position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.094218_2025-06-19.094218_4xfDGW/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 m13 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.094218_2025-06-19.094218_4xfDGW/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/2025/06/19/peak-motifs.2025-06-19.094218_2025-06-19.094218_4xfDGW/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.094218_2025-06-19.094218_4xfDGW/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 84 Sum of sequence lengths 22568 Min sequence length 0 Max sequence length 1000 Average sequence length 268 Possible positions 22568 Sequences: # length ID 1 55 CHLRE_06g284700v5 2 110 CHLRE_08g360350v5 3 58 CHLRE_13g570350v5 4 1000 CHLRE_02g116750v5 5 960 CHLRE_06g250250v5 6 446 CHLRE_07g324200v5 7 84 CHLRE_08g382300v5 8 190 CHLRE_13g579550v5 9 108 CHLRE_06g264550v5 10 120 CHLRE_03g144667v5 11 48 CHLRE_03g183200v5 12 48 CHLRE_12g510400v5 13 110 CHLRE_01g000850v5 14 196 CHLRE_17g723550v5 15 100 CHLRE_12g532100v5 16 48 CHLRE_13g588100v5 17 153 CHLRE_03g205050v5 18 150 CHLRE_07g325762v5 19 206 CHLRE_06g259150v5 20 110 CHLRE_05g242300v5 21 1000 CHLRE_10g434600v5 22 100 CHLRE_17g728650v5 23 132 CHLRE_14g625550v5 24 110 CHLRE_03g146127v5 25 442 CHLRE_14g625625v5 26 49 CHLRE_09g399663v5 27 130 CHLRE_06g275050v5 28 130 CHLRE_13g567100v5 29 100 CHLRE_12g530650v5 30 241 CHLRE_12g550400v5 31 1000 CHLRE_16g665650v5 32 229 CHLRE_13g571200v5 33 120 CHLRE_10g423500v5 34 234 CHLRE_13g575800v5 35 48 CHLRE_13g603750v5 36 674 CHLRE_07g344950v5 37 120 CHLRE_10g430150v5 38 181 CHLRE_12g501150v5 39 140 CHLRE_07g322500v5 40 171 CHLRE_10g461650v5 41 209 CHLRE_10g456300v5 42 110 CHLRE_10g435250v5 43 100 CHLRE_06g251450v5 44 494 CHLRE_11g467668v5 45 730 CHLRE_12g542950v5 46 164 CHLRE_14g623700v5 47 860 CHLRE_13g563150v5 48 130 CHLRE_02g081600v5 49 96 CHLRE_06g304650v5 50 92 CHLRE_09g416000v5 51 1000 CHLRE_05g237450v5 52 561 CHLRE_16g686750v5 53 154 CHLRE_03g199423v5 54 420 CHLRE_09g409350v5 55 98 CHLRE_06g290800v5 56 1000 CHLRE_04g211800v5 57 1000 CHLRE_10g432800v5 58 103 CHLRE_02g111000v5 59 364 CHLRE_06g288500v5 60 180 CHLRE_03g144164v5 61 130 CHLRE_10g436600v5 62 176 CHLRE_16g657850v5 63 48 CHLRE_12g513600v5 64 98 CHLRE_16g664700v5 65 589 CHLRE_12g501200v5 66 140 CHLRE_13g572050v5 67 180 CHLRE_12g499500v5 68 120 CHLRE_09g403182v5 69 140 CHLRE_02g095070v5 70 890 CHLRE_03g164950v5 71 120 CHLRE_07g330100v5 72 98 CHLRE_01g001750v5 73 110 CHLRE_03g175200v5 74 1000 CHLRE_01g066552v5 75 157 CHLRE_06g269752v5 76 100 CHLRE_06g279150v5 77 100 CHLRE_06g273300v5 78 64 CHLRE_07g350500v5 79 150 CHLRE_12g522350v5 80 140 CHLRE_12g547700v5 81 308 CHLRE_02g142350v5 82 96 CHLRE_05g230600v5 83 51 CHLRE_03g199311v5 84 47 CHLRE_06g281050v5 Oligonucleotide statistics: Total occurrences 21948 Position interval parameters: Position interval 20 Number of windows 50 Total positions 22568 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 7 140 2 -24 [-479,-460] -469.5 8 160 3 -23 [-459,-440] -449.5 9 166 4 -22 [-439,-420] -429.5 10 190 5 -21 [-419,-400] -409.5 10 200 6 -20 [-399,-380] -389.5 10 200 7 -19 [-379,-360] -369.5 11 206 8 -18 [-359,-340] -349.5 11 220 9 -17 [-339,-320] -329.5 12 238 10 -16 [-319,-300] -309.5 12 240 11 -15 [-299,-280] -289.5 14 256 12 -14 [-279,-260] -269.5 14 280 13 -13 [-259,-240] -249.5 15 288 14 -12 [-239,-220] -229.5 17 306 15 -11 [-219,-200] -209.5 18 350 16 -10 [-199,-180] -189.5 19 362 17 -9 [-179,-160] -169.5 19 380 18 -8 [-159,-140] -149.5 20 394 19 -7 [-139,-120] -129.5 21 401 20 -6 [-119,-100] -109.5 25 462 21 -5 [-99,-80] -89.5 33 581 22 -4 [-79,-60] -69.5 47 816 23 -3 [-59,-40] -49.5 73 1276 24 -2 [-39,-20] -29.5 84 1525 25 -1 [-19,0] -9.5 84 1680 26 0 [1,20] 10.5 84 1680 27 1 [21,40] 30.5 84 1519 28 2 [41,60] 50.5 73 1257 29 3 [61,80] 70.5 47 800 30 4 [81,100] 90.5 33 577 31 5 [101,120] 110.5 25 456 32 6 [121,140] 130.5 20 400 33 7 [141,160] 150.5 20 394 34 8 [161,180] 170.5 19 380 35 9 [181,200] 190.5 19 362 36 10 [201,220] 210.5 18 350 37 11 [221,240] 230.5 16 302 38 12 [241,260] 250.5 15 286 39 13 [261,280] 270.5 14 280 40 14 [281,300] 290.5 13 254 41 15 [301,320] 310.5 12 240 42 16 [321,340] 330.5 12 236 43 17 [341,360] 350.5 11 220 44 18 [361,380] 370.5 11 204 45 19 [381,400] 390.5 10 200 46 20 [401,420] 410.5 10 200 47 21 [421,440] 430.5 10 190 48 22 [441,460] 450.5 9 164 49 23 [461,480] 470.5 8 160 50 24 [481,500] 490.5 7 140 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| t | t | 4435 | 114.2 | 49 | 4.1e-07 | 1.6e-06 | 5.79 | 1 | 19 | 25 | 26 | 34 | 31 | 26 | 29 | 41 | 54 | 47 | 46 | 50 | 58 | 68 | 78 | 72 | 51 | 62 | 60 | 83 | 114 | 183 | 306 | 302 | 332 | 354 | 345 | 294 | 167 | 123 | 78 | 77 | 46 | 53 | 55 | 71 | 53 | 52 | 54 | 70 | 51 | 43 | 47 | 28 | 33 | 35 | 33 | 21 | 28 | 27 |
| c | c | 6523 | 113.4 | 49 | 5.2e-07 | 2.1e-06 | 5.69 | 2 | 45 | 44 | 47 | 51 | 64 | 68 | 71 | 75 | 76 | 80 | 88 | 102 | 92 | 93 | 113 | 121 | 138 | 115 | 140 | 153 | 166 | 211 | 280 | 373 | 473 | 522 | 485 | 351 | 213 | 134 | 113 | 102 | 115 | 116 | 113 | 92 | 87 | 85 | 102 | 60 | 72 | 76 | 70 | 61 | 45 | 47 | 52 | 56 | 43 | 32 |
| a | a | 4282 | 100.8 | 49 | 1.9e-05 | 7.5e-05 | 4.12 | 3 | 18 | 31 | 30 | 40 | 53 | 40 | 32 | 39 | 34 | 37 | 39 | 40 | 42 | 41 | 59 | 62 | 66 | 59 | 53 | 81 | 127 | 181 | 303 | 356 | 332 | 320 | 306 | 253 | 171 | 98 | 86 | 59 | 67 | 68 | 64 | 58 | 51 | 50 | 47 | 44 | 44 | 38 | 27 | 37 | 36 | 36 | 33 | 33 | 35 | 26 |
| g | g | 6708 | 89.2 | 49 | 3.9e-04 | 0.0016 | 2.80 | 4 | 58 | 60 | 63 | 65 | 52 | 66 | 74 | 65 | 74 | 76 | 83 | 88 | 96 | 104 | 100 | 107 | 125 | 141 | 128 | 133 | 172 | 221 | 367 | 480 | 543 | 484 | 365 | 323 | 194 | 162 | 129 | 122 | 126 | 120 | 110 | 109 | 91 | 95 | 77 | 80 | 73 | 79 | 76 | 69 | 66 | 62 | 52 | 34 | 34 | 35 |
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