Database and Motifs High-scoring Motif Occurences Debugging Information


FIMO - Motif search tool

FIMO version 4.12.0, (Release date: Tue Jun 27 16:22:50 2017 -0700)

For further information on how to interpret these results or to get a copy of the FIMO software please access http://meme.nbcr.net

If you use FIMO in your research, please cite the following paper:
Charles E. Grant, Timothy L. Bailey, and William Stafford Noble, "FIMO: Scanning for occurrences of a given motif", Bioinformatics, 27(7):1017-1018, 2011. [full text]

DATABASE AND MOTIFS

DATABASE /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/BY4742--NOT3.fa
Database contains 513 sequences, 171825 residues

MOTIFS /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/dreme_out/dreme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
AGTYGGTW 8 AGTTGGTT
CCRTACAY 8 CCATACAT
GGTTCRA 7 GGTTCGA
ACCACTM 7 ACCACTA
CGCSTTA 7 CGCCTTA
ATGGCAWC 8 ATGGCAAC
ATGGGNG 7 ATGGGTG
GCGCTHCC 8 GCGCTACC
AAGAAAWA 8 AAGAAAAA
ATMCAAC 7 ATACAAC
CCASAC 6 CCACAC
GRTCTCCA 8 GGTCTCCA
CYATGGCC 8 CTATGGCC
AATCTTYT 8 AATCTTTT
GCGCAAK 7 GCGCAAG
AGTCAKAC 8 AGTCATAC
AAGRTTAG 8 AAGGTTAG
AAGCGWGA 8 AAGCGTGA
CCAASAG 7 CCAAGAG
CCGTGMTA 8 CCGTGATA
GGCTAYC 7 GGCTATC
CGCGRGC 7 CGCGAGC
GCGTGCSA 8 GCGTGCGA
ACTSACG 7 ACTGACG

Random model letter frequencies (/srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/background):
A 0.305 C 0.195 G 0.195 T 0.305

SECTION I: HIGH-SCORING MOTIF OCCURENCES
Motif ID Alt ID Sequence Name Strand Start End p-value q-value Matched Sequence
AAGAAAWA DREME-9 chrII + 36431 36438 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII + 48877 48884 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII + 62685 62692 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXI + 74604 74611 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 83628 83635 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII + 85270 85277 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII - 88119 88126 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 88168 88175 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXV + 94587 94594 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVI - 101348 101355 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII - 104109 104116 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII + 116037 116044 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIII - 123724 123731 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIII + 124480 124487 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIII - 127793 127800 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrV + 135324 135331 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrV - 135398 135405 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrV - 135498 135505 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 135646 135653 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIII + 142662 142669 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII - 149022 149029 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII - 149062 149069 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVI - 157965 157972 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 159842 159849 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 159848 159855 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 159867 159874 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXI - 162685 162692 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII + 167925 167932 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII + 167931 167938 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIX - 175106 175113 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrI - 181258 181265 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII - 197459 197466 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII - 197459 197466 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 205360 205367 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVI - 221832 221839 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVI + 221985 221992 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVI - 223972 223979 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXV + 226519 226526 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVI - 226826 226833 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIII - 227810 227817 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV + 230462 230469 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII - 237897 237904 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII - 241737 241744 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI + 281677 281684 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 281795 281802 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIII - 290899 290906 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIII - 297006 297013 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 302886 302893 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXI + 308092 308099 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIX - 318044 318051 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIX - 325824 325831 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI + 338831 338838 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV + 341484 341491 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrV + 355097 355104 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII - 358527 358534 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIII - 363041 363048 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIII + 363156 363163 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIV + 374902 374909 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXI + 382254 382261 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX + 390993 391000 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX - 391184 391191 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX + 391254 391261 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX - 392104 392111 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX + 396893 396900 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 401471 401478 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 404736 404743 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII - 405635 405642 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX - 415044 415051 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 415637 415644 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII - 415776 415783 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX - 422910 422917 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 434095 434102 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 440589 440596 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII - 440765 440772 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIV - 442985 442992 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 477339 477346 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 477371 477378 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVIII - 488345 488352 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrV + 492338 492345 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIV - 499481 499488 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII - 504551 504558 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXV + 505384 505391 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV + 519646 519653 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 521070 521077 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII + 522206 522213 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX + 523918 523925 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII - 541926 541933 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 544565 544572 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII - 555396 555403 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 560138 560145 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 560247 560254 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 572397 572404 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXI + 579094 579101 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXI - 579182 579189 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 579262 579269 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII - 592680 592687 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX - 607857 607864 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX - 607865 607872 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 622589 622596 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIV - 632675 632682 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 642967 642974 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII - 645262 645269 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrII + 682006 682013 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI + 700338 700345 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX + 703378 703385 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrX + 703397 703404 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXV - 710295 710302 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII + 710706 710713 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 744440 744447 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII - 774225 774232 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXV - 779943 779950 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXVI - 794690 794697 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIII - 808151 808158 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXIII - 808317 808324 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXV - 866776 866783 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII - 876471 876478 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 920102 920109 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII + 921865 921872 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 930942 930949 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII + 932427 932434 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 1000391 1000398 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII + 1000401 1000408 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrVII - 1004191 1004198 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXII - 1028431 1028438 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 1095419 1095426 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 1095609 1095616 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 1305769 1305776 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrIV - 1461786 1461793 4.77e-05 0.123 AAGAAAAA
AAGAAAWA DREME-9 chrXI + 67880 67887 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXII - 92736 92743 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrV + 99980 99987 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrV - 117864 117871 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrV + 118184 118191 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrIV + 125597 125604 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrIV + 125597 125604 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVIII - 126179 126186 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVIII - 149128 149135 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVI + 167376 167383 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVI - 167597 167604 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVI - 181045 181052 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrI + 181175 181182 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrII - 197700 197707 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrII - 197700 197707 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrIX + 210783 210790 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXII - 241855 241862 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXI - 303069 303076 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrII + 332506 332513 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXIII + 352313 352320 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrIV + 359743 359750 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVIII + 389112 389119 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrX - 391117 391124 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrX + 396706 396713 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVII + 423126 423133 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXVI + 435755 435762 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVII + 440571 440578 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXIV + 443040 443047 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXI + 458591 458598 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrV + 469445 469452 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrV - 469581 469588 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrIV - 489013 489020 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXIII + 504929 504936 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrX - 538529 538536 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrX + 542897 542904 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVII + 544647 544654 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrIV - 580025 580032 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXV - 710066 710073 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXII + 732002 732009 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVII - 736467 736474 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrXVI + 810605 810612 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVII + 857312 857319 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrVII - 857448 857455 9.54e-05 0.183 AAGAAATA
AAGAAAWA DREME-9 chrIV + 1257141 1257148 9.54e-05 0.183 AAGAAATA
DEBUGGING INFORMATION

Command line: 

/software/meme/4.12.0/bin/fimo --parse-genomic-coord --verbosity 1 --oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/fimo_out_8 --bgfile /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/background --motif AAGAAAWA /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/dreme_out/dreme.xml /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/BY4742--NOT3.fa

Settings: 


  

    output_directory = /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/fimo_out_8
    MEME file name = /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/dreme_out/dreme.xml
    sequence file name = /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/BY4742--NOT3.fa
  
  

    background file name = /srv/www/kundaje/amr1/yeastvar/meme_results/results/aa_results/BY4742--NOT3/background
    alphabet = DNA
    max stored scores = 100000
  
  

    allow clobber = true
    compute q-values = true
    parse genomic coord. = true
  

  

    text only = false
    scan both strands = true
    max strand = false
  

  

    threshold type = p-value
    output theshold = 0.0001
    pseudocount = 0.1
  

  

    alpha = 1
    verbosity = 1

This information can be useful in the event you wish to report a problem with the FIMO software.

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