MEME

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Discovered Motifs   |   Block diagrams of Motifs   |   Program information   |   Explanation

Discovered Motifs

Motif Overview

Motif 1
  • 5.6e-036
  • 129 sites
 Motif 1 Logo Motif 1 Logo
Motif 2
  • 3.2e-034
  • 96 sites
 Motif 2 Logo Motif 2 Logo
Motif 3
  • 5.5e-019
  • 74 sites
 Motif 3 Logo Motif 3 Logo
Motif 4
  • 6.0e-010
  • 62 sites
 Motif 4 Logo Motif 4 Logo
Motif 5
  • 7.0e-005
  • 45 sites
 Motif 5 Logo Motif 5 Logo
Motif 6
  • 4.5e-002
  • 29 sites
 Motif 6 Logo Motif 6 Logo
Motif 7
  • 7.0e+001
  • 21 sites
 Motif 7 Logo Motif 7 Logo
Motif 8
  • 3.4e+003
  • 6 sites
 Motif 8 Logo Motif 8 Logo
Motif 9
  • 2.6e+004
  • 8 sites
 Motif 9 Logo Motif 9 Logo
Motif 10
  • 3.3e+004
  • 2 sites
 Motif 10 Logo Motif 10 Logo

Further Analysis

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Motif 1

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Summary

Sequence Logo

E-value 5.6e-036
Width 10
Sites 129
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PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

AA[AG][AT][GA]GAAA[GA]

Further Analysis

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Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
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Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:7385658-7385758 46 3.08e-06 GATGTTGAAG AAGAGGAAAG AAAGATGGAG
chrV-NC_003076:6320651-6320751 44 3.08e-06 TCGAGGGCAA AAGAGGAAAG TTAGGTCCCA
chrIV-NC_003075:8419613-8419713 30 3.08e-06 AAACACTTAA AAGAGGAAAG ATCTGGCCAC
chrIV-NC_003075:16980446-16980546 62 3.08e-06 TTCTTACTAT AAAAGGAAAG GAAGAATCAA
chrI-NC_003070:21192338-21192438 33 3.08e-06 GCTTTTCCTA AAAAGGAAAG AAATTAATCT
chrI-NC_003070:4600590-4600690 89 3.08e-06 GATGTGTTTC AAAAGGAAAG C
chrI-NC_003070:7930468-7930568 39 3.08e-06 GATTAGCCGA AAAAGGAAAG TATGAGATGC
chrII-NC_003071:18423064-18423164 27 3.08e-06 ACAACCGCCC AAAAGGAAAG TAGCTATTGG
chrII-NC_003071:19050821-19050921 65 3.08e-06 AGTTTGATAT AAGAGGAAAG TTTGGTAGAA
chrII-NC_003071:17819849-17819949 1 3.08e-06 A AAAAGGAAAG TTTCCAAAAG
chrIII-NC_003074:5047285-5047385 86 3.08e-06 TAAAGTGATA AAAAGGAAAG TCGT
chrV-NC_003076:7256719-7256819 46 4.91e-06 GTTTTCTATT AAAGGGAAAG AAATAAAGTT
chrV-NC_003076:2284144-2284244 74 4.91e-06 AACATTCCCA AAGGGGAAAG AAGACATGTG
chrV-NC_003076:792884-792984 53 4.91e-06 GGCTTTCCCA AAGGGGAAAG AGAATTTGGC
chrM:272146-272246 45 4.91e-06 GGTTGGTCAA AAAGGGAAAG AAAAAGGTGA
chrI-NC_003070:9778028-9778128 44 4.91e-06 TTTAACGTAT AAAGGGAAAG TTAGTTCAAA
chrIII-NC_003074:19121199-19121299 47 4.91e-06 ATTATACTAT AAAGGGAAAG AATGGGGCCT
chrV-NC_003076:3864653-3864753 70 8.01e-06 CCCACGCCGA AAGTGGAAAG AGAAACAGAG
chrV-NC_003076:23785207-23785307 81 8.01e-06 ATGAACCCAT AAATGGAAAG AAAACTAAA
chrV-NC_003076:9133324-9133424 52 8.01e-06 TTCTTGCCGA AAGTGGAAAG AAAGATATGG
chrIV-NC_003075:17395813-17395913 1 8.01e-06 A AAATGGAAAG TCTTTGGACC
chrI-NC_003070:6459719-6459819 49 8.01e-06 AAGAAGACGA AAGTGGAAAG TTTGATTAGC
chrII-NC_003071:14343662-14343762 66 8.01e-06 CAGAATGGCT AAATGGAAAG ATAAATAAAA
chrIII-NC_003074:20121173-20121273 48 8.01e-06 GAGTTACTAA AAATGGAAAG TATTGCCTAA
chrIV-NC_003075:11604857-11604957 34 1.63e-05 TTATTTACCA AAGAGGAAAA TTTGCAGTAC
chrIV-NC_003075:17979925-17980025 35 1.63e-05 ATTCCAAGTA AAAAGGAAAA AAGGTAGTGT
chrI-NC_003070:27363797-27363897 33 1.63e-05 AAAAAAGTTG AAAAGGAAAA CATTTATAGG
chrI-NC_003070:553848-553948 58 1.63e-05 TTGGTTCCAA AAGAGGAAAC CTTTTACTTT
chrI-NC_003070:7461930-7462030 46 1.63e-05 GATAAAACAA AAGAGGAAAA GATTGATTTG
chrI-NC_003070:28183883-28183983 58 1.63e-05 AAATGATCAA AAAAGGAAAA CGAGGGCCAC
chrI-NC_003070:2990781-2990881 54 1.63e-05 GAACCAAAAG AAGAGGAAAC AATAAGATTG
chrII-NC_003071:12683085-12683185 33 1.63e-05 TTTTTCCTCA AAGAGGAAAA GAAATTGGTT
chrII-NC_003071:14735573-14735673 64 1.63e-05 AAATGAAATA AAAAGGAAAA CCAAAAACGG
chrII-NC_003071:15206954-15207054 69 1.63e-05 TCGTTACCAA AAGAGGAAAA TATCTTAACC
chrIII-NC_003074:19168255-19168355 84 1.63e-05 AAAAACCTAA AAAAGGAAAA AGGTAG
chrV-NC_003076:18000346-18000446 7 2.15e-05 CCAAAAG AAAAAGAAAG CAACAAGATA
chrI-NC_003070:2626158-2626258 16 2.15e-05 AGGGTCAAAG AAGAAGAAAG GGTACAGTAG
chrV-NC_003076:9480412-9480512 48 4.32e-05 AATTTGCCAA AAGTGGAAAC ATGTCGACCC
chrV-NC_003076:23314284-23314384 73 4.32e-05 ATAATCCCAT AAATGGAAAC TTTGAACAAT
chrIV-NC_003075:16689638-16689738 10 4.32e-05 AGAGAAAAAT AAAGAGAAAG AACAGTTCAC
chrIV-NC_003075:12357392-12357492 79 4.32e-05 TGTTGTGGTG AAATGGAAAC ACACAACTCA
chrI-NC_003070:11630779-11630879 27 4.32e-05 TGAAAAGAGA AAAGAGAAAG AAATTGAAAA
chrI-NC_003070:26011665-26011765 54 4.32e-05 CGATTGCCAA AAAAGGGAAG AGAGCTAATA
chrI-NC_003070:17506694-17506794 33 4.32e-05 CTTTGTACAA AAATGGAAAC AAAGGTACGA
chrIII-NC_003074:18470146-18470246 80 4.32e-05 TCCTTACCTC AAATGGAAAA CCCTTACCTC
chrIV-NC_003075:13854253-13854353 80 5.14e-05 TAGCAACTGC AAATAGAAAG GTCATGTAGT
chrI-NC_003070:8598785-8598885 89 5.14e-05 TCGTTACCCA AAATAGAAAG A
chrIV-NC_003075:14359075-14359175 43 6.84e-05 ATGGTGGCAT AAAAAGAAAA GTGTCTATAA
chrIV-NC_003075:5155452-5155552 80 6.84e-05 AAGAAAACAG AAGAAGAAAA GACGTTTGGT
chrIV-NC_003075:10386496-10386596 38 6.84e-05 TATATTCCAA ATAAGGAAAG TATGGAACGT
chrIV-NC_003075:14372903-14373003 76 6.84e-05 TAGATCAAGA AAGAAGAAAA GGGTTGGAGC
chrIV-NC_003075:9257678-9257778 25 6.84e-05 CCAAAAATAG AAAAAGAAAC TCTTTTTAAC
chrI-NC_003070:4904669-4904769 17 6.84e-05 TTGAACAAAA AAAAAGAAAA AAGGAAGGCT
chrI-NC_003070:9950783-9950883 10 6.84e-05 AATTTTGGAC AAAAAGAAAA ACAAAATCAG
chrII-NC_003071:17791525-17791625 44 6.84e-05 CCATTTCCAC ATGAGGAAAG AGTAAAGCAG
chrII-NC_003071:519691-519791 74 6.84e-05 CAAAGTGAAG AAGAAGAAAA CAAAAGTAGA
chrIII-NC_003074:21233568-21233668 3 6.84e-05 CAA AAGAAGAAAA CAGCCACTCA
chrI-NC_003070:25226373-25226473 72 7.62e-05 CATTCCATGT AGAAGGAAAA AATGTTAGGT
chrIII-NC_003074:2314802-2314902 29 7.62e-05 GTGAAAAAAA AGAAGGAAAA GAATCAAGTG
chrII-NC_003071:16504450-16504550 52 7.91e-05 ACAAAATCCT AAAGGGGAAG AGATTCCCCA
chrII-NC_003071:9577588-9577688 29 8.82e-05 GGGACTGTGT AGAAAGAAAG AAGCCTAAAA
chrV-NC_003076:3771493-3771593 61 1.15e-04 AGATTGCTCT AAAAGGAAAT ACTACTGTGC
chrV-NC_003076:21763609-21763709 43 1.15e-04 GGTATGACCA AAGAGGAAAT GACACGTGTT
chrIV-NC_003075:8452707-8452807 42 1.15e-04 CAAAATCTAA AAAAGGAAAT GTTTTTGGAA
chrI-NC_003070:23061511-23061611 11 1.15e-04 TGATTGAAGA AAAAGGGAAC TACTTTGTTG
chrI-NC_003070:18690429-18690529 69 1.15e-04 GTGGTTCCAA AAGAGGAAAT ATAATATAAG
chrII-NC_003071:15624929-15625029 66 1.15e-04 TGAAATAGGT AAGGAGAAAA CTTTGGTCAC
chrII-NC_003071:9037825-9037925 78 1.15e-04 AGTAAAACTA AAAAGGAAAT AATATAATTA
chrII-NC_003071:7940353-7940453 22 1.15e-04 TAGTAGCAAT ATAGGGAAAG TTGGTAACTT
chrIII-NC_003074:18805819-18805919 76 1.15e-04 AAGTTCGAAC AAAGAGAAAC AAGACTGACA
chrV-NC_003076:2612869-2612969 9 1.20e-04 TTTGGATCT AAGAGGACAC GTGGCAGTTG
chrIV-NC_003075:15205277-15205377 9 1.20e-04 TGCTTTCGA AAAAGGACAA TAATAATAAT
chrII-NC_003071:15100000-15100100 49 1.20e-04 CGTTGTTTTA AAGAGGACAA AAAAACATAG
chrV-NC_003076:7265876-7265976 17 1.45e-04 TGGCAAAAAA AAATAGAAAA TGTCTTTTCT
chrV-NC_003076:15871702-15871802 65 1.45e-04 CAATGGTATA AAGAAGGAAG TGTGTACTTG
chrIV-NC_003075:17585335-17585435 77 1.45e-04 TATTCTTAAA AAGTAGAAAC AATTCTGACT
chrIV-NC_003075:15918159-15918259 10 1.45e-04 CAAATCAGAA AGAGGGAAAA AAGTAAAGAA
chrIV-NC_003075:17398893-17398993 6 1.45e-04 GATGGA AGAGGGAAAA AGTGGACCCC
chrIV-NC_003075:17150919-17151019 4 1.45e-04 CTTG AAATAGAAAC ACTCTATCTC
chrI-NC_003070:8976292-8976392 22 1.45e-04 GCTCGATAGA ATATGGAAAG GAAGGAATCC
chrIII-NC_003074:5293159-5293259 7 1.45e-04 TAAGAAG AAGAAGGAAG CTATTGTTAT
chrIII-NC_003074:19604536-19604636 46 1.45e-04 TTCATGCTAT ATGTGGAAAG TAAAAAGAAT
chrV-NC_003076:5227549-5227649 4 1.57e-04 GTAT ATAAGGAAAC ACCACGTGGA
chrI-NC_003070:2120819-2120919 63 1.73e-04 CTATTTTTAA AGATGGAAAC GGCAAAAAGT
chrI-NC_003070:27175535-27175635 56 1.73e-04 GATCGGAAAT AGAGAGAAAG AGAGAGAGCG
chrII-NC_003071:8692383-8692483 58 1.73e-04 CCCAAATGGC AAAAGAAAAG TTCCTTACCT
chrV-NC_003076:1279585-1279685 58 1.82e-04 AACTGTCCCA ATAAAGAAAG ACGAAATTAC
chrI-NC_003070:29755660-29755760 58 1.82e-04 GCAAGACCTG ATAAAGAAAG TGTGAAGTGA
chrIII-NC_003074:20583641-20583741 59 1.82e-04 GGTTTGCCAA ATGAAGAAAG CTAATAAGAA
chrIV-NC_003075:17780863-17780963 2 1.99e-04 AG AAAGAGAGAG AGAGAGAGAC
chrI-NC_003070:983744-983844 53 1.99e-04 TTAGGGAATG AAATGGAGAA AATTGAAAAA
chrI-NC_003070:19848591-19848691 13 1.99e-04 ATCTGACAAG AGATAGAAAG AAATAGAGAG
chrV-NC_003076:7055346-7055446 39 2.12e-04 GTTTTAGGAA AATAGGAAAG TTCTGAATAG
chrIV-NC_003075:14841394-14841494 28 2.12e-04 AAAAAGGGTA AAAGGGACAA TTAAATGAGG
chrI-NC_003070:25228930-25229030 42 2.12e-04 AAGACAAGCT AATAGGAAAG TGGTTCGATG
chrI-NC_003070:3059248-3059348 56 2.12e-04 TTTAGCGGAC AGGAAGAAAA CAGAACATCT
chrV-NC_003076:17363432-17363532 43 2.28e-04 ATACAAATGG AAATAGAGAG AGAGAAAAGA
chrIV-NC_003075:18318575-18318675 42 2.28e-04 AGATAACCGA AACGGGAAAG TTCTAACGAA
chrI-NC_003070:10795050-10795150 39 2.28e-04 AATGTTGACT AAGGAGGAAG AAGGCAGAAT
chrII-NC_003071:15641842-15641942 46 2.28e-04 CTTTAGGGCA AAATGGGAAA AGAATCTAAA
chrV-NC_003076:19308671-19308771 51 2.51e-04 AGACCGTCAA AAGTGGACAA AACTGGGACG
chrIV-NC_003075:15291520-15291620 51 2.51e-04 TGCGTGATAT ATGGGGAAAA GAGGAGGTGA
chrI-NC_003070:9270027-9270127 19 2.51e-04 TGGTTGTGCT AAGAAGAGAC CCGACTCATT
chrI-NC_003070:29649886-29649986 13 2.51e-04 AACAAGAGAC AAAAAGAGAA TAGGTTTCTA
chrII-NC_003071:12941131-12941231 72 2.51e-04 CACATTACCA AAAAGGGCAG AGAGATTGAG
chrV-NC_003076:5205664-5205764 78 3.02e-04 TCACATAAAG AAGGGGTAAG GCTATTTTAG
chrV-NC_003076:26533070-26533170 4 3.02e-04 TGAT AGGAGGAGAC TAGAAGGAAG
chrI-NC_003070:11067795-11067895 24 3.02e-04 ATTGTTACAA ATATGGAAAC CTAATACGAA
chrI-NC_003070:1845343-1845443 49 3.02e-04 GACTTGACTA AACAGGAAAA GAAGTATCAT
chrII-NC_003071:15009644-15009744 36 3.02e-04 GCGTGAAAAG AAGAAGGAAC GTACAAAAGT
chrIII-NC_003074:20585730-20585830 80 3.02e-04 ATAAAAAATT AAAAAGAAAT AAAAAGGTCC
chrIII-NC_003074:23422784-23422884 19 3.19e-04 AGCCACGTGA AGGTGGGAAG AACGCACCAA
chrV-NC_003076:25086892-25086992 56 3.58e-04 CCTTCTCCGG ATATAGAAAG CGAGGATCTA
chrV-NC_003076:26562477-26562577 73 3.58e-04 CGTAAAGTCC AAAAGAAAAA AATCAAACGA
chrI-NC_003070:20564017-20564117 1 3.58e-04 G AAAAGAAAAA AGAAGAATGA
chrIII-NC_003074:20739342-20739442 75 3.58e-04 TGACAATGAC AAAAGAAAAC TTTAAATAGA
chrIII-NC_003074:3098089-3098189 11 3.58e-04 TCAAAGGAAG AGAAAGAGAG TAATATACAG
chrIII-NC_003074:23288300-23288400 22 3.58e-04 TTAATTAAGC AAAAGAAAAC AACACAACCC
chrIV-NC_003075:14815766-14815866 73 3.85e-04 ATATCACCTG AAGAGGTAAA AATGATCTAA
chrI-NC_003070:27713517-27713617 46 3.85e-04 AAAACACCAA AAGAGGTAAA TCTCTTACAT
chrII-NC_003071:17811225-17811325 38 3.85e-04 TGTGAGTCTG AAGAGGTAAA TTCAGAACCT
chrII-NC_003071:15692135-15692235 28 4.19e-04 TGAGAAGGGC AAAGAGAGAC ATAGGTTCAA
chrIII-NC_003074:3366520-3366620 41 4.31e-04 CCGCCGCTAA AGGAAGACAG AGACAATACC
chrV-NC_003076:206010-206110 89 4.66e-04 TACCGTATGG AAATAGAGAC A
chrI-NC_003070:11033851-11033951 44 4.66e-04 GAGTTACTGC AAATAGAGAA TATTATTACC
chrIII-NC_003074:23458934-23459034 26 4.66e-04 TGGATAAAAG AGAAGAAAAG ACAAAAGAAT
chrIV-NC_003075:7868931-7869031 9 4.88e-04 GTTCACGTG AAGAGGGCAA TGTTTCTGAT
chrI-NC_003070:26727705-26727805 31 5.31e-04 TAGAATGGTA AAGAGAAGAG AGTGCTTTCG
chrIII-NC_003074:7211454-7211554 57 5.31e-04 GCAGACAATG AGAGAGAGAG AGATAGTACC

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:7211454-7211554 5.31e-04
chrIII-NC_003074:20585730-20585830 3.02e-04
chrIII-NC_003074:20121173-20121273 8.01e-06
chrIII-NC_003074:18805819-18805919 1.15e-04
chrIII-NC_003074:23288300-23288400 3.58e-04
chrIII-NC_003074:23422784-23422884 3.19e-04
chrIII-NC_003074:23458934-23459034 4.66e-04
chrIII-NC_003074:19604536-19604636 1.45e-04
chrIII-NC_003074:3098089-3098189 3.58e-04
chrIII-NC_003074:18470146-18470246 4.32e-05
chrIII-NC_003074:19121199-19121299 4.91e-06
chrIII-NC_003074:3366520-3366620 4.31e-04
chrIII-NC_003074:21233568-21233668 6.84e-05
chrIII-NC_003074:5047285-5047385 3.08e-06
chrIII-NC_003074:20739342-20739442 3.58e-04
chrIII-NC_003074:2314802-2314902 7.62e-05
chrIII-NC_003074:20583641-20583741 1.82e-04
chrIII-NC_003074:19168255-19168355 1.63e-05
chrIII-NC_003074:5293159-5293259 1.45e-04
chrII-NC_003071:519691-519791 6.84e-05
chrII-NC_003071:17819849-17819949 3.08e-06
chrII-NC_003071:15206954-15207054 1.63e-05
chrII-NC_003071:14735573-14735673 1.63e-05
chrII-NC_003071:16504450-16504550 7.91e-05
chrII-NC_003071:17791525-17791625 6.84e-05
chrII-NC_003071:9577588-9577688 8.82e-05
chrII-NC_003071:19050821-19050921 3.08e-06
chrII-NC_003071:15692135-15692235 4.19e-04
chrII-NC_003071:7940353-7940453 1.15e-04
chrII-NC_003071:8692383-8692483 1.73e-04
chrII-NC_003071:9037825-9037925 1.15e-04
chrII-NC_003071:17811225-17811325 3.85e-04
chrII-NC_003071:14343662-14343762 8.01e-06
chrII-NC_003071:18423064-18423164 3.08e-06
chrII-NC_003071:12941131-12941231 2.51e-04
chrII-NC_003071:15624929-15625029 1.15e-04
chrII-NC_003071:12683085-12683185 1.63e-05
chrII-NC_003071:15100000-15100100 1.20e-04
chrII-NC_003071:15009644-15009744 3.02e-04
chrII-NC_003071:15641842-15641942 2.28e-04
chrI-NC_003070:7930468-7930568 3.08e-06
chrI-NC_003070:29649886-29649986 2.51e-04
chrI-NC_003070:6459719-6459819 8.01e-06
chrI-NC_003070:9270027-9270127 2.51e-04
chrI-NC_003070:2990781-2990881 1.63e-05
chrI-NC_003070:1845343-1845443 3.02e-04
chrI-NC_003070:4600590-4600690 3.08e-06
chrI-NC_003070:28183883-28183983 1.63e-05
chrI-NC_003070:19848591-19848691 1.99e-04
chrI-NC_003070:11033851-11033951 4.66e-04
chrI-NC_003070:3059248-3059348 2.12e-04
chrI-NC_003070:17506694-17506794 4.32e-05
chrI-NC_003070:9778028-9778128 4.91e-06
chrI-NC_003070:25228930-25229030 2.12e-04
chrI-NC_003070:27175535-27175635 1.73e-04
chrI-NC_003070:11067795-11067895 3.02e-04
chrI-NC_003070:9950783-9950883 6.84e-05
chrI-NC_003070:4904669-4904769 6.84e-05
chrI-NC_003070:26011665-26011765 4.32e-05
chrI-NC_003070:7461930-7462030 1.63e-05
chrI-NC_003070:20564017-20564117 3.58e-04
chrI-NC_003070:8976292-8976392 1.45e-04
chrI-NC_003070:10795050-10795150 2.28e-04
chrI-NC_003070:26727705-26727805 5.31e-04
chrI-NC_003070:553848-553948 1.63e-05
chrI-NC_003070:2120819-2120919 1.73e-04
chrI-NC_003070:18690429-18690529 1.15e-04
chrI-NC_003070:27363797-27363897 1.63e-05
chrI-NC_003070:983744-983844 1.99e-04
chrI-NC_003070:27713517-27713617 3.85e-04
chrI-NC_003070:11630779-11630879 4.32e-05
chrI-NC_003070:29755660-29755760 1.82e-04
chrI-NC_003070:2626158-2626258 2.15e-05
chrI-NC_003070:21192338-21192438 3.08e-06
chrI-NC_003070:8598785-8598885 5.14e-05
chrI-NC_003070:25226373-25226473 7.62e-05
chrI-NC_003070:23061511-23061611 1.15e-04
chrIV-NC_003075:9257678-9257778 6.84e-05
chrIV-NC_003075:14372903-14373003 6.84e-05
chrIV-NC_003075:10386496-10386596 6.84e-05
chrIV-NC_003075:12357392-12357492 4.32e-05
chrIV-NC_003075:16980446-16980546 3.08e-06
chrIV-NC_003075:13854253-13854353 5.14e-05
chrIV-NC_003075:17150919-17151019 1.45e-04
chrIV-NC_003075:8452707-8452807 1.15e-04
chrIV-NC_003075:17395813-17395913 8.01e-06
chrIV-NC_003075:15205277-15205377 1.20e-04
chrIV-NC_003075:5155452-5155552 6.84e-05
chrIV-NC_003075:17979925-17980025 1.63e-05
chrIV-NC_003075:11604857-11604957 1.63e-05
chrIV-NC_003075:8419613-8419713 3.08e-06
chrIV-NC_003075:18318575-18318675 2.28e-04
chrIV-NC_003075:17398893-17398993 1.45e-04
chrIV-NC_003075:14815766-14815866 3.85e-04
chrIV-NC_003075:7868931-7869031 4.88e-04
chrIV-NC_003075:15918159-15918259 1.45e-04
chrIV-NC_003075:17780863-17780963 1.99e-04
chrIV-NC_003075:14359075-14359175 6.84e-05
chrIV-NC_003075:15291520-15291620 2.51e-04
chrIV-NC_003075:14841394-14841494 2.12e-04
chrIV-NC_003075:16689638-16689738 4.32e-05
chrIV-NC_003075:17585335-17585435 1.45e-04
chrM:272146-272246 4.91e-06
chrV-NC_003076:26562477-26562577 3.58e-04
chrV-NC_003076:9133324-9133424 8.01e-06
chrV-NC_003076:19308671-19308771 2.51e-04
chrV-NC_003076:23314284-23314384 4.32e-05
chrV-NC_003076:23785207-23785307 8.01e-06
chrV-NC_003076:26533070-26533170 3.02e-04
chrV-NC_003076:17363432-17363532 2.28e-04
chrV-NC_003076:9480412-9480512 4.32e-05
chrV-NC_003076:6320651-6320751 3.08e-06
chrV-NC_003076:21763609-21763709 1.15e-04
chrV-NC_003076:792884-792984 4.91e-06
chrV-NC_003076:18000346-18000446 2.15e-05
chrV-NC_003076:1279585-1279685 1.82e-04
chrV-NC_003076:3771493-3771593 1.15e-04
chrV-NC_003076:206010-206110 4.66e-04
chrV-NC_003076:2284144-2284244 4.91e-06
chrV-NC_003076:7055346-7055446 2.12e-04
chrV-NC_003076:3864653-3864753 8.01e-06
chrV-NC_003076:15871702-15871802 1.45e-04
chrV-NC_003076:25086892-25086992 3.58e-04
chrV-NC_003076:5205664-5205764 3.02e-04
chrV-NC_003076:7265876-7265976 1.45e-04
chrV-NC_003076:2612869-2612969 1.20e-04
chrV-NC_003076:7385658-7385758 3.08e-06
chrV-NC_003076:5227549-5227649 1.57e-04
chrV-NC_003076:7256719-7256819 4.91e-06
 
0
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Time 63.7 secs.

Motif 2

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Summary

Sequence Logo

E-value 3.2e-034
Width 10
Sites 96
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

C[CT][AT][TC]TTT[TG]G[GT]

Further Analysis

Submit this motif to  
      
      
      
      
 Mouse-over buttons for more information.

Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
     Raw Format 
     or Hide

Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:20779537-20779637 51 6.75e-07 ACTTTTGTGT CCACTTTTGG TGAATCTACT
chrIV-NC_003075:17006711-17006811 63 6.75e-07 TCTTGTTGAT CCACTTTTGG TTGTTGATAT
chrI-NC_003070:6916711-6916811 69 6.75e-07 ACACGTTATT CCACTTTTGG CTCCTTTGCT
chrII-NC_003071:17620274-17620374 36 6.75e-07 TGAAAATATG CCACTTTTGG CTCCTCTACT
chrV-NC_003076:8903397-8903497 50 2.51e-06 AAAATCATTT CCTCTTTTGG CGGGAGAATT
chrIV-NC_003075:14325477-14325577 26 2.51e-06 TAAGTACTTT CCTCTTTTGG CGGGTTTAAA
chrI-NC_003070:25391314-25391414 52 2.51e-06 CCTAAATTTA CCATTTTTGG CAAGTAAAAT
chrI-NC_003070:26059435-26059535 25 2.51e-06 TTATTCTTTA CCATTTTTGG GTTTGGTCTA
chrII-NC_003071:19198253-19198353 42 2.51e-06 TTTCTACTTT CCTCTTTTGG ATTCATTAAT
chrIII-NC_003074:23155345-23155445 75 2.91e-06 AAACTGCATT CCACTTTGGG AACCAGGTAA
chrV-NC_003076:26042698-26042798 35 4.07e-06 TAACATGCTT CTACTTTTGG CAAAGAAAAA
chrV-NC_003076:26645161-26645261 79 5.23e-06 TGACTTTGAC CCTTTTTTGG TAATATTCGT
chrI-NC_003070:4904669-4904769 74 5.23e-06 AGACTTTAGT CCTTTTTTGG TTTCTTGTAA
chrI-NC_003070:9270027-9270127 70 5.23e-06 TTGCCTTCAT CCTTTTTTGG TAGTTAGTTC
chrV-NC_003076:1855800-1855900 63 6.32e-06 ACGAAGGTTA CCATTTTGGG CTAAAAGTTA
chrV-NC_003076:7265876-7265976 0 9.47e-06 CTATTTTTGG CAAAAAAAAA
chrI-NC_003070:7341602-7341702 45 9.47e-06 ACCCTGAGGT CTATTTTTGG TTGTATCAAT
chrI-NC_003070:7930468-7930568 12 9.47e-06 ATGAGACTTT CTATTTTTGG GAGTAGAGAT
chrII-NC_003071:14331382-14331482 18 9.47e-06 TGTTTCCTAT CTTCTTTTGG AAAGTCTCTC
chrII-NC_003071:18811685-18811785 38 9.47e-06 GAGGCATTTG CTATTTTTGG TCCCTCGGAT
chrIII-NC_003074:5561291-5561391 86 9.47e-06 GGCTAGTATT CTATTTTTGG GTTT
chrIII-NC_003074:5047285-5047385 65 9.47e-06 ACACGTCTAT CTTCTTTTGG TTAAAGTGAT
chrV-NC_003076:10455493-10455593 54 1.02e-05 TCTAGCTTTT CTACTTTGGG AGATGATAGA
chrIV-NC_003075:9319717-9319817 37 1.02e-05 TTCTGGTTAG CTACTTTGGG ATTAGTTTTT
chrIII-NC_003074:7507439-7507539 11 1.12e-05 TCTTTCTTTC CCTTTTTGGG TGTCATCTCT
chrV-NC_003076:22997200-22997300 35 1.39e-05 CATGACTTGT CTTTTTTTGG TTTCTTCCCA
chrII-NC_003071:19299005-19299105 41 1.39e-05 CACAATTAGG CTTTTTTTGG CCAAGTTCAC
chrII-NC_003071:16559057-16559157 67 1.39e-05 AACGAGATTA CCACTTTAGG AAGTGCTATT
chrIII-NC_003074:4606069-4606169 67 1.39e-05 CCATTTTCTT CTTTTTTTGG TAAAAGTTTG
chrIII-NC_003074:21732109-21732209 14 1.39e-05 TCGAGTCGTC CTTTTTTTGG TATCAGTAGA
chrV-NC_003076:25805087-25805187 55 1.58e-05 AGACAACGCT CTATTTTGGG TAATCAATTA
chrI-NC_003070:1188247-1188347 33 1.58e-05 TTCTTTCTTC CTATTTTGGG TATGCAAAGT
chrI-NC_003070:6174575-6174675 18 1.58e-05 GTGATGGTTA CTATTTTGGG CGGGCTCACA
chrIII-NC_003074:1373643-1373743 41 1.80e-05 TTTCTCCCTC CCATTTCTGG TAAAAATTGT
chrIII-NC_003074:10163065-10163165 40 1.80e-05 AAAGCGTGGA CCATTTCTGG ATTCCAAAGC
chrIII-NC_003074:5247202-5247302 57 1.80e-05 TAATTACATT CCTCTTCTGG ATAATAAGTA
chrI-NC_003070:7142968-7143068 38 2.07e-05 ATGTACCCTT CCACTTCGGG AATCCATTAT
chrII-NC_003071:18414199-18414299 39 2.45e-05 ACTATTTTTG CCCCTTTTGG CTACTTGACT
chrIII-NC_003074:9812854-9812954 16 2.45e-05 TATAAAGTAG CCAATTTTGG GAAAGATTTT
chrI-NC_003070:27498072-27498172 45 2.95e-05 CAGACCCATG CCTCTTTTGT GCCATTCCCC
chrV-NC_003076:26149135-26149235 31 4.09e-05 AACAACTTGT CTATTTCTGG TAAAGGTTTC
chrI-NC_003070:27596253-27596353 79 4.09e-05 AGGCTTAAAG CTACTTTTGT GTCTTCGTTT
chrII-NC_003071:10191605-10191705 34 4.09e-05 ACAAGTCCCT CTACTTTTGT TTTCTTTCCT
chrV-NC_003076:25504498-25504598 41 4.67e-05 CTGTAAAGTT CTATTTTAGG TAACCCTACA
chrII-NC_003071:18813108-18813208 62 4.67e-05 ATTATATTCA CTTCTTTAGG TGTTTTTTTT
chrV-NC_003076:22388470-22388570 41 5.20e-05 AAAGTGAATG CTAATTTTGG CACGTACCCC
chrV-NC_003076:23670310-23670410 35 5.20e-05 AAGTAAAACA CTCCTTTTGG GGAAATAAAT
chrIV-NC_003075:14207916-14208016 81 5.20e-05 TTGTATTGAG CTAATTTTGG TCGGATTCA
chrIII-NC_003074:8238773-8238873 45 5.20e-05 ATATCATCTT CTAATTTTGG CAGAATCTTT
chrI-NC_003070:19848591-19848691 68 5.54e-05 ACCTTTTTTC CCATTTTGGT TTCATCCTTT
chrII-NC_003071:17446381-17446481 50 5.54e-05 CAATCTTTTA CCTCTTTGGT ATTGAACATT
chrIII-NC_003074:22939534-22939634 46 5.54e-05 TCCTCTTCTG CCTCTTTGGT GATTCTTAGC
chrIV-NC_003075:1157171-1157271 85 6.45e-05 ACACGCTTTT CCACTTTCGG ATTTC
chrI-NC_003070:25409323-25409423 51 6.45e-05 CATATGTTTA CTATTTTTGT GTATATTCTG
chrI-NC_003070:7765843-7765943 12 6.45e-05 ATCTCTACTT CTATTTTTGT AGTAGTTGTC
chrIII-NC_003074:22634247-22634347 86 6.45e-05 ACCCCTTGAG CTTTTTCTGG CTTG
chrV-NC_003076:16337677-16337777 37 7.36e-05 TATTGTGTCT CTATTTATGG AAGTGTAAAG
chrV-NC_003076:24507182-24507282 27 7.36e-05 AAAAAGTGGC CTATTTATGG GAAGAGAATC
chrV-NC_003076:5863141-5863241 5 7.36e-05 AGTCA CTATTTATGG TTAGAAAATA
chrI-NC_003070:25228930-25229030 68 7.36e-05 GATGAGTTTA CTTCTTCGGG AAAGTGGTGT
chrIII-NC_003074:5293159-5293259 42 7.36e-05 TGAGAGATTT CTATTTCGGG AAGCTATTTC
chrII-NC_003071:18811088-18811188 44 7.93e-05 TCATCCTTTA CTTATTTTGG AAAAAAGCCT
chrII-NC_003071:15624929-15625029 19 7.93e-05 CAAAAATATG CTATTTGTGG GACTGTTTCA
chrIII-NC_003074:22328133-22328233 53 7.93e-05 TTTTCTTTAG CTACTTAGGG AATGACGTTT
chrV-NC_003076:21045204-21045304 19 9.04e-05 GTGTATGTGC CCTTTTAGGG CAACAATTAA
chrI-NC_003070:8305313-8305413 43 9.04e-05 ATTGACCCAT CCATTTTCGG GCCATGTTTG
chrIII-NC_003074:21371987-21372087 84 9.04e-05 GTGTGTCACC CTTTTTTTGT ATGAGA
chrV-NC_003076:2612869-2612969 66 9.82e-05 GATAACGAAA CCTTTTGGGG TATTTTTGGC
chrV-NC_003076:2856548-2856648 35 1.05e-04 CTTTTTATTT CCCCTTTAGG GTAGCTTTAC
chrIV-NC_003075:17397910-17398010 42 1.05e-04 GCAGTAGTTT CCACTTGAGG AAAGCAACAT
chrIII-NC_003074:4732994-4733094 70 1.05e-04 ACTTAGTCTT CTTCTTAGGG GTATTAGCGT
chrI-NC_003070:5086105-5086205 76 1.10e-04 TACTAGTTTG CCAGTTTTGG AGCCCCAAAC
chrV-NC_003076:23659088-23659188 51 1.17e-04 CGTGATTATT CCTCTTTAGT CTTTACTCCC
chrV-NC_003076:4451029-4451129 42 1.17e-04 TACCTTTTTG CCACATTTGG AGGATTTTGT
chrIV-NC_003075:13854253-13854353 41 1.17e-04 TTATAGCTTT CCTTTTCAGG AAAGTATTAT
chrIV-NC_003075:16980446-16980546 8 1.17e-04 CACCGTAC CCATTTTAGT TTGGTATAAC
chrV-NC_003076:2532992-2533092 9 1.26e-04 AGACCTTAG CCTATTCTGG CGTTACCTTT
chrIV-NC_003075:8435508-8435608 31 1.38e-04 TGTTTGTATA CTACTTTAGT CTAGATGGAC
chrIV-NC_003075:17319854-17319954 41 1.38e-04 TTAGAGATTT CCTATTTAGG AAACGAGACG
chrI-NC_003070:28461394-28461494 2 1.38e-04 AG CCTCTTGAGG ACTTTGAGGA
chrV-NC_003076:2409276-2409376 50 1.57e-04 AATTTACTTT CCTCTTATGT TCTCAACCAA
chrV-NC_003076:2939811-2939911 35 1.57e-04 ACCAATCTCA CCTTTTTAGT AACTTGAATT
chrIII-NC_003074:18660013-18660113 33 1.57e-04 TTGGTTTTAC CCTCTTATGT TGACACTGAA
chrV-NC_003076:6409328-6409428 85 1.69e-04 ACACGAGGAG CCATTTGTGT GTGTG
chrV-NC_003076:5205664-5205764 89 1.87e-04 AGGGGTAAGG CTATTTTAGT A
chrV-NC_003076:4984711-4984811 41 1.87e-04 ATAATTTAAT CCAATTTGGT AAGAAGATTT
chrII-NC_003071:15690335-15690435 88 1.87e-04 AGCTTTCTTT CTACTTATGT AC
chrII-NC_003071:18609160-18609260 49 1.87e-04 TATTTTATTC CCAATTTGGT ATTCTTCTTC
chrII-NC_003071:9523120-9523220 55 2.01e-04 TCTCTTCTTC CTCCTTTTGT CATATTACTT
chrV-NC_003076:3045845-3045945 42 2.15e-04 ACTGTTGTTG CCTTTTATGT TCGGTTTCCT
chrI-NC_003070:4548708-4548808 57 2.49e-04 TGGATACTTT CTATATTTGG AAAGTTTGGC
chrV-NC_003076:1395612-1395712 63 2.82e-04 AAGTAGGTTT CCACTTTGCG CTCATGCATA
chrII-NC_003071:18372646-18372746 13 2.82e-04 GCATCAATCT CTATGTTTGG TTAATAAGAA
chrV-NC_003076:39082-39182 50 2.96e-04 TGTCAACTTT CCTTTTTTAG ATTTAAGTGT
chrIII-NC_003074:1631851-1631951 46 3.12e-04 ATGTTCTTTG CCTCTTTGAG AACTGTAGGA
chrI-NC_003070:8075697-8075797 56 4.85e-04 AGGGGGTCCT TTATTTTTGG CATTTGACCA

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:18660013-18660113 1.57e-04
chrIII-NC_003074:22939534-22939634 5.54e-05
chrIII-NC_003074:1631851-1631951 3.12e-04
chrIII-NC_003074:5247202-5247302 1.80e-05
chrIII-NC_003074:9812854-9812954 2.45e-05
chrIII-NC_003074:7507439-7507539 1.12e-05
chrIII-NC_003074:5047285-5047385 9.47e-06
chrIII-NC_003074:10163065-10163165 1.80e-05
chrIII-NC_003074:21371987-21372087 9.04e-05
chrIII-NC_003074:22328133-22328233 7.93e-05
chrIII-NC_003074:22634247-22634347 6.45e-05
chrIII-NC_003074:23155345-23155445 2.91e-06
chrIII-NC_003074:21732109-21732209 1.39e-05
chrIII-NC_003074:8238773-8238873 5.20e-05
chrIII-NC_003074:4606069-4606169 1.39e-05
chrIII-NC_003074:5293159-5293259 7.36e-05
chrIII-NC_003074:1373643-1373743 1.80e-05
chrIII-NC_003074:5561291-5561391 9.47e-06
chrIII-NC_003074:4732994-4733094 1.05e-04
chrII-NC_003071:18811685-18811785 9.47e-06
chrII-NC_003071:18609160-18609260 1.87e-04
chrII-NC_003071:18372646-18372746 2.82e-04
chrII-NC_003071:18414199-18414299 2.45e-05
chrII-NC_003071:9523120-9523220 2.01e-04
chrII-NC_003071:17620274-17620374 6.75e-07
chrII-NC_003071:17446381-17446481 5.54e-05
chrII-NC_003071:14331382-14331482 9.47e-06
chrII-NC_003071:15690335-15690435 1.87e-04
chrII-NC_003071:18813108-18813208 4.67e-05
chrII-NC_003071:16559057-16559157 1.39e-05
chrII-NC_003071:15624929-15625029 7.93e-05
chrII-NC_003071:18811088-18811188 7.93e-05
chrII-NC_003071:10191605-10191705 4.09e-05
chrII-NC_003071:19299005-19299105 1.39e-05
chrII-NC_003071:19198253-19198353 2.51e-06
chrI-NC_003070:8075697-8075797 4.85e-04
chrI-NC_003070:7930468-7930568 9.47e-06
chrI-NC_003070:9270027-9270127 5.23e-06
chrI-NC_003070:19848591-19848691 5.54e-05
chrI-NC_003070:4548708-4548808 2.49e-04
chrI-NC_003070:5086105-5086205 1.10e-04
chrI-NC_003070:7142968-7143068 2.07e-05
chrI-NC_003070:7765843-7765943 6.45e-05
chrI-NC_003070:6174575-6174675 1.58e-05
chrI-NC_003070:25228930-25229030 7.36e-05
chrI-NC_003070:28461394-28461494 1.38e-04
chrI-NC_003070:4904669-4904769 5.23e-06
chrI-NC_003070:7341602-7341702 9.47e-06
chrI-NC_003070:25409323-25409423 6.45e-05
chrI-NC_003070:26059435-26059535 2.51e-06
chrI-NC_003070:6916711-6916811 6.75e-07
chrI-NC_003070:25391314-25391414 2.51e-06
chrI-NC_003070:27498072-27498172 2.95e-05
chrI-NC_003070:27596253-27596353 4.09e-05
chrI-NC_003070:8305313-8305413 9.04e-05
chrI-NC_003070:1188247-1188347 1.58e-05
chrIV-NC_003075:17319854-17319954 1.38e-04
chrIV-NC_003075:8435508-8435608 1.38e-04
chrIV-NC_003075:17397910-17398010 1.05e-04
chrIV-NC_003075:16980446-16980546 1.17e-04
chrIV-NC_003075:13854253-13854353 1.17e-04
chrIV-NC_003075:9319717-9319817 1.02e-05
chrIV-NC_003075:14325477-14325577 2.51e-06
chrIV-NC_003075:17006711-17006811 6.75e-07
chrIV-NC_003075:1157171-1157271 6.45e-05
chrIV-NC_003075:14207916-14208016 5.20e-05
chrV-NC_003076:21045204-21045304 9.04e-05
chrV-NC_003076:23670310-23670410 5.20e-05
chrV-NC_003076:2939811-2939911 1.57e-04
chrV-NC_003076:39082-39182 2.96e-04
chrV-NC_003076:25504498-25504598 4.67e-05
chrV-NC_003076:1395612-1395712 2.82e-04
chrV-NC_003076:26645161-26645261 5.23e-06
chrV-NC_003076:1855800-1855900 6.32e-06
chrV-NC_003076:4451029-4451129 1.17e-04
chrV-NC_003076:3045845-3045945 2.15e-04
chrV-NC_003076:2409276-2409376 1.57e-04
chrV-NC_003076:20779537-20779637 6.75e-07
chrV-NC_003076:25805087-25805187 1.58e-05
chrV-NC_003076:2856548-2856648 1.05e-04
chrV-NC_003076:5863141-5863241 7.36e-05
chrV-NC_003076:22997200-22997300 1.39e-05
chrV-NC_003076:24507182-24507282 7.36e-05
chrV-NC_003076:23659088-23659188 1.17e-04
chrV-NC_003076:4984711-4984811 1.87e-04
chrV-NC_003076:26149135-26149235 4.09e-05
chrV-NC_003076:22388470-22388570 5.20e-05
chrV-NC_003076:5205664-5205764 1.87e-04
chrV-NC_003076:7265876-7265976 9.47e-06
chrV-NC_003076:8903397-8903497 2.51e-06
chrV-NC_003076:2612869-2612969 9.82e-05
chrV-NC_003076:6409328-6409428 1.69e-04
chrV-NC_003076:16337677-16337777 7.36e-05
chrV-NC_003076:2532992-2533092 1.26e-04
chrV-NC_003076:10455493-10455593 1.02e-05
chrV-NC_003076:26042698-26042798 4.07e-06
 
0
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100

Time 107.2 secs.

Motif 3

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Summary

Sequence Logo

E-value 5.5e-019
Width 10
Sites 74
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

T[CT]T[CT]T[TC]T[CT][TC][CT]

Further Analysis

Submit this motif to  
      
      
      
      
 Mouse-over buttons for more information.

Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
     Raw Format 
     or Hide

Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:22997200-22997300 87 6.65e-07 ATTGATCACC TCTCTCTCTC ATC
chrIV-NC_003075:14207916-14208016 19 6.65e-07 TTTTACCCTT TCTCTCTCTC TCTTTCTCTG
chrI-NC_003070:6579449-6579549 74 6.65e-07 TAGTTTTACC TCTCTCTCTC TTCTTTTTTC
chrI-NC_003070:8717843-8717943 80 6.65e-07 GCACAATGCG TCTCTCTCTC TCTCTCTCTA
chrII-NC_003071:436660-436760 86 6.65e-07 TGACTATTTA TCTCTCTCTC TCGT
chrII-NC_003071:999352-999452 37 6.65e-07 TTTATCTCTT TCTCTCTCTC TCTTCTCTTT
chrII-NC_003071:9580218-9580318 8 6.65e-07 GCAAAAAT TCTCTCTCTC ACAAAATTTA
chrII-NC_003071:15784362-15784462 34 1.05e-06 ATGGTCCCCT TCTCTCTCCC ATAACCCTAC
chrIII-NC_003074:5121329-5121429 43 1.05e-06 TCGCTTTTAC TCTCTCTCCC ATCCTATATA
chrV-NC_003076:6812378-6812478 1 2.19e-06 T TCTCTTTCTC CACCGTTGAG
chrV-NC_003076:5616726-5616826 89 2.19e-06 CTATCACATC TCTCTTTCTC T
chrI-NC_003070:9589553-9589653 83 2.19e-06 CGTTTCTGCG TCTCTTTCTC TCGTCCT
chrIII-NC_003074:1373643-1373743 60 2.19e-06 GTAAAAATTG TCTCTTTCTC TCTTCTTTTC
chrV-NC_003076:5866573-5866673 35 2.86e-06 ATTGGAGTTG TCTCTTTCCC TTGTAATCTC
chrII-NC_003071:16221715-16221815 58 2.86e-06 GTACATCAAA TCTCTTTCCC TTTATAAAAC
chrI-NC_003070:13228460-13228560 12 4.66e-06 GCTTTTTTTT TCTCTCTTCC TGAAGCAAGC
chrIII-NC_003074:8238773-8238873 78 5.33e-06 CTAATTCCAC TCTCTCTGTC CGAAAATTTC
chrV-NC_003076:26837903-26838003 76 8.01e-06 GTAAAAAGTA TCTCTCTCTT TCTTTCTATC
chrV-NC_003076:26138524-26138624 85 8.01e-06 CTCTCCATCA TCTCTCTCTT TTTCT
chrV-NC_003076:1891492-1891592 78 1.13e-05 ACATTTTTGG TTTCTCTCCC AAAATTGAAC
chrII-NC_003071:8057123-8057223 30 1.13e-05 TATTCTATAC TCTCTCTCCT TTATCTTTGC
chrV-NC_003076:3478444-3478544 77 1.24e-05 AGGTGCCCTC TCTCTTTTCC CTATCTTAAG
chrV-NC_003076:26805608-26805708 34 1.47e-05 TCCCTCTCCC TCTTTCTCTC TACGCATATA
chrII-NC_003071:18635636-18635736 74 1.47e-05 CTATGGTCCG TCTCTTTGTC TTTATGTCGC
chrII-NC_003071:11771581-11771681 21 1.47e-05 AGGAAATGAA TCTCTTTGTC AAGTTGATGT
chrIII-NC_003074:1216748-1216848 8 2.00e-05 ATTTTTTC TTTCTTTCTC CTTTTCTACT
chrV-NC_003076:26012556-26012656 88 2.27e-05 TTCGAGGTGA TCTCTTTCCT TT
chrIII-NC_003074:5222127-5222227 41 2.27e-05 CATTATGTTT TTTCTTTCCC TTTTTGCTGT
chrIII-NC_003074:22328133-22328233 6 2.27e-05 ACCCAA TTTCTTTCCC AATCATTTGA
chrII-NC_003071:18414199-18414299 65 2.73e-05 GACTCTTCTG TGTCTCTCTC ATCAAATCAA
chrIII-NC_003074:9959827-9959927 82 3.24e-05 CATTATACCA TCTCTCTTTT TTTTTTAC
chrIII-NC_003074:4388456-4388556 63 3.24e-05 CACCTCACCT TCTCTCTTTT TTTTTTCTTT
chrV-NC_003076:7265876-7265976 34 4.43e-05 AAATGTCTTT TCTTTCTTTC ATTAAACTTT
chrI-NC_003070:11630779-11630879 90 4.43e-05 CTTTCTTTTT TCTTTCTTTC
chrIII-NC_003074:22634247-22634347 32 4.43e-05 CCTCTGTTTT TTTCTCTCTT TATTTCTGCA
chrIII-NC_003074:7507439-7507539 1 4.43e-05 C TCTTTCTTTC CCTTTTTGGG
chrIII-NC_003074:20587475-20587575 56 4.43e-05 ACGCAACGCA TCTCTCTGCT CTCTTCGTTT
chrI-NC_003070:2120819-2120919 89 5.40e-05 AAGTTATGGT TCTTTCTTCC A
chrII-NC_003071:9523120-9523220 39 5.40e-05 AATCACGTGT TCCCTTTCTC TTCTTCCTCC
chrII-NC_003071:17819849-17819949 51 5.40e-05 AGCCCATACC TCTCTTTTTT CCTCTAAACA
chrIII-NC_003074:5047285-5047385 26 5.40e-05 TATCGTCGAG TTTCTTTTTC TTTATGCTTA
chrIII-NC_003074:467796-467896 54 5.40e-05 CTATCATCAT TTTCTTTTTC TTACTTCACA
chrV-NC_003076:22779197-22779297 88 6.01e-05 TGTAACTTTT TTTCTTTTCC TT
chrIV-NC_003075:17398893-17398993 73 6.91e-05 AACATTTTCC TTTTTCTCTC ATAATTCCTT
chrIII-NC_003074:5293159-5293259 58 6.91e-05 CGGGAAGCTA TTTCTTTGTC TTCTTCAATT
chrV-NC_003076:1894196-1894296 83 8.08e-05 ACCAGAAGAC TTTCTTTCTT TTTAAGG
chrV-NC_003076:10455493-10455593 21 8.08e-05 GTGGAAGAGA TCTTTTTTTC CTTTTTATTG
chrI-NC_003070:28236998-28237098 17 8.08e-05 CACAGATCCG TCTTTCTCCT CCACACAATA
chrI-NC_003070:29216817-29216917 56 8.08e-05 TATCTGAGCT TCTTTCTCCT CTATGACCAT
chrII-NC_003071:16641474-16641574 47 8.08e-05 ACGGTTGATA TCTCCCTGTC ACTATTTATC
chrII-NC_003071:17743083-17743183 5 8.08e-05 TCTTT TCTTTTTTTC TTTTTTTGCG
chrII-NC_003071:14331382-14331482 76 8.08e-05 TTCTTCACAC TCTCTTTGCT CTTCTTTGGT
chrII-NC_003071:10191605-10191705 44 8.62e-05 CTACTTTTGT TTTCTTTCCT TTTTCGTCTA
chrIII-NC_003074:5236784-5236884 41 8.62e-05 TTTAGAATCA TTTCTTTCCT AAAATAGTAA
chrV-NC_003076:21900890-21900990 88 9.13e-05 TTATTAATTA TGTCTCTTTC TA
chrI-NC_003070:9270027-9270127 55 1.01e-04 TGGTAAACTC TCTTTTTGCC TTCATCCTTT
chrIII-NC_003074:4608315-4608415 86 1.07e-04 CATCTTTGTC TGTCTCTGTC CGAA
chrI-NC_003070:9264433-9264533 58 1.13e-04 AAACTAGACC TCTCCTTGCC TATTATTGCC
chrIV-NC_003075:14902725-14902825 26 1.17e-04 ACTGCAAACA TGTCTTTTTC TGACCAACCC
chrIV-NC_003075:13013992-13014092 10 1.24e-04 GAATTTCACT TTCCTCTCTC GGACCTTACA
chrI-NC_003070:21192338-21192438 54 1.39e-04 AATTAATCTG TCTTCTTCCC CAATCCCGAA
chrI-NC_003070:10693165-10693265 50 1.39e-04 CTTCCATTGG TCTCTTTCAC AGTACTTACG
chrII-NC_003071:18690235-18690335 26 1.39e-04 TCTTGCTTTA TGTCTTTCTT GTTTCTGTAA
chrIV-NC_003075:13016189-13016289 11 1.50e-04 TCTCTATCTA TCTTTCTTTT CTAATTCAGG
chrIII-NC_003074:18246189-18246289 15 1.64e-04 TCTAGGTTGT TCTGTTTCTC ATACAGTCCA
chrV-NC_003076:6225921-6226021 19 1.78e-04 CAGATTAACG TTTCTTTTCT TTTCTTATAT
chrV-NC_003076:18000346-18000446 57 1.78e-04 ATCAATAGAG TTTCCCTTTC TAAGACTACT
chrV-NC_003076:6381195-6381295 24 1.78e-04 AAGTGATACT TTTCCCTTTC TGCCTATGAC
chrV-NC_003076:23659088-23659188 81 1.90e-04 ACTTCTCTAT TTTCTTTGTT TCATGTTCT
chrI-NC_003070:20956673-20956773 87 2.08e-04 GTCACGTGAT TCTTTTTTTT TTC
chrIII-NC_003074:23288300-23288400 90 2.08e-04 ATAGCCTTTT TTTTTTTTTC
chrI-NC_003070:27292918-27293018 35 2.19e-04 AAGTTTGTAA TCCTTTTCCC AAAGGGGTCA
chrII-NC_003071:13005722-13005822 79 2.35e-04 CGTCGTTTAC TTTCCTTTTC ACCATTTCCT
chrIV-NC_003075:8435508-8435608 73 2.63e-04 TTGGTTAGTG TTTTTTTCCT GGTTTTACAA

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:5121329-5121429 1.05e-06
chrIII-NC_003074:4608315-4608415 1.07e-04
chrIII-NC_003074:467796-467896 5.40e-05
chrIII-NC_003074:23288300-23288400 2.08e-04
chrIII-NC_003074:1216748-1216848 2.00e-05
chrIII-NC_003074:20587475-20587575 4.43e-05
chrIII-NC_003074:7507439-7507539 4.43e-05
chrIII-NC_003074:5047285-5047385 5.40e-05
chrIII-NC_003074:22328133-22328233 2.27e-05
chrIII-NC_003074:22634247-22634347 4.43e-05
chrIII-NC_003074:8238773-8238873 5.33e-06
chrIII-NC_003074:18246189-18246289 1.64e-04
chrIII-NC_003074:4388456-4388556 3.24e-05
chrIII-NC_003074:5222127-5222227 2.27e-05
chrIII-NC_003074:9959827-9959927 3.24e-05
chrIII-NC_003074:5293159-5293259 6.91e-05
chrIII-NC_003074:1373643-1373743 2.19e-06
chrIII-NC_003074:5236784-5236884 8.62e-05
chrII-NC_003071:17819849-17819949 5.40e-05
chrII-NC_003071:9580218-9580318 6.65e-07
chrII-NC_003071:18690235-18690335 1.39e-04
chrII-NC_003071:999352-999452 6.65e-07
chrII-NC_003071:11771581-11771681 1.47e-05
chrII-NC_003071:18414199-18414299 2.73e-05
chrII-NC_003071:9523120-9523220 5.40e-05
chrII-NC_003071:8057123-8057223 1.13e-05
chrII-NC_003071:14331382-14331482 8.08e-05
chrII-NC_003071:17743083-17743183 8.08e-05
chrII-NC_003071:16641474-16641574 8.08e-05
chrII-NC_003071:15784362-15784462 1.05e-06
chrII-NC_003071:13005722-13005822 2.35e-04
chrII-NC_003071:18635636-18635736 1.47e-05
chrII-NC_003071:436660-436760 6.65e-07
chrII-NC_003071:10191605-10191705 8.62e-05
chrII-NC_003071:16221715-16221815 2.86e-06
chrI-NC_003070:29216817-29216917 8.08e-05
chrI-NC_003070:9270027-9270127 1.01e-04
chrI-NC_003070:9264433-9264533 1.13e-04
chrI-NC_003070:10693165-10693265 1.39e-04
chrI-NC_003070:20956673-20956773 2.08e-04
chrI-NC_003070:9589553-9589653 2.19e-06
chrI-NC_003070:8717843-8717943 6.65e-07
chrI-NC_003070:2120819-2120919 5.40e-05
chrI-NC_003070:13228460-13228560 4.66e-06
chrI-NC_003070:28236998-28237098 8.08e-05
chrI-NC_003070:11630779-11630879 4.43e-05
chrI-NC_003070:6579449-6579549 6.65e-07
chrI-NC_003070:21192338-21192438 1.39e-04
chrI-NC_003070:27292918-27293018 2.19e-04
chrIV-NC_003075:13016189-13016289 1.50e-04
chrIV-NC_003075:8435508-8435608 2.63e-04
chrIV-NC_003075:13013992-13014092 1.24e-04
chrIV-NC_003075:14902725-14902825 1.17e-04
chrIV-NC_003075:17398893-17398993 6.91e-05
chrIV-NC_003075:14207916-14208016 6.65e-07
chrV-NC_003076:21900890-21900990 9.13e-05
chrV-NC_003076:6381195-6381295 1.78e-04
chrV-NC_003076:22779197-22779297 6.01e-05
chrV-NC_003076:26805608-26805708 1.47e-05
chrV-NC_003076:26138524-26138624 8.01e-06
chrV-NC_003076:22997200-22997300 6.65e-07
chrV-NC_003076:18000346-18000446 1.78e-04
chrV-NC_003076:3478444-3478544 1.24e-05
chrV-NC_003076:23659088-23659188 1.90e-04
chrV-NC_003076:5866573-5866673 2.86e-06
chrV-NC_003076:7265876-7265976 4.43e-05
chrV-NC_003076:5616726-5616826 2.19e-06
chrV-NC_003076:26012556-26012656 2.27e-05
chrV-NC_003076:26837903-26838003 8.01e-06
chrV-NC_003076:1891492-1891592 1.13e-05
chrV-NC_003076:6812378-6812478 2.19e-06
chrV-NC_003076:10455493-10455593 8.08e-05
chrV-NC_003076:6225921-6226021 1.78e-04
chrV-NC_003076:1894196-1894296 8.08e-05
 
0
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Time 149.8 secs.

Motif 4

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Summary

Sequence Logo

E-value 6.0e-010
Width 10
Sites 62
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

CC[AC]AAAAT[GA]G

Further Analysis

Submit this motif to  
      
      
      
      
 Mouse-over buttons for more information.

Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
     Raw Format 
     or Hide

Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:16563580-16563680 59 1.13e-06 TTCTGTTTTA CCAAAAATGG CAAAAAGTAA
chrV-NC_003076:3048829-3048929 66 1.13e-06 AATAAAACTT CCAAAAATGG GTTGTATATA
chrII-NC_003071:14956344-14956444 14 1.13e-06 CGAATATTTA CCAAAAATGG AAGATTCTAT
chrII-NC_003071:383323-383423 53 1.13e-06 ACGACTGTTA CCAAAAATGG AGTTAACGGC
chrIII-NC_003074:4732994-4733094 38 1.13e-06 AAAAACCTTT CCAAAAATGG CAAAGAACCG
chrII-NC_003071:8692383-8692483 47 2.84e-06 GATTCGATTT CCCCAAATGG CAAAAGAAAA
chrIV-NC_003075:9257678-9257778 15 4.75e-06 CCATATCTTA CCAAAAATAG AAAAAGAAAC
chrI-NC_003070:6335906-6336006 50 4.75e-06 CCAAAATATT CCAAAAATAG ATTTGGCGAT
chrII-NC_003071:18811088-18811188 73 4.75e-06 TTAAGAAAGA CCAAAAATAG CATATTTTGA
chrV-NC_003076:24878541-24878641 3 5.87e-06 TAT CCCAAAATAG AAGCATTCAA
chrIV-NC_003075:12043865-12043965 42 6.54e-06 GAATCAAAAT CCGAAAATGG TAAAAAAAAC
chrV-NC_003076:24415564-24415664 34 7.66e-06 TCTCATATAC CCAAAAAAGG ATGGAAACTT
chrIV-NC_003075:15205277-15205377 59 8.32e-06 TCATATTTTA CCCAAAAAGG ATCAACCATT
chrI-NC_003070:23075613-23075713 85 9.45e-06 ACACACTTTT CCTAAAATGG CAATC
chrII-NC_003071:9577588-9577688 42 9.45e-06 AAGAAAGAAG CCTAAAATGG CTAAAAGGTT
chrIII-NC_003074:1136463-1136563 49 9.45e-06 TGCTTGTTCT CCTAAAATGG AATTATCTTT
chrII-NC_003071:14735573-14735673 74 1.12e-05 AAAAGGAAAA CCAAAAACGG CATAGTTTTG
chrIII-NC_003074:2314802-2314902 9 1.12e-05 TTTTTATTT CCACAAATAG GTGAAAAAAA
chrV-NC_003076:206010-206110 21 1.35e-05 CAAAAATATT CCATAAATGG TTAACACAAA
chrI-NC_003070:8595048-8595148 67 1.35e-05 AATTCAAAAC CCAAAATTGG AAACCCCTAA
chrV-NC_003076:17363432-17363532 83 1.74e-05 AAAATCTCAG CCGCAAATGG ATGTCTC
chrIII-NC_003074:5561291-5561391 14 1.74e-05 TTAAATTTAT CCAAATATGG AAGTGAGCCC
chrIII-NC_003074:21233568-21233668 51 1.74e-05 AGCAAAGCCA CCAAATATGG AAAATTGCTA
chrI-NC_003070:27224204-27224304 75 2.00e-05 CTCGAAAGAG CCAAAAATGA GAGACAAACC
chrI-NC_003070:2990781-2990881 35 2.39e-05 AAAAAGGACC ACAAAAATGG AACCAAAAGA
chrII-NC_003071:14224178-14224278 42 2.39e-05 AATCTGTGGA ACAAAAATGG CAAAAATATT
chrIII-NC_003074:3366520-3366620 77 2.39e-05 AGAGTGTTGA CCAAACATGG ACTTAAGCCC
chrV-NC_003076:17550144-17550244 65 2.65e-05 CACAAATGTC CCCAAAATGA TGGGACACAC
chrIII-NC_003074:20583641-20583741 41 2.65e-05 GCTGAGAGTG CCCAAAAGGG TTTGCCAAAT
chrIV-NC_003075:16689014-16689114 64 3.15e-05 ATTATACGTT ACCAAAATGG TCCATTGATT
chrI-NC_003070:28673898-28673998 71 3.15e-05 ATATTTATAT ACCAAAATGG CACATAAATC
chrIII-NC_003074:5121329-5121429 19 3.15e-05 CAACAAAGCG CCCCAAAAGG AGCGTCGCTT
chrV-NC_003076:26805608-26805708 60 3.28e-05 TATATCGACT CCCATAATGG CAATCTTAGC
chrI-NC_003070:4904078-4904178 65 3.62e-05 CACAGTAGAT CCAAAAAAAG CCACACAAAA
chrIII-NC_003074:18470146-18470246 39 3.69e-05 GTAATACATA CCACAATTGG GTTGGTGATA
chrV-NC_003076:26042698-26042798 14 3.82e-05 TCACAAGGGA CCCAAAAAAG ATAACATGCT
chrI-NC_003070:9696469-9696569 56 3.82e-05 CCGGATCAGC CCCAAAAAAG CCAAGTTTTT
chrI-NC_003070:25046709-25046809 0 4.38e-05 CCAAAAATTG ATCTTTCATC
chrII-NC_003071:17743083-17743183 58 4.38e-05 AAGTGGTGCT CCACATATGG TAAGATAGGT
chrI-NC_003070:13228460-13228560 45 4.64e-05 TTTGGTTTGT CCAAAAACAG CAAAAAGTAA
chrII-NC_003071:519691-519791 26 4.64e-05 AGAAGAGGGT CCACAAATGA AGAGGAGTTT
chrI-NC_003070:2395072-2395172 82 5.33e-05 TAATTTGAAG CCCAAAATTG ATATATGG
chrI-NC_003070:28378932-28379032 24 5.33e-05 AATACTTTTT CCATAAATAG TAGTATACAT
chrV-NC_003076:22997200-22997300 64 5.55e-05 AATAAAATTT CCCCAAAGGG ACCATTGATC
chrII-NC_003071:10191605-10191705 80 5.55e-05 TTTCTCGTTC CCACTAATGG CCCCATTCTT
chrV-NC_003076:7265876-7265976 55 6.99e-05 TTAAACTTTG CCGTAAATGG GTCTGTTTGG
chrI-NC_003070:9307641-9307741 18 6.99e-05 TGAGAAATTA CCAAAAATAA AAACGATGTC
chrIV-NC_003075:15231291-15231391 29 7.72e-05 AGAGAAGGGC CCCCAAATGT TTGGGAAAGA
chrI-NC_003070:10802081-10802181 79 7.72e-05 AGTGGCCTAC CCAAACATAG CATCAAATTT
chrII-NC_003071:13276540-13276640 14 7.72e-05 CAGTGTTAAA ACAAAAATAG GTGAATTTAC
chrV-NC_003076:26641487-26641587 78 8.46e-05 CAAGCAACAC CCAATAATAG AAACTTCAAA
chrII-NC_003071:17752015-17752115 48 8.46e-05 TTTTGCTGTA CCCAAAATAA AATCTATAAA
chrI-NC_003070:1400775-1400875 12 9.26e-05 GGCTATGAAA CCAAAAATAT AATCGAACAT
chrI-NC_003070:6459719-6459819 75 9.26e-05 TAGCAATTTC CCGAAAATGA TGCTAACGTG
chrII-NC_003071:15692135-15692235 80 9.26e-05 CATCAGTTTA CCAAAAATAT CTTCTTGCAT
chrIV-NC_003075:10381187-10381287 70 1.10e-04 TATCAAATTA CCTTAAATGG GTTCATAAAG
chrV-NC_003076:4221096-4221196 51 1.18e-04 ACTAGTACTA ACAAAAAAGG GATGGCTGGT
chrII-NC_003071:19299005-19299105 30 1.18e-04 TAAATGGGAC CCACAATTAG GCTTTTTTTG
chrI-NC_003070:26100213-26100313 36 1.24e-04 TTCAAATGCA TCCAAAATGG TTATAACACA
chrIV-NC_003075:5738986-5739086 67 1.34e-04 TCCAGCCTGT CCAAAAAAGT CCTCCCAACG
chrI-NC_003070:18360496-18360596 58 1.34e-04 GATTTAAGTT CCCAAATCGG GTAAATAAAT
chrV-NC_003076:3396232-3396332 6 1.45e-04 AGTCAA CCAAATTTGG AGGATGTACC

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:5121329-5121429 3.15e-05
chrIII-NC_003074:18470146-18470246 3.69e-05
chrIII-NC_003074:3366520-3366620 2.39e-05
chrIII-NC_003074:21233568-21233668 1.74e-05
chrIII-NC_003074:2314802-2314902 1.12e-05
chrIII-NC_003074:20583641-20583741 2.65e-05
chrIII-NC_003074:1136463-1136563 9.45e-06
chrIII-NC_003074:5561291-5561391 1.74e-05
chrIII-NC_003074:4732994-4733094 1.13e-06
chrII-NC_003071:383323-383423 1.13e-06
chrII-NC_003071:519691-519791 4.64e-05
chrII-NC_003071:14224178-14224278 2.39e-05
chrII-NC_003071:13276540-13276640 7.72e-05
chrII-NC_003071:17752015-17752115 8.46e-05
chrII-NC_003071:14735573-14735673 1.12e-05
chrII-NC_003071:9577588-9577688 9.45e-06
chrII-NC_003071:15692135-15692235 9.26e-05
chrII-NC_003071:8692383-8692483 2.84e-06
chrII-NC_003071:17743083-17743183 4.38e-05
chrII-NC_003071:18811088-18811188 4.75e-06
chrII-NC_003071:14956344-14956444 1.13e-06
chrII-NC_003071:10191605-10191705 5.55e-05
chrII-NC_003071:19299005-19299105 1.18e-04
chrI-NC_003070:27224204-27224304 2.00e-05
chrI-NC_003070:6459719-6459819 9.26e-05
chrI-NC_003070:2990781-2990881 2.39e-05
chrI-NC_003070:4904078-4904178 3.62e-05
chrI-NC_003070:9696469-9696569 3.82e-05
chrI-NC_003070:26100213-26100313 1.24e-04
chrI-NC_003070:1400775-1400875 9.26e-05
chrI-NC_003070:10802081-10802181 7.72e-05
chrI-NC_003070:28673898-28673998 3.15e-05
chrI-NC_003070:23075613-23075713 9.45e-06
chrI-NC_003070:6335906-6336006 4.75e-06
chrI-NC_003070:25046709-25046809 4.38e-05
chrI-NC_003070:8595048-8595148 1.35e-05
chrI-NC_003070:13228460-13228560 4.64e-05
chrI-NC_003070:9307641-9307741 6.99e-05
chrI-NC_003070:28378932-28379032 5.33e-05
chrI-NC_003070:18360496-18360596 1.34e-04
chrI-NC_003070:2395072-2395172 5.33e-05
chrIV-NC_003075:9257678-9257778 4.75e-06
chrIV-NC_003075:16689014-16689114 3.15e-05
chrIV-NC_003075:10381187-10381287 1.10e-04
chrIV-NC_003075:15205277-15205377 8.32e-06
chrIV-NC_003075:15231291-15231391 7.72e-05
chrIV-NC_003075:12043865-12043965 6.54e-06
chrIV-NC_003075:5738986-5739086 1.34e-04
chrV-NC_003076:4221096-4221196 1.18e-04
chrV-NC_003076:26641487-26641587 8.46e-05
chrV-NC_003076:17363432-17363532 1.74e-05
chrV-NC_003076:24415564-24415664 7.66e-06
chrV-NC_003076:26805608-26805708 3.28e-05
chrV-NC_003076:22997200-22997300 5.55e-05
chrV-NC_003076:3048829-3048929 1.13e-06
chrV-NC_003076:3396232-3396332 1.45e-04
chrV-NC_003076:206010-206110 1.35e-05
chrV-NC_003076:17550144-17550244 2.65e-05
chrV-NC_003076:7265876-7265976 6.99e-05
chrV-NC_003076:16563580-16563680 1.13e-06
chrV-NC_003076:26042698-26042798 3.82e-05
chrV-NC_003076:24878541-24878641 5.87e-06
 
0
20
40
60
80
100

Time 191.6 secs.

Motif 5

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Summary

Sequence Logo

E-value 7.0e-005
Width 8
Sites 45
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

[GT][ACT]CACGT[GC]

Further Analysis

Submit this motif to  
      
      
      
      
 Mouse-over buttons for more information.

Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
     Raw Format 
     or Hide

Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:26286499-26286599 62 3.98e-06 GGGTGAAAAT GCCACGTG GAATTTATGA
chrIV-NC_003075:13013992-13014092 34 3.98e-06 CTTACAAAAA GCCACGTG GACTGATCGA
chrIII-NC_003074:23422784-23422884 10 3.98e-06 GGGGAACAAA GCCACGTG AAGGTGGGAA
chrV-NC_003076:24993918-24994018 66 1.08e-05 GTCACATCTC GACACGTG TCCACTATTC
chrV-NC_003076:3396232-3396332 32 1.08e-05 TACCGAAGCT GACACGTG TCACGTAAAG
chrV-NC_003076:21763609-21763709 53 1.08e-05 AAGAGGAAAT GACACGTG TTTACTATGG
chrV-NC_003076:9133324-9133424 9 1.08e-05 CCCCATTAC GACACGTG ACAGGCTGGG
chrI-NC_003070:27596253-27596353 2 1.08e-05 AC GACACGTG TCTACTATCA
chrI-NC_003070:21207023-21207123 78 1.08e-05 GTTCCACGTA GACACGTG TCCACATAAT
chrII-NC_003071:17809790-17809890 14 1.08e-05 ACAAGACAGA GACACGTG AACAATCAGA
chrIII-NC_003074:18038213-18038313 47 1.08e-05 GTATGGTTGA GACACGTG AGTTGTGTCA
chrIV-NC_003075:1495507-1495607 54 1.76e-05 GCTGGCGAGT GTCACGTG TTCTTCACTG
chrI-NC_003070:6174575-6174675 3 1.76e-05 TTG GTCACGTG ATGGTTACTA
chrI-NC_003070:20956673-20956773 77 1.76e-05 TTGTCCGATT GTCACGTG ATTCTTTTTT
chrV-NC_003076:3771493-3771593 36 2.55e-05 ATCATACTAC GCCACGTC ATTCTTTAGA
chrIV-NC_003075:15205277-15205377 87 2.55e-05 TTGGATTTAC GCCACGTC ATTAA
chrII-NC_003071:15641842-15641942 22 2.55e-05 AAAGTCACAT GCCACGTC AGTTAACTTT
chrV-NC_003076:21154905-21155005 18 3.89e-05 CGTCCTGTCG TCCACGTG TGGTGATGGC
chrV-NC_003076:26851827-26851927 73 3.89e-05 TAGGTCATGT TCCACGTG CCTTTTTTTC
chrV-NC_003076:21900890-21900990 32 3.89e-05 TACTAGTATA CACACGTG AAATGAAAAC
chrI-NC_003070:27498072-27498172 65 3.89e-05 GCCATTCCCC TCCACGTG GCATAATCCA
chrI-NC_003070:10353987-10354087 85 3.89e-05 CTTTTTCTTA CACACGTG GTCCACT
chrI-NC_003070:8719400-8719500 57 3.89e-05 AAACAAAAGA TCCACGTG ACGTGGTTGT
chrII-NC_003071:16221715-16221815 41 3.89e-05 ACGTAGGATA CACACGTG TACATCAAAT
chrV-NC_003076:26012556-26012656 11 4.57e-05 AGATGACGTG GACACGTC GTTGTCAATG
chrI-NC_003070:9696469-9696569 76 4.57e-05 CCAAGTTTTT GACACGTC ATTAGTGATC
chrV-NC_003076:25086892-25086992 14 5.72e-05 TGGGAGAATG TACACGTG TACGGTAGAG
chrI-NC_003070:28313380-28313480 54 5.72e-05 CACAAAACAG TACACGTG GCATGATCTT
chrI-NC_003070:8839847-8839947 24 5.72e-05 CCCTACATGC TACACGTG CCTAACCTAA
chrII-NC_003071:18414199-18414299 3 6.12e-05 GGG GGCACGTG TCATCTCGTA
chrV-NC_003076:23659088-23659188 37 6.80e-05 TTGGTCCCGC CTCACGTG ATTATTCCTC
chrV-NC_003076:23132906-23133006 20 7.47e-05 GCTTTTTTGA GTCACGTC AATCATTTAC
chrI-NC_003070:1469246-1469346 20 7.47e-05 CTAACGAAGT GTCACGTC ACTTCCTATC
chrV-NC_003076:26663110-26663210 72 9.02e-05 TGACATCACT CCCACGTC CTCCATCCGT
chrIV-NC_003075:7868931-7869031 1 9.02e-05 G TTCACGTG AAGAGGGCAA
chrII-NC_003071:19299005-19299105 56 9.02e-05 TTTGGCCAAG TTCACGTG CACTTCACGT
chrV-NC_003076:5227549-5227649 14 9.69e-05 ATAAGGAAAC ACCACGTG GACGTGGACC
chrV-NC_003076:3864653-3864753 26 9.69e-05 ATTCGTTCCC ACCACGTG TCTCCTCAGG
chrI-NC_003070:8598785-8598885 49 1.10e-04 ACGGACAGGG TCCACGTC AAGACGTAAT
chrI-NC_003070:10978094-10978194 25 1.10e-04 TAGGGAGGTT CACACGTC TATTATCATA
chrIII-NC_003074:5047285-5047385 54 1.10e-04 TACGTCATCG CACACGTC TATCTTCTTT
chrI-NC_003070:10365147-10365247 65 1.22e-04 TTGTGAACCA AACACGTG TAATGATTTC
chrIV-NC_003075:15231291-15231391 68 1.37e-04 AAATGATGGG CGCACGTG ACATTCGCTA
chrV-NC_003076:24505426-24505526 36 1.48e-04 CGTGTCTGAG TGCACGTG CTTCCATACA
chrII-NC_003071:9523120-9523220 30 1.66e-04 ATGATGTCCA ATCACGTG TTCCCTTTCT

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:18038213-18038313 1.08e-05
chrIII-NC_003074:23422784-23422884 3.98e-06
chrIII-NC_003074:5047285-5047385 1.10e-04
chrII-NC_003071:18414199-18414299 6.12e-05
chrII-NC_003071:9523120-9523220 1.66e-04
chrII-NC_003071:17809790-17809890 1.08e-05
chrII-NC_003071:16221715-16221815 3.89e-05
chrII-NC_003071:19299005-19299105 9.02e-05
chrII-NC_003071:15641842-15641942 2.55e-05
chrI-NC_003070:10365147-10365247 1.22e-04
chrI-NC_003070:9696469-9696569 4.57e-05
chrI-NC_003070:8839847-8839947 5.72e-05
chrI-NC_003070:8719400-8719500 3.89e-05
chrI-NC_003070:10353987-10354087 3.89e-05
chrI-NC_003070:20956673-20956773 1.76e-05
chrI-NC_003070:6174575-6174675 1.76e-05
chrI-NC_003070:10978094-10978194 1.10e-04
chrI-NC_003070:1469246-1469346 7.47e-05
chrI-NC_003070:21207023-21207123 1.08e-05
chrI-NC_003070:28313380-28313480 5.72e-05
chrI-NC_003070:8598785-8598885 1.10e-04
chrI-NC_003070:27498072-27498172 3.89e-05
chrI-NC_003070:27596253-27596353 1.08e-05
chrIV-NC_003075:13013992-13014092 3.98e-06
chrIV-NC_003075:15205277-15205377 2.55e-05
chrIV-NC_003075:15231291-15231391 1.37e-04
chrIV-NC_003075:7868931-7869031 9.02e-05
chrIV-NC_003075:1495507-1495607 1.76e-05
chrV-NC_003076:21900890-21900990 3.89e-05
chrV-NC_003076:9133324-9133424 1.08e-05
chrV-NC_003076:26663110-26663210 9.02e-05
chrV-NC_003076:24505426-24505526 1.48e-04
chrV-NC_003076:21763609-21763709 1.08e-05
chrV-NC_003076:23132906-23133006 7.47e-05
chrV-NC_003076:3396232-3396332 1.08e-05
chrV-NC_003076:3771493-3771593 2.55e-05
chrV-NC_003076:3864653-3864753 9.69e-05
chrV-NC_003076:23659088-23659188 6.80e-05
chrV-NC_003076:26851827-26851927 3.89e-05
chrV-NC_003076:25086892-25086992 5.72e-05
chrV-NC_003076:26012556-26012656 4.57e-05
chrV-NC_003076:24993918-24994018 1.08e-05
chrV-NC_003076:5227549-5227649 9.69e-05
chrV-NC_003076:21154905-21155005 3.89e-05
chrV-NC_003076:26286499-26286599 3.98e-06
 
0
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Time 232.7 secs.

Motif 6

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Summary

Sequence Logo

E-value 4.5e-002
Width 10
Sites 29
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

AGAGA[GA]AGA[GT]

Further Analysis

Submit this motif to  
      
      
      
      
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Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
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Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:1950972-1951072 58 6.80e-07 CTAGGGCTTG AGAGAGAGAG AGAGAGAGAG
chrII-NC_003071:893513-893613 78 6.80e-07 GGAAAAGAGA AGAGAGAGAG AGATAAAATC
chrIII-NC_003074:18809874-18809974 29 6.80e-07 GAAAATAGAT AGAGAGAGAG AGAGAATGAG
chrIII-NC_003074:4608315-4608415 0 6.80e-07 AGAGAGAGAG AGAGAGAGAG
chrI-NC_003070:20187010-20187110 68 1.83e-06 GATTTCTTCG AGAGAGAGAT AGACTGTATA
chrIII-NC_003074:20121173-20121273 1 1.83e-06 A AGAGAGAGAT GGAGTTGAAG
chrI-NC_003070:27175535-27175635 66 2.63e-06 AGAGAGAAAG AGAGAGAGCG CTTTGGACTG
chrI-NC_003070:19848591-19848691 27 2.63e-06 AGAAAGAAAT AGAGAGAGGG GACCATTCTT
chrIV-NC_003075:17397910-17398010 20 3.78e-06 AGTGGGACAT AGAGAGAGAA GAGCAGTAGT
chrV-NC_003076:3515165-3515265 21 5.60e-06 AGGCATCAGA AGAGAAAGAG ACATGTCGAC
chrII-NC_003071:519691-519791 3 5.60e-06 GAG AGAGAAAGAG ATAAGAAGAG
chrIII-NC_003074:4161788-4161888 58 5.60e-06 GAAGAATCCA AGAGAGACAG ATAGAGAAGA
chrV-NC_003076:21045204-21045304 89 6.29e-06 GAAAGTGATG AGAGAGAGTG T
chrIV-NC_003075:17780863-17780963 26 6.29e-06 AGAGACAGAT AGAGAGAGTG AGAATAGAAG
chrII-NC_003071:9577588-9577688 0 6.29e-06 AGAGAGAGTG TGTAGTGTAG
chrV-NC_003076:23391713-23391813 10 9.95e-06 CGTCATTTGC AGAGAGAGCT TTGATACTGG
chrI-NC_003070:9267121-9267221 65 9.95e-06 TTGAAAATTG AGAGAGATAG ACTTTACTGT
chrI-NC_003070:4230078-4230178 0 1.30e-05 AGAGAAAGAT CTTTATGGGA
chrV-NC_003076:10455493-10455593 71 2.65e-05 GGGAGATGAT AGAGAGACAA TACACAAAAA
chrIV-NC_003075:15291520-15291620 0 2.65e-05 AGAGAGAAAT GGTTGTGATG
chrI-NC_003070:25986115-25986215 61 2.65e-05 AGAAACTACA AGAGAGATAT AAAGAAGAGC
chrII-NC_003071:18809186-18809286 25 2.65e-05 AGTAGGTTCG AGAGAAAGAA GTACTTTCCC
chrV-NC_003076:13937850-13937950 38 4.03e-05 TGGAAGCTAT AGATAGAGAT ATAACAACAG
chrII-NC_003071:15641842-15641942 6 4.79e-05 GATCTC AGAGAAAAAG TCACATGCCA
chrII-NC_003071:14343662-14343762 44 5.23e-05 GAGAGGAGGA AGAGACAGGG AACAGAATGG
chrII-NC_003071:8692383-8692483 8 5.73e-05 TGAATGAC AGATAGAGAA GACGATGAAA
chrV-NC_003076:7385658-7385758 31 6.87e-05 TCTTGGGAGA AGAGAGATGT TGAAGAAGAG
chrI-NC_003070:27484307-27484407 20 6.87e-05 GTTGGTATAC AGAGAGACCA AACATCTCGT
chrIV-NC_003075:16689638-16689738 0 8.41e-05 AGAGAAAAAT AAAGAGAAAG

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:20121173-20121273 1.83e-06
chrIII-NC_003074:4608315-4608415 6.80e-07
chrIII-NC_003074:18809874-18809974 6.80e-07
chrIII-NC_003074:4161788-4161888 5.60e-06
chrII-NC_003071:893513-893613 6.80e-07
chrII-NC_003071:519691-519791 5.60e-06
chrII-NC_003071:9577588-9577688 6.29e-06
chrII-NC_003071:8692383-8692483 5.73e-05
chrII-NC_003071:14343662-14343762 5.23e-05
chrII-NC_003071:18809186-18809286 2.65e-05
chrII-NC_003071:15641842-15641942 4.79e-05
chrI-NC_003070:20187010-20187110 1.83e-06
chrI-NC_003070:27484307-27484407 6.87e-05
chrI-NC_003070:19848591-19848691 2.63e-06
chrI-NC_003070:27175535-27175635 2.63e-06
chrI-NC_003070:9267121-9267221 9.95e-06
chrI-NC_003070:25986115-25986215 2.65e-05
chrI-NC_003070:4230078-4230178 1.30e-05
chrIV-NC_003075:17397910-17398010 3.78e-06
chrIV-NC_003075:17780863-17780963 6.29e-06
chrIV-NC_003075:15291520-15291620 2.65e-05
chrIV-NC_003075:16689638-16689738 8.41e-05
chrV-NC_003076:21045204-21045304 6.29e-06
chrV-NC_003076:13937850-13937950 4.03e-05
chrV-NC_003076:1950972-1951072 6.80e-07
chrV-NC_003076:23391713-23391813 9.95e-06
chrV-NC_003076:7385658-7385758 6.87e-05
chrV-NC_003076:3515165-3515265 5.60e-06
chrV-NC_003076:10455493-10455593 2.65e-05
 
0
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100

Time 273 secs.

Motif 7

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Summary

Sequence Logo

E-value 7.0e+001
Width 9
Sites 21
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

GATGTGA[CG]A

Further Analysis

Submit this motif to  
      
      
      
      
 Mouse-over buttons for more information.

Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
     Raw Format 
     or Hide

Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:26286499-26286599 84 3.66e-06 TTATGATTGT GATGTGACA GAGACAC
chrV-NC_003076:2985552-2985652 17 3.66e-06 GTATTGGTTG GATGTGACA GCATTAGGGT
chrIV-NC_003075:14841394-14841494 64 3.66e-06 ACTGTGTCAG GATGTGACA TATGGGCCGC
chrIII-NC_003074:1136463-1136563 84 3.66e-06 ATTGAAATTC GATGTGACA TAATTTT
chrIII-NC_003074:20585730-20585830 61 3.66e-06 TGAAGAGACG GATGTGACA ATAAAAAATT
chrV-NC_003076:5420138-5420238 13 9.49e-06 AAGATAGCTT GATGTGAGA GGTGATGAAA
chrV-NC_003076:3318152-3318252 70 9.49e-06 GCAGGCATGT GATGTGAGA CCATTGGACT
chrIV-NC_003075:17002621-17002721 55 9.49e-06 AATCCCCTGA GACGTGACA TGTCACACTC
chrI-NC_003070:10693165-10693265 3 9.49e-06 TGG GACGTGACA TAATACTAAA
chrII-NC_003071:12941131-12941231 16 9.49e-06 CAGGGTTGGG GATGTGAGA CAAGACGCGG
chrII-NC_003071:10073979-10074079 91 9.49e-06 TTTCTGATTC GATGTGAGA
chrV-NC_003076:1950972-1951072 37 1.17e-05 ATCTATAATA GGTGTGACA GTCTAGGGCT
chrV-NC_003076:15711862-15711962 56 1.17e-05 TATGTGCATG GGTGTGACA AAATAAAATG
chrI-NC_003070:26727705-26727805 78 1.38e-05 TAAACTCAAA GAGGTGACA GCCGTTATTA
chrII-NC_003071:18372646-18372746 76 1.60e-05 CCCATAATTC GACGTGAGA CATGTGAGTG
chrV-NC_003076:6812378-6812478 47 2.16e-05 CCTACGTGGT GGTGTGAGA GGTCACAGGA
chrII-NC_003071:11771581-11771681 36 2.16e-05 TTGTCAAGTT GATGTGACC TTTCACAATT
chrV-NC_003076:25805087-25805187 41 2.87e-05 GTTCTGATTG GATGAGACA ACGCTCTATT
chrIII-NC_003074:23458934-23459034 63 3.34e-05 GAAACTCTTG GGCGTGAGA ATTGTAACAA
chrIV-NC_003075:15291520-15291620 64 3.72e-05 GGGAAAAGAG GAGGTGACC GGGTCAGATT
chrI-NC_003070:8298225-8298325 70 4.85e-05 TTGTCCCCAT GAGGAGACA TCCCCCCTTA

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:20585730-20585830 3.66e-06
chrIII-NC_003074:23458934-23459034 3.34e-05
chrIII-NC_003074:1136463-1136563 3.66e-06
chrII-NC_003071:11771581-11771681 2.16e-05
chrII-NC_003071:18372646-18372746 1.60e-05
chrII-NC_003071:10073979-10074079 9.49e-06
chrII-NC_003071:12941131-12941231 9.49e-06
chrI-NC_003070:8298225-8298325 4.85e-05
chrI-NC_003070:10693165-10693265 9.49e-06
chrI-NC_003070:26727705-26727805 1.38e-05
chrIV-NC_003075:17002621-17002721 9.49e-06
chrIV-NC_003075:15291520-15291620 3.72e-05
chrIV-NC_003075:14841394-14841494 3.66e-06
chrV-NC_003076:25805087-25805187 2.87e-05
chrV-NC_003076:15711862-15711962 1.17e-05
chrV-NC_003076:3318152-3318252 9.49e-06
chrV-NC_003076:5420138-5420238 9.49e-06
chrV-NC_003076:1950972-1951072 1.17e-05
chrV-NC_003076:2985552-2985652 3.66e-06
chrV-NC_003076:6812378-6812478 2.16e-05
chrV-NC_003076:26286499-26286599 3.66e-06
 
0
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100

Time 313 secs.

Motif 8

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Summary

Sequence Logo

E-value 3.4e+003
Width 10
Sites 6
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

TGGACCG[AT]C[CA]

Further Analysis

Submit this motif to  
      
      
      
      
 Mouse-over buttons for more information.

Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
     Raw Format 
     or Hide

Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:2234878-2234978 37 2.30e-07 TAGCTTAATA TGGACCGACC GTATCTTCTT
chrI-NC_003070:11067795-11067895 48 2.30e-07 TACGAAGATG TGGACCGACC ATGTGCTTTT
chrV-NC_003076:5227549-5227649 26 4.61e-07 CACGTGGACG TGGACCGTCC ATGAAATATA
chrII-NC_003071:18635636-18635736 35 4.61e-07 AGCATGTTTA TGGACCGTCC AGGCTCCTCG
chrIII-NC_003074:9959827-9959927 61 8.53e-07 TCATCATTTA TGGACCGACA ACATTATACC
chrV-NC_003076:19308671-19308771 20 2.09e-06 CGACAATGGT TGGACCCACA GGAGAAGATC

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrIII-NC_003074:9959827-9959927 8.53e-07
chrII-NC_003071:18635636-18635736 4.61e-07
chrI-NC_003070:11067795-11067895 2.30e-07
chrV-NC_003076:19308671-19308771 2.09e-06
chrV-NC_003076:5227549-5227649 4.61e-07
chrV-NC_003076:2234878-2234978 2.30e-07
 
0
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100

Time 353 secs.

Motif 9

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Summary

Sequence Logo

E-value 2.6e+004
Width 8
Sites 8
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

Download LOGO
   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

GGACTGTG

Further Analysis

Submit this motif to  
      
      
      
      
 Mouse-over buttons for more information.

Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
     Raw Format 
     or Hide

Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:26723061-26723161 22 6.91e-06 TTTTACACTT GGACTGTG ACTTATGGCA
chrIV-NC_003075:14841394-14841494 52 6.91e-06 ATGAGGCAGT GGACTGTG TCAGGATGTG
chrI-NC_003070:27175535-27175635 80 6.91e-06 AGAGCGCTTT GGACTGTG TTATTGGGAA
chrI-NC_003070:29649886-29649986 75 6.91e-06 GGAGTAACGA GGACTGTG TTGTGTGTAT
chrII-NC_003071:17811225-17811325 24 6.91e-06 TCTTAAGCCT GGACTGTG AGTCTGAAGA
chrII-NC_003071:19050821-19050921 20 6.91e-06 AAACAAATAA GGACTGTG ATATAAAGTT
chrII-NC_003071:9577588-9577688 20 6.91e-06 TGTAGTGTAG GGACTGTG TAGAAAGAAA
chrI-NC_003070:20187010-20187110 48 1.39e-05 ACCATTTATA GGAGTGTG ACGATTTCTT

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrII-NC_003071:9577588-9577688 6.91e-06
chrII-NC_003071:19050821-19050921 6.91e-06
chrII-NC_003071:17811225-17811325 6.91e-06
chrI-NC_003070:29649886-29649986 6.91e-06
chrI-NC_003070:20187010-20187110 1.39e-05
chrI-NC_003070:27175535-27175635 6.91e-06
chrIV-NC_003075:14841394-14841494 6.91e-06
chrV-NC_003076:26723061-26723161 6.91e-06
 
0
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80
100

Time 393.5 secs.

Motif 10

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Summary

Sequence Logo

E-value 3.3e+004
Width 10
Sites 2
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StandardReverse Complement

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   Orientation:    SSC:    Format:    Width: cm    Height: cm   

Regular expression

CCCATGGGCC

Further Analysis

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Data Formats

View the motif in PSPM Format 
     PSSM Format 
     BLOCKS Format 
     FASTA Format 
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Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:6812378-6812478 87 1.35e-07 ATAGGCATAT CCCATGGGCC CCG
chrV-NC_003076:5306644-5306744 8 1.35e-07 TGCAGCGG CCCATGGGCC TCTTTAACAA

Block Diagrams

The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. Mouse over the center of the motif blocks to see more information.

Name Lowest p-value Motif Location
chrV-NC_003076:5306644-5306744 1.35e-07
chrV-NC_003076:6812378-6812478 1.35e-07
 
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Time 433.9 secs.

All Motifs

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Combined Block Diagrams

Non-overlapping sites with a p-value better than 0.0001.
The height of the motif "block" is proportional to -log(p-value), truncated at the height for a motif with a p-value of 1e-10.
Click on any row to highlight sequence in all motifs. The motif blocks have tool tips with more information.

Motif 1
Motif 2
Motif 3
Motif 4
Motif 5
Motif 6
Motif 7
Motif 8
Motif 9
Motif 10
Name Combined p-value Motif Location
chrIII-NC_003074:7211454-7211554 1.47e-02
chrIII-NC_003074:20585730-20585830 2.41e-02
chrIII-NC_003074:5121329-5121429 1.09e-03
chrIII-NC_003074:20121173-20121273 3.40e-04
chrIII-NC_003074:4608315-4608415 1.51e-03
chrIII-NC_003074:467796-467896 4.54e-01
chrIII-NC_003074:18805819-18805919 2.98e-02
chrIII-NC_003074:18038213-18038313 5.31e-02
chrIII-NC_003074:23422784-23422884 3.65e-05
chrIII-NC_003074:23458934-23459034 2.26e-03
chrIII-NC_003074:22939534-22939634 8.51e-02
chrIII-NC_003074:3098089-3098189 2.63e-03
chrIII-NC_003074:1216748-1216848 2.59e-02
chrIII-NC_003074:18470146-18470246 1.66e-02
chrIII-NC_003074:18809874-18809974 3.40e-03
chrIII-NC_003074:19121199-19121299 1.98e-02
chrIII-NC_003074:3366520-3366620 2.05e-02
chrIII-NC_003074:21233568-21233668 7.71e-02
chrIII-NC_003074:5247202-5247302 2.63e-01
chrIII-NC_003074:20587475-20587575 1.98e-01
chrIII-NC_003074:9812854-9812954 1.37e-02
chrIII-NC_003074:7507439-7507539 5.74e-03
chrIII-NC_003074:5047285-5047385 3.36e-05
chrIII-NC_003074:2048548-2048648 6.96e-02
chrIII-NC_003074:10163065-10163165 1.61e-02
chrIII-NC_003074:21371987-21372087 1.12e-01
chrIII-NC_003074:22328133-22328233 4.00e-03
chrIII-NC_003074:4161788-4161888 4.13e-02
chrIII-NC_003074:2314802-2314902 1.75e-03
chrIII-NC_003074:20583641-20583741 7.42e-04
chrIII-NC_003074:22634247-22634347 5.78e-02
chrIII-NC_003074:23155345-23155445 1.39e-02
chrIII-NC_003074:21732109-21732209 1.85e-01
chrIII-NC_003074:8238773-8238873 2.08e-04
chrIII-NC_003074:19168255-19168355 1.37e-02
chrIII-NC_003074:4606069-4606169 5.91e-02
chrIII-NC_003074:4388456-4388556 3.99e-01
chrIII-NC_003074:5222127-5222227 2.20e-01
chrIII-NC_003074:9959827-9959927 1.46e-03
chrIII-NC_003074:5293159-5293259 1.45e-02
chrIII-NC_003074:1373643-1373743 1.27e-03
chrIII-NC_003074:1136463-1136563 1.14e-02
chrIII-NC_003074:5236784-5236884 1.77e-02
chrIII-NC_003074:5561291-5561391 6.06e-03
chrIII-NC_003074:4732994-4733094 1.12e-03
chrII-NC_003071:383323-383423 3.59e-02
chrII-NC_003071:893513-893613 8.33e-03
chrII-NC_003071:519691-519791 1.81e-03
chrII-NC_003071:14224178-14224278 2.85e-01
chrII-NC_003071:17819849-17819949 8.66e-05
chrII-NC_003071:9580218-9580318 2.29e-01
chrII-NC_003071:13276540-13276640 3.51e-02
chrII-NC_003071:18690235-18690335 1.28e-02
chrII-NC_003071:999352-999452 2.35e-02
chrII-NC_003071:15206954-15207054 6.91e-02
chrII-NC_003071:17752015-17752115 2.58e-01
chrII-NC_003071:14735573-14735673 5.63e-03
chrII-NC_003071:11771581-11771681 2.84e-03
chrII-NC_003071:18811685-18811785 1.14e-03
chrII-NC_003071:16504450-16504550 3.25e-03
chrII-NC_003071:17791525-17791625 2.36e-02
chrII-NC_003071:18372646-18372746 1.21e-04
chrII-NC_003071:9577588-9577688 2.41e-05
chrII-NC_003071:19050821-19050921 2.44e-04
chrII-NC_003071:18414199-18414299 5.57e-04
chrII-NC_003071:15692135-15692235 2.02e-03
chrII-NC_003071:9523120-9523220 9.81e-03
chrII-NC_003071:10073979-10074079 5.17e-02
chrII-NC_003071:14984517-14984617 2.62e-01
chrII-NC_003071:17620274-17620374 1.34e-02
chrII-NC_003071:17446381-17446481 6.11e-02
chrII-NC_003071:17809790-17809890 2.26e-02
chrII-NC_003071:8692383-8692483 1.49e-04
chrII-NC_003071:17811225-17811325 4.58e-02
chrII-NC_003071:8057123-8057223 2.63e-01
chrII-NC_003071:14331382-14331482 1.33e-02
chrII-NC_003071:14343662-14343762 1.95e-03
chrII-NC_003071:18423064-18423164 2.63e-02
chrII-NC_003071:18813108-18813208 1.78e-01
chrII-NC_003071:17743083-17743183 3.73e-03
chrII-NC_003071:16641474-16641574 3.54e-01
chrII-NC_003071:18809186-18809286 1.38e-02
chrII-NC_003071:12941131-12941231 6.57e-05
chrII-NC_003071:15784362-15784462 1.76e-02
chrII-NC_003071:16559057-16559157 7.75e-02
chrII-NC_003071:15624929-15625029 7.55e-03
chrII-NC_003071:18635636-18635736 6.29e-05
chrII-NC_003071:18811088-18811188 6.35e-03
chrII-NC_003071:12683085-12683185 6.72e-02
chrII-NC_003071:436660-436760 5.35e-02
chrII-NC_003071:14956344-14956444 2.47e-02
chrII-NC_003071:10191605-10191705 1.48e-04
chrII-NC_003071:16221715-16221815 7.68e-03
chrII-NC_003071:19299005-19299105 1.89e-04
chrII-NC_003071:15641842-15641942 1.73e-03
chrII-NC_003071:19198253-19198353 2.16e-02
chrI-NC_003070:29216817-29216917 6.81e-01
chrI-NC_003070:27224204-27224304 2.11e-02
chrI-NC_003070:7930468-7930568 9.57e-05
chrI-NC_003070:29649886-29649986 5.25e-04
chrI-NC_003070:6459719-6459819 2.83e-02
chrI-NC_003070:9270027-9270127 3.34e-04
chrI-NC_003070:2990781-2990881 1.01e-03
chrI-NC_003070:4904078-4904178 1.00e-01
chrI-NC_003070:20187010-20187110 1.55e-04
chrI-NC_003070:27484307-27484407 4.79e-01
chrI-NC_003070:4600590-4600690 4.53e-02
chrI-NC_003070:8298225-8298325 1.11e-02
chrI-NC_003070:9696469-9696569 3.83e-02
chrI-NC_003070:28183883-28183983 1.83e-02
chrI-NC_003070:10693165-10693265 4.58e-04
chrI-NC_003070:8839847-8839947 7.40e-02
chrI-NC_003070:19848591-19848691 5.35e-06
chrI-NC_003070:1400775-1400875 2.86e-01
chrI-NC_003070:10802081-10802181 2.80e-02
chrI-NC_003070:28673898-28673998 1.68e-01
chrI-NC_003070:23075613-23075713 1.36e-03
chrI-NC_003070:8719400-8719500 4.80e-02
chrI-NC_003070:10353987-10354087 6.59e-03
chrI-NC_003070:20956673-20956773 5.51e-03
chrI-NC_003070:6335906-6336006 2.12e-02
chrI-NC_003070:7142968-7143068 4.43e-02
chrI-NC_003070:7765843-7765943 1.41e-01
chrI-NC_003070:6174575-6174675 1.22e-03
chrI-NC_003070:17506694-17506794 3.53e-02
chrI-NC_003070:9778028-9778128 4.08e-02
chrI-NC_003070:25228930-25229030 3.83e-03
chrI-NC_003070:27175535-27175635 2.09e-04
chrI-NC_003070:11067795-11067895 5.48e-05
chrI-NC_003070:25046709-25046809 1.29e-01
chrI-NC_003070:1469246-1469346 3.92e-02
chrI-NC_003070:21207023-21207123 5.89e-04
chrI-NC_003070:9950783-9950883 1.11e-02
chrI-NC_003070:813123-813223 8.03e-02
chrI-NC_003070:4904669-4904769 1.11e-02
chrI-NC_003070:26011665-26011765 3.60e-04
chrI-NC_003070:7461930-7462030 1.58e-01
chrI-NC_003070:8595048-8595148 3.29e-02
chrI-NC_003070:9589553-9589653 2.46e-02
chrI-NC_003070:8717843-8717943 9.89e-03
chrI-NC_003070:26727705-26727805 2.03e-02
chrI-NC_003070:553848-553948 2.31e-02
chrI-NC_003070:28313380-28313480 1.85e-01
chrI-NC_003070:7341602-7341702 6.40e-03
chrI-NC_003070:2120819-2120919 8.14e-04
chrI-NC_003070:13228460-13228560 3.78e-03
chrI-NC_003070:25409323-25409423 1.34e-01
chrI-NC_003070:26059435-26059535 1.32e-01
chrI-NC_003070:27363797-27363897 7.09e-02
chrI-NC_003070:28236998-28237098 1.99e-02
chrI-NC_003070:9307641-9307741 7.95e-02
chrI-NC_003070:6916711-6916811 1.63e-04
chrI-NC_003070:11630779-11630879 5.62e-03
chrI-NC_003070:6579449-6579549 6.03e-03
chrI-NC_003070:2626158-2626258 1.30e-01
chrI-NC_003070:21192338-21192438 5.48e-03
chrI-NC_003070:8598785-8598885 2.28e-05
chrI-NC_003070:25391314-25391414 1.92e-01
chrI-NC_003070:27498072-27498172 1.30e-03
chrI-NC_003070:25226373-25226473 1.87e-01
chrI-NC_003070:27596253-27596353 3.88e-03
chrI-NC_003070:9267121-9267221 1.59e-01
chrI-NC_003070:8305313-8305413 1.20e-01
chrI-NC_003070:25986115-25986215 5.30e-02
chrI-NC_003070:4230078-4230178 1.29e-02
chrI-NC_003070:28378932-28379032 2.67e-01
chrI-NC_003070:1188247-1188347 9.30e-04
chrI-NC_003070:2395072-2395172 7.34e-01
chrIV-NC_003075:9257678-9257778 3.88e-05
chrIV-NC_003075:17397910-17398010 3.19e-04
chrIV-NC_003075:14372903-14373003 9.55e-02
chrIV-NC_003075:10386496-10386596 1.05e-02
chrIV-NC_003075:12357392-12357492 6.18e-02
chrIV-NC_003075:16980446-16980546 3.88e-02
chrIV-NC_003075:13013992-13014092 1.43e-04
chrIV-NC_003075:16689014-16689114 4.94e-01
chrIV-NC_003075:17730731-17730831 2.14e-02
chrIV-NC_003075:13854253-13854353 2.20e-03
chrIV-NC_003075:17395813-17395913 2.02e-03
chrIV-NC_003075:9319717-9319817 1.09e-01
chrIV-NC_003075:15205277-15205377 1.90e-03
chrIV-NC_003075:5155452-5155552 6.75e-01
chrIV-NC_003075:15231291-15231391 2.33e-03
chrIV-NC_003075:17979925-17980025 2.19e-02
chrIV-NC_003075:11604857-11604957 5.36e-02
chrIV-NC_003075:12043865-12043965 5.19e-02
chrIV-NC_003075:13987314-13987414 8.62e-03
chrIV-NC_003075:8419613-8419713 9.71e-02
chrIV-NC_003075:17398893-17398993 7.21e-03
chrIV-NC_003075:14325477-14325577 9.40e-03
chrIV-NC_003075:7868931-7869031 1.48e-01
chrIV-NC_003075:17002621-17002721 1.25e-03
chrIV-NC_003075:17006711-17006811 7.66e-03
chrIV-NC_003075:17780863-17780963 8.86e-04
chrIV-NC_003075:1157171-1157271 2.10e-01
chrIV-NC_003075:14359075-14359175 1.47e-01
chrIV-NC_003075:15291520-15291620 1.89e-02
chrIV-NC_003075:14841394-14841494 3.97e-06
chrIV-NC_003075:16689638-16689738 3.95e-04
chrIV-NC_003075:14207916-14208016 3.00e-02
chrIV-NC_003075:1495507-1495607 7.00e-02
chrM:272146-272246 1.03e-02
chrV-NC_003076:21045204-21045304 5.88e-04
chrV-NC_003076:23670310-23670410 3.81e-02
chrV-NC_003076:21900890-21900990 1.19e-02
chrV-NC_003076:9133324-9133424 1.42e-04
chrV-NC_003076:26663110-26663210 3.34e-02
chrV-NC_003076:19308671-19308771 9.16e-03
chrV-NC_003076:23314284-23314384 2.43e-02
chrV-NC_003076:23785207-23785307 1.17e-03
chrV-NC_003076:26723061-26723161 2.06e-02
chrV-NC_003076:25504498-25504598 7.85e-02
chrV-NC_003076:26645161-26645261 7.53e-02
chrV-NC_003076:26641487-26641587 7.44e-01
chrV-NC_003076:1855800-1855900 1.95e-01
chrV-NC_003076:22779197-22779297 1.59e-01
chrV-NC_003076:17363432-17363532 1.12e-04
chrV-NC_003076:20779537-20779637 5.93e-03
chrV-NC_003076:24415564-24415664 1.12e-01
chrV-NC_003076:9480412-9480512 3.02e-02
chrV-NC_003076:6320651-6320751 6.97e-03
chrV-NC_003076:21763609-21763709 7.62e-03
chrV-NC_003076:25805087-25805187 1.71e-02
chrV-NC_003076:6556395-6556495 1.10e-02
chrV-NC_003076:792884-792984 3.80e-03
chrV-NC_003076:26805608-26805708 8.45e-03
chrV-NC_003076:26138524-26138624 4.01e-03
chrV-NC_003076:5863141-5863241 3.23e-01
chrV-NC_003076:22997200-22997300 4.06e-05
chrV-NC_003076:3048829-3048929 1.18e-01
chrV-NC_003076:23132906-23133006 4.42e-01
chrV-NC_003076:18000346-18000446 1.13e-02
chrV-NC_003076:15711862-15711962 9.95e-02
chrV-NC_003076:3396232-3396332 5.62e-04
chrV-NC_003076:5306644-5306744 1.29e-03
chrV-NC_003076:3771493-3771593 2.23e-02
chrV-NC_003076:206010-206110 1.30e-01
chrV-NC_003076:2284144-2284244 5.00e-03
chrV-NC_003076:3318152-3318252 3.11e-03
chrV-NC_003076:17550144-17550244 8.13e-03
chrV-NC_003076:24507182-24507282 3.89e-02
chrV-NC_003076:3864653-3864753 1.26e-05
chrV-NC_003076:5420138-5420238 9.26e-02
chrV-NC_003076:3478444-3478544 7.28e-03
chrV-NC_003076:23659088-23659188 4.05e-03
chrV-NC_003076:5866573-5866673 1.93e-02
chrV-NC_003076:13937850-13937950 2.46e-01
chrV-NC_003076:1950972-1951072 8.84e-04
chrV-NC_003076:26851827-26851927 2.59e-02
chrV-NC_003076:26149135-26149235 8.20e-02
chrV-NC_003076:22388470-22388570 1.71e-01
chrV-NC_003076:25086892-25086992 2.27e-02
chrV-NC_003076:23391713-23391813 4.72e-01
chrV-NC_003076:7265876-7265976 2.25e-05
chrV-NC_003076:8903397-8903497 3.96e-03
chrV-NC_003076:5616726-5616826 6.37e-03
chrV-NC_003076:26012556-26012656 5.23e-03
chrV-NC_003076:2612869-2612969 4.70e-03
chrV-NC_003076:7385658-7385758 3.85e-03
chrV-NC_003076:3515165-3515265 3.59e-03
chrV-NC_003076:6399603-6399703 2.18e-03
chrV-NC_003076:24993918-24994018 7.49e-02
chrV-NC_003076:5227549-5227649 3.36e-04
chrV-NC_003076:2234878-2234978 5.20e-03
chrV-NC_003076:26837903-26838003 1.51e-01
chrV-NC_003076:16337677-16337777 9.67e-03
chrV-NC_003076:2985552-2985652 9.47e-02
chrV-NC_003076:21154905-21155005 7.31e-02
chrV-NC_003076:1891492-1891592 8.84e-03
chrV-NC_003076:6812378-6812478 1.85e-06
chrV-NC_003076:10455493-10455593 5.57e-05
chrV-NC_003076:16563580-16563680 6.67e-03
chrV-NC_003076:26286499-26286599 8.97e-04
chrV-NC_003076:26042698-26042798 2.20e-04
chrV-NC_003076:24878541-24878641 2.58e-01
chrV-NC_003076:7256719-7256819 1.17e-01
chrV-NC_003076:1894196-1894296 2.25e-03
 
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Motif 2
Motif 3
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Motif 5
Motif 6
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Motif 8
Motif 9
Motif 10
Top
MEME version
4.6.1 (Release date: Mon Mar 21 15:08:38 EST 2011)
Reference
Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994.
show training set...
Command line summary

Letter frequencies in dataset
A: 0.314   C: 0.184   G: 0.186   T: 0.316

Background letter frequencies (from dataset with add-one prior applied):
A: 0.314   C: 0.184   G: 0.186   T: 0.316

Stopping Reason
Stopped because nmotifs = 10 reached. Program ran on pongo.
show model parameters...

Explanation of MEME Results

 Top

The MEME results consist of

  • The overview of all discovered motifs.
  • Information on each of the motifs MEME discovered, including:
    1. A summary table showing the width, number of contributing sites, log likelihood ratio, statistical significance, information content and relative entropy of the motif.
    2. A sequence LOGO.
    3. Downloadable LOGO files suitable for publication.
    4. A regular expression describing the motif.
    5. Some further analysis that can be performed on the motif.
    6. A list of data formats describing the motif.
    7. The contributing sites of the motif sorted by p-value and aligned with each other.
    8. The block diagrams of the contributing sites of the motif within each sequence in the training set.
  • A combined block diagram showing an optimized (non-overlapping) tiling of all of the motifs onto each of the sequences in the training set.
  • The version of MEME and the date it was released.
  • The reference to cite if you use MEME in your research.
  • A description of the sequences you submitted (the "training set") showing the name, "weight" and length of each sequence.
  • The command line summary detailing the parameters with which you ran MEME.
  • The reason why MEME stopped and the name of the CPU on which it ran.
  • This explanation of how to interpret MEME results.

Motifs

For each motif that it discovers in the training set, MEME prints the following information:

Summary Table

This summary table gives the main attributes of the motif.

E-value
The statistical significance of the motif. MEME usually finds the most statistically significant (low E-value) motifs first. The E-value of a motif is based on its log likelihood ratio, width, sites, the background letter frequencies (given in the command line summary), and the size of the training set. The E-value is an estimate of the expected number of motifs with the given log likelihood ratio (or higher), and with the same width and site count, that one would find in a similarly sized set of random sequences. (In random sequences each position is independent with letters chosen according to the background letter frequencies.)
Width
The width of the motif. Each motif describes a pattern of a fixed with as no gaps are allowed in MEME motifs.
Sites
The number of sites contributing to the construction of the motif.
Log Likelihood Ratio
The log likelihood ratio of the motif.The log likelihood ratio is the logarithm of the ratio of the probability of the occurrences of the motif given the motif model (likelihood given the motif) versus their probability given the background model (likelihood given the null model). (Normally the background model is a 0-order Markov model using the background letter frequencies, but higher order Markov models may be specified via the -bfile option to MEME.)
Information Content
The information content of the motif in bits. It is equal to the sum of the uncorrected information content, R(), in the columns of the LOGO. This is equal relative entropy of the motif relative to a uniform background frequency model.
Relative Entropy
The relative entropy of the motif, computed in bits and relative to the background letter frequencies given in the command line summary. It is equal to the log-likelihood ratio (llr) divided by the number of contributing sites of the motif times 1/ln(2),

re = llr / (sites * ln(2)).
Sequence LOGO

MEME motifs are represented by position-specific probability matrices that specify the probability of each possible letter appearing at each possible position in an occurrence of the motif. These are displayed as "sequence LOGOS", containing stacks of letters at each position in the motif. The total height of the stack is the "information content" of that position in the motif in bits. The height of the individual letters in a stack is the probability of the letter at that position multiplied by the total information content of the stack.

Note: The MEME LOGO differs from those produced by the Weblogo program because a small-sample correction is NOT applied. However, MEME LOGOs in PNG and encapsulated postscript (EPS) formats with small-sample correction (SSC) are available by clicking on the download button with "SSC" set to "on" under Download LOGO. The MEME LOGOs without small sample correction are similarly available. Error bars are included in the LOGOs with small-sample correction.

Modern web browsers supporting the canvas element and it's text manipulation functions as described in the html 5 standard, can render the sequence LOGOs without needing the images. The browsers which work with this feature are:

  • Firefox 3.5 and above
  • Safari 4 and above
  • Google Chrome 4 and above

Unfortunately Internet Explorer 8 does not support any html 5 features.

The information content of each motif position is computed as described in the paper by Schneider and Stephens, "Sequence Logos: A New Way to Display Consensus Sequences" but the small-sample correction, e(n), is set to zero for the LOGO displayed in the MEME output. The corrected information content of position i is given by 

            R(i) for amino acids   = log2(20) - (H(i) + e(n))   (1a) 
            R(i) for nucleic acids =    2    - (H(i) + e(n))    (1b)

where H(i) is the entropy of position i,

            H(l) = - (Sum f(a,i) * log2[ f(a,i) ]).             (2)

Here, f(a,i) is the frequency of base or amino acid a at position i, and e(n) is the small-sample correction for an alignment of n letters. The height of letter a in column i is given by 

            height = f(a,i) * R(i)                              (3)

The approximation for the small-sample correction, e(n), is given by:

            e(n) = (s-1) / (2 * ln(2) * n),                     (4)

where s is 4 for nucleotides, 20 for amino acids, and n is the number of sequences in the alignment.

The letters in the logos are colored as follows.
For DNA sequences, the letter categories contain one letter each.

NUCLEIC ACIDS COLOR
A RED
C BLUE
G ORANGE
T GREEN

For proteins, the categories are based on the biochemical properties of the various amino acids.

AMINO ACIDS COLOR PROPERTIES
A, C, F, I, L, V, W and M BLUE Most hydrophobic[Kyte and Doolittle, 1982]
NQST GREEN Polar, non-charged, non-aliphatic residues
DE MAGENTA Acidic
KR RED Positively charged
H PINK  
G ORANGE  
P YELLOW  
Y TURQUOISE  

J. Kyte and R. Doolittle, 1982. "A Simple Method for Displaying the Hydropathic Character of a Protein", J. Mol Biol. 157, 105-132.

Note: the "text" output format of MEME preserves the historical MEME format where LOGOS are replaced by a simplified probability matrix, a relative entropy plot, and a multi-level consensus sequence.

Download LOGO

Logos can be generated on the fly by the meme webservice and you may specify a number of options to customize them to your needs. The options are:

Orientation
Only valid for nucleotide motifs. Generate the standard view or the reverse complemented view of the motif.
SSC
Use small sample correction and show errorbars on the image. Small sample correction is used by the Weblogo program.
Format
The format of the generated image. If the image is to be used on the web then png is recommend. If the image is to be published then eps is recommended.
Width
The width of the generated image in centimetres.
Height
The height of the generated image in centimetres.

Regular Expression

This is a regular expression (RE) describing the motif. In each column, all letters with observed frequencies greater than 0.2 are shown; less-frequent letters are not included in the RE. MEME regular expressions are interpreted as follows: single letters match that letter; groups of letters in square brackets match any of the letters in the group. Regular expressions can be used for searching for the motif in sequences (using, for example, PatMatch) but the search accuracy will usually be better with the PSSM (using, for example MAST.)

Further Analysis

Either as a group or individually the motifs have a number of options for further analysis.

MAST
Finds the best matching positions for a set of motifs in each sequence provided to it, ranked by the combined score of each sequence. For more information about MAST please read the introduction.
FIMO
Finds all matches for a motif. For more information about FIMO please read the introduction.
TOMTOM
Compares a single motif to a database of motifs. For more information about TOMTOM please read the introduction.
GOMO
Identifies possible roles of DNA binding motifs. For more information about GOMO please read the introduction.
BLOCKS
Submit to Blocks Multiple Alignment Processor where you can do several things like create phylogeny trees and search the blocks against a database of other blocks (protein only). For more information about BLOCKS Multiple Alignment Processor please visit the website.
Data Formats

The extracted data is avaliable in the following formats.

PSPM Format
The motif itself is a position-specific probability matrix giving, for each position in the pattern, the observed frequency ("probability") of each possible letter. The probability matrix is printed "sideways"--columns correspond to the letters in the alphabet (in the same order as shown in the simplified motif) and rows corresponding to the positions of the motif, position one first. The motif is preceded by a line starting with "letter-probability matrix:" and containing the length of the alphabet, width of the motif, number of occurrences of the motif, and the E-value of the motif.
Note: Earlier versions of MEME gave the posterior probabilities--the probability after applying a prior on letter frequencies--rather than the observed frequencies. These versions of MEME also gave the number of possible positions for the motif rather than the actual number of occurrences. The output from these earlier versions of MEME can be distinguished by "n=" rather than "nsites=" in the line preceding the matrix.
PSSM Format
The position-specific scoring matrix corresponding to the motif is printed for use by database search programs such as MAST. This matrix is a log-odds matrix calculated by taking 100 times the log (base 2) of the ratio p/f at each position in the motif where p is the probability of a particular letter at that position in the motif, and f is the background frequency of the letter (given in the command line summary section.) This is the same matrix that is used above in computing the p-values of the occurrences of the motif in the Sites and Block Diagrams sections. The scoring matrix is printed "sideways"--columns correspond to the letters in the alphabet (in the same order as shown in the simplified motif) and rows corresponding to the positions of the motif, position one first. The scoring matrix is preceded by a line starting with "log-odds matrix:" and containing the length of the alphabet, width of the motif, number of characters in the training set, the scoring threshold (obsolete) and the motif E-value.
Note: The probability p used to compute the PSSM is not exactly the same as the corresponding value in the Position Specific Probability Matrix (PSPM). The values of p used to compute the PSSM take into account the motif prior, whereas the values in the PSPM are just the observed frequencies of letters in the motif sites.
BLOCKS Format
For use with BLOCKS tools.
FASTA Format
The FASTA format as described here.
Raw Format
Just the sites of the sequences that contributed to the motif. One site per line.
Sites

MEME displays the occurrences (sites) of the motif in the training set. The sites are shown aligned with each other, and the ten sequence positions preceding and following each site are also shown. Each site is identified by the name of the sequence where it occurs, the strand (if both strands of DNA sequences are being used), and the position in the sequence where the site begins. When the DNA strand is specified, '+' means the sequence in the training set, and '-' means the reverse complement of the training set sequence. (For '-' strands, the 'start' position is actually the position on the positive strand where the site ends.) The sites are listed in order of increasing statistical significance (p-value). The p-value of a site is computed from the the match score of the site with the position specific scoring matrix for the motif. The p-value gives the probability of a random string (generated from the background letter frequencies) having the same match score or higher. (This is referred to as the position p-value by the MAST algorithm.)

Block Diagrams

The occurrences of the motif in the training set sequences are shown as coloured blocks on a line. One diagram is printed for each sequence showing all the sites contributating to that motif in that sequence. The sequences are listed in the same order as in the input to make it easier to compare multiple block diagrams. Additionally the best p-value for the sequence/motif combination is listed though this may not be in ascending order as with the sites. The p-value of an occurrence is the probability of a single random subsequence the length of the motif, generated according to the 0-order background model, having a score at least as high as the score of the occurrence. When the DNA strand is specified '+', it means the motif appears from left to right on the sequence, and '-' means the motif appears from right to left on the complementary strand. A sequence position scale is shown at the end of each table of block diagrams.

Combined Block Diagrams

The motif occurrences shown in the motif summary may not be exactly the same as those reported in each motif section because only motifs with a position p-value of 0.0001 that don't overlap other, more significant motif occurrences are shown.

See the documentation for MAST output for the definition of position and combined p-values.