; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.085039_xLaMFX -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_2026-06-17.085039_KzEHtt_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_2026-06-17.085039_xLaMFX
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.085039_KzEHtt_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
ggcgac ggcgac 0.0000370177879 23336 11003.83 0 0e+00 350.00 1 0 116546
gcccag gcccag 0.0003786186182 203758 112547.37 0 0e+00 350.00 2 642 1018675
tcaagt tcaagt 0.0002157932661 110960 64146.25 0 0e+00 350.00 3 74 554681
tctcaa tctcaa 0.0004373243419 185497 129998.11 0 0e+00 350.00 4 0 927050
tacttt tacttt 0.0003648862007 127564 108465.30 0 0e+00 350.00 5 229 637808
tataat tataat 0.0003341922968 136618 99341.30 0 0e+00 350.00 6 526 683029
catgtt catgtt 0.0002896988653 140001 86115.27 0 0e+00 350.00 7 0 699969
tgaaac tgaaac 0.0003539719735 144616 105220.96 0 0e+00 350.00 8 0 722799
ccactg ccactg 0.0004213723543 176710 125256.26 0 0e+00 350.00 9 0 883224
aggaga aggaga 0.0004950201598 189813 147148.65 0 0e+00 350.00 10 629 948975
ctcggc ctcggc 0.0000651547045 71232 19367.75 0 0e+00 350.00 11 39 356054
aacttc aacttc 0.0002262090253 81029 67242.42 0 0e+00 350.00 12 0 405113
acccca acccca 0.0002798261623 103832 83180.54 0 0e+00 350.00 13 442 519111
gcaaga gcaaga 0.0002247696747 95985 66814.56 0 0e+00 350.00 14 0 479787
ggcgcg ggcgcg 0.0000199411268 28733 5927.66 0 0e+00 350.00 15 56 143651
cacgtg cacgtg 0.0000672307494 31252 19984.87 0 0e+00 350.00 16 0 156247
gctggg gctggg 0.0003187737942 286464 94758.03 0 0e+00 350.00 17 569 1432134
tcgatc tcgatc 0.0000249868391 14985 7427.54 0 0e+00 350.00 18 15 74904
cgcttg cgcttg 0.0000561146269 34107 16680.52 0 0e+00 350.00 19 0 170422
cttcta cttcta 0.0002259996595 79335 67180.18 0 0e+00 350.00 20 0 396652
cggggt cggggt 0.0000544050251 37140 16172.32 0 0e+00 350.00 21 0 185695
ttacag ttacag 0.0003891326530 196895 115672.75 0 0e+00 350.00 22 0 984322
aaagtg aaagtg 0.0005365160428 179857 159483.63 0 0e+00 350.00 23 0 899167
cccagc cccagc 0.0003191818121 287595 94879.31 0 0e+00 350.00 24 529 1437784
gactac gactac 0.0000972881777 59358 28919.68 0 0e+00 350.00 25 0 296744
aactaa aactaa 0.0002384156173 84960 70870.92 0 0e+00 350.00 26 499 424785
ccacca ccacca 0.0003715976323 178559 110460.33 0 0e+00 350.00 27 9894 892743
aatata aatata 0.0004184942504 167255 124400.72 0 0e+00 350.00 28 631 836258
agatca agatca 0.0002747331017 118059 81666.58 0 0e+00 350.00 29 97 590064
gattct gattct 0.0002859762085 110557 85008.69 0 0e+00 350.00 30 0 552635
tggtgg tggtgg 0.0003704506183 179246 110119.37 0 0e+00 350.00 31 10002 896140
gacggg gacggg 0.0000426767635 38374 12686.00 0 0e+00 350.00 32 28 191870
cgtctc cgtctc 0.0000525729719 55826 15627.73 0 0e+00 350.00 33 18 278956
aagaca aagaca 0.0003449089654 128062 102526.91 0 0e+00 350.00 34 212 640302
acgcct acgcct 0.0000779562663 54312 23173.12 0 0e+00 350.00 35 0 271544
tgggac tgggac 0.0002295310165 92397 68229.91 0 0e+00 350.00 36 0 461940
gagacc gagacc 0.0002226875619 122529 66195.64 0 0e+00 350.00 37 0 612407
cggatc cggatc 0.0000432792162 21946 12865.09 0 0e+00 350.00 38 2 109716
accaac accaac 0.0001634255221 60162 48579.53 0 0e+00 350.00 39 446 300766
tgggcg tgggcg 0.0000905156374 53811 26906.49 0 0e+00 350.00 40 0 268972
gagaag gagaag 0.0003403281511 114547 101165.23 0 0e+00 350.00 41 598 572688
tcgccc tcgccc 0.0000570074228 27654 16945.91 0 0e+00 350.00 42 0 138231
gatggt gatggt 0.0001830443532 76636 54411.38 0 0e+00 350.00 43 0 383157
accacg accacg 0.0000556976463 44958 16556.57 0 0e+00 350.00 44 0 224767
ggaggc ggaggc 0.0003361354511 271886 99918.92 0 0e+00 350.00 45 0 1359173
tagtta tagtta 0.0001532718600 58061 45561.27 0 0e+00 350.00 46 234 290304
aggcgg aggcgg 0.0001017773469 71764 30254.12 0 0e+00 350.00 47 0 358709
ataatt ataatt 0.0004208413903 152241 125098.43 0 0e+00 350.00 48 0 761189
aaatga aaatga 0.0005622871259 186025 167144.29 0 0e+00 350.00 49 661 930069
attgct attgct 0.0002796908513 104681 83140.31 0 0e+00 350.00 50 0 523362
; Host name rsat
; Job started 2026-06-17.085041
; Job done 2026-06-17.090103
; Seconds 622.52
; user 622.52
; system 0.17
; cuser 0
; csystem 0
; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.085039_xLaMFX -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_2026-06-17.085039_KzEHtt_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_2026-06-17.085039_xLaMFX
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.085039_KzEHtt_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
ggcatga ggcatga 0.0000647130406 52314 19235.61 0 0e+00 350.00 1 0 313753
taacatt taacatt 0.0000777803487 32294 23119.79 0 0e+00 350.00 2 24 193764
ctgtctc ctgtctc 0.0001010315669 87381 30031.10 0 0e+00 350.00 3 218 523530
gttttgt gttttgt 0.0001165467561 43148 34642.90 0 0e+00 350.00 4 4327 258875
gaagttg gaagttg 0.0000446422133 20418 13269.66 0 0e+00 350.00 5 16 122485
tcaagca tcaagca 0.0000634793406 43109 18868.90 0 0e+00 350.00 6 0 258601
acaaggt acaaggt 0.0000569590887 23908 16930.79 0 0e+00 350.00 7 0 143442
cggagtc cggagtc 0.0000143035685 13561 4251.66 0 0e+00 350.00 8 4 81362
cttctct cttctct 0.0001211923951 44917 36023.79 0 0e+00 350.00 9 269 269482
gtcagga gtcagga 0.0000699995620 65929 20807.00 0 0e+00 350.00 10 0 395453
tgttgcc tgttgcc 0.0000636460478 55358 18918.45 0 0e+00 350.00 11 0 332051
cccggcc cccggcc 0.0000216099423 28114 6423.44 0 0e+00 350.00 12 160 168672
gagatga gagatga 0.0000748274787 29980 22242.07 0 0e+00 350.00 13 78 179874
gatcgtg gatcgtg 0.0000082515159 10409 2452.72 0 0e+00 350.00 14 0 62348
aatatta aatatta 0.0001068775271 46519 31768.78 0 0e+00 350.00 15 96 279111
cttcttc cttcttc 0.0000673966384 31800 20033.29 0 0e+00 350.00 16 2537 190789
ttagccg ttagccg 0.0000162641748 18616 4834.44 0 0e+00 350.00 17 0 111684
gattctc gattctc 0.0000737845242 48051 21932.06 0 0e+00 350.00 18 0 288113
tgttgtt tgttgtt 0.0000745014487 36670 22145.16 0 0e+00 350.00 19 7982 220020
gcgggcg gcgggcg 0.0000047035941 14107 1398.12 0 0e+00 350.00 20 155 84637
atcctgg atcctgg 0.0000965938458 36345 28712.01 0 0e+00 350.00 21 0 218024
ccagcac ccagcac 0.0000860875645 84274 25589.07 0 0e+00 350.00 22 17 505535
aaaaatt aaaaatt 0.0004648043731 171991 138160.62 0 0e+00 350.00 23 0 1031831
gaaggga gaaggga 0.0000698399891 30579 20759.56 0 0e+00 350.00 24 339 183474
ttatata ttatata 0.0001039024359 51162 30884.45 0 0e+00 350.00 25 0 306967
caccttg caccttg 0.0000687484582 27103 20435.11 0 0e+00 350.00 26 0 162588
atgactt atgactt 0.0000592627162 23553 17615.53 0 0e+00 350.00 27 0 141312
aaccccg aaccccg 0.0000149733737 23884 4450.76 0 0e+00 350.00 28 0 143257
ctactaa ctactaa 0.0000387001481 69110 11503.41 0 0e+00 350.00 29 0 414379
gaaataa gaaataa 0.0001390354303 55676 41327.54 0 0e+00 350.00 30 0 334048
aaaatac aaaatac 0.0001685249756 110688 50093.15 0 0e+00 350.00 31 0 664081
gccgcgg gccgcgg 0.0000053979791 3931 1604.52 0 0e+00 350.00 32 6 23586
agccggg agccggg 0.0000226332316 25833 6727.61 0 0e+00 350.00 33 0 154987
tttactt tttactt 0.0001144285241 43450 34013.27 0 0e+00 350.00 34 145 260683
tggagtg tggagtg 0.0001214715905 83716 36106.78 0 0e+00 350.00 35 268 502050
acttgag acttgag 0.0000677443911 43284 20136.66 0 0e+00 350.00 36 0 259639
atggagt atggagt 0.0000880899369 36967 26184.26 0 0e+00 350.00 37 0 221784
aggctga aggctga 0.0001209674018 130271 35956.92 0 0e+00 350.00 38 131 781500
aaatgat aaatgat 0.0001220828962 43863 36288.49 0 0e+00 350.00 39 0 263174
tcattta tcattta 0.0001132476515 41950 33662.26 0 0e+00 350.00 40 0 251689
cacaccc cacaccc 0.0000838615800 32964 24927.41 0 0e+00 350.00 41 66 197776
ttaagaa ttaagaa 0.0001079032136 40977 32073.66 0 0e+00 350.00 42 0 245834
ggaagag ggaagag 0.0000922110521 35142 27409.24 0 0e+00 350.00 43 134 210841
ctcatgc ctcatgc 0.0000669946878 39539 19913.81 0 0e+00 350.00 44 6 237163
gggatta gggatta 0.0000571804211 115674 16996.58 0 0e+00 350.00 45 0 693938
acccagg acccagg 0.0000890652487 68807 26474.17 0 0e+00 350.00 46 0 412721
ggtcggg ggtcggg 0.0000086811743 7142 2580.43 0 0e+00 350.00 47 8 42848
gcatgtg gcatgtg 0.0000681242920 28204 20249.58 0 0e+00 350.00 48 52 169217
ccaggat ccaggat 0.0000966284565 35867 28722.29 0 0e+00 350.00 49 0 215164
aacaaat aacaaat 0.0001272594476 49134 37827.19 0 0e+00 350.00 50 0 294795
; Host name rsat
; Job started 2026-06-17.090104
; Job done 2026-06-17.091144
; Seconds 639.97
; user 639.97
; system 0.35
; cuser 0
; csystem 0
; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.085039_xLaMFX -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_2026-06-17.085039_KzEHtt_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_2026-06-17.085039_xLaMFX
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.085039_KzEHtt_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
gaccatcc gaccatcc 0.0000095038991 16035 2824.86 0 0e+00 350.00 1 0 112171
tcacccag tcacccag 0.0000272801343 29457 8108.51 0 0e+00 350.00 2 0 206156
gcacacgc gcacacgc 0.0000041641077 3881 1237.70 0 0e+00 350.00 3 14 27167
cctccccg cctccccg 0.0000057866353 4092 1719.97 0 0e+00 350.00 4 0 28644
cattcttc cattcttc 0.0000191318172 8974 5686.58 0 0e+00 350.00 5 4 62818
tgcgcctg tgcgcctg 0.0000086209394 5583 2562.41 0 0e+00 350.00 6 1 39081
tcttcttt tcttcttt 0.0000410030846 21883 12187.41 0 0e+00 350.00 7 51 153181
cggggccg cggggccg 0.0000012621974 1873 375.16 0 0e+00 350.00 8 39 13111
atttttgt atttttgt 0.0000744419177 57716 22126.48 0 0e+00 350.00 9 0 404002
gcacagtg gcacagtg 0.0000262957068 15528 7815.91 0 0e+00 350.00 10 2 108695
cccgcgcc cccgcgcc 0.0000014664783 1857 435.88 0 0e+00 350.00 11 21 12999
gcctaggc gcctaggc 0.0000114673900 9001 3408.47 0 0e+00 350.00 12 1 62957
acgttggc acgttggc 0.0000024880606 2335 739.53 0 0e+00 350.00 13 0 16345
ctgaggcg ctgaggcg 0.0000086278150 8807 2564.46 0 0e+00 350.00 14 0 61631
accctgtc accctgtc 0.0000163582311 30440 4862.18 0 0e+00 350.00 15 0 212961
catctcaa catctcaa 0.0000229902197 23106 6833.42 0 0e+00 350.00 16 0 161496
agtttgag agtttgag 0.0000285974744 27636 8500.07 0 0e+00 350.00 17 8 193347
ggaggttg ggaggttg 0.0000159354832 36675 4736.53 0 0e+00 350.00 18 16 256532
tcccaggt tcccaggt 0.0000245790897 24996 7305.68 0 0e+00 350.00 19 1 174937
aggcagga aggcagga 0.0000337305878 66891 10025.79 0 0e+00 350.00 20 9 468151
attacatt attacatt 0.0000226952356 10218 6745.74 0 0e+00 350.00 21 35 71520
aggttgca aggttgca 0.0000145276992 47099 4318.09 0 0e+00 350.00 22 11 329478
cgcaacct cgcaacct 0.0000033488451 3214 995.38 0 0e+00 350.00 23 0 22490
gggaggat gggaggat 0.0000206504968 20357 6137.98 0 0e+00 350.00 24 0 142414
gggactac gggactac 0.0000066981436 29828 1990.90 0 0e+00 350.00 25 0 208722
agtgatct agtgatct 0.0000190171659 10455 5652.50 0 0e+00 350.00 26 0 73182
caccactg caccactg 0.0000291130924 24504 8653.33 0 0e+00 350.00 27 0 171321
gcgagact gcgagact 0.0000035680792 14135 1060.55 0 0e+00 350.00 28 0 98776
gatggagt gatggagt 0.0000163313981 22947 4854.21 0 0e+00 350.00 29 0 160608
cgcaatct cgcaatct 0.0000042503951 5049 1263.35 0 0e+00 350.00 30 0 35317
tgcctccc tgcctccc 0.0000265266065 22719 7884.54 0 0e+00 350.00 31 0 158998
ggttgggg ggttgggg 0.0000120152564 7134 3571.31 0 0e+00 350.00 32 28 49933
gccaggag gccaggag 0.0000348264738 16282 10351.52 0 0e+00 350.00 33 1 113947
aaactccg aaactccg 0.0000082712838 5333 2458.49 0 0e+00 350.00 34 0 37304
gttgtagt gttgtagt 0.0000071688476 4268 2130.81 0 0e+00 350.00 35 0 29853
gggaccac gggaccac 0.0000125426220 6532 3728.06 0 0e+00 350.00 36 0 45710
gccgccgc gccgccgc 0.0000013366946 2710 397.31 0 0e+00 350.00 37 872 18968
cctgtctc cctgtctc 0.0000272129986 38703 8088.56 0 0e+00 350.00 38 3 270676
gctgggac gctgggac 0.0000145419426 37878 4322.32 0 0e+00 350.00 39 0 265091
gcgccacc gcgccacc 0.0000050884594 6582 1512.45 0 0e+00 350.00 40 0 46059
tgcatgcc tgcatgcc 0.0000157628645 10715 4685.22 0 0e+00 350.00 41 0 74997
ggaggctg ggaggctg 0.0000324323548 102629 9639.92 0 0e+00 350.00 42 11 718290
aggatggt aggatggt 0.0000165715086 18583 4925.57 0 0e+00 350.00 43 0 130066
cacacacg cacacacg 0.0000064299401 4107 1911.18 0 0e+00 350.00 44 0 28747
cccggcct cccggcct 0.0000072035425 9114 2141.12 0 0e+00 350.00 45 0 63794
acctcagc acctcagc 0.0000220815771 24531 6563.34 0 0e+00 350.00 46 0 171664
gagctggg gagctggg 0.0000259760106 11849 7720.89 0 0e+00 350.00 47 12 82931
gaagaagg gaagaagg 0.0000182325551 9031 5419.29 0 0e+00 350.00 48 14 63203
catgcacc catgcacc 0.0000139986359 9873 4160.83 0 0e+00 350.00 49 0 69108
cactgcag cactgcag 0.0000297633080 22926 8846.59 0 0e+00 350.00 50 0 160432
; Host name rsat
; Job started 2026-06-17.091144
; Job done 2026-06-17.092419
; Seconds 754.4
; user 754.4
; system 0.28
; cuser 0
; csystem 0