position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/03/25/peak-motifs.2025-03-25.113723_2025-03-25.113723_a960cV/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 peaks_4 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/03/25/peak-motifs.2025-03-25.113723_2025-03-25.113723_a960cV/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/2025/03/25/peak-motifs.2025-03-25.113723_2025-03-25.113723_a960cV/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/03/25/peak-motifs.2025-03-25.113723_2025-03-25.113723_a960cV/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 81 Sum of sequence lengths 28778 Min sequence length 0 Max sequence length 1000 Average sequence length 355 Possible positions 28778 Sequences: # length ID 1 1000 ChrE_C_glabrata_CBS138_bPeak_1 2 651 ChrE_C_glabrata_CBS138_bPeak_2 3 301 ChrE_C_glabrata_CBS138_bPeak_3 4 351 ChrE_C_glabrata_CBS138_bPeak_4 5 201 ChrE_C_glabrata_CBS138_bPeak_5 6 351 ChrE_C_glabrata_CBS138_bPeak_6 7 1000 ChrD_C_glabrata_CBS138_bPeak_1 8 451 ChrD_C_glabrata_CBS138_bPeak_2 9 451 ChrD_C_glabrata_CBS138_bPeak_3 10 301 ChrD_C_glabrata_CBS138_bPeak_4 11 351 ChrD_C_glabrata_CBS138_bPeak_5 12 201 ChrD_C_glabrata_CBS138_bPeak_6 13 701 ChrC_C_glabrata_CBS138_bPeak_1 14 151 ChrC_C_glabrata_CBS138_bPeak_2 15 151 ChrC_C_glabrata_CBS138_bPeak_3 16 701 ChrG_C_glabrata_CBS138_bPeak_1 17 251 ChrG_C_glabrata_CBS138_bPeak_2 18 501 ChrG_C_glabrata_CBS138_bPeak_3 19 201 ChrG_C_glabrata_CBS138_bPeak_4 20 501 ChrG_C_glabrata_CBS138_bPeak_5 21 801 ChrI_C_glabrata_CBS138_bPeak_1 22 951 ChrI_C_glabrata_CBS138_bPeak_2 23 551 ChrI_C_glabrata_CBS138_bPeak_3 24 551 ChrI_C_glabrata_CBS138_bPeak_4 25 551 ChrI_C_glabrata_CBS138_bPeak_5 26 201 ChrI_C_glabrata_CBS138_bPeak_6 27 651 ChrI_C_glabrata_CBS138_bPeak_7 28 251 ChrI_C_glabrata_CBS138_bPeak_8 29 251 ChrI_C_glabrata_CBS138_bPeak_9 30 201 mito_C_glabrata_CBS138_bPeak_1 31 451 mito_C_glabrata_CBS138_bPeak_2 32 151 mito_C_glabrata_CBS138_bPeak_3 33 601 mito_C_glabrata_CBS138_bPeak_4 34 351 mito_C_glabrata_CBS138_bPeak_5 35 151 mito_C_glabrata_CBS138_bPeak_6 36 701 mito_C_glabrata_CBS138_bPeak_7 37 301 mito_C_glabrata_CBS138_bPeak_8 38 451 mito_C_glabrata_CBS138_bPeak_9 39 401 mito_C_glabrata_CBS138_bPeak_10 40 151 mito_C_glabrata_CBS138_bPeak_11 41 201 mito_C_glabrata_CBS138_bPeak_12 42 151 mito_C_glabrata_CBS138_bPeak_13 43 751 ChrF_C_glabrata_CBS138_bPeak_1 44 451 ChrF_C_glabrata_CBS138_bPeak_2 45 251 ChrF_C_glabrata_CBS138_bPeak_3 46 151 ChrF_C_glabrata_CBS138_bPeak_4 47 551 ChrH_C_glabrata_CBS138_bPeak_1 48 251 ChrH_C_glabrata_CBS138_bPeak_2 49 201 ChrH_C_glabrata_CBS138_bPeak_3 50 201 ChrH_C_glabrata_CBS138_bPeak_4 51 1000 ChrK_C_glabrata_CBS138_bPeak_1 52 201 ChrK_C_glabrata_CBS138_bPeak_2 53 201 ChrK_C_glabrata_CBS138_bPeak_3 54 201 ChrK_C_glabrata_CBS138_bPeak_4 55 301 ChrK_C_glabrata_CBS138_bPeak_5 56 151 ChrK_C_glabrata_CBS138_bPeak_6 57 451 ChrK_C_glabrata_CBS138_bPeak_7 58 201 ChrK_C_glabrata_CBS138_bPeak_8 59 201 ChrK_C_glabrata_CBS138_bPeak_9 60 251 ChrK_C_glabrata_CBS138_bPeak_10 61 151 ChrK_C_glabrata_CBS138_bPeak_11 62 151 ChrK_C_glabrata_CBS138_bPeak_12 63 301 ChrK_C_glabrata_CBS138_bPeak_13 64 201 ChrK_C_glabrata_CBS138_bPeak_14 65 401 ChrK_C_glabrata_CBS138_bPeak_15 66 201 ChrK_C_glabrata_CBS138_bPeak_16 67 251 ChrK_C_glabrata_CBS138_bPeak_17 68 251 ChrK_C_glabrata_CBS138_bPeak_18 69 151 ChrK_C_glabrata_CBS138_bPeak_19 70 151 ChrK_C_glabrata_CBS138_bPeak_20 71 151 ChrK_C_glabrata_CBS138_bPeak_21 72 151 ChrK_C_glabrata_CBS138_bPeak_22 73 151 ChrK_C_glabrata_CBS138_bPeak_23 74 151 ChrK_C_glabrata_CBS138_bPeak_24 75 151 ChrK_C_glabrata_CBS138_bPeak_25 76 601 ChrJ_C_glabrata_CBS138_bPeak_1 77 201 ChrJ_C_glabrata_CBS138_bPeak_2 78 601 ChrL_C_glabrata_CBS138_bPeak_1 79 251 ChrL_C_glabrata_CBS138_bPeak_2 80 201 ChrL_C_glabrata_CBS138_bPeak_3 81 201 ChrB_C_glabrata_CBS138_bPeaks_1 Oligonucleotide statistics: Total occurrences 28491 Position interval parameters: Position interval 20 Number of windows 50 Total positions 28778 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 3 60 2 -24 [-479,-460] -469.5 4 76 3 -23 [-459,-440] -449.5 4 80 4 -22 [-439,-420] -429.5 4 80 5 -21 [-419,-400] -409.5 5 81 6 -20 [-399,-380] -389.5 5 100 7 -19 [-379,-360] -369.5 6 116 8 -18 [-359,-340] -349.5 9 153 9 -17 [-339,-320] -329.5 11 192 10 -16 [-319,-300] -309.5 14 223 11 -15 [-299,-280] -289.5 14 280 12 -14 [-279,-260] -269.5 18 344 13 -13 [-259,-240] -249.5 20 382 14 -12 [-239,-220] -229.5 26 436 15 -11 [-219,-200] -209.5 28 522 16 -10 [-199,-180] -189.5 28 560 17 -9 [-179,-160] -169.5 32 624 18 -8 [-159,-140] -149.5 37 695 19 -7 [-139,-120] -129.5 46 794 20 -6 [-119,-100] -109.5 64 938 21 -5 [-99,-80] -89.5 64 1280 22 -4 [-79,-60] -69.5 81 1552 23 -3 [-59,-40] -49.5 81 1620 24 -2 [-39,-20] -29.5 81 1620 25 -1 [-19,0] -9.5 81 1620 26 0 [1,20] 10.5 81 1620 27 1 [21,40] 30.5 81 1620 28 2 [41,60] 50.5 81 1620 29 3 [61,80] 70.5 81 1535 30 4 [81,100] 90.5 64 1280 31 5 [101,120] 110.5 46 920 32 6 [121,140] 130.5 46 785 33 7 [141,160] 150.5 37 690 34 8 [161,180] 170.5 32 620 35 9 [181,200] 190.5 28 560 36 10 [201,220] 210.5 26 520 37 11 [221,240] 230.5 26 430 38 12 [241,260] 250.5 20 380 39 13 [261,280] 270.5 18 340 40 14 [281,300] 290.5 14 280 41 15 [301,320] 310.5 11 220 42 16 [321,340] 330.5 11 190 43 17 [341,360] 350.5 9 150 44 18 [361,380] 370.5 6 115 45 19 [381,400] 390.5 5 100 46 20 [401,420] 410.5 4 80 47 21 [421,440] 430.5 4 80 48 22 [441,460] 450.5 4 80 49 23 [461,480] 470.5 4 75 50 24 [481,500] 490.5 3 60 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 | 9466 | 45.1 | 49 | 6.3e-01 | 2.5 | -0.40 | 1 | 19 | 20 | 22 | 23 | 19 | 29 | 31 | 45 | 48 | 50 | 80 | 112 | 130 | 133 | 178 | 197 | 210 | 224 | 271 | 306 | 391 | 501 | 541 | 570 | 507 | 570 | 547 | 542 | 520 | 424 | 313 | 266 | 215 | 229 | 179 | 169 | 152 | 123 | 117 | 85 | 64 | 60 | 45 | 40 | 38 | 29 | 27 | 19 | 23 | 13 |
| a | a | 8889 | 44.1 | 49 | 6.7e-01 | 2.7 | -0.43 | 2 | 15 | 21 | 25 | 25 | 29 | 33 | 38 | 50 | 73 | 94 | 95 | 111 | 115 | 140 | 161 | 165 | 190 | 238 | 241 | 295 | 413 | 482 | 514 | 472 | 490 | 462 | 500 | 509 | 492 | 396 | 289 | 231 | 211 | 160 | 177 | 185 | 133 | 108 | 93 | 79 | 67 | 64 | 42 | 32 | 21 | 20 | 23 | 28 | 25 | 17 |
| c | c | 4985 | 41.6 | 49 | 7.6e-01 | 3.1 | -0.48 | 3 | 15 | 13 | 15 | 16 | 17 | 24 | 24 | 27 | 35 | 36 | 54 | 62 | 69 | 86 | 99 | 99 | 119 | 111 | 146 | 166 | 227 | 263 | 273 | 285 | 304 | 287 | 264 | 272 | 242 | 224 | 128 | 124 | 124 | 111 | 99 | 73 | 61 | 71 | 60 | 49 | 32 | 29 | 29 | 20 | 19 | 17 | 14 | 17 | 16 | 18 |
| g | g | 5151 | 27.2 | 49 | 1.0e+00 | 4 | -0.60 | 4 | 11 | 22 | 18 | 16 | 16 | 14 | 23 | 31 | 36 | 43 | 51 | 59 | 68 | 77 | 84 | 99 | 105 | 122 | 136 | 170 | 229 | 268 | 269 | 277 | 299 | 281 | 289 | 277 | 280 | 224 | 170 | 155 | 140 | 120 | 105 | 93 | 84 | 63 | 50 | 47 | 45 | 37 | 34 | 23 | 22 | 14 | 16 | 16 | 11 | 12 |
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