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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 |
|---|---|---|---|---|---|---|---|---|
| #22 | 7 | 155453612 | 155455178 | 1566 | 3 | 60 | 1.26161e-26 | 5.70305e-24 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| 1921 | enst00000419225 | sg00000236544 | ac008060.3-201 | 7 | 155421206 | 155457099 | - | lnc_RNA | lncrna |
| 2951 | enst00000297375 | sg00000164778 | en2-201 | 7 | 155458129 | 155464831 | + | mRNA | protein_coding |
| 28110 | enst00000655408 | sg00000283128 | ac009403.2-210 | 7 | 155477591 | 155483288 | - | lnc_RNA | lncrna |
| 28386 | enst00000665863 | sg00000283128 | ac009403.2-212 | 7 | 155481597 | 155483564 | - | lnc_RNA | lncrna |
| 28824 | enst00000665551 | sg00000283128 | ac009403.2-206 | 7 | 155477147 | 155484002 | - | lnc_RNA | lncrna |
| 28827 | enst00000663632 | sg00000283128 | ac009403.2-208 | 7 | 155477230 | 155484005 | - | lnc_RNA | lncrna |
| 28834 | enst00000668710 | sg00000283128 | ac009403.2-205 | 7 | 155477144 | 155484012 | - | lnc_RNA | lncrna |
| 28835 | enst00000668772 | sg00000283128 | ac009403.2-209 | 7 | 155477571 | 155484013 | - | lnc_RNA | lncrna |
| 28835 | enst00000661828 | sg00000283128 | ac009403.2-207 | 7 | 155477222 | 155484013 | - | lnc_RNA | lncrna |
| 28856 | enst00000654860 | sg00000283128 | ac009403.2-211 | 7 | 155480929 | 155484034 | - | lnc_RNA | lncrna |
| -41016 | enst00000660995 | sg00000288051 | ac008060.5-201 | 7 | 155412596 | 155421884 | + | lnc_RNA | lncrna |
| -53690 | enst00000569431 | sg00000260426 | ac008060.4-201 | 7 | 155399922 | 155401782 | + | lnc_RNA | lncrna |
| 55105 | enst00000415333 | sg00000227365 | ac008060.2-201 | 7 | 155510283 | 155518623 | + | lnc_RNA | lncrna |
| -71536 | enst00000401499 | sg00000218672 | ac008060.1-201 | 7 | 155382076 | 155396356 | + | lnc_RNA | lncrna |
| 78660 | enst00000406197 | sg00000146910 | cnpy1-202 | 7 | 155474206 | 155533838 | - | mRNA | protein_coding |
| 78684 | enst00000321736 | sg00000146910 | cnpy1-201 | 7 | 155501132 | 155533862 | - | mRNA | protein_coding |
| 79786 | enst00000655870 | sg00000287610 | ac009403.3-201 | 7 | 155534964 | 155536825 | + | lnc_RNA | lncrna |
| -85678 | enst00000378120 | sg00000204960 | blace-201 | 7 | 155356985 | 155367934 | - | lnc_RNA | lncrna |
| 91381 | enst00000636446 | sg00000146910 | cnpy1-204 | 7 | 155502014 | 155546559 | - | mRNA | protein_coding |
| -95433 | enst00000616210 | sg00000204960 | blace-202 | 7 | 155357640 | 155358179 | - | lnc_RNA | lncrna |
| 100272 | enst00000636372 | sg00000146910 | cnpy1-203 | 7 | 155502014 | 155555450 | - | mRNA | protein_coding |
| 130368 | enst00000635903 | sg00000283128 | ac009403.2-201 | 7 | 155474256 | 155585546 | - | lnc_RNA | lncrna |
| -152005 | enst00000468307 | sg00000186480 | insig1-205 | 7 | 155301607 | 155303018 | + | lnc_RNA | retained_intron |
| -155051 | enst00000476756 | sg00000186480 | insig1-206 | 7 | 155298561 | 155308960 | + | mRNA | protein_coding |
| -155723 | enst00000342407 | sg00000186480 | insig1-202 | 7 | 155297889 | 155308757 | + | mRNA | protein_coding |
| -155734 | enst00000340368 | sg00000186480 | insig1-201 | 7 | 155297878 | 155310235 | + | mRNA | protein_coding |
| -155783 | enst00000425172 | sg00000186480 | insig1-204 | 7 | 155297829 | 155298655 | + | mRNA | protein_coding |
| -155836 | enst00000344756 | sg00000186480 | insig1-203 | 7 | 155297776 | 155310233 | + | mRNA | protein_coding |
| -156071 | enst00000609974 | sg00000273117 | ac144652.1-201 | 7 | 155295918 | 155297541 | - | lnc_RNA | lncrna |
| -186441 | enst00000660943 | sg00000225612 | ac099552.2-202 | 7 | 155267171 | 155270912 | + | lnc_RNA | lncrna |
| -186457 | enst00000418523 | sg00000225612 | ac099552.2-201 | 7 | 155267155 | 155268074 | + | lnc_RNA | lncrna |
| -186475 | enst00000664122 | sg00000225612 | ac099552.2-203 | 7 | 155267137 | 155268072 | + | lnc_RNA | lncrna |
| 189008 | enst00000637398 | sg00000283128 | ac009403.2-204 | 7 | 155501298 | 155644186 | - | lnc_RNA | lncrna |
| 189199 | enst00000460022 | sg00000216895 | ac009403.1-202 | 7 | 155641916 | 155644377 | - | lnc_RNA | lncrna |
| 189218 | enst00000635770 | sg00000283128 | ac009403.2-203 | 7 | 155501147 | 155644396 | - | lnc_RNA | lncrna |
| 189223 | enst00000401694 | sg00000216895 | ac009403.1-201 | 7 | 155611231 | 155644401 | - | lnc_RNA | lncrna |
| 189228 | enst00000636307 | sg00000283128 | ac009403.2-202 | 7 | 155500581 | 155644406 | - | lnc_RNA | lncrna |
| 189228 | enst00000469539 | sg00000216895 | ac009403.1-204 | 7 | 155643201 | 155644406 | - | lnc_RNA | lncrna |
| 189228 | enst00000474963 | sg00000216895 | ac009403.1-203 | 7 | 155643084 | 155644406 | - | lnc_RNA | lncrna |
| 189273 | enst00000287912 | sg00000184863 | rbm33-201 | 7 | 155644451 | 155701183 | + | mRNA | protein_coding |
| 189483 | enst00000401878 | sg00000184863 | rbm33-207 | 7 | 155644661 | 155781480 | + | mRNA | protein_coding |
| 189524 | enst00000392759 | sg00000184863 | rbm33-205 | 7 | 155644702 | 155701490 | + | mRNA | protein_coding |
| 190027 | enst00000472015 | sg00000216895 | ac009403.1-205 | 7 | 155643468 | 155645205 | - | lnc_RNA | lncrna |
| 217702 | enst00000307403 | sg00000184863 | rbm33-202 | 7 | 155672880 | 155745720 | + | mRNA | nonsense_mediated_decay |
| 225491 | enst00000440108 | sg00000184863 | rbm33-209 | 7 | 155680669 | 155737593 | + | mRNA | protein_coding |
| -230709 | enst00000624248 | sg00000278998 | ac099552.4-201 | 7 | 155222903 | 155223851 | + | unconfirmed_transcript | tec |
| -239692 | enst00000663395 | sg00000287865 | ac099552.5-201 | 7 | 155213920 | 155217134 | + | lnc_RNA | lncrna |
| 245713 | enst00000392761 | sg00000184863 | rbm33-206 | 7 | 155700891 | 155766896 | + | mRNA | protein_coding |
| -249465 | enst00000454149 | sg00000228521 | ac099552.3-201 | 7 | 155204147 | 155205189 | + | lnc_RNA | lncrna |
| 251636 | enst00000486747 | sg00000184863 | rbm33-210 | 7 | 155706814 | 155718435 | + | lnc_RNA | processed_transcript |
| -255157 | enst00000431083 | sg00000217825 | ac099552.1-201 | 7 | 155196563 | 155198455 | - | lnc_RNA | lncrna |
| -255176 | enst00000404289 | sg00000217825 | ac099552.1-202 | 7 | 155196687 | 155198436 | - | lnc_RNA | lncrna |
| -271731 | enst00000364196 | sg00000201066 | rn7skp280-201 | 7 | 155181881 | 155182184 | + | ncRNA | misc_rna |
| 291241 | enst00000438356 | sg00000184863 | rbm33-208 | 7 | 155746419 | 155766556 | + | mRNA | protein_coding |
| 291408 | enst00000341148 | sg00000184863 | rbm33-203 | 7 | 155746586 | 155781485 | + | mRNA | protein_coding |
| 311378 | enst00000392755 | sg00000184863 | rbm33-204 | 7 | 155766556 | 155775460 | + | mRNA | protein_coding |
| -347212 | enst00000436250 | sg00000228806 | ac092628.1-201 | 7 | 155106400 | 155106651 | + | pseudogenic_transcript | unprocessed_pseudogene |
| -347212 | enst00000622492 | sg00000274637 | ac092628.2-201 | 7 | 155106062 | 155106400 | - | pseudogenic_transcript | unprocessed_pseudogene |
| 352192 | enst00000472308 | sg00000164690 | shh-205 | 7 | 155806582 | 155807370 | - | lnc_RNA | processed_transcript |
| 353894 | enst00000430104 | sg00000164690 | shh-202 | 7 | 155800040 | 155809072 | - | mRNA | protein_coding |
| 353894 | enst00000441114 | sg00000164690 | shh-204 | 7 | 155800039 | 155809072 | - | mRNA | nonsense_mediated_decay |
| 353894 | enst00000435425 | sg00000164690 | shh-203 | 7 | 155800050 | 155809072 | - | mRNA | nonsense_mediated_decay |
| 357285 | enst00000297261 | sg00000164690 | shh-201 | 7 | 155799980 | 155812463 | - | mRNA | protein_coding |
| -376474 | enst00000486819 | sg00000157219 | htr5a-202 | 7 | 155077138 | 155084615 | + | lnc_RNA | processed_transcript |
| -379013 | enst00000637588 | sg00000283339 | ac093726.3-201 | 7 | 155074599 | 155074748 | + | pseudogenic_transcript | unprocessed_pseudogene |
| -381162 | enst00000671665 | sg00000220575 | htr5a-as1-204 | 7 | 155067034 | 155072450 | - | lnc_RNA | lncrna |
| -381908 | enst00000655797 | sg00000220575 | htr5a-as1-203 | 7 | 155067086 | 155071704 | - | lnc_RNA | lncrna |
| -382028 | enst00000493904 | sg00000220575 | htr5a-as1-202 | 7 | 155068619 | 155071584 | - | lnc_RNA | lncrna |
| -382055 | enst00000395731 | sg00000220575 | htr5a-as1-201 | 7 | 155067067 | 155071557 | - | lnc_RNA | lncrna |
| -382185 | enst00000649716 | sg00000157219 | htr5a-203 | 7 | 155071427 | 155085771 | + | mRNA | nonsense_mediated_decay |
| -383288 | enst00000287907 | sg00000157219 | htr5a-201 | 7 | 155070324 | 155087392 | + | mRNA | protein_coding |
| -450164 | enst00000608317 | sg00000273344 | paxip1-as1-201 | 7 | 155003448 | 155005703 | + | lnc_RNA | lncrna |
| -450488 | enst00000404141 | sg00000157212 | paxip1-202 | 7 | 154943690 | 155003124 | - | mRNA | protein_coding |
| -450528 | enst00000457196 | sg00000157212 | paxip1-204 | 7 | 154943687 | 155003084 | - | mRNA | nonsense_mediated_decay |
| -450640 | enst00000397192 | sg00000157212 | paxip1-201 | 7 | 154943691 | 155002972 | - | mRNA | protein_coding |
| -450701 | enst00000419436 | sg00000157212 | paxip1-203 | 7 | 154976123 | 155002911 | - | mRNA | protein_coding |
| -451512 | enst00000473219 | sg00000157212 | paxip1-206 | 7 | 154943784 | 155002100 | - | lnc_RNA | processed_transcript |
| -469868 | enst00000475066 | sg00000157212 | paxip1-207 | 7 | 154967320 | 154983744 | - | lnc_RNA | retained_intron |
| -478989 | enst00000494182 | sg00000157212 | paxip1-209 | 7 | 154969049 | 154974623 | - | lnc_RNA | processed_transcript |
| -487902 | enst00000464717 | sg00000157212 | paxip1-205 | 7 | 154943689 | 154965710 | - | lnc_RNA | retained_intron |
| -490917 | enst00000485730 | sg00000157212 | paxip1-208 | 7 | 154961049 | 154962695 | - | lnc_RNA | retained_intron |
| -497183 | enst00000609134 | sg00000273183 | ac093726.2-201 | 7 | 154956429 | 154957107 | + | 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