******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.3.3 (Release date: Sun Feb 7 15:39:52 2021 -0800) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** PRIMARY SEQUENCES= ../result/final_prediction/fly/fasta/RankLinear8.0_60/Med.fasta CONTROL SEQUENCES= --none-- ALPHABET= ACGT Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ chr2R:6149504-6149624 1.0000 120 chrX:19146444-19146564 1.0000 120 chrX:10184802-10184922 1.0000 120 chr3L:9509186-9509306 1.0000 120 chrX:8493594-8493714 1.0000 120 chr3L:2572147-2572267 1.0000 120 chr2R:6149704-6149824 1.0000 120 chr2L:8610990-8611110 1.0000 120 chrX:16105819-16105939 1.0000 120 chr2L:6561581-6561701 1.0000 120 chrX:11391660-11391780 1.0000 120 chrX:18239463-18239583 1.0000 120 chrX:7307631-7307751 1.0000 120 chr2R:24293584-24293704 1.0000 120 chr2L:1362359-1362479 1.0000 120 chr3L:648343-648463 1.0000 120 chrX:19665965-19666085 1.0000 120 chr3L:8029509-8029629 1.0000 120 chrX:16650567-16650687 1.0000 120 chr2L:7936552-7936672 1.0000 120 chr2L:5278497-5278617 1.0000 120 chrX:7317359-7317479 1.0000 120 chr3R:30501360-30501480 1.0000 120 chr2R:22450424-22450544 1.0000 120 chr2L:3748858-3748978 1.0000 120 chrX:13401380-13401500 1.0000 120 chr2R:2567065-2567185 1.0000 120 chr2R:20994811-20994931 1.0000 120 chr3R:16948746-16948866 1.0000 120 chr2R:24197647-24197767 1.0000 120 chrX:1260469-1260589 1.0000 120 chr2R:21091989-21092109 1.0000 120 chr3R:10762080-10762200 1.0000 120 chr3R:14356755-14356875 1.0000 120 chr2R:12928624-12928744 1.0000 120 chr3R:26235174-26235294 1.0000 120 chr2L:8894390-8894510 1.0000 120 chrX:2708280-2708400 1.0000 120 chrX:15653647-15653767 1.0000 120 chr2R:24132813-24132933 1.0000 120 chr3R:27289759-27289879 1.0000 120 chr3L:1976891-1977011 1.0000 120 chrX:15120253-15120373 1.0000 120 chr3L:15563530-15563650 1.0000 120 chrX:10387787-10387907 1.0000 120 chr2R:12278155-12278275 1.0000 120 chr2R:13261853-13261973 1.0000 120 chr2R:17161044-17161164 1.0000 120 chr2R:22066810-22066930 1.0000 120 chr2L:5972210-5972330 1.0000 120 chr3R:15927346-15927466 1.0000 120 chr2L:740161-740281 1.0000 120 chr3R:27557170-27557290 1.0000 120 chrX:18366649-18366769 1.0000 120 chr3L:4413873-4413993 1.0000 120 chr3R:6170850-6170970 1.0000 120 chr2R:7077034-7077154 1.0000 120 chr3L:1385781-1385901 1.0000 120 chrX:14580517-14580637 1.0000 120 chr3R:13382972-13383092 1.0000 120 chr2L:7175915-7176035 1.0000 120 chr3L:9461755-9461875 1.0000 120 chrX:19494428-19494548 1.0000 120 chrX:11925350-11925470 1.0000 120 chr3R:21993066-21993186 1.0000 120 chrX:6179517-6179637 1.0000 120 chr3R:31805358-31805478 1.0000 120 chr3R:20735507-20735627 1.0000 120 chr2R:10013339-10013459 1.0000 120 chr2R:16673017-16673137 1.0000 120 chr3R:9938623-9938743 1.0000 120 chr2R:6656302-6656422 1.0000 120 chrX:948269-948389 1.0000 120 chr2L:17784789-17784909 1.0000 120 chr3L:1880825-1880945 1.0000 120 chr2R:16660189-16660309 1.0000 120 chr3R:22034284-22034404 1.0000 120 chr2L:15039388-15039508 1.0000 120 chr3R:30013241-30013361 1.0000 120 chr3R:21118944-21119064 1.0000 120 chrX:13370990-13371110 1.0000 120 chrX:8273889-8274009 1.0000 120 chrX:3403519-3403639 1.0000 120 chr3L:11303976-11304096 1.0000 120 chr3R:8524452-8524572 1.0000 120 chr3R:10411871-10411991 1.0000 120 chr3R:18315371-18315491 1.0000 120 chr3R:15985819-15985939 1.0000 120 chr2R:16344391-16344511 1.0000 120 chr2R:16551959-16552079 1.0000 120 chr3L:15098078-15098198 1.0000 120 chr3R:13078408-13078528 1.0000 120 chr2R:11809491-11809611 1.0000 120 chr2L:18707997-18708117 1.0000 120 chrX:8900288-8900408 1.0000 120 chr2L:10767951-10768071 1.0000 120 chr2R:17698955-17699075 1.0000 120 chr3L:4413161-4413281 1.0000 120 chr3L:22277374-22277494 1.0000 120 chr2R:20319585-20319705 1.0000 120 chr3R:21887610-21887730 1.0000 120 chr3R:31134178-31134298 1.0000 120 chr3L:2377531-2377651 1.0000 120 chr2R:19292107-19292227 1.0000 120 chr2R:10437896-10438016 1.0000 120 chr3L:1609790-1609910 1.0000 120 chrX:20423880-20424000 1.0000 120 chr2R:11712177-11712297 1.0000 120 chrX:18834523-18834643 1.0000 120 chr2R:18774901-18775021 1.0000 120 chr3L:13411174-13411294 1.0000 120 chr3R:13716980-13717100 1.0000 120 chr3L:3770981-3771101 1.0000 120 chr2L:19141043-19141163 1.0000 120 chr3R:32051839-32051959 1.0000 120 chrX:7901790-7901910 1.0000 120 chr3R:10648893-10649013 1.0000 120 chr2R:21535541-21535661 1.0000 120 chrX:5082974-5083094 1.0000 120 chrX:14826101-14826221 1.0000 120 chr3L:1139512-1139632 1.0000 120 chrX:8677543-8677663 1.0000 120 chr3L:6904109-6904229 1.0000 120 chr3R:16704395-16704515 1.0000 120 chrX:5312127-5312247 1.0000 120 chrX:10600639-10600759 1.0000 120 chrX:1392943-1393063 1.0000 120 chrX:3968843-3968963 1.0000 120 chr2R:16170829-16170949 1.0000 120 chr3L:1578696-1578816 1.0000 120 chrX:12221669-12221789 1.0000 120 chr2L:21156203-21156323 1.0000 120 chr3R:10893547-10893667 1.0000 120 chr3R:10024180-10024300 1.0000 120 chr2L:7940787-7940907 1.0000 120 chr3R:23028640-23028760 1.0000 120 chr2L:18377262-18377382 1.0000 120 chr3R:10100734-10100854 1.0000 120 chr3R:23679953-23680073 1.0000 120 chr2L:4403135-4403255 1.0000 120 chr2R:13054997-13055117 1.0000 120 chrX:3068440-3068560 1.0000 120 chr3R:11796946-11797066 1.0000 120 chrX:5084885-5085005 1.0000 120 chrX:18405110-18405230 1.0000 120 chrX:13253167-13253287 1.0000 120 chrX:1478436-1478556 1.0000 120 chr2R:18660591-18660711 1.0000 120 chr3R:18215435-18215555 1.0000 120 chr3L:4186823-4186943 1.0000 120 chr3R:16355545-16355665 1.0000 120 chr2R:23818411-23818531 1.0000 120 chr2R:13968130-13968250 1.0000 120 chrX:6375774-6375894 1.0000 120 chr2L:16816074-16816194 1.0000 120 chr3L:1618328-1618448 1.0000 120 chrX:7710931-7711051 1.0000 120 chr2L:16743088-16743208 1.0000 120 chr3R:31610992-31611112 1.0000 120 chr3R:29089829-29089949 1.0000 120 chr2L:6956867-6956987 1.0000 120 chrX:10587605-10587725 1.0000 120 chrX:4262813-4262933 1.0000 120 chr2R:20906670-20906790 1.0000 120 chr3L:16955352-16955472 1.0000 120 chr3R:20829894-20830014 1.0000 120 chrX:1517626-1517746 1.0000 120 chr2L:11829394-11829514 1.0000 120 chr3R:23760566-23760686 1.0000 120 chr3R:30004770-30004890 1.0000 120 chrX:1858980-1859100 1.0000 120 chr3R:10696524-10696644 1.0000 120 chr3L:18791550-18791670 1.0000 120 chr3R:26230197-26230317 1.0000 120 chr2R:17564741-17564861 1.0000 120 chr2R:18536724-18536844 1.0000 120 chrX:8436853-8436973 1.0000 120 chr3R:25515453-25515573 1.0000 120 chr2L:7027148-7027268 1.0000 120 chr3L:16129537-16129657 1.0000 120 chr3R:24518156-24518276 1.0000 120 chr3L:9899185-9899305 1.0000 120 chr2L:20715173-20715293 1.0000 120 chr2L:15762622-15762742 1.0000 120 chr3L:199191-199311 1.0000 120 chr3R:16919190-16919310 1.0000 120 chr3L:8720196-8720316 1.0000 120 chr3L:17597032-17597152 1.0000 120 chrX:14602695-14602815 1.0000 120 chr2R:7916544-7916664 1.0000 120 chr2R:9426415-9426535 1.0000 120 chr3L:10899356-10899476 1.0000 120 chr3R:27273631-27273751 1.0000 120 chr2R:25085516-25085636 1.0000 120 chrX:5420852-5420972 1.0000 120 chr2L:21658569-21658689 1.0000 120 chr3R:16099826-16099946 1.0000 120 chrX:3719759-3719879 1.0000 120 chrX:4366293-4366413 1.0000 120 chrX:17696820-17696940 1.0000 120 chr2R:18829729-18829849 1.0000 120 chr3L:6264584-6264704 1.0000 120 chr2R:20587376-20587496 1.0000 120 chrX:17751798-17751918 1.0000 120 chr2L:1150673-1150793 1.0000 120 chr3L:18784689-18784809 1.0000 120 chr3L:3896806-3896926 1.0000 120 chr3L:9847548-9847668 1.0000 120 chr3R:21499646-21499766 1.0000 120 chrX:2536290-2536410 1.0000 120 chr3L:2851091-2851211 1.0000 120 chr2R:8900181-8900301 1.0000 120 chr2L:14094771-14094891 1.0000 120 chr3R:31687943-31688063 1.0000 120 chrX:15739051-15739171 1.0000 120 chr3R:21580215-21580335 1.0000 120 chr2R:16150909-16151029 1.0000 120 chr3R:5758966-5759086 1.0000 120 chr2L:20881456-20881576 1.0000 120 chr2L:13219908-13220028 1.0000 120 chr2L:20950785-20950905 1.0000 120 chr2L:11203770-11203890 1.0000 120 chrX:18635423-18635543 1.0000 120 chr3L:1463784-1463904 1.0000 120 chrX:18899922-18900042 1.0000 120 chr3R:29859931-29860051 1.0000 120 chr2R:14913288-14913408 1.0000 120 chr2R:9388617-9388737 1.0000 120 chrX:2443933-2444053 1.0000 120 chr3R:10134464-10134584 1.0000 120 chr3L:6189674-6189794 1.0000 120 chr2R:17869399-17869519 1.0000 120 chr2R:9989021-9989141 1.0000 120 chr3R:13030664-13030784 1.0000 120 chr3L:13486715-13486835 1.0000 120 chr2R:24657139-24657259 1.0000 120 chr3L:21445722-21445842 1.0000 120 chr2L:6047881-6048001 1.0000 120 chr3R:27130167-27130287 1.0000 120 chr2L:6338743-6338863 1.0000 120 chrX:4010981-4011101 1.0000 120 chr3R:5856404-5856524 1.0000 120 chrX:759448-759568 1.0000 120 chr3R:6818681-6818801 1.0000 120 chr3L:5789887-5790007 1.0000 120 chr2L:3042231-3042351 1.0000 120 chr3L:12336395-12336515 1.0000 120 chr3R:25004872-25004992 1.0000 120 chrX:1370163-1370283 1.0000 120 chr2L:6797534-6797654 1.0000 120 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -oc ../result/final_prediction/fly/inference_raw/MEME/RankLinear8.0_60_Med/ -dna -nmotifs 5 -w 8 -maxsize 250000 -nostatus ../result/final_prediction/fly/fasta/RankLinear8.0_60/Med.fasta model: mod= zoops nmotifs= 5 evt= inf objective function: em= E-value of product of p-values starts= E-value of product of p-values strands: + width: minw= 8 maxw= 8 nsites: minsites= 2 maxsites= 250 wnsites= 0.8 theta: spmap= uni spfuzz= 0.5 em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 trim: wg= 11 ws= 1 endgaps= yes data: n= 30000 N= 250 sample: seed= 0 hsfrac= 0 searchsize= 30000 norand= no csites= 1000 Letter frequencies in dataset: A 0.293 C 0.211 G 0.209 T 0.286 Background letter frequencies (from file dataset with add-one prior applied): A 0.293 C 0.211 G 0.209 T 0.286 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF TGGCGCCA MEME-1 width = 8 sites = 44 llr = 380 E-value = 5.7e-008 ******************************************************************************** -------------------------------------------------------------------------------- Motif TGGCGCCA MEME-1 Description -------------------------------------------------------------------------------- Simplified A :3:::::8 pos.-specific C 2:3a:aa1 probability G 277:a::1 matrix T 6::::::1 bits 2.3 *** 2.0 **** 1.8 **** 1.6 **** Relative 1.4 ***** Entropy 1.1 ****** (12.5 bits) 0.9 ****** 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TGGCGCCA consensus CAC sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCGCCA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3R:10134464-10134584 95 7.19e-06 AGCAGACTGT TGGCGCCA ATGTTATTGG chr3L:6264584-6264704 19 7.19e-06 CAAGATTTAC TGGCGCCA TCTAGGGCCT chr3L:17597032-17597152 94 7.19e-06 TAGCTGTAGA TGGCGCCA CCATTTTATG chr3L:16955352-16955472 11 7.19e-06 TCTTCCACAG TGGCGCCA TCTGCAGTCG chr2R:20906670-20906790 86 7.19e-06 CAACGGTAGA TGGCGCCA GTGCAACATT chrX:7710931-7711051 84 7.19e-06 AATCCATAGA TGGCGCCA GATGTTTCGG chr2R:13968130-13968250 89 7.19e-06 TTCCGGCAGA TGGCGCCA GGTGGTTATC chr3R:23679953-23680073 15 7.19e-06 CGCCCAGCAG TGGCGCCA TCTATGACAG chr3L:6904109-6904229 11 7.19e-06 GAGCATTGAC TGGCGCCA CCTATCGGCC chr2L:17784789-17784909 86 7.19e-06 GTTATACAGA TGGCGCCA CGAATTTGAT chrX:7317359-7317479 99 7.19e-06 ggagcgagag TGGCGCCA AACAGTCTGA chr2L:1362359-1362479 46 7.19e-06 ATTCCGTTTG TGGCGCCA TCTCTTCGCA chr3L:2377531-2377651 113 1.97e-05 AATCTGGCAA CGGCGCCA chrX:14826101-14826221 84 2.50e-05 CGTAGAGATG GGGCGCCA CTGCTTGCGA chr2L:740161-740281 111 2.50e-05 CACATGTAGA GGGCGCCA CT chr2L:6797534-6797654 38 3.51e-05 GTCAACTTTT TAGCGCCA CCTGGCTGAA chr2R:10437896-10438016 58 4.04e-05 TGCGCACCGA CGCCGCCA ACAGCTGTTC chr3L:1385781-1385901 30 4.04e-05 ACAGACTGGA CGCCGCCA GGCCACAGAA chr3R:16948746-16948866 47 4.55e-05 GGCGGCGGCA TGGCGCCG CAGAAGAGCA chrX:5312127-5312247 112 5.09e-05 ACTCTCCATG GGCCGCCA T chr2R:6656302-6656422 55 5.09e-05 TCGTTGTAAT GGCCGCCA AAAAATGCCG chr3R:27273631-27273751 65 7.36e-05 TAAACAACGG CAGCGCCA GCAGCTAGTG chr3L:10899356-10899476 24 7.36e-05 TTTGTTGTAG TGGCGCCC TCTTTTGTTT chr3R:16919190-16919310 33 7.36e-05 TCCCGCCTTG CAGCGCCA CCTGGCCTTG chr2L:15762622-15762742 83 7.36e-05 GCACAACCAC TACCGCCA AAACACAGAG chr2R:16170829-16170949 111 7.36e-05 TAATTGCATT TACCGCCA AA chrX:7307631-7307751 54 7.36e-05 TGCTCAGCTT CAGCGCCA TGCGctctct chrX:16105819-16105939 111 7.36e-05 GAGACTAAAC TACCGCCA TC chr2R:16551959-16552079 44 8.80e-05 CCATACAAAA GAGCGCCA CCTAGAAAAT chr3R:15985819-15985939 67 8.80e-05 GCGGCGGAGA TGGCGCCT GTGGGGCTGG chrX:18366649-18366769 97 8.80e-05 GGCGAATTTT GAGCGCCA AAACCCGAAA chr2R:16150909-16151029 25 9.70e-05 CGTAATAGTT TGCCGCCG CAGACATTAG chrX:5084885-5085005 67 9.70e-05 AAACACGAAA TGCCGCCG TTTTATAGCC chr2R:12928624-12928744 89 9.70e-05 TGGTTCCGTC TGCCGCCG TCTGCTCCCC chrX:1478436-1478556 81 1.17e-04 AGTGCGTTCC CACCGCCA CGGGGAGTTT chr3R:10648893-10649013 65 1.17e-04 TTCAGTAGGT CACCGCCA ATTAACTCAA chr2R:16344391-16344511 15 1.17e-04 AATTTAATTT TGCCGCCC AATCTTCAAA chr2L:16816074-16816194 60 1.27e-04 GATCAGTCGA TTGCGCCA CCTTGTGCGC chrX:7901790-7901910 6 1.27e-04 ATCGT TTGCGCCA CCATCCCTGG chr3L:4186823-4186943 58 1.58e-04 AATCCTCACA CGGCGCCT GTTGCCCAAC chrX:1392943-1393063 97 1.58e-04 TCGCACATAT GGGCGCCC GCGAACCAGT chr3R:6170850-6170970 72 1.58e-04 CATTATTGCG TGCCGCCT TCTTGCGGAA chr3R:31134178-31134298 10 1.65e-04 AAGTCAGCC AGGCGCCA TCTATTGGCA chrX:19494428-19494548 76 2.62e-04 ATCTAATCTA TGGTGCCA TTCGGCTCCT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCGCCA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3R:10134464-10134584 7.2e-06 94_[+1]_18 chr3L:6264584-6264704 7.2e-06 18_[+1]_94 chr3L:17597032-17597152 7.2e-06 93_[+1]_19 chr3L:16955352-16955472 7.2e-06 10_[+1]_102 chr2R:20906670-20906790 7.2e-06 85_[+1]_27 chrX:7710931-7711051 7.2e-06 83_[+1]_29 chr2R:13968130-13968250 7.2e-06 88_[+1]_24 chr3R:23679953-23680073 7.2e-06 14_[+1]_98 chr3L:6904109-6904229 7.2e-06 10_[+1]_102 chr2L:17784789-17784909 7.2e-06 85_[+1]_27 chrX:7317359-7317479 7.2e-06 98_[+1]_14 chr2L:1362359-1362479 7.2e-06 45_[+1]_67 chr3L:2377531-2377651 2e-05 112_[+1] chrX:14826101-14826221 2.5e-05 83_[+1]_29 chr2L:740161-740281 2.5e-05 110_[+1]_2 chr2L:6797534-6797654 3.5e-05 37_[+1]_75 chr2R:10437896-10438016 4e-05 57_[+1]_55 chr3L:1385781-1385901 4e-05 29_[+1]_83 chr3R:16948746-16948866 4.6e-05 46_[+1]_66 chrX:5312127-5312247 5.1e-05 111_[+1]_1 chr2R:6656302-6656422 5.1e-05 54_[+1]_58 chr3R:27273631-27273751 7.4e-05 64_[+1]_48 chr3L:10899356-10899476 7.4e-05 23_[+1]_89 chr3R:16919190-16919310 7.4e-05 32_[+1]_80 chr2L:15762622-15762742 7.4e-05 82_[+1]_30 chr2R:16170829-16170949 7.4e-05 110_[+1]_2 chrX:7307631-7307751 7.4e-05 53_[+1]_59 chrX:16105819-16105939 7.4e-05 110_[+1]_2 chr2R:16551959-16552079 8.8e-05 43_[+1]_69 chr3R:15985819-15985939 8.8e-05 66_[+1]_46 chrX:18366649-18366769 8.8e-05 96_[+1]_16 chr2R:16150909-16151029 9.7e-05 24_[+1]_88 chrX:5084885-5085005 9.7e-05 66_[+1]_46 chr2R:12928624-12928744 9.7e-05 88_[+1]_24 chrX:1478436-1478556 0.00012 80_[+1]_32 chr3R:10648893-10649013 0.00012 64_[+1]_48 chr2R:16344391-16344511 0.00012 14_[+1]_98 chr2L:16816074-16816194 0.00013 59_[+1]_53 chrX:7901790-7901910 0.00013 5_[+1]_107 chr3L:4186823-4186943 0.00016 57_[+1]_55 chrX:1392943-1393063 0.00016 96_[+1]_16 chr3R:6170850-6170970 0.00016 71_[+1]_41 chr3R:31134178-31134298 0.00017 9_[+1]_103 chrX:19494428-19494548 0.00026 75_[+1]_37 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCGCCA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF TGGCGCCA width=8 seqs=44 chr3R:10134464-10134584 ( 95) TGGCGCCA 1 chr3L:6264584-6264704 ( 19) TGGCGCCA 1 chr3L:17597032-17597152 ( 94) TGGCGCCA 1 chr3L:16955352-16955472 ( 11) TGGCGCCA 1 chr2R:20906670-20906790 ( 86) TGGCGCCA 1 chrX:7710931-7711051 ( 84) TGGCGCCA 1 chr2R:13968130-13968250 ( 89) TGGCGCCA 1 chr3R:23679953-23680073 ( 15) TGGCGCCA 1 chr3L:6904109-6904229 ( 11) TGGCGCCA 1 chr2L:17784789-17784909 ( 86) TGGCGCCA 1 chrX:7317359-7317479 ( 99) TGGCGCCA 1 chr2L:1362359-1362479 ( 46) TGGCGCCA 1 chr3L:2377531-2377651 ( 113) CGGCGCCA 1 chrX:14826101-14826221 ( 84) GGGCGCCA 1 chr2L:740161-740281 ( 111) GGGCGCCA 1 chr2L:6797534-6797654 ( 38) TAGCGCCA 1 chr2R:10437896-10438016 ( 58) CGCCGCCA 1 chr3L:1385781-1385901 ( 30) CGCCGCCA 1 chr3R:16948746-16948866 ( 47) TGGCGCCG 1 chrX:5312127-5312247 ( 112) GGCCGCCA 1 chr2R:6656302-6656422 ( 55) GGCCGCCA 1 chr3R:27273631-27273751 ( 65) CAGCGCCA 1 chr3L:10899356-10899476 ( 24) TGGCGCCC 1 chr3R:16919190-16919310 ( 33) CAGCGCCA 1 chr2L:15762622-15762742 ( 83) TACCGCCA 1 chr2R:16170829-16170949 ( 111) TACCGCCA 1 chrX:7307631-7307751 ( 54) CAGCGCCA 1 chrX:16105819-16105939 ( 111) TACCGCCA 1 chr2R:16551959-16552079 ( 44) GAGCGCCA 1 chr3R:15985819-15985939 ( 67) TGGCGCCT 1 chrX:18366649-18366769 ( 97) GAGCGCCA 1 chr2R:16150909-16151029 ( 25) TGCCGCCG 1 chrX:5084885-5085005 ( 67) TGCCGCCG 1 chr2R:12928624-12928744 ( 89) TGCCGCCG 1 chrX:1478436-1478556 ( 81) CACCGCCA 1 chr3R:10648893-10649013 ( 65) CACCGCCA 1 chr2R:16344391-16344511 ( 15) TGCCGCCC 1 chr2L:16816074-16816194 ( 60) TTGCGCCA 1 chrX:7901790-7901910 ( 6) TTGCGCCA 1 chr3L:4186823-4186943 ( 58) CGGCGCCT 1 chrX:1392943-1393063 ( 97) GGGCGCCC 1 chr3R:6170850-6170970 ( 72) TGCCGCCT 1 chr3R:31134178-31134298 ( 10) AGGCGCCA 1 chrX:19494428-19494548 ( 76) TGGTGCCA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCGCCA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.3519 E= 5.7e-008 -369 -5 -40 110 -23 -1210 175 -265 -1210 59 170 -1210 -1210 221 -1210 -365 -1210 -1210 226 -1210 -1210 224 -1210 -1210 -1210 224 -1210 -1210 140 -163 -120 -207 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCGCCA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 44 E= 5.7e-008 0.022727 0.204545 0.159091 0.613636 0.250000 0.000000 0.704545 0.045455 0.000000 0.318182 0.681818 0.000000 0.000000 0.977273 0.000000 0.022727 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.772727 0.068182 0.090909 0.068182 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif TGGCGCCA MEME-1 regular expression -------------------------------------------------------------------------------- [TC][GA][GC]CGCCA -------------------------------------------------------------------------------- Time 7.42 secs. ******************************************************************************** ******************************************************************************** MOTIF CARCRCTG MEME-2 width = 8 sites = 34 llr = 299 E-value = 6.9e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif CARCRCTG MEME-2 Description -------------------------------------------------------------------------------- Simplified A :a4:5::: pos.-specific C a::62a:: probability G ::613::a matrix T :::3::a: bits 2.3 * * * 2.0 * * * 1.8 ** *** 1.6 ** *** Relative 1.4 ** *** Entropy 1.1 *** *** (12.7 bits) 0.9 *** *** 0.7 **** *** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel CAGCACTG consensus ATG sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CARCRCTG MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr2L:7027148-7027268 12 1.01e-05 CTGGCCCAAC CAGCACTG CGCCAGAAGA chr3R:23760566-23760686 19 1.01e-05 AAAAATTACA CAGCACTG GGCTAGTGCA chr2R:23818411-23818531 58 1.01e-05 AGCCGACTTG CAGCACTG GCCTTTGGAA chr2L:14094771-14094891 90 3.86e-05 TCGTGCTAGC CAACACTG ATATCAGTGC chr3L:3896806-3896926 32 3.86e-05 TGGCAATTTA CAACACTG AAACCGGGCT chr3R:16099826-16099946 111 3.86e-05 CTTTGCAATG CAGCCCTG TC chr2R:9426415-9426535 42 3.86e-05 CGTTGGTTTC CAACACTG CGGCTCTCCC chr3L:9899185-9899305 40 3.86e-05 ATCTATTGGC CAACACTG GCAACCCAAG chr3L:16129537-16129657 40 3.86e-05 TATGTTGACG CAGCCCTG GCACCACTGA chr3R:30004770-30004890 108 3.86e-05 CTACAAGTGG CAGCCCTG CGATT chr3L:4186823-4186943 97 3.86e-05 GAATCACTTT CAACACTG GTCAACAGTT chrX:3968843-3968963 42 3.86e-05 CCAAAATACC CAACACTG GTTAACTGCT chrX:1392943-1393063 21 3.86e-05 TGGCGTTGCC CAACACTG ACCAGCCAGC chrX:7901790-7901910 46 3.86e-05 ATCGAAAAGC CAGCCCTG CGACGTTGCC chr2R:19292107-19292227 78 3.86e-05 CGGCGCTTCA CAACACTG AAACACCACT chr3L:2377531-2377651 38 3.86e-05 CGCTGTTAGC CAACACTG AAAAGTGGGC chr2R:6656302-6656422 91 3.86e-05 CGCTGTTGTC CAACACTG TTTGCTCAAG chr2R:22066810-22066930 31 3.86e-05 TTGTCAAACG CAACACTG AAATCCGACT chr2R:20994811-20994931 62 3.86e-05 ATCTAGTTTG CAGCCCTG GTACCGCTTT chr2L:6338743-6338863 28 7.21e-05 GTTCCAACTC CAGTGCTG GAAAGTGCGC chr2R:18660591-18660711 102 7.21e-05 CGCTGCTCTC CAGTGCTG GTTAATTTCC chr2R:16170829-16170949 12 7.21e-05 ATCTGCCTAA CAGTGCTG TAAAATGTGT chr2R:10437896-10438016 42 7.21e-05 CCGCCGCGTC CAGTGCTG CGCACCGACG chr2L:15039388-15039508 40 7.21e-05 ATCCAACCAA CAGTGCTG TGAAGCGACA chrX:19494428-19494548 17 7.21e-05 AATGTGCGGC CAGTGCTG CAGAACGCAG chrX:1260469-1260589 15 7.21e-05 GAGAAACACC CAGTGCTG ATTGTATTGT chr2L:6561581-6561701 79 7.21e-05 AAGAGAAATT CAGTGCTG GAAAACGGAC chrX:14602695-14602815 10 9.23e-05 ACATTTCTC CAACCCTG CGACACAGGC chr2R:21535541-21535661 74 9.23e-05 TGGCGCTTGG CAGGACTG TGTAAGATGT chrX:5420852-5420972 29 9.94e-05 CATGCACAAA CAGGGCTG CCCACGCTCA chr3R:18215435-18215555 25 9.94e-05 AACGTAAGAC CAGGGCTG CAACTACGAA chrX:18239463-18239583 39 9.94e-05 CAAAAGCTCG CAGGGCTG TTGAGCTGAG chr2L:7936552-7936672 86 1.28e-04 ACACGCGCAC CAATACTG CGAAAGTCAA chr2L:18707997-18708117 50 1.63e-04 CCACTGTATG CAAGACTG CAAGACTACG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CARCRCTG MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2L:7027148-7027268 1e-05 11_[+2]_101 chr3R:23760566-23760686 1e-05 18_[+2]_94 chr2R:23818411-23818531 1e-05 57_[+2]_55 chr2L:14094771-14094891 3.9e-05 89_[+2]_23 chr3L:3896806-3896926 3.9e-05 31_[+2]_81 chr3R:16099826-16099946 3.9e-05 110_[+2]_2 chr2R:9426415-9426535 3.9e-05 41_[+2]_71 chr3L:9899185-9899305 3.9e-05 39_[+2]_73 chr3L:16129537-16129657 3.9e-05 39_[+2]_73 chr3R:30004770-30004890 3.9e-05 107_[+2]_5 chr3L:4186823-4186943 3.9e-05 96_[+2]_16 chrX:3968843-3968963 3.9e-05 41_[+2]_71 chrX:1392943-1393063 3.9e-05 20_[+2]_92 chrX:7901790-7901910 3.9e-05 45_[+2]_67 chr2R:19292107-19292227 3.9e-05 77_[+2]_35 chr3L:2377531-2377651 3.9e-05 37_[+2]_75 chr2R:6656302-6656422 3.9e-05 90_[+2]_22 chr2R:22066810-22066930 3.9e-05 30_[+2]_82 chr2R:20994811-20994931 3.9e-05 61_[+2]_51 chr2L:6338743-6338863 7.2e-05 27_[+2]_85 chr2R:18660591-18660711 7.2e-05 101_[+2]_11 chr2R:16170829-16170949 7.2e-05 11_[+2]_101 chr2R:10437896-10438016 7.2e-05 41_[+2]_71 chr2L:15039388-15039508 7.2e-05 39_[+2]_73 chrX:19494428-19494548 7.2e-05 16_[+2]_96 chrX:1260469-1260589 7.2e-05 14_[+2]_98 chr2L:6561581-6561701 7.2e-05 78_[+2]_34 chrX:14602695-14602815 9.2e-05 9_[+2]_103 chr2R:21535541-21535661 9.2e-05 73_[+2]_39 chrX:5420852-5420972 9.9e-05 28_[+2]_84 chr3R:18215435-18215555 9.9e-05 24_[+2]_88 chrX:18239463-18239583 9.9e-05 38_[+2]_74 chr2L:7936552-7936672 0.00013 85_[+2]_27 chr2L:18707997-18708117 0.00016 49_[+2]_63 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CARCRCTG MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF CARCRCTG width=8 seqs=34 chr2L:7027148-7027268 ( 12) CAGCACTG 1 chr3R:23760566-23760686 ( 19) CAGCACTG 1 chr2R:23818411-23818531 ( 58) CAGCACTG 1 chr2L:14094771-14094891 ( 90) CAACACTG 1 chr3L:3896806-3896926 ( 32) CAACACTG 1 chr3R:16099826-16099946 ( 111) CAGCCCTG 1 chr2R:9426415-9426535 ( 42) CAACACTG 1 chr3L:9899185-9899305 ( 40) CAACACTG 1 chr3L:16129537-16129657 ( 40) CAGCCCTG 1 chr3R:30004770-30004890 ( 108) CAGCCCTG 1 chr3L:4186823-4186943 ( 97) CAACACTG 1 chrX:3968843-3968963 ( 42) CAACACTG 1 chrX:1392943-1393063 ( 21) CAACACTG 1 chrX:7901790-7901910 ( 46) CAGCCCTG 1 chr2R:19292107-19292227 ( 78) CAACACTG 1 chr3L:2377531-2377651 ( 38) CAACACTG 1 chr2R:6656302-6656422 ( 91) CAACACTG 1 chr2R:22066810-22066930 ( 31) CAACACTG 1 chr2R:20994811-20994931 ( 62) CAGCCCTG 1 chr2L:6338743-6338863 ( 28) CAGTGCTG 1 chr2R:18660591-18660711 ( 102) CAGTGCTG 1 chr2R:16170829-16170949 ( 12) CAGTGCTG 1 chr2R:10437896-10438016 ( 42) CAGTGCTG 1 chr2L:15039388-15039508 ( 40) CAGTGCTG 1 chrX:19494428-19494548 ( 17) CAGTGCTG 1 chrX:1260469-1260589 ( 15) CAGTGCTG 1 chr2L:6561581-6561701 ( 79) CAGTGCTG 1 chrX:14602695-14602815 ( 10) CAACCCTG 1 chr2R:21535541-21535661 ( 74) CAGGACTG 1 chrX:5420852-5420972 ( 29) CAGGGCTG 1 chr3R:18215435-18215555 ( 25) CAGGGCTG 1 chrX:18239463-18239583 ( 39) CAGGGCTG 1 chr2L:7936552-7936672 ( 86) CAATACTG 1 chr2L:18707997-18708117 ( 50) CAAGACTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CARCRCTG MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 10.4922 E= 6.9e-002 -1173 224 -1173 -1173 177 -1173 -1173 -1173 49 -1173 149 -1173 -1173 148 -51 -11 77 -26 63 -1173 -1173 224 -1173 -1173 -1173 -1173 -1173 181 -1173 -1173 226 -1173 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CARCRCTG MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 34 E= 6.9e-002 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.411765 0.000000 0.588235 0.000000 0.000000 0.588235 0.147059 0.264706 0.500000 0.176471 0.323529 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif CARCRCTG MEME-2 regular expression -------------------------------------------------------------------------------- CA[GA][CT][AG]CTG -------------------------------------------------------------------------------- Time 13.60 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTGGCGC MEME-3 width = 8 sites = 10 llr = 111 E-value = 1.5e+001 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-3 Description -------------------------------------------------------------------------------- Simplified A :3:::::: pos.-specific C :::::9:a probability G a7:aa1a: matrix T ::a::::: bits 2.3 * ** ** 2.0 * ** ** 1.8 * ****** 1.6 * ****** Relative 1.4 * ****** Entropy 1.1 ******** (16.1 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGTGGCGC consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:18635423-18635543 72 5.08e-06 TTCTCTCCTA GGTGGCGC TTTATTACTA chr3R:10100734-10100854 17 5.08e-06 TTGGCCAGAA GGTGGCGC TCGATGCGAC chr2R:21535541-21535661 62 5.08e-06 ATTTACGCTA GGTGGCGC TTGGCAGGAC chr2L:17784789-17784909 11 5.08e-06 ATGACACATA GGTGGCGC TGAAGCCAAT chr2L:5278497-5278617 29 5.08e-06 TAGCGAGCAC GGTGGCGC GCTCTGGAGG chrX:18239463-18239583 77 5.08e-06 CAAGCCGCTA GGTGGCGC TATGCAGTCA chr2L:16743088-16743208 62 1.22e-05 CTAGCCAGCA GATGGCGC TGGTGAAGTA chrX:7710931-7711051 36 1.22e-05 TTAAGTCATA GATGGCGC TCGCTGTAAC chrX:5082974-5083094 97 1.22e-05 ACGAACGGGC GATGGCGC GCAATTTCGT chr2L:7940787-7940907 97 1.72e-05 GGAAGTGGGT GGTGGGGC GGAAACGGAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:18635423-18635543 5.1e-06 71_[+3]_41 chr3R:10100734-10100854 5.1e-06 16_[+3]_96 chr2R:21535541-21535661 5.1e-06 61_[+3]_51 chr2L:17784789-17784909 5.1e-06 10_[+3]_102 chr2L:5278497-5278617 5.1e-06 28_[+3]_84 chrX:18239463-18239583 5.1e-06 76_[+3]_36 chr2L:16743088-16743208 1.2e-05 61_[+3]_51 chrX:7710931-7711051 1.2e-05 35_[+3]_77 chrX:5082974-5083094 1.2e-05 96_[+3]_16 chr2L:7940787-7940907 1.7e-05 96_[+3]_16 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTGGCGC width=8 seqs=10 chrX:18635423-18635543 ( 72) GGTGGCGC 1 chr3R:10100734-10100854 ( 17) GGTGGCGC 1 chr2R:21535541-21535661 ( 62) GGTGGCGC 1 chr2L:17784789-17784909 ( 11) GGTGGCGC 1 chr2L:5278497-5278617 ( 29) GGTGGCGC 1 chrX:18239463-18239583 ( 77) GGTGGCGC 1 chr2L:16743088-16743208 ( 62) GATGGCGC 1 chrX:7710931-7711051 ( 36) GATGGCGC 1 chrX:5082974-5083094 ( 97) GATGGCGC 1 chr2L:7940787-7940907 ( 97) GGTGGGGC 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.9378 E= 1.5e+001 -997 -997 225 -997 3 -997 174 -997 -997 -997 -997 181 -997 -997 225 -997 -997 -997 225 -997 -997 209 -106 -997 -997 -997 225 -997 -997 224 -997 -997 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.5e+001 0.000000 0.000000 1.000000 0.000000 0.300000 0.000000 0.700000 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 0.900000 0.100000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGCGC MEME-3 regular expression -------------------------------------------------------------------------------- G[GA]TGGCGC -------------------------------------------------------------------------------- Time 19.71 secs. ******************************************************************************** ******************************************************************************** MOTIF WATCGATA MEME-4 width = 8 sites = 20 llr = 186 E-value = 5.6e+003 ******************************************************************************** -------------------------------------------------------------------------------- Motif WATCGATA MEME-4 Description -------------------------------------------------------------------------------- Simplified A 3a:::9:a pos.-specific C 2::a:::: probability G ::::a1:: matrix T 6:a:::a: bits 2.3 ** 2.0 ** 1.8 **** ** 1.6 **** ** Relative 1.4 ******* Entropy 1.1 ******* (13.5 bits) 0.9 ******* 0.7 ******* 0.5 ******** 0.2 ******** 0.0 -------- Multilevel TATCGATA consensus A sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WATCGATA MEME-4 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chr3L:21445722-21445842 19 2.59e-05 CCGCGCCAGA TATCGATA TAATTGAAGT chr2L:13219908-13220028 49 2.59e-05 TATGCCTGAA TATCGATA AGTTCAGTTT chr2R:8900181-8900301 54 2.59e-05 AACGCCAACT TATCGATA CTTTATCGAG chr2L:6956867-6956987 106 2.59e-05 CCCTGGCAGA TATCGATA GGCCCAT chr2R:18660591-18660711 75 2.59e-05 ACAGCTTACT TATCGATA AAAGTATTTC chr3R:11796946-11797066 86 2.59e-05 GCTTTGAATG TATCGATA GTTTCGGACT chr2L:15039388-15039508 107 2.59e-05 CCTATCGGAC TATCGATA CAACAT chr3R:20735507-20735627 55 2.59e-05 AAGGAATTCT TATCGATA TGTGGCGCTG chr3L:648343-648463 54 2.59e-05 AAGTTGTTCA TATCGATA GACAGCCAAG chr2R:9989021-9989141 92 5.25e-05 CGCAGCGTGT AATCGATA TTTTCTAAGC chr2L:1150673-1150793 10 5.25e-05 ATGCGAACC AATCGATA TTTGCAGTAG chr3R:24518156-24518276 94 5.25e-05 atggataggc aatcgata ggcaatcgaC chr3L:16955352-16955472 82 5.25e-05 CTGTAAAAAT AATCGATA TCTGGCACAA chr2L:16743088-16743208 110 5.25e-05 TGAGGTACAT AATCGATA ATA chrX:14826101-14826221 108 5.25e-05 GCGATAGCCC AATCGATA TATCG chr3L:16129537-16129657 24 7.17e-05 CCAGCAGATA CATCGATA TGTTGACGCA chrX:20423880-20424000 15 7.17e-05 CCAAGGATTC CATCGATA AATTATTTAT chrX:14580517-14580637 34 7.17e-05 CTTGCTGGCC CATCGATA AGAAGCGGTT chr3R:10024180-10024300 110 9.02e-05 TCCGTGTAGT TATCGGTA TTT chr3R:30013241-30013361 19 9.02e-05 GTGCGATTCT TATCGGTA GACGTCTGAG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WATCGATA MEME-4 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr3L:21445722-21445842 2.6e-05 18_[+4]_94 chr2L:13219908-13220028 2.6e-05 48_[+4]_64 chr2R:8900181-8900301 2.6e-05 53_[+4]_59 chr2L:6956867-6956987 2.6e-05 105_[+4]_7 chr2R:18660591-18660711 2.6e-05 74_[+4]_38 chr3R:11796946-11797066 2.6e-05 85_[+4]_27 chr2L:15039388-15039508 2.6e-05 106_[+4]_6 chr3R:20735507-20735627 2.6e-05 54_[+4]_58 chr3L:648343-648463 2.6e-05 53_[+4]_59 chr2R:9989021-9989141 5.3e-05 91_[+4]_21 chr2L:1150673-1150793 5.3e-05 9_[+4]_103 chr3R:24518156-24518276 5.3e-05 93_[+4]_19 chr3L:16955352-16955472 5.3e-05 81_[+4]_31 chr2L:16743088-16743208 5.3e-05 109_[+4]_3 chrX:14826101-14826221 5.3e-05 107_[+4]_5 chr3L:16129537-16129657 7.2e-05 23_[+4]_89 chrX:20423880-20424000 7.2e-05 14_[+4]_98 chrX:14580517-14580637 7.2e-05 33_[+4]_79 chr3R:10024180-10024300 9e-05 109_[+4]_3 chr3R:30013241-30013361 9e-05 18_[+4]_94 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WATCGATA MEME-4 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF WATCGATA width=8 seqs=20 chr3L:21445722-21445842 ( 19) TATCGATA 1 chr2L:13219908-13220028 ( 49) TATCGATA 1 chr2R:8900181-8900301 ( 54) TATCGATA 1 chr2L:6956867-6956987 ( 106) TATCGATA 1 chr2R:18660591-18660711 ( 75) TATCGATA 1 chr3R:11796946-11797066 ( 86) TATCGATA 1 chr2L:15039388-15039508 ( 107) TATCGATA 1 chr3R:20735507-20735627 ( 55) TATCGATA 1 chr3L:648343-648463 ( 54) TATCGATA 1 chr2R:9989021-9989141 ( 92) AATCGATA 1 chr2L:1150673-1150793 ( 10) AATCGATA 1 chr3R:24518156-24518276 ( 94) AATCGATA 1 chr3L:16955352-16955472 ( 82) AATCGATA 1 chr2L:16743088-16743208 ( 110) AATCGATA 1 chrX:14826101-14826221 ( 108) AATCGATA 1 chr3L:16129537-16129657 ( 24) CATCGATA 1 chrX:20423880-20424000 ( 15) CATCGATA 1 chrX:14580517-14580637 ( 34) CATCGATA 1 chr3R:10024180-10024300 ( 110) TATCGGTA 1 chr3R:30013241-30013361 ( 19) TATCGGTA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WATCGATA MEME-4 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 9.89693 E= 5.6e+003 3 -49 -1097 94 177 -1097 -1097 -1097 -1097 -1097 -1097 181 -1097 224 -1097 -1097 -1097 -1097 225 -1097 162 -1097 -107 -1097 -1097 -1097 -1097 181 177 -1097 -1097 -1097 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WATCGATA MEME-4 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 20 E= 5.6e+003 0.300000 0.150000 0.000000 0.550000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.900000 0.000000 0.100000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif WATCGATA MEME-4 regular expression -------------------------------------------------------------------------------- [TA]ATCGATA -------------------------------------------------------------------------------- Time 25.78 secs. ******************************************************************************** ******************************************************************************** MOTIF GGTGGGTG MEME-5 width = 8 sites = 4 llr = 48 E-value = 1.6e+004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GGTGGGTG MEME-5 Description -------------------------------------------------------------------------------- Simplified A :::::::: pos.-specific C :::::::: probability G aa:aaa:a matrix T ::a:::a: bits 2.3 ** *** * 2.0 ** *** * 1.8 ******** 1.6 ******** Relative 1.4 ******** Entropy 1.1 ******** (17.1 bits) 0.9 ******** 0.7 ******** 0.5 ******** 0.2 ******** 0.0 -------- Multilevel GGTGGGTG consensus sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGTG MEME-5 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------- chrX:2443933-2444053 96 6.82e-06 GCTAAAACAT GGTGGGTG CATCCGCCAG chr3L:3896806-3896926 97 6.82e-06 CGGTCACACT GGTGGGTG TGGGTGCGAA chrX:3719759-3719879 11 6.82e-06 CGCTAAGGCT GGTGGGTG TACTCGCTTT chr3R:10648893-10649013 13 6.82e-06 AAATCTGTAT GGTGGGTG CACTGAGAAA -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGTG MEME-5 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chrX:2443933-2444053 6.8e-06 95_[+5]_17 chr3L:3896806-3896926 6.8e-06 96_[+5]_16 chrX:3719759-3719879 6.8e-06 10_[+5]_102 chr3R:10648893-10649013 6.8e-06 12_[+5]_100 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGTG MEME-5 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GGTGGGTG width=8 seqs=4 chrX:2443933-2444053 ( 96) GGTGGGTG 1 chr3L:3896806-3896926 ( 97) GGTGGGTG 1 chrX:3719759-3719879 ( 11) GGTGGGTG 1 chr3R:10648893-10649013 ( 13) GGTGGGTG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGTG MEME-5 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 4 w= 8 n= 28250 bayes= 12.7858 E= 1.6e+004 -865 -865 225 -865 -865 -865 225 -865 -865 -865 -865 180 -865 -865 225 -865 -865 -865 225 -865 -865 -865 225 -865 -865 -865 -865 180 -865 -865 225 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGTG MEME-5 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 1.6e+004 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 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 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GGTGGGTG MEME-5 regular expression -------------------------------------------------------------------------------- GGTGGGTG -------------------------------------------------------------------------------- Time 31.82 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- chr2R:6149504-6149624 8.51e-02 120 chrX:19146444-19146564 8.90e-01 120 chrX:10184802-10184922 1.00e+00 120 chr3L:9509186-9509306 4.98e-01 120 chrX:8493594-8493714 9.64e-01 120 chr3L:2572147-2572267 1.66e-01 120 chr2R:6149704-6149824 5.00e-02 120 chr2L:8610990-8611110 4.33e-01 120 chrX:16105819-16105939 5.39e-02 110_[+1(7.36e-05)]_2 chr2L:6561581-6561701 1.91e-01 78_[+2(7.21e-05)]_34 chrX:11391660-11391780 6.89e-01 120 chrX:18239463-18239583 6.06e-04 38_[+2(9.94e-05)]_30_[+3(5.08e-06)]_\ 36 chrX:7307631-7307751 2.35e-01 53_[+1(7.36e-05)]_59 chr2R:24293584-24293704 1.38e-01 120 chr2L:1362359-1362479 2.20e-03 45_[+1(7.19e-06)]_17_[+1(7.36e-05)]_\ 42 chr3L:648343-648463 2.06e-02 53_[+4(2.59e-05)]_59 chrX:19665965-19666085 4.28e-01 120 chr3L:8029509-8029629 8.86e-01 120 chrX:16650567-16650687 3.01e-01 120 chr2L:7936552-7936672 1.45e-03 47_[+5(4.08e-05)]_65 chr2L:5278497-5278617 7.90e-04 28_[+3(5.08e-06)]_84 chrX:7317359-7317479 4.94e-04 98_[+1(7.19e-06)]_14 chr3R:30501360-30501480 8.19e-01 120 chr2R:22450424-22450544 7.97e-01 120 chr2L:3748858-3748978 3.23e-01 120 chrX:13401380-13401500 5.82e-02 120 chr2R:2567065-2567185 9.24e-01 120 chr2R:20994811-20994931 3.28e-02 61_[+2(3.86e-05)]_51 chr3R:16948746-16948866 4.58e-03 46_[+1(4.55e-05)]_66 chr2R:24197647-24197767 8.97e-01 120 chrX:1260469-1260589 3.37e-01 14_[+2(7.21e-05)]_98 chr2R:21091989-21092109 7.05e-01 120 chr3R:10762080-10762200 2.38e-01 120 chr3R:14356755-14356875 8.77e-01 120 chr2R:12928624-12928744 2.24e-01 88_[+1(9.70e-05)]_24 chr3R:26235174-26235294 9.32e-01 120 chr2L:8894390-8894510 6.85e-01 120 chrX:2708280-2708400 7.78e-01 120 chrX:15653647-15653767 7.69e-02 120 chr2R:24132813-24132933 6.35e-01 120 chr3R:27289759-27289879 9.39e-01 120 chr3L:1976891-1977011 7.29e-01 120 chrX:15120253-15120373 8.44e-01 120 chr3L:15563530-15563650 9.79e-01 120 chrX:10387787-10387907 9.13e-01 120 chr2R:12278155-12278275 5.92e-01 120 chr2R:13261853-13261973 5.91e-01 120 chr2R:17161044-17161164 9.42e-01 120 chr2R:22066810-22066930 4.67e-02 30_[+2(3.86e-05)]_82 chr2L:5972210-5972330 6.36e-01 120 chr3R:15927346-15927466 9.59e-01 120 chr2L:740161-740281 7.28e-03 110_[+1(2.50e-05)]_2 chr3R:27557170-27557290 9.44e-01 120 chrX:18366649-18366769 1.75e-01 96_[+1(8.80e-05)]_16 chr3L:4413873-4413993 4.27e-01 120 chr3R:6170850-6170970 2.27e-01 120 chr2R:7077034-7077154 8.38e-01 120 chr3L:1385781-1385901 3.75e-02 29_[+1(4.04e-05)]_83 chrX:14580517-14580637 7.24e-03 33_[+4(7.17e-05)]_79 chr3R:13382972-13383092 2.14e-01 120 chr2L:7175915-7176035 5.98e-01 120 chr3L:9461755-9461875 6.42e-01 120 chrX:19494428-19494548 1.36e-02 16_[+2(7.21e-05)]_96 chrX:11925350-11925470 1.00e+00 120 chr3R:21993066-21993186 9.94e-01 120 chrX:6179517-6179637 9.95e-01 120 chr3R:31805358-31805478 3.07e-02 120 chr3R:20735507-20735627 1.22e-03 54_[+4(2.59e-05)]_58 chr2R:10013339-10013459 6.26e-01 120 chr2R:16673017-16673137 8.62e-01 120 chr3R:9938623-9938743 9.15e-01 120 chr2R:6656302-6656422 1.43e-03 54_[+1(5.09e-05)]_28_[+2(3.86e-05)]_\ 22 chrX:948269-948389 8.69e-01 120 chr2L:17784789-17784909 1.15e-04 10_[+3(5.08e-06)]_67_[+1(7.19e-06)]_\ 27 chr3L:1880825-1880945 8.07e-01 120 chr2R:16660189-16660309 7.69e-01 120 chr3R:22034284-22034404 3.77e-02 57_[+3(6.29e-05)]_55 chr2L:15039388-15039508 2.01e-03 39_[+2(7.21e-05)]_59_[+4(2.59e-05)]_\ 6 chr3R:30013241-30013361 3.05e-01 18_[+4(9.02e-05)]_94 chr3R:21118944-21119064 1.27e-01 52_[+5(4.08e-05)]_60 chrX:13370990-13371110 7.59e-02 120 chrX:8273889-8274009 2.55e-02 120 chrX:3403519-3403639 9.97e-01 120 chr3L:11303976-11304096 9.60e-01 120 chr3R:8524452-8524572 2.38e-01 120 chr3R:10411871-10411991 8.01e-01 120 chr3R:18315371-18315491 1.20e-01 120 chr3R:15985819-15985939 1.52e-03 64_[+3(1.22e-05)]_48 chr2R:16344391-16344511 1.05e-01 120 chr2R:16551959-16552079 1.54e-01 43_[+1(8.80e-05)]_69 chr3L:15098078-15098198 7.12e-01 120 chr3R:13078408-13078528 5.08e-01 120 chr2R:11809491-11809611 8.96e-01 120 chr2L:18707997-18708117 1.95e-01 120 chrX:8900288-8900408 8.24e-01 120 chr2L:10767951-10768071 5.51e-02 120 chr2R:17698955-17699075 2.99e-01 120 chr3L:4413161-4413281 9.85e-01 120 chr3L:22277374-22277494 9.26e-01 120 chr2R:20319585-20319705 8.13e-01 120 chr3R:21887610-21887730 4.51e-01 120 chr3R:31134178-31134298 1.74e-01 120 chr3L:2377531-2377651 2.29e-03 37_[+2(3.86e-05)]_67_[+1(1.97e-05)] chr2R:19292107-19292227 4.27e-02 77_[+2(3.86e-05)]_35 chr2R:10437896-10438016 5.53e-03 9_[+2(7.21e-05)]_24_[+2(7.21e-05)]_\ 8_[+1(4.04e-05)]_55 chr3L:1609790-1609910 6.21e-01 120 chrX:20423880-20424000 1.84e-01 14_[+4(7.17e-05)]_98 chr2R:11712177-11712297 3.73e-01 120 chrX:18834523-18834643 5.47e-01 120 chr2R:18774901-18775021 9.74e-01 120 chr3L:13411174-13411294 9.09e-01 120 chr3R:13716980-13717100 9.37e-01 120 chr3L:3770981-3771101 8.84e-01 120 chr2L:19141043-19141163 8.35e-01 120 chr3R:32051839-32051959 9.71e-01 120 chrX:7901790-7901910 9.92e-04 45_[+2(3.86e-05)]_67 chr3R:10648893-10649013 9.18e-04 12_[+5(6.82e-06)]_100 chr2R:21535541-21535661 2.42e-04 61_[+3(5.08e-06)]_4_[+2(9.23e-05)]_\ 39 chrX:5082974-5083094 1.31e-02 96_[+3(1.22e-05)]_16 chrX:14826101-14826221 6.95e-05 79_[+3(2.43e-05)]_20_[+4(5.25e-05)]_\ 5 chr3L:1139512-1139632 7.86e-01 120 chrX:8677543-8677663 9.99e-01 120 chr3L:6904109-6904229 1.96e-02 10_[+1(7.19e-06)]_102 chr3R:16704395-16704515 9.88e-01 120 chrX:5312127-5312247 1.06e-01 111_[+1(5.09e-05)]_1 chrX:10600639-10600759 4.46e-01 120 chrX:1392943-1393063 8.63e-03 20_[+2(3.86e-05)]_92 chrX:3968843-3968963 1.11e-02 12_[+2(4.87e-05)]_21_[+2(3.86e-05)]_\ 71 chr2R:16170829-16170949 2.71e-02 11_[+2(7.21e-05)]_91_[+1(7.36e-05)]_\ 2 chr3L:1578696-1578816 6.76e-01 120 chrX:12221669-12221789 8.42e-01 120 chr2L:21156203-21156323 2.42e-02 120 chr3R:10893547-10893667 3.72e-03 120 chr3R:10024180-10024300 1.28e-01 109_[+4(9.02e-05)]_3 chr2L:7940787-7940907 1.23e-02 96_[+3(1.72e-05)]_16 chr3R:23028640-23028760 6.79e-01 120 chr2L:18377262-18377382 9.79e-01 120 chr3R:10100734-10100854 7.90e-03 16_[+3(5.08e-06)]_96 chr3R:23679953-23680073 4.57e-04 14_[+1(7.19e-06)]_98 chr2L:4403135-4403255 2.10e-01 87_[+4(7.17e-05)]_3_[+4(5.25e-05)]_\ 14 chr2R:13054997-13055117 9.55e-01 120 chrX:3068440-3068560 1.39e-01 120 chr3R:11796946-11797066 9.68e-03 85_[+4(2.59e-05)]_27 chrX:5084885-5085005 2.46e-01 66_[+1(9.70e-05)]_46 chrX:18405110-18405230 8.85e-01 120 chrX:13253167-13253287 8.57e-01 120 chrX:1478436-1478556 1.89e-01 120 chr2R:18660591-18660711 5.49e-03 74_[+4(2.59e-05)]_19_[+2(7.21e-05)]_\ 11 chr3R:18215435-18215555 3.08e-01 24_[+2(9.94e-05)]_88 chr3L:4186823-4186943 6.11e-03 96_[+2(3.86e-05)]_16 chr3R:16355545-16355665 1.73e-01 120 chr2R:23818411-23818531 3.95e-02 57_[+2(1.01e-05)]_55 chr2R:13968130-13968250 3.38e-05 88_[+1(7.19e-06)]_24 chrX:6375774-6375894 9.81e-01 120 chr2L:16816074-16816194 4.71e-02 120 chr3L:1618328-1618448 7.14e-02 120 chrX:7710931-7711051 4.40e-04 35_[+3(1.22e-05)]_40_[+1(7.19e-06)]_\ 29 chr2L:16743088-16743208 1.53e-03 61_[+3(1.22e-05)]_40_[+4(5.25e-05)]_\ 3 chr3R:31610992-31611112 4.93e-01 120 chr3R:29089829-29089949 9.50e-01 120 chr2L:6956867-6956987 5.71e-03 105_[+4(2.59e-05)]_7 chrX:10587605-10587725 9.71e-01 120 chrX:4262813-4262933 4.72e-01 120 chr2R:20906670-20906790 9.96e-05 85_[+1(7.19e-06)]_27 chr3L:16955352-16955472 3.91e-05 10_[+1(7.19e-06)]_63_[+4(5.25e-05)]_\ 31 chr3R:20829894-20830014 6.34e-01 120 chrX:1517626-1517746 5.99e-02 120 chr2L:11829394-11829514 2.36e-01 120 chr3R:23760566-23760686 5.44e-03 18_[+2(1.01e-05)]_30_[+4(9.02e-05)]_\ 56 chr3R:30004770-30004890 9.91e-02 107_[+2(3.86e-05)]_5 chrX:1858980-1859100 9.06e-01 120 chr3R:10696524-10696644 9.25e-01 120 chr3L:18791550-18791670 2.78e-01 120 chr3R:26230197-26230317 1.99e-01 120 chr2R:17564741-17564861 4.82e-01 120 chr2R:18536724-18536844 7.28e-01 120 chrX:8436853-8436973 2.60e-01 120 chr3R:25515453-25515573 5.70e-01 120 chr2L:7027148-7027268 2.93e-03 11_[+2(1.01e-05)]_101 chr3L:16129537-16129657 8.40e-04 23_[+4(7.17e-05)]_8_[+2(3.86e-05)]_\ 73 chr3R:24518156-24518276 1.18e-01 93_[+4(5.25e-05)]_19 chr3L:9899185-9899305 1.90e-01 5_[+2(9.94e-05)]_26_[+2(3.86e-05)]_\ 73 chr2L:20715173-20715293 9.93e-01 120 chr2L:15762622-15762742 1.96e-01 82_[+1(7.36e-05)]_30 chr3L:199191-199311 2.04e-01 120 chr3R:16919190-16919310 5.90e-02 32_[+1(7.36e-05)]_80 chr3L:8720196-8720316 1.22e-01 120 chr3L:17597032-17597152 1.13e-03 93_[+1(7.19e-06)]_19 chrX:14602695-14602815 2.48e-02 9_[+2(9.23e-05)]_103 chr2R:7916544-7916664 9.81e-01 120 chr2R:9426415-9426535 9.48e-02 41_[+2(3.86e-05)]_71 chr3L:10899356-10899476 2.08e-03 23_[+1(7.36e-05)]_89 chr3R:27273631-27273751 5.85e-02 64_[+1(7.36e-05)]_48 chr2R:25085516-25085636 1.20e-01 120 chrX:5420852-5420972 1.72e-03 28_[+2(9.94e-05)]_8_[+4(7.17e-05)]_\ 68 chr2L:21658569-21658689 8.05e-01 120 chr3R:16099826-16099946 1.66e-01 110_[+2(3.86e-05)]_2 chrX:3719759-3719879 2.27e-03 10_[+5(6.82e-06)]_102 chrX:4366293-4366413 4.99e-01 120 chrX:17696820-17696940 9.74e-01 120 chr2R:18829729-18829849 5.39e-01 120 chr3L:6264584-6264704 2.52e-02 18_[+1(7.19e-06)]_94 chr2R:20587376-20587496 7.11e-01 120 chrX:17751798-17751918 2.86e-02 120 chr2L:1150673-1150793 3.81e-03 9_[+4(5.25e-05)]_103 chr3L:18784689-18784809 8.12e-01 120 chr3L:3896806-3896926 2.01e-05 31_[+2(3.86e-05)]_57_[+5(6.82e-06)]_\ 16 chr3L:9847548-9847668 9.99e-01 120 chr3R:21499646-21499766 2.36e-01 120 chrX:2536290-2536410 5.32e-01 120 chr3L:2851091-2851211 9.90e-01 120 chr2R:8900181-8900301 2.48e-02 53_[+4(2.59e-05)]_59 chr2L:14094771-14094891 4.16e-02 89_[+2(3.86e-05)]_23 chr3R:31687943-31688063 7.38e-01 120 chrX:15739051-15739171 3.85e-01 120 chr3R:21580215-21580335 2.32e-01 120 chr2R:16150909-16151029 2.96e-01 24_[+1(9.70e-05)]_88 chr3R:5758966-5759086 1.04e-01 120 chr2L:20881456-20881576 9.62e-01 120 chr2L:13219908-13220028 9.33e-02 48_[+4(2.59e-05)]_64 chr2L:20950785-20950905 6.91e-01 120 chr2L:11203770-11203890 9.94e-02 36_[+5(4.08e-05)]_76 chrX:18635423-18635543 2.58e-02 31_[+3(1.22e-05)]_32_[+3(5.08e-06)]_\ 41 chr3L:1463784-1463904 2.95e-01 120 chrX:18899922-18900042 9.55e-01 120 chr3R:29859931-29860051 8.09e-01 120 chr2R:14913288-14913408 6.78e-01 120 chr2R:9388617-9388737 7.83e-01 120 chrX:2443933-2444053 4.17e-04 95_[+5(6.82e-06)]_17 chr3R:10134464-10134584 1.74e-04 94_[+1(7.19e-06)]_18 chr3L:6189674-6189794 6.77e-01 120 chr2R:17869399-17869519 7.27e-03 73_[+5(4.08e-05)]_39 chr2R:9989021-9989141 1.41e-01 91_[+4(5.25e-05)]_21 chr3R:13030664-13030784 3.83e-01 120 chr3L:13486715-13486835 6.77e-02 120 chr2R:24657139-24657259 6.18e-01 120 chr3L:21445722-21445842 2.04e-02 18_[+4(2.59e-05)]_94 chr2L:6047881-6048001 1.56e-02 61_[+3(2.43e-05)]_51 chr3R:27130167-27130287 9.82e-01 120 chr2L:6338743-6338863 6.58e-02 27_[+2(7.21e-05)]_85 chrX:4010981-4011101 8.54e-01 120 chr3R:5856404-5856524 9.83e-01 120 chrX:759448-759568 6.63e-01 120 chr3R:6818681-6818801 7.17e-01 120 chr3L:5789887-5790007 6.81e-01 120 chr2L:3042231-3042351 3.38e-01 120 chr3L:12336395-12336515 3.85e-01 120 chr3R:25004872-25004992 9.86e-01 120 chrX:1370163-1370283 7.48e-01 120 chr2L:6797534-6797654 1.05e-01 37_[+1(3.51e-05)]_75 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (5) found. ******************************************************************************** CPU: c27n08.farnam.hpc.yale.internal ********************************************************************************