FIMO Results

FIMO - Motif search tool

FIMO version 4.3.0, (Release date: 6 PDT 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

DATABASE AND MOTIFS

        DATABASE 
        another_strain.fasta

        Database contains 
        1
        sequences,
        27532
        residues
      

        MOTIFS 
        meme.txt 
        (nucleotide)
        


MOTIF
WIDTH

              BEST POSSIBLE MATCH
            


1
12
TCTCAACTAAAC

2
11
GAGGCTGTTGT

3
11
TGCTAACCATG


        Random model letter frequencies 
        (from non-redundant database):
        
A 0.282 C 0.222 G 0.229 T 0.267 

MOTIF	WIDTH	BEST POSSIBLE MATCH
1	12	TCTCAACTAAAC
2	11	GAGGCTGTTGT
3	11	TGCTAACCATG

SECTION I: HIGH-SCORING MOTIF OCCURENCES

Each of the following 15 motif occurrences has p-value less then 1e-05
The p-value of a motif occurrence is defined as the probability of a random sequence of the same length as the motif matching that position of the sequence with as good or better a score.
The score for the match of a position in a sequence to a motif is computed by by summing the appropriate entries from each column of the position-dependent scoring matrix that represents the motif.
The q-value of a motif occurrence is defined as the false discovery rate if the occurrence is accepted as significant.
The table is sorted by increasing p-value.
If the start position is larger then the end position, the motif occurrence is on the reverse strand.

Motif	Sequence Name	Start	End	p-value	q-value
1	MK334047.1	59	70	1.87e-07	0.00111
1	MK334047.1	25408	25419	1.87e-07	0.00111
1	MK334047.1	26097	26108	1.87e-07	0.00111
3	MK334047.1	276	286	2.45e-07	0.00644
1	MK334047.1	25163	25174	3.36e-07	0.00149
1	MK334047.1	20444	20455	5.34e-07	0.0019
3	MK334047.1	26020	26030	1.05e-06	0.0113
3	MK334047.1	25355	25365	1.29e-06	0.0113
1	MK334047.1	24472	24483	1.21e-06	0.00359
2	MK334047.1	25136	25146	3.95e-07	0.00959
2	MK334047.1	24454	24464	2.41e-06	0.0292
2	MK334047.1	11645	11655	4.95e-06	0.0333
2	MK334047.1	15070	15080	5.91e-06	0.0333
2	MK334047.1	26057	26067	6.86e-06	0.0333
2	MK334047.1	13855	13865	8.61e-06	0.0348

DEBUGGING INFORMATION

Command line:

fimo --oc . --verbosity 1 --output-pthresh 1.0E-5 --norc meme.txt another_strain.fasta

Settings:



output directory = .
MEME file name = meme.txt
sequence file name = another_strain.fasta


background file name = (null)
motif name = motif
allow clobber = true


compute q-values = true
output p-threshold set = true
output q-threshold set = false


text only = false
scan both strands = false
max sequence length = 250000000


output q-value threshold =   1
output p-value threshold = 1e-05
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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output directory = .	MEME file name = meme.txt	sequence file name = another_strain.fasta
background file name = (null)	motif name = motif	allow clobber = true
compute q-values = true	output p-threshold set = true	output q-threshold set = false
text only = false	scan both strands = false	max sequence length = 250000000
output q-value threshold = 1	output p-value threshold = 1e-05	pseudocount = 0.1
verbosity = 1