position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/03/18/peak-motifs.2026-03-18.173738_2026-03-18.173738_ZkH2jH/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 2 -ci 20 -img_format png -title H1LNC -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/03/18/peak-motifs.2026-03-18.173738_2026-03-18.173738_ZkH2jH/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. Sequence file $RSAT/public_html/tmp/www-data/2026/03/18/peak-motifs.2026-03-18.173738_2026-03-18.173738_ZkH2jH/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/03/18/peak-motifs.2026-03-18.173738_2026-03-18.173738_ZkH2jH/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab Oligo length 2 Occurrences counted on a single strands Conditions of applicability checked. Background model estimation: homogeneous repartition Sequence statistics: Nb of sequences 58 Sum of sequence lengths 6001 Min sequence length 0 Max sequence length 727 Average sequence length 103 Possible positions 5943 Sequences: # length ID 1 56 H101C11 2 138 H102C11 3 64 H103C11 4 82 H104C11 5 46 H105C11 6 103 H106C11 7 112 H107C11 8 56 H108C11 9 100 h109C11 10 62 H1010C11 11 64 H1011C11 12 56 H1012C11 13 50 H1013C11 14 81 H1014C11 15 39 H1015C11 16 72 H1016C11 17 57 H1017C11 18 65 H1018C11 19 135 H1019C11 20 176 H1020C11 21 62 H1021C11 22 70 H1022C11 23 482 H1023C11 24 727 H1024C11 25 411 H1025C11 26 50 H1026C11 27 86 H1027C11 28 69 H1028C11 29 56 H1029C11 30 110 H1030C8 31 146 H1031C8 32 102 H1032C8 33 123 H1033C8 34 86 H1034C2 35 14 H1035C2 36 86 H1036C2 37 63 H1037C2 38 71 H1038C2 39 59 H1039C2 40 70 H1040C2 41 159 H1041C2 42 77 H1042C2 43 60 H1043C1 44 59 H1044C1 45 64 H1045C1 46 68 H1046C1 47 88 H1047C19 48 48 H1048C19 49 82 H1049C19 50 86 H1050C2 51 77 H1051C2 52 94 H1052CX 53 54 H1053CX 54 68 H1054CX 55 138 H1055CX 56 40 H1056C9 57 94 H1057C9 58 88 H1058C9 Oligonucleotide statistics: Total occurrences 5858 Position interval parameters: Position interval 20 Number of windows 38 Total positions 5943 Degrees of freedom 37 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -19 [-379,-360] -369.5 1 4 2 -18 [-359,-340] -349.5 1 20 3 -17 [-339,-320] -329.5 1 20 4 -16 [-319,-300] -309.5 1 20 5 -15 [-299,-280] -289.5 1 20 6 -14 [-279,-260] -269.5 1 20 7 -13 [-259,-240] -249.5 2 22 8 -12 [-239,-220] -229.5 2 40 9 -11 [-219,-200] -209.5 3 46 10 -10 [-199,-180] -189.5 3 60 11 -9 [-179,-160] -169.5 3 60 12 -8 [-159,-140] -149.5 3 60 13 -7 [-139,-120] -129.5 3 60 14 -6 [-119,-100] -109.5 3 60 15 -5 [-99,-80] -89.5 4 68 16 -4 [-79,-60] -69.5 10 144 17 -3 [-59,-40] -49.5 26 311 18 -2 [-39,-20] -29.5 55 849 19 -1 [-19,0] -9.5 58 1148 20 0 [1,20] 10.5 58 1142 21 1 [21,40] 30.5 55 792 22 2 [41,60] 50.5 23 276 23 3 [61,80] 70.5 9 129 24 4 [81,100] 90.5 4 67 25 5 [101,120] 110.5 3 60 26 6 [121,140] 130.5 3 60 27 7 [141,160] 150.5 3 60 28 8 [161,180] 170.5 3 60 29 9 [181,200] 190.5 3 60 30 10 [201,220] 210.5 3 44 31 11 [221,240] 230.5 2 39 32 12 [241,260] 250.5 1 20 33 13 [261,280] 270.5 1 20 34 14 [281,300] 290.5 1 20 35 15 [301,320] 310.5 1 20 36 16 [321,340] 330.5 1 20 37 17 [341,360] 350.5 1 20 38 18 [361,380] 370.5 1 2 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 -369.5 occurrences in window 1 [-379,-360] 11 -349.5 occurrences in window 2 [-359,-340] 12 -329.5 occurrences in window 3 [-339,-320] 13 -309.5 occurrences in window 4 [-319,-300] 14 -289.5 occurrences in window 5 [-299,-280] 15 -269.5 occurrences in window 6 [-279,-260] 16 -249.5 occurrences in window 7 [-259,-240] 17 -229.5 occurrences in window 8 [-239,-220] 18 -209.5 occurrences in window 9 [-219,-200] 19 -189.5 occurrences in window 10 [-199,-180] 20 -169.5 occurrences in window 11 [-179,-160] 21 -149.5 occurrences in window 12 [-159,-140] 22 -129.5 occurrences in window 13 [-139,-120] 23 -109.5 occurrences in window 14 [-119,-100] 24 -89.5 occurrences in window 15 [-99,-80] 25 -69.5 occurrences in window 16 [-79,-60] 26 -49.5 occurrences in window 17 [-59,-40] 27 -29.5 occurrences in window 18 [-39,-20] 28 -9.5 occurrences in window 19 [-19,0] 29 10.5 occurrences in window 20 [1,20] 30 30.5 occurrences in window 21 [21,40] 31 50.5 occurrences in window 22 [41,60] 32 70.5 occurrences in window 23 [61,80] 33 90.5 occurrences in window 24 [81,100] 34 110.5 occurrences in window 25 [101,120] 35 130.5 occurrences in window 26 [121,140] 36 150.5 occurrences in window 27 [141,160] 37 170.5 occurrences in window 28 [161,180] 38 190.5 occurrences in window 29 [181,200] 39 210.5 occurrences in window 30 [201,220] 40 230.5 occurrences in window 31 [221,240] 41 250.5 occurrences in window 32 [241,260] 42 270.5 occurrences in window 33 [261,280] 43 290.5 occurrences in window 34 [281,300] 44 310.5 occurrences in window 35 [301,320] 45 330.5 occurrences in window 36 [321,340] 46 350.5 occurrences in window 37 [341,360] 47 370.5 occurrences in window 38 [361,380]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| aa | aa | 559 | 88.4 | 37 | 4.3e-06 | 6.9e-05 | 4.16 | 1 | 0 | 2 | 2 | 0 | 1 | 2 | 1 | 8 | 9 | 11 | 13 | 10 | 7 | 10 | 14 | 20 | 22 | 62 | 94 | 78 | 64 | 35 | 20 | 11 | 10 | 15 | 4 | 11 | 3 | 3 | 3 | 1 | 1 | 3 | 0 | 5 | 4 | 0 |
| gg | gg | 517 | 26.8 | 37 | 8.9e-01 | 14 | -1.15 | 2 | 0 | 0 | 1 | 1 | 1 | 1 | 2 | 1 | 5 | 2 | 3 | 5 | 3 | 2 | 4 | 14 | 28 | 88 | 118 | 109 | 53 | 24 | 10 | 2 | 5 | 1 | 9 | 7 | 6 | 4 | 1 | 1 | 2 | 1 | 2 | 1 | 0 | 0 |
| tt | tt | 367 | 21.6 | 37 | 9.8e-01 | 16 | -1.20 | 3 | 2 | 7 | 1 | 1 | 1 | 0 | 1 | 2 | 1 | 3 | 2 | 4 | 4 | 3 | 7 | 14 | 15 | 58 | 64 | 57 | 27 | 13 | 3 | 10 | 5 | 8 | 4 | 4 | 10 | 9 | 5 | 4 | 0 | 1 | 12 | 2 | 3 | 0 |
| ac | ac | 266 | 20.2 | 37 | 9.9e-01 | 16 | -1.20 | 4 | 1 | 0 | 1 | 2 | 2 | 1 | 2 | 2 | 1 | 2 | 2 | 0 | 3 | 4 | 0 | 2 | 16 | 35 | 44 | 47 | 58 | 12 | 8 | 6 | 3 | 1 | 3 | 1 | 1 | 1 | 1 | 0 | 1 | 0 | 1 | 2 | 0 | 0 |
| ag | ag | 629 | 17.5 | 37 | 1.0e+00 | 16 | -1.20 | 5 | 0 | 2 | 2 | 2 | 3 | 4 | 3 | 8 | 7 | 7 | 9 | 6 | 10 | 4 | 9 | 13 | 38 | 87 | 129 | 120 | 70 | 32 | 19 | 2 | 5 | 3 | 6 | 4 | 6 | 5 | 4 | 2 | 2 | 4 | 0 | 1 | 1 | 0 |
| tg | tg | 464 | 13.4 | 37 | 1.0e+00 | 16 | -1.20 | 6 | 0 | 1 | 1 | 3 | 1 | 1 | 0 | 3 | 2 | 5 | 2 | 6 | 1 | 7 | 2 | 7 | 21 | 72 | 92 | 103 | 71 | 14 | 5 | 5 | 4 | 1 | 7 | 8 | 3 | 3 | 1 | 3 | 2 | 1 | 2 | 1 | 2 | 1 |
| ta | ta | 261 | 11.9 | 37 | 1.0e+00 | 16 | -1.20 | 7 | 0 | 3 | 2 | 0 | 1 | 1 | 0 | 2 | 1 | 5 | 4 | 3 | 5 | 3 | 8 | 9 | 13 | 29 | 35 | 38 | 34 | 14 | 8 | 7 | 6 | 7 | 3 | 6 | 1 | 2 | 7 | 0 | 0 | 2 | 1 | 0 | 1 | 0 |
| ct | ct | 321 | 9.0 | 37 | 1.0e+00 | 16 | -1.20 | 8 | 1 | 0 | 2 | 1 | 1 | 1 | 0 | 2 | 3 | 1 | 0 | 1 | 4 | 4 | 1 | 5 | 16 | 55 | 55 | 74 | 44 | 18 | 3 | 3 | 5 | 1 | 4 | 3 | 2 | 3 | 3 | 3 | 2 | 0 | 0 | 0 | 0 | 0 |
| gc | gc | 350 | 8.9 | 37 | 1.0e+00 | 16 | -1.20 | 9 | 0 | 0 | 1 | 2 | 0 | 2 | 1 | 2 | 6 | 2 | 1 | 2 | 2 | 3 | 4 | 11 | 23 | 47 | 81 | 79 | 45 | 12 | 5 | 1 | 1 | 1 | 1 | 4 | 3 | 1 | 2 | 1 | 2 | 1 | 0 | 0 | 1 | 0 |
| ga | ga | 547 | 8.7 | 37 | 1.0e+00 | 16 | -1.20 | 10 | 0 | 2 | 2 | 2 | 2 | 3 | 3 | 6 | 4 | 6 | 8 | 7 | 9 | 7 | 5 | 11 | 26 | 77 | 112 | 107 | 66 | 24 | 13 | 4 | 6 | 4 | 6 | 3 | 5 | 4 | 1 | 2 | 2 | 2 | 0 | 3 | 2 | 1 |
| cc | cc | 290 | 7.9 | 37 | 1.0e+00 | 16 | -1.20 | 11 | 0 | 0 | 1 | 2 | 0 | 0 | 2 | 0 | 1 | 0 | 2 | 2 | 2 | 0 | 2 | 9 | 21 | 38 | 59 | 64 | 45 | 19 | 7 | 2 | 2 | 1 | 0 | 0 | 4 | 1 | 0 | 0 | 2 | 0 | 0 | 1 | 1 | 0 |
| at | at | 319 | 6.0 | 37 | 1.0e+00 | 16 | -1.20 | 12 | 0 | 2 | 2 | 1 | 1 | 1 | 1 | 1 | 0 | 4 | 6 | 8 | 2 | 5 | 7 | 11 | 13 | 41 | 59 | 53 | 44 | 10 | 5 | 7 | 4 | 9 | 3 | 4 | 2 | 1 | 5 | 0 | 0 | 2 | 0 | 1 | 4 | 0 |
| ca | ca | 408 | 5.4 | 37 | 1.0e+00 | 16 | -1.20 | 13 | 0 | 0 | 1 | 2 | 3 | 2 | 5 | 1 | 4 | 4 | 4 | 2 | 2 | 4 | 2 | 10 | 27 | 56 | 85 | 79 | 66 | 22 | 7 | 3 | 1 | 3 | 1 | 0 | 3 | 1 | 2 | 0 | 2 | 1 | 0 | 2 | 1 | 0 |
| tc | tc | 198 | 5.0 | 37 | 1.0e+00 | 16 | -1.20 | 14 | 0 | 0 | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 2 | 1 | 3 | 1 | 1 | 3 | 9 | 36 | 34 | 43 | 26 | 13 | 3 | 1 | 1 | 3 | 2 | 0 | 3 | 2 | 2 | 2 | 1 | 0 | 0 | 0 | 0 | 0 |
| gt | gt | 279 | 4.9 | 37 | 1.0e+00 | 16 | -1.20 | 15 | 0 | 1 | 0 | 1 | 2 | 0 | 0 | 2 | 0 | 6 | 2 | 2 | 2 | 2 | 2 | 3 | 14 | 38 | 52 | 55 | 44 | 10 | 8 | 3 | 2 | 1 | 6 | 5 | 4 | 4 | 2 | 1 | 1 | 2 | 2 | 0 | 0 | 0 |
| cg | cg | 83 | 1.8 | 37 | 1.0e+00 | 16 | -1.20 | 16 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0 | 2 | 5 | 10 | 15 | 16 | 15 | 3 | 5 | 0 | 0 | 1 | 1 | 0 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
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