Database and Motifs High-scoring Motif Occurences Debugging Information



FIMO - Motif search tool

FIMO version 4.7.0, (Release date: 0 EST 20)

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.


DATABASE AND MOTIFS

DATABASE /Users/xuebing/Downloads/hotair-target.fa.fasta
Database contains 832 sequences, 573269 residues

MOTIFS AATAAA.motif (nucleotide)

MOTIF WIDTH BEST POSSIBLE MATCH
AATAAA 6 AATAAA
AATAAA 6 TTTATT

Random model letter frequencies (from non-redundant database):
A 0.275 C 0.225 G 0.225 T 0.275


SECTION I: HIGH-SCORING MOTIF OCCURENCES

Motif Sequence Name Strand Start End p-value Matched Sequence

DEBUGGING INFORMATION

Command line:

fimo --verbosity 1 AATAAA.motif /Users/xuebing/Downloads/hotair-target.fa.fasta

Settings:

output directory = fimo_out MEME file name = AATAAA.motif sequence file name = /Users/xuebing/Downloads/hotair-target.fa.fasta
background file name = (null) motif name = motif allow clobber = true
compute q-values = true output p-threshold set = false output q-threshold set = false
text only = false scan both strands = true max sequence length = 250000000
output q-value threshold = 1 output p-value threshold = 0.0001 pseudocount = 0.1
verbosity = 1

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


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