MAST - Motif Alignment and Search Tool
MAST version 4.3.0 (Release date: Sat Sep 26 01:51:56 PDT 2009)
For further information on how to interpret these results or to get
a copy of the MAST software please access http://meme.nbcr.net.
REFERENCE
If you use this program in your research, please cite:
Timothy L. Bailey and Michael Gribskov,
"Combining evidence using p-values: application to sequence homology
searches", Bioinformatics, 14(48-54), 1998.
DATABASE AND MOTIFS
DATABASE ./promotors_all.fasta (nucleotide)
Last updated on Fri May 29 10:34:38 2015
Database contains 2245 sequences, 76297 residues
Scores for positive and reverse complement strands are combined.
MOTIFS ./meme.html (nucleotide)
MOTIF WIDTH BEST POSSIBLE MATCH
----- ----- -------------------
1 10 TTTTTTTTCA
Random model letter frequencies (from non-redundant database):
A 0.274 C 0.225 G 0.225 T 0.274
SECTION I: HIGH-SCORING SEQUENCES
- Each of the following 37 sequences has E-value less than 10.
- The E-value of a sequence is the expected number of sequences
in a random database of the same size that would match the motifs as
well as the sequence does and is equal to the combined p-value of the
sequence times the number of sequences in the database.
- The combined p-value of a sequence measures the strength of the
match of the sequence to all the motifs and is calculated by
- finding the score of the single best match of each motif
to the sequence (best matches may overlap),
- calculating the sequence p-value of each score,
- forming the product of the p-values,
- taking the p-value of the product.
- The sequence p-value of a score is defined as the
probability of a random sequence of the same length containing
some match 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 entry from each column of
the position-dependent scoring matrix that represents the motif.
- Sequences shorter than one or more of the motifs are skipped.
- The table is sorted by increasing E-value.
| Links | Sequence Name | Description | E-value | Length
|
|---|
|
| CT1185
|
| 0.22
| 34
|
|
| CT0269
|
| 0.22
| 34
|
|
| CT0022
|
| 0.22
| 34
|
|
| CT1187
|
| 0.4
| 34
|
|
| CT2151
|
| 0.63
| 34
|
|
| CT0966
|
| 0.63
| 34
|
|
| CT0648
|
| 0.63
| 34
|
|
| CT1605
|
| 0.81
| 34
|
|
| CT0558
|
| 0.99
| 34
|
|
| CT1261
|
| 1.5
| 34
|
|
| CT1353
|
| 1.8
| 34
|
|
| CT1050
|
| 1.8
| 34
|
|
| CT0568
|
| 1.8
| 34
|
|
| CT0194
|
| 1.8
| 34
|
|
| CT0044
|
| 1.8
| 34
|
|
| CT1431
|
| 2.7
| 34
|
|
| CT1432
|
| 3.3
| 34
|
|
| CT0923
|
| 3.3
| 34
|
|
| CT1797
|
| 4
| 34
|
|
| CT1305
|
| 4
| 34
|
|
| CT0895
|
| 4
| 34
|
|
| CT1180
|
| 4.6
| 34
|
|
| CT0982
|
| 4.6
| 34
|
|
| CT0899
|
| 4.6
| 34
|
|
| CT1114
|
| 5.1
| 34
|
|
| CT1652
|
| 5.6
| 34
|
|
| CT0855
|
| 5.6
| 34
|
|
| CT0536
|
| 5.6
| 34
|
|
| CT1442
|
| 6.8
| 34
|
|
| CT0770
|
| 6.8
| 34
|
|
| CT0570
|
| 6.8
| 34
|
|
| CT2001
|
| 7.8
| 34
|
|
| CT1750
|
| 7.8
| 34
|
|
| CT2278
|
| 8.9
| 34
|
|
| CT1183
|
| 8.9
| 34
|
|
| CT0926
|
| 8.9
| 34
|
|
| CT0953
|
| 9.2
| 34
|
SECTION II: MOTIF DIAGRAMS
- The ordering and spacing of all non-overlapping motif occurrences
are shown for each high-scoring sequence listed in Section I.
- A motif occurrence is defined as a position in the sequence whose
match to the motif has POSITION p-value less than 0.0001.
- The POSITION p-value of a match is the probability of
a single random subsequence of the length of the motif
scoring at least as well as the observed match.
- For each sequence, all motif occurrences are shown unless there
are overlaps. In that case, a motif occurrence is shown only if its
p-value is less than the product of the p-values of the other
(lower-numbered) motif occurrences that it overlaps.
- The table also shows the E-value of each sequence.
- Spacers and motif occurences are indicated by
- Spacers and motif occurences are indicated by
- Spacers and motif occurences are indicated by
- occurrence of motif `n' with p-value less than 0.0001.
A minus sign indicates that the occurrence is on the
reverse complement strand.
- Sequences longer than 1000 are not shown to scale and are indicated by thicker lines.
| Links | Name | Expect | Motifs
|
|---|
|
| CT1185
| 0.22
|
|
|
| CT0269
| 0.22
|
|
|
| CT0022
| 0.22
|
|
|
| CT1187
| 0.4
|
|
|
| CT2151
| 0.63
|
|
|
| CT0966
| 0.63
|
|
|
| CT0648
| 0.63
|
|
|
| CT1605
| 0.81
|
|
|
| CT0558
| 0.99
|
|
|
| CT1261
| 1.5
|
|
|
| CT1353
| 1.8
|
|
|
| CT1050
| 1.8
|
|
|
| CT0568
| 1.8
|
|
|
| CT0194
| 1.8
|
|
|
| CT0044
| 1.8
|
|
|
| CT1431
| 2.7
|
|
|
| CT1432
| 3.3
|
|
|
| CT0923
| 3.3
|
|
|
| CT1797
| 4
|
|
|
| CT1305
| 4
|
|
|
| CT0895
| 4
|
|
|
| CT1180
| 4.6
|
|
|
| CT0982
| 4.6
|
|
|
| CT0899
| 4.6
|
|
|
| CT1114
| 5.1
|
|
|
| CT1652
| 5.6
|
|
|
| CT0855
| 5.6
|
|
|
| CT0536
| 5.6
|
|
|
| CT1442
| 6.8
|
|
|
| CT0770
| 6.8
|
|
|
| CT0570
| 6.8
|
|
|
| CT2001
| 7.8
|
|
|
| CT1750
| 7.8
|
|
|
| CT2278
| 8.9
|
|
|
| CT1183
| 8.9
|
|
|
| CT0926
| 8.9
|
|
|
| CT0953
| 9.2
|
|
| SCALE
|
|
|---|
SECTION III: ANNOTATED SEQUENCES
- The positions and p-values of the non-overlapping motif occurrences
are shown above the actual sequence for each of the high-scoring
sequences from Section I.
- A motif occurrence is defined as a position in the sequence whose
match to the motif has POSITION p-value less than 0.0001 as
defined in Section II.
- For each sequence, the first line specifies the name of the sequence.
- The second (and possibly more) lines give a description of the
sequence.
- Following the description line(s) is a line giving the length,
combined p-value, and E-value of the sequence as defined in Section I.
- The next line reproduces the motif diagram from Section II.
- The entire sequence is printed on the following lines.
- Motif occurrences are indicated directly above their positions in the
sequence on lines showing
- the motif number of the occurrence (a minus sign indicates that
the occurrence is on the reverse complement strand),
- the position p-value of the occurrence,
- the best possible match to the motif (or its reverse complement), and
- columns whose match to the motif has a positive score (indicated
by a plus sign).
CT1185
LENGTH = 34 COMBINED P-VALUE = 9.89e-05 E-VALUE = 0.22
DIAGRAM: 2-[-1]-22
[-1]
2.0e-06
TGAAAAAAAA
++++++++++
1 CCTGAAAAAAAATTCATAAAAAGACTATCGTTTC
CT0269
LENGTH = 34 COMBINED P-VALUE = 9.89e-05 E-VALUE = 0.22
DIAGRAM: 2-[+1]-22
[+1]
2.0e-06
TTTTTTTTCA
++++++++++
1 GGTTTTTTTTCATCACCAAAACGAATATCGGCAT
CT0022
LENGTH = 34 COMBINED P-VALUE = 9.89e-05 E-VALUE = 0.22
DIAGRAM: 23-[+1]-1
[+1]
2.0e-06
TTTTTTTTCA
++++++++++
1 CGTCTTGTCAGTTTTTTGCCGCGTTTTTTTTCAG
CT1187
LENGTH = 34 COMBINED P-VALUE = 1.80e-04 E-VALUE = 0.4
DIAGRAM: 15-[+1]-9
[+1]
3.6e-06
TTTTTTTTCA
++++++++++
1 CTGCCCTTGTTGCCGTTTTCTTTCAAACTCCTGA
CT2151
LENGTH = 34 COMBINED P-VALUE = 2.79e-04 E-VALUE = 0.63
DIAGRAM: 18-[+1]-6
[+1]
5.6e-06
TTTTTTTTCA
++++++++++
1 AACGCCGACCACCCGGCCATTTTTTTCAACCAAA
CT0966
LENGTH = 34 COMBINED P-VALUE = 2.79e-04 E-VALUE = 0.63
DIAGRAM: 2-[+1]-22
[+1]
5.6e-06
TTTTTTTTCA
++++++++++
1 TGATTTTTTTCAATTAACAACCAATTCTGCAAAG
CT0648
LENGTH = 34 COMBINED P-VALUE = 2.79e-04 E-VALUE = 0.63
DIAGRAM: 5-[+1]-19
[+1]
5.6e-06
TTTTTTTTCA
++++++++++
1 TTCCGATTTTTTTCACGCTGCTCCCTCCTCGTTC
CT1605
LENGTH = 34 COMBINED P-VALUE = 3.60e-04 E-VALUE = 0.81
DIAGRAM: 6-[+1]-18
[+1]
7.2e-06
TTTTTTTTCA
+++++++++
1 TTTACCGTTTTTTTCACTCAATTTCATCAGTTTT
CT0558
LENGTH = 34 COMBINED P-VALUE = 4.41e-04 E-VALUE = 0.99
DIAGRAM: 9-[+1]-15
[+1]
8.8e-06
TTTTTTTTCA
++++++++++
1 ATATTTGGGATTTCTTTCAGGGGCGGTCAGGTAG
CT1261
LENGTH = 34 COMBINED P-VALUE = 6.88e-04 E-VALUE = 1.5
DIAGRAM: [+1]-24
[+1]
1.4e-05
TTTTTTTTCA
++++++ +++
1 TTTTTTCTCATAACTATCAAAGCACGTCGTCAAT
CT1353
LENGTH = 34 COMBINED P-VALUE = 7.87e-04 E-VALUE = 1.8
DIAGRAM: 11-[+1]-13
[+1]
1.6e-05
TTTTTTTTCA
++++++++ +
1 AGCACATGATATTTTTTTTGAACCCCAAACCATG
CT1050
LENGTH = 34 COMBINED P-VALUE = 7.87e-04 E-VALUE = 1.8
DIAGRAM: 12-[-1]-12
[-1]
1.6e-05
TGAAAAAAAA
+ ++++++++
1 GGAAGAAAAACATCAAAAAAAAGGTTAAAGGATT
CT0568
LENGTH = 34 COMBINED P-VALUE = 7.87e-04 E-VALUE = 1.8
DIAGRAM: 11-[-1]-13
[-1]
1.6e-05
TGAAAAAAAA
+ ++++++++
1 GGAGATCATCCTCAAAAAAAAAACATCGTGCTCC
CT0194
LENGTH = 34 COMBINED P-VALUE = 7.87e-04 E-VALUE = 1.8
DIAGRAM: 16-[-1]-8
[-1]
1.6e-05
TGAAAAAAAA
+ ++++++++
1 GTTGCCCTGTAAATCATCAAAAAAAATAGAAGTT
CT0044
LENGTH = 34 COMBINED P-VALUE = 7.87e-04 E-VALUE = 1.8
DIAGRAM: 11-[-1]-13
[-1]
1.6e-05
TGAAAAAAAA
+ ++++++++
1 TAATCAAAACTTCAAAAAAAATAACAGACTATCG
CT1431
LENGTH = 34 COMBINED P-VALUE = 1.21e-03 E-VALUE = 2.7
DIAGRAM: 3-[+1]-21
[+1]
2.4e-05
TTTTTTTTCA
+++++ ++++
1 TCGTTTTTCTTCATAACAAAATCATTCCAGAACC
CT1432
LENGTH = 34 COMBINED P-VALUE = 1.46e-03 E-VALUE = 3.3
DIAGRAM: 14-[+1]-10
[+1]
2.9e-05
TTTTTTTTCA
++++++ +++
1 AAAACAACCGATACATTTTTCTCACCACACTGAC
CT0923
LENGTH = 34 COMBINED P-VALUE = 1.46e-03 E-VALUE = 3.3
DIAGRAM: 5-[+1]-19
[+1]
2.9e-05
TTTTTTTTCA
++++++++ +
1 GGTGCTTTTCTTTGAACCAAAAGCACATTTGCCC
CT1797
LENGTH = 34 COMBINED P-VALUE = 1.80e-03 E-VALUE = 4
DIAGRAM: 23-[+1]-1
[+1]
3.6e-05
TTTTTTTTCA
+++++++++
1 ATGTCGGTCAAGGAAATGCATCCTTTTTTTTCTA
CT1305
LENGTH = 34 COMBINED P-VALUE = 1.80e-03 E-VALUE = 4
DIAGRAM: 18-[+1]-6
[+1]
3.6e-05
TTTTTTTTCA
+++++++++
1 CCTGACTGGACCTGCCTGTTTTTTTTCTTGCTGA
CT0895
LENGTH = 34 COMBINED P-VALUE = 1.80e-03 E-VALUE = 4
DIAGRAM: 4-[-1]-20
[-1]
3.6e-05
TGAAAAAAAA
+ ++++++++
1 TCAATCAAAAAAATCAAAAAAGGAAGAATTCATT
CT1180
LENGTH = 34 COMBINED P-VALUE = 2.06e-03 E-VALUE = 4.6
DIAGRAM: 10-[+1]-14
[+1]
4.1e-05
TTTTTTTTCA
+++++++ +
1 AGAAAGTCGCGTTTTTTTGATCCGTTGCCTTTGT
CT0982
LENGTH = 34 COMBINED P-VALUE = 2.06e-03 E-VALUE = 4.6
DIAGRAM: 2-[+1]-22
[+1]
4.1e-05
TTTTTTTTCA
++++++ +++
1 AAATTTTTATCAACCATAACCTTTCATCATTGCC
CT0899
LENGTH = 34 COMBINED P-VALUE = 2.06e-03 E-VALUE = 4.6
DIAGRAM: 7-[-1]-17
[-1]
4.1e-05
TGAAAAAAAA
+ +++++++
1 CAGAATCTCAAAAAAACTTAAAGGTTAAGGAACA
CT1114
LENGTH = 34 COMBINED P-VALUE = 2.29e-03 E-VALUE = 5.1
DIAGRAM: 2-[+1]-22
[+1]
4.6e-05
TTTTTTTTCA
+ ++++++++
1 AAAATTCTTTCACAACCATAACAGGTCCCTACGC
CT1652
LENGTH = 34 COMBINED P-VALUE = 2.50e-03 E-VALUE = 5.6
DIAGRAM: 5-[+1]-19
[+1]
5.0e-05
TTTTTTTTCA
+++++ ++++
1 CAGACATTTTCTTCAATACAAAACCGTATGACCA
CT0855
LENGTH = 34 COMBINED P-VALUE = 2.50e-03 E-VALUE = 5.6
DIAGRAM: 1-[+1]-23
[+1]
5.0e-05
TTTTTTTTCA
+++++ ++++
1 GATTTTCTTCAACCTCTCAAGAAAGAACCGACGA
CT0536
LENGTH = 34 COMBINED P-VALUE = 2.50e-03 E-VALUE = 5.6
DIAGRAM: 21-[+1]-3
[+1]
5.0e-05
TTTTTTTTCA
++++++++
1 TCCGCCATTTCCAAGCACTTCGATTCTTTCAACC
CT1442
LENGTH = 34 COMBINED P-VALUE = 3.05e-03 E-VALUE = 6.8
DIAGRAM: 14-[+1]-10
[+1]
6.1e-05
TTTTTTTTCA
+++++++++
1 CTCCGGATTCCTGCTTTTCTTTCTGACTCGCTCC
CT0770
LENGTH = 34 COMBINED P-VALUE = 3.05e-03 E-VALUE = 6.8
DIAGRAM: 5-[+1]-19
[+1]
6.1e-05
TTTTTTTTCA
++++ +++++
1 AACACTTTTATTTCAAGAAGGTTCGCCTATTGAT
CT0570
LENGTH = 34 COMBINED P-VALUE = 3.05e-03 E-VALUE = 6.8
DIAGRAM: 6-[+1]-18
[+1]
6.1e-05
TTTTTTTTCA
++++ +++++
1 GAGTTTTTTTATTTCATTATTTTGACAGATCGAT
CT2001
LENGTH = 34 COMBINED P-VALUE = 3.46e-03 E-VALUE = 7.8
DIAGRAM: 5-[-1]-19
[-1]
6.9e-05
TGAAAAAAAA
+++++++++
1 CGCCGAGAAAAAAATAACCAAACTATAGAAAGCA
CT1750
LENGTH = 34 COMBINED P-VALUE = 3.46e-03 E-VALUE = 7.8
DIAGRAM: 23-[-1]-1
[-1]
6.9e-05
TGAAAAAAAA
+++++++++
1 CTATACCCCTTCAATCCAAACGGAGAAAAAAATC
CT2278
LENGTH = 34 COMBINED P-VALUE = 3.95e-03 E-VALUE = 8.9
DIAGRAM: 13-[-1]-11
[-1]
7.9e-05
TGAAAAAAAA
+ + ++++++
1 GGATTTTGCATCTTCAGAAAAAAGCGGCCTGAAG
CT1183
LENGTH = 34 COMBINED P-VALUE = 3.95e-03 E-VALUE = 8.9
DIAGRAM: [+1]-24
[+1]
7.9e-05
TTTTTTTTCA
+++++++++
1 TTTTTTTTCGATCAAGAGCAAGCGAAGCAACAAA
CT0926
LENGTH = 34 COMBINED P-VALUE = 3.95e-03 E-VALUE = 8.9
DIAGRAM: 19-[+1]-5
[+1]
7.9e-05
TTTTTTTTCA
+++++++++
1 ACCTCGACATTCACCACATATTTTTTTCCCATCT
CT0953
LENGTH = 34 COMBINED P-VALUE = 4.09e-03 E-VALUE = 9.2
DIAGRAM: 5-[+1]-19
[+1]
8.2e-05
TTTTTTTTCA
++++++++
1 GAGAGGTTTTTTTCCTAACCATGTCTGAAGGCTG
Debugging Information
CPU: kodomo.fbb.msu.ru
Time 0.004000 secs.
mast ./meme.html -d ./promotors_all.fasta -ev 10.000000 -mt 0.000100
Button Help
Links to Entrez database at NCBI
Links to sequence scores (section I)
Links to motif diagrams (section II)
Links to sequence/motif annotated alignments (section III)
This information