******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.6.1 (Release date: Mon Mar 21 15:08:38 EST 2011) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme.nbcr.net. 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.nbcr.net. ******************************************************************************** ******************************************************************************** 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= 16-organelles-nucleus-merged-TOC1_ChIPSeq-GSM878068.36mers.macs2.0.9_peaks.fasta ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chloroplast:137295-13739 1.0000 100 chloroplast:137703-13780 1.0000 100 chloroplast:101017-10111 1.0000 100 chloroplast:137530-13763 1.0000 100 chloroplast:102011-10211 1.0000 100 chloroplast:100838-10093 1.0000 100 chloroplast:101249-10134 1.0000 100 chloroplast:136536-13663 1.0000 100 chrIII-NC_003074:2077839 1.0000 100 chrIII-NC_003074:6092297 1.0000 100 chrIII-NC_003074:1419895 1.0000 100 chrIII-NC_003074:3589388 1.0000 100 chrIII-NC_003074:1773982 1.0000 100 chrIII-NC_003074:1420213 1.0000 100 chrIII-NC_003074:5122672 1.0000 100 chrIII-NC_003074:2077689 1.0000 100 chrIII-NC_003074:1419650 1.0000 100 chrIII-NC_003074:1595255 1.0000 100 chrIII-NC_003074:2077772 1.0000 100 chrIII-NC_003074:1717912 1.0000 100 chrIII-NC_003074:1420100 1.0000 100 chrIII-NC_003074:1419593 1.0000 100 chrIII-NC_003074:1260482 1.0000 100 chrIII-NC_003074:5121947 1.0000 100 chrIII-NC_003074:5693703 1.0000 100 chrIII-NC_003074:1956981 1.0000 100 chrIII-NC_003074:5348251 1.0000 100 chrIII-NC_003074:6841924 1.0000 100 chrIII-NC_003074:1786821 1.0000 100 chrIII-NC_003074:2077719 1.0000 100 chrIII-NC_003074:6090825 1.0000 100 chrIII-NC_003074:1419583 1.0000 100 chrIII-NC_003074:1836399 1.0000 100 chrIII-NC_003074:1797587 1.0000 100 chrIII-NC_003074:2029701 1.0000 100 chrIII-NC_003074:7063564 1.0000 100 chrIII-NC_003074:1957015 1.0000 100 chrIII-NC_003074:6090686 1.0000 100 chrIII-NC_003074:2094464 1.0000 100 chrIII-NC_003074:2232806 1.0000 100 chrIII-NC_003074:2232616 1.0000 100 chrIII-NC_003074:2126201 1.0000 100 chrIII-NC_003074:1419733 1.0000 100 chrIII-NC_003074:6091333 1.0000 100 chrIII-NC_003074:1419811 1.0000 100 chrIII-NC_003074:1420276 1.0000 100 chrIII-NC_003074:1775775 1.0000 100 chrIII-NC_003074:3442908 1.0000 100 chrIII-NC_003074:1359166 1.0000 100 chrIII-NC_003074:4483959 1.0000 100 chrIII-NC_003074:4311103 1.0000 100 chrIII-NC_003074:1420147 1.0000 100 chrIII-NC_003074:2077824 1.0000 100 chrIII-NC_003074:2183065 1.0000 100 chrIII-NC_003074:6805216 1.0000 100 chrIII-NC_003074:1419954 1.0000 100 chrIII-NC_003074:2077784 1.0000 100 chrIII-NC_003074:1420230 1.0000 100 chrIII-NC_003074:2077703 1.0000 100 chrIII-NC_003074:1420158 1.0000 100 chrIII-NC_003074:2077881 1.0000 100 chrII-NC_003071:12822487 1.0000 100 chrII-NC_003071:12815394 1.0000 100 chrII-NC_003071:10136019 1.0000 100 chrII-NC_003071:7757037- 1.0000 100 chrII-NC_003071:16701295 1.0000 100 chrII-NC_003071:16700711 1.0000 100 chrII-NC_003071:7757141- 1.0000 100 chrII-NC_003071:16701681 1.0000 100 chrII-NC_003071:9386441- 1.0000 100 chrII-NC_003071:12822028 1.0000 100 chrII-NC_003071:7756499- 1.0000 100 chrII-NC_003071:10043-10 1.0000 100 chrII-NC_003071:16700349 1.0000 100 chrII-NC_003071:7755687- 1.0000 100 chrII-NC_003071:12822291 1.0000 100 chrII-NC_003071:296912-2 1.0000 100 chrII-NC_003071:14651767 1.0000 100 chrII-NC_003071:10135403 1.0000 100 chrII-NC_003071:9563903- 1.0000 100 chrII-NC_003071:19052032 1.0000 100 chrII-NC_003071:16772577 1.0000 100 chrII-NC_003071:1019-111 1.0000 100 chrII-NC_003071:3492-359 1.0000 100 chrII-NC_003071:9564335- 1.0000 100 chrII-NC_003071:296529-2 1.0000 100 chrII-NC_003071:13556222 1.0000 100 chrII-NC_003071:16701501 1.0000 100 chrII-NC_003071:16700793 1.0000 100 chrII-NC_003071:10135291 1.0000 100 chrII-NC_003071:7755990- 1.0000 100 chrII-NC_003071:5716-581 1.0000 100 chrII-NC_003071:7757348- 1.0000 100 chrII-NC_003071:10135537 1.0000 100 chrII-NC_003071:3621428- 1.0000 100 chrII-NC_003071:3376-347 1.0000 100 chrII-NC_003071:3624580- 1.0000 100 chrII-NC_003071:12815807 1.0000 100 chrII-NC_003071:16701792 1.0000 100 chrI-NC_003070:30385520- 1.0000 100 chrI-NC_003070:6300580-6 1.0000 100 chrI-NC_003070:27646154- 1.0000 100 chrI-NC_003070:7836301-7 1.0000 100 chrI-NC_003070:2928914-2 1.0000 100 chrI-NC_003070:29806896- 1.0000 100 chrI-NC_003070:22035014- 1.0000 100 chrI-NC_003070:5978881-5 1.0000 100 chrI-NC_003070:29806799- 1.0000 100 chrI-NC_003070:7836452-7 1.0000 100 chrI-NC_003070:29808482- 1.0000 100 chrI-NC_003070:29806548- 1.0000 100 chrI-NC_003070:27311247- 1.0000 100 chrI-NC_003070:21441988- 1.0000 100 chrI-NC_003070:26037800- 1.0000 100 chrI-NC_003070:29761068- 1.0000 100 chrI-NC_003070:30385244- 1.0000 100 chrI-NC_003070:6464222-6 1.0000 100 chrI-NC_003070:9950024-9 1.0000 100 chrI-NC_003070:12852685- 1.0000 100 chrI-NC_003070:7267480-7 1.0000 100 chrI-NC_003070:2927917-2 1.0000 100 chrI-NC_003070:27646386- 1.0000 100 chrI-NC_003070:22038449- 1.0000 100 chrI-NC_003070:29809006- 1.0000 100 chrI-NC_003070:27311325- 1.0000 100 chrI-NC_003070:29364983- 1.0000 100 chrI-NC_003070:6299899-6 1.0000 100 chrI-NC_003070:268489-26 1.0000 100 chrI-NC_003070:469370-46 1.0000 100 chrI-NC_003070:29808026- 1.0000 100 chrI-NC_003070:25699666- 1.0000 100 chrI-NC_003070:29807913- 1.0000 100 chrI-NC_003070:488840-48 1.0000 100 chrI-NC_003070:11932029- 1.0000 100 chrI-NC_003070:29807342- 1.0000 100 chrI-NC_003070:38034-381 1.0000 100 chrI-NC_003070:2991908-2 1.0000 100 chrI-NC_003070:22037721- 1.0000 100 chrI-NC_003070:30385618- 1.0000 100 chrI-NC_003070:190296-19 1.0000 100 chrI-NC_003070:6464432-6 1.0000 100 chrI-NC_003070:25880687- 1.0000 100 chrI-NC_003070:29806670- 1.0000 100 chrI-NC_003070:30384469- 1.0000 100 chrI-NC_003070:21441711- 1.0000 100 chrI-NC_003070:27645845- 1.0000 100 chrI-NC_003070:3484378-3 1.0000 100 chrI-NC_003070:27310681- 1.0000 100 chrI-NC_003070:27646006- 1.0000 100 chrI-NC_003070:29808176- 1.0000 100 chrI-NC_003070:15085819- 1.0000 100 chrI-NC_003070:9674398-9 1.0000 100 chrI-NC_003070:29808347- 1.0000 100 chrI-NC_003070:27983149- 1.0000 100 chrI-NC_003070:22036626- 1.0000 100 chrI-NC_003070:27645320- 1.0000 100 chrI-NC_003070:6464674-6 1.0000 100 chrI-NC_003070:28766905- 1.0000 100 chrI-NC_003070:14160176- 1.0000 100 chrI-NC_003070:29805734- 1.0000 100 chrI-NC_003070:29807521- 1.0000 100 chrI-NC_003070:6300355-6 1.0000 100 chrI-NC_003070:22869069- 1.0000 100 chrI-NC_003070:28460336- 1.0000 100 chrI-NC_003070:11929024- 1.0000 100 chrI-NC_003070:30385172- 1.0000 100 chrI-NC_003070:2928406-2 1.0000 100 chrI-NC_003070:29807799- 1.0000 100 chrI-NC_003070:6300705-6 1.0000 100 chrI-NC_003070:27309914- 1.0000 100 chrI-NC_003070:22870274- 1.0000 100 chrI-NC_003070:8060744-8 1.0000 100 chrI-NC_003070:22868835- 1.0000 100 chrI-NC_003070:27982107- 1.0000 100 chrI-NC_003070:9648489-9 1.0000 100 chrI-NC_003070:28183552- 1.0000 100 chrI-NC_003070:22036022- 1.0000 100 chrIV-NC_003075:14580639 1.0000 100 chrIV-NC_003075:15489021 1.0000 100 chrIV-NC_003075:17281432 1.0000 100 chrIV-NC_003075:17280687 1.0000 100 chrIV-NC_003075:13663753 1.0000 100 chrIV-NC_003075:12353024 1.0000 100 chrIV-NC_003075:16357372 1.0000 100 chrIV-NC_003075:18472325 1.0000 100 chrIV-NC_003075:12613831 1.0000 100 chrIV-NC_003075:16356636 1.0000 100 chrIV-NC_003075:14581219 1.0000 100 chrIV-NC_003075:14881482 1.0000 100 chrIV-NC_003075:15488163 1.0000 100 chrIV-NC_003075:14580317 1.0000 100 chrIV-NC_003075:7785865- 1.0000 100 chrIV-NC_003075:17280906 1.0000 100 chrIV-NC_003075:10940333 1.0000 100 chrIV-NC_003075:6865574- 1.0000 100 chrIV-NC_003075:13813146 1.0000 100 chrIV-NC_003075:2588587- 1.0000 100 chrIV-NC_003075:2588921- 1.0000 100 chrIV-NC_003075:13810014 1.0000 100 chrIV-NC_003075:14580865 1.0000 100 chrIV-NC_003075:12687026 1.0000 100 chrIV-NC_003075:15488421 1.0000 100 chrIV-NC_003075:11621778 1.0000 100 chrIV-NC_003075:16356542 1.0000 100 chrIV-NC_003075:13749454 1.0000 100 chrIV-NC_003075:16355810 1.0000 100 chrIV-NC_003075:12686723 1.0000 100 chrIV-NC_003075:14581044 1.0000 100 chrIV-NC_003075:15489722 1.0000 100 chrIV-NC_003075:12687888 1.0000 100 chrIV-NC_003075:12687358 1.0000 100 chrIV-NC_003075:16561683 1.0000 100 chrIV-NC_003075:6865712- 1.0000 100 chrIV-NC_003075:17048909 1.0000 100 chrIV-NC_003075:13810389 1.0000 100 chrIV-NC_003075:12686596 1.0000 100 chrIV-NC_003075:6865359- 1.0000 100 chrIV-NC_003075:2588162- 1.0000 100 chrIV-NC_003075:12317702 1.0000 100 chrIV-NC_003075:16452105 1.0000 100 chrIV-NC_003075:846026-8 1.0000 100 chrIV-NC_003075:845705-8 1.0000 100 chrIV-NC_003075:11638772 1.0000 100 chrIV-NC_003075:2588738- 1.0000 100 chrIV-NC_003075:6865182- 1.0000 100 chrIV-NC_003075:16038515 1.0000 100 chrIV-NC_003075:844805-8 1.0000 100 chrIV-NC_003075:2587864- 1.0000 100 chrIV-NC_003075:15489268 1.0000 100 chrIV-NC_003075:2588494- 1.0000 100 chrIV-NC_003075:10266558 1.0000 100 chrIV-NC_003075:3953552- 1.0000 100 chrIV-NC_003075:15489528 1.0000 100 chrM:362170-362270 1.0000 100 chrV-NC_003076:13900912- 1.0000 100 chrV-NC_003076:6470667-6 1.0000 100 chrV-NC_003076:1216498-1 1.0000 100 chrV-NC_003076:1216397-1 1.0000 100 chrV-NC_003076:19218895- 1.0000 100 chrV-NC_003076:23998936- 1.0000 100 chrV-NC_003076:23700342- 1.0000 100 chrV-NC_003076:16366472- 1.0000 100 chrV-NC_003076:23998678- 1.0000 100 chrV-NC_003076:9097320-9 1.0000 100 chrV-NC_003076:7365891-7 1.0000 100 chrV-NC_003076:3253151-3 1.0000 100 chrV-NC_003076:1254771-1 1.0000 100 chrV-NC_003076:11733194- 1.0000 100 chrV-NC_003076:11731686- 1.0000 100 chrV-NC_003076:25087084- 1.0000 100 chrV-NC_003076:966206-96 1.0000 100 chrV-NC_003076:1931048-1 1.0000 100 chrV-NC_003076:13902826- 1.0000 100 chrV-NC_003076:24476892- 1.0000 100 chrV-NC_003076:19397769- 1.0000 100 chrV-NC_003076:642125-64 1.0000 100 chrV-NC_003076:11735198- 1.0000 100 chrV-NC_003076:9096973-9 1.0000 100 chrV-NC_003076:19399592- 1.0000 100 chrV-NC_003076:25704588- 1.0000 100 chrV-NC_003076:19400210- 1.0000 100 chrV-NC_003076:23307285- 1.0000 100 chrV-NC_003076:13901023- 1.0000 100 chrV-NC_003076:25704896- 1.0000 100 chrV-NC_003076:1931164-1 1.0000 100 chrV-NC_003076:24676595- 1.0000 100 chrV-NC_003076:6470769-6 1.0000 100 chrV-NC_003076:19401390- 1.0000 100 chrV-NC_003076:6470534-6 1.0000 100 chrV-NC_003076:6471214-6 1.0000 100 chrV-NC_003076:13902395- 1.0000 100 chrV-NC_003076:312269-31 1.0000 100 chrV-NC_003076:24064128- 1.0000 100 chrV-NC_003076:13901278- 1.0000 100 chrV-NC_003076:26855363- 1.0000 100 chrV-NC_003076:1931408-1 1.0000 100 chrV-NC_003076:4156500-4 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 16-organelles-nucleus-merged-TOC1_ChIPSeq-GSM878068.36mers.macs2.0.9_peaks.fasta -maxw 10 -dna -nmotifs 10 -maxsize 200000 -o meme-16-organelles-nucleus-merged-TOC1_ChIPSeq-GSM878068.36mers.macs2.0.9_peaks model: mod= zoops nmotifs= 10 evt= inf object function= E-value of product of p-values width: minw= 8 maxw= 10 minic= 0.00 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 277 wnsites= 0.8 theta: prob= 1 spmap= uni spfuzz= 0.5 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 27700 N= 277 strands: + sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.268 C 0.233 G 0.235 T 0.263 Background letter frequencies (from dataset with add-one prior applied): A 0.268 C 0.233 G 0.235 T 0.263 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 8 sites = 25 llr = 236 E-value = 1.6e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :a::::1: pos.-specific C a:a::::7 probability G :::a:a52 matrix T ::::a:42 bits 2.1 * ** * 1.9 ****** 1.7 ****** 1.5 ****** Relative 1.3 ****** Entropy 1.1 ****** (13.6 bits) 0.8 ****** * 0.6 ******** 0.4 ******** 0.2 ******** 0.0 -------- Multilevel CACGTGGC consensus T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrV-NC_003076:25704896- 22 1.16e-05 GTGAGTAAGA CACGTGGC ATAGTAGTGA chrIV-NC_003075:14580865 11 1.16e-05 TCCGAAAGTC CACGTGGC GGCGTATTTT chrI-NC_003070:3484378-3 44 1.16e-05 CGACGGATCT CACGTGGC ACTCTGTCAG chrI-NC_003070:190296-19 28 1.16e-05 GATCGTATTC CACGTGGC AATTTATGTG chrI-NC_003070:2991908-2 34 1.16e-05 TGAGATGGAA CACGTGGC AAGACAGCAT chrIII-NC_003074:7063564 63 1.16e-05 GAGATACGTT CACGTGGC ATTGTCTCTG chrIII-NC_003074:2029701 91 1.16e-05 CTCATCACGA CACGTGGC CT chrIII-NC_003074:6841924 76 1.16e-05 TGCAGCAGCG CACGTGGC ATTAGCTGCG chrV-NC_003076:19401390- 83 2.45e-05 GTGTCGGGTA CACGTGTC AAGTCCCACT chrV-NC_003076:23700342- 51 2.45e-05 TAGATGACGA CACGTGTC AGCTAAGAAG chrIV-NC_003075:14580639 18 2.45e-05 TCCGCTTCGC CACGTGTC GGAGCGTTTC chrI-NC_003070:28460336- 36 2.45e-05 GATCACCGTC CACGTGTC ATCTTTCGTT chrII-NC_003071:16772577 49 2.45e-05 GAGCTTCCGC CACGTGTC TCCTCGAATT chrII-NC_003071:19052032 38 2.45e-05 CTTTTATTGC CACGTGTC TACCACCGTT chrV-NC_003076:24476892- 51 4.94e-05 GCCCAATGAT CACGTGAC AGAGGTGATG chrIV-NC_003075:16038515 17 4.94e-05 GAAAATTGTG CACGTGAC ATGATTTGGT chrIV-NC_003075:11621778 61 4.94e-05 CTGACGTTGT CACGTGAC GCAATCACGA chrIII-NC_003074:6805216 37 4.94e-05 GATTATAGGA CACGTGGG AGTTCCGTTA chrIII-NC_003074:2232806 21 4.94e-05 AGGAAAAGGA CACGTGGG CCTACCTTTT chrI-NC_003070:7267480-7 13 6.24e-05 ATAAACTGTA CACGTGGT CAGATCTCCA chrIII-NC_003074:2232616 59 6.24e-05 GACGTGGCAA CACGTGGT TCCCAGTGAC chrI-NC_003070:28183552- 50 7.55e-05 AAGGTATCAA CACGTGTG TTTTGTACTT chrIII-NC_003074:1786821 82 7.55e-05 GATGCGAGTA CACGTGTG TATTGTGGGG chrV-NC_003076:4156500-4 63 9.01e-05 TAGGTAACGC CACGTGTT ATTCTTTCCT chrI-NC_003070:26037800- 51 9.01e-05 CCCACTAGGA CACGTGTT TACAAGTCCG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV-NC_003076:25704896- 1.2e-05 21_[+1]_71 chrIV-NC_003075:14580865 1.2e-05 10_[+1]_82 chrI-NC_003070:3484378-3 1.2e-05 43_[+1]_49 chrI-NC_003070:190296-19 1.2e-05 27_[+1]_65 chrI-NC_003070:2991908-2 1.2e-05 33_[+1]_59 chrIII-NC_003074:7063564 1.2e-05 62_[+1]_30 chrIII-NC_003074:2029701 1.2e-05 90_[+1]_2 chrIII-NC_003074:6841924 1.2e-05 75_[+1]_17 chrV-NC_003076:19401390- 2.5e-05 82_[+1]_10 chrV-NC_003076:23700342- 2.5e-05 50_[+1]_42 chrIV-NC_003075:14580639 2.5e-05 17_[+1]_75 chrI-NC_003070:28460336- 2.5e-05 35_[+1]_57 chrII-NC_003071:16772577 2.5e-05 48_[+1]_44 chrII-NC_003071:19052032 2.5e-05 37_[+1]_55 chrV-NC_003076:24476892- 4.9e-05 50_[+1]_42 chrIV-NC_003075:16038515 4.9e-05 16_[+1]_76 chrIV-NC_003075:11621778 4.9e-05 60_[+1]_32 chrIII-NC_003074:6805216 4.9e-05 36_[+1]_56 chrIII-NC_003074:2232806 4.9e-05 20_[+1]_72 chrI-NC_003070:7267480-7 6.2e-05 12_[+1]_80 chrIII-NC_003074:2232616 6.2e-05 58_[+1]_34 chrI-NC_003070:28183552- 7.6e-05 49_[+1]_43 chrIII-NC_003074:1786821 7.6e-05 81_[+1]_11 chrV-NC_003076:4156500-4 9e-05 62_[+1]_30 chrI-NC_003070:26037800- 9e-05 50_[+1]_42 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=8 seqs=25 chrV-NC_003076:25704896- ( 22) CACGTGGC 1 chrIV-NC_003075:14580865 ( 11) CACGTGGC 1 chrI-NC_003070:3484378-3 ( 44) CACGTGGC 1 chrI-NC_003070:190296-19 ( 28) CACGTGGC 1 chrI-NC_003070:2991908-2 ( 34) CACGTGGC 1 chrIII-NC_003074:7063564 ( 63) CACGTGGC 1 chrIII-NC_003074:2029701 ( 91) CACGTGGC 1 chrIII-NC_003074:6841924 ( 76) CACGTGGC 1 chrV-NC_003076:19401390- ( 83) CACGTGTC 1 chrV-NC_003076:23700342- ( 51) CACGTGTC 1 chrIV-NC_003075:14580639 ( 18) CACGTGTC 1 chrI-NC_003070:28460336- ( 36) CACGTGTC 1 chrII-NC_003071:16772577 ( 49) CACGTGTC 1 chrII-NC_003071:19052032 ( 38) CACGTGTC 1 chrV-NC_003076:24476892- ( 51) CACGTGAC 1 chrIV-NC_003075:16038515 ( 17) CACGTGAC 1 chrIV-NC_003075:11621778 ( 61) CACGTGAC 1 chrIII-NC_003074:6805216 ( 37) CACGTGGG 1 chrIII-NC_003074:2232806 ( 21) CACGTGGG 1 chrI-NC_003070:7267480-7 ( 13) CACGTGGT 1 chrIII-NC_003074:2232616 ( 59) CACGTGGT 1 chrI-NC_003070:28183552- ( 50) CACGTGTG 1 chrIII-NC_003074:1786821 ( 82) CACGTGTG 1 chrV-NC_003076:4156500-4 ( 63) CACGTGTT 1 chrI-NC_003070:26037800- ( 51) CACGTGTT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 25761 bayes= 11.9301 E= 1.6e-003 -1129 210 -1129 -1129 190 -1129 -1129 -1129 -1129 210 -1129 -1129 -1129 -1129 209 -1129 -1129 -1129 -1129 193 -1129 -1129 209 -1129 -116 -1129 103 61 -1129 154 -56 -72 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 25 E= 1.6e-003 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.120000 0.000000 0.480000 0.400000 0.000000 0.680000 0.160000 0.160000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- CACGTG[GT]C -------------------------------------------------------------------------------- Time 19.38 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 10 sites = 20 llr = 208 E-value = 1.9e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A :39a:a8:aa pos.-specific C 241:2::::: probability G 92::8:2a:: matrix T :2:::::::1 bits 2.1 * 1.9 * * ** 1.7 * * *** 1.5 * **** *** Relative 1.3 * ******** Entropy 1.1 * ******** (15.0 bits) 0.8 * ******** 0.6 * ******** 0.4 * ******** 0.2 * ******** 0.0 ---------- Multilevel GCAAGAAGAA consensus A C G sequence T -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrV-NC_003076:11735198- 51 1.12e-06 GCTTTGAGAA GCAAGAAGAA GGTTGGTTAG chrI-NC_003070:15085819- 55 1.12e-06 GCTTTGAGAA GCAAGAAGAA GGGTGGTTAG chrI-NC_003070:25880687- 36 1.12e-06 CTTTCAACGA GCAAGAAGAA GCTGCTCGTT chrII-NC_003071:3624580- 86 1.12e-06 GCTTTGAGAA GCAAGAAGAA GGTTG chrII-NC_003071:3621428- 40 1.12e-06 GCTTTGAGAA GCAAGAAGAA GGTGGGTTAG chrIII-NC_003074:1359166 36 1.12e-06 GCTTTGAGAA GCAAGAAGAA GGTTGTTTAG chrI-NC_003070:29808482- 31 2.41e-06 GAAGCAAAGG GAAAGAAGAA ACCGCCAGAA chrV-NC_003076:11731686- 43 3.67e-06 GCTTTGAGAA GTAAGAAGAA GGTTGGTTAG chrIII-NC_003074:2077689 30 4.80e-06 CAAGGCAAAA GGAAGAAGAA ACAATGCTTC chrI-NC_003070:29807913- 82 8.03e-06 TAAATAGAGA GAAAGAGGAA TAGACCAGT chrI-NC_003070:6300355-6 33 1.04e-05 ATAGATACAA GAAACAAGAA GTCAATGGAG chrV-NC_003076:1931048-1 26 1.25e-05 TGAATTAGAG GTAAGAGGAA CCTTGAGATC chrII-NC_003071:16700793 23 1.50e-05 TGCCTATACC CAAAGAAGAA ACTCTTCGCC chrIII-NC_003074:1260482 70 1.71e-05 GATGATCACA GGAACAAGAA CACCAATGCT chrI-NC_003070:22036022- 33 2.27e-05 ATATCTGGAG GTCAGAAGAA ACGTGTCACA chrIV-NC_003075:15488163 4 2.48e-05 ACA GGCAGAAGAA GACGGTCTCC chrI-NC_003070:11929024- 25 2.48e-05 AACGCAAGTA GCAAGAAGAT AGGTTTGGTG chrI-NC_003070:29807799- 35 3.33e-05 CGCCAGAAAG GTAACAGGAA CCACGACAGA chrI-NC_003070:29808026- 36 3.33e-05 ATCCCGGAGG CAAAGAGGAA CAAAACCTGA chrIV-NC_003075:2588921- 84 3.46e-05 TTCGATCGCA CAAACAAGAA ACTAACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV-NC_003076:11735198- 1.1e-06 50_[+2]_40 chrI-NC_003070:15085819- 1.1e-06 54_[+2]_36 chrI-NC_003070:25880687- 1.1e-06 35_[+2]_55 chrII-NC_003071:3624580- 1.1e-06 85_[+2]_5 chrII-NC_003071:3621428- 1.1e-06 39_[+2]_51 chrIII-NC_003074:1359166 1.1e-06 35_[+2]_55 chrI-NC_003070:29808482- 2.4e-06 30_[+2]_60 chrV-NC_003076:11731686- 3.7e-06 42_[+2]_48 chrIII-NC_003074:2077689 4.8e-06 29_[+2]_61 chrI-NC_003070:29807913- 8e-06 81_[+2]_9 chrI-NC_003070:6300355-6 1e-05 32_[+2]_58 chrV-NC_003076:1931048-1 1.2e-05 25_[+2]_65 chrII-NC_003071:16700793 1.5e-05 22_[+2]_68 chrIII-NC_003074:1260482 1.7e-05 69_[+2]_21 chrI-NC_003070:22036022- 2.3e-05 32_[+2]_58 chrIV-NC_003075:15488163 2.5e-05 3_[+2]_87 chrI-NC_003070:11929024- 2.5e-05 24_[+2]_66 chrI-NC_003070:29807799- 3.3e-05 34_[+2]_56 chrI-NC_003070:29808026- 3.3e-05 35_[+2]_55 chrIV-NC_003075:2588921- 3.5e-05 83_[+2]_7 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=10 seqs=20 chrV-NC_003076:11735198- ( 51) GCAAGAAGAA 1 chrI-NC_003070:15085819- ( 55) GCAAGAAGAA 1 chrI-NC_003070:25880687- ( 36) GCAAGAAGAA 1 chrII-NC_003071:3624580- ( 86) GCAAGAAGAA 1 chrII-NC_003071:3621428- ( 40) GCAAGAAGAA 1 chrIII-NC_003074:1359166 ( 36) GCAAGAAGAA 1 chrI-NC_003070:29808482- ( 31) GAAAGAAGAA 1 chrV-NC_003076:11731686- ( 43) GTAAGAAGAA 1 chrIII-NC_003074:2077689 ( 30) GGAAGAAGAA 1 chrI-NC_003070:29807913- ( 82) GAAAGAGGAA 1 chrI-NC_003070:6300355-6 ( 33) GAAACAAGAA 1 chrV-NC_003076:1931048-1 ( 26) GTAAGAGGAA 1 chrII-NC_003071:16700793 ( 23) CAAAGAAGAA 1 chrIII-NC_003074:1260482 ( 70) GGAACAAGAA 1 chrI-NC_003070:22036022- ( 33) GTCAGAAGAA 1 chrIV-NC_003075:15488163 ( 4) GGCAGAAGAA 1 chrI-NC_003070:11929024- ( 25) GCAAGAAGAT 1 chrI-NC_003070:29807799- ( 35) GTAACAGGAA 1 chrI-NC_003070:29808026- ( 36) CAAAGAGGAA 1 chrIV-NC_003075:2588921- ( 84) CAAACAAGAA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 9.73232 E= 1.9e-003 -1097 -64 185 -1097 16 59 -65 -39 174 -122 -1097 -1097 190 -1097 -1097 -1097 -1097 -22 176 -1097 190 -1097 -1097 -1097 157 -1097 -24 -1097 -1097 -1097 209 -1097 190 -1097 -1097 -1097 182 -1097 -1097 -239 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 20 E= 1.9e-003 0.000000 0.150000 0.850000 0.000000 0.300000 0.350000 0.150000 0.200000 0.900000 0.100000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.800000 0.000000 1.000000 0.000000 0.000000 0.000000 0.800000 0.000000 0.200000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.950000 0.000000 0.000000 0.050000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- G[CAT]AA[GC]A[AG]GAA -------------------------------------------------------------------------------- Time 35.74 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 10 sites = 12 llr = 142 E-value = 1.0e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A a::1:1:a:a pos.-specific C ::a:3:::1: probability G :9::1:a:9: matrix T :1:979:::: bits 2.1 * * 1.9 * * ** * 1.7 *** **** 1.5 **** ***** Relative 1.3 **** ***** Entropy 1.1 **** ***** (17.0 bits) 0.8 ********** 0.6 ********** 0.4 ********** 0.2 ********** 0.0 ---------- Multilevel AGCTTTGAGA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrV-NC_003076:11735198- 40 1.06e-06 AAACCATGAA AGCTTTGAGA AGCAAGAAGA chrV-NC_003076:11731686- 32 1.06e-06 ACACCATGAA AGCTTTGAGA AGTAAGAAGA chrV-NC_003076:11733194- 89 1.06e-06 ACACCGTGTA AGCTTTGAGA AG chrI-NC_003070:15085819- 44 1.06e-06 ACACCATGAA AGCTTTGAGA AGCAAGAAGA chrII-NC_003071:3624580- 75 1.06e-06 ACACCATGAA AGCTTTGAGA AGCAAGAAGA chrII-NC_003071:3621428- 29 1.06e-06 ACACCATGAA AGCTTTGAGA AGCAAGAAGA chrIII-NC_003074:1359166 25 1.06e-06 ACACCATGAA AGCTTTGAGA AGCAAGAAGA chrV-NC_003076:24476892- 6 2.94e-06 ACGAG AGCTGTGAGA TGTTGATGGG chrI-NC_003070:28766905- 49 7.34e-06 AAACTCCATC AGCATTGAGA TCAAAAGCAC chrI-NC_003070:26037800- 69 8.27e-06 TACAAGTCCG AGCTCTGACA TGCTTCACGT chrI-NC_003070:29807342- 85 1.12e-05 CCATCAGAGG AGCTCAGAGA TAGATA chrII-NC_003071:10135403 66 1.12e-05 AGCTTGATCA ATCTCTGAGA GACTAGTCAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV-NC_003076:11735198- 1.1e-06 39_[+3]_51 chrV-NC_003076:11731686- 1.1e-06 31_[+3]_59 chrV-NC_003076:11733194- 1.1e-06 88_[+3]_2 chrI-NC_003070:15085819- 1.1e-06 43_[+3]_47 chrII-NC_003071:3624580- 1.1e-06 74_[+3]_16 chrII-NC_003071:3621428- 1.1e-06 28_[+3]_62 chrIII-NC_003074:1359166 1.1e-06 24_[+3]_66 chrV-NC_003076:24476892- 2.9e-06 5_[+3]_85 chrI-NC_003070:28766905- 7.3e-06 48_[+3]_42 chrI-NC_003070:26037800- 8.3e-06 68_[+3]_22 chrI-NC_003070:29807342- 1.1e-05 84_[+3]_6 chrII-NC_003071:10135403 1.1e-05 65_[+3]_25 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=10 seqs=12 chrV-NC_003076:11735198- ( 40) AGCTTTGAGA 1 chrV-NC_003076:11731686- ( 32) AGCTTTGAGA 1 chrV-NC_003076:11733194- ( 89) AGCTTTGAGA 1 chrI-NC_003070:15085819- ( 44) AGCTTTGAGA 1 chrII-NC_003071:3624580- ( 75) AGCTTTGAGA 1 chrII-NC_003071:3621428- ( 29) AGCTTTGAGA 1 chrIII-NC_003074:1359166 ( 25) AGCTTTGAGA 1 chrV-NC_003076:24476892- ( 6) AGCTGTGAGA 1 chrI-NC_003070:28766905- ( 49) AGCATTGAGA 1 chrI-NC_003070:26037800- ( 69) AGCTCTGACA 1 chrI-NC_003070:29807342- ( 85) AGCTCAGAGA 1 chrII-NC_003071:10135403 ( 66) ATCTCTGAGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 11.4835 E= 1.0e-001 190 -1023 -1023 -1023 -1023 -1023 196 -165 -1023 210 -1023 -1023 -169 -1023 -1023 180 -1023 10 -150 134 -169 -1023 -1023 180 -1023 -1023 209 -1023 190 -1023 -1023 -1023 -1023 -148 196 -1023 190 -1023 -1023 -1023 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 12 E= 1.0e-001 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.916667 0.083333 0.000000 1.000000 0.000000 0.000000 0.083333 0.000000 0.000000 0.916667 0.000000 0.250000 0.083333 0.666667 0.083333 0.000000 0.000000 0.916667 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.083333 0.916667 0.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- AGCT[TC]TGAGA -------------------------------------------------------------------------------- Time 51.94 secs. ******************************************************************************** ******************************************************************************** MOTIF 4 width = 10 sites = 17 llr = 181 E-value = 1.5e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 4 Description -------------------------------------------------------------------------------- Simplified A :91::::1:: pos.-specific C 2:9:::::6: probability G 8:11::89:: matrix T :1:9aa2:4a bits 2.1 1.9 ** * 1.7 *** * 1.5 ***** * * Relative 1.3 ******** * Entropy 1.1 ********** (15.4 bits) 0.8 ********** 0.6 ********** 0.4 ********** 0.2 ********** 0.0 ---------- Multilevel GACTTTGGCT consensus C T T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrV-NC_003076:11735198- 20 9.03e-07 GACTCATATG GACTTTGGCT AAACCATGAA chrV-NC_003076:11733194- 69 9.03e-07 GACTCATATG GACTTTGGCT ACACCGTGTA chrI-NC_003070:15085819- 24 9.03e-07 GACTCATCTG GACTTTGGCT ACACCATGAA chrII-NC_003071:3624580- 55 9.03e-07 GACTTATATG GACTTTGGCT ACACCATGAA chrIII-NC_003074:1359166 5 9.03e-07 TATT GACTTTGGCT ACACCATGAA chrII-NC_003071:3621428- 9 1.92e-06 CTCATATG GACTTTGGTT ACACCATGAA chrIV-NC_003075:16357372 62 4.84e-06 GATTTTACTG CACTTTGGTT TCTCGATCTC chrIV-NC_003075:3953552- 3 6.87e-06 GA GTCTTTGGCT TTGTGTCTTC chrI-NC_003070:27309914- 20 9.90e-06 CTAAGCAGAA CACTTTTGCT GCATGTAGAC chrI-NC_003070:5978881-5 61 9.90e-06 CGAAGCAGGA CACTTTTGCT GCAGGGAGGC chrI-NC_003070:27983149- 82 1.19e-05 GTGCGAGGAA GACTTTGATT GAGTTAGCT chrI-NC_003070:27311325- 63 1.19e-05 TGGCACGACA GACTTTGATT AGTGCGGACG chrV-NC_003076:11731686- 12 1.50e-05 GACTCATATG GAATTTGGCT ACACCATGAA chrIII-NC_003074:6805216 74 1.50e-05 AGGCCCATGT CACTTTTGTT GTTATACCCA chrI-NC_003070:12852685- 46 1.67e-05 ACCAAACAAC GACGTTGGTT TAGACGGGAT chrII-NC_003071:3376-347 36 1.78e-05 AGGAATTGTT GAGTTTGGTT TACACCTTTG chrI-NC_003070:27646006- 59 1.88e-05 ATCATAGTAT GTCTTTTGCT TTTGTATTGC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV-NC_003076:11735198- 9e-07 19_[+4]_71 chrV-NC_003076:11733194- 9e-07 68_[+4]_22 chrI-NC_003070:15085819- 9e-07 23_[+4]_67 chrII-NC_003071:3624580- 9e-07 54_[+4]_36 chrIII-NC_003074:1359166 9e-07 4_[+4]_86 chrII-NC_003071:3621428- 1.9e-06 8_[+4]_82 chrIV-NC_003075:16357372 4.8e-06 61_[+4]_29 chrIV-NC_003075:3953552- 6.9e-06 2_[+4]_88 chrI-NC_003070:27309914- 9.9e-06 19_[+4]_71 chrI-NC_003070:5978881-5 9.9e-06 60_[+4]_30 chrI-NC_003070:27983149- 1.2e-05 81_[+4]_9 chrI-NC_003070:27311325- 1.2e-05 62_[+4]_28 chrV-NC_003076:11731686- 1.5e-05 11_[+4]_79 chrIII-NC_003074:6805216 1.5e-05 73_[+4]_17 chrI-NC_003070:12852685- 1.7e-05 45_[+4]_45 chrII-NC_003071:3376-347 1.8e-05 35_[+4]_55 chrI-NC_003070:27646006- 1.9e-05 58_[+4]_32 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 4 width=10 seqs=17 chrV-NC_003076:11735198- ( 20) GACTTTGGCT 1 chrV-NC_003076:11733194- ( 69) GACTTTGGCT 1 chrI-NC_003070:15085819- ( 24) GACTTTGGCT 1 chrII-NC_003071:3624580- ( 55) GACTTTGGCT 1 chrIII-NC_003074:1359166 ( 5) GACTTTGGCT 1 chrII-NC_003071:3621428- ( 9) GACTTTGGTT 1 chrIV-NC_003075:16357372 ( 62) CACTTTGGTT 1 chrIV-NC_003075:3953552- ( 3) GTCTTTGGCT 1 chrI-NC_003070:27309914- ( 20) CACTTTTGCT 1 chrI-NC_003070:5978881-5 ( 61) CACTTTTGCT 1 chrI-NC_003070:27983149- ( 82) GACTTTGATT 1 chrI-NC_003070:27311325- ( 63) GACTTTGATT 1 chrV-NC_003076:11731686- ( 12) GAATTTGGCT 1 chrIII-NC_003074:6805216 ( 74) CACTTTTGTT 1 chrI-NC_003070:12852685- ( 46) GACGTTGGTT 1 chrII-NC_003071:3376-347 ( 36) GAGTTTGGTT 1 chrI-NC_003070:27646006- ( 59) GTCTTTTGCT 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 10.6027 E= 1.5e-001 -1073 1 170 -1073 172 -1073 -1073 -116 -219 192 -200 -1073 -1073 -1073 -200 184 -1073 -1073 -1073 193 -1073 -1073 -1073 193 -1073 -1073 170 -16 -119 -1073 191 -1073 -1073 133 -1073 65 -1073 -1073 -1073 193 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 17 E= 1.5e-001 0.000000 0.235294 0.764706 0.000000 0.882353 0.000000 0.000000 0.117647 0.058824 0.882353 0.058824 0.000000 0.000000 0.000000 0.058824 0.941176 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.764706 0.235294 0.117647 0.000000 0.882353 0.000000 0.000000 0.588235 0.000000 0.411765 0.000000 0.000000 0.000000 1.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 4 regular expression -------------------------------------------------------------------------------- [GC]ACTTT[GT]G[CT]T -------------------------------------------------------------------------------- Time 68.05 secs. ******************************************************************************** ******************************************************************************** MOTIF 5 width = 10 sites = 29 llr = 269 E-value = 1.0e+000 ******************************************************************************** -------------------------------------------------------------------------------- Motif 5 Description -------------------------------------------------------------------------------- Simplified A 1:::::::1: pos.-specific C 1a:3a:79:2 probability G 2:::::1:22 matrix T 6:a7:a2185 bits 2.1 * 1.9 ** ** 1.7 ** ** * 1.5 ** ** * Relative 1.3 ** ** * Entropy 1.1 ***** ** (13.4 bits) 0.8 ******** 0.6 ********* 0.4 ********** 0.2 ********** 0.0 ---------- Multilevel TCTTCTCCTT consensus G C T C sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrIV-NC_003075:15488163 72 2.71e-06 CTCCAGATCT TCTTCTCCTC CTGTAGCGCC chrIII-NC_003074:5348251 59 2.71e-06 GATAATGTAC TCTTCTCCTG TTCCGTCGTA chrII-NC_003071:3376-347 62 4.45e-06 TTTGCCCGCG GCTTCTCCTT CGTGGGGAAG chrIII-NC_003074:1419733 71 4.45e-06 CATGCCCGCG GCTTCTCCTT CGTGGGGAAG chrIV-NC_003075:16561683 91 5.55e-06 CAGATCAAGC TCTTCTTCTT chrI-NC_003070:27645320- 75 5.55e-06 ATTGTTTCCG TCTTCTTCTT CTTCCCCAAC chrI-NC_003070:21441711- 30 5.55e-06 AGCTCCACCA TCTTCTTCTT GTTTCTCTTA chrII-NC_003071:16701501 52 5.55e-06 TGATATACCT TCTTCTTCTT CATCTTCGCA chrI-NC_003070:27646154- 90 8.82e-06 CACTTCAATT TCTCCTCCTC C chrV-NC_003076:25087084- 71 1.04e-05 GAACGCTTAC GCTTCTCCTG TTCTCCACTC chrIII-NC_003074:2077689 45 1.04e-05 AAGAAACAAT GCTTCTCCTC GAATTCGCTG chrI-NC_003070:29364983- 77 1.31e-05 CAACAACCTC TCTTCTTCTC AGATCCACCA chrIV-NC_003075:12686596 78 2.28e-05 CCACCGTCAC TCTCCTCCGT CCAGCTCTCG chrIV-NC_003075:12687888 55 2.28e-05 TCTGCCTCTG TCTCCTCCGT TCTCGGATCT chrIV-NC_003075:12613831 18 2.28e-05 AAACACATTA TCTTCTGCTT GCTAGTTTTG chrII-NC_003071:9386441- 64 2.28e-05 AGCTTCACAC TCTTCTCTTT CATCTCTCAT chrII-NC_003071:19052032 17 2.69e-05 CACCCTCCAC GCTCCTCCTG TCTTTTATTG chrIV-NC_003075:13810014 69 3.21e-05 TCTGCCTTGT CCTTCTCCGT CGAGTAGTAG chrI-NC_003070:27982107- 82 3.21e-05 TATATTGACA CCTTCTCCGT CACTCCTCC chrIII-NC_003074:5121947 14 3.53e-05 TCGTGGTCAG CCTCCTCCTG TGACATCGGC chrII-NC_003071:296912-2 9 4.12e-05 TGACATAG TCTTCTCTTC CTTTGGTTGA chrIV-NC_003075:15489021 89 5.31e-05 TTTGATGTAA TCTTCTTCGG TT chrIII-NC_003074:2077719 56 5.31e-05 CTTGCTTGAT GCTTCTGCTT TGGTTAACTC chrIII-NC_003074:1717912 86 6.85e-05 AACGGCATGT TCTTCTTCAT TACTC chrIV-NC_003075:13663753 40 7.19e-05 GTGAAGCCAA ACTCCTCCTC AATGACCTCC chrI-NC_003070:29761068- 81 7.19e-05 CGTCCTGCGT ACTCCTCCTG ACACCTTCCC chrI-NC_003070:29807342- 69 7.60e-05 TCAGGCCAAG CCTTCTCCAT CAGAGGAGCT chrIII-NC_003074:2077784 24 7.60e-05 GCCAGGGTTG TCTCCTCTTG CTTATTCTTC chrI-NC_003070:3484378-3 19 9.81e-05 CGAAGCAACC TCTTTTCCTC GTTTTCGACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV-NC_003075:15488163 2.7e-06 71_[+5]_19 chrIII-NC_003074:5348251 2.7e-06 58_[+5]_32 chrII-NC_003071:3376-347 4.4e-06 61_[+5]_29 chrIII-NC_003074:1419733 4.4e-06 70_[+5]_20 chrIV-NC_003075:16561683 5.5e-06 90_[+5] chrI-NC_003070:27645320- 5.5e-06 74_[+5]_16 chrI-NC_003070:21441711- 5.5e-06 29_[+5]_61 chrII-NC_003071:16701501 5.5e-06 51_[+5]_39 chrI-NC_003070:27646154- 8.8e-06 89_[+5]_1 chrV-NC_003076:25087084- 1e-05 70_[+5]_20 chrIII-NC_003074:2077689 1e-05 44_[+5]_46 chrI-NC_003070:29364983- 1.3e-05 76_[+5]_14 chrIV-NC_003075:12686596 2.3e-05 77_[+5]_13 chrIV-NC_003075:12687888 2.3e-05 54_[+5]_36 chrIV-NC_003075:12613831 2.3e-05 17_[+5]_73 chrII-NC_003071:9386441- 2.3e-05 63_[+5]_27 chrII-NC_003071:19052032 2.7e-05 16_[+5]_74 chrIV-NC_003075:13810014 3.2e-05 68_[+5]_22 chrI-NC_003070:27982107- 3.2e-05 81_[+5]_9 chrIII-NC_003074:5121947 3.5e-05 13_[+5]_77 chrII-NC_003071:296912-2 4.1e-05 8_[+5]_82 chrIV-NC_003075:15489021 5.3e-05 88_[+5]_2 chrIII-NC_003074:2077719 5.3e-05 55_[+5]_35 chrIII-NC_003074:1717912 6.8e-05 85_[+5]_5 chrIV-NC_003075:13663753 7.2e-05 39_[+5]_51 chrI-NC_003070:29761068- 7.2e-05 80_[+5]_10 chrI-NC_003070:29807342- 7.6e-05 68_[+5]_22 chrIII-NC_003074:2077784 7.6e-05 23_[+5]_67 chrI-NC_003070:3484378-3 9.8e-05 18_[+5]_72 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 5 width=10 seqs=29 chrIV-NC_003075:15488163 ( 72) TCTTCTCCTC 1 chrIII-NC_003074:5348251 ( 59) TCTTCTCCTG 1 chrII-NC_003071:3376-347 ( 62) GCTTCTCCTT 1 chrIII-NC_003074:1419733 ( 71) GCTTCTCCTT 1 chrIV-NC_003075:16561683 ( 91) TCTTCTTCTT 1 chrI-NC_003070:27645320- ( 75) TCTTCTTCTT 1 chrI-NC_003070:21441711- ( 30) TCTTCTTCTT 1 chrII-NC_003071:16701501 ( 52) TCTTCTTCTT 1 chrI-NC_003070:27646154- ( 90) TCTCCTCCTC 1 chrV-NC_003076:25087084- ( 71) GCTTCTCCTG 1 chrIII-NC_003074:2077689 ( 45) GCTTCTCCTC 1 chrI-NC_003070:29364983- ( 77) TCTTCTTCTC 1 chrIV-NC_003075:12686596 ( 78) TCTCCTCCGT 1 chrIV-NC_003075:12687888 ( 55) TCTCCTCCGT 1 chrIV-NC_003075:12613831 ( 18) TCTTCTGCTT 1 chrII-NC_003071:9386441- ( 64) TCTTCTCTTT 1 chrII-NC_003071:19052032 ( 17) GCTCCTCCTG 1 chrIV-NC_003075:13810014 ( 69) CCTTCTCCGT 1 chrI-NC_003070:27982107- ( 82) CCTTCTCCGT 1 chrIII-NC_003074:5121947 ( 14) CCTCCTCCTG 1 chrII-NC_003071:296912-2 ( 9) TCTTCTCTTC 1 chrIV-NC_003075:15489021 ( 89) TCTTCTTCGG 1 chrIII-NC_003074:2077719 ( 56) GCTTCTGCTT 1 chrIII-NC_003074:1717912 ( 86) TCTTCTTCAT 1 chrIV-NC_003075:13663753 ( 40) ACTCCTCCTC 1 chrI-NC_003070:29761068- ( 81) ACTCCTCCTG 1 chrI-NC_003070:29807342- ( 69) CCTTCTCCAT 1 chrIII-NC_003074:2077784 ( 24) TCTCCTCTTG 1 chrI-NC_003070:3484378-3 ( 19) TCTTTTCCTC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 11.012 E= 1.0e+000 -196 -76 -19 116 -1150 210 -1150 -1150 -1150 -1150 -1150 193 -1150 24 -1150 146 -1150 205 -1150 -293 -1150 -1150 -1150 193 -1150 156 -177 -12 -1150 194 -1150 -134 -196 -1150 -45 153 -1150 5 4 98 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 29 E= 1.0e+000 0.068966 0.137931 0.206897 0.586207 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.275862 0.000000 0.724138 0.000000 0.965517 0.000000 0.034483 0.000000 0.000000 0.000000 1.000000 0.000000 0.689655 0.068966 0.241379 0.000000 0.896552 0.000000 0.103448 0.068966 0.000000 0.172414 0.758621 0.000000 0.241379 0.241379 0.517241 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 5 regular expression -------------------------------------------------------------------------------- [TG]CT[TC]CT[CT]CT[TCG] -------------------------------------------------------------------------------- Time 84.20 secs. ******************************************************************************** ******************************************************************************** MOTIF 6 width = 10 sites = 10 llr = 119 E-value = 4.0e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 6 Description -------------------------------------------------------------------------------- Simplified A 91a::a::9a pos.-specific C 17:aa::::: probability G :2:::::9:: matrix T ::::::a11: bits 2.1 ** 1.9 ***** * 1.7 ****** * 1.5 * ******** Relative 1.3 * ******** Entropy 1.1 * ******** (17.2 bits) 0.8 ********** 0.6 ********** 0.4 ********** 0.2 ********** 0.0 ---------- Multilevel ACACCATGAA consensus G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrV-NC_003076:11731686- 22 1.08e-06 GAATTTGGCT ACACCATGAA AGCTTTGAGA chrI-NC_003070:15085819- 34 1.08e-06 GACTTTGGCT ACACCATGAA AGCTTTGAGA chrII-NC_003071:3624580- 65 1.08e-06 GACTTTGGCT ACACCATGAA AGCTTTGAGA chrII-NC_003071:3621428- 19 1.08e-06 GACTTTGGTT ACACCATGAA AGCTTTGAGA chrIII-NC_003074:1359166 15 1.08e-06 GACTTTGGCT ACACCATGAA AGCTTTGAGA chrI-NC_003070:22869069- 3 2.17e-06 GG AGACCATGAA TGAGATTGCA chrV-NC_003076:11735198- 30 4.35e-06 GACTTTGGCT AAACCATGAA AGCTTTGAGA chrIII-NC_003074:1956981 74 4.35e-06 GGCAGCTCCG CCACCATGAA TCTCTGTTCT chrI-NC_003070:9674398-9 9 6.62e-06 TGGTTGCC ACACCATTAA GTTTTACTTG chrV-NC_003076:23700342- 33 8.64e-06 CAGAAGAGTA AGACCATGTA GATGACGACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV-NC_003076:11731686- 1.1e-06 21_[+6]_69 chrI-NC_003070:15085819- 1.1e-06 33_[+6]_57 chrII-NC_003071:3624580- 1.1e-06 64_[+6]_26 chrII-NC_003071:3621428- 1.1e-06 18_[+6]_72 chrIII-NC_003074:1359166 1.1e-06 14_[+6]_76 chrI-NC_003070:22869069- 2.2e-06 2_[+6]_88 chrV-NC_003076:11735198- 4.4e-06 29_[+6]_61 chrIII-NC_003074:1956981 4.4e-06 73_[+6]_17 chrI-NC_003070:9674398-9 6.6e-06 8_[+6]_82 chrV-NC_003076:23700342- 8.6e-06 32_[+6]_58 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 6 width=10 seqs=10 chrV-NC_003076:11731686- ( 22) ACACCATGAA 1 chrI-NC_003070:15085819- ( 34) ACACCATGAA 1 chrII-NC_003071:3624580- ( 65) ACACCATGAA 1 chrII-NC_003071:3621428- ( 19) ACACCATGAA 1 chrIII-NC_003074:1359166 ( 15) ACACCATGAA 1 chrI-NC_003070:22869069- ( 3) AGACCATGAA 1 chrV-NC_003076:11735198- ( 30) AAACCATGAA 1 chrIII-NC_003074:1956981 ( 74) CCACCATGAA 1 chrI-NC_003070:9674398-9 ( 9) ACACCATTAA 1 chrV-NC_003076:23700342- ( 33) AGACCATGTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 11.5507 E= 4.0e+001 174 -122 -997 -997 -142 158 -24 -997 190 -997 -997 -997 -997 210 -997 -997 -997 210 -997 -997 190 -997 -997 -997 -997 -997 -997 193 -997 -997 193 -139 174 -997 -997 -139 190 -997 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 10 E= 4.0e+001 0.900000 0.100000 0.000000 0.000000 0.100000 0.700000 0.200000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.900000 0.100000 0.900000 0.000000 0.000000 0.100000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 6 regular expression -------------------------------------------------------------------------------- A[CG]ACCATGAA -------------------------------------------------------------------------------- Time 100.12 secs. ******************************************************************************** ******************************************************************************** MOTIF 7 width = 10 sites = 9 llr = 106 E-value = 3.4e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif 7 Description -------------------------------------------------------------------------------- Simplified A ::::11:::a pos.-specific C :::a9::4:: probability G :::::99:9: matrix T aaa:::161: bits 2.1 * 1.9 **** * 1.7 **** * 1.5 ******* ** Relative 1.3 ******* ** Entropy 1.1 ********** (17.1 bits) 0.8 ********** 0.6 ********** 0.4 ********** 0.2 ********** 0.0 ---------- Multilevel TTTCCGGTGA consensus C sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrIV-NC_003075:2588921- 8 9.03e-07 GATAGTC TTTCCGGTGA GAGTCTTAAC chrIV-NC_003075:2588738- 80 1.70e-06 CTCCAACTGC TTTCCGGCGA AGATAAGCCT chrIV-NC_003075:2588587- 3 1.70e-06 GC TTTCCGGCGA AGATCAACCT chrII-NC_003071:16701295 81 1.70e-06 GAGATTTGGT TTTCCGGCGA TGTTTTGTTC chrIII-NC_003074:1419593 48 1.70e-06 CCGGAAAACT TTTCCGGCGA CTTTTCCGGC chrIV-NC_003075:16452105 44 4.76e-06 TGTCAGGGTT TTTCCAGTGA CAGCACAGTG chrIV-NC_003075:14581044 57 4.76e-06 AAACTCTGGG TTTCCGTTGA CTGATTATCT chrI-NC_003070:27645845- 50 4.76e-06 GGGTCTGGCA TTTCCGGTTA ATGAAAGCTT chrIII-NC_003074:1773982 81 8.50e-06 CTCCAATCTT TTTCAGGTGA CATAGGGACT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV-NC_003075:2588921- 9e-07 7_[+7]_83 chrIV-NC_003075:2588738- 1.7e-06 79_[+7]_11 chrIV-NC_003075:2588587- 1.7e-06 2_[+7]_88 chrII-NC_003071:16701295 1.7e-06 80_[+7]_10 chrIII-NC_003074:1419593 1.7e-06 47_[+7]_43 chrIV-NC_003075:16452105 4.8e-06 43_[+7]_47 chrIV-NC_003075:14581044 4.8e-06 56_[+7]_34 chrI-NC_003070:27645845- 4.8e-06 49_[+7]_41 chrIII-NC_003074:1773982 8.5e-06 80_[+7]_10 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 7 width=10 seqs=9 chrIV-NC_003075:2588921- ( 8) TTTCCGGTGA 1 chrIV-NC_003075:2588738- ( 80) TTTCCGGCGA 1 chrIV-NC_003075:2588587- ( 3) TTTCCGGCGA 1 chrII-NC_003071:16701295 ( 81) TTTCCGGCGA 1 chrIII-NC_003074:1419593 ( 48) TTTCCGGCGA 1 chrIV-NC_003075:16452105 ( 44) TTTCCAGTGA 1 chrIV-NC_003075:14581044 ( 57) TTTCCGTTGA 1 chrI-NC_003070:27645845- ( 50) TTTCCGGTTA 1 chrIII-NC_003074:1773982 ( 81) TTTCAGGTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 12.2993 E= 3.4e+003 -982 -982 -982 193 -982 -982 -982 193 -982 -982 -982 193 -982 210 -982 -982 -127 193 -982 -982 -127 -982 192 -982 -982 -982 192 -124 -982 93 -982 108 -982 -982 192 -124 190 -982 -982 -982 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 9 E= 3.4e+003 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.111111 0.888889 0.000000 0.000000 0.111111 0.000000 0.888889 0.000000 0.000000 0.000000 0.888889 0.111111 0.000000 0.444444 0.000000 0.555556 0.000000 0.000000 0.888889 0.111111 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 7 regular expression -------------------------------------------------------------------------------- TTTCCGG[TC]GA -------------------------------------------------------------------------------- Time 116.09 secs. ******************************************************************************** ******************************************************************************** MOTIF 8 width = 10 sites = 4 llr = 53 E-value = 2.1e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 8 Description -------------------------------------------------------------------------------- Simplified A :::::::::: pos.-specific C :a:aa:aa:a probability G 8:8::a::a: matrix T 3:3::::::: bits 2.1 * ******* 1.9 * ******* 1.7 * ******* 1.5 * ******* Relative 1.3 ********** Entropy 1.1 ********** (19.2 bits) 0.8 ********** 0.6 ********** 0.4 ********** 0.2 ********** 0.0 ---------- Multilevel GCGCCGCCGC consensus T T sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrIV-NC_003075:12686723 70 4.88e-07 AAATCGGAAG GCGCCGCCGC GTTATTCTCA chrIV-NC_003075:15488163 87 4.88e-07 TCCTCCTGTA GCGCCGCCGC TTCC chrII-NC_003071:16700793 38 1.58e-06 AAGAAACTCT TCGCCGCCGC TTCCACCGCT chrIII-NC_003074:5693703 8 1.58e-06 CGCCGGA GCTCCGCCGC TATCGCCGAC -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV-NC_003075:12686723 4.9e-07 69_[+8]_21 chrIV-NC_003075:15488163 4.9e-07 86_[+8]_4 chrII-NC_003071:16700793 1.6e-06 37_[+8]_53 chrIII-NC_003074:5693703 1.6e-06 7_[+8]_83 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 8 width=10 seqs=4 chrIV-NC_003075:12686723 ( 70) GCGCCGCCGC 1 chrIV-NC_003075:15488163 ( 87) GCGCCGCCGC 1 chrII-NC_003071:16700793 ( 38) TCGCCGCCGC 1 chrIII-NC_003074:5693703 ( 8) GCTCCGCCGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 13.3584 E= 2.1e+004 -865 -865 167 -7 -865 210 -865 -865 -865 -865 167 -7 -865 210 -865 -865 -865 210 -865 -865 -865 -865 208 -865 -865 210 -865 -865 -865 210 -865 -865 -865 -865 208 -865 -865 210 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 4 E= 2.1e+004 0.000000 0.000000 0.750000 0.250000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.250000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 8 regular expression -------------------------------------------------------------------------------- [GT]C[GT]CCGCCGC -------------------------------------------------------------------------------- Time 132.01 secs. ******************************************************************************** ******************************************************************************** MOTIF 9 width = 10 sites = 5 llr = 66 E-value = 1.3e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 9 Description -------------------------------------------------------------------------------- Simplified A :::::::::8 pos.-specific C a::8:a:::: probability G :aa2a:a:a2 matrix T :::::::a:: bits 2.1 *** *** * 1.9 *** ***** 1.7 *** ***** 1.5 ********* Relative 1.3 ********** Entropy 1.1 ********** (19.1 bits) 0.8 ********** 0.6 ********** 0.4 ********** 0.2 ********** 0.0 ---------- Multilevel CGGCGCGTGA consensus G G sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ---------- chrV-NC_003076:7365891-7 3 6.39e-07 GC CGGCGCGTGA GAATCTTCAC chrIV-NC_003075:13663753 24 6.39e-07 GTGTCAATGC CGGCGCGTGA AGCCAAACTC chrI-NC_003070:2927917-2 49 6.39e-07 GATGACGCAG CGGCGCGTGA CAATCGTCTT chrIV-NC_003075:14581044 10 1.20e-06 GGCAAAGAG CGGCGCGTGG GATGTTACGT chrIII-NC_003074:6805216 19 1.84e-06 GTAACTAAAA CGGGGCGTGA TTATAGGACA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrV-NC_003076:7365891-7 6.4e-07 2_[+9]_88 chrIV-NC_003075:13663753 6.4e-07 23_[+9]_67 chrI-NC_003070:2927917-2 6.4e-07 48_[+9]_42 chrIV-NC_003075:14581044 1.2e-06 9_[+9]_81 chrIII-NC_003074:6805216 1.8e-06 18_[+9]_72 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 9 width=10 seqs=5 chrV-NC_003076:7365891-7 ( 3) CGGCGCGTGA 1 chrIV-NC_003075:13663753 ( 24) CGGCGCGTGA 1 chrI-NC_003070:2927917-2 ( 49) CGGCGCGTGA 1 chrIV-NC_003075:14581044 ( 10) CGGCGCGTGG 1 chrIII-NC_003074:6805216 ( 19) CGGGGCGTGA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 10 n= 25207 bayes= 12.5509 E= 1.3e+004 -897 210 -897 -897 -897 -897 208 -897 -897 -897 208 -897 -897 178 -23 -897 -897 -897 208 -897 -897 210 -897 -897 -897 -897 208 -897 -897 -897 -897 193 -897 -897 208 -897 157 -897 -23 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 10 nsites= 5 E= 1.3e+004 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.800000 0.200000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.800000 0.000000 0.200000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 9 regular expression -------------------------------------------------------------------------------- CGG[CG]GCGTG[AG] -------------------------------------------------------------------------------- Time 147.85 secs. ******************************************************************************** ******************************************************************************** MOTIF 10 width = 9 sites = 4 llr = 51 E-value = 4.3e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif 10 Description -------------------------------------------------------------------------------- Simplified A :a:::::a: pos.-specific C a:aa::a:a probability G ::::a:::: matrix T :::::a::: bits 2.1 * *** * * 1.9 ********* 1.7 ********* 1.5 ********* Relative 1.3 ********* Entropy 1.1 ********* (18.3 bits) 0.8 ********* 0.6 ********* 0.4 ********* 0.2 ********* 0.0 --------- Multilevel CACCGTCAC consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- --------- chrIV-NC_003075:845705-8 69 3.05e-06 CGTGTTTCAT CACCGTCAC TACTATCACA chrI-NC_003070:29807913- 35 3.05e-06 TAAAAAAAAA CACCGTCAC AAGCATAAGA chrII-NC_003071:7757141- 13 3.05e-06 TCTCTCTCGC CACCGTCAC ATCCAAAACC chrIII-NC_003074:3442908 59 3.05e-06 ACACTTCTCT CACCGTCAC ACGGATCGGT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrIV-NC_003075:845705-8 3e-06 68_[+10]_23 chrI-NC_003070:29807913- 3e-06 34_[+10]_57 chrII-NC_003071:7757141- 3e-06 12_[+10]_79 chrIII-NC_003074:3442908 3e-06 58_[+10]_33 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 10 width=9 seqs=4 chrIV-NC_003075:845705-8 ( 69) CACCGTCAC 1 chrI-NC_003070:29807913- ( 35) CACCGTCAC 1 chrII-NC_003071:7757141- ( 13) CACCGTCAC 1 chrIII-NC_003074:3442908 ( 59) CACCGTCAC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 9 n= 25484 bayes= 11.7889 E= 4.3e+004 -865 210 -865 -865 189 -865 -865 -865 -865 210 -865 -865 -865 210 -865 -865 -865 -865 208 -865 -865 -865 -865 193 -865 210 -865 -865 189 -865 -865 -865 -865 210 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 9 nsites= 4 E= 4.3e+004 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 10 regular expression -------------------------------------------------------------------------------- CACCGTCAC -------------------------------------------------------------------------------- Time 163.76 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chloroplast:137295-13739 5.79e-01 100 chloroplast:137703-13780 8.09e-01 100 chloroplast:101017-10111 2.66e-01 100 chloroplast:137530-13763 5.54e-01 100 chloroplast:102011-10211 2.94e-01 100 chloroplast:100838-10093 3.54e-01 100 chloroplast:101249-10134 5.88e-01 100 chloroplast:136536-13663 8.69e-01 100 chrIII-NC_003074:2077839 9.71e-02 100 chrIII-NC_003074:6092297 6.65e-02 88_[+3(8.64e-05)]_2 chrIII-NC_003074:1419895 8.10e-01 100 chrIII-NC_003074:3589388 5.29e-01 100 chrIII-NC_003074:1773982 8.72e-03 80_[+7(8.50e-06)]_10 chrIII-NC_003074:1420213 5.63e-01 100 chrIII-NC_003074:5122672 1.64e-01 100 chrIII-NC_003074:2077689 3.20e-03 29_[+2(4.80e-06)]_5_[+5(1.04e-05)]_46 chrIII-NC_003074:1419650 2.69e-01 100 chrIII-NC_003074:1595255 6.83e-02 66_[+10(2.82e-05)]_25 chrIII-NC_003074:2077772 6.21e-01 100 chrIII-NC_003074:1717912 8.82e-02 85_[+5(6.85e-05)]_5 chrIII-NC_003074:1420100 2.85e-01 100 chrIII-NC_003074:1419593 1.22e-02 47_[+7(1.70e-06)]_2_[+7(1.70e-06)]_31 chrIII-NC_003074:1260482 4.42e-02 69_[+2(1.71e-05)]_21 chrIII-NC_003074:5121947 3.66e-02 13_[+5(3.53e-05)]_77 chrIII-NC_003074:5693703 1.16e-02 7_[+8(1.58e-06)]_83 chrIII-NC_003074:1956981 1.19e-04 73_[+6(4.35e-06)]_17 chrIII-NC_003074:5348251 5.53e-03 58_[+5(2.71e-06)]_32 chrIII-NC_003074:6841924 1.48e-01 45_[+1(4.94e-05)]_22_[+1(1.16e-05)]_17 chrIII-NC_003074:1786821 1.96e-01 81_[+1(7.55e-05)]_11 chrIII-NC_003074:2077719 5.09e-01 55_[+5(5.31e-05)]_35 chrIII-NC_003074:6090825 8.44e-01 100 chrIII-NC_003074:1419583 7.51e-01 100 chrIII-NC_003074:1836399 3.98e-01 100 chrIII-NC_003074:1797587 3.69e-01 100 chrIII-NC_003074:2029701 1.45e-02 90_[+1(1.16e-05)]_2 chrIII-NC_003074:7063564 3.14e-02 27_[+1(9.01e-05)]_27_[+1(1.16e-05)]_30 chrIII-NC_003074:1957015 6.60e-01 100 chrIII-NC_003074:6090686 9.90e-01 100 chrIII-NC_003074:2094464 8.43e-01 100 chrIII-NC_003074:2232806 1.41e-02 20_[+1(4.94e-05)]_72 chrIII-NC_003074:2232616 1.21e-01 58_[+1(6.24e-05)]_34 chrIII-NC_003074:2126201 6.35e-01 100 chrIII-NC_003074:1419733 9.77e-03 70_[+5(4.45e-06)]_20 chrIII-NC_003074:6091333 7.73e-01 100 chrIII-NC_003074:1419811 7.83e-01 100 chrIII-NC_003074:1420276 1.82e-01 100 chrIII-NC_003074:1775775 2.60e-01 100 chrIII-NC_003074:3442908 1.05e-01 58_[+10(3.05e-06)]_33 chrIII-NC_003074:1359166 3.50e-09 4_[+4(9.03e-07)]_[+6(1.08e-06)]_[+3(1.06e-06)]_1_[+2(1.12e-06)]_55 chrIII-NC_003074:4483959 7.27e-03 4_[+3(1.22e-05)]_86 chrIII-NC_003074:4311103 4.77e-01 100 chrIII-NC_003074:1420147 9.70e-01 100 chrIII-NC_003074:2077824 5.68e-01 100 chrIII-NC_003074:2183065 7.42e-01 100 chrIII-NC_003074:6805216 3.44e-05 18_[+9(1.84e-06)]_8_[+1(4.94e-05)]_29_[+4(1.50e-05)]_17 chrIII-NC_003074:1419954 6.95e-01 100 chrIII-NC_003074:2077784 7.37e-01 23_[+5(7.60e-05)]_67 chrIII-NC_003074:1420230 9.18e-01 100 chrIII-NC_003074:2077703 2.81e-02 16_[+2(7.66e-05)]_74 chrIII-NC_003074:1420158 4.98e-01 100 chrIII-NC_003074:2077881 3.25e-01 100 chrII-NC_003071:12822487 5.65e-01 100 chrII-NC_003071:12815394 8.68e-01 100 chrII-NC_003071:10136019 4.51e-01 100 chrII-NC_003071:7757037- 5.96e-01 100 chrII-NC_003071:16701295 3.41e-02 80_[+7(1.70e-06)]_10 chrII-NC_003071:16700711 1.31e-02 47_[+8(4.80e-05)]_43 chrII-NC_003071:7757141- 1.62e-03 12_[+10(3.05e-06)]_79 chrII-NC_003071:16701681 1.15e-01 100 chrII-NC_003071:9386441- 3.41e-01 63_[+5(2.28e-05)]_27 chrII-NC_003071:12822028 2.75e-01 100 chrII-NC_003071:7756499- 4.15e-01 100 chrII-NC_003071:10043-10 7.99e-01 100 chrII-NC_003071:16700349 4.36e-01 100 chrII-NC_003071:7755687- 1.97e-01 100 chrII-NC_003071:12822291 1.10e-01 100 chrII-NC_003071:296912-2 5.80e-01 8_[+5(4.12e-05)]_82 chrII-NC_003071:14651767 5.84e-01 100 chrII-NC_003071:10135403 7.44e-02 65_[+3(1.12e-05)]_25 chrII-NC_003071:9563903- 2.05e-01 100 chrII-NC_003071:19052032 4.41e-04 16_[+5(2.69e-05)]_11_[+1(2.45e-05)]_55 chrII-NC_003071:16772577 4.61e-02 48_[+1(2.45e-05)]_44 chrII-NC_003071:1019-111 4.71e-01 100 chrII-NC_003071:3492-359 8.41e-01 100 chrII-NC_003071:9564335- 5.84e-01 100 chrII-NC_003071:296529-2 4.95e-01 100 chrII-NC_003071:13556222 3.21e-01 100 chrII-NC_003071:16701501 4.24e-02 51_[+5(5.55e-06)]_39 chrII-NC_003071:16700793 5.81e-04 22_[+2(1.50e-05)]_5_[+8(1.58e-06)]_53 chrII-NC_003071:10135291 8.47e-01 100 chrII-NC_003071:7755990- 4.95e-01 100 chrII-NC_003071:5716-581 6.69e-01 100 chrII-NC_003071:7757348- 1.74e-02 100 chrII-NC_003071:10135537 6.10e-02 100 chrII-NC_003071:3621428- 5.95e-09 8_[+4(1.92e-06)]_[+6(1.08e-06)]_[+3(1.06e-06)]_1_[+2(1.12e-06)]_51 chrII-NC_003071:3376-347 4.61e-03 35_[+4(1.78e-05)]_16_[+5(4.45e-06)]_29 chrII-NC_003071:3624580- 1.31e-08 54_[+4(9.03e-07)]_[+6(1.08e-06)]_[+3(1.06e-06)]_1_[+2(1.12e-06)]_5 chrII-NC_003071:12815807 1.14e-01 100 chrII-NC_003071:16701792 7.08e-01 100 chrI-NC_003070:30385520- 7.92e-01 100 chrI-NC_003070:6300580-6 9.71e-01 100 chrI-NC_003070:27646154- 1.08e-01 89_[+5(8.82e-06)]_1 chrI-NC_003070:7836301-7 9.52e-01 100 chrI-NC_003070:2928914-2 8.10e-01 100 chrI-NC_003070:29806896- 9.70e-01 100 chrI-NC_003070:22035014- 5.18e-01 13_[+2(8.76e-05)]_77 chrI-NC_003070:5978881-5 3.78e-02 60_[+4(9.90e-06)]_30 chrI-NC_003070:29806799- 7.91e-01 100 chrI-NC_003070:7836452-7 8.24e-02 53_[+10(8.82e-05)]_38 chrI-NC_003070:29808482- 1.95e-01 30_[+2(2.41e-06)]_60 chrI-NC_003070:29806548- 9.41e-01 100 chrI-NC_003070:27311247- 5.45e-01 100 chrI-NC_003070:21441988- 7.83e-01 100 chrI-NC_003070:26037800- 9.04e-04 23_[+2(5.04e-05)]_17_[+1(9.01e-05)]_10_[+3(8.27e-06)]_22 chrI-NC_003070:29761068- 3.39e-02 80_[+5(7.19e-05)]_10 chrI-NC_003070:30385244- 7.45e-01 100 chrI-NC_003070:6464222-6 3.47e-01 100 chrI-NC_003070:9950024-9 1.43e-01 100 chrI-NC_003070:12852685- 2.67e-01 45_[+4(1.67e-05)]_45 chrI-NC_003070:7267480-7 1.99e-01 12_[+1(6.24e-05)]_80 chrI-NC_003070:2927917-2 4.79e-04 48_[+9(6.39e-07)]_42 chrI-NC_003070:27646386- 6.60e-01 100 chrI-NC_003070:22038449- 9.03e-01 100 chrI-NC_003070:29809006- 2.79e-01 100 chrI-NC_003070:27311325- 6.48e-02 62_[+4(1.19e-05)]_28 chrI-NC_003070:29364983- 1.95e-01 76_[+5(1.31e-05)]_14 chrI-NC_003070:6299899-6 6.17e-02 100 chrI-NC_003070:268489-26 1.59e-01 52_[+8(6.41e-05)]_38 chrI-NC_003070:469370-46 2.28e-01 100 chrI-NC_003070:29808026- 1.35e-01 35_[+2(3.33e-05)]_55 chrI-NC_003070:25699666- 7.81e-01 100 chrI-NC_003070:29807913- 4.95e-03 34_[+10(3.05e-06)]_38_[+2(8.03e-06)]_9 chrI-NC_003070:488840-48 7.36e-01 100 chrI-NC_003070:11932029- 8.94e-01 100 chrI-NC_003070:29807342- 8.76e-02 68_[+5(7.60e-05)]_6_[+3(1.12e-05)]_6 chrI-NC_003070:38034-381 9.18e-01 100 chrI-NC_003070:2991908-2 6.39e-03 33_[+1(1.16e-05)]_59 chrI-NC_003070:22037721- 5.45e-01 100 chrI-NC_003070:30385618- 5.98e-01 100 chrI-NC_003070:190296-19 1.93e-01 27_[+1(1.16e-05)]_65 chrI-NC_003070:6464432-6 7.24e-01 100 chrI-NC_003070:25880687- 2.88e-04 35_[+2(1.12e-06)]_55 chrI-NC_003070:29806670- 9.93e-01 100 chrI-NC_003070:30384469- 2.71e-01 100 chrI-NC_003070:21441711- 6.85e-02 29_[+5(5.55e-06)]_61 chrI-NC_003070:27645845- 8.50e-02 49_[+7(4.76e-06)]_41 chrI-NC_003070:3484378-3 9.40e-03 18_[+5(9.81e-05)]_15_[+1(1.16e-05)]_49 chrI-NC_003070:27310681- 6.17e-01 100 chrI-NC_003070:27646006- 2.88e-03 58_[+4(1.88e-05)]_32 chrI-NC_003070:29808176- 7.88e-01 100 chrI-NC_003070:15085819- 4.51e-09 23_[+4(9.03e-07)]_[+6(1.08e-06)]_[+3(1.06e-06)]_1_[+2(1.12e-06)]_36 chrI-NC_003070:9674398-9 2.87e-02 8_[+6(6.62e-06)]_82 chrI-NC_003070:29808347- 8.22e-01 100 chrI-NC_003070:27983149- 3.88e-02 81_[+4(1.19e-05)]_9 chrI-NC_003070:22036626- 3.45e-01 100 chrI-NC_003070:27645320- 8.72e-02 74_[+5(5.55e-06)]_16 chrI-NC_003070:6464674-6 2.95e-01 100 chrI-NC_003070:28766905- 2.87e-01 48_[+3(7.34e-06)]_42 chrI-NC_003070:14160176- 9.45e-01 100 chrI-NC_003070:29805734- 8.40e-01 100 chrI-NC_003070:29807521- 3.37e-01 100 chrI-NC_003070:6300355-6 2.28e-01 32_[+2(1.04e-05)]_58 chrI-NC_003070:22869069- 6.90e-02 2_[+6(2.17e-06)]_88 chrI-NC_003070:28460336- 3.78e-02 35_[+1(2.45e-05)]_19_[+10(8.82e-05)]_29 chrI-NC_003070:11929024- 2.22e-02 24_[+2(2.48e-05)]_66 chrI-NC_003070:30385172- 6.46e-01 100 chrI-NC_003070:2928406-2 2.92e-01 100 chrI-NC_003070:29807799- 3.43e-02 34_[+2(3.33e-05)]_56 chrI-NC_003070:6300705-6 9.34e-01 100 chrI-NC_003070:27309914- 2.41e-02 19_[+4(9.90e-06)]_71 chrI-NC_003070:22870274- 7.04e-01 100 chrI-NC_003070:8060744-8 2.64e-02 100 chrI-NC_003070:22868835- 2.58e-02 100 chrI-NC_003070:27982107- 2.87e-03 85_[+10(2.82e-05)]_6 chrI-NC_003070:9648489-9 2.23e-01 100 chrI-NC_003070:28183552- 1.79e-01 49_[+1(7.55e-05)]_43 chrI-NC_003070:22036022- 2.32e-01 32_[+2(2.27e-05)]_58 chrIV-NC_003075:14580639 2.65e-02 17_[+1(2.45e-05)]_75 chrIV-NC_003075:15489021 2.14e-01 88_[+5(5.31e-05)]_2 chrIV-NC_003075:17281432 9.74e-01 100 chrIV-NC_003075:17280687 5.23e-01 100 chrIV-NC_003075:13663753 4.57e-04 23_[+9(6.39e-07)]_6_[+5(7.19e-05)]_51 chrIV-NC_003075:12353024 3.83e-01 76_[+4(6.92e-05)]_14 chrIV-NC_003075:16357372 2.31e-01 61_[+4(4.84e-06)]_29 chrIV-NC_003075:18472325 2.64e-01 100 chrIV-NC_003075:12613831 4.11e-01 17_[+5(2.28e-05)]_73 chrIV-NC_003075:16356636 6.47e-01 100 chrIV-NC_003075:14581219 9.57e-01 100 chrIV-NC_003075:14881482 4.56e-01 100 chrIV-NC_003075:15488163 2.03e-05 3_[+2(2.48e-05)]_58_[+5(2.71e-06)]_5_[+8(4.88e-07)]_4 chrIV-NC_003075:14580317 7.80e-01 100 chrIV-NC_003075:7785865- 6.79e-01 100 chrIV-NC_003075:17280906 4.32e-01 100 chrIV-NC_003075:10940333 4.44e-01 100 chrIV-NC_003075:6865574- 3.81e-01 100 chrIV-NC_003075:13813146 3.25e-01 100 chrIV-NC_003075:2588587- 2.19e-02 2_[+7(1.70e-06)]_88 chrIV-NC_003075:2588921- 1.09e-02 7_[+7(9.03e-07)]_66_[+2(3.46e-05)]_7 chrIV-NC_003075:13810014 2.76e-02 68_[+5(3.21e-05)]_22 chrIV-NC_003075:14580865 1.80e-01 10_[+1(1.16e-05)]_82 chrIV-NC_003075:12687026 8.24e-01 100 chrIV-NC_003075:15488421 8.39e-01 100 chrIV-NC_003075:11621778 5.28e-02 60_[+1(4.94e-05)]_32 chrIV-NC_003075:16356542 2.50e-01 100 chrIV-NC_003075:13749454 2.83e-01 100 chrIV-NC_003075:16355810 8.45e-01 100 chrIV-NC_003075:12686723 9.51e-04 69_[+8(4.88e-07)]_21 chrIV-NC_003075:14581044 1.61e-03 9_[+9(1.20e-06)]_37_[+7(4.76e-06)]_34 chrIV-NC_003075:15489722 9.67e-01 100 chrIV-NC_003075:12687888 1.52e-01 54_[+5(2.28e-05)]_36 chrIV-NC_003075:12687358 6.23e-01 100 chrIV-NC_003075:16561683 2.83e-01 90_[+5(5.55e-06)] chrIV-NC_003075:6865712- 8.73e-01 100 chrIV-NC_003075:17048909 4.98e-01 100 chrIV-NC_003075:13810389 6.91e-01 100 chrIV-NC_003075:12686596 1.86e-03 68_[+10(3.05e-06)]_[+5(2.28e-05)]_13 chrIV-NC_003075:6865359- 6.13e-01 100 chrIV-NC_003075:2588162- 4.71e-01 100 chrIV-NC_003075:12317702 2.35e-01 100 chrIV-NC_003075:16452105 5.31e-04 43_[+7(4.76e-06)]_47 chrIV-NC_003075:846026-8 8.35e-01 100 chrIV-NC_003075:845705-8 8.29e-02 68_[+10(3.05e-06)]_23 chrIV-NC_003075:11638772 1.92e-01 100 chrIV-NC_003075:2588738- 1.24e-02 79_[+7(1.70e-06)]_11 chrIV-NC_003075:6865182- 1.00e+00 100 chrIV-NC_003075:16038515 4.35e-01 16_[+1(4.94e-05)]_76 chrIV-NC_003075:844805-8 5.46e-02 67_[+10(8.82e-05)]_24 chrIV-NC_003075:2587864- 7.45e-01 100 chrIV-NC_003075:15489268 3.19e-01 100 chrIV-NC_003075:2588494- 1.21e-01 100 chrIV-NC_003075:10266558 5.72e-01 100 chrIV-NC_003075:3953552- 1.73e-02 2_[+4(6.87e-06)]_88 chrIV-NC_003075:15489528 7.81e-01 100 chrM:362170-362270 8.19e-01 100 chrV-NC_003076:13900912- 6.44e-01 100 chrV-NC_003076:6470667-6 5.95e-01 100 chrV-NC_003076:1216498-1 3.30e-02 100 chrV-NC_003076:1216397-1 5.16e-01 100 chrV-NC_003076:19218895- 6.29e-01 100 chrV-NC_003076:23998936- 1.32e-01 100 chrV-NC_003076:23700342- 5.21e-03 32_[+6(8.64e-06)]_8_[+1(2.45e-05)]_42 chrV-NC_003076:16366472- 1.70e-01 100 chrV-NC_003076:23998678- 6.85e-01 100 chrV-NC_003076:9097320-9 7.62e-01 100 chrV-NC_003076:7365891-7 6.19e-03 2_[+9(6.39e-07)]_88 chrV-NC_003076:3253151-3 1.97e-01 100 chrV-NC_003076:1254771-1 3.54e-01 100 chrV-NC_003076:11733194- 1.83e-05 68_[+4(9.03e-07)]_10_[+3(1.06e-06)]_2 chrV-NC_003076:11731686- 1.60e-07 11_[+4(1.50e-05)]_[+6(1.08e-06)]_[+3(1.06e-06)]_1_[+2(3.67e-06)]_48 chrV-NC_003076:25087084- 2.52e-03 70_[+5(1.04e-05)]_20 chrV-NC_003076:966206-96 4.53e-02 86_[+10(2.82e-05)]_5 chrV-NC_003076:1931048-1 6.27e-02 25_[+2(1.25e-05)]_65 chrV-NC_003076:13902826- 9.31e-01 100 chrV-NC_003076:24476892- 6.11e-02 5_[+3(2.94e-06)]_35_[+1(4.94e-05)]_42 chrV-NC_003076:19397769- 9.19e-01 100 chrV-NC_003076:642125-64 6.84e-01 100 chrV-NC_003076:11735198- 4.47e-08 19_[+4(9.03e-07)]_[+6(4.35e-06)]_[+3(1.06e-06)]_1_[+2(1.12e-06)]_40 chrV-NC_003076:9096973-9 4.30e-01 100 chrV-NC_003076:19399592- 9.70e-01 100 chrV-NC_003076:25704588- 2.95e-01 71_[+10(8.82e-05)]_20 chrV-NC_003076:19400210- 4.35e-01 100 chrV-NC_003076:23307285- 6.62e-01 100 chrV-NC_003076:13901023- 3.50e-02 100 chrV-NC_003076:25704896- 8.19e-02 21_[+1(1.16e-05)]_71 chrV-NC_003076:1931164-1 2.06e-03 15_[+3(9.36e-05)]_28_[+8(6.41e-05)]_37 chrV-NC_003076:24676595- 8.62e-01 100 chrV-NC_003076:6470769-6 4.06e-01 60_[+4(4.81e-05)]_30 chrV-NC_003076:19401390- 5.15e-01 82_[+1(2.45e-05)]_10 chrV-NC_003076:6470534-6 7.08e-01 100 chrV-NC_003076:6471214-6 3.92e-01 100 chrV-NC_003076:13902395- 1.85e-01 100 chrV-NC_003076:312269-31 8.69e-02 100 chrV-NC_003076:24064128- 9.92e-01 100 chrV-NC_003076:13901278- 8.40e-01 100 chrV-NC_003076:26855363- 4.85e-01 100 chrV-NC_003076:1931408-1 8.67e-01 100 chrV-NC_003076:4156500-4 1.77e-02 62_[+1(9.01e-05)]_30 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 10 reached. ******************************************************************************** CPU: pongo ********************************************************************************