; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.100531_NsI0jE -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -1str -nogrouprc -noov -quick_if_possible -seqtype other -markov 2 -pseudo 0.01 -l 6 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.100531_kGiIXh_6nt.tab
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42.
; Program version 1.169
; Slow counting mode
; Detection of over-represented words (right-tail test)
; Oligomer length 6
; Input file $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.100531_NsI0jE
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.100531_kGiIXh_6nt.tab
; Discard overlapping matches
; Counted on a single strand
; Background model Markov
; Background estimation method Markov model estimated from input sequences
; Markov chain order 2
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 6.4e-07
; Sequence type other
; Nb of sequences 13219
; Sum of sequence lengths 297323989
; nb possible positions 297257894
; total oligo occurrences 297257894
; total overlapping occurrences 3578245
; total non overlapping occ 293679649
; alphabet size 5
; nb possible oligomers 15625
; oligomers tested for significance 4147
;
; column headers
; 1 seq oligomer sequence
; 2 id oligomer identifier
; 3 exp_freq expected relative frequency
; 4 occ observed occurrences
; 5 exp_occ expected occurrences
; 6 occ_P occurrence probability (binomial)
; 7 occ_E E-value for occurrences (binomial)
; 8 occ_sig occurrence significance (binomial)
; 9 rank rank
; 10 ovl_occ number of overlapping occurrences (discarded from the count)
; 11 forbocc forbidden positions (to avoid self-overlap)
#seq id exp_freq occ exp_occ occ_P occ_E occ_sig rank ovl_occ forbocc
gtgaca gtgaca 0.0002584411267 92942 76823.67 0 0e+00 350.00 1 0 464530
gcagga gcagga 0.0003348127407 145963 99525.73 0 0e+00 350.00 2 0 729754
taaata taaata 0.0004585306735 194945 136301.86 0 0e+00 350.00 3 15460 974643
ctgcct ctgcct 0.0004488109174 229372 133412.59 0 0e+00 350.00 4 6808 1146635
atgtat atgtat 0.0002776955290 111796 82547.19 0 0e+00 350.00 5 2459 558961
cgggag cgggag 0.0000851010003 70174 25296.94 0 0e+00 350.00 6 0 350826
catcct catcct 0.0002791114877 100103 82968.09 0 0e+00 350.00 7 0 500471
accccg accccg 0.0000544768049 37596 16193.66 0 0e+00 350.00 8 0 187944
ggttgc ggttgc 0.0001394070797 83863 41439.85 0 0e+00 350.00 9 0 419104
aattat aattat 0.0004210744144 151742 125167.69 0 0e+00 350.00 10 0 758697
ttcatc ttcatc 0.0002453447414 89212 72930.66 0 0e+00 350.00 11 0 446036
taacaa taacaa 0.0002661658992 95783 79119.91 0 0e+00 350.00 12 0 478881
gcgatc gcgatc 0.0000302401288 25093 8989.12 0 0e+00 350.00 13 0 125414
ccaagg ccaagg 0.0002714586033 101915 80693.21 0 0e+00 350.00 14 0 509486
ccaaca ccaaca 0.0002823288906 122190 83924.49 0 0e+00 350.00 15 0 610886
ctggga ctggga 0.0004203409647 276565 124949.67 0 0e+00 350.00 16 0 1382617
gcactt gcactt 0.0002714217035 127413 80682.24 0 0e+00 350.00 17 0 637041
tgcaac tgcaac 0.0001752933614 92110 52107.34 0 0e+00 350.00 18 0 460383
gcctgt gcctgt 0.0003844458866 168510 114279.57 0 0e+00 350.00 19 0 842504
tctcct tctcct 0.0004907424277 187962 145877.06 0 0e+00 350.00 20 602 939637
gacgga gacgga 0.0000464992615 26605 13822.27 0 0e+00 350.00 21 61 133014
gggcgg gggcgg 0.0000776157428 41055 23071.89 0 0e+00 350.00 22 814 205258
acatgg acatgg 0.0002872263272 129415 85380.29 0 0e+00 350.00 23 0 646959
gcagtg gcagtg 0.0003166364393 219745 94122.68 0 0e+00 350.00 24 1109 1098214
ccgggc ccgggc 0.0000719537073 54341 21388.81 0 0e+00 350.00 25 156 271680
catctt catctt 0.0002904445795 106677 86336.94 0 0e+00 350.00 26 0 533365
tgcctc tgcctc 0.0003848207637 186806 114391.01 0 0e+00 350.00 27 0 933887
tcccaa tcccaa 0.0003481733806 190152 103497.29 0 0e+00 350.00 28 0 950492
ttcacc ttcacc 0.0003151450241 110097 93679.35 0 0e+00 350.00 29 0 550417
tcactt tcactt 0.0003455974965 143617 102731.58 0 0e+00 350.00 30 164 717947
aggaga aggaga 0.0004950201598 189813 147148.65 0 0e+00 350.00 31 629 948975
cagcac cagcac 0.0003164851973 143581 94077.72 0 0e+00 350.00 32 187 717811
caagcg caagcg 0.0000564175401 33987 16770.56 0 0e+00 350.00 33 0 169908
tggggt tggggt 0.0002785763157 102485 82809.01 0 0e+00 350.00 34 435 512393
ccatgt ccatgt 0.0002861006842 128369 85045.69 0 0e+00 350.00 35 0 641816
ggcaac ggcaac 0.0001696364341 81748 50425.77 0 0e+00 350.00 36 0 408411
cctagg cctagg 0.0001837855405 65696 54631.70 0 0e+00 350.00 37 0 328422
ctcggc ctcggc 0.0000651547045 71232 19367.75 0 0e+00 350.00 38 39 356054
aaatat aaatat 0.0006664456021 244977 198106.22 0 0e+00 350.00 39 0 1224867
tggcca tggcca 0.0005117230509 175135 152113.72 0 0e+00 350.00 40 0 875571
atgaag atgaag 0.0002710179408 102135 80562.22 0 0e+00 350.00 41 0 510650
caacct caacct 0.0002277461382 120617 67699.34 0 0e+00 350.00 42 0 602902
gtcacc gtcacc 0.0001698566519 74507 50491.23 0 0e+00 350.00 43 0 372478
aatgtt aatgtt 0.0003838985889 133021 114116.89 0 0e+00 350.00 44 0 665093
ggcctc ggcctc 0.0003723773580 133667 110692.11 0 0e+00 350.00 45 0 668262
gctgga gctgga 0.0003477024203 164484 103357.29 0 0e+00 350.00 46 0 822191
tatata tatata 0.0003313422805 176750 98494.11 0 0e+00 350.00 47 69226 883717
tggcta tggcta 0.0002675838657 98747 79541.42 0 0e+00 350.00 48 0 493700
tcagga tcagga 0.0004263533718 175774 126736.91 0 0e+00 350.00 49 0 878736
gaaata gaaata 0.0004421099658 145811 131420.68 0 0e+00 350.00 50 0 729045
; Host name rsat
; Job started 2026-06-17.100533
; Job done 2026-06-17.101558
; Seconds 624.55
; user 624.55
; system 0.17
; cuser 0
; csystem 0
; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.100531_NsI0jE -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -1str -nogrouprc -noov -quick_if_possible -seqtype other -markov 2 -pseudo 0.01 -l 7 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.100531_kGiIXh_7nt.tab
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42.
; Program version 1.169
; Slow counting mode
; Detection of over-represented words (right-tail test)
; Oligomer length 7
; Input file $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.100531_NsI0jE
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.100531_kGiIXh_7nt.tab
; Discard overlapping matches
; Counted on a single strand
; Background model Markov
; Background estimation method Markov model estimated from input sequences
; Markov chain order 2
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 1.28e-07
; Sequence type other
; Nb of sequences 13219
; Sum of sequence lengths 297323989
; nb possible positions 297244675
; total oligo occurrences 297244675
; total overlapping occurrences 2844233
; total non overlapping occ 294400442
; alphabet size 5
; nb possible oligomers 78125
; oligomers tested for significance 16446
;
; column headers
; 1 seq oligomer sequence
; 2 id oligomer identifier
; 3 exp_freq expected relative frequency
; 4 occ observed occurrences
; 5 exp_occ expected occurrences
; 6 occ_P occurrence probability (binomial)
; 7 occ_E E-value for occurrences (binomial)
; 8 occ_sig occurrence significance (binomial)
; 9 rank rank
; 10 ovl_occ number of overlapping occurrences (discarded from the count)
; 11 forbocc forbidden positions (to avoid self-overlap)
#seq id exp_freq occ exp_occ occ_P occ_E occ_sig rank ovl_occ forbocc
ggagacg ggagacg 0.0000142320558 7289 4230.40 0 0e+00 350.00 1 9 43725
ccccatc ccccatc 0.0000544478250 44991 16184.33 0 0e+00 350.00 2 39 269853
gtcttga gtcttga 0.0000468498874 37117 13925.88 0 0e+00 350.00 3 0 222620
tccagcc tccagcc 0.0001045050050 96030 31063.56 0 0e+00 350.00 4 0 575623
cgcgggg cgcgggg 0.0000047787341 3770 1420.45 0 0e+00 350.00 5 0 22620
gacagag gacagag 0.0001019591289 84097 30306.81 0 0e+00 350.00 6 229 504362
gattata gattata 0.0000619633024 29471 18418.26 0 0e+00 350.00 7 0 176811
ttgttta ttgttta 0.0001067155930 39197 31720.64 0 0e+00 350.00 8 0 235174
gcttgca gcttgca 0.0000496835707 21634 14768.18 0 0e+00 350.00 9 0 129771
atttcta atttcta 0.0001070732297 43094 31826.95 0 0e+00 350.00 10 56 258543
tctcggc tctcggc 0.0000192072094 29842 5709.24 0 0e+00 350.00 11 0 178984
aagacca aagacca 0.0000780461310 44295 23198.80 0 0e+00 350.00 12 16 265736
ggttcac ggttcac 0.0000478539708 20784 14224.34 0 0e+00 350.00 13 0 124686
actagaa actagaa 0.0000513574657 22984 15265.73 0 0e+00 350.00 14 18 137878
ggtgtgg ggtgtgg 0.0000892520935 42451 26529.71 0 0e+00 350.00 15 221 254688
gggctca gggctca 0.0000956834105 36831 28441.38 0 0e+00 350.00 16 0 220967
gctagga gctagga 0.0000399018392 21024 11860.61 0 0e+00 350.00 17 0 126118
cccgagt cccgagt 0.0000147652258 23603 4388.88 0 0e+00 350.00 18 0 141545
ctgcccg ctgcccg 0.0000228315754 12865 6786.56 0 0e+00 350.00 19 0 77188
aagaaac aagaaac 0.0001039133654 41544 30887.69 0 0e+00 350.00 20 0 249218
catgccc catgccc 0.0000630017178 34922 18726.93 0 0e+00 350.00 21 16 209511
aaacaac aaacaac 0.0000803654847 34045 23888.21 0 0e+00 350.00 22 0 204199
tcttctt tcttctt 0.0001017414003 48345 30242.09 0 0e+00 350.00 23 3398 290063
catatat catatat 0.0000930057493 40519 27645.46 0 0e+00 350.00 24 0 243101
tgcaacc tgcaacc 0.0000434557538 54840 12916.99 0 0e+00 350.00 25 0 328834
acgccat acgccat 0.0000183896376 10634 5466.22 0 0e+00 350.00 26 0 63760
aatcgct aatcgct 0.0000162522959 20487 4830.91 0 0e+00 350.00 27 0 122885
gcaggcg gcaggcg 0.0000216774121 14512 6443.50 0 0e+00 350.00 28 6 87065
tcctggc tcctggc 0.0001107848530 48241 32930.21 0 0e+00 350.00 29 0 289374
gaagatg gaagatg 0.0000570034465 24520 16943.97 0 0e+00 350.00 30 45 147099
ggggttt ggggttt 0.0000899021893 57191 26722.95 0 0e+00 350.00 31 0 343128
ggaagag ggaagag 0.0000922110521 35142 27409.24 0 0e+00 350.00 32 134 210841
taaacaa taaacaa 0.0001075509838 39560 31968.96 0 0e+00 350.00 33 0 237360
gtcttcc gtcttcc 0.0000480884455 19419 14294.03 0 0e+00 350.00 34 0 116504
ctcactg ctcactg 0.0001262601006 95722 37530.14 0 0e+00 350.00 35 0 574178
ctccgcc ctccgcc 0.0000261942920 27197 7786.11 0 0e+00 350.00 36 21 163155
actttgg actttgg 0.0000908783185 93539 27013.10 0 0e+00 350.00 37 0 561186
cctctgc cctctgc 0.0001111683402 52903 33044.20 0 0e+00 350.00 38 64 317341
ctggcta ctggcta 0.0000805143549 52132 23932.46 0 0e+00 350.00 39 0 312742
aagtaaa aagtaaa 0.0001152732994 43654 34264.37 0 0e+00 350.00 40 136 261899
agtggca agtggca 0.0001071520332 43789 31850.37 0 0e+00 350.00 41 26 262676
cggtggc cggtggc 0.0000180076562 28728 5352.68 0 0e+00 350.00 42 12 172368
cgggcgc cgggcgc 0.0000046920279 14388 1394.68 0 0e+00 350.00 43 13 86324
aggcggg aggcggg 0.0000258858733 30344 7694.44 0 0e+00 350.00 44 0 182022
aaatgtt aaatgtt 0.0001551817304 58822 46126.94 0 0e+00 350.00 45 0 352922
tttttga tttttga 0.0003089800040 104547 91842.66 0 0e+00 350.00 46 0 627277
actgcac actgcac 0.0000687471956 77624 20434.74 0 0e+00 350.00 47 85 465333
gaggtcg gaggtcg 0.0000099861669 8489 2968.33 0 0e+00 350.00 48 2 50918
cagagtc cagagtc 0.0000867499224 34241 25785.95 0 0e+00 350.00 49 16 205414
tgggagg tgggagg 0.0001177552346 163996 35002.12 0 0e+00 350.00 50 0 983758
; Host name rsat
; Job started 2026-06-17.101558
; Job done 2026-06-17.102651
; Seconds 652.77
; user 652.77
; system 0.33
; cuser 0
; csystem 0
; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.100531_NsI0jE -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -1str -nogrouprc -noov -quick_if_possible -seqtype other -markov 2 -pseudo 0.01 -l 8 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.100531_kGiIXh_8nt.tab
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42.
; Program version 1.169
; Slow counting mode
; Detection of over-represented words (right-tail test)
; Oligomer length 8
; Input file $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.100531_NsI0jE
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.100531_kGiIXh_8nt.tab
; Discard overlapping matches
; Counted on a single strand
; Background model Markov
; Background estimation method Markov model estimated from input sequences
; Markov chain order 2
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 2.56e-08
; Sequence type other
; Nb of sequences 13219
; Sum of sequence lengths 297323989
; nb possible positions 297231456
; total oligo occurrences 297231456
; total overlapping occurrences 2309463
; total non overlapping occ 294921993
; alphabet size 5
; nb possible oligomers 390625
; oligomers tested for significance 65609
;
; column headers
; 1 seq oligomer sequence
; 2 id oligomer identifier
; 3 exp_freq expected relative frequency
; 4 occ observed occurrences
; 5 exp_occ expected occurrences
; 6 occ_P occurrence probability (binomial)
; 7 occ_E E-value for occurrences (binomial)
; 8 occ_sig occurrence significance (binomial)
; 9 rank rank
; 10 ovl_occ number of overlapping occurrences (discarded from the count)
; 11 forbocc forbidden positions (to avoid self-overlap)
#seq id exp_freq occ exp_occ occ_P occ_E occ_sig rank ovl_occ forbocc
atgccacc atgccacc 0.0000192704563 9609 5727.79 0 0e+00 350.00 1 0 67252
taataaat taataaat 0.0000345836085 18348 10279.34 0 0e+00 350.00 2 27 128436
ggatcact ggatcact 0.0000144037173 21372 4281.24 0 0e+00 350.00 3 0 149549
aagctccg aagctccg 0.0000057911026 6432 1721.30 0 0e+00 350.00 4 0 45024
cactgcag cactgcag 0.0000297633080 22926 8846.59 0 0e+00 350.00 5 0 160432
ctcttcct ctcttcct 0.0000305834342 14341 9090.36 0 0e+00 350.00 6 93 100378
tcacgcca tcacgcca 0.0000066096594 13435 1964.60 0 0e+00 350.00 7 0 93995
taaattaa taaattaa 0.0000368323311 15446 10947.73 0 0e+00 350.00 8 231 108122
gtggctca gtggctca 0.0000284208037 72551 8447.56 0 0e+00 350.00 9 0 507835
acccgcct acccgcct 0.0000056109345 9282 1667.75 0 0e+00 350.00 10 0 64963
ggaggcca ggaggcca 0.0000348569241 29968 10360.57 0 0e+00 350.00 11 0 209724
tacatgta tacatgta 0.0000129022781 7641 3834.96 0 0e+00 350.00 12 15 53483
tctacaaa tctacaaa 0.0000254528017 20474 7565.37 0 0e+00 350.00 13 0 143253
aggcagga aggcagga 0.0000337305878 66891 10025.79 0 0e+00 350.00 14 9 468151
gcaggtgg gcaggtgg 0.0000226080609 15487 6719.83 0 0e+00 350.00 15 6 108399
tccttccc tccttccc 0.0000188105398 12094 5591.08 0 0e+00 350.00 16 0 84652
gtgcccag gtgcccag 0.0000259240514 12215 7705.44 0 0e+00 350.00 17 1 85491
cctgcctt cctgcctt 0.0000317457658 19685 9435.84 0 0e+00 350.00 18 0 137735
aaggtggg aaggtggg 0.0000241336199 14016 7173.27 0 0e+00 350.00 19 0 98093
tgcgcccg tgcgcccg 0.0000014443930 2746 429.32 0 0e+00 350.00 20 0 19218
aaagaaaa aaagaaaa 0.0001122351593 72982 33359.82 0 0e+00 350.00 21 7338 510415
ccgcgcct ccgcgcct 0.0000019159843 3344 569.49 0 0e+00 350.00 22 0 23405
cccatccc cccatccc 0.0000147379310 8010 4380.58 0 0e+00 350.00 23 71 56070
ccaaggtg ccaaggtg 0.0000186896365 12543 5555.15 0 0e+00 350.00 24 0 87781
tatgtatg tatgtatg 0.0000169763431 8319 5045.90 0 0e+00 350.00 25 750 58226
ctcccacc ctcccacc 0.0000237930557 22932 7072.04 0 0e+00 350.00 26 21 160446
aagaacta aagaacta 0.0000139914549 6877 4158.70 0 0e+00 350.00 27 3 48139
gctatgat gctatgat 0.0000104226298 6629 3097.93 0 0e+00 350.00 28 0 46396
gagaaaga gagaaaga 0.0000407749287 18144 12119.59 0 0e+00 350.00 29 151 126984
caaggcag caaggcag 0.0000234171665 16197 6960.32 0 0e+00 350.00 30 0 113379
tggggaag tggggaag 0.0000221489459 10843 6583.36 0 0e+00 350.00 31 0 75897
ccccgccc ccccgccc 0.0000049920650 7062 1483.80 0 0e+00 350.00 32 296 49434
gagaccct gagaccct 0.0000189218690 13254 5624.17 0 0e+00 350.00 33 0 92735
aacaaaca aacaaaca 0.0000303375501 24517 9017.27 0 0e+00 350.00 34 6199 171564
acgcccgg acgcccgg 0.0000011798009 8027 350.67 0 0e+00 350.00 35 0 56177
ccactgtg ccactgtg 0.0000349130876 16627 10377.27 0 0e+00 350.00 36 0 116382
ttcaagat ttcaagat 0.0000189381018 9076 5629.00 0 0e+00 350.00 37 1 63522
gcctaggc gcctaggc 0.0000114673900 9001 3408.47 0 0e+00 350.00 38 1 62957
tgagaccc tgagaccc 0.0000182341264 13686 5419.76 0 0e+00 350.00 39 0 95740
cagtgagc cagtgagc 0.0000266527112 69817 7922.02 0 0e+00 350.00 40 14 488146
ataaagaa ataaagaa 0.0000410769150 18518 12209.35 0 0e+00 350.00 41 10 129614
atctcttg atctcttg 0.0000219946873 9949 6537.51 0 0e+00 350.00 42 0 69629
tgcatgcc tgcatgcc 0.0000157628645 10715 4685.22 0 0e+00 350.00 43 0 74997
ggcatgtg ggcatgtg 0.0000205208052 12023 6099.43 0 0e+00 350.00 44 2 84155
gtgatctg gtgatctg 0.0000184422487 18020 5481.62 0 0e+00 350.00 45 18 126118
tgggcatg tgggcatg 0.0000216844287 17502 6445.29 0 0e+00 350.00 46 10 122508
ttattata ttattata 0.0000265369301 13526 7887.61 0 0e+00 350.00 47 0 94682
cccgcgcg cccgcgcg 0.0000003684999 814 109.53 0 0e+00 350.00 48 0 5698
actcctga actcctga 0.0000298255528 43044 8865.09 0 0e+00 350.00 49 7 301228
gggggagg gggggagg 0.0000222002484 10897 6598.61 0 0e+00 350.00 50 504 76279
; Host name rsat
; Job started 2026-06-17.102651
; Job done 2026-06-17.103921
; Seconds 750.09
; user 750.09
; system 0.23
; cuser 0
; csystem 0