position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/02/26/peak-motifs.2026-02-26.211242_2026-02-26.211242_nt22t5/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort -return html,chi,sig,distrib,graphs,rank,index -max_graphs 20 -1str -ovlp -seqtype dna -l 1 -ci 20 -img_format png -title SMAD2_helasherg_SEACR_stringent -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/02/26/peak-motifs.2026-02-26.211242_2026-02-26.211242_nt22t5/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. Sequence file $RSAT/public_html/tmp/www-data/2026/02/26/peak-motifs.2026-02-26.211242_2026-02-26.211242_nt22t5/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/02/26/peak-motifs.2026-02-26.211242_2026-02-26.211242_nt22t5/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab Oligo length 1 Occurrences counted on a single strands Conditions of applicability checked. Background model estimation: homogeneous repartition Sequence statistics: Nb of sequences 342 Sum of sequence lengths 341706 Min sequence length 0 Max sequence length 1000 Average sequence length 999 Possible positions 341706 Oligonucleotide statistics: Total occurrences 285438 Position interval parameters: Position interval 20 Number of windows 50 Total positions 341706 Degrees of freedom 49 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -25 [-499,-480] -489.5 341 6820 2 -24 [-479,-460] -469.5 341 6820 3 -23 [-459,-440] -449.5 341 6820 4 -22 [-439,-420] -429.5 341 6820 5 -21 [-419,-400] -409.5 341 6820 6 -20 [-399,-380] -389.5 341 6820 7 -19 [-379,-360] -369.5 341 6820 8 -18 [-359,-340] -349.5 342 6834 9 -17 [-339,-320] -329.5 342 6840 10 -16 [-319,-300] -309.5 342 6840 11 -15 [-299,-280] -289.5 342 6840 12 -14 [-279,-260] -269.5 342 6840 13 -13 [-259,-240] -249.5 342 6840 14 -12 [-239,-220] -229.5 342 6840 15 -11 [-219,-200] -209.5 342 6840 16 -10 [-199,-180] -189.5 342 6840 17 -9 [-179,-160] -169.5 342 6840 18 -8 [-159,-140] -149.5 342 6840 19 -7 [-139,-120] -129.5 342 6840 20 -6 [-119,-100] -109.5 342 6840 21 -5 [-99,-80] -89.5 342 6840 22 -4 [-79,-60] -69.5 342 6840 23 -3 [-59,-40] -49.5 342 6840 24 -2 [-39,-20] -29.5 342 6840 25 -1 [-19,0] -9.5 342 6840 26 0 [1,20] 10.5 342 6840 27 1 [21,40] 30.5 342 6840 28 2 [41,60] 50.5 342 6840 29 3 [61,80] 70.5 342 6840 30 4 [81,100] 90.5 342 6840 31 5 [101,120] 110.5 342 6840 32 6 [121,140] 130.5 342 6840 33 7 [141,160] 150.5 342 6840 34 8 [161,180] 170.5 342 6840 35 9 [181,200] 190.5 342 6840 36 10 [201,220] 210.5 342 6840 37 11 [221,240] 230.5 342 6840 38 12 [241,260] 250.5 342 6840 39 13 [261,280] 270.5 342 6840 40 14 [281,300] 290.5 342 6840 41 15 [301,320] 310.5 342 6840 42 16 [321,340] 330.5 342 6840 43 17 [341,360] 350.5 342 6832 44 18 [361,380] 370.5 341 6820 45 19 [381,400] 390.5 341 6820 46 20 [401,420] 410.5 341 6820 47 21 [421,440] 430.5 341 6820 48 22 [441,460] 450.5 341 6820 49 23 [461,480] 470.5 341 6820 50 24 [481,500] 490.5 341 6820 Column headers 1 seq pattern sequence 2 id pattern identifier 3 occ pattern occurrences 4 chi2 observed chi-square 5 df degrees of freedom 6 Pval P-value (probability for one word to be a false positive) 7 Eval E-value; expected number of false positives (Eval = Pval * nb_tests) 8 sig Significance (sig = -log10(Eval)) 9 rank rank of the pattern according to sorting criterion 10 -489.5 occurrences in window 1 [-499,-480] 11 -469.5 occurrences in window 2 [-479,-460] 12 -449.5 occurrences in window 3 [-459,-440] 13 -429.5 occurrences in window 4 [-439,-420] 14 -409.5 occurrences in window 5 [-419,-400] 15 -389.5 occurrences in window 6 [-399,-380] 16 -369.5 occurrences in window 7 [-379,-360] 17 -349.5 occurrences in window 8 [-359,-340] 18 -329.5 occurrences in window 9 [-339,-320] 19 -309.5 occurrences in window 10 [-319,-300] 20 -289.5 occurrences in window 11 [-299,-280] 21 -269.5 occurrences in window 12 [-279,-260] 22 -249.5 occurrences in window 13 [-259,-240] 23 -229.5 occurrences in window 14 [-239,-220] 24 -209.5 occurrences in window 15 [-219,-200] 25 -189.5 occurrences in window 16 [-199,-180] 26 -169.5 occurrences in window 17 [-179,-160] 27 -149.5 occurrences in window 18 [-159,-140] 28 -129.5 occurrences in window 19 [-139,-120] 29 -109.5 occurrences in window 20 [-119,-100] 30 -89.5 occurrences in window 21 [-99,-80] 31 -69.5 occurrences in window 22 [-79,-60] 32 -49.5 occurrences in window 23 [-59,-40] 33 -29.5 occurrences in window 24 [-39,-20] 34 -9.5 occurrences in window 25 [-19,0] 35 10.5 occurrences in window 26 [1,20] 36 30.5 occurrences in window 27 [21,40] 37 50.5 occurrences in window 28 [41,60] 38 70.5 occurrences in window 29 [61,80] 39 90.5 occurrences in window 30 [81,100] 40 110.5 occurrences in window 31 [101,120] 41 130.5 occurrences in window 32 [121,140] 42 150.5 occurrences in window 33 [141,160] 43 170.5 occurrences in window 34 [161,180] 44 190.5 occurrences in window 35 [181,200] 45 210.5 occurrences in window 36 [201,220] 46 230.5 occurrences in window 37 [221,240] 47 250.5 occurrences in window 38 [241,260] 48 270.5 occurrences in window 39 [261,280] 49 290.5 occurrences in window 40 [281,300] 50 310.5 occurrences in window 41 [301,320] 51 330.5 occurrences in window 42 [321,340] 52 350.5 occurrences in window 43 [341,360] 53 370.5 occurrences in window 44 [361,380] 54 390.5 occurrences in window 45 [381,400] 55 410.5 occurrences in window 46 [401,420] 56 430.5 occurrences in window 47 [421,440] 57 450.5 occurrences in window 48 [441,460] 58 470.5 occurrences in window 49 [461,480] 59 490.5 occurrences in window 50 [481,500]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -489.5 | -469.5 | -449.5 | -429.5 | -409.5 | -389.5 | -369.5 | -349.5 | -329.5 | -309.5 | -289.5 | -269.5 | -249.5 | -229.5 | -209.5 | -189.5 | -169.5 | -149.5 | -129.5 | -109.5 | -89.5 | -69.5 | -49.5 | -29.5 | -9.5 | 10.5 | 30.5 | 50.5 | 70.5 | 90.5 | 110.5 | 130.5 | 150.5 | 170.5 | 190.5 | 210.5 | 230.5 | 250.5 | 270.5 | 290.5 | 310.5 | 330.5 | 350.5 | 370.5 | 390.5 | 410.5 | 430.5 | 450.5 | 470.5 | 490.5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| g | g | 57510 | 119.0 | 49 | 9.3e-08 | 3.7e-07 | 6.43 | 1 | 1244 | 1264 | 1215 | 1225 | 1190 | 1195 | 1243 | 1228 | 1228 | 1182 | 1142 | 1208 | 1179 | 1141 | 1095 | 1124 | 1066 | 1156 | 1113 | 1091 | 1135 | 1136 | 1073 | 1100 | 1079 | 1125 | 1094 | 1128 | 1106 | 1127 | 1088 | 1169 | 1122 | 1152 | 1148 | 1136 | 1111 | 1198 | 1132 | 1203 | 1066 | 1110 | 1108 | 1143 | 1122 | 1148 | 1118 | 1242 | 1179 | 1183 |
| c | c | 56549 | 77.0 | 49 | 6.5e-03 | 0.026 | 1.59 | 2 | 1172 | 1126 | 1159 | 1149 | 1195 | 1205 | 1139 | 1107 | 1105 | 1157 | 1120 | 1083 | 1138 | 1101 | 1164 | 1198 | 1160 | 1129 | 1108 | 1138 | 1058 | 1134 | 1173 | 1093 | 1031 | 1118 | 1100 | 1095 | 1114 | 1083 | 1124 | 1144 | 1173 | 1065 | 1148 | 1125 | 1176 | 1095 | 1104 | 1075 | 1155 | 1105 | 1081 | 1137 | 1165 | 1166 | 1218 | 1093 | 1134 | 1214 |
| a | a | 86261 | 68.0 | 49 | 3.7e-02 | 0.15 | 0.83 | 3 | 1838 | 1771 | 1748 | 1721 | 1738 | 1748 | 1770 | 1774 | 1727 | 1710 | 1790 | 1685 | 1764 | 1740 | 1770 | 1745 | 1778 | 1675 | 1705 | 1699 | 1699 | 1677 | 1664 | 1701 | 1778 | 1684 | 1651 | 1709 | 1724 | 1642 | 1690 | 1718 | 1732 | 1706 | 1703 | 1645 | 1689 | 1715 | 1683 | 1678 | 1773 | 1707 | 1744 | 1731 | 1697 | 1741 | 1691 | 1707 | 1801 | 1885 |
| t | t | 85118 | 64.0 | 49 | 7.4e-02 | 0.29 | 0.53 | 4 | 1724 | 1706 | 1695 | 1729 | 1699 | 1732 | 1722 | 1726 | 1738 | 1755 | 1756 | 1750 | 1694 | 1791 | 1747 | 1743 | 1742 | 1698 | 1716 | 1623 | 1621 | 1632 | 1684 | 1702 | 1736 | 1724 | 1783 | 1626 | 1605 | 1660 | 1682 | 1674 | 1614 | 1693 | 1625 | 1724 | 1714 | 1657 | 1696 | 1643 | 1681 | 1730 | 1732 | 1694 | 1739 | 1672 | 1654 | 1708 | 1730 | 1797 |
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