The name of the alphabet symbol.
The frequency of the alphabet symbol as defined by the background model.
MEME-ChIP outputs a tab-separated values (TSV) file ('summary.tsv') that contains one line for each motif found by MEME-ChIP. The lines are sorted in order of decreasing statistical significance. The first line in the file contains the (tab-separated) names of the fields. Your command line is given at the end of the file in a comment line starting with the character '#'. The names and meanings of the fields in the are described in the table below.
field | name | contents |
---|---|---|
1 | MOTIF_INDEX | The index of the motif in the "Motifs in MEME text format" file ('combined.meme') output by MEME-ChIP. |
2 | MOTIF_SOURCE | The name of of the program that found the de novo motif, or the name of a file of motifs ("motif database file") that contains the motif. |
3 | MOTIF_ID | The name of the motif, which is unique in the motif discovery program output or in the motif database file. |
4 | ALT_ID | An alternate name for the motif that may be provided in the motif discovery program output or in the motif database file. |
5 | CONSENSUS | The ID of the de novo motif, or a consensus sequence computed from the letter frequencies in the known motif (as described below). |
6 | WIDTH | The width of the motif. |
7 | SITES | The number of sites reported by the de novo program, or the number of "Total Matches" reported by CentriMo. |
8 | E-VALUE | The statistical significance of the motif. |
9 | E-VALUE_SOURCE | The program that reported the E-value. |
10 | MOST_SIMILAR_MOTIF | The known motif most similar to this motif according to Tomtom. |
11 | URL | A link to a description of the most similar motif, or to the known motif. |
A consensus sequence is constructed from each column in a motif's frequency matrix using the "50% rule" as follows:
MEME-ChIP outputs a text file ('combined.meme') containing all the significant motifs found by MEME-ChIP. The motifs are in Minimal MEME Motif format, and their IDs correspond to the motif indices given in the "Summary in TSV Format" file ('summary.tsv').
Note: The 'nsites=' and 'E=' fields in the motif headers are only relevant for the MEME and DREME motifs. For known motifs, those values do not refer to the number of sites in the input sequences.This is a link to the motif in the output of the particular motif discovery (e.g., MEME) or motif enrichment (e.g., CentriMo) program that reported it.
This is the significance of the motif according to the particular motif discovery (e.g., MEME) or motif enrichment (e.g., CentriMo) program that reported it.
Follow the link under the "Discovery/Enrichment Program" column for more information on how the significance value was derived.
Motifs reported by a motif discovery program (e.g., MEME) are compared with known motifs in a motif database specified by the user. This column lists the (up to) three most similar motifs. Only known motifs with TOMTOM similarity E-values of less than 1.0 to the discovered motif will be shown here. Clicking any of these links will show the TOMTOM results where all alignments can be viewed.
Motifs reported by a motif enrichment program (e.g., CentriMo) list the motif's name and a link to the motif's entry on the database website if it is available.
This graph shows the distribution of the best matches to the motif in the sequences as found by a CentriMo analysis.
The vertical line in the center of the graph corresponds to the center of the sequences.
Clicking on a motif's graph will take you to the CentriMo output with that motif selected for graphing.
Clicking here will show you all the motifs found by motif discovery or motif enrichment analysis that are significantly similar to the reported motif.
The additional motifs are shown aligned with the reported motif, sorted in order of significance of the motif according to the particular motif discovery (e.g., MEME) or motif enrichment (e.g., CentriMo) program that reported it.
To cluster the motifs MEME-ChIP does the following:
Clicking here takes you to the CentriMo motif enrichment analysis with the results for this all the motifs in this group.
This lists links to related content, which may include:
For further information on how to interpret these results please access
https://meme-suite.org/meme/doc/meme-chip-output-format.html.
To get a copy of the MEME software please access
https://meme-suite.org.
If you use MEME-ChIP in your research, please cite the following paper:
Philip Machanick and Timothy L. Bailey,
"MEME-ChIP: motif analysis of large DNA datasets",
Bioinformatics 27(12):1696-1697, 2011.
[full text]
The significant motifs (E-value ≤ 0.05) found by the programs MEME, STREME and CentriMo; clustered by similarity and ordered by E-value.
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 2.0e-110 | Mot3p (Mot3p&consensus=WAGGTA) | |||
CentriMo | 5.1e-106 | Mot3p (Mot3p&consensus=AAGGKA) | |||
CentriMo | 3.9e-056 | Mot3p (Mot3p&consensus=TAGGTA) | |||
CentriMo | 1.4e-039 | MOT3 | |||
CentriMo | 4.9e-015 | Gis1p (Gis1p&consensus=TWAGGGAT) | |||
CentriMo | 7.4e-015 | Ecm22p (Ecm22p&consensus=TCGTWCCT) | |||
CentriMo | 3.8e-012 | Rtg1p (Rtg1p&consensus=GGTAC) | |||
CentriMo | 3.8e-012 | Rtg3p (Rtg3p&consensus=GGTAC) | |||
CentriMo | 1.1e-003 | Cad1p (Cad1p&consensus=TTABGTAA) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
MEME | 1.5e-062 | ||||
CentriMo from STREME | 4.0e-006 |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 2.8e-058 | Mot3p (Mot3p&consensus=AAGGWT) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo from STREME | 8.9e-055 | Arg80p (Arg80p&consensus=CCTCTAAAGG) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.5e-037 | Nrg2p (Nrg2p&consensus=HAGGGtcB) | |||
CentriMo | 3.1e-026 | NRG1 | |||
CentriMo | 1.5e-022 | Nrg1p (Nrg1p&consensus=ggaCCCt) | |||
CentriMo | 9.4e-018 | YER130C (YER130C&consensus=DAWAGGGG) | |||
CentriMo | 3.2e-014 | Nrg2p (Nrg2p&consensus=BHAGGGtc) | |||
CentriMo | 7.3e-014 | ||||
CentriMo | 5.0e-010 | ||||
CentriMo | 6.5e-009 | Nrg2p (Nrg2p&consensus=MAGGGTCC) | |||
CentriMo | 6.2e-007 | MSN2 | |||
CentriMo | 3.5e-005 | Nrg1p (Nrg1p&consensus=gcVxWGGACCCTKatxxxg) | |||
CentriMo | 5.6e-005 | Rph1p (Rph1p&consensus=tWAGGGGt) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo from STREME | 6.8e-036 |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.2e-027 | Reb1p (Reb1p&consensus=cMGGGTAAc) | |||
CentriMo | 1.5e-021 | Reb1p (Reb1p&consensus=cMGGGTAA) | |||
CentriMo | 4.5e-019 | Reb1p (Reb1p&consensus=MGGGTAAB) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.8e-027 | Msn2p (Msn2p&consensus=agGRRB) | |||
CentriMo | 3.9e-023 | Msn2p (Msn2p&consensus=agGgRB) | |||
CentriMo | 1.9e-014 | Msn2p (Msn2p&consensus=aGGRg) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo from STREME | 5.0e-026 | ||||
CentriMo | 1.0e-013 | Mot3p (Mot3p&consensus=AAGAGG) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 4.6e-022 | NDD1 |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.8e-018 | MSN4 | |||
CentriMo | 1.6e-014 | ||||
CentriMo | 6.5e-012 | ||||
CentriMo | 2.4e-008 | Rph1 (UP00348_1) | |||
CentriMo | 2.9e-008 | ||||
CentriMo | 2.7e-007 | ||||
CentriMo | 6.9e-004 | Yer130c (UP00284_1) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 2.3e-016 | Aft1p (Aft1p&consensus=RGGTGYa) | |||
CentriMo | 8.6e-015 | RCS1 | |||
CentriMo | 2.1e-011 | AFT2 | |||
CentriMo | 6.3e-010 | Aft2p (Aft2p&consensus=gGGTGY) | |||
CentriMo | 2.7e-007 | Aft1p (Aft1p&consensus=cgGGTGYa) | |||
CentriMo | 3.0e-005 | Aft2p (Aft2p&consensus=gGGTGYg) | |||
CentriMo | 4.5e-002 | Rap1p (Rap1p&consensus=gGRtGtacgg) | |||
CentriMo | 4.9e-002 | Aft1p (Aft1p&consensus=gGGTGYac) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
MEME | 2.6e-016 | RAP1 Rap1p (Rap1p&consensus=ACACCCRYACAY) RAP1 | Not Centrally Enriched | ||
MEME | 2.6e-012 | Rap1p (Rap1p&consensus=ACACCCRYACAY) Rap1p (Rap1p&consensus=ACACCCAYACAYYY) RAP1 | Not Centrally Enriched |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 2.9e-015 | OPI1 |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 9.0e-015 | Zap1p (Zap1p&consensus=aTAACC) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.2e-013 | ||||
CentriMo | 5.8e-006 | Mga1p (Mga1p&consensus=TTCBxt) | |||
CentriMo | 1.6e-002 | Sfl1 (UP00320_1) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.6e-013 | Mot3p (Mot3p&consensus=TAGGAT) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 4.1e-011 | Yap3p (Yap3p&consensus=agGTAATT) | |||
CentriMo | 1.4e-005 | Cad1p (Cad1p&consensus=aBGTAATT) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.2e-008 | TEC1 | |||
CentriMo | 4.0e-004 | Tec1p (Tec1p&consensus=CATTCC) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 3.5e-007 | Hsf1p (Hsf1p&consensus=NGAANNTTCN) | |||
CentriMo | 9.1e-004 | Skn7p (Skn7p&consensus=AGAACGTTC) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 7.9e-007 | PHD1 | |||
CentriMo | 1.7e-006 | SOK2 |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.7e-006 | Gat1p (Gat1p&consensus=cVcGATAAGVaDa) | |||
CentriMo | 6.9e-005 | GZF3 | |||
CentriMo | 3.8e-004 | GLN3 | |||
CentriMo | 2.1e-003 | Gat1 (UP00287_1) | |||
CentriMo | 2.5e-003 | Dal80p (Dal80p&consensus=GATAAGN{15,20}GATAAG) | |||
CentriMo | 2.5e-003 | Gat1p (Gat1p&consensus=GATAAG) | |||
CentriMo | 2.5e-003 | Gln3p (Gln3p&consensus=GATAAG) | |||
CentriMo | 2.5e-003 | Gzf3p (Gzf3p&consensus=GATAAG) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 1.4e-004 | Nrg1 (UP00270_1) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 2.1e-004 | Rap1p (Rap1p&consensus=gggxxggGA) | |||
CentriMo | 1.1e-002 | YER130C (YER130C&consensus=gRDDVBgg) |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 2.9e-004 | RME1 |
Motif Found | Discovery/Enrichment Program | E-value | Known or Similar Motifs | Distribution | SpaMo & FIMO |
---|---|---|---|---|---|
CentriMo | 3.3e-002 | Upc2p (Upc2p&consensus=TCGTWCC) |
Command | Running Time | Status | Outputs |
---|---|---|---|
getsize GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa 1> $metrics | 0.05s | Success | |
fasta-most -min 50 < GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa 1> $metrics | 0.06s | Success | |
fasta-center -dna -len 100 < GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa 1> GSM2679374-150313_ACH11-150202_KOH_meme-chip/seqs-centered | 0.12s | Success | |
fasta-get-markov -nostatus -nosummary -dna -m 2 GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa GSM2679374-150313_ACH11-150202_KOH_meme-chip/background | 0.05s | Success | |
meme GSM2679374-150313_ACH11-150202_KOH_meme-chip/seqs-centered -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out -mod zoops -nmotifs 3 -minw 6 -maxw 15 -bfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background -dna -searchsize 100000 -p 24 -revcomp -nostatus | 54.11s | Success | |
streme --verbosity 1 --oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out -dna --p GSM2679374-150313_ACH11-150202_KOH_meme-chip/seqs-centered --minw 6 --maxw 15 --order 2 --thresh 0.05 --totallength 4000000 | 12.42s | Success | |
centrimo -seqlen 400 -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/centrimo_out -bfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background -score 5.0 -ethresh 10.0 GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/yeast_uniprobe_GR09.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/YEASTRACT_20130918.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/macisaac_yeast.v1.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/SwissRegulon_s_cer.meme | 11.33s | Warnings | |
tomtom -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_tomtom_out -min-overlap 5 -dist pearson -evalue -thresh 1 -no-ssc GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/yeast_uniprobe_GR09.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/YEASTRACT_20130918.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/macisaac_yeast.v1.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/SwissRegulon_s_cer.meme | 4.11s | Success | |
tomtom -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_tomtom_out -min-overlap 5 -dist pearson -evalue -thresh 1 -no-ssc GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/yeast_uniprobe_GR09.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/YEASTRACT_20130918.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/macisaac_yeast.v1.meme /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/SwissRegulon_s_cer.meme | 3.71s | Success | |
tomtom -verbosity 1 -text -thresh 0.1 GSM2679374-150313_ACH11-150202_KOH_meme-chip/combined.meme GSM2679374-150313_ACH11-150202_KOH_meme-chip/combined.meme 1> GSM2679374-150313_ACH11-150202_KOH_meme-chip/motif_alignment.txt | 3.27s | Success | |
spamo -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/spamo_out_1 -bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background -keepprimary -primary TCHTCWTCTTCHTC GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml | 0.62s | Success | |
spamo -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/spamo_out_2 -bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background -keepprimary -primary 2-CCTTTA GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml | 0.28s | Success | |
spamo -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/spamo_out_3 -bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background -keepprimary -primary 5-AAAAGGTTCAACA GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml | 0.38s | Success | |
spamo -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/spamo_out_4 -bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background -keepprimary -primary 4-AGAGGTAGDG GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml | 0.44s | Success | |
spamo -verbosity 1 -oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/spamo_out_5 -bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background -keepprimary -primary CACCCACACCCACAC GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml | 0.35s | Success | |
fimo --parse-genomic-coord --verbosity 1 --oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/fimo_out_1 --bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background --motif TCHTCWTCTTCHTC GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa | 0.59s | Success | |
fimo --parse-genomic-coord --verbosity 1 --oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/fimo_out_2 --bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background --motif 2-CCTTTA GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa | 0.47s | Success | |
fimo --parse-genomic-coord --verbosity 1 --oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/fimo_out_3 --bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background --motif 5-AAAAGGTTCAACA GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa | 0.51s | Success | |
fimo --parse-genomic-coord --verbosity 1 --oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/fimo_out_4 --bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background --motif 4-AGAGGTAGDG GSM2679374-150313_ACH11-150202_KOH_meme-chip/streme_out/streme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa | 0.49s | Success | |
fimo --parse-genomic-coord --verbosity 1 --oc GSM2679374-150313_ACH11-150202_KOH_meme-chip/fimo_out_5 --bgfile GSM2679374-150313_ACH11-150202_KOH_meme-chip/background --motif CACCCACACCCACAC GSM2679374-150313_ACH11-150202_KOH_meme-chip/meme_out/meme.xml GSM2679374-150313_ACH11-150202_KOH_meme-chip/GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa | 0.57s | Success |
Background source: built from the (primary) sequences
Name | Bg. | Bg. | Name | |||
---|---|---|---|---|---|---|
Adenine | 0.307 | A | ~ | T | 0.307 | Thymine |
Cytosine | 0.193 | C | ~ | G | 0.193 | Guanine |
Database | Source | Sequence Count |
---|---|---|
GSM2679374-150313 ACH11-150202 KOH.sacCer3.summits 200 | GSM2679374-150313_ACH11-150202_KOH.sacCer3.summits_200.fa | 942 |
Database | Source | Motif Count |
---|---|---|
yeast uniprobe GR09 | /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/yeast_uniprobe_GR09.meme | 89 |
YEASTRACT 20130918 | /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/YEASTRACT_20130918.meme | 732 |
macisaac yeast.v1 | /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/macisaac_yeast.v1.meme | 124 |
SwissRegulon s cer | /sibcb1/wuweilab1/liangyu/meme/motif_databases/YEAST/SwissRegulon_s_cer.meme | 158 |