; position-analysis -v 1 -i $RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.094519_2014-09-03.094519_gM9GBj/data/sequences/peak-motifs_test_maxlen1000_purged_ml30_mis0.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 CEBPa_ChIP-seq_in_dog_liver -origin center -o $RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.094519_2014-09-03.094519_gM9GBj/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 /home/rsat/rsat/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.094519_2014-09-03.094519_gM9GBj/data/sequences/peak-motifs_test_maxlen1000_purged_ml30_mis0.fasta ; Sequence format fasta ; Sequence type dna ; Output file /home/rsat/rsat/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.094519_2014-09-03.094519_gM9GBj/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab ; Oligo length 2 ; Occurrences counted on a single strands ; Background model estimation: homogeneous repartition ; Sequence statistics: ; Nb of sequences 43038 ; Sum of sequence lengths 11000544 ; Min sequence length 0 ; Max sequence length 1000 ; Average sequence length 255 ; Possible positions 10957506 ; Oligonucleotide statistics: ; Total occurrences 10856443 ; Position interval parameters: ; Position interval 20 ; Number of windows 50 ; Total positions 10957506 ; 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 9 172 ; 2 -24 [-479,-460] -469.5 19 290 ; 3 -23 [-459,-440] -449.5 27 443 ; 4 -22 [-439,-420] -429.5 34 628 ; 5 -21 [-419,-400] -409.5 50 809 ; 6 -20 [-399,-380] -389.5 72 1179 ; 7 -19 [-379,-360] -369.5 99 1665 ; 8 -18 [-359,-340] -349.5 165 2570 ; 9 -17 [-339,-320] -329.5 250 4114 ; 10 -16 [-319,-300] -309.5 384 6376 ; 11 -15 [-299,-280] -289.5 600 9834 ; 12 -14 [-279,-260] -269.5 900 15223 ; 13 -13 [-259,-240] -249.5 1368 22642 ; 14 -12 [-239,-220] -229.5 2178 35241 ; 15 -11 [-219,-200] -209.5 3965 60334 ; 16 -10 [-199,-180] -189.5 7263 112011 ; 17 -9 [-179,-160] -169.5 11516 189579 ; 18 -8 [-159,-140] -149.5 16242 281091 ; 19 -7 [-139,-120] -129.5 21130 376271 ; 20 -6 [-119,-100] -109.5 26913 483072 ; 21 -5 [-99,-80] -89.5 34107 615699 ; 22 -4 [-79,-60] -69.5 40202 752309 ; 23 -3 [-59,-40] -49.5 42438 833872 ; 24 -2 [-39,-20] -29.5 43038 855666 ; 25 -1 [-19,0] -9.5 43038 860760 ; 26 0 [1,20] 10.5 43038 860760 ; 27 1 [21,40] 30.5 43038 854428 ; 28 2 [41,60] 50.5 42373 829253 ; 29 3 [61,80] 70.5 39846 740043 ; 30 4 [81,100] 90.5 33538 601385 ; 31 5 [101,120] 110.5 26461 471542 ; 32 6 [121,140] 130.5 20755 366414 ; 33 7 [141,160] 150.5 15859 271693 ; 34 8 [161,180] 170.5 11185 181073 ; 35 9 [181,200] 190.5 6972 105433 ; 36 10 [201,220] 210.5 3774 56831 ; 37 11 [221,240] 230.5 2099 33594 ; 38 12 [241,260] 250.5 1324 21684 ; 39 13 [261,280] 270.5 878 14627 ; 40 14 [281,300] 290.5 587 9386 ; 41 15 [301,320] 310.5 364 6114 ; 42 16 [321,340] 330.5 245 3956 ; 43 17 [341,360] 350.5 160 2441 ; 44 18 [361,380] 370.5 96 1611 ; 45 19 [381,400] 390.5 67 1137 ; 46 20 [401,420] 410.5 50 779 ; 47 21 [421,440] 430.5 34 614 ; 48 22 [441,460] 450.5 26 427 ; 49 23 [461,480] 470.5 18 270 ; 50 24 [481,500] 490.5 9 161 ; ; 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 ca ca 820810 1849.9 49 0.0e+00 0 300 1 16 14 38 39 48 77 102 186 295 497 717 1120 1563 2517 4305 7981 13674 20197 26498 34310 44316 55202 63485 66902 69017 69313 67414 63169 54421 43332 33601 26015 19147 12689 7536 4028 2392 1566 1131 666 433 278 194 122 81 67 36 32 16 15 tg tg 822944 1769.6 49 0.0e+00 0 300 2 11 27 32 51 56 82 134 168 284 452 719 1125 1699 2496 4429 7845 13440 19694 26768 34578 44770 56001 64139 67972 69275 68749 66778 62743 54583 43536 33716 25911 19318 12798 7533 4128 2443 1560 1043 624 445 272 156 113 84 51 47 38 17 11 ta ta 623323 1535.9 49 0.0e+00 0 300 3 12 22 23 39 50 71 106 158 243 363 581 910 1323 2081 3674 6859 11725 17029 22458 28834 36118 43180 46569 46299 45114 45330 46330 46900 42506 35149 28008 22137 16413 11145 6377 3393 2007 1328 831 591 365 235 140 101 78 44 37 20 8 9 aa aa 1030323 988.8 49 0.0e+00 0 300 4 13 18 24 60 68 111 156 294 401 626 943 1497 2230 3503 6200 11207 18818 28322 37077 46663 58986 70667 76913 77145 77327 78554 78913 78230 69792 56883 44742 35248 25900 17805 10181 5538 3121 2164 1380 884 564 429 229 155 121 86 65 39 20 11 gc gc 506138 881.8 49 0.0e+00 0 300 5 10 14 22 23 40 47 66 108 180 285 447 630 975 1548 2624 4751 8237 12172 16621 21488 27889 34501 39090 41201 42305 41846 41291 38363 34071 27294 20984 16177 11824 7745 4581 2460 1481 954 648 388 257 178 100 64 43 40 21 24 13 17 tt tt 1034261 801.4 49 0.0e+00 0 300 6 12 33 42 69 83 113 168 233 397 597 927 1491 2145 3364 5750 10929 17931 26950 36086 46388 58955 71650 78496 78960 78636 77287 78004 77592 70546 58084 46542 35812 26441 17932 10527 5669 3328 2112 1348 947 591 412 251 147 103 67 56 24 26 8 gg gg 584678 781.5 49 0.0e+00 0 300 7 10 18 13 26 49 76 76 139 209 316 468 812 1247 1806 3220 5852 9973 15106 20785 26593 33774 40811 44377 43950 43104 43483 44149 44293 40383 33394 26156 20612 15176 10118 5719 3034 1915 1241 783 508 314 185 123 86 55 47 34 29 19 12 ac ac 570879 709.2 49 0.0e+00 0 300 8 4 7 22 30 36 49 89 128 214 325 500 739 1113 1742 3025 5505 9674 14123 18803 24456 31292 38719 44265 46175 46317 47064 46465 44274 38156 30624 23656 18339 13187 8925 5218 2788 1635 1096 750 475 315 182 142 74 54 37 34 21 9 7 gt gt 571967 651.7 49 0.0e+00 0 300 9 11 18 18 37 36 52 89 123 205 299 510 775 1151 1682 2992 5491 9473 13904 18750 24213 31722 39639 44848 46622 46780 46470 45765 43667 38353 30521 23920 18268 13585 9037 5253 2774 1754 1104 727 468 292 195 118 79 62 40 35 24 9 7 cc cc 585548 592.1 49 0.0e+00 0 300 10 11 11 29 23 44 67 91 139 217 369 589 816 1303 1930 3169 6156 10534 15682 20980 26595 34201 41047 44662 44388 43985 43244 44663 43895 40387 32864 25619 19645 14857 9554 5622 3039 1692 1123 847 488 344 212 143 86 67 37 34 26 13 9 ag ag 766880 376.6 49 4.4e-52 7e-51 50.15 11 13 20 27 35 59 87 132 192 303 449 707 1066 1579 2501 4256 7915 13326 19831 26828 34447 43823 53797 58471 58769 57454 58121 59058 57847 52462 42817 33453 26163 19336 12911 7603 4009 2492 1546 1061 705 426 279 155 112 76 56 36 32 22 15 ct ct 769966 352.5 49 1.6e-47 2.5e-46 45.59 12 7 18 43 45 69 73 118 168 289 451 678 1069 1659 2591 4257 7982 13422 19868 26955 34317 43874 53162 58547 59215 58232 57851 59557 58681 53031 43241 33924 26080 19348 12776 7492 4089 2344 1525 1025 674 438 284 180 109 69 38 41 23 20 17 cg cg 131495 295.0 47 1.2e-37 1.9e-36 35.72 13 2 1 2 7 11 13 6 28 45 59 106 152 239 337 590 1217 2121 3198 4351 5812 7431 9049 10235 10524 10846 10816 10525 10036 8999 7261 5525 4247 3091 1914 1086 595 376 221 134 86 73 37 33 15 9 11 11 6 5 1 at at 749482 260.6 49 1.3e-30 2e-29 28.70 14 20 22 32 51 49 92 118 171 286 457 699 1106 1565 2496 4310 8108 13612 19874 26040 33365 41583 50881 56172 57789 58689 58859 57631 56618 49806 40803 32340 25371 19239 12912 7438 4083 2347 1537 1014 642 434 290 162 132 89 55 47 27 14 5 ga ga 643128 253.4 49 2.4e-29 3.8e-28 27.42 15 8 14 19 36 43 82 124 165 259 373 595 903 1338 2165 3636 6733 11179 16672 22589 29127 36365 44727 48960 49483 48495 49323 49379 48564 43670 35745 27795 21733 16237 10913 6430 3459 2057 1262 886 558 381 224 132 92 63 44 37 28 22 4 tc tc 644621 203.8 49 8.7e-21 1.4e-19 18.85 16 12 14 37 37 48 67 80 145 235 393 567 933 1377 2166 3517 6880 11368 16857 22306 28580 36432 44305 48770 49533 49436 48988 49717 49161 44054 35894 28345 21729 16411 10761 6279 3411 2008 1259 889 556 377 241 163 104 63 39 34 17 17 9 ; Host name rsat ; Job started 2014-09-03.094759 ; Job done 2014-09-03.095025 ; Seconds 145.65 ; user 145.65 ; system 0.07 ; cuser 0 ; csystem 0