Compiled on Mar 2 2012 at 16:08:25 ------------------------------ Copyright (c) Robert McLeay & Timothy Bailey , 2009. Command line ame --oc results/mea_results_ame/cMyc.ame_out --verbose 1 --fix-partition 3422 --bgformat 0 data/chipseq_databases/Chen_ChIP_seq_datasets//mm8_cMyc_ESC_chen-shuffled_w_bg.fasta data/motif_databases/all_vertebrates.meme Not in partition maximisation mode. Fixing partition at 3422. Threshold p-value for reporting results: 0.001 Motif p-values are corrected by #Motifs * #ThresholdsTested - (532 * 1 = 532) 1. Fisher-exact p-value of motif MA0093.1 USF1 top 3422 seqs: 7.217e-208 (Corrected p-value: 3.84e-205) 2. Fisher-exact p-value of motif MA0004.1 Arnt top 3422 seqs: 7.217e-208 (Corrected p-value: 3.84e-205) 3. Fisher-exact p-value of motif MA0104.1 Mycn top 3422 seqs: 7.217e-208 (Corrected p-value: 3.84e-205) 4. Fisher-exact p-value of motif MA0104.2 Mycn top 3422 seqs: 4.478e-188 (Corrected p-value: 2.383e-185) 5. Fisher-exact p-value of motif UP00060_1 Max_primary top 3422 seqs: 4.6e-178 (Corrected p-value: 2.447e-175) 6. Fisher-exact p-value of motif MA0147.1 Myc top 3422 seqs: 1.199e-177 (Corrected p-value: 6.38e-175) 7. Fisher-exact p-value of motif MA0059.1 MYC::MAX top 3422 seqs: 5.3e-165 (Corrected p-value: 2.819e-162) 8. Fisher-exact p-value of motif MA0058.1 MAX top 3422 seqs: 8.572e-146 (Corrected p-value: 4.56e-143) 9. Fisher-exact p-value of motif UP00050_2 Bhlhb2_secondary top 3422 seqs: 2.371e-64 (Corrected p-value: 1.261e-61) 10. Fisher-exact p-value of motif UP00015_1 Ehf_primary top 3422 seqs: 3.336e-61 (Corrected p-value: 1.775e-58) 11. Fisher-exact p-value of motif UP00407_1 Elf3_primary top 3422 seqs: 1.383e-60 (Corrected p-value: 7.359e-58) 12. Fisher-exact p-value of motif MA0259.1 HIF1A::ARNT top 3422 seqs: 1.835e-58 (Corrected p-value: 9.764e-56) 13. Fisher-exact p-value of motif MA0039.2 Klf4 top 3422 seqs: 4.393e-57 (Corrected p-value: 2.337e-54) 14. Fisher-exact p-value of motif MA0149.1 EWSR1-FLI1 top 3422 seqs: 2.4e-55 (Corrected p-value: 1.277e-52) 15. Fisher-exact p-value of motif UP00093_1 Klf7_primary top 3422 seqs: 3.959e-55 (Corrected p-value: 2.106e-52) 16. Fisher-exact p-value of motif UP00024_1 Glis2_primary top 3422 seqs: 4.331e-55 (Corrected p-value: 2.304e-52) 17. Fisher-exact p-value of motif UP00047_1 Zbtb7b_primary top 3422 seqs: 1.249e-53 (Corrected p-value: 6.646e-51) 18. Fisher-exact p-value of motif UP00050_1 Bhlhb2_primary top 3422 seqs: 1.185e-52 (Corrected p-value: 6.304e-50) 19. Fisher-exact p-value of motif UP00021_2 Zfp281_secondary top 3422 seqs: 1.734e-52 (Corrected p-value: 9.223e-50) 20. Fisher-exact p-value of motif UP00022_2 Zfp740_secondary top 3422 seqs: 2.616e-50 (Corrected p-value: 1.391e-47) 21. Fisher-exact p-value of motif MA0156.1 FEV top 3422 seqs: 3.386e-47 (Corrected p-value: 1.801e-44) 22. Fisher-exact p-value of motif UP00408_1 Gabpa_primary top 3422 seqs: 8.538e-44 (Corrected p-value: 4.542e-41) 23. Fisher-exact p-value of motif UP00099_2 Ascl2_secondary top 3422 seqs: 4.279e-42 (Corrected p-value: 2.276e-39) 24. Fisher-exact p-value of motif MA0062.2 GABPA top 3422 seqs: 7.782e-41 (Corrected p-value: 4.14e-38) 25. Fisher-exact p-value of motif MA0136.1 ELF5 top 3422 seqs: 5.59e-39 (Corrected p-value: 2.974e-36) 26. Fisher-exact p-value of motif MA0073.1 RREB1 top 3422 seqs: 7.195e-37 (Corrected p-value: 3.828e-34) 27. Fisher-exact p-value of motif UP00097_2 Mtf1_secondary top 3422 seqs: 9.036e-36 (Corrected p-value: 4.807e-33) 28. Fisher-exact p-value of motif UP00002_1 Sp4_primary top 3422 seqs: 1.631e-32 (Corrected p-value: 8.674e-30) 29. Fisher-exact p-value of motif UP00000_2 Smad3_secondary top 3422 seqs: 5.088e-31 (Corrected p-value: 2.707e-28) 30. Fisher-exact p-value of motif UP00077_2 Srf_secondary top 3422 seqs: 1.31e-30 (Corrected p-value: 6.969e-28) 31. Fisher-exact p-value of motif UP00037_1 Zfp105_primary top 3422 seqs: 1.938e-30 (Corrected p-value: 1.031e-27) 32. Fisher-exact p-value of motif MA0079.2 SP1 top 3422 seqs: 2.111e-30 (Corrected p-value: 1.123e-27) 33. Fisher-exact p-value of motif UP00033_2 Zfp410_secondary top 3422 seqs: 2.122e-30 (Corrected p-value: 1.129e-27) 34. Fisher-exact p-value of motif UP00085_1 Sfpi1_primary top 3422 seqs: 2.611e-30 (Corrected p-value: 1.389e-27) 35. Fisher-exact p-value of motif UP00406_1 Spdef_primary top 3422 seqs: 9.734e-30 (Corrected p-value: 5.178e-27) 36. Fisher-exact p-value of motif UP00046_1 Tcfe2a_primary top 3422 seqs: 6.909e-27 (Corrected p-value: 3.676e-24) 37. Fisher-exact p-value of motif MA0062.1 GABPA top 3422 seqs: 2.967e-26 (Corrected p-value: 1.579e-23) 38. Fisher-exact p-value of motif MA0076.1 ELK4 top 3422 seqs: 5.254e-26 (Corrected p-value: 2.795e-23) 39. Fisher-exact p-value of motif UP00088_2 Plagl1_secondary top 3422 seqs: 7.389e-26 (Corrected p-value: 3.931e-23) 40. Fisher-exact p-value of motif UP00408_2 Gabpa_secondary top 3422 seqs: 9.517e-26 (Corrected p-value: 5.063e-23) 41. Fisher-exact p-value of motif UP00043_2 Bcl6b_secondary top 3422 seqs: 1.295e-25 (Corrected p-value: 6.89e-23) 42. Fisher-exact p-value of motif MA0039.1 Klf4 top 3422 seqs: 3.973e-25 (Corrected p-value: 2.114e-22) 43. Fisher-exact p-value of motif UP00021_1 Zfp281_primary top 3422 seqs: 9.269e-25 (Corrected p-value: 4.931e-22) 44. Fisher-exact p-value of motif MA0162.1 Egr1 top 3422 seqs: 1.203e-24 (Corrected p-value: 6.402e-22) 45. Fisher-exact p-value of motif MA0105.1 NFKB1 top 3422 seqs: 3.792e-24 (Corrected p-value: 2.017e-21) 46. Fisher-exact p-value of motif UP00103_1 Jundm2_primary top 3422 seqs: 9.62e-24 (Corrected p-value: 5.118e-21) 47. Fisher-exact p-value of motif UP00096_2 Sox13_secondary top 3422 seqs: 1.922e-22 (Corrected p-value: 1.022e-19) 48. Fisher-exact p-value of motif UP00060_2 Max_secondary top 3422 seqs: 4.726e-21 (Corrected p-value: 2.514e-18) 49. Fisher-exact p-value of motif UP00061_1 Foxl1_primary top 3422 seqs: 5.809e-21 (Corrected p-value: 3.09e-18) 50. Fisher-exact p-value of motif MA0100.1 Myb top 3422 seqs: 6.523e-20 (Corrected p-value: 3.47e-17) 51. Fisher-exact p-value of motif UP00020_1 Atf1_primary top 3422 seqs: 7.734e-20 (Corrected p-value: 4.115e-17) 52. Fisher-exact p-value of motif UP00088_1 Plagl1_primary top 3422 seqs: 2.124e-19 (Corrected p-value: 1.13e-16) 53. Fisher-exact p-value of motif MA0137.1 STAT1 top 3422 seqs: 5.6e-19 (Corrected p-value: 2.979e-16) 54. Fisher-exact p-value of motif MA0152.1 NFATC2 top 3422 seqs: 1.136e-18 (Corrected p-value: 6.043e-16) 55. Fisher-exact p-value of motif UP00407_2 Elf3_secondary top 3422 seqs: 1.279e-18 (Corrected p-value: 6.805e-16) 56. Fisher-exact p-value of motif MA0116.1 Zfp423 top 3422 seqs: 2.5e-18 (Corrected p-value: 1.33e-15) 57. Fisher-exact p-value of motif UP00030_1 Sox11_primary top 3422 seqs: 2.997e-18 (Corrected p-value: 1.594e-15) 58. Fisher-exact p-value of motif UP00035_2 Hic1_secondary top 3422 seqs: 8.862e-18 (Corrected p-value: 4.715e-15) 59. Fisher-exact p-value of motif UP00028_2 Tcfap2e_secondary top 3422 seqs: 1.308e-17 (Corrected p-value: 6.957e-15) 60. Fisher-exact p-value of motif MA0137.2 STAT1 top 3422 seqs: 3.48e-17 (Corrected p-value: 1.852e-14) 61. Fisher-exact p-value of motif UP00061_2 Foxl1_secondary top 3422 seqs: 7.543e-17 (Corrected p-value: 4.013e-14) 62. Fisher-exact p-value of motif UP00062_1 Sox4_primary top 3422 seqs: 1.246e-16 (Corrected p-value: 6.627e-14) 63. Fisher-exact p-value of motif UP00073_1 Foxa2_primary top 3422 seqs: 3.206e-16 (Corrected p-value: 1.706e-13) 64. Fisher-exact p-value of motif UP00025_1 Foxk1_primary top 3422 seqs: 6.348e-16 (Corrected p-value: 3.377e-13) 65. Fisher-exact p-value of motif UP00029_1 Tbp_primary top 3422 seqs: 7.574e-16 (Corrected p-value: 4.029e-13) 66. Fisher-exact p-value of motif MA0028.1 ELK1 top 3422 seqs: 1.06e-15 (Corrected p-value: 5.642e-13) 67. Fisher-exact p-value of motif MA0050.1 IRF1 top 3422 seqs: 1.375e-14 (Corrected p-value: 7.316e-12) 68. Fisher-exact p-value of motif UP00039_1 Foxj3_primary top 3422 seqs: 5.87e-14 (Corrected p-value: 3.123e-11) 69. Fisher-exact p-value of motif MA0144.1 Stat3 top 3422 seqs: 6.302e-14 (Corrected p-value: 3.353e-11) 70. Fisher-exact p-value of motif MA0081.1 SPIB top 3422 seqs: 6.473e-14 (Corrected p-value: 3.444e-11) 71. Fisher-exact p-value of motif MA0041.1 Foxd3 top 3422 seqs: 7.093e-14 (Corrected p-value: 3.773e-11) 72. Fisher-exact p-value of motif MA0080.1 SPI1 top 3422 seqs: 1.335e-13 (Corrected p-value: 7.103e-11) 73. Fisher-exact p-value of motif MA0098.1 ETS1 top 3422 seqs: 1.335e-13 (Corrected p-value: 7.103e-11) 74. Fisher-exact p-value of motif UP00065_1 Zfp161_primary top 3422 seqs: 2.302e-13 (Corrected p-value: 1.225e-10) 75. Fisher-exact p-value of motif MA0088.1 znf143 top 3422 seqs: 1.154e-12 (Corrected p-value: 6.14e-10) 76. Fisher-exact p-value of motif UP00101_2 Sox12_secondary top 3422 seqs: 3.719e-12 (Corrected p-value: 1.979e-09) 77. Fisher-exact p-value of motif MA0025.1 NFIL3 top 3422 seqs: 4.103e-12 (Corrected p-value: 2.183e-09) 78. Fisher-exact p-value of motif UP00244_1 Tlx2_3498.2 top 3422 seqs: 7.262e-12 (Corrected p-value: 3.863e-09) 79. Fisher-exact p-value of motif MA0042.1 FOXI1 top 3422 seqs: 8.87e-12 (Corrected p-value: 4.719e-09) 80. Fisher-exact p-value of motif UP00041_1 Foxj1_primary top 3422 seqs: 1.03e-11 (Corrected p-value: 5.482e-09) 81. Fisher-exact p-value of motif MA0119.1 TLX1::NFIC top 3422 seqs: 4.921e-11 (Corrected p-value: 2.618e-08) 82. Fisher-exact p-value of motif MA0055.1 Myf top 3422 seqs: 5.391e-11 (Corrected p-value: 2.868e-08) 83. Fisher-exact p-value of motif MA0080.2 SPI1 top 3422 seqs: 1.594e-10 (Corrected p-value: 8.482e-08) 84. Fisher-exact p-value of motif UP00035_1 Hic1_primary top 3422 seqs: 1.701e-10 (Corrected p-value: 9.048e-08) 85. Fisher-exact p-value of motif UP00042_2 Gm397_secondary top 3422 seqs: 2.187e-10 (Corrected p-value: 1.163e-07) 86. Fisher-exact p-value of motif UP00092_2 Myb_secondary top 3422 seqs: 2.5e-10 (Corrected p-value: 1.33e-07) 87. Fisher-exact p-value of motif UP00049_2 Sp100_secondary top 3422 seqs: 3.112e-10 (Corrected p-value: 1.656e-07) 88. Fisher-exact p-value of motif UP00087_1 Tcfap2c_primary top 3422 seqs: 5.856e-10 (Corrected p-value: 3.115e-07) 89. Fisher-exact p-value of motif UP00002_2 Sp4_secondary top 3422 seqs: 7.452e-10 (Corrected p-value: 3.964e-07) 90. Fisher-exact p-value of motif UP00255_1 Dbx1_3486.1 top 3422 seqs: 9.747e-10 (Corrected p-value: 5.185e-07) 91. Fisher-exact p-value of motif UP00179_1 Pou2f3_3986.2 top 3422 seqs: 1.37e-09 (Corrected p-value: 7.288e-07) 92. Fisher-exact p-value of motif UP00191_1 Pou2f2_3748.1 top 3422 seqs: 1.56e-09 (Corrected p-value: 8.297e-07) 93. Fisher-exact p-value of motif MA0148.1 FOXA1 top 3422 seqs: 1.651e-09 (Corrected p-value: 8.782e-07) 94. Fisher-exact p-value of motif UP00057_1 Zic2_primary top 3422 seqs: 1.668e-09 (Corrected p-value: 8.875e-07) 95. Fisher-exact p-value of motif MA0030.1 FOXF2 top 3422 seqs: 1.785e-09 (Corrected p-value: 9.498e-07) 96. Fisher-exact p-value of motif MA0079.1 SP1 top 3422 seqs: 1.929e-09 (Corrected p-value: 1.026e-06) 97. Fisher-exact p-value of motif UP00047_2 Zbtb7b_secondary top 3422 seqs: 2.008e-09 (Corrected p-value: 1.068e-06) 98. Fisher-exact p-value of motif UP00007_1 Egr1_primary top 3422 seqs: 2.277e-09 (Corrected p-value: 1.211e-06) 99. Fisher-exact p-value of motif UP00005_1 Tcfap2a_primary top 3422 seqs: 2.713e-09 (Corrected p-value: 1.443e-06) 100. Fisher-exact p-value of motif MA0154.1 EBF1 top 3422 seqs: 4.041e-09 (Corrected p-value: 2.15e-06) 101. Fisher-exact p-value of motif UP00010_1 Tcfap2b_primary top 3422 seqs: 4.344e-09 (Corrected p-value: 2.311e-06) 102. Fisher-exact p-value of motif MA0061.1 NF-kappaB top 3422 seqs: 4.365e-09 (Corrected p-value: 2.322e-06) 103. Fisher-exact p-value of motif MA0130.1 ZNF354C top 3422 seqs: 4.747e-09 (Corrected p-value: 2.525e-06) 104. Fisher-exact p-value of motif MA0068.1 Pax4 top 3422 seqs: 1.802e-08 (Corrected p-value: 9.589e-06) 105. Fisher-exact p-value of motif MA0002.2 RUNX1 top 3422 seqs: 3.757e-08 (Corrected p-value: 1.999e-05) 106. Fisher-exact p-value of motif MA0060.1 NFYA top 3422 seqs: 3.959e-08 (Corrected p-value: 2.106e-05) 107. Fisher-exact p-value of motif UP00081_2 Mybl1_secondary top 3422 seqs: 4.103e-08 (Corrected p-value: 2.183e-05) 108. Fisher-exact p-value of motif MA0043.1 HLF top 3422 seqs: 4.918e-08 (Corrected p-value: 2.616e-05) 109. Fisher-exact p-value of motif UP00006_1 Zic3_primary top 3422 seqs: 5.282e-08 (Corrected p-value: 2.81e-05) 110. Fisher-exact p-value of motif UP00188_1 Lmx1a_2238.2 top 3422 seqs: 6.372e-08 (Corrected p-value: 3.39e-05) 111. Fisher-exact p-value of motif UP00102_1 Zic1_primary top 3422 seqs: 7.925e-08 (Corrected p-value: 4.216e-05) 112. Fisher-exact p-value of motif UP00099_1 Ascl2_primary top 3422 seqs: 8.313e-08 (Corrected p-value: 4.422e-05) 113. Fisher-exact p-value of motif UP00086_1 Irf3_primary top 3422 seqs: 1.757e-07 (Corrected p-value: 9.345e-05) 114. Fisher-exact p-value of motif UP00073_2 Foxa2_secondary top 3422 seqs: 2.83e-07 (Corrected p-value: 0.0001505) 115. Fisher-exact p-value of motif UP00024_2 Glis2_secondary top 3422 seqs: 3.8e-07 (Corrected p-value: 0.0002021) 116. Fisher-exact p-value of motif MA0157.1 FOXO3 top 3422 seqs: 4.427e-07 (Corrected p-value: 0.0002355) 117. Fisher-exact p-value of motif UP00097_1 Mtf1_primary top 3422 seqs: 7.159e-07 (Corrected p-value: 0.0003808) 118. Fisher-exact p-value of motif MA0047.2 Foxa2 top 3422 seqs: 7.813e-07 (Corrected p-value: 0.0004156) 119. Fisher-exact p-value of motif MA0051.1 IRF2 top 3422 seqs: 7.893e-07 (Corrected p-value: 0.0004198) 120. Fisher-exact p-value of motif UP00076_2 Rfxdc2_secondary top 3422 seqs: 7.987e-07 (Corrected p-value: 0.0004248) 121. Fisher-exact p-value of motif UP00070_2 Gcm1_secondary top 3422 seqs: 8.839e-07 (Corrected p-value: 0.0004701) 122. Fisher-exact p-value of motif UP00231_1 Nkx2-2_2823.1 top 3422 seqs: 9.972e-07 (Corrected p-value: 0.0005304) 123. Fisher-exact p-value of motif UP00169_1 Lmx1b_3433.2 top 3422 seqs: 1.323e-06 (Corrected p-value: 0.0007036) 124. Fisher-exact p-value of motif UP00168_1 Hoxd8_2644.1 top 3422 seqs: 1.462e-06 (Corrected p-value: 0.0007773)