******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.5.1 (Release date: Sun Jan 29 10:33:12 2023 -0800) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: 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. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** PRIMARY SEQUENCES= housekeeping.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ NMLKHHFN_00046 1.0000 100 NMLKHHFN_00047 1.0000 100 NMLKHHFN_00092 1.0000 100 NMLKHHFN_00094 1.0000 100 NMLKHHFN_00128 1.0000 100 NMLKHHFN_00138 1.0000 100 NMLKHHFN_00187 1.0000 100 NMLKHHFN_00204 1.0000 100 NMLKHHFN_00210 1.0000 100 NMLKHHFN_00247 1.0000 100 NMLKHHFN_00333 1.0000 100 NMLKHHFN_00355 1.0000 100 NMLKHHFN_00356 1.0000 100 NMLKHHFN_00375 1.0000 100 NMLKHHFN_00376 1.0000 100 NMLKHHFN_00411 1.0000 100 NMLKHHFN_00445 1.0000 100 NMLKHHFN_00458 1.0000 100 NMLKHHFN_00460 1.0000 100 NMLKHHFN_00543 1.0000 100 NMLKHHFN_00544 1.0000 100 NMLKHHFN_00568 1.0000 100 NMLKHHFN_00574 1.0000 100 NMLKHHFN_00609 1.0000 100 NMLKHHFN_00629 1.0000 100 NMLKHHFN_00630 1.0000 100 NMLKHHFN_00667 1.0000 100 NMLKHHFN_00754 1.0000 100 NMLKHHFN_00791 1.0000 100 NMLKHHFN_00816 1.0000 100 NMLKHHFN_00820 1.0000 100 NMLKHHFN_00824 1.0000 100 NMLKHHFN_00854 1.0000 100 NMLKHHFN_00859 1.0000 100 NMLKHHFN_00888 1.0000 100 NMLKHHFN_00930 1.0000 100 NMLKHHFN_00949 1.0000 100 NMLKHHFN_01005 1.0000 100 NMLKHHFN_01006 1.0000 100 NMLKHHFN_01007 1.0000 100 NMLKHHFN_01017 1.0000 100 NMLKHHFN_01018 1.0000 100 NMLKHHFN_01019 1.0000 100 NMLKHHFN_01020 1.0000 100 NMLKHHFN_01021 1.0000 100 NMLKHHFN_01022 1.0000 100 NMLKHHFN_01023 1.0000 100 NMLKHHFN_01024 1.0000 100 NMLKHHFN_01027 1.0000 100 NMLKHHFN_01028 1.0000 100 NMLKHHFN_01042 1.0000 100 NMLKHHFN_01050 1.0000 100 NMLKHHFN_01052 1.0000 100 NMLKHHFN_01064 1.0000 100 NMLKHHFN_01109 1.0000 100 NMLKHHFN_01121 1.0000 100 NMLKHHFN_01133 1.0000 100 NMLKHHFN_01135 1.0000 100 NMLKHHFN_01164 1.0000 100 NMLKHHFN_01172 1.0000 100 NMLKHHFN_01193 1.0000 100 NMLKHHFN_01226 1.0000 100 NMLKHHFN_01271 1.0000 100 NMLKHHFN_01272 1.0000 100 NMLKHHFN_01293 1.0000 100 NMLKHHFN_01357 1.0000 100 NMLKHHFN_01377 1.0000 100 NMLKHHFN_01378 1.0000 100 NMLKHHFN_01406 1.0000 100 NMLKHHFN_01407 1.0000 100 NMLKHHFN_01408 1.0000 100 NMLKHHFN_01409 1.0000 100 NMLKHHFN_01410 1.0000 100 NMLKHHFN_01411 1.0000 100 NMLKHHFN_01412 1.0000 100 NMLKHHFN_01413 1.0000 100 NMLKHHFN_01442 1.0000 100 NMLKHHFN_01443 1.0000 100 NMLKHHFN_01444 1.0000 100 NMLKHHFN_01445 1.0000 100 NMLKHHFN_01446 1.0000 100 NMLKHHFN_01447 1.0000 100 NMLKHHFN_01448 1.0000 100 NMLKHHFN_01449 1.0000 100 NMLKHHFN_01450 1.0000 100 NMLKHHFN_01451 1.0000 100 NMLKHHFN_01452 1.0000 100 NMLKHHFN_01453 1.0000 100 NMLKHHFN_01454 1.0000 100 NMLKHHFN_01455 1.0000 100 NMLKHHFN_01456 1.0000 100 NMLKHHFN_01457 1.0000 100 NMLKHHFN_01458 1.0000 100 NMLKHHFN_01459 1.0000 100 NMLKHHFN_01460 1.0000 100 NMLKHHFN_01461 1.0000 100 NMLKHHFN_01491 1.0000 100 NMLKHHFN_01548 1.0000 100 NMLKHHFN_01576 1.0000 100 NMLKHHFN_01577 1.0000 100 NMLKHHFN_01647 1.0000 100 NMLKHHFN_01662 1.0000 100 NMLKHHFN_01663 1.0000 100 NMLKHHFN_01664 1.0000 100 NMLKHHFN_01665 1.0000 100 NMLKHHFN_01666 1.0000 100 NMLKHHFN_01667 1.0000 100 NMLKHHFN_01668 1.0000 100 NMLKHHFN_01706 1.0000 100 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme housekeeping.fasta -dna -nmotifs 3 -minw 6 model: mod= zoops nmotifs= 3 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 6 maxw= 50 nsites: minsites= 2 maxsites= 109 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 10900 N= 109 sample: seed= 0 hsfrac= 0 searchsize= 10900 norand= no csites= 1000 Letter frequencies in dataset: A 0.345 C 0.151 G 0.126 T 0.379 Background letter frequencies (from file dataset with add-one prior applied): A 0.345 C 0.151 G 0.126 T 0.378 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TTCCTYTT MEME-1 width = 8 sites = 52 llr = 392 E-value = 1.5e-017 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTCCTYTT MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::::12:2 pos.-specific C 1:aa:311 probability G :::::::: matrix T 9a::9597 bits 3.0 2.7 ** 2.4 ** 2.1 ** Relative 1.8 ** Entropy 1.5 *** (10.9 bits) 1.2 **** * 0.9 ***** * 0.6 ***** * 0.3 ******** 0.0 -------- Multilevel TTCCTTTT consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTYTT MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- NMLKHHFN_01411 91 2.66e-05 TCGTGATTAA TTCCTCTT TC NMLKHHFN_01409 87 2.66e-05 TTTTAATAAA TTCCTCTT ACACAT NMLKHHFN_01293 75 2.66e-05 ATTTAATCAA TTCCTCTT TTACTCACTC NMLKHHFN_01024 87 2.66e-05 GCTAACATAT TTCCTCTT GTTTTA NMLKHHFN_01021 90 2.66e-05 GAGTCAGCCT TTCCTCTT TTA NMLKHHFN_01005 90 2.66e-05 GCAACCATTC TTCCTCTT TTT NMLKHHFN_00930 90 2.66e-05 TTTTAATTAG TTCCTCTT GAT NMLKHHFN_00629 89 2.66e-05 ATAATTTATT TTCCTCTT TAGG NMLKHHFN_00460 90 2.66e-05 ATTGTAGGTT TTCCTCTT ATA NMLKHHFN_01647 90 9.31e-05 TTAAAGTTTT TTCCTTTT ATT NMLKHHFN_01445 91 9.31e-05 CTGTTTATTT TTCCTTTT TA NMLKHHFN_01444 24 9.31e-05 CTCGGTATAT TTCCTTTT CCGCAATTCA NMLKHHFN_01193 91 9.31e-05 AAAAAATTCT TTCCTTTT TC NMLKHHFN_01027 88 9.31e-05 ATTTAAAAAA TTCCTTTT ATATT NMLKHHFN_01006 90 9.31e-05 AATTTTAAAC TTCCTTTT TAT NMLKHHFN_00949 91 9.31e-05 AAATTATATT TTCCTTTT AA NMLKHHFN_00791 89 9.31e-05 CGATCTATAC TTCCTTTT ATAC NMLKHHFN_00667 88 9.31e-05 TATAAAAAAA TTCCTTTT AACTT NMLKHHFN_00574 89 9.31e-05 AAGTAGAAAA TTCCTTTT TATT NMLKHHFN_01407 85 1.04e-04 ATTTTAAAAA TTCCTCTC ATATTTAT NMLKHHFN_00128 90 1.04e-04 TAATTATTTT TTCCTCTC TTT NMLKHHFN_01456 89 1.30e-04 AGTTCTTCTT TTCCTTTC ATTC NMLKHHFN_01454 90 1.30e-04 TTGCCGTCTT TTCCTTTC GAT NMLKHHFN_01447 89 1.30e-04 GGTAAATGTT TTCCTTTC ATTC NMLKHHFN_01272 90 1.30e-04 TAAATAGGCT TTCCTTTC GCA NMLKHHFN_01666 91 2.15e-04 TTTGTTTCTG TTCCTATT TG NMLKHHFN_01665 90 2.15e-04 CGTTTTAGTA TTCCTATT TTC NMLKHHFN_01662 90 2.15e-04 CGTGTTTTGC TTCCTATT TCT NMLKHHFN_01460 90 2.15e-04 TACCCATTCA TTCCTATT CTA NMLKHHFN_01451 90 2.15e-04 CGAAATTTTA TTCCTATT TTT NMLKHHFN_01442 89 2.15e-04 TGTTACGATT TTCCTATT CTTC NMLKHHFN_01412 91 2.15e-04 ATTATGGGGT TTCCTCTA GA NMLKHHFN_01377 85 2.15e-04 CGTCTTAAAT TTCCTCTA TCAAAATT NMLKHHFN_01023 88 2.15e-04 ATATAGTTCA TTCCTCTA AACAA NMLKHHFN_01020 90 2.15e-04 TATTATTTAT TTCCTATT TTT NMLKHHFN_00458 90 2.15e-04 ATGGTAAAAT TTCCTATT TGA NMLKHHFN_01667 89 2.36e-04 TAAAATTACT CTCCTCTT TTAA NMLKHHFN_00754 46 2.36e-04 ATCACAATTC CTCCTCTT AAACCTTGTG NMLKHHFN_01461 90 3.21e-04 CAAGAAAAAT TTCCTTTA TAA NMLKHHFN_01453 7 3.21e-04 AGAAAT TTCCACTT CATAACGTTT NMLKHHFN_01446 90 3.21e-04 CGTTCGACCA TTCCTTTA TTT NMLKHHFN_01271 89 3.21e-04 GTGAAATACT TTCCTTTA TTTT NMLKHHFN_01028 92 3.99e-04 AAAAATATAC CTCCTTTT T NMLKHHFN_00816 91 3.99e-04 AATATAAAAG TTCCTTCT GC NMLKHHFN_01406 6 4.68e-04 AAATC TTCCATTT ATGCTAGTGA NMLKHHFN_01022 58 4.68e-04 AAAATGGCGA TTCCATTT TTCGCCATCG NMLKHHFN_00210 91 4.68e-04 TTTTTAATTT TTCCATTT AG NMLKHHFN_01663 52 5.54e-04 GTAAGGTCAT CTCCTTTC TAAGTAGCAA NMLKHHFN_01378 6 6.22e-04 GTATG TTCCTACT ACGTTTCGTA NMLKHHFN_01018 88 6.22e-04 CTAAAAACTG TTCCTACT TCTAT NMLKHHFN_01668 37 7.28e-04 GTGTTATCTC TTCCACTA CGAAAAAAAT NMLKHHFN_00543 90 7.96e-04 ATATTTTCAA TTCCTTCA AGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTYTT MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- NMLKHHFN_01411 2.7e-05 90_[+1]_2 NMLKHHFN_01409 2.7e-05 86_[+1]_6 NMLKHHFN_01293 2.7e-05 74_[+1]_18 NMLKHHFN_01024 2.7e-05 86_[+1]_6 NMLKHHFN_01021 2.7e-05 89_[+1]_3 NMLKHHFN_01005 2.7e-05 89_[+1]_3 NMLKHHFN_00930 2.7e-05 89_[+1]_3 NMLKHHFN_00629 2.7e-05 88_[+1]_4 NMLKHHFN_00460 2.7e-05 89_[+1]_3 NMLKHHFN_01647 9.3e-05 89_[+1]_3 NMLKHHFN_01445 9.3e-05 90_[+1]_2 NMLKHHFN_01444 9.3e-05 23_[+1]_69 NMLKHHFN_01193 9.3e-05 90_[+1]_2 NMLKHHFN_01027 9.3e-05 87_[+1]_5 NMLKHHFN_01006 9.3e-05 89_[+1]_3 NMLKHHFN_00949 9.3e-05 90_[+1]_2 NMLKHHFN_00791 9.3e-05 88_[+1]_4 NMLKHHFN_00667 9.3e-05 87_[+1]_5 NMLKHHFN_00574 9.3e-05 88_[+1]_4 NMLKHHFN_01407 0.0001 84_[+1]_8 NMLKHHFN_00128 0.0001 89_[+1]_3 NMLKHHFN_01456 0.00013 88_[+1]_4 NMLKHHFN_01454 0.00013 89_[+1]_3 NMLKHHFN_01447 0.00013 88_[+1]_4 NMLKHHFN_01272 0.00013 89_[+1]_3 NMLKHHFN_01666 0.00022 90_[+1]_2 NMLKHHFN_01665 0.00022 89_[+1]_3 NMLKHHFN_01662 0.00022 89_[+1]_3 NMLKHHFN_01460 0.00022 89_[+1]_3 NMLKHHFN_01451 0.00022 89_[+1]_3 NMLKHHFN_01442 0.00022 88_[+1]_4 NMLKHHFN_01412 0.00022 90_[+1]_2 NMLKHHFN_01377 0.00022 84_[+1]_8 NMLKHHFN_01023 0.00022 87_[+1]_5 NMLKHHFN_01020 0.00022 89_[+1]_3 NMLKHHFN_00458 0.00022 89_[+1]_3 NMLKHHFN_01667 0.00024 88_[+1]_4 NMLKHHFN_00754 0.00024 45_[+1]_47 NMLKHHFN_01461 0.00032 89_[+1]_3 NMLKHHFN_01453 0.00032 6_[+1]_86 NMLKHHFN_01446 0.00032 89_[+1]_3 NMLKHHFN_01271 0.00032 88_[+1]_4 NMLKHHFN_01028 0.0004 91_[+1]_1 NMLKHHFN_00816 0.0004 90_[+1]_2 NMLKHHFN_01406 0.00047 5_[+1]_87 NMLKHHFN_01022 0.00047 57_[+1]_35 NMLKHHFN_00210 0.00047 90_[+1]_2 NMLKHHFN_01663 0.00055 51_[+1]_41 NMLKHHFN_01378 0.00062 5_[+1]_87 NMLKHHFN_01018 0.00062 87_[+1]_5 NMLKHHFN_01668 0.00073 36_[+1]_56 NMLKHHFN_00543 0.0008 89_[+1]_3 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTYTT MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTCCTYTT width=8 seqs=52 NMLKHHFN_01411 ( 91) TTCCTCTT 1 NMLKHHFN_01409 ( 87) TTCCTCTT 1 NMLKHHFN_01293 ( 75) TTCCTCTT 1 NMLKHHFN_01024 ( 87) TTCCTCTT 1 NMLKHHFN_01021 ( 90) TTCCTCTT 1 NMLKHHFN_01005 ( 90) TTCCTCTT 1 NMLKHHFN_00930 ( 90) TTCCTCTT 1 NMLKHHFN_00629 ( 89) TTCCTCTT 1 NMLKHHFN_00460 ( 90) TTCCTCTT 1 NMLKHHFN_01647 ( 90) TTCCTTTT 1 NMLKHHFN_01445 ( 91) TTCCTTTT 1 NMLKHHFN_01444 ( 24) TTCCTTTT 1 NMLKHHFN_01193 ( 91) TTCCTTTT 1 NMLKHHFN_01027 ( 88) TTCCTTTT 1 NMLKHHFN_01006 ( 90) TTCCTTTT 1 NMLKHHFN_00949 ( 91) TTCCTTTT 1 NMLKHHFN_00791 ( 89) TTCCTTTT 1 NMLKHHFN_00667 ( 88) TTCCTTTT 1 NMLKHHFN_00574 ( 89) TTCCTTTT 1 NMLKHHFN_01407 ( 85) TTCCTCTC 1 NMLKHHFN_00128 ( 90) TTCCTCTC 1 NMLKHHFN_01456 ( 89) TTCCTTTC 1 NMLKHHFN_01454 ( 90) TTCCTTTC 1 NMLKHHFN_01447 ( 89) TTCCTTTC 1 NMLKHHFN_01272 ( 90) TTCCTTTC 1 NMLKHHFN_01666 ( 91) TTCCTATT 1 NMLKHHFN_01665 ( 90) TTCCTATT 1 NMLKHHFN_01662 ( 90) TTCCTATT 1 NMLKHHFN_01460 ( 90) TTCCTATT 1 NMLKHHFN_01451 ( 90) TTCCTATT 1 NMLKHHFN_01442 ( 89) TTCCTATT 1 NMLKHHFN_01412 ( 91) TTCCTCTA 1 NMLKHHFN_01377 ( 85) TTCCTCTA 1 NMLKHHFN_01023 ( 88) TTCCTCTA 1 NMLKHHFN_01020 ( 90) TTCCTATT 1 NMLKHHFN_00458 ( 90) TTCCTATT 1 NMLKHHFN_01667 ( 89) CTCCTCTT 1 NMLKHHFN_00754 ( 46) CTCCTCTT 1 NMLKHHFN_01461 ( 90) TTCCTTTA 1 NMLKHHFN_01453 ( 7) TTCCACTT 1 NMLKHHFN_01446 ( 90) TTCCTTTA 1 NMLKHHFN_01271 ( 89) TTCCTTTA 1 NMLKHHFN_01028 ( 92) CTCCTTTT 1 NMLKHHFN_00816 ( 91) TTCCTTCT 1 NMLKHHFN_01406 ( 6) TTCCATTT 1 NMLKHHFN_01022 ( 58) TTCCATTT 1 NMLKHHFN_00210 ( 91) TTCCATTT 1 NMLKHHFN_01663 ( 52) CTCCTTTC 1 NMLKHHFN_01378 ( 6) TTCCTACT 1 NMLKHHFN_01018 ( 88) TTCCTACT 1 NMLKHHFN_01668 ( 37) TTCCACTA 1 NMLKHHFN_00543 ( 90) TTCCTTCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTYTT MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 10137 bayes= 9.23456 E= 1.5e-017 -1234 -97 -1234 129 -1234 -1234 -1234 140 -1234 273 -1234 -1234 -1234 273 -1234 -1234 -184 -1234 -1234 126 -84 120 -1234 29 -1234 -97 -1234 129 -116 -16 -1234 91 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTYTT MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 52 E= 1.5e-017 0.000000 0.076923 0.000000 0.923077 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.096154 0.000000 0.000000 0.903846 0.192308 0.346154 0.000000 0.461538 0.000000 0.076923 0.000000 0.923077 0.153846 0.134615 0.000000 0.711538 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTYTT MEME-1 regular expression -------------------------------------------------------------------------------- TTCCT[TC]TT -------------------------------------------------------------------------------- Time 6.64 secs. ******************************************************************************** ******************************************************************************** MOTIF GCYAAAKTWAADSRMGRTAYT MEME-2 width = 21 sites = 11 llr = 164 E-value = 6.0e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif GCYAAAKTWAADSRMGRTAYT MEME-2 Description -------------------------------------------------------------------------------- Simplified A :::68a1346a4:45:525:: pos.-specific C :753::2:1::15:5:::342 probability G 8::1::5::2:356:952:1: matrix T 235:2:3752:3::11:6258 bits 3.0 2.7 2.4 * 2.1 * * Relative 1.8 * * * Entropy 1.5 ** * * ** * (21.5 bits) 1.2 *** * * ** ** 0.9 ****** * ** ** * 0.6 ******** ** ***** ** 0.3 *********** ********* 0.0 --------------------- Multilevel GCCAAAGTTAAACGAGATATT consensus TTC TAA GGAC G CC sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYAAAKTWAADSRMGRTAYT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------------------- NMLKHHFN_01028 14 8.66e-13 CCTCTCCAGC GCCCAAGTTAAGGGCGATACT CGAGGTATTT NMLKHHFN_01022 3 7.60e-09 AC GTCCAAGTCGAGCGAGATACC CACAACTTTA NMLKHHFN_00445 15 1.84e-08 TAAAGACTTA GCTATAGAAAATGGCGGTCGT TTTAATGGGA NMLKHHFN_01121 77 3.74e-08 TTATTGAAAT GCTAAATTTAAGCAAGGAATT TTA NMLKHHFN_01577 25 5.98e-08 CAGAAAAGAT TCTAAACTTAAACGCGGTTTT AGAAGACAAT NMLKHHFN_01135 22 9.32e-08 CAAGGCCTAT GCCAAAGATAATGATGAGATT GTCATTTTTA NMLKHHFN_00092 63 9.32e-08 TATTATCTGT GCTATAGTAGAAGAAGAGCTT TTTGGCAAGG NMLKHHFN_00355 79 1.11e-07 GAGGAATAAA GCTAAATTATAAGGAGAAACT C NMLKHHFN_01460 38 1.95e-07 AAGAAATTGA TTCGAACTAAATCGCGGTCTT CATTCGCAAC NMLKHHFN_00376 57 3.79e-07 TGATTTTAGT GCCAAAATTAAACGATGTTTT AATGACGAAA NMLKHHFN_01459 61 7.37e-07 CCACGTCATG GTCCAATATTACCACGATACC CATTTTATTC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYAAAKTWAADSRMGRTAYT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- NMLKHHFN_01028 8.7e-13 13_[+2]_66 NMLKHHFN_01022 7.6e-09 2_[+2]_77 NMLKHHFN_00445 1.8e-08 14_[+2]_65 NMLKHHFN_01121 3.7e-08 76_[+2]_3 NMLKHHFN_01577 6e-08 24_[+2]_55 NMLKHHFN_01135 9.3e-08 21_[+2]_58 NMLKHHFN_00092 9.3e-08 62_[+2]_17 NMLKHHFN_00355 1.1e-07 78_[+2]_1 NMLKHHFN_01460 1.9e-07 37_[+2]_42 NMLKHHFN_00376 3.8e-07 56_[+2]_23 NMLKHHFN_01459 7.4e-07 60_[+2]_19 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYAAAKTWAADSRMGRTAYT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GCYAAAKTWAADSRMGRTAYT width=21 seqs=11 NMLKHHFN_01028 ( 14) GCCCAAGTTAAGGGCGATACT 1 NMLKHHFN_01022 ( 3) GTCCAAGTCGAGCGAGATACC 1 NMLKHHFN_00445 ( 15) GCTATAGAAAATGGCGGTCGT 1 NMLKHHFN_01121 ( 77) GCTAAATTTAAGCAAGGAATT 1 NMLKHHFN_01577 ( 25) TCTAAACTTAAACGCGGTTTT 1 NMLKHHFN_01135 ( 22) GCCAAAGATAATGATGAGATT 1 NMLKHHFN_00092 ( 63) GCTATAGTAGAAGAAGAGCTT 1 NMLKHHFN_00355 ( 79) GCTAAATTATAAGGAGAAACT 1 NMLKHHFN_01460 ( 38) TTCGAACTAAATCGCGGTCTT 1 NMLKHHFN_00376 ( 57) GCCAAAATTAAACGATGTTTT 1 NMLKHHFN_01459 ( 61) GTCCAATATTACCACGATACC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYAAAKTWAADSRMGRTAYT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 21 n= 8720 bayes= 9.98435 E= 6.0e-003 -1010 -1010 270 -106 -1010 227 -1010 -47 -1010 185 -1010 26 88 85 -47 -1010 125 -1010 -1010 -106 153 -1010 -1010 -1010 -192 27 185 -47 -34 -1010 -1010 94 8 -73 -1010 53 88 -1010 53 -106 153 -1010 -1010 -1010 8 -73 112 -47 -1010 185 185 -1010 8 -1010 234 -1010 40 159 -1010 -205 -1010 -1010 285 -205 66 -1010 185 -1010 -92 -1010 53 75 66 85 -1010 -106 -1010 127 -47 53 -1010 27 -1010 111 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYAAAKTWAADSRMGRTAYT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 21 nsites= 11 E= 6.0e-003 0.000000 0.000000 0.818182 0.181818 0.000000 0.727273 0.000000 0.272727 0.000000 0.545455 0.000000 0.454545 0.636364 0.272727 0.090909 0.000000 0.818182 0.000000 0.000000 0.181818 1.000000 0.000000 0.000000 0.000000 0.090909 0.181818 0.454545 0.272727 0.272727 0.000000 0.000000 0.727273 0.363636 0.090909 0.000000 0.545455 0.636364 0.000000 0.181818 0.181818 1.000000 0.000000 0.000000 0.000000 0.363636 0.090909 0.272727 0.272727 0.000000 0.545455 0.454545 0.000000 0.363636 0.000000 0.636364 0.000000 0.454545 0.454545 0.000000 0.090909 0.000000 0.000000 0.909091 0.090909 0.545455 0.000000 0.454545 0.000000 0.181818 0.000000 0.181818 0.636364 0.545455 0.272727 0.000000 0.181818 0.000000 0.363636 0.090909 0.545455 0.000000 0.181818 0.000000 0.818182 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GCYAAAKTWAADSRMGRTAYT MEME-2 regular expression -------------------------------------------------------------------------------- G[CT][CT][AC]AA[GT][TA][TA]AA[AGT][CG][GA][AC]G[AG]T[AC][TC]T -------------------------------------------------------------------------------- Time 12.87 secs. ******************************************************************************** ******************************************************************************** MOTIF TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 width = 49 sites = 5 llr = 173 E-value = 4.3e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 Description -------------------------------------------------------------------------------- Simplified A :::442464::2:2:62:6242666244::::48222::::4228a2:: pos.-specific C :2:2::6:4284:::2:8:24224:86424466246:26282:6:::8: probability G ::::28:228::6:4:4:4::4:::::24624::::::42::::2:226 matrix T a8a44::2::24486242:6222:4:::4:4:::4288:62482::6:4 bits 3.0 2.7 2.4 2.1 * * * Relative 1.8 * ** * * * * * * * Entropy 1.5 * * * ** * * * * * * * * ** (50.0 bits) 1.2 * * ** ** * * ** ** * *** * * ** ** 0.9 *** ** *** * * ** * ***** *** * ** * *** ** 0.6 *** ** *** *** *** * *********** ****** **** ** 0.3 ************************************************* 0.0 ------------------------------------------------- Multilevel TTTAAGCAAGCCGTTAGCATAGAAACCAGGCCCACCTTCTCATCAATCG consensus C TTAAGCCTTTAGCTTGACACCTAACTCTGACTAACGCTTAAG AGT sequence CG TG A TA CTCT GC G AT G C T G T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------------------------------------------- NMLKHHFN_01449 5 4.28e-19 TTTC TCTTGGATAGCCTTGAGCATAGAAACCCGGTCACCCATCTCTTCAATCT ATACCACCGA NMLKHHFN_00574 11 5.99e-19 GAATATATCT TTTTAGAACCCCGATATTATCGAAACCACGCCCACCTTGTCCTCAATCT TACACACAAT NMLKHHFN_01666 8 1.52e-16 GTCAATT TTTCTACACGCTGTTCACGTTTCATCAAGCGGCATTTCCGCATCAAGCG TAATAAACGC NMLKHHFN_00047 43 4.07e-15 AAATTAAAAA TTTATGCGGGTAGTGAGCACCCACACACTGCGCAAATTGCTAAAGAAGG AAAATAATC NMLKHHFN_01408 6 4.64e-15 ACTCG TTTAAGCAAGCTTTTTTCGAAATCTACGTCTCAATCTTCTCTTTAATCG ATTTCGTTAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- NMLKHHFN_01449 4.3e-19 4_[+3]_47 NMLKHHFN_00574 6e-19 10_[+3]_41 NMLKHHFN_01666 1.5e-16 7_[+3]_44 NMLKHHFN_00047 4.1e-15 42_[+3]_9 NMLKHHFN_01408 4.6e-15 5_[+3]_46 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK width=49 seqs=5 NMLKHHFN_01449 ( 5) TCTTGGATAGCCTTGAGCATAGAAACCCGGTCACCCATCTCTTCAATCT 1 NMLKHHFN_00574 ( 11) TTTTAGAACCCCGATATTATCGAAACCACGCCCACCTTGTCCTCAATCT 1 NMLKHHFN_01666 ( 8) TTTCTACACGCTGTTCACGTTTCATCAAGCGGCATTTCCGCATCAAGCG 1 NMLKHHFN_00047 ( 43) TTTATGCGGGTAGTGAGCACCCACACACTGCGCAAATTGCTAAAGAAGG 1 NMLKHHFN_01408 ( 6) TTTAAGCAAGCTTTTTTCGAAATCTACGTCTCAATCTTCTCTTTAATCG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 49 n= 5668 bayes= 10.3972 E= 4.3e-001 -897 -897 -897 140 -897 41 -897 108 -897 -897 -897 140 21 41 -897 8 21 -897 67 8 -78 -897 267 -897 21 199 -897 -897 80 -897 67 -92 21 140 67 -897 -897 41 267 -897 -897 240 -897 -92 -78 140 -897 8 -897 -897 225 8 -78 -897 -897 108 -897 -897 167 66 80 41 -897 -92 -78 -897 167 8 -897 240 -897 -92 80 -897 167 -897 -78 41 -897 66 21 140 -897 -92 -78 41 167 -92 80 41 -897 -92 80 140 -897 -897 80 -897 -897 8 -78 240 -897 -897 21 199 -897 -897 21 140 67 -897 -897 41 167 8 -897 140 225 -897 -897 140 67 8 -897 199 167 -897 21 199 -897 -897 121 41 -897 -897 -78 140 -897 8 -78 199 -897 -92 -78 -897 -897 108 -897 41 -897 108 -897 199 167 -897 -897 41 67 66 -897 240 -897 -92 21 41 -897 8 -78 -897 -897 108 -78 199 -897 -92 121 -897 67 -897 153 -897 -897 -897 -78 -897 67 66 -897 240 67 -897 -897 -897 225 8 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 49 nsites= 5 E= 4.3e-001 0.000000 0.000000 0.000000 1.000000 0.000000 0.200000 0.000000 0.800000 0.000000 0.000000 0.000000 1.000000 0.400000 0.200000 0.000000 0.400000 0.400000 0.000000 0.200000 0.400000 0.200000 0.000000 0.800000 0.000000 0.400000 0.600000 0.000000 0.000000 0.600000 0.000000 0.200000 0.200000 0.400000 0.400000 0.200000 0.000000 0.000000 0.200000 0.800000 0.000000 0.000000 0.800000 0.000000 0.200000 0.200000 0.400000 0.000000 0.400000 0.000000 0.000000 0.600000 0.400000 0.200000 0.000000 0.000000 0.800000 0.000000 0.000000 0.400000 0.600000 0.600000 0.200000 0.000000 0.200000 0.200000 0.000000 0.400000 0.400000 0.000000 0.800000 0.000000 0.200000 0.600000 0.000000 0.400000 0.000000 0.200000 0.200000 0.000000 0.600000 0.400000 0.400000 0.000000 0.200000 0.200000 0.200000 0.400000 0.200000 0.600000 0.200000 0.000000 0.200000 0.600000 0.400000 0.000000 0.000000 0.600000 0.000000 0.000000 0.400000 0.200000 0.800000 0.000000 0.000000 0.400000 0.600000 0.000000 0.000000 0.400000 0.400000 0.200000 0.000000 0.000000 0.200000 0.400000 0.400000 0.000000 0.400000 0.600000 0.000000 0.000000 0.400000 0.200000 0.400000 0.000000 0.600000 0.400000 0.000000 0.400000 0.600000 0.000000 0.000000 0.800000 0.200000 0.000000 0.000000 0.200000 0.400000 0.000000 0.400000 0.200000 0.600000 0.000000 0.200000 0.200000 0.000000 0.000000 0.800000 0.000000 0.200000 0.000000 0.800000 0.000000 0.600000 0.400000 0.000000 0.000000 0.200000 0.200000 0.600000 0.000000 0.800000 0.000000 0.200000 0.400000 0.200000 0.000000 0.400000 0.200000 0.000000 0.000000 0.800000 0.200000 0.600000 0.000000 0.200000 0.800000 0.000000 0.200000 0.000000 1.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.200000 0.600000 0.000000 0.800000 0.200000 0.000000 0.000000 0.000000 0.600000 0.400000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTTWWGMAMGCHKTKADCRTHNAMWCMMKSYSMAHCTTSTCWTCAATCK MEME-3 regular expression -------------------------------------------------------------------------------- T[TC]T[ATC][ATG][GA][CA][AGT][ACG][GC][CT][CTA][GT][TA][TG][ACT][GTA][CT][AG][TAC][ACT][GACT][ACT][AC][AT][CA][CA][ACG][GTC][GC][CTG][CG][CA][AC][CTA][CAT][TA][TC][CG][TCG][CT][ATC][TA][CAT][AG]A[TAG][CG][GT] -------------------------------------------------------------------------------- Time 18.89 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- NMLKHHFN_00046 9.16e-01 100 NMLKHHFN_00047 3.76e-11 42_[+3(4.07e-15)]_9 NMLKHHFN_00092 4.22e-04 62_[+2(9.32e-08)]_17 NMLKHHFN_00094 8.51e-01 100 NMLKHHFN_00128 7.65e-02 100 NMLKHHFN_00138 4.71e-01 100 NMLKHHFN_00187 3.01e-01 100 NMLKHHFN_00204 2.34e-01 100 NMLKHHFN_00210 4.25e-02 100 NMLKHHFN_00247 4.63e-01 100 NMLKHHFN_00333 4.02e-01 100 NMLKHHFN_00355 9.58e-05 78_[+2(1.11e-07)]_1 NMLKHHFN_00356 8.00e-01 100 NMLKHHFN_00375 4.30e-01 100 NMLKHHFN_00376 9.45e-04 56_[+2(3.79e-07)]_23 NMLKHHFN_00411 8.20e-01 100 NMLKHHFN_00445 1.44e-04 14_[+2(1.84e-08)]_65 NMLKHHFN_00458 1.21e-02 100 NMLKHHFN_00460 3.88e-02 89_[+1(2.66e-05)]_3 NMLKHHFN_00543 2.43e-01 100 NMLKHHFN_00544 6.15e-01 100 NMLKHHFN_00568 3.14e-01 100 NMLKHHFN_00574 1.28e-16 10_[+3(5.99e-19)]_29_[+1(9.31e-05)]_\ 4 NMLKHHFN_00609 9.63e-01 100 NMLKHHFN_00629 2.65e-02 88_[+1(2.66e-05)]_4 NMLKHHFN_00630 7.27e-01 100 NMLKHHFN_00667 4.74e-02 87_[+1(9.31e-05)]_5 NMLKHHFN_00754 2.12e-03 25_[+2(9.54e-05)]_54 NMLKHHFN_00791 7.27e-02 88_[+1(9.31e-05)]_4 NMLKHHFN_00816 4.86e-02 100 NMLKHHFN_00820 2.30e-03 100 NMLKHHFN_00824 6.58e-01 100 NMLKHHFN_00854 6.81e-01 100 NMLKHHFN_00859 8.32e-01 100 NMLKHHFN_00888 3.81e-01 100 NMLKHHFN_00930 4.07e-02 89_[+1(2.66e-05)]_3 NMLKHHFN_00949 6.36e-02 90_[+1(9.31e-05)]_2 NMLKHHFN_01005 2.39e-02 89_[+1(2.66e-05)]_3 NMLKHHFN_01006 1.39e-02 89_[+1(9.31e-05)]_3 NMLKHHFN_01007 2.63e-01 100 NMLKHHFN_01017 7.90e-01 100 NMLKHHFN_01018 1.16e-01 100 NMLKHHFN_01019 7.62e-01 100 NMLKHHFN_01020 1.50e-01 100 NMLKHHFN_01021 8.14e-03 89_[+1(2.66e-05)]_3 NMLKHHFN_01022 2.19e-06 2_[+2(7.60e-09)]_77 NMLKHHFN_01023 5.73e-02 100 NMLKHHFN_01024 8.20e-03 86_[+1(2.66e-05)]_6 NMLKHHFN_01027 2.58e-02 87_[+1(9.31e-05)]_5 NMLKHHFN_01028 7.30e-10 13_[+2(8.66e-13)]_66 NMLKHHFN_01042 5.15e-01 100 NMLKHHFN_01050 6.50e-03 69_[+2(5.38e-05)]_10 NMLKHHFN_01052 5.25e-01 100 NMLKHHFN_01064 7.14e-02 100 NMLKHHFN_01109 1.10e-01 100 NMLKHHFN_01121 1.67e-04 76_[+2(3.74e-08)]_3 NMLKHHFN_01133 7.32e-02 100 NMLKHHFN_01135 3.55e-04 21_[+2(9.32e-08)]_58 NMLKHHFN_01164 5.51e-01 100 NMLKHHFN_01172 4.27e-01 100 NMLKHHFN_01193 3.34e-02 90_[+1(9.31e-05)]_2 NMLKHHFN_01226 6.21e-01 100 NMLKHHFN_01271 9.37e-02 100 NMLKHHFN_01272 4.77e-02 100 NMLKHHFN_01293 3.16e-02 74_[+1(2.66e-05)]_18 NMLKHHFN_01357 3.66e-01 100 NMLKHHFN_01377 2.22e-02 100 NMLKHHFN_01378 3.98e-01 100 NMLKHHFN_01406 1.45e-01 100 NMLKHHFN_01407 8.73e-02 100 NMLKHHFN_01408 1.50e-11 5_[+3(4.64e-15)]_46 NMLKHHFN_01409 3.74e-02 86_[+1(2.66e-05)]_6 NMLKHHFN_01410 9.08e-02 100 NMLKHHFN_01411 4.92e-02 90_[+1(2.66e-05)]_2 NMLKHHFN_01412 2.43e-02 100 NMLKHHFN_01413 1.49e-01 100 NMLKHHFN_01442 4.39e-02 100 NMLKHHFN_01443 4.15e-02 100 NMLKHHFN_01444 3.73e-02 23_[+1(9.31e-05)]_69 NMLKHHFN_01445 5.28e-02 90_[+1(9.31e-05)]_2 NMLKHHFN_01446 2.90e-02 100 NMLKHHFN_01447 2.78e-02 100 NMLKHHFN_01448 6.30e-01 100 NMLKHHFN_01449 1.41e-15 4_[+3(4.28e-19)]_47 NMLKHHFN_01450 1.61e-02 71_[+2(9.24e-05)]_8 NMLKHHFN_01451 7.01e-02 100 NMLKHHFN_01452 3.28e-01 100 NMLKHHFN_01453 8.30e-02 100 NMLKHHFN_01454 1.45e-01 100 NMLKHHFN_01455 5.47e-01 100 NMLKHHFN_01456 5.98e-02 100 NMLKHHFN_01457 5.75e-01 100 NMLKHHFN_01458 3.82e-01 100 NMLKHHFN_01459 2.52e-04 60_[+2(7.37e-07)]_19 NMLKHHFN_01460 9.18e-06 37_[+2(1.95e-07)]_42 NMLKHHFN_01461 2.80e-01 100 NMLKHHFN_01491 1.66e-01 100 NMLKHHFN_01548 6.79e-01 100 NMLKHHFN_01576 9.20e-01 100 NMLKHHFN_01577 1.63e-04 24_[+2(5.98e-08)]_55 NMLKHHFN_01647 4.59e-02 89_[+1(9.31e-05)]_3 NMLKHHFN_01662 2.17e-01 100 NMLKHHFN_01663 1.35e-01 100 NMLKHHFN_01664 4.71e-01 100 NMLKHHFN_01665 7.66e-02 100 NMLKHHFN_01666 1.06e-13 7_[+3(1.52e-16)]_44 NMLKHHFN_01667 2.18e-02 100 NMLKHHFN_01668 7.03e-02 100 NMLKHHFN_01706 6.09e-01 100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (3) found. ******************************************************************************** CPU: kodomo ********************************************************************************