RSAT - peak-motifs result

Analysis: Gordonia_ (21/04/2026 08:47)

peak-motifs  -v 1 -title Gordonia_ -i $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.084651_2026-04-21.084651_UJSE1l/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -minol 6 -maxol 7 -no_merge_lengths -2str -origin center -scan_markov 1 -task purge,seqlen,composition,disco,merge_motifs,split_motifs,motifs_vs_motifs,timelog,archive,synthesis,small_summary,scan -prefix peak-motifs -noov -img_format png -outdir $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.084651_2026-04-21.084651_UJSE1l

motif discovery
oligos_6nt_mkv1	oligos_6nt_mkv1_m1 assembly: cagcag (sig=0.90; e-value=0.13) RC: ctgctg oligos_6nt_mkv1_m2 assembly: gagagga (sig=0.58; e-value=0.26) RC: tcctctc oligos_6nt_mkv1_m3 assembly: aaggag (sig=0.31; e-value=0.49) RC: ctcctt oligos_6nt_mkv1_m4 assembly: atcggg (sig=0.07; e-value=0.85) RC: cccgat oligos_6nt_mkv1_m5 assembly: acgtag (sig=0.06; e-value=0.87) RC: ctacgt	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
positions_6nt	Not a single significant pattern	[positions_6nt]
oligos_7nt_mkv1	oligos_7nt_mkv1_m1 assembly: cgagaggaa (sig=2.22; e-value=0.006) RC: ttcctctcg oligos_7nt_mkv1_m2 assembly: cagatca (sig=1.32; e-value=0.048) RC: tgatctg oligos_7nt_mkv1_m3 assembly: agcagcag (sig=0.40; e-value=0.4) RC: ctgctgct oligos_7nt_mkv1_m4 assembly: cccgatc (sig=0.25; e-value=0.56) RC: gatcggg oligos_7nt_mkv1_m5 assembly: cgcgtac (sig=0.07; e-value=0.85) RC: gtacgcg	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
positions_7nt	Not a single significant pattern	[positions_7nt]

Motif discovery
Motif 1   oligos_6nt_mkv1_m1	k-mer sig=0.90; evalue=0.13 WyCAGCAsrW WYSTGCTGRW	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 3 (8.33%) Max nb of predicted sites per peak: 1  (GENE73) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_6nt_mkv1_m2	k-mer sig=0.58; evalue=0.26 hhGAGAGGAms SKTCCTCTCDD	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 3 (8.33%) Max nb of predicted sites per peak: 1  (GENE74) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_6nt_mkv1_m3	k-mer sig=0.31; evalue=0.49 cgAAGGAGwW WWCTCCTTCG	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 4 (11.11%) Max nb of predicted sites per peak: 1  (GENE85) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_6nt_mkv1_m4	k-mer sig=0.07; evalue=0.85 tkATCGGggk MCCCCGATMA	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 3 (8.33%) Max nb of predicted sites per peak: 1  (GENE70) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_6nt_mkv1_m5	k-mer sig=0.06; evalue=0.87 TsACgTAGrt AYCTACGTSA	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 4 (11.11%) Max nb of predicted sites per peak: 1  (GENE86) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 6   oligos_7nt_mkv1_m1	k-mer sig=2.22; evalue=0.006 wtCGAGAGGAAsm KSTTCCTCTCGAW	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 4 (11.11%) Max nb of predicted sites per peak: 1  (GENE74) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 7   oligos_7nt_mkv1_m2	k-mer sig=1.32; evalue=0.048 hyCAGmTCAmc GKTGAKCTGRD	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 3 (8.33%) Max nb of predicted sites per peak: 1  (GENE73) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 8   oligos_7nt_mkv1_m3	k-mer sig=0.40; evalue=0.4 CAAGGAGCAGCA TGCTGCTCCTTG	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (2.78%) Max nb of predicted sites per peak: 1  (GENE54) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 9   oligos_7nt_mkv1_m4	k-mer sig=0.25; evalue=0.56 rsCCCGATCYT ARGATCGGGSY	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 3 (8.33%) Max nb of predicted sites per peak: 1  (GENE70) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 10   oligos_7nt_mkv1_m5	k-mer sig=0.07; evalue=0.85 GCCGCGTACTG CAGTACGCGGC	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (2.78%) Max nb of predicted sites per peak: 1  (GENE71) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title Gordonia_ -i $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.084651_2026-04-21.084651_UJSE1l/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -minol 6 -maxol 7 -no_merge_lengths -2str -origin center -scan_markov 1 -task purge,seqlen,composition,disco,merge_motifs,split_motifs,motifs_vs_motifs,timelog,archive,synthesis,small_summary,scan -prefix peak-motifs -noov -img_format png -outdir $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.084651_2026-04-21.084651_UJSE1l

Warning: Not a single pattern was found in file tmp/www-data/2026/04/21/peak-motifs.2026-04-21.084651_2026-04-21.084651_UJSE1l/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2026/04/21/peak-motifs.2026-04-21.084651_2026-04-21.084651_UJSE1l/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab