Dataset and Motifs High-scoring Sequences Motif Diagrams Annotated Sequences Debugging Information


MAST - Motif Alignment and Search Tool

MAST version 3.0 (Release date: 2004/07/16 05:53:30)

For further information on how to interpret these results or to get a copy of the MAST software please access http://meme.sdsc.edu.


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 /home/meme/meme.3.0.6/tests/INO_up800.s (nucleotide)
	Last updated on Fri Jul 16 15:53:51 2004
	Database contains 7 sequences, 5600 residues

	Scores for positive and reverse complement strands are combined.

	MOTIFS meme.INO_up800.oops.4.Linuxx86_64.html (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    12   TTCACATGCCGC
	  2    10   TCTGGCACAG

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1
	----- -----
	   2   0.32
	No overly similar pairs (correlation > 0.60) found.

	Random model letter frequencies (from non-redundant database):
	A 0.281 C 0.222 G 0.229 T 0.267 

SECTION I: HIGH-SCORING SEQUENCES

LinksSequence NameDescriptionE-valueLength
D A ?
ACC1 sequence of the region up... 6.1e-05 800
D A ?
CHO1 sequence of the region up... 0.00016 800
D A ?
INO1 sequence of the region up... 0.00019 800
D A ?
FAS1 sequence of the region up... 0.00022 800
D A ?
OPI3 sequence of the region up... 0.00092 800
D A ?
CHO2 sequence of the region up... 0.0029 800
D A ?
FAS2 sequence of the region up... 0.0093 800

SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
ACC1 6.1e-05

+1
+2
S A ?
CHO1 0.00016

+2
-2
+1
+1
S A ?
INO1 0.00019

-2
-1
+1
S A ?
FAS1 0.00022

+2
+1
S A ?
OPI3 0.00092

-2
+1
S A ?
CHO2 0.0029

+1
-2
S A ?
FAS2 0.0093

-2
+1
SCALE
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
1 25 50 75 100 125 150 175 200 225 250 275 300 325 350 375 400 425 450 475 500 525 550 575 600 625 650 675 700 725 750 775 800

SECTION III: ANNOTATED SEQUENCES


ACC1
S D ?

sequence of the region upstream from YNR016C
LENGTH = 800 COMBINED P-VALUE = 8.78e-06 E-VALUE = 6.1e-05
DIAGRAM: 82-[+1]-137-[+2]-559

            [+1]
            3.1e-07
            TTCACATGCCGC
            ++++++++++ +
76   TAAAATCTTCACATGGCCCGGCCGCGCGCGCGTTGTGCCAACAAGTCGCAGTCGAAATTCAACCGCTCATTGCCA

           [+2]
           7.4e-07
           TCTGGCACAG
           ++++++++++
226  TCGTATTCTGGCACAGTATAGCCTAGCACAATCACTGTCACAATTGTTATCGGTTCTACAATTGTTCTGCTCTCT



CHO1
S D ?

sequence of the region upstream from YER026C
LENGTH = 800 COMBINED P-VALUE = 2.30e-05 E-VALUE = 0.00016
DIAGRAM: 152-[+2]-396-[-2]-42-[+1]-17-[+1]-149

       [+2]
       3.9e-05
       TCTGGCACAG
       ++++++ +
151  CGTCTGGCGCCCTTCCCATTCCGAACCATGTTATATTGAACCATCTGGCGACAAGCAGTATTAAGCATAATACAT

                                      [-2]
                                      7.4e-07
                                      CTGTGCCAGA
                                      ++++++++++
526  CAATCCCCACTCCTTCTCAATGTGTGCAGACTTCTGTGCCAGACACTGAATATATATCAGTAATTGGTCAAAATC

               [+1]                         [+1]
               8.7e-07                      2.2e-05
               TTCACATGCCGC                 TTCACATGCCGC
               ++++++ +++ +                 +++++++++  +
601  ACTTTGAACGTTCACACGGCACCCTCACGCCTTTGAGCTTTCACATGGACCCATCTAAAGATGAAGATCCGTATT



INO1
S D ?

sequence of the region upstream from YJL153C
LENGTH = 800 COMBINED P-VALUE = 2.71e-05 E-VALUE = 0.00019
DIAGRAM: 282-[-2]-327-[-1]-55-[+1]-102

                                                              [-2]
                                                              1.8e-05
                                                              CTGTGCCAGA
                                                              +++ +++ ++
226  ACGTTGTATATGAAACGAGTAGTGAACGTTCGTACGATCTTTCACGCAGACATGCGACTGCGCCCGCCGTAGACC

                        [-1]
                        4.2e-08
                        GCGGCATGTGAA
                        ++++++++++++
601  TGCGCTTCGGCGGCTAAATGCGGCATGTGAAAAGTATTGTCTATTTTATCTTCATCCTTCTTTCCCAGAATATTG

                [+1]
                1.3e-05
                TTCACATGCCGC
                +++++++++ ++
676  AACTTATTTAATTCACATGGAGCAGAGAAAGCGCACCTCTGCGTTGGCGGCAATGTTAATTTGAGACGTATATAA



FAS1
S D ?

sequence of the region upstream from YKL182W
LENGTH = 800 COMBINED P-VALUE = 3.19e-05 E-VALUE = 0.00022
DIAGRAM: 43-[+2]-41-[+1]-694
                                                [+2]
                                                2.2e-05
                                                TCTGGCACAG
                                                ++ +++++ +
1    CCGGGTTATAGCAGCGTCTGCTCCGCATCACGATACACGAGGTGCAGGCACGGTTCACTACTCCCCTGGCCTCCA

                        [+1]
                        4.2e-08
                        TTCACATGCCGC
                        ++++++++++++
76   ACAAACGACGGCCAAAAACTTCACATGCCGCCCAGCCAAGCATAATTACGCAACAGCGATCTTTCCGTCGCACAA



OPI3
S D ?

sequence of the region upstream from YJR073C
LENGTH = 800 COMBINED P-VALUE = 1.32e-04 E-VALUE = 0.00092
DIAGRAM: 185-[-2]-144-[+1]-449

                                        [-2]
                                        7.4e-07
                                        CTGTGCCAGA
                                        ++++++++++
151  GTTAATCTGATCAACGCTACGCCGATGACAACGGTCTGTGCCAGATCTGGTTTTCCCCACTTATTTGCTACTTCC

                                            [+1]
                                            5.8e-06
                                            TTCACATGCCGC
                                            ++++ ++ ++ +
301  AACTCCGTCAGGTCTTCCACGTGGAACTGCCAAGCCTCCTTCAGATCGCTCTTGTCGACCGTCTCCAAGAGATCC



CHO2
S D ?

sequence of the region upstream from YGR157W
LENGTH = 800 COMBINED P-VALUE = 4.18e-04 E-VALUE = 0.0029
DIAGRAM: 353-[+1]-47-[-2]-378

                                                          [+1]
                                                          5.2e-07
                                                          TTCACATGCCGC
                                                          +++ ++++++++
301  ATATATATTTTTGCCTTGGTTTAAATTGGTCAAGACAGTCAATTGCCACACTTTTCTCATGCCGCATTCATTATT

                                          [-2]
                                          2.9e-05
                                          CTGTGCCAGA
                                          +  +++++++
376  CGCGAAGTTTTCCACACAAAACTGTGAAAATGAACGGCGATGCCAGAAACGGCAAAACCTCAAATGTTAGATAAC



FAS2
S D ?

sequence of the region upstream from YPL231W
LENGTH = 800 COMBINED P-VALUE = 1.33e-03 E-VALUE = 0.0093
DIAGRAM: 184-[-2]-372-[+1]-222

                                       [-2]
                                       2.9e-05
                                       CTGTGCCAGA
                                         ++++++++
151  AACAGGGTGTCGGTCATACCGATAAAGCCGTCAAGAGTGCCAGAAAAGCAAGAAAGAACAAGATTAGATGTTGGT

                                              [+1]
                                              1.9e-06
                                              TTCACATGCCGC
                                              +++++++++  +
526  GCTTAGCAAAATCCAACCATTTTTTTTTTATCTCCCGCGTTTTCACATGCTACCTCATTCGCCTCGTAACGTTAC

Debugging Information




CPU: chromo
Time 0.010000 secs.

mast meme.INO_up800.oops.4.Linuxx86_64.html -stdout

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E
Links to Entrez database at NCBI
S
Links to sequence scores (section I)
D
Links to motif diagrams (section II)
A
Links to sequence/motif annotated alignments (section III)
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