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CpG interval report generated on 20/05/20 with pycoMeth 0.4.6
Interval details
| pvalue rank | chromosome | start | end | length | number of samples | number of CpGs | pvalue | adjusted pvalue |
|---|---|---|---|---|---|---|---|---|
| #81 | 10 | 133166368 | 133167794 | 1426 | 3 | 45 | 5.97562e-19 | 7.33674e-17 |
Methylation log-likelihood ratio by CpG position
Distribution of CpG methylation log-likelihood ratio by sample
Closest transcripts TSS
| distance to tss | transcript id | gene id | transcript name | chromosome | start | end | strand | feature type | transcript biotype |
|---|---|---|---|---|---|---|---|---|---|
| 0 | enst00000368571 | sg00000171798 | kndc1-202 | 10 | 133167184 | 133207204 | + | mRNA | protein_coding |
| -2181 | enst00000530127 | sg00000171798 | kndc1-205 | 10 | 133164187 | 133179149 | + | lnc_RNA | processed_transcript |
| -5865 | enst00000485110 | sg00000171798 | kndc1-204 | 10 | 133160503 | 133179374 | + | lnc_RNA | processed_transcript |
| -5865 | enst00000478074 | sg00000171798 | kndc1-203 | 10 | 133160503 | 133174244 | + | lnc_RNA | processed_transcript |
| -6149 | enst00000304613 | sg00000171798 | kndc1-201 | 10 | 133160219 | 133226412 | + | mRNA | protein_coding |
| -21064 | enst00000418634 | sg00000235264 | rpl5p28-201 | 10 | 133144612 | 133145304 | - | pseudogenic_transcript | processed_pseudogene |
| 62423 | enst00000304477 | sg00000171794 | utf1-201 | 10 | 133230217 | 133231558 | + | mRNA | protein_coding |
| -64122 | enst00000392606 | sg00000197177 | adgra1-201 | 10 | 133102246 | 133131428 | + | mRNA | protein_coding |
| 70061 | enst00000325980 | sg00000151650 | ventx-201 | 10 | 133237855 | 133241928 | + | mRNA | protein_coding |
| -77877 | enst00000366099 | sg00000256925 | adgra1-as1-201 | 10 | 133085256 | 133088491 | - | lnc_RNA | lncrna |
| -78463 | enst00000392607 | sg00000197177 | adgra1-202 | 10 | 133087905 | 133131675 | + | mRNA | protein_coding |
| -78578 | enst00000654383 | sg00000256925 | adgra1-as1-203 | 10 | 133083480 | 133087790 | - | lnc_RNA | lncrna |
| -78583 | enst00000656946 | sg00000256925 | adgra1-as1-204 | 10 | 133084241 | 133087785 | - | lnc_RNA | lncrna |
| -79671 | enst00000444433 | sg00000256925 | adgra1-as1-202 | 10 | 133083073 | 133086697 | - | lnc_RNA | lncrna |
| 79741 | enst00000669738 | sg00000166917 | mir202hg-203 | 10 | 133246479 | 133247535 | - | lnc_RNA | lncrna |
| 79826 | enst00000362219 | sg00000284219 | mir202-201 | 10 | 133247511 | 133247620 | - | miRNA | mirna |
| 80091 | enst00000300167 | sg00000166917 | mir202hg-201 | 10 | 133246479 | 133247885 | - | lnc_RNA | lncrna |
| 80097 | enst00000553459 | sg00000166917 | mir202hg-202 | 10 | 133246478 | 133247891 | - | lnc_RNA | lncrna |
| -80649 | enst00000658362 | sg00000256925 | adgra1-as1-205 | 10 | 133083088 | 133085719 | - | lnc_RNA | lncrna |
| 89757 | enst00000611956 | sg00000273980 | al592071.1-201 | 10 | 133257144 | 133257551 | - | lnc_RNA | lncrna |
| -95439 | enst00000607359 | sg00000197177 | adgra1-203 | 10 | 133070929 | 133131675 | + | mRNA | protein_coding |
| 96071 | enst00000559018 | sg00000151651 | adam8-208 | 10 | 133263003 | 133263865 | - | lnc_RNA | retained_intron |
| 103631 | enst00000468964 | sg00000151651 | adam8-204 | 10 | 133270453 | 133271425 | - | lnc_RNA | retained_intron |
| 104782 | enst00000561175 | sg00000151651 | adam8-211 | 10 | 133271717 | 133272576 | - | lnc_RNA | retained_intron |
| 108200 | enst00000537099 | sg00000151651 | adam8-207 | 10 | 133271814 | 133275994 | - | lnc_RNA | retained_intron |
| 109056 | enst00000415217 | sg00000151651 | adam8-201 | 10 | 133262420 | 133276850 | - | mRNA | protein_coding |
| 109062 | enst00000463298 | sg00000151651 | adam8-203 | 10 | 133272738 | 133276856 | - | lnc_RNA | retained_intron |
| 109063 | enst00000486609 | sg00000151651 | adam8-206 | 10 | 133273286 | 133276857 | - | mRNA | protein_coding |
| 109069 | enst00000560135 | sg00000151651 | adam8-210 | 10 | 133272415 | 133276863 | - | mRNA | nonsense_mediated_decay |
| 109074 | enst00000559180 | sg00000151651 | adam8-209 | 10 | 133273305 | 133276868 | - | lnc_RNA | processed_transcript |
| 109074 | enst00000445355 | sg00000151651 | adam8-202 | 10 | 133262423 | 133276868 | - | mRNA | protein_coding |
| 109074 | enst00000485491 | sg00000151651 | adam8-205 | 10 | 133262968 | 133276868 | - | mRNA | protein_coding |
| 113728 | enst00000477923 | sg00000130640 | tubgcp2-206 | 10 | 133279640 | 133281522 | - | lnc_RNA | processed_transcript |
| 123240 | enst00000368562 | sg00000130640 | tubgcp2-202 | 10 | 133279641 | 133291034 | - | mRNA | protein_coding |
| 128183 | enst00000424450 | sg00000235245 | al360181.2-201 | 10 | 133295187 | 133295977 | - | lnc_RNA | lncrna |
| 135187 | enst00000252936 | sg00000130640 | tubgcp2-201 | 10 | 133278630 | 133302981 | - | mRNA | protein_coding |
| 141054 | enst00000480198 | sg00000130640 | tubgcp2-207 | 10 | 133301701 | 133308848 | - | lnc_RNA | retained_intron |
| 141066 | enst00000487796 | sg00000130640 | tubgcp2-209 | 10 | 133297987 | 133308860 | - | mRNA | nonsense_mediated_decay |
| 141120 | enst00000361518 | sg00000198546 | znf511-202 | 10 | 133308914 | 133313161 | + | mRNA | protein_coding |
| 141147 | enst00000359035 | sg00000198546 | znf511-201 | 10 | 133308941 | 133313162 | + | mRNA | protein_coding |
| 141155 | enst00000482153 | sg00000198546 | znf511-204 | 10 | 133308949 | 133310546 | + | lnc_RNA | retained_intron |
| 141340 | enst00000470829 | sg00000130640 | tubgcp2-205 | 10 | 133299435 | 133309134 | - | lnc_RNA | processed_transcript |
| 141362 | enst00000368563 | sg00000130640 | tubgcp2-203 | 10 | 133278630 | 133309156 | - | mRNA | protein_coding |
| 141362 | enst00000543663 | sg00000130640 | tubgcp2-210 | 10 | 133278630 | 133309156 | - | mRNA | protein_coding |
| 141362 | enst00000417178 | sg00000130640 | tubgcp2-204 | 10 | 133278630 | 133309156 | - | mRNA | protein_coding |
| 141616 | enst00000368554 | sg00000283496 | znf511-prap1-201 | 10 | 133309410 | 133352529 | + | mRNA | protein_coding |
| 141646 | enst00000463816 | sg00000198546 | znf511-203 | 10 | 133309440 | 133313117 | + | lnc_RNA | processed_transcript |
| 144543 | enst00000482278 | sg00000130640 | tubgcp2-208 | 10 | 133279642 | 133312337 | - | mRNA | nonsense_mediated_decay |
| 158381 | enst00000467433 | sg00000130643 | caly-204 | 10 | 133325428 | 133326175 | - | lnc_RNA | retained_intron |
| 158520 | enst00000467611 | sg00000130643 | caly-205 | 10 | 133325428 | 133326314 | - | lnc_RNA | retained_intron |
| 169078 | enst00000368555 | sg00000130643 | caly-202 | 10 | 133327427 | 133336872 | - | mRNA | protein_coding |
| 169102 | enst00000252939 | sg00000130643 | caly-201 | 10 | 133324072 | 133336896 | - | mRNA | protein_coding |
| 169141 | enst00000368558 | sg00000130643 | caly-203 | 10 | 133325932 | 133336935 | - | mRNA | protein_coding |
| 177112 | enst00000430526 | sg00000230306 | banf1p2-201 | 10 | 133344643 | 133344906 | - | pseudogenic_transcript | processed_pseudogene |
| 179574 | enst00000463201 | sg00000165828 | prap1-202 | 10 | 133347368 | 133352548 | + | mRNA | protein_coding |
| 179579 | enst00000433452 | sg00000165828 | prap1-201 | 10 | 133347373 | 133352683 | + | mRNA | protein_coding |
| 182932 | enst00000452591 | sg00000226699 | al360181.1-201 | 10 | 133345754 | 133350726 | - | lnc_RNA | lncrna |
| 189202 | enst00000478895 | sg00000148803 | fuom-206 | 10 | 133355520 | 133356996 | - | lnc_RNA | processed_transcript |
| 189943 | enst00000368551 | sg00000148803 | fuom-202 | 10 | 133355203 | 133357737 | - | mRNA | protein_coding |
| 190201 | enst00000447176 | sg00000148803 | fuom-204 | 10 | 133355164 | 133357995 | - | mRNA | protein_coding |
| 190207 | enst00000465384 | sg00000148803 | fuom-205 | 10 | 133355169 | 133358001 | - | lnc_RNA | processed_transcript |
| 190225 | enst00000278025 | sg00000148803 | fuom-201 | 10 | 133355158 | 133358019 | - | mRNA | protein_coding |
| 190231 | enst00000368552 | sg00000148803 | fuom-203 | 10 | 133355160 | 133358025 | - | mRNA | protein_coding |
| -200783 | enst00000664098 | sg00000240707 | linc01168-203 | 10 | 132965585 | 132968700 | + | lnc_RNA | lncrna |
| -200793 | enst00000655722 | sg00000240707 | linc01168-202 | 10 | 132965575 | 132968696 | + | lnc_RNA | lncrna |
| -200834 | enst00000461291 | sg00000240707 | linc01168-201 | 10 | 132965534 | 132976354 | + | lnc_RNA | lncrna |
| -201079 | enst00000443633 | sg00000232903 | linc01166-201 | 10 | 132943967 | 132965289 | - | lnc_RNA | lncrna |
| 203869 | enst00000581277 | sg00000265395 | mir3944-201 | 10 | 133371556 | 133371663 | - | miRNA | mirna |
| -204131 | enst00000423232 | sg00000224758 | linc01167-201 | 10 | 132961340 | 132962237 | - | lnc_RNA | lncrna |
| 205560 | enst00000368547 | sg00000127884 | echs1-201 | 10 | 133362485 | 133373354 | - | mRNA | protein_coding |
| 207075 | enst00000621752 | sg00000274685 | al360181.4-201 | 10 | 133374736 | 133374869 | - | lnc_RNA | lncrna |
| 211467 | enst00000357296 | sg00000148832 | paox-203 | 10 | 133379261 | 133391654 | + | mRNA | protein_coding |
| 211468 | enst00000278060 | sg00000148832 | paox-201 | 10 | 133379262 | 133391694 | + | mRNA | protein_coding |
| 211493 | enst00000476834 | sg00000148832 | paox-205 | 10 | 133379287 | 133391624 | + | mRNA | nonsense_mediated_decay |
| 211493 | enst00000480071 | sg00000148832 | paox-206 | 10 | 133379287 | 133391624 | + | mRNA | protein_coding |
| 211493 | enst00000483211 | sg00000148832 | paox-207 | 10 | 133379287 | 133391624 | + | mRNA | nonsense_mediated_decay |
| 211493 | enst00000529585 | sg00000148832 | paox-209 | 10 | 133379287 | 133391624 | + | mRNA | nonsense_mediated_decay |
| 211493 | enst00000356306 | sg00000148832 | paox-202 | 10 | 133379287 | 133391624 | + | mRNA | nonsense_mediated_decay |
| 211734 | enst00000368535 | sg00000148832 | paox-204 | 10 | 133379528 | 133391694 | + | lnc_RNA | processed_transcript |
| 211745 | enst00000528127 | sg00000148832 | paox-208 | 10 | 133379539 | 133380373 | + | lnc_RNA | processed_transcript |
| 212223 | enst00000670407 | sg00000254536 | al360181.3-201 | 10 | 133380017 | 133396175 | + | mRNA | nonsense_mediated_decay |
| 212232 | enst00000468317 | sg00000254536 | al360181.3-202 | 10 | 133380026 | 133420271 | + | mRNA | nonsense_mediated_decay |
| 212255 | enst00000664059 | sg00000254536 | al360181.3-203 | 10 | 133380049 | 133400128 | + | lnc_RNA | retained_intron |
| 223264 | enst00000530555 | sg00000148832 | paox-210 | 10 | 133391058 | 133391663 | + | lnc_RNA | processed_transcript |
| -223545 | enst00000368585 | sg00000171811 | cfap46-201 | 10 | 132929185 | 132942823 | - | mRNA | protein_coding |
| -223798 | enst00000368586 | sg00000171811 | cfap46-202 | 10 | 132808392 | 132942570 | - | mRNA | protein_coding |
| -223825 | enst00000475340 | sg00000171811 | cfap46-206 | 10 | 132937115 | 132942543 | - | lnc_RNA | retained_intron |
| 226300 | enst00000477902 | sg00000148824 | mtg1-205 | 10 | 133394094 | 133420464 | + | mRNA | protein_coding |
| 226363 | enst00000317502 | sg00000148824 | mtg1-201 | 10 | 133394157 | 133422520 | + | mRNA | protein_coding |
| 226380 | enst00000432508 | sg00000148824 | mtg1-202 | 10 | 133394174 | 133420219 | + | mRNA | protein_coding |
| 226402 | enst00000460848 | sg00000148824 | mtg1-203 | 10 | 133394196 | 133421307 | + | lnc_RNA | retained_intron |
| 226420 | enst00000495014 | sg00000148824 | mtg1-207 | 10 | 133394214 | 133401847 | + | lnc_RNA | retained_intron |
| 226430 | enst00000498790 | sg00000148824 | mtg1-208 | 10 | 133394224 | 133399804 | + | lnc_RNA | retained_intron |
| 226479 | enst00000473735 | sg00000148824 | mtg1-204 | 10 | 133394273 | 133420518 | + | lnc_RNA | retained_intron |
| 233629 | enst00000492266 | sg00000148824 | mtg1-206 | 10 | 133401423 | 133402839 | + | lnc_RNA | retained_intron |
| -249686 | enst00000486104 | sg00000171811 | cfap46-208 | 10 | 132898517 | 132916682 | - | lnc_RNA | retained_intron |
| -256272 | enst00000466834 | sg00000171811 | cfap46-205 | 10 | 132908348 | 132910096 | - | lnc_RNA | retained_intron |
| 256778 | enst00000414069 | sg00000203772 | sprn-201 | 10 | 133420666 | 133424572 | - | mRNA | protein_coding |
| 263524 | enst00000608207 | sg00000273327 | or6l2p-201 | 10 | 133430394 | 133431318 | - | pseudogenic_transcript | unprocessed_pseudogene |
| 286134 | enst00000482993 | sg00000214279 | scart1-204 | 10 | 133453928 | 133468449 | + | lnc_RNA | retained_intron |
| 286152 | enst00000640237 | sg00000214279 | scart1-206 | 10 | 133453946 | 133469183 | + | mRNA | protein_coding |
| 286152 | enst00000463137 | sg00000214279 | scart1-202 | 10 | 133453946 | 133469183 | + | lnc_RNA | retained_intron |
| 288443 | enst00000488261 | sg00000214279 | scart1-205 | 10 | 133456237 | 133523558 | + | lnc_RNA | retained_intron |
| -289460 | enst00000417862 | sg00000171811 | cfap46-203 | 10 | 132872528 | 132876908 | - | lnc_RNA | retained_intron |
| 296438 | enst00000462252 | sg00000214279 | scart1-201 | 10 | 133464232 | 133468991 | + | lnc_RNA | retained_intron |
| 299180 | enst00000475114 | sg00000214279 | scart1-203 | 10 | 133466974 | 133468412 | + | lnc_RNA | retained_intron |
| 313444 | enst00000608946 | sg00000273336 | or7m1p-201 | 10 | 133481238 | 133481770 | + | pseudogenic_transcript | unprocessed_pseudogene |
| -329291 | enst00000476633 | sg00000171811 | cfap46-207 | 10 | 132834682 | 132837077 | - | lnc_RNA | retained_intron |
| -331015 | enst00000448925 | sg00000171811 | cfap46-204 | 10 | 132832616 | 132835353 | - | mRNA | protein_coding |
| 352612 | enst00000463117 | sg00000130649 | cyp2e1-205 | 10 | 133520406 | 133539122 | + | mRNA | protein_coding |
| -353564 | enst00000639072 | sg00000171811 | cfap46-209 | 10 | 132808443 | 132812804 | - | mRNA | protein_coding |
| 357750 | enst00000541261 | sg00000130649 | cyp2e1-210 | 10 | 133525544 | 133528563 | + | mRNA | protein_coding |
| 359569 | enst00000252945 | sg00000130649 | cyp2e1-201 | 10 | 133527363 | 133539123 | + | mRNA | protein_coding |
| 359641 | enst00000477500 | sg00000130649 | cyp2e1-207 | 10 | 133527435 | 133532868 | + | lnc_RNA | processed_transcript |
| 359703 | enst00000541080 | sg00000130649 | cyp2e1-209 | 10 | 133527497 | 133538811 | + | mRNA | nonsense_mediated_decay |
| 359703 | enst00000421586 | sg00000130649 | cyp2e1-204 | 10 | 133527497 | 133538811 | + | mRNA | protein_coding |
| 359703 | enst00000418356 | sg00000130649 | cyp2e1-203 | 10 | 133527497 | 133538811 | + | mRNA | protein_coding |
| 359719 | enst00000622716 | sg00000278518 | al161645.1-201 | 10 | 133526259 | 133527513 | - | lnc_RNA | lncrna |
| 360285 | enst00000480558 | sg00000130649 | cyp2e1-208 | 10 | 133528079 | 133532164 | + | lnc_RNA | processed_transcript |
| 363782 | enst00000368520 | sg00000130649 | cyp2e1-202 | 10 | 133531576 | 133561220 | + | lnc_RNA | retained_intron |
| 369706 | enst00000469258 | sg00000130649 | cyp2e1-206 | 10 | 133537500 | 133539118 | + | lnc_RNA | processed_transcript |
| 374015 | enst00000670832 | sg00000286789 | al161645.2-201 | 10 | 133541809 | 133542575 | + | lnc_RNA | lncrna |
| -380221 | enst00000368592 | sg00000148826 | nkx6-2-201 | 10 | 132783181 | 132786147 | - | mRNA | protein_coding |
| -381603 | enst00000441365 | sg00000148826 | nkx6-2-202 | 10 | 132783179 | 132784765 | - | lnc_RNA | processed_transcript |
| 397789 | enst00000479535 | sg00000171772 | syce1-205 | 10 | 133553901 | 133565583 | - | lnc_RNA | retained_intron |
| 397789 | enst00000303903 | sg00000171772 | syce1-201 | 10 | 133554290 | 133565583 | - | mRNA | protein_coding |
| 397790 | enst00000343131 | sg00000171772 | syce1-202 | 10 | 133554990 | 133565584 | - | mRNA | protein_coding |
| 398003 | enst00000656338 | sg00000288107 | al731769.2-201 | 10 | 133565797 | 133611038 | + | lnc_RNA | lncrna |
| 398065 | enst00000655152 | sg00000288107 | al731769.2-202 | 10 | 133565859 | 133629507 | + | lnc_RNA | lncrna |
| 398124 | enst00000657107 | sg00000288107 | al731769.2-203 | 10 | 133565918 | 133610901 | + | lnc_RNA | lncrna |
| 398453 | enst00000669404 | sg00000288107 | al731769.2-204 | 10 | 133566247 | 133627770 | + | lnc_RNA | lncrna |
| 400497 | enst00000368517 | sg00000171772 | syce1-203 | 10 | 133553901 | 133568291 | - | mRNA | protein_coding |
| -400544 | enst00000445580 | sg00000068383 | inpp5a-205 | 10 | 132765824 | 132782405 | + | mRNA | protein_coding |
| 401972 | enst00000665054 | sg00000288107 | al731769.2-205 | 10 | 133569766 | 133611048 | + | lnc_RNA | lncrna |
| 402041 | enst00000432597 | sg00000171772 | syce1-204 | 10 | 133567798 | 133569835 | - | mRNA | protein_coding |
| 408237 | enst00000441446 | sg00000233685 | or6l1p-201 | 10 | 133575122 | 133576031 | - | pseudogenic_transcript | unprocessed_pseudogene |
| 421120 | enst00000669879 | sg00000287327 | al731769.1-201 | 10 | 133588914 | 133589413 | + | lnc_RNA | lncrna |
| -456020 | enst00000498337 | sg00000068383 | inpp5a-207 | 10 | 132710348 | 132753972 | + | lnc_RNA | processed_transcript |
| 458998 | enst00000443774 | sg00000225899 | frg2b-202 | 10 | 133623895 | 133626792 | - | mRNA | protein_coding |
| 459001 | enst00000425520 | sg00000225899 | frg2b-201 | 10 | 133623895 | 133626795 | - | mRNA | protein_coding |
| 470098 | enst00000394842 | sg00000213543 | rarres2p2-201 | 10 | 133637408 | 133637892 | - | pseudogenic_transcript | processed_pseudogene |
| 472995 | enst00000426656 | sg00000233435 | aggf1p2-201 | 10 | 133640789 | 133642894 | + | pseudogenic_transcript | processed_pseudogene |
| -475976 | enst00000487614 | sg00000068383 | inpp5a-206 | 10 | 132690392 | 132727349 | + | lnc_RNA | processed_transcript |
| 492841 | enst00000438421 | sg00000230468 | cluhp5-201 | 10 | 133657235 | 133660635 | - | pseudogenic_transcript | unprocessed_pseudogene |
| 496635 | enst00000623687 | sg00000279626 | dux4l28-201 | 10 | 133664429 | 133665106 | + | pseudogenic_transcript | unprocessed_pseudogene |
| 499357 | enst00000624915 | sg00000280337 | dux4l25-201 | 10 | 133667151 | 133668419 | + | pseudogenic_transcript | unprocessed_pseudogene |
Source file: /hps/research1/birney/users/adrien/analyses/cancer_DNA_promethion/run_1_2_3_4/DNA_pipeline_2/results/methylation/pycometh_meth_comp_CGI_3/out.tsv.gz
MD5 hash: 9aa0e3f69cb4e12345c3758eb68a5efc