Database and Motifs High-scoring Motif Occurences Debugging Information


FIMO - Motif search tool

FIMO version 4.11.2, (Release date: Thu May 05 14:58:55 2016 -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 /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/dataset_0433b312-4bb7-4baf-9bee-50805a39f697.dat
Database contains 0 sequences, 0 residues

MOTIFS /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/meme_out/meme.xml (DNA)

MOTIF WIDTH BEST POSSIBLE MATCH
1 21 CCTTATCTGTCCCGCGCAGGC
2 10 TTCCCTTTCT
3 15 TGGCCACAGGCGGCT

Random model letter frequencies (/data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/background):
A 0.237 C 0.263 G 0.263 T 0.237

SECTION I: HIGH-SCORING MOTIF OCCURENCES
Motif Sequence Name Strand Start End p-value q-value Matched Sequence
1 chr19 - 10173181 10173201 9.89e-10 2.76e-05 CCTTATCTGGGGTGAGCAGAC
1 chr8 - 122720549 122720569 1.03e-08 0.000125 CTTTATCTTGCCCGCGCAGGC
1 chr16 + 92801738 92801758 1.8e-08 0.000125 CGTTATCAGTGGCGCGCAGGC
1 chr19 + 24452704 24452724 1.92e-08 0.000125 GCTTATCTGAGGAGCACAGAC
1 chr4 - 115048353 115048373 2.24e-08 0.000125 CGTTATCTTATTTCCGCAGGC
1 chr11 + 32245857 32245877 4.98e-08 0.000216 GCTTATCTCACCCCTGCAGTC
1 chr19 - 32272702 32272722 5.42e-08 0.000216 CGTTATCAGTGGAGAGCAGGC
1 chr19 + 40818904 40818924 7.12e-08 0.000249 GCTTATCTTTCTTGTGCAAAC
1 chr19 + 17323547 17323567 1.02e-07 0.000317 CCTTATCTCACAAGAACAGCT
1 chr4 + 115056685 115056705 2.46e-07 0.000644 CCTTATCTCGGCGGCGCACAC
1 chr6 - 88203185 88203205 2.74e-07 0.000644 CCTTATCTACCGGCTGCAGAT
1 chr19 - 46984121 46984141 2.77e-07 0.000644 TGTTATCTCACCCCTGCAGAG
1 chr19 - 24513274 24513294 3.02e-07 0.000649 CATTATCTCCTCTCTGCAGAT
1 chr19 + 5798819 5798839 4.52e-07 0.000756 ACTTATCTGTCAACAGCAGTC
1 chr19 + 10661531 10661551 4.52e-07 0.000756 TCTTATCTCTGTTTTCCAGAT
1 chr8 + 122666476 122666496 4.52e-07 0.000756 GCTTATCTAAGCCTGGCAGCC
1 chr19 + 24513241 24513261 4.6e-07 0.000756 CTttatctcgcctctgccggc
1 chr19 - 61207654 61207674 5.08e-07 0.000789 TCTTATCTTTTATGGCCAGTC
1 chr19 - 34656657 34656677 8.98e-07 0.00132 TCTTATCTGCTACACACAGAT
1 chr19 + 32238854 32238874 9.91e-07 0.00138 TTTTATCTGTCATGCACACAT
1 chr8 - 122719926 122719946 1.35e-06 0.0018 GGTTATCTTCTTCTCACAGAC
1 chr19 - 34656597 34656617 1.72e-06 0.00218 TCTTATCTGTTAAAGACAGCT
1 chr19 - 29064579 29064599 2.02e-06 0.00246 CCCTATCAGTCACTTGCACGC
1 chr19 - 44197246 44197266 3.64e-06 0.00424 TCTTATCTTTCCTGCCCATGA
1 chr19 - 10060467 10060487 6e-06 0.00671 CTTTATCTCCCCACCGCCAGC
1 chrX - 7971488 7971508 6.26e-06 0.00673 CCTTATCTATGCCTTCCCAGC
1 chr8 - 122666494 122666514 6.66e-06 0.00689 TATCATCTCCCAAGCGCAGGC
1 chr19 + 5798777 5798797 7.86e-06 0.00784 ACTTATCTATCCCTAACATGC
1 chr19 - 21436777 21436797 8.14e-06 0.00784 CTTTATCTGTTTCAGTCAGCT
1 chr4 - 115095962 115095982 9.07e-06 0.00845 CGTTATCAGTTTCTACCAGGA
1 chr19 - 7305612 7305632 1.32e-05 0.0119 CACTATCACACATGCACATAC
1 chr8 - 122666541 122666561 1.5e-05 0.0131 CCCTATCTATGAAATGGAGAT
1 chr8 - 122699208 122699228 1.79e-05 0.0152 CATTATCACTGTGACACAGCT
1 chr19 + 41311133 41311153 2.03e-05 0.0167 tcttatcacgtctccagaggt
1 chr19 - 46888339 46888359 3.43e-05 0.0274 CATTATCAAGTGTAGTCAGCC
1 chr6 - 88116962 88116982 3.57e-05 0.0276 GCCCATCTGACAGGAGCAGGG
1 chr19 + 10060920 10060940 3.65e-05 0.0276 ATCTATCTCACAGCAGCAGCT
1 chr16 - 92822237 92822257 4.35e-05 0.032 CTCTATCGCCCCACACCAGGT
1 chr19 + 54087579 54087599 4.57e-05 0.0328 CCTTATCATCTGGTGACATTC
1 chr8 - 122719884 122719904 6.15e-05 0.043 GGTTATCAGCTGTGGCCACTT
1 chr6 - 88254245 88254265 6.76e-05 0.0461 CGTTATCGTGGGCCTAGAGGA
1 chr9 - 21962654 21962674 7.28e-05 0.0477 CGCTATCGGGGGACAGCCGGG
1 chr16 + 92822093 92822113 7.34e-05 0.0477 AGTCATCTTTTTTATGCAGTT
DEBUGGING INFORMATION

Command line: 

/usr/local/tools/_conda/envs/mulled-v1-09d6b587f6ed5b76acbb2d3cf0857c6cf274c4f472f8de3610cb401875b072de/bin/fimo --parse-genomic-coord --verbosity 1 --oc /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/fimo_out_1 --bgfile /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/background --motif 1 /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/meme_out/meme.xml /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/dataset_0433b312-4bb7-4baf-9bee-50805a39f697.dat

Settings: 


  

    output_directory = /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/fimo_out_1
    MEME file name = /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/meme_out/meme.xml
    sequence file name = /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/dataset_0433b312-4bb7-4baf-9bee-50805a39f697.dat
  
  

    background file name = /data/jwd/main/031/606/31606087/working/dataset_60112954-4ab5-4ac0-9bf0-8d0b8b6b1883_files/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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