MEME

Search sequence databases for the best combined matches with these motifs using MAST.
Search sequence databases for all matches with these motifs using FIMO.
Find Genome Ontology terms associated with upstream sequences matching these motifs using GOMO.
Submit these motifs to BLOCKS multiple alignment processor.

MEME - Motif discovery tool

MEME version 4.3.0 (Release date: Sat Sep 26 01:51:56 PDT 2009)

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

This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://meme.sdsc.edu.

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

DATAFILE= meme_out/meme.fasta
ALPHABET= ACGT
Sequence name	Weight	Length	Sequence name	Weight	Length
CT0002	1.0000	34	CT0003	1.0000	34
CT0004	1.0000	34	CT0006	1.0000	34
CT0007	1.0000	34	CT0008	1.0000	34
CT0009	1.0000	34	CT0010	1.0000	34
CT0011	1.0000	34	CT0013	1.0000	34
CT0014	1.0000	34	CT0015	1.0000	34
CT0016	1.0000	34	CT0018	1.0000	34
CT0019	1.0000	34	CT0020	1.0000	34
CT0021	1.0000	34	CT0024	1.0000	34
CT0028	1.0000	34	CT0029	1.0000	34
CT0030	1.0000	34	CT0031	1.0000	34
CT0032	1.0000	34	CT0033	1.0000	34
CT0034	1.0000	34	CT0035	1.0000	34
CT0036	1.0000	34	CT0037	1.0000	34
CT0038	1.0000	34	CT0039	1.0000	34
CT0040	1.0000	34	CT0043	1.0000	34
CT0046	1.0000	34	CT0047	1.0000	34
CT0048	1.0000	34	CT0049	1.0000	34
CT0051	1.0000	34	CT0052	1.0000	34
CT0053	1.0000	34	CT0054	1.0000	34
CT0055	1.0000	34	CT0056	1.0000	34
CT0057	1.0000	34	CT0058	1.0000	34
CT0063	1.0000	34	CT0064	1.0000	34
CT0066	1.0000	34	CT0067	1.0000	34
CT0068	1.0000	34	CT0070	1.0000	34
CT0072	1.0000	34	CT0073	1.0000	34
CT0075	1.0000	34	CT0077	1.0000	34
CT0079	1.0000	34	CT0081	1.0000	34
CT0083	1.0000	34	CT0084	1.0000	34
CT0088	1.0000	34	CT0089	1.0000	34
CT0090	1.0000	34	CT0091	1.0000	34
CT0092	1.0000	34	CT0093	1.0000	34
CT0094	1.0000	34	CT0095	1.0000	34
CT0097	1.0000	34	CT0098	1.0000	34
CT0099	1.0000	34	CT0102	1.0000	34
CT0103	1.0000	34	CT0104	1.0000	34
CT0105	1.0000	34	CT0106	1.0000	34
CT0107	1.0000	34	CT0108	1.0000	34
CT0110	1.0000	34	CT0112	1.0000	34
CT0113	1.0000	34	CT0114	1.0000	34
CT0116	1.0000	34	CT0117	1.0000	34
CT0120	1.0000	34	CT0121	1.0000	34
CT0123	1.0000	34	CT0124	1.0000	34
CT0125	1.0000	34	CT0126	1.0000	34
CT0127	1.0000	34	CT0129	1.0000	34
CT0130	1.0000	34	CT0132	1.0000	34
CT0133	1.0000	34	CT0134	1.0000	34
CT0138	1.0000	34	CT0139	1.0000	34
CT0140	1.0000	34	CT0141	1.0000	34
CT0142	1.0000	34	CT0144	1.0000	34
CT0145	1.0000	34	CT0147	1.0000	34
CT0148	1.0000	34	CT0149	1.0000	34
CT0150	1.0000	34	CT0151	1.0000	34
CT0152	1.0000	34	CT0153	1.0000	34
CT0154	1.0000	34	CT0155	1.0000	34
CT0156	1.0000	34	CT0157	1.0000	34
CT0158	1.0000	34	CT0159	1.0000	34
CT0160	1.0000	34	CT0161	1.0000	34
CT0162	1.0000	34	CT0163	1.0000	34
CT0166	1.0000	34	CT0168	1.0000	34
CT0169	1.0000	34	CT0173	1.0000	34
CT0175	1.0000	34	CT0176	1.0000	34
CT0177	1.0000	34	CT0178	1.0000	34
CT0180	1.0000	34	CT0183	1.0000	34
CT0184	1.0000	34	CT0185	1.0000	34
CT0188	1.0000	34	CT0191	1.0000	34
CT0192	1.0000	34	CT0194	1.0000	34
CT0195	1.0000	34	CT0196	1.0000	34
CT0198	1.0000	34	CT0199	1.0000	34
CT0200	1.0000	34	CT0202	1.0000	34
CT0203	1.0000	34	CT0204	1.0000	34
CT0205	1.0000	34	CT0206	1.0000	34
CT0207	1.0000	34	CT0209	1.0000	34
CT0211	1.0000	34	CT0215	1.0000	34
CT0216	1.0000	34	CT0219	1.0000	34
CT0221	1.0000	34	CT0224	1.0000	34
CT0225	1.0000	34	CT0226	1.0000	34
CT0227	1.0000	34	CT0230	1.0000	34
CT0233	1.0000	34	CT0235	1.0000	34
CT0236	1.0000	34	CT0240	1.0000	34
CT0241	1.0000	34	CT0242	1.0000	34
CT0243	1.0000	34	CT0244	1.0000	34
CT0245	1.0000	34	CT0247	1.0000	34
CT0249	1.0000	34	CT0250	1.0000	34
CT0251	1.0000	34	CT0252	1.0000	34
CT0254	1.0000	34	CT0255	1.0000	34
CT0256	1.0000	34	CT0257	1.0000	34
CT0259	1.0000	34	CT0260	1.0000	34
CT0261	1.0000	34	CT0262	1.0000	34
CT0263	1.0000	34	CT0264	1.0000	34
CT0266	1.0000	34	CT0267	1.0000	34
CT0268	1.0000	34	CT0269	1.0000	34
CT0270	1.0000	34	CT0273	1.0000	34
CT0274	1.0000	34	CT0278	1.0000	34
CT0279	1.0000	34	CT0280	1.0000	34
CT0282	1.0000	34	CT0283	1.0000	34
CT0284	1.0000	34	CT0285	1.0000	34
CT0286	1.0000	34	CT0288	1.0000	34
CT0289	1.0000	34	CT0290	1.0000	34
CT0293	1.0000	34	CT0295	1.0000	34
CT0297	1.0000	34	CT0299	1.0000	34
CT0301	1.0000	34	CT0302	1.0000	34
CT0303	1.0000	34	CT0304	1.0000	34
CT0305	1.0000	34	CT0306	1.0000	34
CT0307	1.0000	34	CT0308	1.0000	34
CT0309	1.0000	34	CT0311	1.0000	34
CT0312	1.0000	34	CT0313	1.0000	34
CT0315	1.0000	34	CT0316	1.0000	34
CT0317	1.0000	34	CT0318	1.0000	34
CT0319	1.0000	34	CT0320	1.0000	34
CT0322	1.0000	34	CT0323	1.0000	34
CT0324	1.0000	34	CT0325	1.0000	34
CT0326	1.0000	34	CT0329	1.0000	34
CT0330	1.0000	34	CT0331	1.0000	34
CT0333	1.0000	34	CT0334	1.0000	34
CT0335	1.0000	34	CT0336	1.0000	34
CT0337	1.0000	34	CT0340	1.0000	34
CT0342	1.0000	34	CT0343	1.0000	34
CT0345	1.0000	34	CT0346	1.0000	34
CT0348	1.0000	34	CT0350	1.0000	34
CT0351	1.0000	34	CT0358	1.0000	34
CT0360	1.0000	34	CT0362	1.0000	34
CT0364	1.0000	34	CT0367	1.0000	34
CT0369	1.0000	34	CT0371	1.0000	34
CT0372	1.0000	34	CT0373	1.0000	34
CT0374	1.0000	34	CT0375	1.0000	34
CT0376	1.0000	34	CT0378	1.0000	34
CT0380	1.0000	34	CT0381	1.0000	34
CT0383	1.0000	34	CT0384	1.0000	34
CT0385	1.0000	34	CT0386	1.0000	34
CT0387	1.0000	34	CT0388	1.0000	34
CT0389	1.0000	34	CT0390	1.0000	34
CT0391	1.0000	34	CT0392	1.0000	34
CT0393	1.0000	34	CT0394	1.0000	34
CT0399	1.0000	34	CT0401	1.0000	34
CT0402	1.0000	34	CT0404	1.0000	34
CT0409	1.0000	34	CT0410	1.0000	34
CT0411	1.0000	34	CT0412	1.0000	34
CT0415	1.0000	34	CT0417	1.0000	34
CT0418	1.0000	34	CT0420	1.0000	34
CT0421	1.0000	34	CT0422	1.0000	34
CT0423	1.0000	34	CT0424	1.0000	34
CT0430	1.0000	34	CT0433	1.0000	34
CT0434	1.0000	34	CT0435	1.0000	34
CT0436	1.0000	34	CT0443	1.0000	34
CT0446	1.0000	34	CT0450	1.0000	34
CT0451	1.0000	34	CT0453	1.0000	34
CT0455	1.0000	34	CT0457	1.0000	34
CT0462	1.0000	34	CT0463	1.0000	34
CT0464	1.0000	34	CT0473	1.0000	34
CT0474	1.0000	34	CT0476	1.0000	34
CT0477	1.0000	34	CT0479	1.0000	34
CT0484	1.0000	34	CT0494	1.0000	34
CT0495	1.0000	34	CT0496	1.0000	34
CT0498	1.0000	34	CT0499	1.0000	34
CT0502	1.0000	34	CT0509	1.0000	34
CT0511	1.0000	34	CT0512	1.0000	34
CT0517	1.0000	34	CT0518	1.0000	34
CT0521	1.0000	34	CT0524	1.0000	34
CT0527	1.0000	34	CT0529	1.0000	34
CT0530	1.0000	34	CT0531	1.0000	34
CT0532	1.0000	34	CT0535	1.0000	34
CT0536	1.0000	34	CT0538	1.0000	34
CT0540	1.0000	34	CT0543	1.0000	34
CT0545	1.0000	34	CT0546	1.0000	34
CT0547	1.0000	34	CT0548	1.0000	34
CT0551	1.0000	34	CT0552	1.0000	34
CT0553	1.0000	34	CT0554	1.0000	34
CT0555	1.0000	34	CT0558	1.0000	34
CT0560	1.0000	34	CT0561	1.0000	34
CT0562	1.0000	34	CT0563	1.0000	34
CT0564	1.0000	34	CT0565	1.0000	34
CT0566	1.0000	34	CT0568	1.0000	34
CT0569	1.0000	34	CT0570	1.0000	34
CT0572	1.0000	34	CT0576	1.0000	34
CT0578	1.0000	34	CT0588	1.0000	34
CT0590	1.0000	34	CT0591	1.0000	34
CT0593	1.0000	34	CT0597	1.0000	34
CT0598	1.0000	34	CT0602	1.0000	34
CT0603	1.0000	34	CT0604	1.0000	34
CT0605	1.0000	34	CT0606	1.0000	34
CT0609	1.0000	34	CT0610	1.0000	34
CT0611	1.0000	34	CT0612	1.0000	34
CT0613	1.0000	34	CT0614	1.0000	34
CT0615	1.0000	34	CT0616	1.0000	34
CT0617	1.0000	34	CT0618	1.0000	34
CT0619	1.0000	34	CT0620	1.0000	34
CT0622	1.0000	34	CT0625	1.0000	34
CT0629	1.0000	34	CT0630	1.0000	34
CT0632	1.0000	34	CT0633	1.0000	34
CT0634	1.0000	34	CT0636	1.0000	34
CT0638	1.0000	34	CT0641	1.0000	34
CT0643	1.0000	34	CT0644	1.0000	34
CT0646	1.0000	34	CT0648	1.0000	34
CT0649	1.0000	34	CT0650	1.0000	34
CT0651	1.0000	34	CT0652	1.0000	34
CT0653	1.0000	34	CT0655	1.0000	34
CT0656	1.0000	34	CT0658	1.0000	34
CT0660	1.0000	34	CT0662	1.0000	34
CT0666	1.0000	34	CT0668	1.0000	34
CT0669	1.0000	34	CT0670	1.0000	34
CT0674	1.0000	34	CT0675	1.0000	34
CT0679	1.0000	34	CT0684	1.0000	34
CT0687	1.0000	34	CT0695	1.0000	34
CT0696	1.0000	34	CT0697	1.0000	34
CT0698	1.0000	34	CT0699	1.0000	34
CT0700	1.0000	34	CT0701	1.0000	34
CT0703	1.0000	34	CT0704	1.0000	34
CT0706	1.0000	34	CT0708	1.0000	34
CT0714	1.0000	34	CT0716	1.0000	34
CT0717	1.0000	34	CT0718	1.0000	34
CT0719	1.0000	34	CT0721	1.0000	34
CT0722	1.0000	34	CT0726	1.0000	34
CT0727	1.0000	34	CT0729	1.0000	34
CT0730	1.0000	34	CT0734	1.0000	34
CT0735	1.0000	34	CT0737	1.0000	34
CT0744	1.0000	34	CT0745	1.0000	34
CT0746	1.0000	34	CT0747	1.0000	34
CT0753	1.0000	34	CT0754	1.0000	34
CT0755	1.0000	34	CT0756	1.0000	34
CT0757	1.0000	34	CT0758	1.0000	34
CT0760	1.0000	34	CT0763	1.0000	34
CT0766	1.0000	34	CT0767	1.0000	34
CT0768	1.0000	34	CT0769	1.0000	34
CT0770	1.0000	34	CT0771	1.0000	34
CT0772	1.0000	34	CT0773	1.0000	34
CT0774	1.0000	34	CT0775	1.0000	34
CT0776	1.0000	34	CT0777	1.0000	34
CT0778	1.0000	34	CT0780	1.0000	34
CT0781	1.0000	34	CT0782	1.0000	34
CT0785	1.0000	34	CT0792	1.0000	34
CT0795	1.0000	34	CT0797	1.0000	34
CT0798	1.0000	34	CT0799	1.0000	34
CT0800	1.0000	34	CT0803	1.0000	34
CT0804	1.0000	34	CT0806	1.0000	34
CT0807	1.0000	34	CT0812	1.0000	34
CT0815	1.0000	34	CT0818	1.0000	34
CT0822	1.0000	34	CT0823	1.0000	34
CT0825	1.0000	34	CT0829	1.0000	34
CT0833	1.0000	34	CT0834	1.0000	34
CT0836	1.0000	34	CT0838	1.0000	34
CT0839	1.0000	34	CT0840	1.0000	34
CT0841	1.0000	34	CT0842	1.0000	34
CT0851	1.0000	34	CT0852	1.0000	34
CT0853	1.0000	34	CT0854	1.0000	34
CT0855	1.0000	34	CT0856	1.0000	34
CT0857	1.0000	34	CT0862	1.0000	34
CT0864	1.0000	34	CT0865	1.0000	34
CT0866	1.0000	34	CT0867	1.0000	34
CT0868	1.0000	34	CT0876	1.0000	34
CT0878	1.0000	34	CT0879	1.0000	34
CT0883	1.0000	34	CT0887	1.0000	34
CT0889	1.0000	34	CT0890	1.0000	34
CT0895	1.0000	34	CT0896	1.0000	34
CT0897	1.0000	34	CT0898	1.0000	34
CT0899	1.0000	34	CT0900	1.0000	34
CT0903	1.0000	34	CT0906	1.0000	34
CT0908	1.0000	34	CT0911	1.0000	34
CT0918	1.0000	34	CT0919	1.0000	34
CT0920	1.0000	34	CT0922	1.0000	34
CT0923	1.0000	34	CT0927	1.0000	34
CT0929	1.0000	34	CT0930	1.0000	34
CT0931	1.0000	34	CT0934	1.0000	34
CT0935	1.0000	34	CT0937	1.0000	34
CT0938	1.0000	34	CT0939	1.0000	34
CT0940	1.0000	34	CT0941	1.0000	34
CT0942	1.0000	34	CT0943	1.0000	34
CT0945	1.0000	34	CT0946	1.0000	34
CT0947	1.0000	34	CT0948	1.0000	34
CT0951	1.0000	34	CT0953	1.0000	34
CT0956	1.0000	34	CT0960	1.0000	34
CT0961	1.0000	34	CT0963	1.0000	34
CT0964	1.0000	34	CT0965	1.0000	34
CT0966	1.0000	34	CT0969	1.0000	34
CT0972	1.0000	34	CT0973	1.0000	34
CT0974	1.0000	34	CT0975	1.0000	34
CT0976	1.0000	34	CT0977	1.0000	34
CT0978	1.0000	34	CT0979	1.0000	34
CT0980	1.0000	34	CT0981	1.0000	34
CT0985	1.0000	34	CT0986	1.0000	34
CT0987	1.0000	34	CT0988	1.0000	34
CT0989	1.0000	34	CT0990	1.0000	34
CT0991	1.0000	34	CT0992	1.0000	34
CT0994	1.0000	34	CT0996	1.0000	34
CT1000	1.0000	34	CT1003	1.0000	34
CT1010	1.0000	34	CT1011	1.0000	34
CT1015	1.0000	34	CT1016	1.0000	34
CT1017	1.0000	34	CT1018	1.0000	34
CT1019	1.0000	34	CT1021	1.0000	34
CT1023	1.0000	34	CT1025	1.0000	34
CT1029	1.0000	34	CT1031	1.0000	34
CT1032	1.0000	34	CT1033	1.0000	34
CT1034	1.0000	34	CT1036	1.0000	34
CT1037	1.0000	34	CT1039	1.0000	34
CT1040	1.0000	34	CT1042	1.0000	34
CT1043	1.0000	34	CT1045	1.0000	34
CT1046	1.0000	34	CT1048	1.0000	34
CT1049	1.0000	34	CT1050	1.0000	34
CT1052	1.0000	34	CT1053	1.0000	34
CT1054	1.0000	34	CT1055	1.0000	34
CT1058	1.0000	34	CT1060	1.0000	34
CT1068	1.0000	34	CT1069	1.0000	34
CT1070	1.0000	34	CT1072	1.0000	34
CT1074	1.0000	34	CT1075	1.0000	34
CT1078	1.0000	34	CT1085	1.0000	34
CT1087	1.0000	34	CT1088	1.0000	34
CT1089	1.0000	34	CT1090	1.0000	34
CT1092	1.0000	34	CT1096	1.0000	34
CT1099	1.0000	34	CT1100	1.0000	34
CT1101	1.0000	34	CT1105	1.0000	34
CT1106	1.0000	34	CT1109	1.0000	34
CT1110	1.0000	34	CT1111	1.0000	34
CT1112	1.0000	34	CT1113	1.0000	34
CT1114	1.0000	34	CT1135	1.0000	34
CT1139	1.0000	34	CT1143	1.0000	34
CT1144	1.0000	34	CT1145	1.0000	34
CT1147	1.0000	34	CT1148	1.0000	34
CT1150	1.0000	34	CT1151	1.0000	34
CT1152	1.0000	34	CT1153	1.0000	34
CT1156	1.0000	34	CT1159	1.0000	34
CT1160	1.0000	34	CT1161	1.0000	34
CT1162	1.0000	34	CT1163	1.0000	34
CT1164	1.0000	34	CT1165	1.0000	34
CT1166	1.0000	34	CT1167	1.0000	34
CT1168	1.0000	34	CT1171	1.0000	34
CT1174	1.0000	34	CT1175	1.0000	34
CT1176	1.0000	34	CT1177	1.0000	34
CT1180	1.0000	34	CT1181	1.0000	34
CT1183	1.0000	34	CT1185	1.0000	34
CT1187	1.0000	34	CT1190	1.0000	34
CT1191	1.0000	34	CT1192	1.0000	34
CT1193	1.0000	34	CT1195	1.0000	34
CT1197	1.0000	34	CT1199	1.0000	34
CT1206	1.0000	34	CT1207	1.0000	34
CT1209	1.0000	34	CT1211	1.0000	34
CT1215	1.0000	34	CT1225	1.0000	34
CT1228	1.0000	34	CT1231	1.0000	34
CT1232	1.0000	34	CT1236	1.0000	34
CT1239	1.0000	34	CT1240	1.0000	34
CT1242	1.0000	34	CT1243	1.0000	34
CT1245	1.0000	34	CT1246	1.0000	34
CT1247	1.0000	34	CT1248	1.0000	34
CT1249	1.0000	34	CT1250	1.0000	34
CT1252	1.0000	34	CT1253	1.0000	34
CT1255	1.0000	34	CT1256	1.0000	34
CT1258	1.0000	34	CT1259	1.0000	34
CT1260	1.0000	34	CT1261	1.0000	34
CT1265	1.0000	34	CT1267	1.0000	34
CT1268	1.0000	34	CT1270	1.0000	34
CT1271	1.0000	34	CT1275	1.0000	34
CT1278	1.0000	34	CT1286	1.0000	34
CT1287	1.0000	34	CT1288	1.0000	34
CT1289	1.0000	34	CT1293	1.0000	34
CT1295	1.0000	34	CT1296	1.0000	34
CT1297	1.0000	34	CT1298	1.0000	34
CT1299	1.0000	34	CT1301	1.0000	34
CT1303	1.0000	34	CT1308	1.0000	34
CT1312	1.0000	34	CT1313	1.0000	34
CT1315	1.0000	34	CT1316	1.0000	34
CT1317	1.0000	34	CT1318	1.0000	34
CT1320	1.0000	34	CT1323	1.0000	34
CT1324	1.0000	34	CT1325	1.0000	34
CT1327	1.0000	34	CT1330	1.0000	34
CT1331	1.0000	34	CT1332	1.0000	34
CT1333	1.0000	34	CT1337	1.0000	34
CT1338	1.0000	34	CT1340	1.0000	34
CT1341	1.0000	34	CT1342	1.0000	34
CT1345	1.0000	34	CT1347	1.0000	34
CT1348	1.0000	34	CT1349	1.0000	34
CT1350	1.0000	34	CT1351	1.0000	34
CT1353	1.0000	34	CT1358	1.0000	34
CT1360	1.0000	34	CT1361	1.0000	34
CT1362	1.0000	34	CT1364	1.0000	34
CT1365	1.0000	34	CT1367	1.0000	34
CT1368	1.0000	34	CT1371	1.0000	34
CT1373	1.0000	34	CT1376	1.0000	34
CT1378	1.0000	34	CT1381	1.0000	34
CT1382	1.0000	34	CT1384	1.0000	34
CT1386	1.0000	34	CT1387	1.0000	34
CT1391	1.0000	34	CT1396	1.0000	34
CT1397	1.0000	34	CT1402	1.0000	34
CT1405	1.0000	34	CT1406	1.0000	34
CT1408	1.0000	34	CT1411	1.0000	34
CT1412	1.0000	34	CT1414	1.0000	34
CT1416	1.0000	34	CT1417	1.0000	34
CT1418	1.0000	34	CT1420	1.0000	34
CT1421	1.0000	34	CT1422	1.0000	34
CT1423	1.0000	34	CT1424	1.0000	34
CT1425	1.0000	34	CT1426	1.0000	34
CT1427	1.0000	34	CT1428	1.0000	34
CT1430	1.0000	34	CT1431	1.0000	34
CT1432	1.0000	34	CT1436	1.0000	34
CT1437	1.0000	34	CT1440	1.0000	34
CT1441	1.0000	34	CT1442	1.0000	34
CT1444	1.0000	34	CT1446	1.0000	34
CT1447	1.0000	34	CT1448	1.0000	34
CT1450	1.0000	34	CT1451	1.0000	34
CT1453	1.0000	34	CT1454	1.0000	34
CT1455	1.0000	34	CT1456	1.0000	34
CT1457	1.0000	34	CT1461	1.0000	34
CT1466	1.0000	34	CT1470	1.0000	34
CT1472	1.0000	34	CT1473	1.0000	34
CT1474	1.0000	34	CT1475	1.0000	34
CT1477	1.0000	34	CT1479	1.0000	34
CT1480	1.0000	34	CT1484	1.0000	34
CT1485	1.0000	34	CT1486	1.0000	34
CT1487	1.0000	34	CT1491	1.0000	34
CT1492	1.0000	34	CT1493	1.0000	34
CT1494	1.0000	34	CT1495	1.0000	34
CT1497	1.0000	34	CT1498	1.0000	34
CT1499	1.0000	34	CT1500	1.0000	34
CT1501	1.0000	34	CT1502	1.0000	34
CT1503	1.0000	34	CT1505	1.0000	34
CT1506	1.0000	34	CT1507	1.0000	34
CT1509	1.0000	34	CT1510	1.0000	34
CT1511	1.0000	34	CT1512	1.0000	34
CT1514	1.0000	34	CT1516	1.0000	34
CT1524	1.0000	34	CT1525	1.0000	34
CT1526	1.0000	34	CT1527	1.0000	34
CT1528	1.0000	34	CT1529	1.0000	34
CT1533	1.0000	34	CT1534	1.0000	34
CT1535	1.0000	34	CT1536	1.0000	34
CT1537	1.0000	34	CT1538	1.0000	34
CT1539	1.0000	34	CT1540	1.0000	34
CT1541	1.0000	34	CT1542	1.0000	34
CT1543	1.0000	34	CT1544	1.0000	34
CT1545	1.0000	34	CT1546	1.0000	34
CT1548	1.0000	34	CT1552	1.0000	34
CT1553	1.0000	34	CT1554	1.0000	34
CT1555	1.0000	34	CT1557	1.0000	34
CT1559	1.0000	34	CT1565	1.0000	34
CT1567	1.0000	34	CT1568	1.0000	34
CT1573	1.0000	34	CT1575	1.0000	34
CT1576	1.0000	34	CT1577	1.0000	34
CT1578	1.0000	34	CT1580	1.0000	34
CT1586	1.0000	34	CT1588	1.0000	34
CT1590	1.0000	34	CT1591	1.0000	34
CT1592	1.0000	34	CT1596	1.0000	34
CT1597	1.0000	34	CT1601	1.0000	34
CT1602	1.0000	34	CT1603	1.0000	34
CT1605	1.0000	34	CT1606	1.0000	34
CT1607	1.0000	34	CT1608	1.0000	34
CT1609	1.0000	34	CT1610	1.0000	34
CT1611	1.0000	34	CT1612	1.0000	34
CT1614	1.0000	34	CT1615	1.0000	34
CT1616	1.0000	34	CT1618	1.0000	34
CT1622	1.0000	34	CT1624	1.0000	34
CT1625	1.0000	34	CT1626	1.0000	34
CT1627	1.0000	34	CT1628	1.0000	34
CT1630	1.0000	34	CT1631	1.0000	34
CT1632	1.0000	34	CT1633	1.0000	34
CT1635	1.0000	34	CT1638	1.0000	34
CT1639	1.0000	34	CT1640	1.0000	34
CT1641	1.0000	34	CT1644	1.0000	34
CT1645	1.0000	34	CT1646	1.0000	34
CT1647	1.0000	34	CT1649	1.0000	34
CT1650	1.0000	34	CT1652	1.0000	34
CT1654	1.0000	34	CT1655	1.0000	34
CT1660	1.0000	34	CT1661	1.0000	34
CT1662	1.0000	34	CT1663	1.0000	34
CT1664	1.0000	34	CT1666	1.0000	34
CT1667	1.0000	34	CT1670	1.0000	34
CT1671	1.0000	34	CT1672	1.0000	34
CT1674	1.0000	34	CT1676	1.0000	34
CT1677	1.0000	34	CT1680	1.0000	34
CT1681	1.0000	34	CT1682	1.0000	34
CT1683	1.0000	34	CT1689	1.0000	34
CT1695	1.0000	34	CT1696	1.0000	34
CT1697	1.0000	34	CT1699	1.0000	34
CT1701	1.0000	34	CT1704	1.0000	34
CT1705	1.0000	34	CT1706	1.0000	34
CT1707	1.0000	34	CT1708	1.0000	34
CT1709	1.0000	34	CT1710	1.0000	34
CT1712	1.0000	34	CT1713	1.0000	34
CT1714	1.0000	34	CT1715	1.0000	34
CT1717	1.0000	34	CT1719	1.0000	34
CT1724	1.0000	34	CT1725	1.0000	34
CT1727	1.0000	34	CT1728	1.0000	34
CT1729	1.0000	34	CT1734	1.0000	34
CT1736	1.0000	34	CT1737	1.0000	34
CT1738	1.0000	34	CT1740	1.0000	34
CT1742	1.0000	34	CT1743	1.0000	34
CT1747	1.0000	34	CT1748	1.0000	34
CT1749	1.0000	34	CT1754	1.0000	34
CT1755	1.0000	34	CT1758	1.0000	34
CT1759	1.0000	34	CT1760	1.0000	34
CT1761	1.0000	34	CT1762	1.0000	34
CT1763	1.0000	34	CT1765	1.0000	34
CT1766	1.0000	34	CT1771	1.0000	34
CT1772	1.0000	34	CT1773	1.0000	34
CT1774	1.0000	34	CT1776	1.0000	34
CT1777	1.0000	34	CT1778	1.0000	34
CT1779	1.0000	34	CT1780	1.0000	34
CT1781	1.0000	34	CT1782	1.0000	34
CT1783	1.0000	34	CT1784	1.0000	34
CT1785	1.0000	34	CT1786	1.0000	34
CT1787	1.0000	34	CT1788	1.0000	34
CT1792	1.0000	34	CT1794	1.0000	34
CT1795	1.0000	34	CT1797	1.0000	34
CT1798	1.0000	34	CT1799	1.0000	34
CT1800	1.0000	34	CT1802	1.0000	34
CT1806	1.0000	34	CT1807	1.0000	34
CT1809	1.0000	34	CT1810	1.0000	34
CT1811	1.0000	34	CT1813	1.0000	34
CT1815	1.0000	34	CT1816	1.0000	34
CT1818	1.0000	34	CT1819	1.0000	34
CT1821	1.0000	34	CT1822	1.0000	34
CT1823	1.0000	34	CT1824	1.0000	34
CT1825	1.0000	34	CT1826	1.0000	34
CT1828	1.0000	34	CT1830	1.0000	34
CT1831	1.0000	34	CT1833	1.0000	34
CT1834	1.0000	34	CT1835	1.0000	34
CT1838	1.0000	34	CT1839	1.0000	34
CT1841	1.0000	34	CT1845	1.0000	34
CT1846	1.0000	34	CT1847	1.0000	34
CT1848	1.0000	34	CT1850	1.0000	34
CT1851	1.0000	34	CT1852	1.0000	34
CT1853	1.0000	34	CT1854	1.0000	34
CT1855	1.0000	34	CT1856	1.0000	34
CT1857	1.0000	34	CT1870	1.0000	34
CT1871	1.0000	34	CT1873	1.0000	34
CT1874	1.0000	34	CT1878	1.0000	34
CT1880	1.0000	34	CT1881	1.0000	34
CT1882	1.0000	34	CT1886	1.0000	34
CT1888	1.0000	34	CT1890	1.0000	34
CT1891	1.0000	34	CT1892	1.0000	34
CT1893	1.0000	34	CT1894	1.0000	34
CT1896	1.0000	34	CT1898	1.0000	34
CT1899	1.0000	34	CT1901	1.0000	34
CT1903	1.0000	34	CT1908	1.0000	34
CT1913	1.0000	34	CT1918	1.0000	34
CT1919	1.0000	34	CT1921	1.0000	34
CT1922	1.0000	34	CT1923	1.0000	34
CT1925	1.0000	34	CT1928	1.0000	34
CT1929	1.0000	34	CT1930	1.0000	34
CT1931	1.0000	34	CT1932	1.0000	34
CT1934	1.0000	34	CT1935	1.0000	34
CT1936	1.0000	34	CT1937	1.0000	34
CT1938	1.0000	34	CT1939	1.0000	34
CT1942	1.0000	34	CT1943	1.0000	34
CT1945	1.0000	34	CT1946	1.0000	34
CT1947	1.0000	34	CT1949	1.0000	34
CT1951	1.0000	34	CT1953	1.0000	34
CT1955	1.0000	34	CT1957	1.0000	34
CT1958	1.0000	34	CT1959	1.0000	34
CT1961	1.0000	34	CT1962	1.0000	34
CT1964	1.0000	34	CT1969	1.0000	34
CT1970	1.0000	34	CT1982	1.0000	34
CT1983	1.0000	34	CT1987	1.0000	34
CT1988	1.0000	34	CT1992	1.0000	34
CT1993	1.0000	34	CT1994	1.0000	34
CT1995	1.0000	34	CT2001	1.0000	34
CT2002	1.0000	34	CT2005	1.0000	34
CT2006	1.0000	34	CT2007	1.0000	34
CT2008	1.0000	34	CT2010	1.0000	34
CT2011	1.0000	34	CT2012	1.0000	34
CT2014	1.0000	34	CT2016	1.0000	34
CT2018	1.0000	34	CT2019	1.0000	34
CT2020	1.0000	34	CT2021	1.0000	34
CT2022	1.0000	34	CT2023	1.0000	34
CT2024	1.0000	34	CT2025	1.0000	34
CT2026	1.0000	34	CT2028	1.0000	34
CT2029	1.0000	34	CT2030	1.0000	34
CT2032	1.0000	34	CT2033	1.0000	34
CT2034	1.0000	34	CT2035	1.0000	34
CT2036	1.0000	34	CT2037	1.0000	34
CT2038	1.0000	34	CT2039	1.0000	34
CT2040	1.0000	34	CT2041	1.0000	34
CT2042	1.0000	34	CT2045	1.0000	34
CT2047	1.0000	34	CT2049	1.0000	34
CT2054	1.0000	34	CT2056	1.0000	34
CT2058	1.0000	34	CT2059	1.0000	34
CT2060	1.0000	34	CT2061	1.0000	34
CT2062	1.0000	34	CT2064	1.0000	34
CT2067	1.0000	34	CT2070	1.0000	34
CT2073	1.0000	34	CT2077	1.0000	34
CT2078	1.0000	34	CT2080	1.0000	34
CT2081	1.0000	34	CT2084	1.0000	34
CT2085	1.0000	34	CT2086	1.0000	34
CT2087	1.0000	34	CT2088	1.0000	34
CT2089	1.0000	34	CT2095	1.0000	34
CT2098	1.0000	34	CT2099	1.0000	34
CT2102	1.0000	34	CT2104	1.0000	34
CT2105	1.0000	34	CT2106	1.0000	34
CT2107	1.0000	34	CT2112	1.0000	34
CT2113	1.0000	34	CT2114	1.0000	34
CT2115	1.0000	34	CT2116	1.0000	34
CT2117	1.0000	34	CT2118	1.0000	34
CT2119	1.0000	34	CT2121	1.0000	34
CT2122	1.0000	34	CT2123	1.0000	34
CT2124	1.0000	34	CT2125	1.0000	34
CT2126	1.0000	34	CT2127	1.0000	34
CT2128	1.0000	34	CT2129	1.0000	34
CT2130	1.0000	34	CT2132	1.0000	34
CT2133	1.0000	34	CT2134	1.0000	34
CT2135	1.0000	34	CT2136	1.0000	34
CT2137	1.0000	34	CT2141	1.0000	34
CT2142	1.0000	34	CT2144	1.0000	34
CT2145	1.0000	34	CT2146	1.0000	34
CT2150	1.0000	34	CT2151	1.0000	34
CT2152	1.0000	34	CT2154	1.0000	34
CT2155	1.0000	34	CT2156	1.0000	34
CT2158	1.0000	34	CT2159	1.0000	34
CT2160	1.0000	34	CT2161	1.0000	34
CT2162	1.0000	34	CT2163	1.0000	34
CT2164	1.0000	34	CT2165	1.0000	34
CT2166	1.0000	34	CT2167	1.0000	34
CT2168	1.0000	34	CT2169	1.0000	34
CT2170	1.0000	34	CT2171	1.0000	34
CT2172	1.0000	34	CT2173	1.0000	34
CT2174	1.0000	34	CT2175	1.0000	34
CT2176	1.0000	34	CT2177	1.0000	34
CT2178	1.0000	34	CT2179	1.0000	34
CT2180	1.0000	34	CT2181	1.0000	34
CT2182	1.0000	34	CT2183	1.0000	34
CT2184	1.0000	34	CT2185	1.0000	34
CT2186	1.0000	34	CT2187	1.0000	34
CT2188	1.0000	34	CT2189	1.0000	34
CT2190	1.0000	34	CT2191	1.0000	34
CT2192	1.0000	34	CT2193	1.0000	34
CT2194	1.0000	34	CT2196	1.0000	34
CT2202	1.0000	34	CT2206	1.0000	34
CT2207	1.0000	34	CT2209	1.0000	34
CT2210	1.0000	34	CT2211	1.0000	34
CT2212	1.0000	34	CT2213	1.0000	34
CT2214	1.0000	34	CT2215	1.0000	34
CT2222	1.0000	34	CT2224	1.0000	34
CT2230	1.0000	34	CT2232	1.0000	34
CT2233	1.0000	34	CT2234	1.0000	34
CT2235	1.0000	34	CT2236	1.0000	34
CT2238	1.0000	34	CT2239	1.0000	34
CT2240	1.0000	34	CT2241	1.0000	34
CT2242	1.0000	34	CT2243	1.0000	34
CT2244	1.0000	34	CT2247	1.0000	34
CT2249	1.0000	34	CT2250	1.0000	34
CT2251	1.0000	34	CT2255	1.0000	34
CT2256	1.0000	34	CT2258	1.0000	34
CT2259	1.0000	34	CT2260	1.0000	34
CT2261	1.0000	34	CT2263	1.0000	34
CT2264	1.0000	34	CT2266	1.0000	34
CT2267	1.0000	34	CT2268	1.0000	34
CT2271	1.0000	34	CT2273	1.0000	34
CT2281	1.0000	34	CT2283	1.0000	34
CT2284	1.0000	34	CT2285	1.0000	34
CT2288	1.0000	34

COMMAND LINE SUMMARY

This information can also be useful in the event you wish to report a
problem with the MEME software.

command: meme meme_out/meme.fasta -mod zoops -prior dirichlet -minw 6 -maxw 16 -nostatus -dna -oc meme_out/

model:	mod=	zoops	nmotifs=	1	evt=	inf
object function= E-value of product of p-values
width:	minw=	6	maxw=	16	minic=	0.00
width:	wg=	11	ws=	1	endgaps=	yes
nsites:	minsites=	2	maxsites=	1289	wnsites=	0.8
theta:	prob=	1	spmap=	uni	spfuzz=	0.5
em:	prior=	dirichlet	b=	0.01	maxiter=	50
	distance=	1e-05
data:	n=	43826	N=	1289
strands: +
sample:	seed=	0	seqfrac=	1
Letter frequencies in dataset:
A 0.261 C 0.269 G 0.241 T 0.229
Background letter frequencies (from dataset with add-one prior applied): A 0.261 C 0.269 G 0.241 T 0.229

MOTIF 1 width = 6 sites = 148 llr = 1047 E-value = 3.1e-025

SEQUENCE LOGO

PNG LOGOS require CONVERT from ImageMagick; see MEME installation guide

Information Content
9.7 (bits)

Relative Entropy
10.2 (bits)

Download LOGO
Without SSC:[EPS][PNG]
With SSC:[EPS][PNG]

NAME	START	P-VALUE	SITES
CT2285	6	1.69e-04	`TTCAGA`	`TTTTTC`	`ACAACAAAAA`
CT2283	28	1.69e-04	`AAACAACTCT`	`TTTTTC`
CT2271	19	1.69e-04	`CCCGGCCTCT`	`TTTTTC`	`CCGTCGTTG`
CT2160	1	1.69e-04	`C`	`TTTTTC`	`ATCACCATCG`
CT2156	20	1.69e-04	`GACCTCGACC`	`TTTTTC`	`AGTGAGCC`
CT2151	21	1.69e-04	`CCCGGCCATT`	`TTTTTC`	`AACCAAA`
CT2145	14	1.69e-04	`GGTGAAAACG`	`TTTTTC`	`TTTTTGAAAA`
CT2078	4	1.69e-04	`CGGT`	`TTTTTC`	`CCAACTCTTT`
CT2062	25	1.69e-04	`CTAACAAGGA`	`TTTTTC`	`ACC`
CT2041	20	1.69e-04	`CCGCGCCCTG`	`TTTTTC`	`ACGAACCA`
CT2014	27	1.69e-04	`GACTTTTTTA`	`TTTTTC`	`A`
CT1857	8	1.69e-04	`TAGATCAT`	`TTTTTC`	`CAATTTCCAA`
CT1830	28	1.69e-04	`TTATTCAGCC`	`TTTTTC`
CT1822	7	1.69e-04	`AGGCGAT`	`TTTTTC`	`GTCGATAGAG`
CT1813	9	1.69e-04	`GACCGATTG`	`TTTTTC`	`GACACTCAAC`
CT1797	26	1.69e-04	`TGCATCCTTT`	`TTTTTC`	`TA`
CT1783	12	1.69e-04	`CATCATCCCG`	`TTTTTC`	`GATTATCTGC`
CT1704	2	1.69e-04	`AC`	`TTTTTC`	`CCGGTCACAA`
CT1683	27	1.69e-04	`TGATGGCCCG`	`TTTTTC`	`G`
CT1682	6	1.69e-04	`TGTTGT`	`TTTTTC`	`GGGTCAACCA`
CT1662	8	1.69e-04	`CTTTGATA`	`TTTTTC`	`ATCGCAAGCT`
CT1605	9	1.69e-04	`TTTACCGTT`	`TTTTTC`	`ACTCAATTTC`
CT1473	14	1.69e-04	`CACCAATCCC`	`TTTTTC`	`AAGGAGCAGC`
CT1432	15	1.69e-04	`AACCGATACA`	`TTTTTC`	`TCACCACACT`
CT1431	3	1.69e-04	`TCG`	`TTTTTC`	`TTCATAACAA`
CT1420	18	1.69e-04	`TTCACGAGCG`	`TTTTTC`	`CGCCCGGCGT`
CT1261	1	1.69e-04	`T`	`TTTTTC`	`TCATAACTAT`
CT1258	2	1.69e-04	`AT`	`TTTTTC`	`GCCTGTCAAC`
CT1199	27	1.69e-04	`GAAACCTCAT`	`TTTTTC`	`G`
CT1183	3	1.69e-04	`TTT`	`TTTTTC`	`GATCAAGAGC`
CT1166	8	1.69e-04	`GCCAAGAC`	`TTTTTC`	`AAAAAGAAAG`
CT1075	7	1.69e-04	`AAGAAGC`	`TTTTTC`	`GCAGTTGTCG`
CT1029	11	1.69e-04	`GTGAAATCGT`	`TTTTTC`	`TGGTGAATTG`
CT0987	6	1.69e-04	`TCAGGC`	`TTTTTC`	`ATGATGTAGC`
CT0981	16	1.69e-04	`TAATTGACGA`	`TTTTTC`	`TGAGTACTAC`
CT0966	5	1.69e-04	`TGATT`	`TTTTTC`	`AATTAACAAC`
CT0953	8	1.69e-04	`GAGAGGTT`	`TTTTTC`	`CTAACCATGT`
CT0943	0	1.69e-04		`TTTTTC`	`CTCATCGTGC`
CT0804	5	1.69e-04	`ATAGC`	`TTTTTC`	`AAATTTAAGG`
CT0648	8	1.69e-04	`TTCCGATT`	`TTTTTC`	`ACGCTGCTCC`
CT0622	3	1.69e-04	`GAT`	`TTTTTC`	`CCGGTGTTGT`
CT0546	19	1.69e-04	`TTCATCTCGA`	`TTTTTC`	`GGGTGCCCG`
CT0518	0	1.69e-04		`TTTTTC`	`CGATCTGGCC`
CT0411	12	1.69e-04	`TGAACTCACC`	`TTTTTC`	`CAGGAGGTGA`
CT0388	6	1.69e-04	`AAGAAG`	`TTTTTC`	`AAGGAGAAGG`
CT0348	12	1.69e-04	`ATCGGGATCA`	`TTTTTC`	`AGGCTGTATC`
CT0307	2	1.69e-04	`TA`	`TTTTTC`	`GAACCGCTTA`
CT0269	5	1.69e-04	`GGTTT`	`TTTTTC`	`ATCACCAAAA`
CT0159	6	1.69e-04	`GCCGGC`	`TTTTTC`	`ACCGCCTTCG`
CT0141	0	1.69e-04		`TTTTTC`	`AGGGTAAATC`
CT0129	10	1.69e-04	`GACCCGATAA`	`TTTTTC`	`ATGTTTTTGC`
CT0124	26	1.69e-04	`CTGGCCAGCG`	`TTTTTC`	`CT`
CT0083	1	1.69e-04	`A`	`TTTTTC`	`CTCATGACCA`
CT0029	13	1.69e-04	`GTCGCGGCGA`	`TTTTTC`	`ACGACGTGCT`
CT0021	25	1.69e-04	`GTCGCCTTTG`	`TTTTTC`	`TCG`
CT2114	1	3.62e-04	`C`	`ATTTTC`	`CGTCCGCTTA`
CT1995	28	3.62e-04	`GTACAGCATG`	`ATTTTC`
CT1811	14	3.62e-04	`TCACGAAAAA`	`ATTTTC`	`ACCAGGAAAC`
CT1806	7	3.62e-04	`AGAAAGT`	`ATTTTC`	`CAAACCCTCA`
CT1677	2	3.62e-04	`GG`	`ATTTTC`	`AGTCAGATAG`
CT1661	5	3.62e-04	`CAGCC`	`ATTTTC`	`ATTCACCTGA`
CT1652	5	3.62e-04	`CAGAC`	`ATTTTC`	`TTCAATACAA`
CT1650	11	3.62e-04	`TCCCGGCAAC`	`ATTTTC`	`GAACAGACCA`
CT1631	7	3.62e-04	`GCTCACC`	`ATTTTC`	`GGAAAAACCT`
CT1592	14	3.62e-04	`ACCAATCATG`	`ATTTTC`	`CAACACGACG`
CT1526	10	3.62e-04	`ACCACCCCTC`	`ATTTTC`	`AAAAAGACAA`
CT1494	5	3.62e-04	`TCTAT`	`ATTTTC`	`TATCCTTACC`
CT1491	2	3.62e-04	`GT`	`ATTTTC`	`CTACAATTCA`
CT1368	0	3.62e-04		`ATTTTC`	`TGTTCAACCA`
CT1243	27	3.62e-04	`TGATGATTTC`	`ATTTTC`	`T`
CT0964	0	3.62e-04		`ATTTTC`	`GGTGACTTTT`
CT0963	1	3.62e-04	`T`	`ATTTTC`	`AGCCATCATT`
CT0864	9	3.62e-04	`AGCCTGCAA`	`ATTTTC`	`GGTTAAAGGA`
CT0855	1	3.62e-04	`G`	`ATTTTC`	`TTCAACCTCT`
CT0746	1	3.62e-04	`T`	`ATTTTC`	`CTGAAATAAT`
CT0644	26	3.62e-04	`TATGCGGTAG`	`ATTTTC`	`GA`
CT0572	18	3.62e-04	`TAACGAACTG`	`ATTTTC`	`AATAAGTTGC`
CT0552	17	3.62e-04	`GCCATTCGAT`	`ATTTTC`	`AGGGGCTGAG`
CT0532	6	3.62e-04	`AAACAA`	`ATTTTC`	`GTTATTGACG`
CT0409	27	3.62e-04	`TCAAATCTGG`	`ATTTTC`	`C`
CT0360	9	3.62e-04	`TCACCGACC`	`ATTTTC`	`CTGATTCAAG`
CT0350	7	3.62e-04	`TACCCTT`	`ATTTTC`	`TGAATAGAAT`
CT0311	22	3.62e-04	`CCAGTTTGAC`	`ATTTTC`	`CAAGCC`
CT0200	27	3.62e-04	`CCAATTTCTC`	`ATTTTC`	`C`
CT0154	5	3.62e-04	`TCAAT`	`ATTTTC`	`AATTCAAACT`
CT0150	17	3.62e-04	`GACTAAGGAG`	`ATTTTC`	`GAGGTAACGA`
CT0088	14	3.62e-04	`CACGAGGCCG`	`ATTTTC`	`TTGCTTACGC`
CT2256	7	7.06e-04	`TTAAAAA`	`TTTTTT`	`ACTGGATTAC`
CT2247	7	7.06e-04	`TCCCGGA`	`CTTTTC`	`ATGCACGGCC`
CT2236	22	7.06e-04	`ACTGCTGGTG`	`TTTTTT`	`GCTTTC`
CT2124	0	7.06e-04		`CTTTTC`	`GCTCTTTTCC`
CT2095	24	7.06e-04	`GACCTCGCCG`	`CTTTTC`	`AAGT`
CT2002	5	7.06e-04	`GCAAA`	`CTTTTC`	`AGAACAAAAT`
CT1890	20	7.06e-04	`GAATAATTCG`	`CTTTTC`	`GCCCCGAC`
CT1873	10	7.06e-04	`CCTGGCGGGC`	`CTTTTC`	`GATGTACTCC`
CT1800	21	7.06e-04	`AACACTTAAC`	`CTTTTC`	`TGCACTC`
CT1727	3	7.06e-04	`CAC`	`CTTTTC`	`GGAGAGGCGG`
CT1706	28	7.06e-04	`ATCAGTTGAG`	`CTTTTC`
CT1612	21	7.06e-04	`CAGGTGAGCC`	`TTTTTT`	`ATTATCG`
CT1506	22	7.06e-04	`ATAACACAAA`	`TTTTTT`	`TATCTC`
CT1446	0	7.06e-04		`CTTTTC`	`AGACTCGAAA`
CT1442	13	7.06e-04	`CGGATTCCTG`	`CTTTTC`	`TTTCTGACTC`
CT1424	21	7.06e-04	`TGGCCCGCTC`	`CTTTTC`	`GCTTACC`
CT1353	11	7.06e-04	`GCACATGATA`	`TTTTTT`	`TTGAACCCCA`
CT1246	22	7.06e-04	`GCATGCGGTG`	`CTTTTC`	`GCTCCG`
CT1180	11	7.06e-04	`GAAAGTCGCG`	`TTTTTT`	`TGATCCGTTG`
CT0972	4	7.06e-04	`CTTG`	`CTTTTC`	`ATCCGGGTGA`
CT0965	9	7.06e-04	`CGAGTCTCG`	`TTTTTT`	`ACACCACAAC`
CT0923	4	7.06e-04	`GGTG`	`CTTTTC`	`TTTGAACCAA`
CT0887	17	7.06e-04	`GAAAAGTTTA`	`TTTTTT`	`TAACGATTCG`
CT0780	10	7.06e-04	`TGGCAATATT`	`CTTTTC`	`GGTGATGAAG`
CT0730	1	7.06e-04	`G`	`CTTTTC`	`ATGAATGCAT`
CT0660	28	7.06e-04	`ACGTATGAAG`	`TTTTTT`
CT0638	0	7.06e-04		`TTTTTT`	`ATTCCATCAA`
CT0602	28	7.06e-04	`TGTCCATCAC`	`CTTTTC`
CT0593	9	7.06e-04	`GGCTTTGGT`	`CTTTTC`	`GGCGCGCTCC`
CT0570	3	7.06e-04	`GAG`	`TTTTTT`	`TATTTCATTA`
CT0560	5	7.06e-04	`ATCCG`	`TTTTTT`	`TATCTCTATC`
CT0530	1	7.06e-04	`G`	`TTTTTT`	`TAAATCTTTA`
CT0511	19	7.06e-04	`AGGTGCTCTT`	`CTTTTC`	`GGTCTATGC`
CT0494	18	7.06e-04	`CGCCTGAAAG`	`TTTTTT`	`TTATTAAGGT`
CT0435	11	7.06e-04	`TCATTATCTG`	`TTTTTT`	`TTGCGGTTCT`
CT0286	2	7.06e-04	`AA`	`TTTTTT`	`ACAATTACAG`
CT0282	27	7.06e-04	`CTGTAAACAG`	`CTTTTC`	`A`
CT0216	15	7.06e-04	`AAGGGACTCC`	`CTTTTC`	`AGTATCGGCT`
CT0188	15	7.06e-04	`AGTTAAGGTT`	`CTTTTC`	`AGAGAACAAC`
CT0180	4	7.06e-04	`GAAA`	`CTTTTC`	`TCATTCAATC`
CT0176	26	7.06e-04	`TGAAGGAGAA`	`CTTTTC`	`GG`
CT0161	10	7.06e-04	`AGTGATGGAC`	`TTTTTT`	`TTAAGGAGCA`
CT0090	22	7.06e-04	`GGCCAGCCTG`	`TTTTTT`	`ATTTCC`
CT0089	4	7.06e-04	`TTCT`	`CTTTTC`	`ACTCTTCAAC`
CT0063	27	7.06e-04	`CACTGTTTTC`	`TTTTTT`	`G`
CT0031	8	7.06e-04	`CTCTTCAC`	`CTTTTC`	`GATGATGAGC`
CT1901	25	8.70e-04	`CTGACAGGCA`	`ATTTTT`	`GAG`
CT1870	3	8.70e-04	`CCG`	`ATTTTT`	`GTGATAACCA`
CT1611	9	8.70e-04	`CTCCGTATC`	`ATTTTT`	`AACGCCAATC`
CT1293	2	8.70e-04	`TC`	`ATTTTT`	`GCCGCAATCT`
CT1256	17	8.70e-04	`GCAACAGGGG`	`ATTTTT`	`ACGGTCGCCC`
CT1036	4	8.70e-04	`CAAA`	`ATTTTT`	`GACGAATCAA`
CT0866	3	8.70e-04	`TTG`	`ATTTTT`	`GAGAGTTTAT`
CT0775	1	8.70e-04	`A`	`ATTTTT`	`ACTCTCCGAA`
CT0173	19	8.70e-04	`CTTGAATACG`	`ATTTTT`	`GACAAGTTT`
CT0133	15	8.70e-04	`GGTGTTTGAA`	`ATTTTT`	`AAACAAGAAG`
CT1607	24	1.04e-03	`AAGAACGGGG`	`CTTTTT`	`GCGT`
CT1298	22	1.04e-03	`CGGAAATAAC`	`CTTTTT`	`GCAAAA`
CT1017	15	1.04e-03	`CACTAACACT`	`CTTTTT`	`AGAGGAGGAT`
CT0956	0	1.04e-03		`CTTTTT`	`GGGCGGAATA`
CT0369	12	1.04e-03	`CGGGGCCGTG`	`CTTTTT`	`GACGAAGGCC`

Motif 1 block diagrams

Name

Lowest
p-value

Motifs

CT2285

1.69e-04

CT2283

1.69e-04

CT2271

1.69e-04

CT2160

1.69e-04

CT2156

1.69e-04

CT2151

1.69e-04

CT2145

1.69e-04

CT2078

1.69e-04

CT2062

1.69e-04

CT2041

1.69e-04

CT2014

1.69e-04

CT1857

1.69e-04

CT1830

1.69e-04

CT1822

1.69e-04

CT1813

1.69e-04

CT1797

1.69e-04

CT1783

1.69e-04

CT1704

1.69e-04

CT1683

1.69e-04

CT1682

1.69e-04

CT1662

1.69e-04

CT1605

1.69e-04

CT1473

1.69e-04

CT1432

1.69e-04

CT1431

1.69e-04

CT1420

1.69e-04

CT1261

1.69e-04

CT1258

1.69e-04

CT1199

1.69e-04

CT1183

1.69e-04

CT1166

1.69e-04

CT1075

1.69e-04

CT1029

1.69e-04

CT0987

1.69e-04

CT0981

1.69e-04

CT0966

1.69e-04

CT0953

1.69e-04

CT0943

1.69e-04

CT0804

1.69e-04

CT0648

1.69e-04

CT0622

1.69e-04

CT0546

1.69e-04

CT0518

1.69e-04

CT0411

1.69e-04

CT0388

1.69e-04

CT0348

1.69e-04

CT0307

1.69e-04

CT0269

1.69e-04

CT0159

1.69e-04

CT0141

1.69e-04

CT0129

1.69e-04

CT0124

1.69e-04

CT0083

1.69e-04

CT0029

1.69e-04

CT0021

1.69e-04

CT2114

3.62e-04

CT1995

3.62e-04

CT1811

3.62e-04

CT1806

3.62e-04

CT1677

3.62e-04

CT1661

3.62e-04

CT1652

3.62e-04

CT1650

3.62e-04

CT1631

3.62e-04

CT1592

3.62e-04

CT1526

3.62e-04

CT1494

3.62e-04

CT1491

3.62e-04

CT1368

3.62e-04

CT1243

3.62e-04

CT0964

3.62e-04

CT0963

3.62e-04

CT0864

3.62e-04

CT0855

3.62e-04

CT0746

3.62e-04

CT0644

3.62e-04

CT0572

3.62e-04

CT0552

3.62e-04

CT0532

3.62e-04

CT0409

3.62e-04

CT0360

3.62e-04

CT0350

3.62e-04

CT0311

3.62e-04

CT0200

3.62e-04

CT0154

3.62e-04

CT0150

3.62e-04

CT0088

3.62e-04

CT2256

7.06e-04

CT2247

7.06e-04

CT2236

7.06e-04

CT2124

7.06e-04

CT2095

7.06e-04

CT2002

7.06e-04

CT1890

7.06e-04

CT1873

7.06e-04

CT1800

7.06e-04

CT1727

7.06e-04

CT1706

7.06e-04

CT1612

7.06e-04

CT1506

7.06e-04

CT1446

7.06e-04

CT1442

7.06e-04

CT1424

7.06e-04

CT1353

7.06e-04

CT1246

7.06e-04

CT1180

7.06e-04

CT0972

7.06e-04

CT0965

7.06e-04

CT0923

7.06e-04

CT0887

7.06e-04

CT0780

7.06e-04

CT0730

7.06e-04

CT0660

7.06e-04

CT0638

7.06e-04

CT0602

7.06e-04

CT0593

7.06e-04

CT0570

7.06e-04

CT0560

7.06e-04

CT0530

7.06e-04

CT0511

7.06e-04

CT0494

7.06e-04

CT0435

7.06e-04

CT0286

7.06e-04

CT0282

7.06e-04

CT0216

7.06e-04

CT0188

7.06e-04

CT0180

7.06e-04

CT0176

7.06e-04

CT0161

7.06e-04

CT0090

7.06e-04

CT0089

7.06e-04

CT0063

7.06e-04

CT0031

7.06e-04

CT1901

8.70e-04

CT1870

8.70e-04

CT1611

8.70e-04

CT1293

8.70e-04

CT1256

8.70e-04

CT1036

8.70e-04

CT0866

8.70e-04

CT0775

8.70e-04

CT0173

8.70e-04

CT0133

8.70e-04

CT1607

1.04e-03

CT1298

1.04e-03

CT1017

1.04e-03

CT0956

1.04e-03

CT0369

1.04e-03

SCALE

\|	\|
1	25

Motif 1 in BLOCKS format

to BLOCKS multiple alignment processor.

Motif 1 position-specific scoring matrix

Scan sequence databases for the best match in each sequence using MAST.

Motif 1 position-specific probability matrix

Scan sequence databases for all matches with this motif using FIMO.
Compare to known motifs in motif databases using Tomtom.
Find Genome Ontology terms associated with upstream regions matching this motif using GOMO.

Motif 1 regular-expression

[TAC]TTTT[CT]

Time 417.29 secs.

SUMMARY OF MOTIFS

Combined block diagrams: non-overlapping sites with p-value < 0.0001

Name

Combined
p-value

Motifs

SCALE

\|	\|
1	25

Motif summary in machine readable format.

Stopped because Stopped because nmotifs = 1 reached..

CPU: kodomo.fbb.msu.ru

EXPLANATION OF MEME RESULTS

The MEME results consist of:

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.
Information on each of the motifs MEME discovered, including:
1. A summary line showing the width, number of occurrences, log likelihood ratio and statistical significance of the motif.
2. A sequence LOGO.
3. The information content of the motif.
4. The relative entropy of the motif.
5. Downloadable LOGO files suitable for publication.
6. The occurrences of the motif sorted by p-value and aligned with each other.
7. Block diagrams of the occurrences of the motif within each sequence in the training set.
8. The motif in BLOCKS or FASTA format.
9. A position-specific scoring matrix (PSSM) for use by the MAST database search program.
10. The position specific probability matrix (PSPM) describing the motif.
11. A regular expression describing the motif.
A summary of motifs showing an optimized (non-overlapping) tiling of all of the motifs onto each of the sequences in the training set.
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 Line
This line gives the width ('width'), number of occurrences in the training set ('sites'), log likelihood ratio ('llr') and 'E-value' of the motif. Each motif describes a pattern of a fixed width--no gaps are allowed in MEME motifs. MEME numbers the motifs consecutively from one as it finds them. MEME usually finds the most statistically significant (low E-value) motifs first. The statistical significance of a motif is based on its log likelihood ratio, its width and number of occurrences, 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 number of occurrences, 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.) 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.) Clicking on the buttons to the left of the motif summary line takes you to the previous motif (P) or next motif (N).

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 one of the links named "With SSC" (EPS or PNG) under Download LOGO. The MEME LOGOs without small sample correction are similarly available. Error bars are included in the LOGOs with small-sample correction.

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. For proteins, the categories are based on the biochemical properties of the various amino acids. The categories and their colors are:

NUCLEIC ACIDS	COLOR
A	RED
C	BLUE
G	ORANGE
T	GREEN

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.

Information Content
This is 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
This is 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 occurrences (sites) of the motif times 1/ln(2),
```
               re = llr / (sites * ln(2)).
	    
```
Occurrences of the Motif
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 of Motif Occurrences
The occurrences of the motif in the training set sequences are shown with MAST-style block diagrams. One diagram is printed for each sequence showing all the occurrences of the motif in that sequence. The sequences are sorted by the lowest p-value among all occurrences of the motif in a given sequence. (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, '+' 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. Very long sequences are shown with thick lines connecting the motifs and are not drawn to scale.
Motif in BLOCKS format or FASTA format>
For use with BLOCKS tools, MEME prints the occurrences of the motif in BLOCKS format.
You can convert these blocks to PSSMs (position-specific scoring matrices), LOGOS (color representations of the motifs), phylogeny trees and search them against a database of other blocks by pasting everything from the "BL" line to the "//" line (inclusive) into the Multiple Alignment Processor.
If you include the -print_fasta switch on the command line, MEME prints the motif sites in FASTA format instead of BLOCKS format.
Position-Specific Scoring Matrix
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 Occurrences of the Motif and Block Diagrams of Motif Occurrences 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.
Position-Specific Probability Matrix
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.
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.)
Motif Summary Tiling
The motif summary tiling is done using the same algorithm as used by MAST. 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. The format of the machine readable motif-summary is:
```
        [sequence_name combined_p-value number_of_motif_occurrences [motif_number start_of_motif position_p-value]+]+
        
```
See the documentation for MAST output for the definition of position and combined p-values.