******************************************************************************** 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 ------------- ------ ------ ------------- ------ ------ cds-WP_016459392.1 1.0000 100 cds-WP_009014620.1 1.0000 100 rpoN 1.0000 100 cds-WP_016459408.1 1.0000 100 cds-WP_009014583.1 1.0000 100 cds-WP_016459412.1 1.0000 100 cds-WP_009015862.1 1.0000 100 dnaX 1.0000 100 atpB 1.0000 100 atpE 1.0000 100 atpF 1.0000 100 atpA 1.0000 100 atpG 1.0000 100 atpD 1.0000 100 atpC 1.0000 100 prmA 1.0000 100 rpsU 1.0000 100 rpmF 1.0000 100 rpsB 1.0000 100 tsf 1.0000 100 cds-WP_009015742.1 1.0000 100 nusA 1.0000 100 cds-WP_014128714.1 1.0000 100 cds-WP_014128713.1 1.0000 100 infB 1.0000 100 rpsO 1.0000 100 cds-WP_009015227.1 1.0000 100 nrdR 1.0000 100 rpoZ 1.0000 100 cds-WP_009015819.1 1.0000 100 cds-WP_009015816.1 1.0000 100 cds-WP_009015810.1 1.0000 100 cds-WP_009016341.1 1.0000 100 cds-WP_009016340.1 1.0000 100 cds-WP_014128654.1 1.0000 100 cds-WP_014128528.1 1.0000 100 cds-WP_016459506.1 1.0000 100 cds-WP_016459508.1 1.0000 100 cds-WP_009015429.1 1.0000 100 cds-WP_009014699.1 1.0000 100 efp 1.0000 100 trmFO 1.0000 100 codY 1.0000 100 scpB 1.0000 100 cds-WP_009014733.1 1.0000 100 lexA 1.0000 100 nusB 1.0000 100 cds-WP_009015294.1 1.0000 100 cds-WP_016459536.1 1.0000 100 cds-WP_009015691.1 1.0000 100 cds-WP_016459550.1 1.0000 100 cds-WP_009016184.1 1.0000 100 cds-WP_014128377.1 1.0000 100 cds-WP_016459584.1 1.0000 100 hrcA 1.0000 100 cds-WP_009014756.1 1.0000 100 rpsT 1.0000 100 rplT 1.0000 100 rpmI 1.0000 100 infC 1.0000 100 greA 1.0000 100 cds-WP_016459604.1 1.0000 100 cds-WP_009016044.1 1.0000 100 cds-WP_014128302.1 1.0000 100 mfd 1.0000 100 cds-WP_009016163.1 1.0000 100 cds-WP_035195826.1 1.0000 100 cds-WP_016459637.1 1.0000 100 cds-WP_009015972.1 1.0000 100 cds-WP_009015986.1 1.0000 100 cds-WP_016459650.1 1.0000 100 cds-WP_009016120.1 1.0000 100 cds-WP_009015502.1 1.0000 100 cds-WP_009015511.1 1.0000 100 cds-WP_009015521.1 1.0000 100 cds-WP_014128239.1 1.0000 100 cds-WP_009016228.1 1.0000 100 cds-FXY56_RS11010 1.0000 100 cds-WP_009016236.1 1.0000 100 cds-WP_016459693.1 1.0000 100 cds-WP_009016239.1 1.0000 100 cds-WP_227077601.1 1.0000 100 cds-WP_009016243.1 1.0000 100 cds-WP_009015467.1 1.0000 100 cds-WP_014128203.1 1.0000 100 rpmE 1.0000 100 cds-WP_009015490.1 1.0000 100 cds-WP_009015498.1 1.0000 100 holA 1.0000 100 cds-WP_016459715.1 1.0000 100 cds-WP_009014881.1 1.0000 100 cds-WP_009014910.1 1.0000 100 rpsI 1.0000 100 rplM 1.0000 100 cds-WP_009015559.1 1.0000 100 rplS 1.0000 100 rpsP 1.0000 100 fusA 1.0000 100 rpmB 1.0000 100 cds-WP_226828510.1 1.0000 100 cds-WP_009015137.1 1.0000 100 cds-WP_016459823.1 1.0000 100 cds-WP_016459824.1 1.0000 100 cds-WP_016459829.1 1.0000 100 cds-WP_009015071.1 1.0000 100 cds-WP_009015095.1 1.0000 100 cds-WP_009015107.1 1.0000 100 rpsR 1.0000 100 rpsF 1.0000 100 cds-WP_009015735.1 1.0000 100 cds-WP_009015709.1 1.0000 100 cds-WP_009015702.1 1.0000 100 dnaN 1.0000 100 cds-WP_232048567.1 1.0000 100 rpmH 1.0000 100 cds-WP_009015006.1 1.0000 100 cds-WP_009015011.1 1.0000 100 cds-WP_014129182.1 1.0000 100 cds-WP_014129178.1 1.0000 100 rplI 1.0000 100 cds-WP_016459877.1 1.0000 100 cds-WP_016459884.1 1.0000 100 cds-WP_016459894.1 1.0000 100 cds-WP_014129100.1 1.0000 100 cds-WP_016459910.1 1.0000 100 cds-WP_009015171.1 1.0000 100 cds-WP_009015179.1 1.0000 100 sigH 1.0000 100 tuf 1.0000 100 rpmG 1.0000 100 nusG 1.0000 100 rplK 1.0000 100 rplA 1.0000 100 rplJ 1.0000 100 rplL 1.0000 100 cds-WP_016459923.1 1.0000 100 cds-WP_009016072.1 1.0000 100 cds-WP_009015334.1 1.0000 100 cds-WP_016459939.1 1.0000 100 cds-WP_014129153.1 1.0000 100 cds-WP_009016330.1 1.0000 100 rpsL 1.0000 100 rpsG 1.0000 100 fusA_2 1.0000 100 tuf_2 1.0000 100 rpsJ 1.0000 100 rplC 1.0000 100 rplD 1.0000 100 rplW 1.0000 100 rplB 1.0000 100 rpsS 1.0000 100 rplV 1.0000 100 rpsC 1.0000 100 rplP 1.0000 100 rpmC 1.0000 100 rpsQ 1.0000 100 rplN 1.0000 100 rplX 1.0000 100 rplE 1.0000 100 cds-WP_009015376.1 1.0000 100 rpsH 1.0000 100 rplF 1.0000 100 rplR 1.0000 100 rpsE 1.0000 100 rpmD 1.0000 100 rplO 1.0000 100 infA 1.0000 100 rpmJ 1.0000 100 rpsM 1.0000 100 rpsK 1.0000 100 rpsD 1.0000 100 cds-WP_016459952.1 1.0000 100 rplQ 1.0000 100 cds-WP_009015360.1 1.0000 100 ychF 1.0000 100 cds-WP_009015349.1 1.0000 100 cds-WP_014129122.1 1.0000 100 cds-WP_009015341.1 1.0000 100 cds-WP_016459956.1 1.0000 100 cds-WP_014129113.1 1.0000 100 cds-WP_009016255.1 1.0000 100 cds-WP_016459974.1 1.0000 100 cds-WP_009015404.1 1.0000 100 cds-FXY56_RS11080 1.0000 100 rpoD 1.0000 100 rplU 1.0000 100 cds-WP_009014965.1 1.0000 100 rpmA 1.0000 100 rpoB 1.0000 100 rpoC 1.0000 100 cds-WP_016459996.1 1.0000 100 cds-WP_016459998.1 1.0000 100 cds-WP_009014933.1 1.0000 100 cds-WP_009014924.1 1.0000 100 cds-WP_009014919.1 1.0000 100 polA 1.0000 100 cds-WP_016460021.1 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 -mod zoops -nmotifs 3 -minw 6 -maxw 50 -maxsites 50 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= 50 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= 19700 N= 197 sample: seed= 0 hsfrac= 0 searchsize= 19700 norand= no csites= 1000 Letter frequencies in dataset: A 0.301 C 0.202 G 0.217 T 0.28 Background letter frequencies (from file dataset with add-one prior applied): A 0.3 C 0.202 G 0.217 T 0.28 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF GDAAGGAGG MEME-1 width = 9 sites = 50 llr = 455 E-value = 5.6e-033 ******************************************************************************** -------------------------------------------------------------------------------- Motif GDAAGGAGG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 23a9::a:: pos.-specific C 11::::::1 probability G 64:1aa:99 matrix T 12:::::11 bits 2.3 ** 2.1 ** 1.8 ** * 1.6 * ***** Relative 1.4 ******* Entropy 1.2 ******* (13.1 bits) 0.9 ******* 0.7 * ******* 0.5 * ******* 0.2 ********* 0.0 --------- Multilevel GGAAGGAGG consensus A sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GDAAGGAGG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------- cds-FXY56_RS11080 82 2.82e-06 GATGATGAGG GGAAGGAGG GAACGCTCAA rpsH 82 2.82e-06 CGCAAATTCA GGAAGGAGG ATATTCGCAA rplE 85 2.82e-06 AAATAATACG GGAAGGAGG AGAACAA rplV 83 2.82e-06 AATAATTAGG GGAAGGAGG AACCATACG cds-WP_009015006.1 30 2.82e-06 CGATAAATAG GGAAGGAGG ATATGCAAGT cds-WP_009015404.1 87 6.72e-06 TACAACAAAT GAAAGGAGG TTCCC rpsS 84 6.72e-06 CAAGTACTGG GAAAGGAGG CATAACCC rplD 84 6.72e-06 GAAATAATTC GAAAGGAGG GCGTTACA rpsL 85 6.72e-06 TTATTCTTGA GAAAGGAGG TGCCGGA cds-WP_009016072.1 85 6.72e-06 ATTAAGTCAT GAAAGGAGG CCCCTTG rpsK 82 1.04e-05 AGAAATAATC GTAAGGAGG GATCAGACGA infA 85 1.04e-05 TAAAGGGTAA GTAAGGAGG CAGGATT cds-WP_009015376.1 83 1.04e-05 CGTTCAGTGC GTAAGGAGG AGTAAAACC rplC 85 1.04e-05 AGATCAAAGC GTAAGGAGG TGCGATG sigH 85 1.04e-05 CCCGCAAGGT GTAAGGAGG CGATGGG rpmH 84 1.04e-05 CACCTTTGAA GTAAGGAGG GTTAATAG rplJ 83 1.30e-05 ATATCTAAAC GCAAGGAGG TGTTTCTTG cds-WP_009015179.1 85 1.30e-05 TATAATAGGA GCAAGGAGG GACGATC rpsM 81 1.95e-05 GACAAGGTTA AGAAGGAGG TGCTTTGAAT rplX 82 1.95e-05 AAGTACTCTA AGAAGGAGG TATCGCGAAC rpsQ 65 1.95e-05 TATACCTAAG CGAAGGAGG CAACATTTCG rplP 83 1.95e-05 CTGAAGGGCA AGAAGGAGG GGCGAAATA rpsC 83 1.95e-05 TCATCCTGTC AGAAGGAGG GAATGAATA rpsG 84 1.95e-05 TGATTCATAA CGAAGGAGG AATTACAG rpmB 85 1.95e-05 CTTATTAGCT AGAAGGAGG TGGGACC cds-WP_009015986.1 85 1.95e-05 CGATACCCCT AGAAGGAGG AAACACA cds-WP_016459952.1 85 2.85e-05 GGTAATGCGC AAAAGGAGG CTTCCGC cds-WP_009014881.1 87 2.85e-05 CTAAAAATCT CAAAGGAGG CCATC rpmD 84 3.90e-05 AATTGTTAGG CTAAGGAGG ACAGCGAG rplB 85 3.90e-05 TGTAATTCGT CTAAGGAGG TCAAAAC rpsU 85 3.90e-05 AAGAGATCGT GGAGGGAGG GATATAG cds-WP_009016243.1 85 4.16e-05 TAAAGCATAA GGAAGGAGC CCTTGCC cds-WP_014128654.1 84 5.17e-05 AAACCGGTAA GAAGGGAGG ATCCCATC rpoC 84 6.14e-05 ATGAAGAGTA GGAAGGAGT GAGTGCTC rplU 51 6.14e-05 CAAAAACTCC GGAAGGAGT ACCGTATTCG fusA_2 84 6.14e-05 ACCAATCATT ACAAGGAGG AGTAATCT cds-WP_009014620.1 87 6.14e-05 CTAAGAAAGA CCAAGGAGG CTATC cds-WP_016459392.1 83 6.14e-05 AAGAAGCGGT GGAAGGAGT GACGGTAAA cds-WP_014129153.1 84 6.50e-05 CGGATAGGCG GAAAGGAGC CCTCGCTC cds-WP_009016341.1 85 6.50e-05 TGTGAACATC GAAAGGAGC GATGCTG cds-WP_009015334.1 25 7.77e-05 GGGGATCGGA GAAAGGATG AGATGTTTTG prmA 86 7.77e-05 TGATAACAAA GAAAGGATG AAGCAA atpF 84 7.77e-05 CAGTTTCCGA GAAAGGATG TGCTTTGA dnaX 86 7.77e-05 ACAACAGAGA GAAAGGATG GATTCC cds-WP_016459998.1 85 9.55e-05 AAAACTACTA TTAAGGAGG ATCCTCC rplO 85 9.55e-05 AAGTCAAGGC TTAAGGAGG GCTTGCG cds-WP_009015502.1 88 9.55e-05 AGTTCAACTA TTAAGGAGG AACC rpsE 84 1.14e-04 GAATTTTAAC AGAGGGAGG ACATTTAA cds-WP_016459939.1 31 1.24e-04 TACTTTTAGA GAAAGGGGG AGTAAGGATA rplK 82 1.42e-04 AATAGAGTAA GATAGGAGG TGGAATTGAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GDAAGGAGG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- cds-FXY56_RS11080 2.8e-06 81_[+1]_10 rpsH 2.8e-06 81_[+1]_10 rplE 2.8e-06 84_[+1]_7 rplV 2.8e-06 82_[+1]_9 cds-WP_009015006.1 2.8e-06 29_[+1]_62 cds-WP_009015404.1 6.7e-06 86_[+1]_5 rpsS 6.7e-06 83_[+1]_8 rplD 6.7e-06 83_[+1]_8 rpsL 6.7e-06 84_[+1]_7 cds-WP_009016072.1 6.7e-06 84_[+1]_7 rpsK 1e-05 81_[+1]_10 infA 1e-05 84_[+1]_7 cds-WP_009015376.1 1e-05 82_[+1]_9 rplC 1e-05 84_[+1]_7 sigH 1e-05 84_[+1]_7 rpmH 1e-05 83_[+1]_8 rplJ 1.3e-05 82_[+1]_9 cds-WP_009015179.1 1.3e-05 84_[+1]_7 rpsM 2e-05 80_[+1]_11 rplX 2e-05 81_[+1]_10 rpsQ 2e-05 64_[+1]_27 rplP 2e-05 82_[+1]_9 rpsC 2e-05 82_[+1]_9 rpsG 2e-05 83_[+1]_8 rpmB 2e-05 84_[+1]_7 cds-WP_009015986.1 2e-05 84_[+1]_7 cds-WP_016459952.1 2.9e-05 84_[+1]_7 cds-WP_009014881.1 2.9e-05 86_[+1]_5 rpmD 3.9e-05 83_[+1]_8 rplB 3.9e-05 84_[+1]_7 rpsU 3.9e-05 84_[+1]_7 cds-WP_009016243.1 4.2e-05 84_[+1]_7 cds-WP_014128654.1 5.2e-05 83_[+1]_8 rpoC 6.1e-05 83_[+1]_8 rplU 6.1e-05 50_[+1]_41 fusA_2 6.1e-05 83_[+1]_8 cds-WP_009014620.1 6.1e-05 86_[+1]_5 cds-WP_016459392.1 6.1e-05 82_[+1]_9 cds-WP_014129153.1 6.5e-05 83_[+1]_8 cds-WP_009016341.1 6.5e-05 84_[+1]_7 cds-WP_009015334.1 7.8e-05 24_[+1]_67 prmA 7.8e-05 85_[+1]_6 atpF 7.8e-05 83_[+1]_8 dnaX 7.8e-05 85_[+1]_6 cds-WP_016459998.1 9.6e-05 84_[+1]_7 rplO 9.6e-05 84_[+1]_7 cds-WP_009015502.1 9.6e-05 87_[+1]_4 rpsE 0.00011 83_[+1]_8 cds-WP_016459939.1 0.00012 30_[+1]_61 rplK 0.00014 81_[+1]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GDAAGGAGG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GDAAGGAGG width=9 seqs=50 cds-FXY56_RS11080 ( 82) GGAAGGAGG 1 rpsH ( 82) GGAAGGAGG 1 rplE ( 85) GGAAGGAGG 1 rplV ( 83) GGAAGGAGG 1 cds-WP_009015006.1 ( 30) GGAAGGAGG 1 cds-WP_009015404.1 ( 87) GAAAGGAGG 1 rpsS ( 84) GAAAGGAGG 1 rplD ( 84) GAAAGGAGG 1 rpsL ( 85) GAAAGGAGG 1 cds-WP_009016072.1 ( 85) GAAAGGAGG 1 rpsK ( 82) GTAAGGAGG 1 infA ( 85) GTAAGGAGG 1 cds-WP_009015376.1 ( 83) GTAAGGAGG 1 rplC ( 85) GTAAGGAGG 1 sigH ( 85) GTAAGGAGG 1 rpmH ( 84) GTAAGGAGG 1 rplJ ( 83) GCAAGGAGG 1 cds-WP_009015179.1 ( 85) GCAAGGAGG 1 rpsM ( 81) AGAAGGAGG 1 rplX ( 82) AGAAGGAGG 1 rpsQ ( 65) CGAAGGAGG 1 rplP ( 83) AGAAGGAGG 1 rpsC ( 83) AGAAGGAGG 1 rpsG ( 84) CGAAGGAGG 1 rpmB ( 85) AGAAGGAGG 1 cds-WP_009015986.1 ( 85) AGAAGGAGG 1 cds-WP_016459952.1 ( 85) AAAAGGAGG 1 cds-WP_009014881.1 ( 87) CAAAGGAGG 1 rpmD ( 84) CTAAGGAGG 1 rplB ( 85) CTAAGGAGG 1 rpsU ( 85) GGAGGGAGG 1 cds-WP_009016243.1 ( 85) GGAAGGAGC 1 cds-WP_014128654.1 ( 84) GAAGGGAGG 1 rpoC ( 84) GGAAGGAGT 1 rplU ( 51) GGAAGGAGT 1 fusA_2 ( 84) ACAAGGAGG 1 cds-WP_009014620.1 ( 87) CCAAGGAGG 1 cds-WP_016459392.1 ( 83) GGAAGGAGT 1 cds-WP_014129153.1 ( 84) GAAAGGAGC 1 cds-WP_009016341.1 ( 85) GAAAGGAGC 1 cds-WP_009015334.1 ( 25) GAAAGGATG 1 prmA ( 86) GAAAGGATG 1 atpF ( 84) GAAAGGATG 1 dnaX ( 86) GAAAGGATG 1 cds-WP_016459998.1 ( 85) TTAAGGAGG 1 rplO ( 85) TTAAGGAGG 1 cds-WP_009015502.1 ( 88) TTAAGGAGG 1 rpsE ( 84) AGAGGGAGG 1 cds-WP_016459939.1 ( 31) GAAAGGGGG 1 rplK ( 82) GATAGGAGG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GDAAGGAGG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 9 n= 18124 bayes= 10.1087 E= 5.6e-033 -74 -75 156 -222 9 -134 81 -35 171 -1229 -1229 -380 165 -1229 -186 -1229 -1229 -1229 220 -1229 -1229 -1229 220 -1229 171 -1229 -344 -1229 -1229 -1229 208 -181 -1229 -175 202 -222 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GDAAGGAGG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 9 nsites= 50 E= 5.6e-033 0.180000 0.120000 0.640000 0.060000 0.320000 0.080000 0.380000 0.220000 0.980000 0.000000 0.000000 0.020000 0.940000 0.000000 0.060000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.980000 0.000000 0.020000 0.000000 0.000000 0.000000 0.920000 0.080000 0.000000 0.060000 0.880000 0.060000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GDAAGGAGG MEME-1 regular expression -------------------------------------------------------------------------------- G[GAT]AAGGAGG -------------------------------------------------------------------------------- Time 15.21 secs. ******************************************************************************** ******************************************************************************** MOTIF TTCCTCCT MEME-2 width = 8 sites = 42 llr = 353 E-value = 2.1e-010 ******************************************************************************** -------------------------------------------------------------------------------- Motif TTCCTCCT MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::::::22 pos.-specific C 11aa2a8: probability G 2::::::2 matrix T 79::8::6 bits 2.3 ** * 2.1 ** * 1.8 ** * 1.6 ** * Relative 1.4 *** ** Entropy 1.2 ****** (12.1 bits) 0.9 ****** 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TTCCTCCT consensus AG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTCCT MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- rpsF 84 1.02e-05 TCGTTTAGGT TTCCTCCT CCACTAAAG cds-WP_009015095.1 85 1.02e-05 TTCGGTTAAA TTCCTCCT ATACTTAG cds-WP_016459715.1 88 1.02e-05 ACTATGAACT TTCCTCCT AAGGA cds-WP_009015521.1 88 1.02e-05 CCGTACCTTG TTCCTCCT TTTCT cds-WP_014128302.1 81 1.02e-05 GTGTTGGGAT TTCCTCCT AAAGAAACTG cds-WP_009016044.1 83 1.02e-05 CGTTGAAAGG TTCCTCCT TTGAGTAGAG rpmI 85 1.02e-05 AGGTTTATTA TTCCTCCT ATAGGTAA rplT 85 1.02e-05 TAACTCTTGC TTCCTCCT ATACCTTT cds-WP_016459584.1 89 1.82e-05 TTACAAATAT TTCCTCCG TTAG cds-WP_009015227.1 89 1.82e-05 TATGCACGGG TTCCTCCG TAGG rpmA 9 2.61e-05 AAACCGAA GTCCTCCT GCGGACCATG cds-WP_014128377.1 83 2.61e-05 ACTAAAAACA GTCCTCCT CCACCGAATG cds-WP_009016340.1 86 2.61e-05 TAACTGGCTA GTCCTCCT TTCGGGA cds-WP_014129178.1 87 4.44e-05 CTCTTCTTCT TTCCCCCT ATAGGG dnaN 87 4.44e-05 AAGAGTGAAT TTCCTCCA AAAGAG cds-WP_016459823.1 85 4.44e-05 TGTCAACGCT TTCCTCCA CTTTTTTT rpsP 86 4.44e-05 TTTAAGGAAA TTCCTCCA CTTTTAA rplS 85 5.18e-05 GAATCTAAGA CTCCTCCT TGATCATT cds-WP_009015498.1 88 5.18e-05 CCGAACATGC CTCCTCCT CATAA cds-WP_009015171.1 86 7.32e-05 GTCGTGGTCT TTCCTCAT TCTACAG cds-WP_009014699.1 87 7.32e-05 TAGACCTTCT TTCCTCAT GTCGGT rpsR 25 7.89e-05 CGGGTCTTGG TTCCCCCG TACCTTTCGA fusA 87 7.89e-05 TAAGCTATAT TTCCCCCG TTATTG holA 3 7.89e-05 GC TTCCCCCG CGGTAGTTCC cds-WP_009014756.1 86 7.89e-05 TTTTCGTTTC TTCCCCCG GAAACAG cds-WP_009015360.1 84 9.20e-05 AGGGAAACCC TCCCTCCT GTTGAGTGA cds-WP_009015071.1 88 9.20e-05 ATTGTTCAAC TCCCTCCT TCAAG cds-WP_009016239.1 90 1.04e-04 TAAATTTTCT TTCCTCAG AGA cds-WP_016459650.1 89 1.04e-04 AAAATAACTA TTCCTCAG GAAA greA 86 1.04e-04 GTTTCGGCTT TTCCTCAG CACTTGC cds-WP_009014933.1 25 1.18e-04 GGGAATGTAA GTCCCCCT TCCGGAGAAA cds-WP_016459996.1 90 1.18e-04 TTAATTAAAG GTCCTCCA CGG cds-WP_016459884.1 87 1.37e-04 AAATATAATA ATCCTCCT GTAGAA rplM 87 1.37e-04 CCAAAAATAA ATCCTCCT TAGTCC rplO 26 1.43e-04 AGATAGTGCT TCCCTCCG TGGTATGCTC cds-WP_009016184.1 86 1.68e-04 TTGGAAATAG CTCCTCCA AAACTCG cds-WP_014128654.1 46 1.68e-04 ACGCGGTACG GTCCTCAT TGTATCATGA cds-WP_009015742.1 36 1.68e-04 CCTTGATGGA CTCCTCCA ACTGAGAGCC atpF 33 1.68e-04 TATCGCCATT GTCCTCAT CTTTGCCAAT cds-WP_227077601.1 82 1.99e-04 TAGAATTCAA TTCCTCAA CGTACTAATT cds-WP_009015816.1 4 1.99e-04 ATG TTCCCCAT CTTCTTCACA cds-WP_009015107.1 18 2.16e-04 CCATGATTTT TGCCTCCT TGGTACTTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTCCT MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- rpsF 1e-05 83_[+2]_9 cds-WP_009015095.1 1e-05 84_[+2]_8 cds-WP_016459715.1 1e-05 87_[+2]_5 cds-WP_009015521.1 1e-05 87_[+2]_5 cds-WP_014128302.1 1e-05 80_[+2]_12 cds-WP_009016044.1 1e-05 82_[+2]_10 rpmI 1e-05 84_[+2]_8 rplT 1e-05 84_[+2]_8 cds-WP_016459584.1 1.8e-05 88_[+2]_4 cds-WP_009015227.1 1.8e-05 88_[+2]_4 rpmA 2.6e-05 8_[+2]_84 cds-WP_014128377.1 2.6e-05 82_[+2]_10 cds-WP_009016340.1 2.6e-05 85_[+2]_7 cds-WP_014129178.1 4.4e-05 86_[+2]_6 dnaN 4.4e-05 86_[+2]_6 cds-WP_016459823.1 4.4e-05 84_[+2]_8 rpsP 4.4e-05 85_[+2]_7 rplS 5.2e-05 84_[+2]_8 cds-WP_009015498.1 5.2e-05 87_[+2]_5 cds-WP_009015171.1 7.3e-05 85_[+2]_7 cds-WP_009014699.1 7.3e-05 86_[+2]_6 rpsR 7.9e-05 24_[+2]_68 fusA 7.9e-05 86_[+2]_6 holA 7.9e-05 2_[+2]_90 cds-WP_009014756.1 7.9e-05 85_[+2]_7 cds-WP_009015360.1 9.2e-05 83_[+2]_9 cds-WP_009015071.1 9.2e-05 87_[+2]_5 cds-WP_009016239.1 0.0001 89_[+2]_3 cds-WP_016459650.1 0.0001 88_[+2]_4 greA 0.0001 85_[+2]_7 cds-WP_009014933.1 0.00012 24_[+2]_68 cds-WP_016459996.1 0.00012 89_[+2]_3 cds-WP_016459884.1 0.00014 86_[+2]_6 rplM 0.00014 86_[+2]_6 rplO 0.00014 25_[+2]_67 cds-WP_009016184.1 0.00017 85_[+2]_7 cds-WP_014128654.1 0.00017 45_[+2]_47 cds-WP_009015742.1 0.00017 35_[+2]_57 atpF 0.00017 32_[+2]_60 cds-WP_227077601.1 0.0002 81_[+2]_11 cds-WP_009015816.1 0.0002 3_[+2]_89 cds-WP_009015107.1 0.00022 17_[+2]_75 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTCCT MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TTCCTCCT width=8 seqs=42 rpsF ( 84) TTCCTCCT 1 cds-WP_009015095.1 ( 85) TTCCTCCT 1 cds-WP_016459715.1 ( 88) TTCCTCCT 1 cds-WP_009015521.1 ( 88) TTCCTCCT 1 cds-WP_014128302.1 ( 81) TTCCTCCT 1 cds-WP_009016044.1 ( 83) TTCCTCCT 1 rpmI ( 85) TTCCTCCT 1 rplT ( 85) TTCCTCCT 1 cds-WP_016459584.1 ( 89) TTCCTCCG 1 cds-WP_009015227.1 ( 89) TTCCTCCG 1 rpmA ( 9) GTCCTCCT 1 cds-WP_014128377.1 ( 83) GTCCTCCT 1 cds-WP_009016340.1 ( 86) GTCCTCCT 1 cds-WP_014129178.1 ( 87) TTCCCCCT 1 dnaN ( 87) TTCCTCCA 1 cds-WP_016459823.1 ( 85) TTCCTCCA 1 rpsP ( 86) TTCCTCCA 1 rplS ( 85) CTCCTCCT 1 cds-WP_009015498.1 ( 88) CTCCTCCT 1 cds-WP_009015171.1 ( 86) TTCCTCAT 1 cds-WP_009014699.1 ( 87) TTCCTCAT 1 rpsR ( 25) TTCCCCCG 1 fusA ( 87) TTCCCCCG 1 holA ( 3) TTCCCCCG 1 cds-WP_009014756.1 ( 86) TTCCCCCG 1 cds-WP_009015360.1 ( 84) TCCCTCCT 1 cds-WP_009015071.1 ( 88) TCCCTCCT 1 cds-WP_009016239.1 ( 90) TTCCTCAG 1 cds-WP_016459650.1 ( 89) TTCCTCAG 1 greA ( 86) TTCCTCAG 1 cds-WP_009014933.1 ( 25) GTCCCCCT 1 cds-WP_016459996.1 ( 90) GTCCTCCA 1 cds-WP_016459884.1 ( 87) ATCCTCCT 1 rplM ( 87) ATCCTCCT 1 rplO ( 26) TCCCTCCG 1 cds-WP_009016184.1 ( 86) CTCCTCCA 1 cds-WP_014128654.1 ( 46) GTCCTCAT 1 cds-WP_009015742.1 ( 36) CTCCTCCA 1 atpF ( 33) GTCCTCAT 1 cds-WP_227077601.1 ( 82) TTCCTCAA 1 cds-WP_009015816.1 ( 4) TTCCCCAT 1 cds-WP_009015107.1 ( 18) TGCCTCCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTCCT MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 18321 bayes= 10.6242 E= 2.1e-010 -266 -109 -38 130 -1204 -150 -319 169 -1204 231 -1204 -1204 -1204 231 -1204 -1204 -1204 -28 -1204 157 -1204 231 -1204 -1204 -49 196 -1204 -1204 -85 -1204 13 109 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTCCT MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 42 E= 2.1e-010 0.047619 0.095238 0.166667 0.690476 0.000000 0.071429 0.023810 0.904762 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.166667 0.000000 0.833333 0.000000 1.000000 0.000000 0.000000 0.214286 0.785714 0.000000 0.000000 0.166667 0.000000 0.238095 0.595238 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TTCCTCCT MEME-2 regular expression -------------------------------------------------------------------------------- TTCCTC[CA][TG] -------------------------------------------------------------------------------- Time 29.57 secs. ******************************************************************************** ******************************************************************************** MOTIF HTATGRTATAATA MEME-3 width = 13 sites = 25 llr = 256 E-value = 1.1e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif HTATGRTATAATA MEME-3 Description -------------------------------------------------------------------------------- Simplified A 217:24:a289:8 pos.-specific C 31:1::::2:::: probability G ::3185::::::2 matrix T 48:8:1a:62:a: bits 2.3 2.1 1.8 ** * 1.6 ** * Relative 1.4 * ** ** Entropy 1.2 * ** ** *** (14.8 bits) 0.9 **** ** **** 0.7 ******* **** 0.5 ************* 0.2 ************* 0.0 ------------- Multilevel TTATGGTATAATA consensus C G AA A G sequence A C -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTATGRTATAATA MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------- cds-WP_009015816.1 22 4.22e-07 CTTCTTCACA ATATGGTATAATA CGAGTAGCCA cds-WP_014129182.1 65 5.17e-07 AATTATTTAT TTGTGATATAATA ACCTCATCTT cds-WP_016459408.1 31 1.10e-06 AAAATTTGGG CTATGATAAAATA AATAGGCTAT cds-WP_009015107.1 37 1.51e-06 GGTACTTGCT TTGTGATACAATA TTCTCTATAC prmA 60 1.51e-06 AGCGCCCTAC CTGTGGTATAATG AGCTGATAAC polA 20 2.02e-06 GCTTCGTCCA ATATGGTATAATG ACAGGGATCC cds-WP_014129100.1 66 2.02e-06 AGGGTAAAAC CTGTGATAAAATA AAAAAGGAAA ychF 53 2.24e-06 AATCCCCTTG CTGTGATATAATG ATATGTCAAC cds-WP_009015702.1 57 2.80e-06 AAAGCCCAAA ATATGATAAAATA GGGGAGATAT rpsU 30 2.80e-06 TACCCCTCTT TTACGGTATAATA ACCGAGTGTT cds-WP_009015179.1 69 4.87e-06 CCTATCCTGT CAATGGTATAATA GGAGCAAGGA cds-WP_016459536.1 58 4.87e-06 TACATTAGTA ATATAGTATAATA GTATTTATAA cds-WP_016459693.1 74 5.22e-06 TATATCTATA ATATGATATTATA GAAGAGGTGA cds-WP_226828510.1 74 8.58e-06 GGACCAGCTC TCATGATACAATA AGATGAAAGA cds-WP_009016236.1 44 8.58e-06 TACATCTCTA TTATGATATGATA GGTGAAAGCT cds-WP_009015810.1 34 9.69e-06 CCTTGAGGAT TTGTAGTAAAATA AGGTACATAT rpmB 34 1.21e-05 AACTCTTTGT TTGTGTTAAAATA CTTGCATTGA cds-WP_016459910.1 45 1.55e-05 TTTTTGAAAT TTATAGTAAAATG GTATGGCAAG cds-WP_016459996.1 56 1.84e-05 TTAAAATCTA TTATAGTACTATA TAATAGAAAT cds-WP_009015819.1 56 1.84e-05 AATCATCTAA CTAGAGTATAATA TAACTAACTA cds-WP_009015006.1 7 2.09e-05 ATCCTG CCATGATACAATG CGATAAATAG cds-WP_009015972.1 15 2.58e-05 GTGATGTTTC ATAGGGTATTATA AAAAATCATG fusA 52 3.88e-05 TCGCTTTTTC CTATGGTACTCTA ACAATGCTTA cds-WP_016459923.1 14 4.12e-05 GTTTAATTTA TAGTGTTATAATA TGAAATAAAT cds-WP_016459715.1 37 5.85e-05 AAGGATAGTT TTACGATATATTA TCTTGTAGGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTATGRTATAATA MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- cds-WP_009015816.1 4.2e-07 21_[+3]_66 cds-WP_014129182.1 5.2e-07 64_[+3]_23 cds-WP_016459408.1 1.1e-06 30_[+3]_57 cds-WP_009015107.1 1.5e-06 36_[+3]_51 prmA 1.5e-06 59_[+3]_28 polA 2e-06 19_[+3]_68 cds-WP_014129100.1 2e-06 65_[+3]_22 ychF 2.2e-06 52_[+3]_35 cds-WP_009015702.1 2.8e-06 56_[+3]_31 rpsU 2.8e-06 29_[+3]_58 cds-WP_009015179.1 4.9e-06 68_[+3]_19 cds-WP_016459536.1 4.9e-06 57_[+3]_30 cds-WP_016459693.1 5.2e-06 73_[+3]_14 cds-WP_226828510.1 8.6e-06 73_[+3]_14 cds-WP_009016236.1 8.6e-06 43_[+3]_44 cds-WP_009015810.1 9.7e-06 33_[+3]_54 rpmB 1.2e-05 33_[+3]_54 cds-WP_016459910.1 1.5e-05 44_[+3]_43 cds-WP_016459996.1 1.8e-05 55_[+3]_32 cds-WP_009015819.1 1.8e-05 55_[+3]_32 cds-WP_009015006.1 2.1e-05 6_[+3]_81 cds-WP_009015972.1 2.6e-05 14_[+3]_73 fusA 3.9e-05 51_[+3]_36 cds-WP_016459923.1 4.1e-05 13_[+3]_74 cds-WP_016459715.1 5.8e-05 36_[+3]_51 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTATGRTATAATA MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF HTATGRTATAATA width=13 seqs=25 cds-WP_009015816.1 ( 22) ATATGGTATAATA 1 cds-WP_014129182.1 ( 65) TTGTGATATAATA 1 cds-WP_016459408.1 ( 31) CTATGATAAAATA 1 cds-WP_009015107.1 ( 37) TTGTGATACAATA 1 prmA ( 60) CTGTGGTATAATG 1 polA ( 20) ATATGGTATAATG 1 cds-WP_014129100.1 ( 66) CTGTGATAAAATA 1 ychF ( 53) CTGTGATATAATG 1 cds-WP_009015702.1 ( 57) ATATGATAAAATA 1 rpsU ( 30) TTACGGTATAATA 1 cds-WP_009015179.1 ( 69) CAATGGTATAATA 1 cds-WP_016459536.1 ( 58) ATATAGTATAATA 1 cds-WP_016459693.1 ( 74) ATATGATATTATA 1 cds-WP_226828510.1 ( 74) TCATGATACAATA 1 cds-WP_009016236.1 ( 44) TTATGATATGATA 1 cds-WP_009015810.1 ( 34) TTGTAGTAAAATA 1 rpmB ( 34) TTGTGTTAAAATA 1 cds-WP_016459910.1 ( 45) TTATAGTAAAATG 1 cds-WP_016459996.1 ( 56) TTATAGTACTATA 1 cds-WP_009015819.1 ( 56) CTAGAGTATAATA 1 cds-WP_009015006.1 ( 7) CCATGATACAATG 1 cds-WP_009015972.1 ( 15) ATAGGGTATTATA 1 fusA ( 52) CTATGGTACTCTA 1 cds-WP_016459923.1 ( 14) TAGTGTTATAATA 1 cds-WP_016459715.1 ( 37) TTACGATATATTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTATGRTATAATA MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 13 n= 17336 bayes= 9.9262 E= 1.1e-004 -32 66 -1129 65 -191 -134 -1129 158 118 -1129 56 -1129 -1129 -134 -144 158 -59 -1129 188 -1129 55 -1129 114 -181 -1129 -1129 -1129 184 173 -1129 -1129 -1129 -32 -1 -1129 100 141 -1129 -244 -81 161 -233 -1129 -280 -1129 -1129 -1129 184 141 -1129 -12 -1129 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTATGRTATAATA MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 13 nsites= 25 E= 1.1e-004 0.240000 0.320000 0.000000 0.440000 0.080000 0.080000 0.000000 0.840000 0.680000 0.000000 0.320000 0.000000 0.000000 0.080000 0.080000 0.840000 0.200000 0.000000 0.800000 0.000000 0.440000 0.000000 0.480000 0.080000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.240000 0.200000 0.000000 0.560000 0.800000 0.000000 0.040000 0.160000 0.920000 0.040000 0.000000 0.040000 0.000000 0.000000 0.000000 1.000000 0.800000 0.000000 0.200000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif HTATGRTATAATA MEME-3 regular expression -------------------------------------------------------------------------------- [TCA]T[AG]T[GA][GA]TA[TAC]AAT[AG] -------------------------------------------------------------------------------- Time 43.40 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- cds-WP_016459392.1 3.93e-02 82_[+1(6.14e-05)]_9 cds-WP_009014620.1 6.24e-02 86_[+1(6.14e-05)]_5 rpoN 1.42e-01 100 cds-WP_016459408.1 9.04e-04 30_[+3(1.10e-06)]_57 cds-WP_009014583.1 6.45e-01 100 cds-WP_016459412.1 3.51e-01 100 cds-WP_009015862.1 1.52e-01 100 dnaX 1.38e-02 85_[+1(7.77e-05)]_6 atpB 5.02e-01 100 atpE 5.45e-01 100 atpF 3.12e-03 83_[+1(7.77e-05)]_8 atpA 8.81e-02 100 atpG 2.97e-01 100 atpD 3.21e-01 100 atpC 7.78e-01 100 prmA 8.21e-05 59_[+3(1.51e-06)]_13_[+1(7.77e-05)]_\ 6 rpsU 3.04e-05 29_[+3(2.80e-06)]_42_[+1(3.90e-05)]_\ 7 rpmF 1.51e-01 100 rpsB 5.08e-01 100 tsf 7.01e-01 100 cds-WP_009015742.1 7.31e-03 100 nusA 2.25e-01 100 cds-WP_014128714.1 9.19e-01 100 cds-WP_014128713.1 1.33e-01 100 infB 3.33e-01 100 rpsO 7.31e-01 100 cds-WP_009015227.1 2.94e-02 88_[+2(1.82e-05)]_4 nrdR 3.05e-01 100 rpoZ 3.18e-01 100 cds-WP_009015819.1 2.57e-02 55_[+3(1.84e-05)]_32 cds-WP_009015816.1 1.85e-05 21_[+3(4.22e-07)]_66 cds-WP_009015810.1 2.11e-02 33_[+3(9.69e-06)]_54 cds-WP_009016341.1 1.76e-02 84_[+1(6.50e-05)]_7 cds-WP_009016340.1 1.60e-02 85_[+2(2.61e-05)]_7 cds-WP_014128654.1 2.24e-03 83_[+1(5.17e-05)]_8 cds-WP_014128528.1 5.49e-01 100 cds-WP_016459506.1 4.28e-02 100 cds-WP_016459508.1 2.99e-01 100 cds-WP_009015429.1 5.72e-01 100 cds-WP_009014699.1 8.26e-02 86_[+2(7.32e-05)]_6 efp 8.21e-01 100 trmFO 7.38e-01 100 codY 2.55e-01 100 scpB 1.85e-01 100 cds-WP_009014733.1 5.92e-01 100 lexA 1.47e-01 100 nusB 3.84e-01 100 cds-WP_009015294.1 2.04e-01 100 cds-WP_016459536.1 1.44e-02 57_[+3(4.87e-06)]_30 cds-WP_009015691.1 2.58e-01 100 cds-WP_016459550.1 1.62e-01 100 cds-WP_009016184.1 7.55e-02 100 cds-WP_014128377.1 1.13e-02 82_[+2(2.61e-05)]_10 cds-WP_016459584.1 1.90e-03 88_[+2(1.82e-05)]_4 hrcA 3.61e-01 100 cds-WP_009014756.1 7.07e-02 85_[+2(7.89e-05)]_7 rpsT 5.67e-01 100 rplT 2.35e-02 84_[+2(1.02e-05)]_8 rpmI 7.27e-03 84_[+2(1.02e-05)]_8 infC 6.41e-01 100 greA 4.56e-02 100 cds-WP_016459604.1 2.91e-01 100 cds-WP_009016044.1 6.30e-03 82_[+2(1.02e-05)]_10 cds-WP_014128302.1 6.03e-03 80_[+2(1.02e-05)]_12 mfd 4.53e-01 100 cds-WP_009016163.1 4.51e-01 100 cds-WP_035195826.1 4.99e-01 100 cds-WP_016459637.1 3.92e-02 100 cds-WP_009015972.1 3.65e-02 14_[+3(2.58e-05)]_73 cds-WP_009015986.1 1.03e-02 84_[+1(1.95e-05)]_7 cds-WP_016459650.1 7.80e-02 100 cds-WP_009016120.1 6.91e-02 100 cds-WP_009015502.1 7.43e-02 87_[+1(9.55e-05)]_4 cds-WP_009015511.1 3.77e-02 100 cds-WP_009015521.1 1.24e-02 87_[+2(1.02e-05)]_5 cds-WP_014128239.1 3.45e-01 100 cds-WP_009016228.1 2.05e-01 100 cds-FXY56_RS11010 3.13e-01 100 cds-WP_009016236.1 1.05e-02 43_[+3(8.58e-06)]_44 cds-WP_016459693.1 1.77e-03 73_[+3(5.22e-06)]_14 cds-WP_009016239.1 7.93e-02 100 cds-WP_227077601.1 1.64e-01 100 cds-WP_009016243.1 3.77e-02 84_[+1(4.16e-05)]_7 cds-WP_009015467.1 1.96e-01 100 cds-WP_014128203.1 8.33e-01 100 rpmE 2.70e-01 100 cds-WP_009015490.1 1.40e-01 100 cds-WP_009015498.1 2.39e-02 87_[+2(5.18e-05)]_5 holA 1.05e-01 2_[+2(7.89e-05)]_90 cds-WP_016459715.1 1.32e-04 36_[+3(5.85e-05)]_38_[+2(1.02e-05)]_\ 5 cds-WP_009014881.1 4.49e-03 86_[+1(2.85e-05)]_5 cds-WP_009014910.1 2.50e-01 100 rpsI 1.33e-01 100 rplM 7.15e-02 100 cds-WP_009015559.1 7.38e-01 100 rplS 1.53e-02 84_[+2(5.18e-05)]_8 rpsP 7.50e-02 85_[+2(4.44e-05)]_7 fusA 1.30e-03 51_[+3(3.88e-05)]_22_[+2(7.89e-05)]_\ 6 rpmB 1.04e-04 33_[+3(1.21e-05)]_38_[+1(1.95e-05)]_\ 7 cds-WP_226828510.1 2.75e-03 73_[+3(8.58e-06)]_14 cds-WP_009015137.1 4.28e-01 100 cds-WP_016459823.1 8.69e-02 84_[+2(4.44e-05)]_8 cds-WP_016459824.1 7.38e-02 100 cds-WP_016459829.1 7.36e-02 100 cds-WP_009015071.1 6.62e-02 87_[+2(9.20e-05)]_5 cds-WP_009015095.1 6.30e-03 84_[+2(1.02e-05)]_8 cds-WP_009015107.1 8.23e-05 36_[+3(1.51e-06)]_51 rpsR 9.20e-02 24_[+2(7.89e-05)]_68 rpsF 2.20e-02 83_[+2(1.02e-05)]_9 cds-WP_009015735.1 4.46e-01 100 cds-WP_009015709.1 4.80e-02 100 cds-WP_009015702.1 1.09e-03 56_[+3(2.80e-06)]_31 dnaN 1.93e-02 86_[+2(4.44e-05)]_6 cds-WP_232048567.1 1.80e-01 100 rpmH 9.85e-03 83_[+1(1.04e-05)]_8 cds-WP_009015006.1 4.18e-05 6_[+3(2.09e-05)]_10_[+1(2.82e-06)]_\ 62 cds-WP_009015011.1 9.90e-02 100 cds-WP_014129182.1 4.18e-04 64_[+3(5.17e-07)]_23 cds-WP_014129178.1 7.63e-02 86_[+2(4.44e-05)]_6 rplI 7.30e-01 100 cds-WP_016459877.1 2.89e-01 100 cds-WP_016459884.1 4.53e-03 100 cds-WP_016459894.1 1.65e-01 100 cds-WP_014129100.1 4.25e-05 65_[+3(2.02e-06)]_22 cds-WP_016459910.1 1.44e-02 44_[+3(1.55e-05)]_43 cds-WP_009015171.1 2.15e-02 85_[+2(7.32e-05)]_7 cds-WP_009015179.1 7.65e-06 68_[+3(4.87e-06)]_3_[+1(1.30e-05)]_\ 7 sigH 9.12e-04 84_[+1(1.04e-05)]_7 tuf 3.03e-01 100 rpmG 2.44e-01 100 nusG 2.05e-01 100 rplK 3.83e-03 100 rplA 2.75e-01 100 rplJ 8.52e-03 82_[+1(1.30e-05)]_9 rplL 5.13e-01 100 cds-WP_016459923.1 1.58e-02 13_[+3(4.12e-05)]_74 cds-WP_009016072.1 1.72e-03 84_[+1(6.72e-06)]_7 cds-WP_009015334.1 6.88e-03 24_[+1(7.77e-05)]_67 cds-WP_016459939.1 1.75e-03 100 cds-WP_014129153.1 5.83e-02 83_[+1(6.50e-05)]_8 cds-WP_009016330.1 4.09e-01 100 rpsL 1.77e-03 84_[+1(6.72e-06)]_7 rpsG 4.17e-02 83_[+1(1.95e-05)]_8 fusA_2 5.74e-02 83_[+1(6.14e-05)]_8 tuf_2 1.23e-01 100 rpsJ 6.69e-01 100 rplC 5.55e-03 84_[+1(1.04e-05)]_7 rplD 5.81e-03 83_[+1(6.72e-06)]_8 rplW 7.39e-01 100 rplB 6.09e-02 84_[+1(3.90e-05)]_7 rpsS 1.45e-02 83_[+1(6.72e-06)]_8 rplV 3.99e-03 82_[+1(2.82e-06)]_9 rpsC 1.90e-02 82_[+1(1.95e-05)]_9 rplP 1.45e-02 82_[+1(1.95e-05)]_9 rpmC 8.44e-01 100 rpsQ 2.26e-02 64_[+1(1.95e-05)]_27 rplN 7.69e-02 100 rplX 2.10e-02 81_[+1(1.95e-05)]_10 rplE 2.39e-03 84_[+1(2.82e-06)]_7 cds-WP_009015376.1 2.82e-02 82_[+1(1.04e-05)]_9 rpsH 3.33e-03 81_[+1(2.82e-06)]_10 rplF 5.42e-01 100 rplR 2.41e-01 100 rpsE 1.55e-01 100 rpmD 4.31e-02 83_[+1(3.90e-05)]_8 rplO 1.75e-03 84_[+1(9.55e-05)]_7 infA 1.40e-02 84_[+1(1.04e-05)]_7 rpmJ 4.21e-01 100 rpsM 1.23e-02 80_[+1(1.95e-05)]_11 rpsK 4.66e-03 81_[+1(1.04e-05)]_10 rpsD 1.00e-01 100 cds-WP_016459952.1 6.83e-03 84_[+1(2.85e-05)]_7 rplQ 1.35e-01 100 cds-WP_009015360.1 8.19e-02 83_[+2(9.20e-05)]_9 ychF 1.32e-03 52_[+3(2.24e-06)]_35 cds-WP_009015349.1 5.34e-02 100 cds-WP_014129122.1 2.23e-01 100 cds-WP_009015341.1 1.57e-01 100 cds-WP_016459956.1 5.45e-01 100 cds-WP_014129113.1 3.07e-01 100 cds-WP_009016255.1 6.03e-01 100 cds-WP_016459974.1 1.13e-01 100 cds-WP_009015404.1 5.66e-03 86_[+1(6.72e-06)]_5 cds-FXY56_RS11080 4.09e-03 81_[+1(2.82e-06)]_10 rpoD 8.01e-01 100 rplU 7.99e-02 50_[+1(6.14e-05)]_41 cds-WP_009014965.1 3.40e-01 100 rpmA 1.61e-02 8_[+2(2.61e-05)]_84 rpoB 5.70e-02 100 rpoC 5.83e-02 83_[+1(6.14e-05)]_8 cds-WP_016459996.1 3.96e-04 55_[+3(1.84e-05)]_32 cds-WP_016459998.1 4.94e-02 84_[+1(9.55e-05)]_7 cds-WP_009014933.1 5.56e-02 100 cds-WP_009014924.1 1.38e-01 100 cds-WP_009014919.1 1.06e-01 100 polA 3.39e-04 19_[+3(2.02e-06)]_68 cds-WP_016460021.1 6.63e-01 100 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (3) found. ******************************************************************************** CPU: kodomo ********************************************************************************