Table S1. Combined list of CTCF sites recovered from all five cell types. Coordinates are in hg17. ENCODE region Position Chr ENm001 115407271 chr7 ENm001 115414358 chr7 ENm001 115460547 chr7 ENm001 115469971 chr7 ENm001 115484183 chr7 ENm001 115493018 chr7 ENm001 115575725 chr7 ENm001 115760158 chr7 ENm001 115817880 chr7 ENm001 115822972 chr7 ENm001 115825043 chr7 ENm001 115825974 chr7 ENm001 115832244 chr7 ENm001 115833004 chr7 ENm001 115867869 chr7 ENm001 115905698 chr7 ENm001 116020610 chr7 ENm001 116036912 chr7 ENm001 116043904 chr7 ENm001 116164763 chr7 ENm001 116218951 chr7 ENm001 116222561 chr7 ENm001 116247109 chr7 ENm001 116353680 chr7 ENm001 116361983 chr7 ENm001 116391889 chr7 ENm001 116447464 chr7 ENm001 116546967 chr7 ENm001 116619851 chr7 ENm001 116634424 chr7 ENm001 116693229 chr7 ENm001 116715174 chr7 ENm001 116739589 chr7 ENm001 116903958 chr7 ENm001 116908081 chr7 ENm001 116950223 chr7 ENm001 116985240 chr7 ENm001 117015868 chr7 ENm001 117025957 chr7 ENm001 117063672 chr7 ENm001 117227452 chr7 ENm002 131366628 chr5 ENm002 131371910 chr5 ENm002 131426725 chr5 ENm002 131428663 chr5 ENm002 131540782 chr5 ENm002 131543860 chr5 ENm002 131601867 chr5 ENm002 131636561 chr5 ENm002 131679539 chr5 ENm002 131749212 chr5 ENm002 131750751 chr5 ENm002 131783317 chr5 ENm002 131790670 chr5 ENm002 131828233 chr5 ENm002 131864979 chr5 ENm002 131890534 chr5 ENm002 131954887 chr5 ENm002 132041223 chr5 ENm002 132078729 chr5 ENm002 132110858 chr5 ENm002 132117280 chr5 ENm002 132118743 chr5 ENm002 132139928 chr5 ENm002 132149048 chr5 ENm002 132165977 chr5 ENm002 132171164 chr5 ENm002 132184160 chr5 ENm002 132193508 chr5 ENm002 132229931 chr5 ENm002 132246993 chr5 ENm003 115981740 chr11 ENm003 115991316 chr11 ENm003 116017802 chr11 ENm003 116067962 chr11 ENm003 116091332 chr11 ENm003 116108679 chr11 ENm003 116118901 chr11 ENm003 116167522 chr11 ENm003 116212134 chr11 ENm003 116216371 chr11 ENm003 116252775 chr11 ENm003 116256005 chr11 ENm003 116271471 chr11 ENm003 116303315 chr11 ENm004 30172556 chr22 ENm004 30216864 chr22 ENm004 30277455 chr22 ENm004 30282015 chr22 ENm004 30349978 chr22 ENm004 30354671 chr22 ENm004 30386211 chr22 ENm004 30470210 chr22 ENm004 30539731 chr22 ENm004 30567452 chr22 ENm004 30668000 chr22 ENm004 30672826 chr22 ENm004 30691142 chr22 ENm004 30698229 chr22 ENm004 30801114 chr22 ENm004 30801817 chr22 ENm004 30824427 chr22 ENm004 30848690 chr22 ENm004 30861686 chr22 ENm004 30896760 chr22 ENm004 30923208 chr22 ENm004 30927844 chr22 ENm004 30986782 chr22 ENm004 30987580 chr22 ENm004 31076557 chr22 ENm004 31099547 chr22 ENm004 31134640 chr22 ENm004 31164945 chr22 ENm004 31240014 chr22 ENm004 31249533 chr22 ENm004 31348884 chr22 ENm004 31380310 chr22 ENm004 31381222 chr22 ENm004 31515343 chr22 ENm004 31517110 chr22 ENm004 31518193 chr22 ENm004 31543900 chr22 ENm004 31548935 chr22 ENm004 31557162 chr22 ENm004 31622826 chr22 ENm004 31647545 chr22 ENm004 31678705 chr22 ENm004 31706958 chr22 ENm004 31721474 chr22 ENm004 31739011 chr22 ENm004 31769886 chr22 ENm004 31804143 chr22 ENm005 32697598 chr21 ENm005 32708922 chr21 ENm005 32863924 chr21 ENm005 32872569 chr21 ENm005 32895103 chr21 ENm005 32936713 chr21 ENm005 32947733 chr21 ENm005 32982465 chr21 ENm005 33066331 chr21 ENm005 33077009 chr21 ENm005 33120880 chr21 ENm005 33138930 chr21 ENm005 33178431 chr21 ENm005 33215994 chr21 ENm005 33234861 chr21 ENm005 33288555 chr21 ENm005 33319430 chr21 ENm005 33422201 chr21 ENm005 33425906 chr21 ENm005 33491057 chr21 ENm005 33493679 chr21 ENm005 33524934 chr21 ENm005 33563409 chr21 ENm005 33603651 chr21 ENm005 33642126 chr21 ENm005 33655198 chr21 ENm005 33668878 chr21 ENm005 33739482 chr21 ENm005 33900241 chr21 ENm005 34149521 chr21 ENm005 34189060 chr21 ENm005 34196071 chr21 ENm005 34218320 chr21 ENm005 34314688 chr21 ENm006 152657251 chrX ENm006 152665190 chrX ENm006 152709591 chrX ENm006 152710594 chrX ENm006 152733945 chrX ENm006 152739738 chrX ENm006 152800132 chrX ENm006 152816103 chrX ENm006 152837751 chrX ENm006 152878801 chrX ENm006 152923117 chrX ENm006 152946043 chrX ENm006 152951306 chrX ENm006 152959903 chrX ENm006 152983154 chrX ENm006 152988437 chrX ENm006 153018704 chrX ENm006 153025597 chrX ENm006 153057084 chrX ENm006 153058053 chrX ENm006 153071010 chrX ENm006 153092638 chrX ENm006 153093334 chrX ENm006 153122891 chrX ENm006 153133757 chrX ENm006 153137272 chrX ENm006 153137897 chrX ENm006 153148281 chrX ENm006 153178206 chrX ENm006 153319202 chrX ENm006 153327009 chrX ENm006 153362426 chrX ENm006 153367354 chrX ENm006 153375286 chrX ENm006 153413042 chrX ENm006 153420958 chrX ENm006 153425906 chrX ENm006 153502689 chrX ENm006 153507416 chrX ENm006 153510043 chrX ENm006 153541370 chrX ENm006 153621980 chrX ENm006 153633084 chrX ENm006 153679325 chrX ENm006 153773216 chrX ENm006 153779240 chrX ENm006 153798211 chrX ENm006 153820351 chrX ENm006 153841173 chrX ENm006 153849802 chrX ENm006 153878171 chrX ENm006 153878860 chrX ENm006 153929770 chrX ENm006 153940765 chrX ENm007 59037385 chr19 ENm007 59048177 chr19 ENm007 59102422 chr19 ENm007 59107799 chr19 ENm007 59137363 chr19 ENm007 59218987 chr19 ENm007 59225276 chr19 ENm007 59226264 chr19 ENm007 59364014 chr19 ENm007 59375680 chr19 ENm007 59427151 chr19 ENm007 59461750 chr19 ENm007 59462491 chr19 ENm007 59528687 chr19 ENm007 59529390 chr19 ENm007 59557662 chr19 ENm007 59563077 chr19 ENm007 59595415 chr19 ENm007 59618082 chr19 ENm007 59634175 chr19 ENm007 59642516 chr19 ENm007 59665753 chr19 ENm007 59680896 chr19 ENm007 59684430 chr19 ENm007 59712550 chr19 ENm007 59851535 chr19 ENm007 59856475 chr19 ENm007 59879674 chr19 ENm008 1660 chr16 ENm008 5555 chr16 ENm008 13003 chr16 ENm008 55943 chr16 ENm008 87027 chr16 ENm008 97021 chr16 ENm008 107908 chr16 ENm008 171558 chr16 ENm008 178968 chr16 ENm008 225138 chr16 ENm008 308985 chr16 ENm008 352324 chr16 ENm008 381907 chr16 ENm008 392015 chr16 ENm008 415290 chr16 ENm008 477743 chr16 ENm009 4804760 chr11 ENm009 4838428 chr11 ENm009 4855091 chr11 ENm009 4969053 chr11 ENm009 4982163 chr11 ENm009 5102148 chr11 ENm009 5182613 chr11 ENm009 5228042 chr11 ENm009 5232944 chr11 ENm009 5269405 chr11 ENm009 5347818 chr11 ENm009 5358838 chr11 ENm009 5368243 chr11 ENm009 5430677 chr11 ENm009 5453800 chr11 ENm009 5454351 chr11 ENm009 5485150 chr11 ENm009 5531225 chr11 ENm009 5578231 chr11 ENm009 5584026 chr11 ENm009 5662553 chr11 ENm009 5690369 chr11 ENm010 26948944 chr7 ENm010 26949419 chr7 ENm010 26957000 chr7 ENm010 26963916 chr7 ENm010 26974081 chr7 ENm010 26977064 chr7 ENm010 26984816 chr7 ENm010 26992625 chr7 ENm010 27009326 chr7 ENm010 27023652 chr7 ENm010 27048485 chr7 ENm010 27082438 chr7 ENm010 27191137 chr7 ENm011 1743850 chr11 ENm011 1744439 chr11 ENm011 1802731 chr11 ENm011 1804574 chr11 ENm011 1810407 chr11 ENm011 1815727 chr11 ENm011 1854582 chr11 ENm011 1860453 chr11 ENm011 1895907 chr11 ENm011 1926877 chr11 ENm011 1931437 chr11 ENm011 1977512 chr11 ENm011 1980191 chr11 ENm011 2014790 chr11 ENm011 2066926 chr11 ENm011 2118036 chr11 ENm011 2122919 chr11 ENm011 2128923 chr11 ENm011 2134547 chr11 ENm011 2143971 chr11 ENm011 2151172 chr11 ENm011 2164624 chr11 ENm011 2172775 chr11 ENm011 2175378 chr11 ENm011 2193542 chr11 ENm011 2244899 chr11 ENm011 2277313 chr11 ENm011 2283241 chr11 ENm012 113639627 chr7 ENm012 113656860 chr7 ENm012 113661002 chr7 ENm012 113773729 chr7 ENm012 113897571 chr7 ENm012 114099655 chr7 ENm012 114163761 chr7 ENm012 114173774 chr7 ENm012 114451459 chr7 ENm013 89428650 chr7 ENm013 89485460 chr7 ENm013 89536608 chr7 ENm013 89572290 chr7 ENm013 89586673 chr7 ENm013 89620398 chr7 ENm013 89686974 chr7 ENm013 89701547 chr7 ENm013 89729667 chr7 ENm013 89869906 chr7 ENm013 89903289 chr7 ENm013 89982956 chr7 ENm013 90308749 chr7 ENm013 90329383 chr7 ENm013 90357142 chr7 ENm013 90363355 chr7 ENm014 125842376 chr7 ENm014 125933818 chr7 ENm014 126024946 chr7 ENm014 126037454 chr7 ENm014 126090889 chr7 ENm014 126116149 chr7 ENm014 126124633 chr7 ENm014 126133814 chr7 ENm014 126134935 chr7 ENm014 126301233 chr7 ENm014 126341969 chr7 ENm014 126384859 chr7 ENm014 126392139 chr7 ENm014 126393105 chr7 ENm014 126461111 chr7 ENm014 126474061 chr7 ENm014 126484900 chr7 ENm014 126488255 chr7 ENm014 126581671 chr7 ENm014 126643871 chr7 ENm014 126707558 chr7 ENm014 126739317 chr7 ENm014 126748884 chr7 ENm014 126784452 chr7 ENm014 126791992 chr7 ENm014 126812437 chr7 ENm014 126823177 chr7 ENm014 126832426 chr7 ENr111 29465503 chr13 ENr111 29585032 chr13 ENr111 29587464 chr13 ENr111 29605020 chr13 ENr111 29619726 chr13 ENr111 29631202 chr13 ENr111 29729033 chr13 ENr111 29807351 chr13 ENr111 29827624 chr13 ENr111 29880482 chr13 ENr114 55238584 chr10 ENr114 55427843 chr10 ENr114 55537701 chr10 ENr114 55563237 chr10 ENr121 118246182 chr2 ENr121 118259900 chr2 ENr121 118288457 chr2 ENr121 118309908 chr2 ENr121 118391380 chr2 ENr121 118430330 chr2 ENr121 118456569 chr2 ENr121 118477393 chr2 ENr121 118478324 chr2 ENr121 118506558 chr2 ENr121 118507242 chr2 ENr122 59495033 chr18 ENr122 59560127 chr18 ENr122 59601813 chr18 ENr122 59642017 chr18 ENr122 59642625 chr18 ENr122 59663145 chr18 ENr122 59666299 chr18 ENr122 59668104 chr18 ENr122 59708897 chr18 ENr122 59709619 chr18 ENr122 59754820 chr18 ENr122 59767531 chr18 ENr122 59769773 chr18 ENr122 59782237 chr18 ENr122 59793561 chr18 ENr122 59797741 chr18 ENr122 59836368 chr18 ENr122 59855976 chr18 ENr123 38638567 chr12 ENr123 38670696 chr12 ENr123 38690950 chr12 ENr123 38787508 chr12 ENr123 38832899 chr12 ENr123 38993088 chr12 ENr123 39005723 chr12 ENr123 39016990 chr12 ENr123 39055142 chr12 ENr131 234365560 chr2 ENr131 234402273 chr2 ENr131 234408207 chr2 ENr131 234418387 chr2 ENr131 234523692 chr2 ENr131 234548489 chr2 ENr131 234556607 chr2 ENr131 234606029 chr2 ENr131 234619205 chr2 ENr131 234667562 chr2 ENr132 112342992 chr13 ENr132 112372575 chr13 ENr132 112413976 chr13 ENr132 112576901 chr13 ENr132 112645320 chr13 ENr132 112671825 chr13 ENr132 112704581 chr13 ENr132 112731884 chr13 ENr132 112737565 chr13 ENr132 112786642 chr13 ENr132 112788542 chr13 ENr132 112826238 chr13 ENr133 39316749 chr21 ENr133 39331854 chr21 ENr133 39380684 chr21 ENr133 39390602 chr21 ENr133 39419938 chr21 ENr133 39432003 chr21 ENr133 39469585 chr21 ENr133 39474658 chr21 ENr133 39486894 chr21 ENr133 39630610 chr21 ENr133 39667679 chr21 ENr133 39671517 chr21 ENr133 39682575 chr21 ENr133 39690764 chr21 ENr133 39735414 chr21 ENr211 26031003 chr16 ENr212 141908638 chr5 ENr212 141947056 chr5 ENr212 141970901 chr5 ENr212 142015532 chr5 ENr212 142054482 chr5 ENr212 142058852 chr5 ENr212 142073007 chr5 ENr212 142074299 chr5 ENr212 142077092 chr5 ENr212 142108461 chr5 ENr212 142227040 chr5 ENr212 142240663 chr5 ENr212 142248472 chr5 ENr212 142275718 chr5 ENr212 142282216 chr5 ENr212 142284572 chr5 ENr212 142325840 chr5 ENr212 142342693 chr5 ENr212 142362947 chr5 ENr212 142374005 chr5 ENr212 142376874 chr5 ENr213 23839337 chr18 ENr213 23847203 chr18 ENr213 23943039 chr18 ENr213 24023675 chr18 ENr213 24191939 chr18 ENr221 56150294 chr5 ENr221 56158920 chr5 ENr221 56170320 chr5 ENr221 56188503 chr5 ENr221 56232659 chr5 ENr221 56327754 chr5 ENr222 132273114 chr6 ENr222 132278130 chr6 ENr222 132286452 chr6 ENr222 132288010 chr6 ENr222 132313204 chr6 ENr222 132323407 chr6 ENr222 132386487 chr6 ENr222 132581180 chr6 ENr222 132621916 chr6 ENr222 132642588 chr6 ENr222 132661284 chr6 ENr222 132663393 chr6 ENr223 73878252 chr6 ENr223 73896625 chr6 ENr223 73901109 chr6 ENr223 73947640 chr6 ENr223 74052539 chr6 ENr223 74075890 chr6 ENr223 74076650 chr6 ENr223 74093180 chr6 ENr223 74155253 chr6 ENr223 74282268 chr6 ENr231 147981989 chr1 ENr231 148037469 chr1 ENr231 148086641 chr1 ENr231 148126579 chr1 ENr231 148131804 chr1 ENr231 148150690 chr1 ENr231 148185061 chr1 ENr231 148229863 chr1 ENr231 148306110 chr1 ENr231 148320816 chr1 ENr231 148379393 chr1 ENr231 148380001 chr1 ENr232 128769935 chr9 ENr232 128835029 chr9 ENr232 128848538 chr9 ENr232 128870483 chr9 ENr232 128942512 chr9 ENr232 128945096 chr9 ENr232 128973558 chr9 ENr232 128981177 chr9 ENr232 128984863 chr9 ENr232 129016004 chr9 ENr232 129024725 chr9 ENr232 129225802 chr9 ENr233 41520646 chr15 ENr233 41563054 chr15 ENr233 41591250 chr15 ENr233 41593872 chr15 ENr233 41604037 chr15 ENr233 41657142 chr15 ENr233 41669872 chr15 ENr233 41691019 chr15 ENr233 41756721 chr15 ENr233 41769489 chr15 ENr233 41790522 chr15 ENr233 41849460 chr15 ENr233 41855065 chr15 ENr233 41857117 chr15 ENr233 41878891 chr15 ENr233 41952174 chr15 ENr233 41961522 chr15 ENr233 41983296 chr15 ENr233 42018845 chr15 ENr311 52949533 chr14 ENr311 52968951 chr14 ENr311 53032905 chr14 ENr311 53076320 chr14 ENr311 53079569 chr14 ENr311 53316423 chr14 ENr311 53329590 chr14 ENr311 53347089 chr14 ENr312 130621980 chr11 ENr312 130724694 chr11 ENr312 130767805 chr11 ENr312 130783309 chr11 ENr312 130793417 chr11 ENr312 130801226 chr11 ENr312 130822373 chr11 ENr312 130840974 chr11 ENr312 130879392 chr11 ENr312 130887030 chr11 ENr312 130919995 chr11 ENr312 130932896 chr11 ENr312 130955069 chr11 ENr312 130960636 chr11 ENr312 131043932 chr11 ENr312 131044844 chr11 ENr312 131049290 chr11 ENr312 131063198 chr11 ENr312 131066770 chr11 ENr312 131070057 chr11 ENr313 60847902 chr16 ENr313 60955043 chr16 ENr313 61230353 chr16 ENr321 118943730 chr8 ENr321 118965827 chr8 ENr321 118966872 chr8 ENr321 118999324 chr8 ENr321 119189267 chr8 ENr321 119190217 chr8 ENr321 119202491 chr8 ENr322 98725104 chr14 ENr322 98736086 chr14 ENr322 98761071 chr14 ENr322 98802757 chr14 ENr322 98808647 chr14 ENr322 98832834 chr14 ENr322 98856318 chr14 ENr322 98863386 chr14 ENr322 98925763 chr14 ENr322 98929734 chr14 ENr322 98951793 chr14 ENr323 108405242 chr6 ENr323 108408453 chr6 ENr323 108477746 chr6 ENr323 108541700 chr6 ENr323 108543733 chr6 ENr323 108573734 chr6 ENr323 108603564 chr6 ENr323 108678671 chr6 ENr323 108788567 chr6 ENr324 122592558 chrX ENr324 122637284 chrX ENr324 122674714 chrX ENr324 122692460 chrX ENr324 122692992 chrX ENr324 122744330 chrX ENr324 122819988 chrX ENr324 122836480 chrX ENr324 122877634 chrX ENr324 122957624 chrX ENr331 220121211 chr2 ENr331 220136164 chr2 ENr331 220139204 chr2 ENr331 220149597 chr2 ENr331 220166602 chr2 ENr331 220180643 chr2 ENr331 220185621 chr2 ENr331 220190409 chr2 ENr331 220200308 chr2 ENr331 220211651 chr2 ENr331 220220315 chr2 ENr331 220231240 chr2 ENr331 220232114 chr2 ENr331 220250905 chr2 ENr331 220309767 chr2 ENr331 220328349 chr2 ENr331 220332757 chr2 ENr331 220334771 chr2 ENr331 220379934 chr2 ENr331 220417383 chr2 ENr331 220426940 chr2 ENr331 220527507 chr2 ENr331 220541548 chr2 ENr331 220577192 chr2 ENr331 220598947 chr2 ENr332 63972967 chr11 ENr332 63999130 chr11 ENr332 64013912 chr11 ENr332 64077714 chr11 ENr332 64089798 chr11 ENr332 64154227 chr11 ENr332 64169028 chr11 ENr332 64173550 chr11 ENr332 64175108 chr11 ENr332 64177160 chr11 ENr332 64180998 chr11 ENr332 64212557 chr11 ENr332 64228821 chr11 ENr332 64247688 chr11 ENr332 64267410 chr11 ENr332 64274763 chr11 ENr332 64289526 chr11 ENr332 64292148 chr11 ENr332 64311813 chr11 ENr332 64327659 chr11 ENr332 64328305 chr11 ENr332 64368205 chr11 ENr332 64371283 chr11 ENr332 64372917 chr11 ENr332 64394121 chr11 ENr332 64400068 chr11 ENr332 64412019 chr11 ENr332 64418460 chr11 ENr333 33316107 chr20 ENr333 33320686 chr20 ENr333 33355095 chr20 ENr333 33358325 chr20 ENr333 33380992 chr20 ENr333 33393513 chr20 ENr333 33489938 chr20 ENr333 33498659 chr20 ENr333 33515018 chr20 ENr333 33530446 chr20 ENr333 33563164 chr20 ENr333 33574564 chr20 ENr333 33652939 chr20 ENr333 33655770 chr20 ENr333 33669127 chr20 ENr333 33671008 chr20 ENr333 33746875 chr20 ENr333 33791088 chr20 ENr333 33792874 chr20 ENr334 41410594 chr6 ENr334 41443464 chr6 ENr334 41444661 chr6 ENr334 41447549 chr6 ENr334 41500027 chr6 ENr334 41518742 chr6 ENr334 41527026 chr6 ENr334 41532289 chr6 ENr334 41539186 chr6 ENr334 41663579 chr6 ENr334 41667759 chr6 ENr334 41677924 chr6 ENr334 41678912 chr6 ENr334 41758085 chr6 ENr334 41759320 chr6 ENr334 41776629 chr6 ENr334 41781683 chr6 ENr334 41811551 chr6 ENr334 41851375 chr6 ENr334 41855992 chr6 ENr334 41863022 chr6 ENr334 41877272 chr6