MEME

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

Discovered Motifs

Motif Overview

Motif 1
  • 4.7e-056
  • 118 sites
 Motif 1 Logo Motif 1 Logo
Motif 2
  • 9.2e-054
  • 117 sites
 Motif 2 Logo Motif 2 Logo
Motif 3
  • 1.2e-032
  • 93 sites
 Motif 3 Logo Motif 3 Logo
Motif 4
  • 6.6e-018
  • 52 sites
 Motif 4 Logo Motif 4 Logo
Motif 5
  • 1.1e+002
  • 61 sites
 Motif 5 Logo Motif 5 Logo
Motif 6
  • 5.6e+003
  • 6 sites
 Motif 6 Logo Motif 6 Logo
Motif 7
  • 1.8e+003
  • 17 sites
 Motif 7 Logo Motif 7 Logo
Motif 8
  • 5.9e+004
  • 3 sites
 Motif 8 Logo Motif 8 Logo
Motif 9
  • 7.9e+005
  • 2 sites
 Motif 9 Logo Motif 9 Logo
Motif 10
  • 9.0e+005
  • 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 4.7e-056
Width 10
Sites 118
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

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

Further Analysis

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Data Formats

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

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:26837938-26838038 66 6.61e-07 CTATCTATCA CTCTCTCTCT CTCGTGATAT
chrV-NC_003076:22997202-22997302 84 6.61e-07 CATTGATCAC CTCTCTCTCT CATCTC
chrI-NC_003070:20956381-20956481 22 6.61e-07 TCACTTTTGT CTCTCTCTCT CTCTCTCAAT
chrI-NC_003070:6579466-6579566 56 6.61e-07 TTAGTTTTAC CTCTCTCTCT CTTCTTTTTT
chrI-NC_003070:10000490-10000590 57 6.61e-07 AAGCATTAGG CTCTCTCTCT CTCTCTCGTT
chrII-NC_003071:436677-436777 70 6.61e-07 GACTATTTAT CTCTCTCTCT CGTTTTCATC
chrII-NC_003071:999336-999436 54 6.61e-07 TTATCTCTTT CTCTCTCTCT CTTCTCTTTT
chrII-NC_003071:9580157-9580257 28 6.61e-07 CGTCTTGTCA CTCTCTCTCT CTTCTTTAAA
chrIII-NC_003074:20606546-20606646 12 6.61e-07 GTCCTCTCTT CTCTCTCTCT CTCGACCAGA
chrV-NC_003076:26805576-26805676 67 2.91e-06 CCCTCTCCCT CTTTCTCTCT ACGCATATAT
chrV-NC_003076:26138594-26138694 16 2.91e-06 TCTCCATCAT CTCTCTCTTT TTCTCTCTCC
chrV-NC_003076:3478453-3478553 65 2.91e-06 AAAAGGTGCC CTCTCTCTTT TCCCTATCTT
chrIV-NC_003075:9319710-9319810 69 2.91e-06 TTTTTTTCTG CTTTCTCTCT GGGTTTTGGC
chrIV-NC_003075:8444094-8444194 89 2.91e-06 ATTATTTTCA CTCTCTCTTT T
chrIV-NC_003075:499163-499263 64 2.91e-06 TTTCTTATTT CTCTCTCTTT CTTGAGAACA
chrI-NC_003070:6843352-6843452 26 2.91e-06 TTACCCTTCA CTTTCTCTCT CTACCTATTC
chrIII-NC_003074:1373635-1373735 71 2.91e-06 AAAATTGTCT CTTTCTCTCT TCTTTTCTTT
chrI-NC_003070:11628844-11628944 78 4.03e-06 ATCTCTCTAT TTCTCTCTCT ACCTTTCTAT
chrII-NC_003071:11871421-11871521 7 4.03e-06 TCAGTTT TTCTCTCTCT CCGTTTTTGA
chrV-NC_003076:229782-229882 84 5.94e-06 TGTTTCTCTG CTTTCTCTTT TATCCT
chrV-NC_003076:23700558-23700658 39 5.94e-06 TGACTTTTTT CTTTCTCTTT ATGGGGTTTC
chrII-NC_003071:14645113-14645213 24 5.94e-06 ACATAAGTTT CTTTCTCTTT CCTTCTTTCT
chrV-NC_003076:19653125-19653225 28 9.75e-06 GATCTCTCTC TTCTCTCTTT CTCTATTTAG
chrI-NC_003070:13228453-13228553 16 9.75e-06 TCAGCTTTTT TTTTCTCTCT TCCTGAAGCA
chrI-NC_003070:29764290-29764390 31 9.75e-06 AAAATGCTAT TTCTCTCTTT TTTTCCTCCC
chrII-NC_003071:17808033-17808133 59 9.75e-06 AACACAATTC TTCTCTCTTT TTTAGGGATT
chrIII-NC_003074:22634257-22634357 23 9.75e-06 CTCTGTTTTT TTCTCTCTTT ATTTCTGCAT
chrV-NC_003076:23147444-23147544 32 1.30e-05 TAGTCTCAAG TTTTCTCTTT TATGTCTGAT
chrV-NC_003076:10649957-10650057 0 1.30e-05 TTTTCTCTTT TTCTTGGGTT
chrIV-NC_003075:17322266-17322366 77 1.30e-05 CTCGAAATGT TTTTCTCTTT TCCTTTTTGG
chrII-NC_003071:19298962-19299062 54 1.30e-05 AAGGCTTTAG TTTTCTCTTT AAATGGGACC
chrIII-NC_003074:7507408-7507508 27 1.30e-05 CTTTCCTCTG TTTTCTCTTT CTTTCCCTTT
chrIII-NC_003074:7789683-7789783 37 1.30e-05 ACCACATTTC TTTTCTCTTT TGGGGGAAGA
chrV-NC_003076:24996114-24996214 82 1.51e-05 AGTACATTAT CTCTCTCTCC CCATTTCT
chrIII-NC_003074:5121290-5121390 81 1.51e-05 GTCGCTTTTA CTCTCTCTCC CATCCTATA
chrV-NC_003076:24510324-24510424 46 1.93e-05 CACTTGTGAT CTTCCTCTTT CGGAAATAAA
chrIII-NC_003074:21177373-21177473 83 1.93e-05 CCTTATGTGG CTCTCTCTTC TCTTTCT
chrV-NC_003076:1894217-1894317 61 2.60e-05 AACCAGAAGA CTTTCTTTCT TTTTAAGGTT
chrIV-NC_003075:13013959-13014059 42 2.60e-05 TGAATTTCAC TTTCCTCTCT CGGACCTTAC
chrI-NC_003070:11630791-11630891 79 2.60e-05 TTTCTTTTTT CTTTCTTTCT TTGCACTCTT
chrI-NC_003070:9269999-9270099 80 2.60e-05 CAATGGTAAA CTCTCTTTTT GCCTTCATCC
chrI-NC_003070:28117313-28117413 32 2.60e-05 GCCCCTTGTG CTTTCTTTCT CCTAAAGAAG
chrI-NC_003070:11061463-11061563 84 2.60e-05 AGAAGACTAT TTCTCTCTCC TCTCTC
chrII-NC_003071:15690357-15690457 58 2.60e-05 ACCAAGGTAG CTTTCTTTCT ACTTATGTAC
chrII-NC_003071:15784393-15784493 2 2.60e-05 CC TTCTCTCTCC CATAACCCTA
chrII-NC_003071:17819844-17819944 55 2.60e-05 GAGCCCATAC CTCTCTTTTT TCCTCTAAAC
chrIII-NC_003074:18038275-18038375 88 2.60e-05 CGACTGGCAC CTCTCTTTTT TC
chrIII-NC_003074:1216726-1216826 29 2.60e-05 GAGATTTTTT CTTTCTTTCT CCTTTTCTAC
chrII-NC_003071:9523112-9523212 50 2.91e-05 CACGTGTTCC CTTTCTCTTC TTCCTCCTTT
chrV-NC_003076:8903405-8903505 39 3.68e-05 AGTAAAATCA TTTCCTCTTT TGGCGGGAGA
chrIV-NC_003075:13381861-13381961 74 3.68e-05 AACCAAATCT CTTTCTTTTT TTCTGTAGTC
chrIV-NC_003075:14912987-14913087 17 3.68e-05 CTTCATCCTC TTTCCTCTTT TGTCTTCTTC
chrIV-NC_003075:17432064-17432164 13 3.68e-05 TTCTGCTTTT TTTCCTCTTT CCTTTTCACT
chrII-NC_003071:19198253-19198353 39 3.68e-05 CCTTTTCTAC TTTCCTCTTT TGGATTCATT
chrV-NC_003076:7265888-7265988 19 4.44e-05 AGAAAATGTC TTTTCTTTCT TTCATTAAAC
chrIV-NC_003075:9249999-9250099 71 4.44e-05 TCCGCGTCCA TTTTCTTTCT TCTTCTGAAG
chrV-NC_003076:26765562-26765662 72 5.78e-05 TTTTACTTGT TTTTCTTTTT GGATCCAAGT
chrIV-NC_003075:17398887-17398987 78 5.78e-05 TAACATTTTC CTTTTTCTCT CATAATTCCT
chrII-NC_003071:17743078-17743178 7 5.78e-05 TCTTTTC TTTTCTTTTT TTCTTTTTTT
chrIII-NC_003074:467781-467881 68 5.78e-05 GCTATCATCA TTTTCTTTTT CTTACTTCAC
chrV-NC_003076:4451032-4451132 77 6.15e-05 CTGGGTCCTA CTTTCCCTTT TCTTCCTAAA
chrI-NC_003070:7384592-7384692 54 6.15e-05 CTCAAAATAC TTCTTTCTCT GTCTCTGTCT
chrII-NC_003071:16221745-16221845 31 6.15e-05 CATCAAATCT CTTTCCCTTT ATAAAACCTC
chrIII-NC_003074:5222133-5222233 38 6.15e-05 TATGTTTTTT CTTTCCCTTT TTGCTGTGTT
chrIV-NC_003075:16154659-16154759 7 7.76e-05 AGCTGAA TTCTTTCTTT CACCGGACGT
chrIV-NC_003075:15918178-15918278 82 7.76e-05 TTGCTTTTTC TTCTTTCTTT TCTCACCA
chrI-NC_003070:8717829-8717929 74 7.76e-05 AACGCGTGGG TTTTTTCTCT GCACAATGCG
chrV-NC_003076:6381170-6381270 50 8.12e-05 AGTGATACTT TTCCCTTTCT GCCTATGACA
chrV-NC_003076:18000368-18000468 36 8.12e-05 TCAATAGAGT TTCCCTTTCT AAGACTACTA
chrV-NC_003076:22779192-22779292 90 9.24e-05 ATATGTAACT TTTTTTCTTT
chrV-NC_003076:16563593-16563693 84 9.24e-05 TCCACAAAAG TTTTTTCTTT GGTTTG
chrIV-NC_003075:5739029-5739129 62 9.24e-05 AAGTTTCACA TTTTTTCTTT AACTGCCCAC
chrIII-NC_003074:7297913-7298013 86 9.24e-05 GAACTTTCTA TTTTTTCTTT TCTC
chrII-NC_003071:7940337-7940437 10 9.87e-05 GTAGATTTGT TTCCCTTTTT GGTTAGATTA
chrI-NC_003070:365450-365550 70 1.03e-04 GACATGTCTC CTCCCCCTTT CCTTTATTAG
chrIII-NC_003074:22939535-22939635 33 1.03e-04 AGTACATGAG TTTCCTCTTC TGCCTCTTTG
chrV-NC_003076:39060-39160 69 1.16e-04 GTATGTCAAC TTTCCTTTTT TAGATTTAAG
chrV-NC_003076:24843037-24843137 35 1.16e-04 ACCTGACCTC CTCTCCTTCT GGAGTTTTCA
chrV-NC_003076:10455505-10455605 15 1.16e-04 GAGATCTTTT TTTCCTTTTT ATTGTTTTCT
chrII-NC_003071:10191589-10191689 59 1.16e-04 TCTACTTTTG TTTTCTTTCC TTTTTCGTCT
chrII-NC_003071:14733361-14733461 87 1.16e-04 CTCCTCAGTC CTCTTTCTCC GTC
chrIII-NC_003074:3098128-3098228 76 1.16e-04 TAAAGTTTTG TTTCCTTTTT GGGATTACAA
chrIII-NC_003074:5293166-5293266 85 1.16e-04 TTACTATATG TTTCCTTTTT TACAA
chrIII-NC_003074:22670437-22670537 19 1.16e-04 ATAAATGTTG GTCTCTCTTT ATTATTTCCC
chrI-NC_003070:18399009-18399109 39 1.34e-04 TCTTAAAAGT CTTCTTCTTT TGGGTTGCTT
chrI-NC_003070:12455681-12455781 63 1.34e-04 ACCAAGTCTT CTTCTTCTTT ACTCTCTCCT
chrI-NC_003070:9990630-9990730 90 1.34e-04 CATACTTTGC TTTTCTTTTC
chrI-NC_003070:5513978-5514078 27 1.34e-04 ACAGATGGAC TTTTCTTTTC TTGTCTTAAA
chrII-NC_003071:15275171-15275271 71 1.34e-04 GTGAGGGTTT GTTTCTCTTT GGGCTGTGAT
chrV-NC_003076:25307566-25307666 64 1.47e-04 CCAAATTTGT CTCTTTTTTT GTATTGCTAC
chrV-NC_003076:26851845-26851945 64 1.47e-04 TTCCACGTGC CTTTTTTTCT GCACCACTAT
chrI-NC_003070:29216786-29216886 86 1.47e-04 ATATCTGAGC TTCTTTCTCC TCTA
chrII-NC_003071:18801878-18801978 88 1.47e-04 TCTTCTTTGC CTCCCTTTCC GT
chrV-NC_003076:2856549-2856649 31 1.57e-04 TTGCTTTTTA TTTCCCCTTT AGGGTAGCTT
chrIV-NC_003075:13854244-13854344 46 1.57e-04 ACTTTTATAG CTTTCCTTTT CAGGAAAGTA
chrIII-NC_003074:8244862-8244962 87 1.57e-04 GCATGATGAG CTTTCCTTTT ATA
chrV-NC_003076:2284163-2284263 89 1.76e-04 AACTCTGCTC TTTTTTCTCC T
chrIV-NC_003075:14196781-14196881 32 1.76e-04 ATCTTTTTGC TTTCTTCTTT GTTTTTGCCA
chrI-NC_003070:2120839-2120939 68 1.76e-04 AAAGTTATGG TTCTTTCTTC CATCGCTTCG
chrI-NC_003070:10726311-10726411 88 1.76e-04 CACTTTTGTC CTTTTTTTTT AA
chrV-NC_003076:20011316-20011416 65 1.89e-04 AAAGAAGGTG TTCTTTTTTT GTTTTATAGC
chrII-NC_003071:18813111-18813211 73 1.89e-04 TTTAGGTGTT TTTTTTTTCT TCTTTTAATT
chrIII-NC_003074:4606048-4606148 86 1.89e-04 CTCCATTTTC TTCTTTTTTT GGTA
chrI-NC_003070:22814110-22814210 25 2.01e-04 AATATATTTT TTTTCCTTTT CTGGATTTGG
chrII-NC_003071:9037903-9038003 58 2.01e-04 TTGTATTATT TTTTCCTTTT CGGGAAACTA
chrIV-NC_003075:13016297-13016397 16 2.17e-04 AACGCGGAGT TTCTGTCTCT GTGAATGCCA
chrII-NC_003071:13280749-13280849 39 2.17e-04 AGAGCCAGAG TTCTGTCTCT CACTTGTCTT
chrIII-NC_003074:2441566-2441666 79 2.17e-04 TATCCATTCA TTTTTTTTTT TCATTTCTTC
chrV-NC_003076:1891504-1891604 65 2.39e-04 TACATTTTTG GTTTCTCTCC CAAAATTGAA
chrV-NC_003076:7695385-7695485 81 2.39e-04 CCAACATGTT TTCTTCCTTT TATCCGTGT
chrV-NC_003076:6828965-6829065 66 2.39e-04 AACTGTCAAA GTCTCTCTTC ACCTCAAGAT
chrI-NC_003070:4549734-4549834 48 2.39e-04 AACAGACATT TTCTGTCTTT GGATAAATCG
chrII-NC_003071:12774547-12774647 36 2.39e-04 ATTGAGTAAA TTTCCTTTTC CTAAAGGGGA
chrI-NC_003070:23267188-23267288 36 2.50e-04 AAAGTGTAGC CTTCTTTTCT TAGCTAAAAA
chrV-NC_003076:9629118-9629218 43 2.80e-04 TGATTCGAAA TTTCCCTTCT CGGCTCAAAT
chrI-NC_003070:6837297-6837397 87 2.80e-04 AATTTTGATG TTTCTTCTCC AGA
chrIII-NC_003074:4161767-4161867 39 2.80e-04 AAAAGCGAAC CTTTTTTTCC AATGACTGAA
chrI-NC_003070:25391261-25391361 30 3.25e-04 ACCACTTGGT TTCCTCCTCT ATTCCGCTTT

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_003074:8244862-8244962 1.57e-04
chrIII-NC_003074:20606546-20606646 6.61e-07
chrIII-NC_003074:5121290-5121390 1.51e-05
chrIII-NC_003074:22670437-22670537 1.16e-04
chrIII-NC_003074:4606048-4606148 1.89e-04
chrIII-NC_003074:22634257-22634357 9.75e-06
chrIII-NC_003074:5293166-5293266 1.16e-04
chrIII-NC_003074:467781-467881 5.78e-05
chrIII-NC_003074:1216726-1216826 2.60e-05
chrIII-NC_003074:21177373-21177473 1.93e-05
chrIII-NC_003074:7789683-7789783 1.30e-05
chrIII-NC_003074:7297913-7298013 9.24e-05
chrIII-NC_003074:7507408-7507508 1.30e-05
chrIII-NC_003074:1373635-1373735 2.91e-06
chrIII-NC_003074:22939535-22939635 1.03e-04
chrIII-NC_003074:2441566-2441666 2.17e-04
chrIII-NC_003074:5222133-5222233 6.15e-05
chrIII-NC_003074:4161767-4161867 2.80e-04
chrIII-NC_003074:3098128-3098228 1.16e-04
chrIII-NC_003074:18038275-18038375 2.60e-05
chrII-NC_003071:13280749-13280849 2.17e-04
chrII-NC_003071:18801878-18801978 1.47e-04
chrII-NC_003071:17819844-17819944 2.60e-05
chrII-NC_003071:14733361-14733461 1.16e-04
chrII-NC_003071:7940337-7940437 9.87e-05
chrII-NC_003071:19298962-19299062 1.30e-05
chrII-NC_003071:15784393-15784493 2.60e-05
chrII-NC_003071:12774547-12774647 2.39e-04
chrII-NC_003071:17743078-17743178 5.78e-05
chrII-NC_003071:9580157-9580257 6.61e-07
chrII-NC_003071:15690357-15690457 2.60e-05
chrII-NC_003071:9037903-9038003 2.01e-04
chrII-NC_003071:9523112-9523212 2.91e-05
chrII-NC_003071:18813111-18813211 1.89e-04
chrII-NC_003071:14645113-14645213 5.94e-06
chrII-NC_003071:999336-999436 6.61e-07
chrII-NC_003071:16221745-16221845 6.15e-05
chrII-NC_003071:436677-436777 6.61e-07
chrII-NC_003071:17808033-17808133 9.75e-06
chrII-NC_003071:10191589-10191689 1.16e-04
chrII-NC_003071:15275171-15275271 1.34e-04
chrII-NC_003071:11871421-11871521 4.03e-06
chrII-NC_003071:19198253-19198353 3.68e-05
chrI-NC_003070:10000490-10000590 6.61e-07
chrI-NC_003070:23267188-23267288 2.50e-04
chrI-NC_003070:11061463-11061563 2.60e-05
chrI-NC_003070:6579466-6579566 6.61e-07
chrI-NC_003070:10726311-10726411 1.76e-04
chrI-NC_003070:6837297-6837397 2.80e-04
chrI-NC_003070:7384592-7384692 6.15e-05
chrI-NC_003070:8717829-8717929 7.76e-05
chrI-NC_003070:5513978-5514078 1.34e-04
chrI-NC_003070:9990630-9990730 1.34e-04
chrI-NC_003070:28117313-28117413 2.60e-05
chrI-NC_003070:29764290-29764390 9.75e-06
chrI-NC_003070:6843352-6843452 2.91e-06
chrI-NC_003070:11628844-11628944 4.03e-06
chrI-NC_003070:12455681-12455781 1.34e-04
chrI-NC_003070:20956381-20956481 6.61e-07
chrI-NC_003070:4549734-4549834 2.39e-04
chrI-NC_003070:13228453-13228553 9.75e-06
chrI-NC_003070:25391261-25391361 3.25e-04
chrI-NC_003070:2120839-2120939 1.76e-04
chrI-NC_003070:9269999-9270099 2.60e-05
chrI-NC_003070:29216786-29216886 1.47e-04
chrI-NC_003070:22814110-22814210 2.01e-04
chrI-NC_003070:18399009-18399109 1.34e-04
chrI-NC_003070:365450-365550 1.03e-04
chrI-NC_003070:11630791-11630891 2.60e-05
chrIV-NC_003075:5739029-5739129 9.24e-05
chrIV-NC_003075:14196781-14196881 1.76e-04
chrIV-NC_003075:499163-499263 2.91e-06
chrIV-NC_003075:8444094-8444194 2.91e-06
chrIV-NC_003075:15918178-15918278 7.76e-05
chrIV-NC_003075:13854244-13854344 1.57e-04
chrIV-NC_003075:17398887-17398987 5.78e-05
chrIV-NC_003075:9249999-9250099 4.44e-05
chrIV-NC_003075:13016297-13016397 2.17e-04
chrIV-NC_003075:17322266-17322366 1.30e-05
chrIV-NC_003075:9319710-9319810 2.91e-06
chrIV-NC_003075:13013959-13014059 2.60e-05
chrIV-NC_003075:17432064-17432164 3.68e-05
chrIV-NC_003075:14912987-14913087 3.68e-05
chrIV-NC_003075:13381861-13381961 3.68e-05
chrIV-NC_003075:16154659-16154759 7.76e-05
chrV-NC_003076:1894217-1894317 2.60e-05
chrV-NC_003076:26851845-26851945 1.47e-04
chrV-NC_003076:6828965-6829065 2.39e-04
chrV-NC_003076:23700558-23700658 5.94e-06
chrV-NC_003076:7695385-7695485 2.39e-04
chrV-NC_003076:24996114-24996214 1.51e-05
chrV-NC_003076:3478453-3478553 2.91e-06
chrV-NC_003076:24510324-24510424 1.93e-05
chrV-NC_003076:22997202-22997302 6.61e-07
chrV-NC_003076:10455505-10455605 1.16e-04
chrV-NC_003076:24843037-24843137 1.16e-04
chrV-NC_003076:10649957-10650057 1.30e-05
chrV-NC_003076:26138594-26138694 2.91e-06
chrV-NC_003076:18000368-18000468 8.12e-05
chrV-NC_003076:39060-39160 1.16e-04
chrV-NC_003076:20011316-20011416 1.89e-04
chrV-NC_003076:1891504-1891604 2.39e-04
chrV-NC_003076:4451032-4451132 6.15e-05
chrV-NC_003076:2856549-2856649 1.57e-04
chrV-NC_003076:19653125-19653225 9.75e-06
chrV-NC_003076:2284163-2284263 1.76e-04
chrV-NC_003076:16563593-16563693 9.24e-05
chrV-NC_003076:6381170-6381270 8.12e-05
chrV-NC_003076:9629118-9629218 2.80e-04
chrV-NC_003076:229782-229882 5.94e-06
chrV-NC_003076:26837938-26838038 6.61e-07
chrV-NC_003076:26805576-26805676 2.91e-06
chrV-NC_003076:26765562-26765662 5.78e-05
chrV-NC_003076:8903405-8903505 3.68e-05
chrV-NC_003076:7265888-7265988 4.44e-05
chrV-NC_003076:23147444-23147544 1.30e-05
chrV-NC_003076:22779192-22779292 9.24e-05
chrV-NC_003076:25307566-25307666 1.47e-04
 
0
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Time 62.7 secs.

Motif 2

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Summary

Sequence Logo

E-value 9.2e-054
Width 10
Sites 117
show more
PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

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

Regular expression

[CA]C[AT]AAA[AG][TA][GA]G

Further Analysis

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Data Formats

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

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:9480415-9480515 41 6.78e-07 ATGAAATTTG CCAAAAGTGG AAACATGTCG
chrV-NC_003076:17073608-17073708 44 1.36e-06 GTGGAGCATA CCAAAAGAGG AAAGAGGCAG
chrIV-NC_003075:14813525-14813625 54 1.36e-06 AAATTACATA CCAAAAGAGG GTAAGTTCTT
chrI-NC_003070:27713510-27713610 49 1.36e-06 AACAAAAACA CCAAAAGAGG TAAATCTCTT
chrI-NC_003070:18690442-18690542 52 1.36e-06 AATCGTGGTT CCAAAAGAGG AAATATAATA
chrII-NC_003071:15206977-15207077 42 1.36e-06 GTTTTCGTTA CCAAAAGAGG AAAATATCTT
chrV-NC_003076:3048856-3048956 39 3.32e-06 AATAAAACTT CCAAAAATGG GTTGTATATA
chrV-NC_003076:16563593-16563693 46 3.32e-06 TTCTGTTTTA CCAAAAATGG CAAAAAGTAA
chrII-NC_003071:14956317-14956417 41 3.32e-06 CGAATATTTA CCAAAAATGG AAGATTCTAT
chrII-NC_003071:383333-383433 43 3.32e-06 ACGACTGTTA CCAAAAATGG AGTTAACGGC
chrIII-NC_003074:4732994-4733094 38 3.32e-06 AAAAACCTTT CCAAAAATGG CAAAGAACCG
chrV-NC_003076:24415567-24415667 31 4.88e-06 TCTCATATAC CCAAAAAAGG ATGGAAACTT
chrV-NC_003076:22388451-22388551 5 4.88e-06 ATCCC CCAAAAAAGG AAAAAAGCTG
chrI-NC_003070:26011675-26011775 40 4.88e-06 GGGACGATTG CCAAAAAAGG GAAGAGAGCT
chrII-NC_003071:17819844-17819944 2 4.88e-06 TA CCAAAAAAGG AAAGTTTCCA
chrV-NC_003076:3864674-3864774 45 5.96e-06 GATTCCCACG CCGAAAGTGG AAAGAGAAAC
chrV-NC_003076:9133297-9133397 75 5.96e-06 TGCTTTCTTG CCGAAAGTGG AAAGAAAGAT
chrI-NC_003070:9101220-9101320 70 5.96e-06 AGAGTTGGTG CCGAAAGTGG AGAGATGGTA
chrV-NC_003076:792888-792988 45 7.28e-06 ATGTGGCTTT CCCAAAGGGG AAAGAGAATT
chrV-NC_003076:2284163-2284263 51 7.28e-06 CTTAAACATT CCCAAAGGGG AAAGAAGACA
chrIV-NC_003075:15205290-15205390 46 7.28e-06 TCATATTTTA CCCAAAAAGG ATCAACCATT
chrI-NC_003070:27292918-27293018 42 7.28e-06 TAATCCTTTT CCCAAAGGGG TCAGGTTGAC
chrI-NC_003070:10679066-10679166 53 8.63e-06 AACGTAATGC CCTAAAGTGG AGAAAGTGTC
chrII-NC_003071:12941145-12941245 55 8.63e-06 ACGCACATTA CCAAAAAGGG CAGAGAGATT
chrV-NC_003076:1826857-1826957 41 9.99e-06 AGCCGAATTT CCTAAAGAGG AAATGATGTT
chrIV-NC_003075:12043858-12043958 49 9.99e-06 GAATCAAAAT CCGAAAATGG TAAAAAAAAC
chrI-NC_003070:7930462-7930562 41 1.13e-05 TAGAGATTAG CCGAAAAAGG AAAGTATGAG
chrIII-NC_003074:5954468-5954568 78 1.13e-05 CTTGTCTGAT CCGAAAAAGG TAAAACTGCA
chrIII-NC_003074:20583648-20583748 34 1.13e-05 GCTGAGAGTG CCCAAAAGGG TTTGCCAAAT
chrI-NC_003070:23075622-23075722 76 1.25e-05 ACACACTTTT CCTAAAATGG CAATCTACCT
chrII-NC_003071:9577581-9577681 49 1.25e-05 AAGAAAGAAG CCTAAAATGG CTAAAAGGTT
chrIII-NC_003074:1136472-1136572 40 1.25e-05 TGCTTGTTCT CCTAAAATGG AATTATCTTT
chrIII-NC_003074:7989294-7989394 81 1.25e-05 GTATATATGT CCTAAAATGG ATAATAATC
chrV-NC_003076:3865681-3865781 14 1.40e-05 GTGTGTTTTG CCTAAAAAGG AAAGTTGTCA
chrV-NC_003076:15711909-15712009 79 1.40e-05 TGAGTGACAT CCTAAAGGGG ATATACATAA
chrI-NC_003070:29788413-29788513 45 1.40e-05 TTCCTAAAAC CCTAAAGGGG AAATCTTCCC
chrI-NC_003070:21192322-21192422 45 1.40e-05 GACCGCTTTT CCTAAAAAGG AAAGAAATTA
chrII-NC_003071:16504451-16504551 48 1.40e-05 GGGACAAAAT CCTAAAGGGG AAGAGATTCC
chrI-NC_003070:20723351-20723451 9 1.56e-05 CTTCACCCA CCAAAAGTAG CAAACCTTTG
chrIV-NC_003075:6794586-6794686 67 1.74e-05 CGTCAAAAGA CCAAAAGAAG AAAGAAAAGT
chrIII-NC_003074:21233546-21233646 21 1.74e-05 GAAGAAAGTT CCAAAAGAAG AAAACAGCCA
chrI-NC_003070:11630791-11630891 42 1.93e-05 AAATAAAAAA ACAAAAGTGG TAAATGGTAA
chrIV-NC_003075:8435496-8435596 2 2.31e-05 TT CCAAAAATAG AACAAAATAT
chrII-NC_003071:18811109-18811209 52 2.31e-05 TTAAGAAAGA CCAAAAATAG CATATTTTGA
chrIII-NC_003074:5299080-5299180 60 2.31e-05 CTAATCTCTT CCCAAAGAAG AATCATCACT
chrIII-NC_003074:5121290-5121390 60 2.64e-05 ACAAAGCGCC CCAAAAGGAG CGTCGCTTTT
chrV-NC_003076:21763572-21763672 76 3.09e-05 ATCGGGTATG ACCAAAGAGG AAATGACACG
chrIV-NC_003075:11604849-11604949 38 3.09e-05 CGGTTTATTT ACCAAAGAGG AAAATTTGCA
chrI-NC_003070:17506712-17506812 11 3.09e-05 ATTCCTTTGT ACAAAAATGG AAACAAAGGT
chrII-NC_003071:14224191-14224291 29 3.09e-05 AATCTGTGGA ACAAAAATGG CAAAAATATT
chrII-NC_003071:9037903-9038003 19 3.09e-05 TAATATAATT ACAAAAATGG GCCAGGCTAA
chrV-NC_003076:26042706-26042806 6 3.59e-05 AAGGGA CCCAAAAAAG ATAACATGCT
chrV-NC_003076:4221058-4221158 89 3.59e-05 ACTAGTACTA ACAAAAAAGG G
chrI-NC_003070:26581149-26581249 49 3.59e-05 AGTGGTAAGT CCCAAAGGAG CACGTCAGTG
chrI-NC_003070:25046712-25046812 87 4.00e-05 ATAAAAAAAA ACGAAAGTGG AAG
chrI-NC_003070:28673890-28673990 79 4.00e-05 ATATTTATAT ACCAAAATGG CACATAAATC
chrI-NC_003070:6459718-6459818 46 4.00e-05 CGGGAAGAAG ACGAAAGTGG AAAGTTTGAT
chrI-NC_003070:10726311-10726411 34 4.00e-05 AAAGACCTTG CCAAAAAGAG AAAGCGAAAA
chrI-NC_003070:28117313-28117413 42 4.50e-05 CTTTCTTTCT CCTAAAGAAG CAAAGTACAC
chrI-NC_003070:9950825-9950925 90 5.06e-05 CCAATAAAAC CCCAAAAGAG
chrV-NC_003076:6320620-6320720 71 5.65e-05 TGAATCGAGG GCAAAAGAGG AAAGTTAGGT
chrI-NC_003070:12455681-12455781 33 5.65e-05 AATTGAAAAC ACTAAAGAGG AAATTAAGTG
chrIII-NC_003074:5236746-5236846 86 5.65e-05 TCATTTCTTT CCTAAAATAG TAAC
chrV-NC_003076:20898801-20898901 50 6.41e-05 TAATATGTTT CCAAATGTGG AATTCTTTTG
chrI-NC_003070:4600560-4600660 34 7.03e-05 CATGAAAATA GCAAAAATGG AAAACATGAT
chrI-NC_003070:11373372-11373472 51 7.03e-05 TTTTTTATTT CCGAAAAGAG AAACAAACAA
chrI-NC_003070:8595088-8595188 52 7.03e-05 CCTAAGGGTT ACTAAAATGG ATTGTCGTGG
chrV-NC_003076:206021-206121 10 7.71e-05 CAAAAATATT CCATAAATGG TTAACACAAA
chrV-NC_003076:23785222-23785322 62 7.71e-05 GCAAATGAAC CCATAAATGG AAAGAAAACT
chrIV-NC_003075:13193728-13193828 35 7.71e-05 GATTCAGTAT ACTAAAAAGG AAACTCCTAC
chrII-NC_003071:8692385-8692485 45 7.71e-05 GATTCGATTT CCCCAAATGG CAAAAGAAAA
chrIII-NC_003074:7297913-7298013 54 8.39e-05 TGGAAGAAAG CCATAAAAGG AAGCTTTCTT
chrIV-NC_003075:10386503-10386603 27 9.06e-05 TAATTATATT CCAAATAAGG AAAGTATGGA
chrII-NC_003071:519724-519824 50 9.06e-05 GAAGAAGAAA ACAAAAGTAG AAAATAGAAA
chrIII-NC_003074:9812872-9812972 60 9.06e-05 AGCCTTTATT GCCAAAGGGG AGATATAGTA
chrV-NC_003076:17363447-17363547 68 9.83e-05 AAAATCTCAG CCGCAAATGG ATGTCTCACC
chrV-NC_003076:22997202-22997302 62 1.05e-04 AATAAAATTT CCCCAAAGGG ACCATTGATC
chrI-NC_003070:26575417-26575517 13 1.05e-04 TAAATTTCAC ACCAAAGTAG TCCGACGGAT
chrIII-NC_003074:17973311-17973411 66 1.05e-04 CTCCAATTAT ACCAAAGTAG CCATGACTAG
chrV-NC_003076:7265888-7265988 43 1.16e-04 TTAAACTTTG CCGTAAATGG GTCTGTTTGG
chrV-NC_003076:13939328-13939428 45 1.16e-04 TAGAAAATAA CCTAATGTGG TAATATAGGA
chrIII-NC_003074:18470148-18470248 74 1.16e-04 AAATTCCTTA CCTCAAATGG AAAACCCTTA
chrV-NC_003076:23165445-23165545 61 1.27e-04 AGTCATTGAA CCTAATGAGG TAAACGTAGG
chrIV-NC_003075:5155510-5155610 60 1.27e-04 TCACTTGTTG ACAAAAAAAG AAAAAGAAAG
chrIV-NC_003075:17150895-17150995 47 1.27e-04 CACTCTATCT CTAAAAGAGG CAACCAAACA
chrII-NC_003071:12774547-12774647 59 1.27e-04 AAGGGGAAAT ACAAAAGGAG ACCTTTGTGG
chrIII-NC_003074:4146195-4146295 37 1.27e-04 GAGAGAGAAA ACAAAAAAAG TAAAAGCTTC
chrIII-NC_003074:23291583-23291683 27 1.27e-04 GAAACATAAA ACAAAAAAAG AAATATCTAA
chrIV-NC_003075:10381216-10381316 41 1.36e-04 TATCAAATTA CCTTAAATGG GTTCATAAAG
chrI-NC_003070:567094-567194 87 1.36e-04 AGCCGACGCG CCAAAAGTGA TTC
chrII-NC_003071:14209292-14209392 7 1.36e-04 TTAAATG ACGAAAGTAG ACATCTCTGT
chrV-NC_003076:20011316-20011416 52 1.48e-04 AAGACCCGAC ACGAAAGAAG GTGTTCTTTT
chrI-NC_003070:26727714-26727814 63 1.48e-04 CTCGAATAAA CTCAAAGAGG TGACAGCCGT
chrII-NC_003071:8430434-8430534 49 1.48e-04 TTACTTCTTT CCTTAAAAGG AAAAGAAAAT
chrII-NC_003071:14735538-14735638 56 1.48e-04 CCTTAGAAAA CCAAAACGGG AAAAGAAAAA
chrIII-NC_003074:20121178-20121278 39 1.48e-04 ACTTGAGTTA CTAAAAATGG AAAGTATTGC
chrV-NC_003076:23661495-23661595 76 1.60e-04 ATAAAATATA GCAAAAGTAG CAAAGATTAA
chrI-NC_003070:23267188-23267288 49 1.60e-04 CTTTTCTTAG CTAAAAAAGG AAGGTATACG
chrV-NC_003076:21669324-21669424 44 1.74e-04 GTTTTATTTC CCGAATAGGG AATGTTAAGG
chrV-NC_003076:3833394-3833494 5 1.74e-04 TGTGT CCAAAAATGA GGAAAAGGAA
chrII-NC_003071:432261-432361 71 1.74e-04 AAAATATATA CCCAAAGAGA GAGCTAGAGA
chrIV-NC_003075:15054453-15054553 52 1.89e-04 AAAATAGTGA CTGAAAGAGG AAAAACATAT
chrIV-NC_003075:18361675-18361775 43 1.89e-04 ACCTAAATGT GCCAAAGTAG ACAAGAACCC
chrI-NC_003070:1714035-1714135 48 1.89e-04 AAATTCAAAG ACGAAAAAAG CAAAAAGTGG
chrV-NC_003076:26805576-26805676 33 2.05e-04 CTGTTTCTTT CCCTAAGTAG TAATTACAAA
chrI-NC_003070:9269999-9270099 1 2.05e-04 A CCCAAAATGA AATGAAAGAA
chrI-NC_003070:20954134-20954234 15 2.05e-04 GGATATATAG ACTAAAATAG GTCGGTGGAC
chrIV-NC_003075:18318568-18318668 45 2.26e-04 GTGGAGATAA CCGAAACGGG AAAGTTCTAA
chrI-NC_003070:28378932-28379032 24 2.26e-04 AATACTTTTT CCATAAATAG TAGTATACAT
chrII-NC_003071:8340177-8340277 64 2.26e-04 ACTTTTTTAG GCAAAAAAAG TTCAAAAAGA
chrV-NC_003076:229782-229882 58 2.60e-04 TAACATCTCT CCAAATAAAG TTTGTCTGTT
chrV-NC_003076:25908024-25908124 3 2.60e-04 TCT CTTAAAATGG GCCCGTAAAG
chrI-NC_003070:11067773-11067873 42 2.82e-04 ATAGATTGTT ACAAATATGG AAACCTAATA
chrI-NC_003070:26059448-26059548 88 2.82e-04 TTGTGCGTAC ACGCAAGAGG GA
chrII-NC_003071:18423065-18423165 23 2.82e-04 ATTACAACCG CCCAAAAGGA AAGTAGCTAT
chrIII-NC_003074:22670437-22670537 40 3.00e-04 TTATTTCCCG GCTAAAGAAG GAGGATGTCT
chrII-NC_003071:17791516-17791616 49 3.63e-04 TCCTCCATTT CCACATGAGG AAAGAGTAAA

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_003074:18470148-18470248 1.16e-04
chrIII-NC_003074:5121290-5121390 2.64e-05
chrIII-NC_003074:22670437-22670537 3.00e-04
chrIII-NC_003074:7989294-7989394 1.25e-05
chrIII-NC_003074:9812872-9812972 9.06e-05
chrIII-NC_003074:23291583-23291683 1.27e-04
chrIII-NC_003074:20583648-20583748 1.13e-05
chrIII-NC_003074:17973311-17973411 1.05e-04
chrIII-NC_003074:7297913-7298013 8.39e-05
chrIII-NC_003074:1136472-1136572 1.25e-05
chrIII-NC_003074:21233546-21233646 1.74e-05
chrIII-NC_003074:5299080-5299180 2.31e-05
chrIII-NC_003074:20121178-20121278 1.48e-04
chrIII-NC_003074:5954468-5954568 1.13e-05
chrIII-NC_003074:4146195-4146295 1.27e-04
chrIII-NC_003074:5236746-5236846 5.65e-05
chrIII-NC_003074:4732994-4733094 3.32e-06
chrII-NC_003071:17819844-17819944 4.88e-06
chrII-NC_003071:14735538-14735638 1.48e-04
chrII-NC_003071:9577581-9577681 1.25e-05
chrII-NC_003071:8430434-8430534 1.48e-04
chrII-NC_003071:8340177-8340277 2.26e-04
chrII-NC_003071:432261-432361 1.74e-04
chrII-NC_003071:15206977-15207077 1.36e-06
chrII-NC_003071:12774547-12774647 1.27e-04
chrII-NC_003071:18811109-18811209 2.31e-05
chrII-NC_003071:9037903-9038003 3.09e-05
chrII-NC_003071:383333-383433 3.32e-06
chrII-NC_003071:519724-519824 9.06e-05
chrII-NC_003071:14956317-14956417 3.32e-06
chrII-NC_003071:17791516-17791616 3.63e-04
chrII-NC_003071:12941145-12941245 8.63e-06
chrII-NC_003071:14224191-14224291 3.09e-05
chrII-NC_003071:8692385-8692485 7.71e-05
chrII-NC_003071:16504451-16504551 1.40e-05
chrII-NC_003071:14209292-14209392 1.36e-04
chrII-NC_003071:18423065-18423165 2.82e-04
chrI-NC_003070:23267188-23267288 1.60e-04
chrI-NC_003070:9950825-9950925 5.06e-05
chrI-NC_003070:8595088-8595188 7.03e-05
chrI-NC_003070:10726311-10726411 4.00e-05
chrI-NC_003070:26059448-26059548 2.82e-04
chrI-NC_003070:21192322-21192422 1.40e-05
chrI-NC_003070:20954134-20954234 2.05e-04
chrI-NC_003070:567094-567194 1.36e-04
chrI-NC_003070:11067773-11067873 2.82e-04
chrI-NC_003070:28117313-28117413 4.50e-05
chrI-NC_003070:26575417-26575517 1.05e-04
chrI-NC_003070:6459718-6459818 4.00e-05
chrI-NC_003070:20723351-20723451 1.56e-05
chrI-NC_003070:26011675-26011775 4.88e-06
chrI-NC_003070:11373372-11373472 7.03e-05
chrI-NC_003070:28673890-28673990 4.00e-05
chrI-NC_003070:12455681-12455781 5.65e-05
chrI-NC_003070:7930462-7930562 1.13e-05
chrI-NC_003070:10679066-10679166 8.63e-06
chrI-NC_003070:4600560-4600660 7.03e-05
chrI-NC_003070:18690442-18690542 1.36e-06
chrI-NC_003070:25046712-25046812 4.00e-05
chrI-NC_003070:9101220-9101320 5.96e-06
chrI-NC_003070:26727714-26727814 1.48e-04
chrI-NC_003070:1714035-1714135 1.89e-04
chrI-NC_003070:27713510-27713610 1.36e-06
chrI-NC_003070:9269999-9270099 2.05e-04
chrI-NC_003070:29788413-29788513 1.40e-05
chrI-NC_003070:17506712-17506812 3.09e-05
chrI-NC_003070:27292918-27293018 7.28e-06
chrI-NC_003070:23075622-23075722 1.25e-05
chrI-NC_003070:28378932-28379032 2.26e-04
chrI-NC_003070:11630791-11630891 1.93e-05
chrI-NC_003070:26581149-26581249 3.59e-05
chrIV-NC_003075:6794586-6794686 1.74e-05
chrIV-NC_003075:18361675-18361775 1.89e-04
chrIV-NC_003075:10381216-10381316 1.36e-04
chrIV-NC_003075:12043858-12043958 9.99e-06
chrIV-NC_003075:14813525-14813625 1.36e-06
chrIV-NC_003075:10386503-10386603 9.06e-05
chrIV-NC_003075:13193728-13193828 7.71e-05
chrIV-NC_003075:18318568-18318668 2.26e-04
chrIV-NC_003075:17150895-17150995 1.27e-04
chrIV-NC_003075:8435496-8435596 2.31e-05
chrIV-NC_003075:11604849-11604949 3.09e-05
chrIV-NC_003075:15205290-15205390 7.28e-06
chrIV-NC_003075:5155510-5155610 1.27e-04
chrIV-NC_003075:15054453-15054553 1.89e-04
chrV-NC_003076:21763572-21763672 3.09e-05
chrV-NC_003076:20898801-20898901 6.41e-05
chrV-NC_003076:17073608-17073708 1.36e-06
chrV-NC_003076:4221058-4221158 3.59e-05
chrV-NC_003076:17363447-17363547 9.83e-05
chrV-NC_003076:22997202-22997302 1.05e-04
chrV-NC_003076:15711909-15712009 1.40e-05
chrV-NC_003076:1826857-1826957 9.99e-06
chrV-NC_003076:20011316-20011416 1.48e-04
chrV-NC_003076:23165445-23165545 1.27e-04
chrV-NC_003076:13939328-13939428 1.16e-04
chrV-NC_003076:3833394-3833494 1.74e-04
chrV-NC_003076:2284163-2284263 7.28e-06
chrV-NC_003076:26042706-26042806 3.59e-05
chrV-NC_003076:16563593-16563693 3.32e-06
chrV-NC_003076:23661495-23661595 1.60e-04
chrV-NC_003076:6320620-6320720 5.65e-05
chrV-NC_003076:3865681-3865781 1.40e-05
chrV-NC_003076:22388451-22388551 4.88e-06
chrV-NC_003076:25908024-25908124 2.60e-04
chrV-NC_003076:229782-229882 2.60e-04
chrV-NC_003076:9133297-9133397 5.96e-06
chrV-NC_003076:23785222-23785322 7.71e-05
chrV-NC_003076:26805576-26805676 2.05e-04
chrV-NC_003076:9480415-9480515 6.78e-07
chrV-NC_003076:21669324-21669424 1.74e-04
chrV-NC_003076:7265888-7265988 1.16e-04
chrV-NC_003076:3048856-3048956 3.32e-06
chrV-NC_003076:3864674-3864774 5.96e-06
chrV-NC_003076:792888-792988 7.28e-06
chrV-NC_003076:206021-206121 7.71e-05
chrV-NC_003076:24415567-24415667 4.88e-06
 
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Time 105.7 secs.

Motif 3

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Summary

Sequence Logo

E-value 1.2e-032
Width 10
Sites 93
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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

C[CT][AT][CT]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
chrIII-NC_003074:23155342-23155442 78 3.92e-07 AAACTGCATT CCACTTTGGG AACCAGGTAA
chrIV-NC_003075:17006713-17006813 61 1.06e-06 TCTTGTTGAT CCACTTTTGG TTGTTGATAT
chrI-NC_003070:6916711-6916811 69 1.06e-06 ACACGTTATT CCACTTTTGG CTCCTTTGCT
chrII-NC_003071:19071050-19071150 67 1.06e-06 GCACTAATTT CCACTTTTGG GTAGCTTAAA
chrV-NC_003076:1855815-1855915 48 2.77e-06 ACGAAGGTTA CCATTTTGGG CTAAAAGTTA
chrV-NC_003076:10455505-10455605 42 4.57e-06 TCTAGCTTTT CTACTTTGGG AGATGATAGA
chrIV-NC_003075:9319710-9319810 44 4.57e-06 TTCTGGTTAG CTACTTTGGG ATTAGTTTTT
chrI-NC_003070:26059448-26059548 12 4.57e-06 TTATTCTTTA CCATTTTTGG GTTTGGTCTA
chrII-NC_003071:11871421-11871521 41 4.57e-06 ATTTTTGTTT CTACTTTGGG AAGCTTTCCG
chrII-NC_003071:17808033-17808133 35 4.57e-06 AATCATCGGT CTACTTTGGG AACAAACACA
chrIV-NC_003075:17322266-17322366 88 5.46e-06 TTTCTCTTTT CCTTTTTGGG TC
chrIII-NC_003074:7507408-7507508 42 5.46e-06 TCTTTCTTTC CCTTTTTGGG TGTCATCTCT
chrV-NC_003076:26042706-26042806 27 6.82e-06 TAACATGCTT CTACTTTTGG CAAAGAAAAA
chrI-NC_003070:7142957-7143057 49 6.82e-06 ATGTACCCTT CCACTTCGGG AATCCATTAT
chrII-NC_003071:19013765-19013865 42 6.82e-06 CACTCTCTGT CTACTTTTGG AAATGTTTTA
chrV-NC_003076:1750908-1751008 75 9.67e-06 CTTAATCAAG CCTTTTTTGG TTTCTTTTCA
chrIV-NC_003075:16154659-16154759 56 9.67e-06 CTTCTTCTTT CTTCTTTGGG AATATTTAAC
chrI-NC_003070:4904674-4904774 69 9.67e-06 AGACTTTAGT CCTTTTTTGG TTTCTTGTAA
chrII-NC_003071:18414202-18414302 36 9.67e-06 ACTATTTTTG CCCCTTTTGG CTACTTGACT
chrII-NC_003071:16559073-16559173 51 9.67e-06 AACGAGATTA CCACTTTAGG AAGTGCTATT
chrIII-NC_003074:2048555-2048655 84 9.67e-06 AAAAAAATAT CCCCTTTTGG GCTAGC
chrV-NC_003076:26562589-26562689 44 1.14e-05 TGAATGTTTG CTTCTTTTGG AGTTTGTGGT
chrII-NC_003071:14331359-14331459 41 1.14e-05 TGTTTCCTAT CTTCTTTTGG AAAGTCTCTC
chrI-NC_003070:6174588-6174688 5 1.32e-05 GGTTA CTATTTTGGG CGGGCTCACA
chrI-NC_003070:1188280-1188380 0 1.32e-05 CTATTTTGGG TATGCAAAGT
chrII-NC_003071:1136739-1136839 48 1.40e-05 TTCTTTTGTG CCTCTTCTGG TTTGTAATCT
chrIII-NC_003074:5247210-5247310 49 1.40e-05 TAATTACATT CCTCTTCTGG ATAATAAGTA
chrI-NC_003070:7930462-7930562 18 1.63e-05 ATGAGACTTT CTATTTTTGG GAGTAGAGAT
chrI-NC_003070:3571887-3571987 30 1.96e-05 ATAATAATTT CCATTTTAGG CAAGAAACAA
chrIII-NC_003074:19281001-19281101 39 1.96e-05 ACGGTTACTG CTCCTTTGGG AATAGTAGAT
chrV-NC_003076:23147444-23147544 8 2.20e-05 CCCTTTTA CCACTTTGGT CAATTAGTCT
chrIII-NC_003074:6250572-6250672 50 2.20e-05 CGTTACGCAT CCAATTTGGG TAACCCGAGG
chrIII-NC_003074:1373635-1373735 49 2.20e-05 TTTCTCCCTC CCATTTCTGG TAAAAATTGT
chrV-NC_003076:19273677-19273777 24 2.62e-05 TCACGTGAAC CTCCTTTTGG GGTCCTACTT
chrV-NC_003076:22997202-22997302 33 2.62e-05 CATGACTTGT CTTTTTTTGG TTTCTTCCCA
chrV-NC_003076:23670284-23670384 61 2.62e-05 AAGTAAAACA CTCCTTTTGG GGAAATAAAT
chrII-NC_003071:19298962-19299062 84 2.62e-05 CACAATTAGG CTTTTTTTGG CCAAGT
chrV-NC_003076:21855079-21855179 35 3.07e-05 TATTAATATT CCTTTTTAGG TAAGAAAACA
chrI-NC_003070:10726311-10726411 77 3.07e-05 CGAAAGACTT CCACTTTTGT CCTTTTTTTT
chrII-NC_003071:11925629-11925729 61 3.07e-05 GTTGAAACTG CCACTTTTGT CAGATTTATT
chrI-NC_003070:25228955-25229055 43 3.37e-05 GATGAGTTTA CTTCTTCGGG AAAGTGGTGT
chrII-NC_003071:17446382-17446482 49 3.37e-05 CAATCTTTTA CCTCTTTGGT ATTGAACATT
chrIII-NC_003074:22939535-22939635 45 3.37e-05 TCCTCTTCTG CCTCTTTGGT GATTCTTAGC
chrII-NC_003071:18813111-18813211 59 3.48e-05 ATTATATTCA CTTCTTTAGG TGTTTTTTTT
chrIII-NC_003074:22426168-22426268 33 3.88e-05 CTTGGCTTAT CTTCTTCTGG TTATCTACAC
chrI-NC_003070:19848599-19848699 60 4.10e-05 ACCTTTTTTC CCATTTTGGT TTCATCCTTT
chrIII-NC_003074:5293166-5293266 35 4.10e-05 TGAGAGATTT CTATTTCGGG AAGCTATTTC
chrV-NC_003076:26253392-26253492 49 4.57e-05 GACAACCATC CCCTTTCGGG TGGAGCCAGA
chrV-NC_003076:25504492-25504592 47 4.57e-05 CTGTAAAGTT CTATTTTAGG TAACCCTACA
chrV-NC_003076:4451032-4451132 39 4.57e-05 TACCTTTTTG CCACATTTGG AGGATTTTGT
chrI-NC_003070:9267178-9267278 48 4.57e-05 TTCACGTCAT CTCTTTTTGG AAACTCCAAA
chrV-NC_003076:21045187-21045287 35 5.21e-05 TGTGTATGTG CCCTTTTAGG GCAACAATTA
chrV-NC_003076:26723094-26723194 80 5.21e-05 ACTCCGTATC CCATTTTTGT TTGATACTCA
chrI-NC_003070:5086108-5086208 73 5.73e-05 TACTAGTTTG CCAGTTTTGG AGCCCCAAAC
chrI-NC_003070:3101296-3101396 90 5.73e-05 GGTACTAATC CCATTTCAGG
chrI-NC_003070:3287515-3287615 5 5.73e-05 TATCT CCCATTTGGG TAGTTACGGA
chrIII-NC_003074:5121290-5121390 25 5.73e-05 GCCGCTAAAA CCATTTCAGG CTTTGACTGT
chrV-NC_003076:22388451-22388551 60 6.59e-05 AAAGTGAATG CTAATTTTGG CACGTACCCC
chrIII-NC_003074:8238743-8238843 75 6.59e-05 ATATCATCTT CTAATTTTGG CAGAATCTTT
chrIV-NC_003075:17395836-17395936 72 7.68e-05 CCCCTTTGTC CCTTTTTTGT CATCTCCTTT
chrIII-NC_003074:18809833-18809933 14 7.68e-05 AATGGCAATC CCACTTTAGT GTTTAACCAT
chrIII-NC_003074:22634257-22634357 76 7.68e-05 ACCCCTTGAG CTTTTTCTGG CTTGTGACGG
chrII-NC_003071:18811109-18811209 23 8.78e-05 TCATCCTTTA CTTATTTTGG AAAAAAGCCT
chrIV-NC_003075:17319872-17319972 23 9.42e-05 TTAGAGATTT CCTATTTAGG AAACGAGACG
chrI-NC_003070:5004165-5004265 81 9.42e-05 ACAAGAATTA CCTTATTGGG ATTTGGGAT
chrII-NC_003071:16221745-16221845 68 9.42e-05 CAAAGCTTAT CCTCTTTAGT CTTTACTCTT
chrIII-NC_003074:6158020-6158120 19 9.42e-05 TCAGACTCCT CCTATTTAGG TTTTGACCCA
chrV-NC_003076:17363447-17363547 86 1.00e-04 GGATGTCTCA CCATTTATGG TAAT
chrI-NC_003070:983778-983878 58 1.00e-04 ATAAAACCTT CTACATTTGG TATTGCTACA
chrIII-NC_003074:22328152-22328252 34 1.00e-04 TTTTCTTTAG CTACTTAGGG AATGACGTTT
chrIII-NC_003074:17910006-17910106 43 1.00e-04 TTTGAAGTTT CTACATTTGG AAAATTCAAG
chrIII-NC_003074:20379124-20379224 43 1.10e-04 ATCGGCCTTT CCTTATTTGG TAAGACTAAA
chrV-NC_003076:13936253-13936353 1 1.22e-04 A CTTTTTTGGT CAAACTCTGT
chrV-NC_003076:4984734-4984834 18 1.32e-04 ATAATTTAAT CCAATTTGGT AAGAAGATTT
chrI-NC_003070:772515-772615 71 1.32e-04 CATGCGGCAC CCATTTCTGT GATATCTCAA
chrII-NC_003071:18609166-18609266 43 1.32e-04 TATTTTATTC CCAATTTGGT ATTCTTCTTC
chrIII-NC_003074:4732994-4733094 70 1.32e-04 ACTTAGTCTT CTTCTTAGGG GTATTAGCGT
chrV-NC_003076:8004910-8005010 77 1.46e-04 CAAGAATTTG CCATGTTTGG CTATATAAGT
chrIV-NC_003075:8435496-8435596 43 1.46e-04 TGTTTGTATA CTACTTTAGT CTAGATGGAC
chrI-NC_003070:28366917-28367017 38 1.46e-04 GATCTTTTTA CTATATTGGG TATTTGTGTA
chrII-NC_003071:9523112-9523212 63 1.46e-04 TCTCTTCTTC CTCCTTTTGT CATATTACTT
chrV-NC_003076:26533069-26533169 43 1.60e-04 AAGATTGTTT CCTTGTTGGG GTCCTGGTTC
chrV-NC_003076:6381170-6381270 12 1.60e-04 TTGTCTTTGT CTTGTTTTGG ACTATATAAT
chrV-NC_003076:2939835-2939935 11 1.60e-04 ACCAATCTCA CCTTTTTAGT AACTTGAATT
chrI-NC_003070:8305339-8305439 17 1.60e-04 ATTGACCCAT CCATTTTCGG GCCATGTTTG
chrIII-NC_003074:4146195-4146295 53 1.71e-04 AAAGTAAAAG CTTCTTCGGT CTGGATATTT
chrV-NC_003076:16337674-16337774 40 1.93e-04 TATTGTGTCT CTATTTATGG AAGTGTAAAG
chrV-NC_003076:24507183-24507283 26 1.93e-04 AAAAAGTGGC CTATTTATGG GAAGAGAATC
chrII-NC_003071:14485962-14486062 17 1.93e-04 CGATCTGAGA CCTATTTTGT CTAGAATTGG
chrII-NC_003071:16641452-16641552 6 2.19e-04 GGTCCC CCTTATTAGG CTACATATGT
chrI-NC_003070:567094-567194 32 2.35e-04 CAGTTGTTTA CCCGTTCGGG CATGGTTTGA
chrIV-NC_003075:17397905-17398005 47 2.69e-04 GCAGTAGTTT CCACTTGAGG AAAGCAACAT
chrV-NC_003076:26641454-26641554 19 3.20e-04 AAAAAATTTA TCACTTTTGG GAGAAGTCAA

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_003074:20379124-20379224 1.10e-04
chrIII-NC_003074:5247210-5247310 1.40e-05
chrIII-NC_003074:5121290-5121390 5.73e-05
chrIII-NC_003074:19281001-19281101 1.96e-05
chrIII-NC_003074:22634257-22634357 7.68e-05
chrIII-NC_003074:5293166-5293266 4.10e-05
chrIII-NC_003074:17910006-17910106 1.00e-04
chrIII-NC_003074:23155342-23155442 3.92e-07
chrIII-NC_003074:7507408-7507508 5.46e-06
chrIII-NC_003074:1373635-1373735 2.20e-05
chrIII-NC_003074:8238743-8238843 6.59e-05
chrIII-NC_003074:6158020-6158120 9.42e-05
chrIII-NC_003074:22939535-22939635 3.37e-05
chrIII-NC_003074:18809833-18809933 7.68e-05
chrIII-NC_003074:2048555-2048655 9.67e-06
chrIII-NC_003074:22328152-22328252 1.00e-04
chrIII-NC_003074:22426168-22426268 3.88e-05
chrIII-NC_003074:4146195-4146295 1.71e-04
chrIII-NC_003074:6250572-6250672 2.20e-05
chrIII-NC_003074:4732994-4733094 1.32e-04
chrII-NC_003071:11925629-11925729 3.07e-05
chrII-NC_003071:17446382-17446482 3.37e-05
chrII-NC_003071:19298962-19299062 2.62e-05
chrII-NC_003071:16559073-16559173 9.67e-06
chrII-NC_003071:16641452-16641552 2.19e-04
chrII-NC_003071:19013765-19013865 6.82e-06
chrII-NC_003071:18811109-18811209 8.78e-05
chrII-NC_003071:9523112-9523212 1.46e-04
chrII-NC_003071:18813111-18813211 3.48e-05
chrII-NC_003071:18609166-18609266 1.32e-04
chrII-NC_003071:16221745-16221845 9.42e-05
chrII-NC_003071:19071050-19071150 1.06e-06
chrII-NC_003071:1136739-1136839 1.40e-05
chrII-NC_003071:18414202-18414302 9.67e-06
chrII-NC_003071:17808033-17808133 4.57e-06
chrII-NC_003071:14331359-14331459 1.14e-05
chrII-NC_003071:11871421-11871521 4.57e-06
chrII-NC_003071:14485962-14486062 1.93e-04
chrI-NC_003070:8305339-8305439 1.60e-04
chrI-NC_003070:3287515-3287615 5.73e-05
chrI-NC_003070:10726311-10726411 3.07e-05
chrI-NC_003070:26059448-26059548 4.57e-06
chrI-NC_003070:7142957-7143057 6.82e-06
chrI-NC_003070:1188280-1188380 1.32e-05
chrI-NC_003070:567094-567194 2.35e-04
chrI-NC_003070:3571887-3571987 1.96e-05
chrI-NC_003070:4904674-4904774 9.67e-06
chrI-NC_003070:772515-772615 1.32e-04
chrI-NC_003070:7930462-7930562 1.63e-05
chrI-NC_003070:3101296-3101396 5.73e-05
chrI-NC_003070:9267178-9267278 4.57e-05
chrI-NC_003070:5086108-5086208 5.73e-05
chrI-NC_003070:25228955-25229055 3.37e-05
chrI-NC_003070:19848599-19848699 4.10e-05
chrI-NC_003070:983778-983878 1.00e-04
chrI-NC_003070:28366917-28367017 1.46e-04
chrI-NC_003070:5004165-5004265 9.42e-05
chrI-NC_003070:6916711-6916811 1.06e-06
chrI-NC_003070:6174588-6174688 1.32e-05
chrIV-NC_003075:17395836-17395936 7.68e-05
chrIV-NC_003075:17397905-17398005 2.69e-04
chrIV-NC_003075:17322266-17322366 5.46e-06
chrIV-NC_003075:17006713-17006813 1.06e-06
chrIV-NC_003075:9319710-9319810 4.57e-06
chrIV-NC_003075:8435496-8435596 1.46e-04
chrIV-NC_003075:16154659-16154759 9.67e-06
chrIV-NC_003075:17319872-17319972 9.42e-05
chrV-NC_003076:26723094-26723194 5.21e-05
chrV-NC_003076:1750908-1751008 9.67e-06
chrV-NC_003076:1855815-1855915 2.77e-06
chrV-NC_003076:17363447-17363547 1.00e-04
chrV-NC_003076:8004910-8005010 1.46e-04
chrV-NC_003076:23670284-23670384 2.62e-05
chrV-NC_003076:22997202-22997302 2.62e-05
chrV-NC_003076:10455505-10455605 4.57e-06
chrV-NC_003076:4984734-4984834 1.32e-04
chrV-NC_003076:24507183-24507283 1.93e-04
chrV-NC_003076:26562589-26562689 1.14e-05
chrV-NC_003076:16337674-16337774 1.93e-04
chrV-NC_003076:4451032-4451132 4.57e-05
chrV-NC_003076:2939835-2939935 1.60e-04
chrV-NC_003076:26042706-26042806 6.82e-06
chrV-NC_003076:6381170-6381270 1.60e-04
chrV-NC_003076:26533069-26533169 1.60e-04
chrV-NC_003076:25504492-25504592 4.57e-05
chrV-NC_003076:13936253-13936353 1.22e-04
chrV-NC_003076:22388451-22388551 6.59e-05
chrV-NC_003076:21045187-21045287 5.21e-05
chrV-NC_003076:26253392-26253492 4.57e-05
chrV-NC_003076:21855079-21855179 3.07e-05
chrV-NC_003076:19273677-19273777 2.62e-05
chrV-NC_003076:23147444-23147544 2.20e-05
chrV-NC_003076:26641454-26641554 3.20e-04
 
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Time 148.1 secs.

Motif 4

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Summary

Sequence Logo

E-value 6.6e-018
Width 10
Sites 52
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PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

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

Regular expression

[GA]AGA[GA]AGAGA

Further Analysis

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Data Formats

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

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:3613569-3613669 18 6.83e-07 GAGAGTGAGT GAGAGAGAGA GAGAAGGCGT
chrV-NC_003076:2123676-2123776 61 6.83e-07 GGATCCATAG GAGAGAGAGA TAGACATAAA
chrV-NC_003076:26138594-26138694 68 6.83e-07 GAAAGAGAGT GAGAGAGAGA CAAATATACA
chrV-NC_003076:17363447-17363547 33 6.83e-07 AATGGAAATA GAGAGAGAGA AAAGAGTAAA
chrIV-NC_003075:17780864-17780964 4 6.83e-07 GAAA GAGAGAGAGA GAGAGACAGA
chrI-NC_003070:8727068-8727168 83 6.83e-07 AAGAGGTACT GAGAGAGAGA GAGAGAG
chrII-NC_003071:432261-432361 87 6.83e-07 GAGAGAGCTA GAGAGAGAGA GAC
chrII-NC_003071:893522-893622 70 6.83e-07 GAAAAGAGAA GAGAGAGAGA GATAAAATCT
chrIII-NC_003074:18809833-18809933 71 6.83e-07 AAAATAGATA GAGAGAGAGA GAGAATGAGT
chrIII-NC_003074:7211460-7211560 50 6.83e-07 TGCAGACAAT GAGAGAGAGA GAGATAGTAC
chrIII-NC_003074:20587440-20587540 12 6.83e-07 ACGAGTGATA GAGAGAGAGA TGAAGGAGCT
chrIII-NC_003074:4161767-4161867 80 1.37e-06 AAGAATCCAA GAGAGACAGA TAGAGAAGAA
chrV-NC_003076:3515115-3515215 72 3.21e-06 GGCATCAGAA GAGAAAGAGA CATGTCGACC
chrI-NC_003070:9267178-9267278 9 5.54e-06 GAAAATTGA GAGAGATAGA CTTTACTGTT
chrIII-NC_003074:4146195-4146295 25 5.54e-06 GACTTTGTGG AAGAGAGAGA AAACAAAAAA
chrV-NC_003076:20898801-20898901 5 7.30e-06 TGTAT GTGAGAGAGA GTACATACGT
chrV-NC_003076:10455505-10455605 56 8.46e-06 TTTGGGAGAT GATAGAGAGA CAATACACAA
chrI-NC_003070:20762967-20763067 46 8.46e-06 TACATATAGT GATAGAGAGA ATCCTTTCAC
chrIII-NC_003074:22426168-22426268 78 8.46e-06 TCGGGGAAGA GATAGAGAGA GTAAGGTCAA
chrI-NC_003070:28236993-28237093 8 9.54e-06 CTGTAAGT GAGACACAGA TCCGTCTTTC
chrV-NC_003076:3864674-3864774 58 1.07e-05 AAAGTGGAAA GAGAAACAGA GTTTGAGTAT
chrII-NC_003071:17819844-17819944 37 1.07e-05 TGATTCTGAT GAGAAACAGA GCCCATACCT
chrI-NC_003070:7384592-7384692 7 1.60e-05 AGTAAAA AAGACAGAGA CACTCACTGC
chrIV-NC_003075:16689620-16689720 13 2.10e-05 GTGAAAAGAA AAGAAAGAGA AAAATAAAGA
chrIV-NC_003075:17002611-17002711 0 2.10e-05 GAGAAATAGA TTTGATGGAG
chrI-NC_003070:10978109-10978209 90 2.10e-05 ACCTACACTA GACACAGAGA
chrI-NC_003070:20186963-20187063 17 2.10e-05 AAAATGAGAG AAGAAAGAGA AAAATAAAAA
chrI-NC_003070:11621892-11621992 9 2.10e-05 GAAAGGAAT AAGAAAGAGA TGTCTCTTGA
chrIII-NC_003074:7789683-7789783 64 2.10e-05 AGAATCAAGA AAGAAAGAGA GCTAGAATCT
chrI-NC_003070:28189210-28189310 6 2.22e-05 GTGTCA GACAAAGAGA CCTGAATTAG
chrI-NC_003070:19848599-19848699 2 2.50e-05 AC AAGAGATAGA AAGAAATAGA
chrII-NC_003071:14343671-14343771 36 2.50e-05 AGAGGAGGAA GAGACAGGGA ACAGAATGGC
chrIV-NC_003075:17397905-17398005 4 2.98e-05 GGTA GAGAGAGAAA TAGTGGGACA
chrII-NC_003071:8692385-8692485 3 2.98e-05 AAT GACAGATAGA GAAGACGATG
chrI-NC_003070:10679066-10679166 33 3.05e-05 AACGGTCAAA GTGACAGAGA AACGTAATGC
chrV-NC_003076:23218219-23218319 81 3.35e-05 GAAAAAAAGT GAGTGAGAGA AGAAGATTA
chrIV-NC_003075:9249999-9250099 28 3.64e-05 ATGGTCCGAG GAGAGATGGA CATTAGTCTT
chrIV-NC_003075:13193728-13193828 87 3.92e-05 AGATTAGAGA GAGGCAGAGA GGT
chrI-NC_003070:26727714-26727814 6 4.33e-05 CAAAAA GTGAGATAGA ATGGTAAAGA
chrII-NC_003071:9577581-9577681 4 4.40e-05 ATGT GTCAGAGAGA GTGTGTAGTG
chrV-NC_003076:566586-566686 65 4.86e-05 CTAAAAACAT GATAGATAGA GTAAATGCCT
chrIII-NC_003074:19281001-19281101 20 4.86e-05 TGCTGCAGGT GAGAGACTGA CGGTTACTGC
chrV-NC_003076:3242335-3242435 26 5.22e-05 GACAGAGTGG GGGAGACAGA ATAGGAGGAT
chrI-NC_003070:5513978-5514078 12 5.22e-05 CACAGAACCA AAGACACAGA TGGACTTTTC
chrIII-NC_003074:20583648-20583748 9 5.99e-05 GTATACGAG GAGACAGAGG AAGAGGCTGA
chrII-NC_003071:12941145-12941245 67 6.42e-05 AAAAAGGGCA GAGAGATTGA GAAGTTCCAA
chrV-NC_003076:21793629-21793729 64 9.03e-05 TAAACCTTGA GACAAATAGA AAGACGTTCT
chrI-NC_003070:11630791-11630891 18 9.03e-05 AAAGAGAAAA GAGAAAGAAA TTGAAAATAA
chrIII-NC_003074:20585781-20585881 2 9.35e-05 TG AAGAGACGGA TGTGACAATA
chrV-NC_003076:18947037-18947137 14 1.39e-04 TGTGCGGTCC AAGGGACAGA GCATATAAAA
chrIV-NC_003075:14815782-14815882 84 1.53e-04 TAAAAAGAGT AATAAAGAGA TGACGT
chrI-NC_003070:27484286-27484386 38 1.69e-04 ATCGTTGGTA TACAGAGAGA CCAAACATCT

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_003074:20587440-20587540 6.83e-07
chrIII-NC_003074:7211460-7211560 6.83e-07
chrIII-NC_003074:19281001-19281101 4.86e-05
chrIII-NC_003074:20583648-20583748 5.99e-05
chrIII-NC_003074:7789683-7789783 2.10e-05
chrIII-NC_003074:20585781-20585881 9.35e-05
chrIII-NC_003074:18809833-18809933 6.83e-07
chrIII-NC_003074:4161767-4161867 1.37e-06
chrIII-NC_003074:22426168-22426268 8.46e-06
chrIII-NC_003074:4146195-4146295 5.54e-06
chrII-NC_003071:17819844-17819944 1.07e-05
chrII-NC_003071:9577581-9577681 4.40e-05
chrII-NC_003071:893522-893622 6.83e-07
chrII-NC_003071:432261-432361 6.83e-07
chrII-NC_003071:14343671-14343771 2.50e-05
chrII-NC_003071:12941145-12941245 6.42e-05
chrII-NC_003071:8692385-8692485 2.98e-05
chrI-NC_003070:11621892-11621992 2.10e-05
chrI-NC_003070:20762967-20763067 8.46e-06
chrI-NC_003070:20186963-20187063 2.10e-05
chrI-NC_003070:28189210-28189310 2.22e-05
chrI-NC_003070:7384592-7384692 1.60e-05
chrI-NC_003070:5513978-5514078 5.22e-05
chrI-NC_003070:10679066-10679166 3.05e-05
chrI-NC_003070:8727068-8727168 6.83e-07
chrI-NC_003070:10978109-10978209 2.10e-05
chrI-NC_003070:9267178-9267278 5.54e-06
chrI-NC_003070:26727714-26727814 4.33e-05
chrI-NC_003070:19848599-19848699 2.50e-05
chrI-NC_003070:28236993-28237093 9.54e-06
chrI-NC_003070:27484286-27484386 1.69e-04
chrI-NC_003070:11630791-11630891 9.03e-05
chrIV-NC_003075:17002611-17002711 2.10e-05
chrIV-NC_003075:16689620-16689720 2.10e-05
chrIV-NC_003075:9249999-9250099 3.64e-05
chrIV-NC_003075:13193728-13193828 3.92e-05
chrIV-NC_003075:17397905-17398005 2.98e-05
chrIV-NC_003075:14815782-14815882 1.53e-04
chrIV-NC_003075:17780864-17780964 6.83e-07
chrV-NC_003076:21793629-21793729 9.03e-05
chrV-NC_003076:566586-566686 4.86e-05
chrV-NC_003076:20898801-20898901 7.30e-06
chrV-NC_003076:17363447-17363547 6.83e-07
chrV-NC_003076:3515115-3515215 3.21e-06
chrV-NC_003076:10455505-10455605 8.46e-06
chrV-NC_003076:26138594-26138694 6.83e-07
chrV-NC_003076:2123676-2123776 6.83e-07
chrV-NC_003076:18947037-18947137 1.39e-04
chrV-NC_003076:3242335-3242435 5.22e-05
chrV-NC_003076:3613569-3613669 6.83e-07
chrV-NC_003076:23218219-23218319 3.35e-05
chrV-NC_003076:3864674-3864774 1.07e-05
 
0
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60
80
100

Time 189.9 secs.

Motif 5

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Summary

Sequence Logo

E-value 1.1e+002
Width 10
Sites 61
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

AA[AG]AG[ATG][AG]AA[AG]

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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     Raw Format 
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Sites

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrV-NC_003076:3613569-3613669 43 3.16e-06 GGCGTGAGAG AAAAGGAAAG GATTTGTGTG
chrII-NC_003071:18801878-18801978 25 3.16e-06 ATTAAAAAAG AAAAGGAAAG ATTACTACAA
chrV-NC_003076:18000368-18000468 69 1.93e-05 CTAATAATGA AAAAGTGAAG AGACTAGACA
chrI-NC_003070:28183872-28183972 69 1.93e-05 AAATGATCAA AAAAGGAAAA CGAGGGCCAC
chrI-NC_003070:27363804-27363904 26 1.93e-05 AAAAAAGTTG AAAAGGAAAA CATTTATAGG
chrI-NC_003070:19762335-19762435 35 1.93e-05 CCAAAACTTA AAAAGAGAAG ATCTTTAGGA
chrII-NC_003071:8692385-8692485 56 1.93e-05 CCCAAATGGC AAAAGAAAAG TTCCTTACCT
chrIII-NC_003074:4161767-4161867 12 1.93e-05 ATTCGAAGAG AAAAGAGAAG TGGGGACAAA
chrIII-NC_003074:23458918-23459018 37 1.93e-05 ATCCATGGAT AAAAGAGAAG AAAAGACAAA
chrV-NC_003076:15871704-15871804 7 3.95e-05 AGAATTG AAAAGAAAAA ATAGTACATT
chrV-NC_003076:26837938-26838038 27 3.95e-05 AGTAACAGTA AAAAGTAAAA AGTATCTCTC
chrV-NC_003076:16563593-16563693 58 3.95e-05 AAAAATGGCA AAAAGTAAAA AAGATTTCCA
chrV-NC_003076:1279542-1279642 14 3.95e-05 CGGAAGGTAA AAAAGTAAAA AACACAATTA
chrIV-NC_003075:17322266-17322366 41 3.95e-05 TAGTGACCCT AAAAGTAAAA GCTTTAATAA
chrI-NC_003070:11630791-11630891 7 3.95e-05 GAAAATG AAAAGAGAAA AGAGAAAGAA
chrI-NC_003070:25319703-25319803 75 3.95e-05 ATCCTGTCCG AAAAGTGAAA ACTAACACAA
chrI-NC_003070:13228453-13228553 64 3.95e-05 AAAAACAGCA AAAAGTAAAA ATAAAAATTC
chrI-NC_003070:25022250-25022350 57 3.95e-05 GGGAGTTTAA AAAAGTGAAA GGAGACAAAA
chrI-NC_003070:4904674-4904774 13 3.95e-05 TGAACAAAAA AAAAGAAAAA AGGAAGGCTT
chrI-NC_003070:25682284-25682384 72 3.95e-05 CCGAAGCTAC AAAAGAAAAA TGTCCAATCA
chrII-NC_003071:14735538-14735638 66 3.95e-05 CCAAAACGGG AAAAGAAAAA GATAAAAGAG
chrV-NC_003076:23661495-23661595 27 4.90e-05 TGTTGTACGG AAGAGGAAAA AAAATAAACC
chrV-NC_003076:17363447-17363547 44 4.90e-05 AGAGAGAGAA AAGAGTAAAG TAGCAAAATC
chrIV-NC_003075:17398887-17398987 11 4.90e-05 TGGTGGATGG AAGAGGGAAA AAGTGGACCC
chrI-NC_003070:4600560-4600660 66 4.90e-05 TTGTTTAAAT AAGAGGGAAA CGGGTAAGTA
chrI-NC_003070:11446219-11446319 68 4.90e-05 CAAAGCCTTC AAGAGGAAAA TAAAGCAGAA
chrII-NC_003071:17791516-17791616 60 4.90e-05 CACATGAGGA AAGAGTAAAG CAGAAAGACT
chrII-NC_003071:17809800-17809900 42 4.90e-05 GGTATGATAA AAGAGTGAAG ACTTAGAAGA
chrI-NC_003070:7515017-7515117 15 6.16e-05 AGACTATCAG AAGAGTGAAA TGATGATGAC
chrIV-NC_003075:15054453-15054553 14 7.61e-05 CAACTGCAAG AAAAGTGGAG TTTGTTTTGC
chrIV-NC_003075:11604849-11604949 72 7.61e-05 CGTAAGAAAA AAAAGGAGAA ATTTTACTCG
chrIV-NC_003075:10382476-10382576 21 7.61e-05 CTTTCACATG AAAAGCAAAG ACAAGTAATG
chrIV-NC_003075:13193728-13193828 59 7.61e-05 TCCTACAGAA AAAAGAAGAG AACATTTAAG
chrI-NC_003070:11033867-11033967 2 7.61e-05 AC AAAAGCGAAG CCTCTTGAGT
chrII-NC_003071:519724-519824 17 7.61e-05 GAGTTTCGTA AAAAGGGGAA CCTGCAAAGT
chrV-NC_003076:5863206-5863306 13 1.03e-04 ATAAAAGACC AAAAGCAAAA AGATTCCGCT
chrV-NC_003076:3515115-3515215 1 1.03e-04 A AAAAGTAGAA AAGAGTATAA
chrI-NC_003070:28236993-28237093 76 1.03e-04 AGTAGAGTAA GAAAGTGAAG CATGGGAAGA
chrII-NC_003071:15009657-15009757 18 1.03e-04 AAAAAGCGTG AAAAGAAGAA GGAACGTACA
chrII-NC_003071:13276569-13276669 6 1.03e-04 TTTACT GAAAGTGAAG ACCAGCCTAT
chrII-NC_003071:9523112-9523212 12 1.03e-04 GTGGGATTAG GAAAGAAAAG ATGTATATGA
chrII-NC_003071:893522-893622 18 1.03e-04 CGCAATGATC AAAAGCAAAA TCGAGCTTCG
chrI-NC_003070:9269999-9270099 14 1.22e-04 AAAATGAAAT GAAAGAAAAA GCTGTCTGAG
chrI-NC_003070:26727714-26727814 22 1.22e-04 TAGAATGGTA AAGAGAAGAG AGTGCTTTCG
chrII-NC_003071:14343671-14343771 23 1.22e-04 ATGTGTCAAA AAGAGAGGAG GAAGAGACAG
chrII-NC_003071:15099969-15100069 39 1.22e-04 GCCGTGTTAG GAGAGGGAAG TGGCGCGTGA
chrII-NC_003071:17819844-17819944 77 1.22e-04 CTCTAAACAT GAAAGAAAAA TTGGATGGTC
chrIII-NC_003074:17910006-17910106 90 1.22e-04 ACCAACCTAG AAGAGTAGAG
chrV-NC_003076:7256699-7256799 66 1.24e-04 GTTTTCTATT AAAGGGAAAG AAATAAAGTT
chrI-NC_003070:9778055-9778155 17 1.24e-04 TTTAACGTAT AAAGGGAAAG TTAGTTCAAA
chrI-NC_003070:10726311-10726411 63 1.42e-04 ATGGTTTAAG AAAACGAAAG ACTTCCACTT
chrIII-NC_003074:23155342-23155442 26 1.42e-04 ATCAGACATC AAGAGAGGAA ACATAACTCC
chrII-NC_003071:12774547-12774647 48 1.51e-04 TCCTTTTCCT AAAGGGGAAA TACAAAAGGA
chrV-NC_003076:26253392-26253492 3 1.79e-04 TTA AAAACAAAAG GATAGAATCG
chrII-NC_003071:432261-432361 31 1.79e-04 TCAAGTGTAT GAGAGAGAAA TAGGTTTTTG
chrIII-NC_003074:6250572-6250672 76 1.79e-04 GAGGCTACAT AAAACTGAAG CGTCCCGTCA
chrI-NC_003070:54911-55011 46 1.90e-04 AGTGAGCTTA AAAGGTAAAA AAGCTGCAAC
chrV-NC_003076:1395582-1395682 3 2.31e-04 AGA AAAAGGACAA TTCTTTATTT
chrV-NC_003076:23785222-23785322 76 2.31e-04 AAATGGAAAG AAAACTAAAA TCAGAAACCA
chrIV-NC_003075:630489-630589 44 2.31e-04 TCTATTACCA AAAACAGAAA GTTTCCCACC
chrII-NC_003071:17584835-17584935 31 2.70e-04 AAGCTAAACA AAAAGAACAA ATCAAAACCT

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_003074:17910006-17910106 1.22e-04
chrIII-NC_003074:23155342-23155442 1.42e-04
chrIII-NC_003074:23458918-23459018 1.93e-05
chrIII-NC_003074:4161767-4161867 1.93e-05
chrIII-NC_003074:6250572-6250672 1.79e-04
chrII-NC_003071:18801878-18801978 3.16e-06
chrII-NC_003071:17584835-17584935 2.70e-04
chrII-NC_003071:17819844-17819944 1.22e-04
chrII-NC_003071:14735538-14735638 3.95e-05
chrII-NC_003071:893522-893622 1.03e-04
chrII-NC_003071:432261-432361 1.79e-04
chrII-NC_003071:15099969-15100069 1.22e-04
chrII-NC_003071:12774547-12774647 1.51e-04
chrII-NC_003071:9523112-9523212 1.03e-04
chrII-NC_003071:17809800-17809900 4.90e-05
chrII-NC_003071:14343671-14343771 1.22e-04
chrII-NC_003071:519724-519824 7.61e-05
chrII-NC_003071:13276569-13276669 1.03e-04
chrII-NC_003071:17791516-17791616 4.90e-05
chrII-NC_003071:15009657-15009757 1.03e-04
chrII-NC_003071:8692385-8692485 1.93e-05
chrI-NC_003070:11446219-11446319 4.90e-05
chrI-NC_003070:19762335-19762435 1.93e-05
chrI-NC_003070:25682284-25682384 3.95e-05
chrI-NC_003070:10726311-10726411 1.42e-04
chrI-NC_003070:4904674-4904774 3.95e-05
chrI-NC_003070:54911-55011 1.90e-04
chrI-NC_003070:25022250-25022350 3.95e-05
chrI-NC_003070:11033867-11033967 7.61e-05
chrI-NC_003070:7515017-7515117 6.16e-05
chrI-NC_003070:4600560-4600660 4.90e-05
chrI-NC_003070:27363804-27363904 1.93e-05
chrI-NC_003070:13228453-13228553 3.95e-05
chrI-NC_003070:9778055-9778155 1.24e-04
chrI-NC_003070:26727714-26727814 1.22e-04
chrI-NC_003070:28183872-28183972 1.93e-05
chrI-NC_003070:25319703-25319803 3.95e-05
chrI-NC_003070:9269999-9270099 1.22e-04
chrI-NC_003070:28236993-28237093 1.03e-04
chrI-NC_003070:11630791-11630891 3.95e-05
chrIV-NC_003075:630489-630589 2.31e-04
chrIV-NC_003075:17398887-17398987 4.90e-05
chrIV-NC_003075:13193728-13193828 7.61e-05
chrIV-NC_003075:17322266-17322366 3.95e-05
chrIV-NC_003075:10382476-10382576 7.61e-05
chrIV-NC_003075:11604849-11604949 7.61e-05
chrIV-NC_003075:15054453-15054553 7.61e-05
chrV-NC_003076:17363447-17363547 4.90e-05
chrV-NC_003076:3515115-3515215 1.03e-04
chrV-NC_003076:1279542-1279642 3.95e-05
chrV-NC_003076:7256699-7256799 1.24e-04
chrV-NC_003076:18000368-18000468 1.93e-05
chrV-NC_003076:16563593-16563693 3.95e-05
chrV-NC_003076:23661495-23661595 4.90e-05
chrV-NC_003076:26253392-26253492 1.79e-04
chrV-NC_003076:26837938-26838038 3.95e-05
chrV-NC_003076:23785222-23785322 2.31e-04
chrV-NC_003076:15871704-15871804 3.95e-05
chrV-NC_003076:3613569-3613669 3.16e-06
chrV-NC_003076:5863206-5863306 1.03e-04
chrV-NC_003076:1395582-1395682 2.31e-04
 
0
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100

Time 230.2 secs.

Motif 6

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Summary

Sequence Logo

E-value 5.6e+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[TA]CC

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_003076:5227509-5227609 66 2.31e-07 CACGTGGACG TGGACCGTCC ATGAAATATA
chrII-NC_003071:18635619-18635719 52 2.31e-07 AGCATGTTTA TGGACCGTCC AGGCTCCTCG
chrV-NC_003076:2234877-2234977 38 4.64e-07 TAGCTTAATA TGGACCGACC GTATCTTCTT
chrI-NC_003070:11067773-11067873 70 4.64e-07 TACGAAGATG TGGACCGACC ATGTGCTTTT
chrV-NC_003076:7695385-7695485 45 6.93e-07 TATAGTTCAC TGGTCCGTCC AATGCAATCT
chrV-NC_003076:17550113-17550213 27 1.09e-06 GAAATGAATC TAGACCGTCC TCTAAAATCA

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_003071:18635619-18635719 2.31e-07
chrI-NC_003070:11067773-11067873 4.64e-07
chrV-NC_003076:7695385-7695485 6.93e-07
chrV-NC_003076:2234877-2234977 4.64e-07
chrV-NC_003076:17550113-17550213 1.09e-06
chrV-NC_003076:5227509-5227609 2.31e-07
 
0
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100

Time 270 secs.

Motif 7

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Summary

Sequence Logo

E-value 1.8e+003
Width 10
Sites 17
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

G[AG]CACGTG[TA]C

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_003076:3396241-3396341 23 3.95e-07 TACCGAAGCT GACACGTGTC ACGTAAAGCA
chrI-NC_003070:27596186-27596286 69 3.95e-07 GGTTTGTGAC GACACGTGTC TACTATCATT
chrII-NC_003071:18414202-18414302 0 6.26e-07 GGCACGTGTC ATCTCGTATG
chrV-NC_003076:9133297-9133397 36 1.02e-06 ACCCCATTAC GACACGTGAC AGGCTGGGCA
chrII-NC_003071:18922556-18922656 80 1.65e-06 TTGGTAAATT CACACGTGTC TCATCGTCAT
chrIV-NC_003075:13686062-13686162 1 3.57e-06 C GGCACGTGTA AAGAAGAACC
chrIV-NC_003075:17002611-17002711 44 5.15e-06 ATATAGTGCT GACACCTGTC CAATCCCCTG
chrI-NC_003070:6174588-6174688 65 5.15e-06 GGGACTGTTG GACAGGTGTC AAAGGTTCCG
chrII-NC_003071:17809800-17809900 4 5.97e-06 CAGA GACACGTGAA CAATCAGAAT
chrV-NC_003076:21763572-21763672 90 6.87e-06 AAGAGGAAAT GACACGTGTT
chrIII-NC_003074:9969304-9969404 11 7.54e-06 CGTACGATTA TACACGTGTC GGTTGTGAAA
chrV-NC_003076:3508558-3508658 76 1.02e-05 AAGTTTACTT GACACATGTC TCTACTCTTT
chrV-NC_003076:10649957-10650057 85 1.02e-05 AGAAGAGGAG GTCACGTGAC GAGTC
chrI-NC_003070:26581149-26581249 14 1.02e-05 TCAGAAAGGT GATACGTGTC GTGACTCAGG
chrII-NC_003071:15099969-15100069 50 1.23e-05 AGAGGGAAGT GGCGCGTGAC GTAAGACCTA
chrII-NC_003071:16221745-16221845 11 1.49e-05 ACGTAGGATA CACACGTGTA CATCAAATCT
chrI-NC_003070:10693148-10693248 18 1.76e-05 AGTTGGAGAT GGGACGTGAC ATAATACTAA

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_003074:9969304-9969404 7.54e-06
chrII-NC_003071:15099969-15100069 1.23e-05
chrII-NC_003071:16221745-16221845 1.49e-05
chrII-NC_003071:17809800-17809900 5.97e-06
chrII-NC_003071:18414202-18414302 6.26e-07
chrII-NC_003071:18922556-18922656 1.65e-06
chrI-NC_003070:10693148-10693248 1.76e-05
chrI-NC_003070:27596186-27596286 3.95e-07
chrI-NC_003070:26581149-26581249 1.02e-05
chrI-NC_003070:6174588-6174688 5.15e-06
chrIV-NC_003075:17002611-17002711 5.15e-06
chrIV-NC_003075:13686062-13686162 3.57e-06
chrV-NC_003076:21763572-21763672 6.87e-06
chrV-NC_003076:3396241-3396341 3.95e-07
chrV-NC_003076:10649957-10650057 1.02e-05
chrV-NC_003076:3508558-3508658 1.02e-05
chrV-NC_003076:9133297-9133397 1.02e-06
 
0
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40
60
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100

Time 309.8 secs.

Motif 8

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Summary

Sequence Logo

E-value 5.9e+004
Width 10
Sites 3
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

GGGCT[GT]AGGC

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_003076:5863206-5863306 57 1.36e-07 TGGCATGTGG GGGCTGAGGC AATTGCGTGT
chrII-NC_003071:15009657-15009757 78 1.36e-07 TAGAAATGGT GGGCTGAGGC ACACGTGCTA
chrIV-NC_003075:13854244-13854344 8 3.67e-07 TAAGTTTT GGGCTTAGGC CCAAATCGTG

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_003071:15009657-15009757 1.36e-07
chrIV-NC_003075:13854244-13854344 3.67e-07
chrV-NC_003076:5863206-5863306 1.36e-07
 
0
20
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60
80
100

Time 349.4 secs.

Motif 9

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Summary

Sequence Logo

E-value 7.9e+005
Width 8
Sites 2
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

CGTGCCGG

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
chrI-NC_003070:5443879-5443979 25 2.33e-06 TTATGGCTTG CGTGCCGG TTCAGTTACA
chrI-NC_003070:11446219-11446319 36 2.33e-06 TAACCCCACT CGTGCCGG CTTCCTAAAT

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
chrI-NC_003070:11446219-11446319 2.33e-06
chrI-NC_003070:5443879-5443979 2.33e-06
 
0
20
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60
80
100

Time 389.2 secs.

Motif 10

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Summary

Sequence Logo

E-value 9.0e+005
Width 9
Sites 2
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PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide
StandardReverse Complement

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

Regular expression

GCCACGTGG

Further Analysis

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Data Formats

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

Click on any row to highlight sequence in all motifs.

Name Start p-value Sites
chrIV-NC_003075:13013959-13014059 67 7.36e-07 CTTACAAAAA GCCACGTGG ACTGATCGAT
chrIV-NC_003075:13016297-13016397 32 7.36e-07 CTCTGTGAAT GCCACGTGG ATAAGAAACA

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
chrIV-NC_003075:13016297-13016397 7.36e-07
chrIV-NC_003075:13013959-13014059 7.36e-07
 
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Time 429.1 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_003074:20606546-20606646 1.73e-02
chrIII-NC_003074:20587440-20587540 1.93e-02
chrIII-NC_003074:9959818-9959918 1.33e-01
chrIII-NC_003074:5247210-5247310 6.97e-02
chrIII-NC_003074:5121290-5121390 1.21e-04
chrIII-NC_003074:7211460-7211560 7.85e-03
chrIII-NC_003074:19281001-19281101 1.45e-02
chrIII-NC_003074:4606048-4606148 5.33e-02
chrIII-NC_003074:19168233-19168333 1.80e-02
chrIII-NC_003074:22634257-22634357 2.19e-02
chrIII-NC_003074:5293166-5293266 2.76e-02
chrIII-NC_003074:467781-467881 1.43e-02
chrIII-NC_003074:7989294-7989394 3.80e-02
chrIII-NC_003074:9812872-9812972 5.24e-02
chrIII-NC_003074:1216726-1216826 1.45e-01
chrIII-NC_003074:21177373-21177473 2.37e-02
chrIII-NC_003074:20583648-20583748 1.04e-03
chrIII-NC_003074:7789683-7789783 6.63e-04
chrIII-NC_003074:23155342-23155442 1.34e-03
chrIII-NC_003074:7297913-7298013 6.48e-02
chrIII-NC_003074:23458918-23459018 6.75e-02
chrIII-NC_003074:20585781-20585881 5.07e-02
chrIII-NC_003074:7507408-7507508 9.20e-04
chrIII-NC_003074:1373635-1373735 4.49e-03
chrIII-NC_003074:8238743-8238843 3.04e-02
chrIII-NC_003074:9969304-9969404 1.82e-03
chrIII-NC_003074:6158020-6158120 4.74e-01
chrIII-NC_003074:22939535-22939635 1.02e-01
chrIII-NC_003074:1136472-1136572 3.80e-01
chrIII-NC_003074:21233546-21233646 6.90e-02
chrIII-NC_003074:18809833-18809933 4.17e-04
chrIII-NC_003074:5299080-5299180 4.03e-01
chrIII-NC_003074:5222133-5222233 6.33e-01
chrIII-NC_003074:5954468-5954568 1.47e-02
chrIII-NC_003074:6780452-6780552 3.08e-02
chrIII-NC_003074:2048555-2048655 5.44e-03
chrIII-NC_003074:4161767-4161867 3.46e-04
chrIII-NC_003074:3098128-3098228 1.22e-03
chrIII-NC_003074:22426168-22426268 1.39e-03
chrIII-NC_003074:18038275-18038375 1.78e-01
chrIII-NC_003074:4146195-4146295 2.64e-04
chrIII-NC_003074:6250572-6250672 1.12e-03
chrIII-NC_003074:5236746-5236846 3.20e-02
chrIII-NC_003074:4732994-4733094 3.53e-03
chrII-NC_003071:11925629-11925729 2.34e-01
chrII-NC_003071:18801878-18801978 4.27e-03
chrII-NC_003071:17819844-17819944 2.10e-07
chrII-NC_003071:7940337-7940437 3.18e-02
chrII-NC_003071:17446382-17446482 4.18e-02
chrII-NC_003071:19298962-19299062 6.52e-03
chrII-NC_003071:14735538-14735638 2.07e-02
chrII-NC_003071:9577581-9577681 2.10e-02
chrII-NC_003071:15784393-15784493 6.37e-01
chrII-NC_003071:893522-893622 1.68e-03
chrII-NC_003071:8430434-8430534 1.47e-03
chrII-NC_003071:18635619-18635719 1.38e-03
chrII-NC_003071:8340177-8340277 1.57e-03
chrII-NC_003071:432261-432361 2.14e-03
chrII-NC_003071:16559073-16559173 3.17e-01
chrII-NC_003071:15206977-15207077 4.48e-03
chrII-NC_003071:19013765-19013865 1.41e-01
chrII-NC_003071:15099969-15100069 1.66e-04
chrII-NC_003071:12774547-12774647 4.14e-03
chrII-NC_003071:17743078-17743178 1.71e-02
chrII-NC_003071:18811109-18811209 8.02e-03
chrII-NC_003071:9580157-9580257 1.04e-01
chrII-NC_003071:15690357-15690457 1.83e-01
chrII-NC_003071:9037903-9038003 3.54e-04
chrII-NC_003071:9523112-9523212 2.66e-04
chrII-NC_003071:18813111-18813211 2.29e-01
chrII-NC_003071:14645113-14645213 8.49e-02
chrII-NC_003071:999336-999436 2.29e-02
chrII-NC_003071:16221745-16221845 2.22e-03
chrII-NC_003071:17809800-17809900 1.12e-02
chrII-NC_003071:436677-436777 9.67e-02
chrII-NC_003071:19071050-19071150 1.28e-01
chrII-NC_003071:1136739-1136839 8.37e-02
chrII-NC_003071:18414202-18414302 3.75e-04
chrII-NC_003071:383333-383433 1.56e-02
chrII-NC_003071:14343671-14343771 2.80e-02
chrII-NC_003071:519724-519824 1.17e-01
chrII-NC_003071:17808033-17808133 3.80e-02
chrII-NC_003071:14956317-14956417 1.33e-01
chrII-NC_003071:17791516-17791616 7.78e-03
chrII-NC_003071:10191589-10191689 1.43e-01
chrII-NC_003071:15275171-15275271 1.56e-04
chrII-NC_003071:12941145-12941245 6.26e-05
chrII-NC_003071:15009657-15009757 4.57e-05
chrII-NC_003071:14224191-14224291 3.93e-01
chrII-NC_003071:14331359-14331459 3.07e-02
chrII-NC_003071:8692385-8692485 5.17e-05
chrII-NC_003071:11871421-11871521 3.96e-03
chrII-NC_003071:18922556-18922656 7.00e-03
chrII-NC_003071:16504451-16504551 1.44e-03
chrII-NC_003071:19198253-19198353 2.67e-02
chrII-NC_003071:18423065-18423165 1.68e-02
chrI-NC_003070:11446219-11446319 3.58e-03
chrI-NC_003070:10000490-10000590 1.60e-02
chrI-NC_003070:9950825-9950925 4.68e-01
chrI-NC_003070:11621892-11621992 2.54e-02
chrI-NC_003070:11061463-11061563 1.46e-03
chrI-NC_003070:20762967-20763067 7.20e-02
chrI-NC_003070:8595088-8595188 4.47e-01
chrI-NC_003070:19762335-19762435 1.59e-01
chrI-NC_003070:25682284-25682384 2.25e-02
chrI-NC_003070:10693148-10693248 3.28e-03
chrI-NC_003070:3287515-3287615 6.12e-02
chrI-NC_003070:6579466-6579566 7.12e-03
chrI-NC_003070:20186963-20187063 2.34e-03
chrI-NC_003070:28189210-28189310 2.50e-03
chrI-NC_003070:10726311-10726411 1.75e-04
chrI-NC_003070:26059448-26059548 2.79e-02
chrI-NC_003070:21192322-21192422 3.14e-03
chrI-NC_003070:7142957-7143057 1.36e-03
chrI-NC_003070:4706360-4706460 1.84e-01
chrI-NC_003070:7384592-7384692 2.55e-02
chrI-NC_003070:8717829-8717929 1.10e-01
chrI-NC_003070:1188280-1188380 2.02e-01
chrI-NC_003070:3571887-3571987 1.14e-01
chrI-NC_003070:11067773-11067873 7.01e-03
chrI-NC_003070:5513978-5514078 3.75e-02
chrI-NC_003070:4904674-4904774 4.47e-03
chrI-NC_003070:28117313-28117413 2.57e-03
chrI-NC_003070:26575417-26575517 3.79e-02
chrI-NC_003070:25022250-25022350 1.70e-01
chrI-NC_003070:6459718-6459818 8.06e-02
chrI-NC_003070:20723351-20723451 2.79e-02
chrI-NC_003070:26011675-26011775 4.18e-05
chrI-NC_003070:11033867-11033967 3.09e-02
chrI-NC_003070:10353964-10354064 1.28e-01
chrI-NC_003070:29764290-29764390 2.37e-01
chrI-NC_003070:6843352-6843452 7.66e-03
chrI-NC_003070:11628844-11628944 4.25e-01
chrI-NC_003070:11373372-11373472 1.29e-03
chrI-NC_003070:28673890-28673990 1.77e-01
chrI-NC_003070:12455681-12455781 3.86e-02
chrI-NC_003070:7930462-7930562 2.11e-06
chrI-NC_003070:20956381-20956481 3.23e-02
chrI-NC_003070:10679066-10679166 7.97e-03
chrI-NC_003070:7515017-7515117 1.39e-01
chrI-NC_003070:3101296-3101396 2.94e-01
chrI-NC_003070:4600560-4600660 2.91e-02
chrI-NC_003070:18690442-18690542 1.85e-03
chrI-NC_003070:27363804-27363904 1.98e-01
chrI-NC_003070:25046712-25046812 1.85e-01
chrI-NC_003070:8727068-8727168 5.28e-02
chrI-NC_003070:13228453-13228553 7.09e-03
chrI-NC_003070:10978109-10978209 2.40e-01
chrI-NC_003070:9267178-9267278 2.76e-03
chrI-NC_003070:5086108-5086208 7.26e-02
chrI-NC_003070:9101220-9101320 3.61e-03
chrI-NC_003070:25228955-25229055 3.72e-02
chrI-NC_003070:26727714-26727814 9.48e-03
chrI-NC_003070:28183872-28183972 2.54e-01
chrI-NC_003070:27713510-27713610 8.56e-02
chrI-NC_003070:19848599-19848699 6.68e-03
chrI-NC_003070:25319703-25319803 1.87e-02
chrI-NC_003070:9269999-9270099 1.92e-03
chrI-NC_003070:29788413-29788513 6.68e-02
chrI-NC_003070:28236993-28237093 6.81e-03
chrI-NC_003070:17506712-17506812 1.48e-01
chrI-NC_003070:27292918-27293018 2.12e-02
chrI-NC_003070:5443879-5443979 2.37e-01
chrI-NC_003070:23075622-23075722 4.47e-02
chrI-NC_003070:22814110-22814210 8.96e-02
chrI-NC_003070:5004165-5004265 4.56e-01
chrI-NC_003070:27596186-27596286 4.81e-03
chrI-NC_003070:18399009-18399109 2.41e-01
chrI-NC_003070:6916711-6916811 2.66e-03
chrI-NC_003070:11630791-11630891 6.79e-04
chrI-NC_003070:26581149-26581249 2.26e-04
chrI-NC_003070:6174588-6174688 1.26e-04
chrIV-NC_003075:6794586-6794686 6.51e-04
chrIV-NC_003075:5739029-5739129 2.64e-01
chrIV-NC_003075:17002611-17002711 1.46e-03
chrIV-NC_003075:499163-499263 2.96e-01
chrIV-NC_003075:8444094-8444194 7.84e-03
chrIV-NC_003075:12043858-12043958 3.69e-01
chrIV-NC_003075:15918178-15918278 4.52e-02
chrIV-NC_003075:17395836-17395936 3.85e-01
chrIV-NC_003075:14813525-14813625 6.39e-02
chrIV-NC_003075:13854244-13854344 3.93e-04
chrIV-NC_003075:10386503-10386603 1.05e-01
chrIV-NC_003075:16689620-16689720 1.73e-03
chrIV-NC_003075:17398887-17398987 3.31e-03
chrIV-NC_003075:9249999-9250099 3.17e-03
chrIV-NC_003075:13193728-13193828 7.28e-03
chrIV-NC_003075:17397905-17398005 2.27e-02
chrIV-NC_003075:13016297-13016397 1.48e-02
chrIV-NC_003075:17322266-17322366 1.46e-04
chrIV-NC_003075:17782550-17782650 1.66e-02
chrIV-NC_003075:10382476-10382576 1.62e-01
chrIV-NC_003075:17006713-17006813 3.53e-02
chrIV-NC_003075:9319710-9319810 5.91e-05
chrIV-NC_003075:13013959-13014059 3.35e-05
chrIV-NC_003075:17432064-17432164 2.59e-01
chrIV-NC_003075:13686062-13686162 1.70e-03
chrIV-NC_003075:14912987-14913087 1.68e-01
chrIV-NC_003075:17780864-17780964 5.19e-02
chrIV-NC_003075:13381861-13381961 6.74e-02
chrIV-NC_003075:8435496-8435596 2.50e-02
chrIV-NC_003075:16154659-16154759 9.60e-02
chrIV-NC_003075:11604849-11604949 7.88e-02
chrIV-NC_003075:15205290-15205390 5.39e-02
chrIV-NC_003075:5155510-5155610 5.17e-02
chrIV-NC_003075:17319872-17319972 1.20e-01
chrIV-NC_003075:15054453-15054553 1.20e-01
chrV-NC_003076:1894217-1894317 1.59e-02
chrV-NC_003076:21763572-21763672 1.74e-04
chrV-NC_003076:26723094-26723194 7.91e-02
chrV-NC_003076:21793629-21793729 1.22e-02
chrV-NC_003076:23700558-23700658 5.49e-02
chrV-NC_003076:566586-566686 1.09e-01
chrV-NC_003076:20898801-20898901 8.06e-03
chrV-NC_003076:7695385-7695485 5.90e-02
chrV-NC_003076:3396241-3396341 7.33e-03
chrV-NC_003076:1750908-1751008 7.24e-02
chrV-NC_003076:1855815-1855915 5.59e-02
chrV-NC_003076:17073608-17073708 3.54e-04
chrV-NC_003076:24505443-24505543 2.34e-02
chrV-NC_003076:24996114-24996214 3.88e-01
chrV-NC_003076:4221058-4221158 9.31e-02
chrV-NC_003076:17363447-17363547 1.41e-04
chrV-NC_003076:3478453-3478553 2.58e-02
chrV-NC_003076:24510324-24510424 2.81e-03
chrV-NC_003076:23670284-23670384 1.94e-02
chrV-NC_003076:3515115-3515215 6.32e-05
chrV-NC_003076:22997202-22997302 1.39e-03
chrV-NC_003076:1279542-1279642 1.21e-01
chrV-NC_003076:10455505-10455605 2.21e-04
chrV-NC_003076:24843037-24843137 3.27e-04
chrV-NC_003076:26562589-26562689 1.65e-01
chrV-NC_003076:15711909-15712009 7.23e-02
chrV-NC_003076:10649957-10650057 1.25e-04
chrV-NC_003076:26138594-26138694 1.18e-04
chrV-NC_003076:1826857-1826957 4.25e-02
chrV-NC_003076:18000368-18000468 8.16e-03
chrV-NC_003076:4451032-4451132 7.38e-02
chrV-NC_003076:2856549-2856649 1.59e-01
chrV-NC_003076:2234877-2234977 4.43e-03
chrV-NC_003076:19653125-19653225 3.11e-02
chrV-NC_003076:2284163-2284263 3.40e-04
chrV-NC_003076:26042706-26042806 2.02e-03
chrV-NC_003076:16563593-16563693 7.94e-04
chrV-NC_003076:17550113-17550213 1.16e-03
chrV-NC_003076:6381170-6381270 1.46e-01
chrV-NC_003076:23661495-23661595 2.09e-01
chrV-NC_003076:6320620-6320720 4.44e-02
chrV-NC_003076:3865681-3865781 5.78e-03
chrV-NC_003076:25504492-25504592 2.85e-01
chrV-NC_003076:22388451-22388551 3.45e-04
chrV-NC_003076:2123676-2123776 9.12e-04
chrV-NC_003076:3508558-3508658 7.85e-02
chrV-NC_003076:21045187-21045287 1.59e-01
chrV-NC_003076:3242335-3242435 5.69e-02
chrV-NC_003076:26253392-26253492 7.12e-03
chrV-NC_003076:21855079-21855179 1.83e-01
chrV-NC_003076:229782-229882 5.20e-02
chrV-NC_003076:26837938-26838038 1.48e-02
chrV-NC_003076:9133297-9133397 1.87e-06
chrV-NC_003076:23785222-23785322 4.29e-03
chrV-NC_003076:15871704-15871804 2.37e-01
chrV-NC_003076:19273677-19273777 2.12e-01
chrV-NC_003076:26805576-26805676 7.11e-02
chrV-NC_003076:3613569-3613669 9.37e-04
chrV-NC_003076:5863206-5863306 3.26e-04
chrV-NC_003076:26765562-26765662 3.30e-01
chrV-NC_003076:26211334-26211434 1.56e-01
chrV-NC_003076:5227509-5227609 2.56e-05
chrV-NC_003076:9480415-9480515 1.42e-05
chrV-NC_003076:8903405-8903505 8.13e-03
chrV-NC_003076:7265888-7265988 8.90e-03
chrV-NC_003076:23147444-23147544 5.99e-03
chrV-NC_003076:23218219-23218319 4.29e-03
chrV-NC_003076:3048856-3048956 2.71e-01
chrV-NC_003076:3864674-3864774 6.02e-06
chrV-NC_003076:22779192-22779292 1.69e-01
chrV-NC_003076:792888-792988 6.12e-06
chrV-NC_003076:206021-206121 1.56e-01
chrV-NC_003076:24415567-24415667 2.66e-01
 
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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: 0.316   C: 0.185   G: 0.185   T: 0.314

Background letter frequencies (from dataset with add-one prior applied):
A: 0.316   C: 0.185   G: 0.185   T: 0.314

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.