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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 |
|---|---|---|---|---|---|---|---|---|
| #127 | 5 | 93570321 | 93571592 | 1271 | 3 | 38 | 1.88094e-16 | 1.47291e-14 |
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 | enst00000607831 | sg00000237187 | nr2f1-as1-214 | 5 | 93411447 | 93571343 | - | lnc_RNA | lncrna |
| 0 | enst00000606739 | sg00000237187 | nr2f1-as1-210 | 5 | 93411021 | 93570819 | - | lnc_RNA | lncrna |
| 0 | enst00000659013 | sg00000237187 | nr2f1-as1-237 | 5 | 93543459 | 93570505 | - | lnc_RNA | lncrna |
| 0 | enst00000607797 | sg00000237187 | nr2f1-as1-213 | 5 | 93409359 | 93570793 | - | lnc_RNA | lncrna |
| 0 | enst00000670690 | sg00000237187 | nr2f1-as1-269 | 5 | 93541882 | 93570363 | - | lnc_RNA | lncrna |
| 0 | enst00000656921 | sg00000237187 | nr2f1-as1-234 | 5 | 93409367 | 93570575 | - | lnc_RNA | lncrna |
| -333 | enst00000656231 | sg00000237187 | nr2f1-as1-232 | 5 | 93409367 | 93569988 | - | lnc_RNA | lncrna |
| -6327 | enst00000666791 | sg00000237187 | nr2f1-as1-261 | 5 | 93409367 | 93563994 | - | lnc_RNA | lncrna |
| 9187 | enst00000664359 | sg00000237187 | nr2f1-as1-255 | 5 | 93409874 | 93580779 | - | lnc_RNA | lncrna |
| 9187 | enst00000670693 | sg00000237187 | nr2f1-as1-270 | 5 | 93495304 | 93580779 | - | lnc_RNA | lncrna |
| 9187 | enst00000653284 | sg00000237187 | nr2f1-as1-218 | 5 | 93411088 | 93580779 | - | lnc_RNA | lncrna |
| 9187 | enst00000653235 | sg00000237187 | nr2f1-as1-217 | 5 | 93411083 | 93580779 | - | lnc_RNA | lncrna |
| 9187 | enst00000653598 | sg00000237187 | nr2f1-as1-222 | 5 | 93394957 | 93580779 | - | lnc_RNA | lncrna |
| 9187 | enst00000660523 | sg00000237187 | nr2f1-as1-242 | 5 | 93360779 | 93580779 | - | lnc_RNA | lncrna |
| 9187 | enst00000653325 | sg00000237187 | nr2f1-as1-219 | 5 | 93409367 | 93580779 | - | lnc_RNA | lncrna |
| 9202 | enst00000653510 | sg00000237187 | nr2f1-as1-221 | 5 | 93432371 | 93580794 | - | lnc_RNA | lncrna |
| 9429 | enst00000655613 | sg00000237187 | nr2f1-as1-229 | 5 | 93436026 | 93581021 | - | lnc_RNA | lncrna |
| 9433 | enst00000653419 | sg00000237187 | nr2f1-as1-220 | 5 | 93409372 | 93581025 | - | lnc_RNA | lncrna |
| 9433 | enst00000669221 | sg00000237187 | nr2f1-as1-267 | 5 | 93409372 | 93581025 | - | lnc_RNA | lncrna |
| 9433 | enst00000671166 | sg00000237187 | nr2f1-as1-272 | 5 | 93409982 | 93581025 | - | lnc_RNA | lncrna |
| 9433 | enst00000667268 | sg00000237187 | nr2f1-as1-263 | 5 | 93420956 | 93581025 | - | lnc_RNA | lncrna |
| 9433 | enst00000510254 | sg00000237187 | nr2f1-as1-204 | 5 | 93409396 | 93581025 | - | lnc_RNA | lncrna |
| 9440 | enst00000665725 | sg00000237187 | nr2f1-as1-258 | 5 | 93409838 | 93581032 | - | lnc_RNA | lncrna |
| 9463 | enst00000665095 | sg00000237187 | nr2f1-as1-257 | 5 | 93409828 | 93581055 | - | lnc_RNA | lncrna |
| 9463 | enst00000507963 | sg00000237187 | nr2f1-as1-203 | 5 | 93553753 | 93581055 | - | lnc_RNA | lncrna |
| 9600 | enst00000655454 | sg00000237187 | nr2f1-as1-228 | 5 | 93411088 | 93581192 | - | lnc_RNA | lncrna |
| 9607 | enst00000652888 | sg00000237187 | nr2f1-as1-215 | 5 | 93411066 | 93581199 | - | lnc_RNA | lncrna |
| 9607 | enst00000503134 | sg00000237187 | nr2f1-as1-201 | 5 | 93411088 | 93581199 | - | lnc_RNA | lncrna |
| 9607 | enst00000663076 | sg00000237187 | nr2f1-as1-249 | 5 | 93409894 | 93581199 | - | lnc_RNA | lncrna |
| 9608 | enst00000663096 | sg00000237187 | nr2f1-as1-250 | 5 | 93456690 | 93581200 | - | lnc_RNA | lncrna |
| 9613 | enst00000653643 | sg00000237187 | nr2f1-as1-223 | 5 | 93537093 | 93581205 | - | lnc_RNA | lncrna |
| 9617 | enst00000660787 | sg00000237187 | nr2f1-as1-243 | 5 | 93409828 | 93581209 | - | lnc_RNA | lncrna |
| 9622 | enst00000668988 | sg00000237187 | nr2f1-as1-265 | 5 | 93541882 | 93581214 | - | lnc_RNA | lncrna |
| 9641 | enst00000664135 | sg00000237187 | nr2f1-as1-252 | 5 | 93409377 | 93581233 | - | lnc_RNA | lncrna |
| 9643 | enst00000658662 | sg00000237187 | nr2f1-as1-236 | 5 | 93409377 | 93581235 | - | lnc_RNA | lncrna |
| 9650 | enst00000656079 | sg00000237187 | nr2f1-as1-230 | 5 | 93409556 | 93581242 | - | lnc_RNA | lncrna |
| 9650 | enst00000665047 | sg00000237187 | nr2f1-as1-256 | 5 | 93409871 | 93581242 | - | lnc_RNA | lncrna |
| 9671 | enst00000606696 | sg00000237187 | nr2f1-as1-209 | 5 | 93541882 | 93581263 | - | lnc_RNA | lncrna |
| 9705 | enst00000504474 | sg00000237187 | nr2f1-as1-202 | 5 | 93541872 | 93581297 | - | lnc_RNA | lncrna |
| 9708 | enst00000671683 | sg00000237187 | nr2f1-as1-275 | 5 | 93409356 | 93581300 | - | lnc_RNA | lncrna |
| 9723 | enst00000654431 | sg00000237187 | nr2f1-as1-225 | 5 | 93409377 | 93581315 | - | lnc_RNA | lncrna |
| 9733 | enst00000671432 | sg00000237187 | nr2f1-as1-273 | 5 | 93409367 | 93581325 | - | lnc_RNA | lncrna |
| 9868 | enst00000654617 | sg00000237187 | nr2f1-as1-226 | 5 | 93409390 | 93581460 | - | lnc_RNA | lncrna |
| 9935 | enst00000654055 | sg00000237187 | nr2f1-as1-224 | 5 | 93409366 | 93581527 | - | lnc_RNA | lncrna |
| 9960 | enst00000661182 | sg00000237187 | nr2f1-as1-244 | 5 | 93541872 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000664241 | sg00000237187 | nr2f1-as1-254 | 5 | 93409872 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000665798 | sg00000237187 | nr2f1-as1-259 | 5 | 93409367 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000661345 | sg00000237187 | nr2f1-as1-245 | 5 | 93409382 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000659983 | sg00000237187 | nr2f1-as1-240 | 5 | 93409493 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000671514 | sg00000237187 | nr2f1-as1-274 | 5 | 93409367 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000606233 | sg00000237187 | nr2f1-as1-208 | 5 | 93409809 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000669203 | sg00000237187 | nr2f1-as1-266 | 5 | 93409872 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000670457 | sg00000237187 | nr2f1-as1-268 | 5 | 93409827 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000653133 | sg00000237187 | nr2f1-as1-216 | 5 | 93409373 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000660272 | sg00000237187 | nr2f1-as1-241 | 5 | 93409841 | 93581552 | - | lnc_RNA | lncrna |
| 9960 | enst00000664017 | sg00000237187 | nr2f1-as1-251 | 5 | 93409357 | 93581552 | - | lnc_RNA | lncrna |
| 11630 | enst00000327111 | sg00000175745 | nr2f1-201 | 5 | 93583222 | 93594611 | + | mRNA | protein_coding |
| 13432 | enst00000647447 | sg00000175745 | nr2f1-206 | 5 | 93585024 | 93593842 | + | mRNA | protein_coding |
| 13432 | enst00000615873 | sg00000175745 | nr2f1-205 | 5 | 93585024 | 93594072 | + | mRNA | protein_coding |
| 13789 | enst00000661573 | sg00000237187 | nr2f1-as1-246 | 5 | 93541882 | 93585381 | - | lnc_RNA | lncrna |
| 13942 | enst00000657648 | sg00000237187 | nr2f1-as1-235 | 5 | 93409871 | 93585534 | - | lnc_RNA | lncrna |
| 13997 | enst00000664168 | sg00000237187 | nr2f1-as1-253 | 5 | 93437830 | 93585589 | - | lnc_RNA | lncrna |
| 13997 | enst00000656155 | sg00000237187 | nr2f1-as1-231 | 5 | 93409377 | 93585589 | - | lnc_RNA | lncrna |
| 14007 | enst00000513055 | sg00000237187 | nr2f1-as1-205 | 5 | 93411018 | 93585599 | - | lnc_RNA | lncrna |
| 14030 | enst00000659336 | sg00000237187 | nr2f1-as1-238 | 5 | 93409367 | 93585622 | - | lnc_RNA | lncrna |
| 14035 | enst00000659381 | sg00000237187 | nr2f1-as1-239 | 5 | 93409470 | 93585627 | - | lnc_RNA | lncrna |
| 14045 | enst00000661870 | sg00000237187 | nr2f1-as1-248 | 5 | 93409540 | 93585637 | - | lnc_RNA | lncrna |
| 14056 | enst00000670813 | sg00000237187 | nr2f1-as1-271 | 5 | 93541882 | 93585648 | - | lnc_RNA | lncrna |
| 14057 | enst00000666033 | sg00000237187 | nr2f1-as1-260 | 5 | 93409367 | 93585649 | - | lnc_RNA | lncrna |
| -14896 | enst00000661661 | sg00000237187 | nr2f1-as1-247 | 5 | 93409375 | 93555425 | - | lnc_RNA | lncrna |
| 15509 | enst00000512697 | sg00000175745 | nr2f1-204 | 5 | 93587101 | 93588333 | + | lnc_RNA | processed_transcript |
| 15868 | enst00000502982 | sg00000175745 | nr2f1-202 | 5 | 93587460 | 93588388 | + | lnc_RNA | processed_transcript |
| 20381 | enst00000506162 | sg00000175745 | nr2f1-203 | 5 | 93591973 | 93594143 | + | lnc_RNA | processed_transcript |
| 28765 | enst00000623223 | sg00000278905 | ac106818.1-201 | 5 | 93600357 | 93603598 | + | unconfirmed_transcript | tec |
| 49196 | enst00000515916 | sg00000284336 | mir2277-201 | 5 | 93620696 | 93620788 | - | miRNA | mirna |
| 50091 | enst00000656848 | sg00000287180 | ac106818.2-201 | 5 | 93621683 | 93675081 | + | lnc_RNA | lncrna |
| 50163 | enst00000656321 | sg00000287180 | ac106818.2-202 | 5 | 93621755 | 93673702 | + | lnc_RNA | lncrna |
| -65595 | enst00000654862 | sg00000237187 | nr2f1-as1-227 | 5 | 93409840 | 93504726 | - | lnc_RNA | lncrna |
| 112075 | enst00000502784 | sg00000249353 | npm1p27-201 | 5 | 93682838 | 93683667 | - | pseudogenic_transcript | processed_pseudogene |
| -137244 | enst00000667752 | sg00000237187 | nr2f1-as1-264 | 5 | 93409382 | 93433077 | - | lnc_RNA | lncrna |
| -147077 | enst00000666995 | sg00000237187 | nr2f1-as1-262 | 5 | 93410040 | 93423244 | - | lnc_RNA | lncrna |
| -147079 | enst00000606165 | sg00000237187 | nr2f1-as1-206 | 5 | 93411018 | 93423242 | - | lnc_RNA | lncrna |
| -147898 | enst00000607195 | sg00000237187 | nr2f1-as1-212 | 5 | 93411033 | 93422423 | - | lnc_RNA | lncrna |
| -147908 | enst00000607112 | sg00000237187 | nr2f1-as1-211 | 5 | 93411402 | 93422413 | - | lnc_RNA | lncrna |
| -147952 | enst00000656357 | sg00000237187 | nr2f1-as1-233 | 5 | 93409827 | 93422369 | - | lnc_RNA | lncrna |
| -147986 | enst00000606188 | sg00000237187 | nr2f1-as1-207 | 5 | 93409838 | 93422335 | - | lnc_RNA | lncrna |
| 170008 | enst00000606183 | sg00000248483 | pou5f2-201 | 5 | 93733220 | 93741600 | - | mRNA | protein_coding |
| 170048 | enst00000606528 | sg00000272406 | ac108102.1-201 | 5 | 93741640 | 93743500 | + | lnc_RNA | lncrna |
| 218913 | enst00000671167 | sg00000287447 | ac099501.1-201 | 5 | 93790505 | 93801320 | + | lnc_RNA | lncrna |
| 252662 | enst00000511139 | sg00000113391 | fam172a-209 | 5 | 93776158 | 93824254 | - | lnc_RNA | retained_intron |
| 292233 | enst00000505668 | sg00000251023 | ac114980.1-201 | 5 | 93860669 | 93863825 | - | lnc_RNA | lncrna |
| -302892 | enst00000511220 | sg00000213730 | pold2p1-201 | 5 | 93267429 | 93268425 | + | pseudogenic_transcript | processed_pseudogene |
| 310009 | enst00000510445 | sg00000113391 | fam172a-208 | 5 | 93784195 | 93881601 | - | lnc_RNA | retained_intron |
| -481465 | enst00000663805 | sg00000286509 | ac026408.1-201 | 5 | 93088856 | 93091768 | + | lnc_RNA | lncrna |
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