; Job started 2026_06_17.141420 ; Job done 2026_06_17.141420 ; Job started 2026_06_17.141421 ; Job done 2026_06_17.141421 ; Job started 2026_06_17.141421 ; Job done 2026_06_17.141421 ; Job started 2026_06_17.141422 ; Job done 2026_06_17.141422 ; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.141420_XRUSe9.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -2str -noov -quick_if_possible -seqtype dna -markov 2 -pseudo 0.01 -l 5 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_5nt.tab ; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. ; Program version 1.169 ; Quick counting mode ; Detection of over-represented words (right-tail test) ; Oligomer length 5 ; Input file $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.141420_XRUSe9.fasta.purged ; Input format fasta ; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_5nt.tab ; Discard overlapping matches ; Counted on both strands ; grouped by pairs of reverse complements ; Background model Markov ; Background estimation method Markov model estimated from input sequences ; Markov chain order 2 ; Pseudo-frequency 0.01 ; Pseudo-frequency per oligo 1.953125e-05 ; Sequence type DNA ; Nb of sequences 1 ; Sum of sequence lengths 6935 ; discarded residues NA (quick mode) (other letters than ACGT) ; discarded occurrences NA (quick mode) (contain discarded residues) ; nb possible positions NA (quick mode) ; total oligo occurrences 6221 ; total overlapping occurrences 141 ; total non overlapping occ 6080 ; alphabet size 4 ; nb possible oligomers 512 ; oligomers tested for significance 496 ; Sequences: ; 2-UTseq835-UTL128-PhiB002 6935 ; ; 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 gccgc gccgc|gcggc 0.0006461938600 19 4.02 5.5e-08 2.7e-05 4.57 1 0 76 agcgg agcgg|ccgct 0.0014373266200 25 8.94 7.6e-06 3.8e-03 2.42 2 0 100 gtcaa gtcaa|ttgac 0.0018255135400 29 11.36 8.2e-06 4.1e-03 2.39 3 0 116 acgat acgat|atcgt 0.0008920603600 16 5.55 0.00022 1.1e-01 0.96 4 0 64 aatcg aatcg|cgatt 0.0007332029800 13 4.56 0.00090 4.5e-01 0.35 5 0 52 agccg agccg|cggct 0.0008346453100 14 5.19 0.00099 4.9e-01 0.31 6 0 56 ccagc ccagc|gctgg 0.0009830314600 15 6.12 0.00167 8.3e-01 0.08 7 0 60 ; Host name rsat ; Job started 2026-06-17.141420 ; Job done 2026-06-17.141420 ; Seconds 0.2 ; user 0.2 ; system 0.01 ; cuser 0.07 ; csystem 0.02 ; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.141420_XRUSe9.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -2str -noov -quick_if_possible -seqtype dna -markov 2 -pseudo 0.01 -l 6 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_6nt.tab ; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. ; Program version 1.169 ; Quick 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_2026-06-17.141420_XRUSe9.fasta.purged ; Input format fasta ; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_6nt.tab ; Discard overlapping matches ; Counted on both strands ; grouped by pairs of reverse complements ; Background model Markov ; Background estimation method Markov model estimated from input sequences ; Markov chain order 2 ; Pseudo-frequency 0.01 ; Pseudo-frequency per oligo 4.80769230769231e-06 ; Sequence type DNA ; Nb of sequences 1 ; Sum of sequence lengths 6935 ; discarded residues NA (quick mode) (other letters than ACGT) ; discarded occurrences NA (quick mode) (contain discarded residues) ; nb possible positions NA (quick mode) ; total oligo occurrences 6217 ; total overlapping occurrences 56 ; total non overlapping occ 6161 ; alphabet size 4 ; nb possible oligomers 2080 ; oligomers tested for significance 1711 ; Sequences: ; 2-UTseq835-UTL128-PhiB002 6935 ; ; 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 gtcaac gtcaac|gttgac 0.0003704486046 15 2.30 2.4e-08 4.1e-05 4.39 1 0 75 agcggc agcggc|gccgct 0.0002271654096 12 1.41 3.6e-08 6.1e-05 4.22 2 0 60 agtcaa agtcaa|ttgact 0.0004778477646 15 2.97 5.9e-07 1.0e-03 3.00 3 0 75 gctgga gctgga|tccagc 0.0003217305066 11 2.00 8.3e-06 1.4e-02 1.85 4 0 55 agccgc agccgc|gcggct 0.0002162648166 9 1.34 1.2e-05 2.0e-02 1.69 5 0 45 aatcgt aatcgt|acgatt 0.0002258928636 8 1.40 0.00011 1.9e-01 0.73 6 0 40 atacga atacga|tcgtat 0.0003677637246 10 2.29 0.00014 2.3e-01 0.63 7 0 50 gaatac gaatac|gtattc 0.0006870278346 14 4.27 0.00015 2.5e-01 0.60 8 0 70 agggta agggta|taccct 0.0006534727746 13 4.06 0.00031 5.4e-01 0.27 9 1 65 agggag agggag|ctccct 0.0005924073966 12 3.68 0.00045 7.7e-01 0.11 10 0 60 aatacg aatacg|cgtatt 0.0005098574346 11 3.17 0.00046 7.8e-01 0.11 11 0 55 ; Host name rsat ; Job started 2026-06-17.141420 ; Job done 2026-06-17.141421 ; Seconds 0.39 ; user 0.39 ; system 0.02 ; cuser 0.08 ; csystem 0.01 ; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.141420_XRUSe9.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -2str -noov -quick_if_possible -seqtype dna -markov 2 -pseudo 0.01 -l 7 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_7nt.tab ; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. ; Program version 1.169 ; Quick 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_2026-06-17.141420_XRUSe9.fasta.purged ; Input format fasta ; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_7nt.tab ; Discard overlapping matches ; Counted on both strands ; grouped by pairs of reverse complements ; Background model Markov ; Background estimation method Markov model estimated from input sequences ; Markov chain order 2 ; Pseudo-frequency 0.01 ; Pseudo-frequency per oligo 1.220703125e-06 ; Sequence type DNA ; Nb of sequences 1 ; Sum of sequence lengths 6935 ; discarded residues NA (quick mode) (other letters than ACGT) ; discarded occurrences NA (quick mode) (contain discarded residues) ; nb possible positions NA (quick mode) ; total oligo occurrences 6211 ; total overlapping occurrences 43 ; total non overlapping occ 6168 ; alphabet size 4 ; nb possible oligomers 8192 ; oligomers tested for significance 3673 ; Sequences: ; 2-UTseq835-UTL128-PhiB002 6935 ; ; 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 gtcaaca gtcaaca|tgttgac 0.0001267308572 9 0.79 1.6e-07 5.8e-04 3.24 1 0 54 agtcaac agtcaac|gttgact 0.0000975294213 8 0.61 2.6e-07 9.6e-04 3.02 2 0 48 aagtcaa aagtcaa|ttgactt 0.0001364590922 9 0.85 2.9e-07 1.1e-03 2.97 3 0 54 agccgct agccgct|agcggct 0.0000764079692 7 0.47 7.1e-07 2.6e-03 2.58 4 0 42 aatacga aatacga|tcgtatt 0.0000997652372 7 0.62 4e-06 1.5e-02 1.83 5 0 42 acgattc acgattc|gaatcgt 0.0000487651893 5 0.30 1.6e-05 6.1e-02 1.22 6 0 30 ctgacaa ctgacaa|ttgtcag 0.0001367305502 7 0.85 3e-05 1.1e-01 0.96 7 0 42 gagcggc gagcggc|gccgctc 0.0000580904646 5 0.36 3.8e-05 1.4e-01 0.86 8 0 30 aacgatt aacgatt|aatcgtt 0.0000639462452 5 0.40 5.9e-05 2.2e-01 0.66 9 0 30 cccgccg cccgccg|cggcggg 0.0000335818958 4 0.21 6.7e-05 2.5e-01 0.61 10 0 24 cgtattc cgtattc|gaatacg 0.0001165003953 6 0.72 0.00011 3.9e-01 0.40 11 0 36 cggcaac cggcaac|gttgccg 0.0000388153923 4 0.24 0.00012 4.3e-01 0.37 12 0 24 attgtca attgtca|tgacaat 0.0001820885883 7 1.13 0.00018 6.4e-01 0.19 13 0 42 atacgat atacgat|atcgtat 0.0000853574703 5 0.53 0.00022 8.3e-01 0.08 14 0 30 tccagca tccagca|tgctgga 0.0000857427783 5 0.53 0.00023 8.4e-01 0.07 15 0 30 gtgttga gtgttga|tcaacac 0.0001360987323 6 0.85 0.00025 9.1e-01 0.04 16 0 36 ; Host name rsat ; Job started 2026-06-17.141421 ; Job done 2026-06-17.141422 ; Seconds 0.63 ; user 0.63 ; system 0.01 ; cuser 0.09 ; csystem 0.01 ; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.141420_XRUSe9.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -2str -noov -quick_if_possible -seqtype dna -markov 2 -pseudo 0.01 -l 8 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_8nt.tab ; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. ; Program version 1.169 ; Quick 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_2026-06-17.141420_XRUSe9.fasta.purged ; Input format fasta ; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.141420_y6Waxm_8nt.tab ; Discard overlapping matches ; Counted on both strands ; grouped by pairs of reverse complements ; Background model Markov ; Background estimation method Markov model estimated from input sequences ; Markov chain order 2 ; Pseudo-frequency 0.01 ; Pseudo-frequency per oligo 3.03988326848249e-07 ; Sequence type DNA ; Nb of sequences 1 ; Sum of sequence lengths 6935 ; discarded residues NA (quick mode) (other letters than ACGT) ; discarded occurrences NA (quick mode) (contain discarded residues) ; nb possible positions NA (quick mode) ; total oligo occurrences 6206 ; total overlapping occurrences 16 ; total non overlapping occ 6190 ; alphabet size 4 ; nb possible oligomers 32896 ; oligomers tested for significance 5121 ; Sequences: ; 2-UTseq835-UTL128-PhiB002 6935 ; ; 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 gtcaacac gtcaacac|gtgttgac 0.0000261471057 6 0.16 2.2e-08 1.1e-04 3.95 1 0 42 aagtcaac aagtcaac|gttgactt 0.0000276250767 6 0.17 3e-08 1.6e-04 3.81 2 0 42 agtcaaca agtcaaca|tgttgact 0.0000329716707 6 0.20 8.5e-08 4.4e-04 3.36 3 0 42 attgtcag attgtcag|ctgacaat 0.0000349121697 5 0.22 3.3e-06 1.7e-02 1.77 4 0 35 aaagtcaa aaagtcaa|ttgacttt 0.0000435166557 5 0.27 9.6e-06 4.9e-02 1.31 5 0 35 gaatacga gaatacga|tcgtattc 0.0000231222003 4 0.14 1.6e-05 8.1e-02 1.09 6 0 28 cccgccgc cccgccgc|gcggcggg 0.0000095527643 3 0.06 3.3e-05 1.7e-01 0.77 7 0 21 aacgattc aacgattc|gaatcgtt 0.0000137474052 3 0.09 9.7e-05 5.0e-01 0.30 8 0 21 cgttttaa cgttttaa|ttaaaacg 0.0000411004617 4 0.26 0.00014 7.4e-01 0.13 9 0 28 acgattca acgattca|tgaatcgt 0.0000165203853 3 0.10 0.00017 8.5e-01 0.07 10 0 21 ; Host name rsat ; Job started 2026-06-17.141422 ; Job done 2026-06-17.141423 ; Seconds 1.26 ; user 1.26 ; system 0.06 ; cuser 0.1 ; csystem 0.01