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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 |
|---|---|---|---|---|---|---|---|---|
| #183 | 2 | 63059286 | 63060202 | 916 | 3 | 35 | 1.98722e-14 | 1.07407e-12 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -8435 | enst00000476383 | sg00000115507 | otx1-204 | 2 | 63050851 | 63052207 | + | lnc_RNA | retained_intron |
| -8455 | enst00000405984 | sg00000115507 | otx1-203 | 2 | 63050831 | 63056583 | + | mRNA | nonsense_mediated_decay |
| -8456 | enst00000282549 | sg00000115507 | otx1-201 | 2 | 63050830 | 63057831 | + | mRNA | protein_coding |
| -8456 | enst00000477348 | sg00000115507 | otx1-205 | 2 | 63050830 | 63051804 | + | lnc_RNA | retained_intron |
| -8545 | enst00000484066 | sg00000115507 | otx1-206 | 2 | 63050741 | 63053546 | + | lnc_RNA | retained_intron |
| -9229 | enst00000366671 | sg00000115507 | otx1-202 | 2 | 63050057 | 63057836 | + | mRNA | protein_coding |
| -10646 | enst00000437346 | sg00000231609 | ac007098.1-203 | 2 | 63045061 | 63048640 | - | lnc_RNA | lncrna |
| -10765 | enst00000413549 | sg00000231609 | ac007098.1-205 | 2 | 63045311 | 63048521 | - | lnc_RNA | lncrna |
| -11575 | enst00000429952 | sg00000231609 | ac007098.1-202 | 2 | 63043922 | 63047711 | - | lnc_RNA | lncrna |
| -11630 | enst00000650490 | sg00000231609 | ac007098.1-201 | 2 | 62957326 | 63047656 | - | lnc_RNA | lncrna |
| -11997 | enst00000660923 | sg00000231609 | ac007098.1-206 | 2 | 63045377 | 63047289 | - | lnc_RNA | lncrna |
| -12677 | enst00000412297 | sg00000231609 | ac007098.1-204 | 2 | 63045176 | 63046609 | - | lnc_RNA | lncrna |
| -14447 | enst00000471179 | sg00000115504 | ehbp1-216 | 2 | 63044839 | 63045655 | + | lnc_RNA | retained_intron |
| 22806 | enst00000605001 | sg00000270437 | ac009501.2-201 | 2 | 63083008 | 63087322 | + | pseudogenic_transcript | processed_pseudogene |
| 46677 | enst00000657946 | sg00000286480 | ac009501.3-201 | 2 | 63106879 | 63197037 | + | lnc_RNA | lncrna |
| 48227 | enst00000428700 | sg00000232403 | ac009501.1-201 | 2 | 63108118 | 63108429 | - | pseudogenic_transcript | processed_pseudogene |
| 59061 | enst00000443827 | sg00000242412 | dbil5p2-201 | 2 | 63119011 | 63119263 | - | pseudogenic_transcript | transcribed_processed_pseudogene |
| 59340 | enst00000491724 | sg00000242412 | dbil5p2-202 | 2 | 63117851 | 63119542 | - | lnc_RNA | processed_transcript |
| -79963 | enst00000491965 | sg00000115504 | ehbp1-218 | 2 | 62979323 | 62994177 | + | lnc_RNA | retained_intron |
| 92912 | enst00000487280 | sg00000143951 | wdpcp-215 | 2 | 63121734 | 63153114 | - | lnc_RNA | retained_intron |
| -94324 | enst00000496857 | sg00000115504 | ehbp1-220 | 2 | 62964962 | 63045663 | + | lnc_RNA | processed_transcript |
| -103671 | enst00000422032 | sg00000115504 | ehbp1-206 | 2 | 62955615 | 62993976 | + | mRNA | protein_coding |
| 108398 | enst00000636778 | sg00000283636 | ac074367.2-201 | 2 | 63168600 | 63168847 | + | ncRNA | misc_rna |
| -110353 | enst00000454124 | sg00000115504 | ehbp1-212 | 2 | 62948933 | 62979286 | + | mRNA | protein_coding |
| -110994 | enst00000444311 | sg00000115504 | ehbp1-210 | 2 | 62948292 | 62988004 | + | mRNA | protein_coding |
| -116568 | enst00000469591 | sg00000115504 | ehbp1-215 | 2 | 62942718 | 62956117 | + | lnc_RNA | retained_intron |
| -119370 | enst00000420122 | sg00000237162 | ac007098.2-201 | 2 | 62939916 | 62940282 | + | pseudogenic_transcript | processed_pseudogene |
| 173375 | enst00000438685 | sg00000233716 | ac074367.1-201 | 2 | 63232453 | 63233577 | - | pseudogenic_transcript | processed_pseudogene |
| -187248 | enst00000462441 | sg00000115504 | ehbp1-213 | 2 | 62872038 | 62881777 | + | lnc_RNA | processed_transcript |
| -200848 | enst00000452397 | sg00000226605 | ac092567.1-201 | 2 | 62826064 | 62858438 | - | lnc_RNA | lncrna |
| -239580 | enst00000657432 | sg00000286524 | ac092567.3-201 | 2 | 62817764 | 62819706 | - | lnc_RNA | lncrna |
| 321872 | enst00000462652 | sg00000143951 | wdpcp-211 | 2 | 63377849 | 63382074 | - | lnc_RNA | retained_intron |
| -332546 | enst00000516627 | sg00000252436 | ac092567.2-201 | 2 | 62726636 | 62726740 | - | ncRNA | misc_rna |
| -352094 | enst00000405289 | sg00000115504 | ehbp1-203 | 2 | 62707192 | 63045500 | + | mRNA | protein_coding |
| -352973 | enst00000467436 | sg00000115504 | ehbp1-214 | 2 | 62706313 | 62706992 | + | lnc_RNA | processed_transcript |
| -353420 | enst00000263991 | sg00000115504 | ehbp1-201 | 2 | 62705866 | 63046487 | + | mRNA | protein_coding |
| -353544 | enst00000431489 | sg00000115504 | ehbp1-209 | 2 | 62705742 | 63046487 | + | mRNA | protein_coding |
| -353574 | enst00000494958 | sg00000115504 | ehbp1-219 | 2 | 62705712 | 62826581 | + | lnc_RNA | retained_intron |
| -353574 | enst00000472809 | sg00000115504 | ehbp1-217 | 2 | 62705712 | 62772134 | + | lnc_RNA | retained_intron |
| -353634 | enst00000427809 | sg00000115504 | ehbp1-208 | 2 | 62705652 | 62764336 | + | mRNA | protein_coding |
| -353634 | enst00000405482 | sg00000115504 | ehbp1-204 | 2 | 62705652 | 62864904 | + | mRNA | protein_coding |
| 373728 | enst00000409354 | sg00000143951 | wdpcp-205 | 2 | 63121383 | 63433930 | - | mRNA | nonsense_mediated_decay |
| 377805 | enst00000398544 | sg00000143951 | wdpcp-202 | 2 | 63121831 | 63438007 | - | mRNA | protein_coding |
| 380841 | enst00000473678 | sg00000143951 | wdpcp-213 | 2 | 63437453 | 63441043 | - | mRNA | protein_coding |
| 383028 | enst00000409120 | sg00000143951 | wdpcp-203 | 2 | 63121814 | 63443230 | - | mRNA | protein_coding |
| -385408 | enst00000449820 | sg00000115504 | ehbp1-211 | 2 | 62673878 | 62858416 | + | mRNA | protein_coding |
| -385408 | enst00000426940 | sg00000115504 | ehbp1-207 | 2 | 62673878 | 62826258 | + | mRNA | protein_coding |
| -385408 | enst00000413434 | sg00000115504 | ehbp1-205 | 2 | 62673878 | 62826195 | + | mRNA | protein_coding |
| -385435 | enst00000405015 | sg00000115504 | ehbp1-202 | 2 | 62673851 | 63045597 | + | mRNA | protein_coding |
| -396457 | enst00000670260 | sg00000226622 | ac092155.1-231 | 2 | 62611760 | 62662829 | - | lnc_RNA | lncrna |
| -396467 | enst00000654251 | sg00000226622 | ac092155.1-230 | 2 | 62611776 | 62662819 | - | lnc_RNA | lncrna |
| -396537 | enst00000659893 | sg00000226622 | ac092155.1-206 | 2 | 62611864 | 62662749 | - | lnc_RNA | lncrna |
| -396622 | enst00000657052 | sg00000226622 | ac092155.1-223 | 2 | 62611863 | 62662664 | - | lnc_RNA | lncrna |
| -396629 | enst00000664144 | sg00000226622 | ac092155.1-218 | 2 | 62611768 | 62662657 | - | lnc_RNA | lncrna |
| -396629 | enst00000656395 | sg00000226622 | ac092155.1-217 | 2 | 62611770 | 62662657 | - | lnc_RNA | lncrna |
| -396632 | enst00000664749 | sg00000226622 | ac092155.1-233 | 2 | 62533681 | 62662654 | - | lnc_RNA | lncrna |
| -396632 | enst00000444672 | sg00000226622 | ac092155.1-201 | 2 | 62589522 | 62662654 | - | lnc_RNA | lncrna |
| -396632 | enst00000664816 | sg00000226622 | ac092155.1-212 | 2 | 62611866 | 62662654 | - | lnc_RNA | lncrna |
| -396634 | enst00000668862 | sg00000226622 | ac092155.1-205 | 2 | 62611869 | 62662652 | - | lnc_RNA | lncrna |
| -396637 | enst00000653757 | sg00000226622 | ac092155.1-211 | 2 | 62611867 | 62662649 | - | lnc_RNA | lncrna |
| -396637 | enst00000662774 | sg00000226622 | ac092155.1-222 | 2 | 62611871 | 62662649 | - | lnc_RNA | lncrna |
| -396647 | enst00000657674 | sg00000226622 | ac092155.1-210 | 2 | 62611868 | 62662639 | - | lnc_RNA | lncrna |
| -396648 | enst00000665285 | sg00000226622 | ac092155.1-214 | 2 | 62611874 | 62662638 | - | lnc_RNA | lncrna |
| -396655 | enst00000656978 | sg00000226622 | ac092155.1-213 | 2 | 62611871 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000657352 | sg00000226622 | ac092155.1-215 | 2 | 62611864 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000671367 | sg00000226622 | ac092155.1-209 | 2 | 62587366 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000663494 | sg00000226622 | ac092155.1-229 | 2 | 62611864 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000668502 | sg00000226622 | ac092155.1-221 | 2 | 62611865 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000416111 | sg00000226622 | ac092155.1-224 | 2 | 62611866 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000671204 | sg00000226622 | ac092155.1-204 | 2 | 62611866 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000668814 | sg00000226622 | ac092155.1-225 | 2 | 62577690 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000652843 | sg00000226622 | ac092155.1-220 | 2 | 62611868 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000671180 | sg00000226622 | ac092155.1-202 | 2 | 62611775 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000660725 | sg00000226622 | ac092155.1-208 | 2 | 62611869 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000663301 | sg00000226622 | ac092155.1-216 | 2 | 62611869 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000665118 | sg00000226622 | ac092155.1-203 | 2 | 62611869 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000667559 | sg00000226622 | ac092155.1-219 | 2 | 62611869 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000655358 | sg00000226622 | ac092155.1-207 | 2 | 62611871 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000663236 | sg00000226622 | ac092155.1-226 | 2 | 62611871 | 62662631 | - | lnc_RNA | lncrna |
| -396655 | enst00000656277 | sg00000226622 | ac092155.1-228 | 2 | 62611869 | 62662631 | - | lnc_RNA | lncrna |
| -396661 | enst00000660313 | sg00000226622 | ac092155.1-227 | 2 | 62611874 | 62662625 | - | lnc_RNA | lncrna |
| 417732 | enst00000409199 | sg00000143951 | wdpcp-204 | 2 | 63121402 | 63477934 | - | mRNA | protein_coding |
| 424487 | enst00000493315 | sg00000143951 | wdpcp-217 | 2 | 63403709 | 63484689 | - | lnc_RNA | retained_intron |
| -446614 | enst00000663524 | sg00000226622 | ac092155.1-232 | 2 | 62611873 | 62612672 | - | lnc_RNA | lncrna |
| 459066 | enst00000624325 | sg00000279485 | ac016734.2-201 | 2 | 63517892 | 63519268 | - | unconfirmed_transcript | tec |
| -497863 | enst00000445584 | sg00000230595 | rsl24d1p2-201 | 2 | 62561058 | 62561423 | - | pseudogenic_transcript | processed_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