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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 |
|---|---|---|---|---|---|---|---|---|
| #160 | 11 | 113314191 | 113315414 | 1223 | 3 | 40 | 3.59948e-15 | 2.2373e-13 |
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 | enst00000524580 | sg00000149292 | ttc12-214 | 11 | 113315056 | 113339439 | + | mRNA | protein_coding |
| 0 | enst00000489064 | sg00000149292 | ttc12-211 | 11 | 113315064 | 113324210 | + | lnc_RNA | retained_intron |
| 0 | enst00000455306 | sg00000149292 | ttc12-205 | 11 | 113314854 | 113329977 | + | mRNA | protein_coding |
| 0 | enst00000494714 | sg00000149292 | ttc12-212 | 11 | 113314607 | 113373297 | + | mRNA | nonsense_mediated_decay |
| 0 | enst00000464224 | sg00000149292 | ttc12-207 | 11 | 113314602 | 113366386 | + | mRNA | nonsense_mediated_decay |
| 0 | enst00000525965 | sg00000149292 | ttc12-215 | 11 | 113314591 | 113340733 | + | mRNA | protein_coding |
| 0 | enst00000529850 | sg00000149292 | ttc12-220 | 11 | 113314583 | 113338800 | + | mRNA | protein_coding |
| 0 | enst00000531164 | sg00000149292 | ttc12-221 | 11 | 113314583 | 113338785 | + | mRNA | protein_coding |
| 0 | enst00000442859 | sg00000149292 | ttc12-204 | 11 | 113314579 | 113338803 | + | mRNA | protein_coding |
| 0 | enst00000429951 | sg00000149292 | ttc12-203 | 11 | 113314579 | 113324682 | + | mRNA | protein_coding |
| 0 | enst00000529221 | sg00000149292 | ttc12-219 | 11 | 113314529 | 113366392 | + | mRNA | protein_coding |
| 0 | enst00000533504 | sg00000255129 | ap000880.1-203 | 11 | 113279383 | 113314437 | - | lnc_RNA | lncrna |
| 0 | enst00000526487 | sg00000255129 | ap000880.1-202 | 11 | 113278250 | 113314482 | - | lnc_RNA | lncrna |
| 0 | enst00000393020 | sg00000149292 | ttc12-202 | 11 | 113314811 | 113383544 | + | mRNA | protein_coding |
| 825 | enst00000314756 | sg00000149292 | ttc12-201 | 11 | 113316239 | 113373294 | + | mRNA | protein_coding |
| 827 | enst00000483239 | sg00000149292 | ttc12-210 | 11 | 113316241 | 113366387 | + | mRNA | protein_coding |
| 827 | enst00000527781 | sg00000149292 | ttc12-218 | 11 | 113316241 | 113325703 | + | lnc_RNA | retained_intron |
| 10195 | enst00000527362 | sg00000149292 | ttc12-217 | 11 | 113325609 | 113360008 | + | mRNA | nonsense_mediated_decay |
| 14316 | enst00000525989 | sg00000149292 | ttc12-216 | 11 | 113329730 | 113338813 | + | lnc_RNA | retained_intron |
| 19613 | enst00000534793 | sg00000149292 | ttc12-222 | 11 | 113335027 | 113339555 | + | lnc_RNA | retained_intron |
| 26241 | enst00000478125 | sg00000149292 | ttc12-208 | 11 | 113341655 | 113359997 | + | lnc_RNA | processed_transcript |
| -30201 | enst00000529416 | sg00000255129 | ap000880.1-201 | 11 | 113278437 | 113283990 | - | lnc_RNA | lncrna |
| -40159 | enst00000533638 | sg00000227487 | ncam1-as1-202 | 11 | 113266139 | 113274032 | - | lnc_RNA | lncrna |
| -40226 | enst00000662696 | sg00000227487 | ncam1-as1-204 | 11 | 113265137 | 113273965 | - | lnc_RNA | lncrna |
| -40290 | enst00000526229 | sg00000227487 | ncam1-as1-201 | 11 | 113269719 | 113273901 | - | lnc_RNA | lncrna |
| -40330 | enst00000661168 | sg00000227487 | ncam1-as1-203 | 11 | 113267867 | 113273861 | - | lnc_RNA | lncrna |
| -44222 | enst00000533226 | sg00000149294 | ncam1-216 | 11 | 113269969 | 113275282 | + | lnc_RNA | retained_intron |
| 47038 | enst00000462711 | sg00000149292 | ttc12-206 | 11 | 113362452 | 113371541 | + | mRNA | nonsense_mediated_decay |
| 48967 | enst00000480233 | sg00000149292 | ttc12-209 | 11 | 113364381 | 113366387 | + | lnc_RNA | processed_transcript |
| 49370 | enst00000496311 | sg00000149292 | ttc12-213 | 11 | 113364784 | 113366386 | + | lnc_RNA | retained_intron |
| 53064 | enst00000602900 | sg00000270179 | ap002840.2-201 | 11 | 113368478 | 113369117 | + | lnc_RNA | lncrna |
| -54010 | enst00000528158 | sg00000149294 | ncam1-208 | 11 | 113260181 | 113275740 | + | mRNA | protein_coding |
| -54100 | enst00000530090 | sg00000149294 | ncam1-211 | 11 | 113260091 | 113263177 | + | lnc_RNA | retained_intron |
| -58241 | enst00000524916 | sg00000149294 | ncam1-203 | 11 | 113255950 | 113263174 | + | mRNA | protein_coding |
| -68083 | enst00000534516 | sg00000149294 | ncam1-218 | 11 | 113246108 | 113260317 | + | lnc_RNA | retained_intron |
| 72365 | enst00000303941 | sg00000170209 | ankk1-201 | 11 | 113387779 | 113400416 | + | mRNA | protein_coding |
| -73684 | enst00000525691 | sg00000149294 | ncam1-205 | 11 | 113240507 | 113260275 | + | lnc_RNA | retained_intron |
| 78219 | enst00000542948 | sg00000170209 | ankk1-202 | 11 | 113393633 | 113396174 | + | mRNA | nonsense_mediated_decay |
| -80933 | enst00000525355 | sg00000149294 | ncam1-204 | 11 | 113233258 | 113260387 | + | lnc_RNA | retained_intron |
| -81044 | enst00000528590 | sg00000149294 | ncam1-209 | 11 | 113233147 | 113275448 | + | mRNA | protein_coding |
| -81396 | enst00000533073 | sg00000149294 | ncam1-215 | 11 | 113232795 | 113275963 | + | mRNA | protein_coding |
| -81398 | enst00000531817 | sg00000149294 | ncam1-214 | 11 | 113232793 | 113263293 | + | mRNA | nonsense_mediated_decay |
| -81866 | enst00000526322 | sg00000149294 | ncam1-207 | 11 | 113232325 | 113263267 | + | mRNA | protein_coding |
| -81929 | enst00000530543 | sg00000149294 | ncam1-212 | 11 | 113232262 | 113260198 | + | mRNA | protein_coding |
| -82811 | enst00000534046 | sg00000149294 | ncam1-217 | 11 | 113231380 | 113232748 | + | lnc_RNA | retained_intron |
| 89907 | enst00000546284 | sg00000256757 | ap002840.1-201 | 11 | 113405321 | 113412117 | + | lnc_RNA | lncrna |
| 102703 | enst00000539420 | sg00000149295 | drd2-205 | 11 | 113415294 | 113418117 | - | lnc_RNA | retained_intron |
| 109093 | enst00000535984 | sg00000149295 | drd2-203 | 11 | 113414375 | 113424507 | - | lnc_RNA | processed_transcript |
| 109237 | enst00000538967 | sg00000149295 | drd2-204 | 11 | 113410572 | 113424651 | - | mRNA | protein_coding |
| 109270 | enst00000544518 | sg00000149295 | drd2-210 | 11 | 113409616 | 113424684 | - | mRNA | protein_coding |
| 109558 | enst00000542968 | sg00000149295 | drd2-208 | 11 | 113409913 | 113424972 | - | mRNA | protein_coding |
| 132307 | enst00000543292 | sg00000149295 | drd2-209 | 11 | 113416863 | 113447721 | - | mRNA | protein_coding |
| 134674 | enst00000577203 | sg00000265140 | mir4301-201 | 11 | 113450023 | 113450088 | - | miRNA | mirna |
| 159706 | enst00000346454 | sg00000149295 | drd2-201 | 11 | 113409615 | 113475120 | - | mRNA | protein_coding |
| 159865 | enst00000542616 | sg00000149295 | drd2-207 | 11 | 113424630 | 113475279 | - | mRNA | protein_coding |
| 159984 | enst00000362072 | sg00000149295 | drd2-202 | 11 | 113409605 | 113475398 | - | mRNA | protein_coding |
| 160277 | enst00000540600 | sg00000149295 | drd2-206 | 11 | 113413864 | 113475691 | - | lnc_RNA | retained_intron |
| -181263 | enst00000611284 | sg00000149294 | ncam1-219 | 11 | 113132928 | 113275564 | + | lnc_RNA | processed_transcript |
| -183497 | enst00000525973 | sg00000149294 | ncam1-206 | 11 | 113130694 | 113205666 | + | lnc_RNA | processed_transcript |
| -336838 | enst00000458985 | sg00000238998 | rnu7-187p-201 | 11 | 112977353 | 112977420 | + | snRNA | snrna |
| -350731 | enst00000500537 | sg00000247416 | ap000802.1-201 | 11 | 112959279 | 112963460 | - | lnc_RNA | lncrna |
| -350783 | enst00000532002 | sg00000247416 | ap000802.1-203 | 11 | 112959300 | 112963408 | - | lnc_RNA | lncrna |
| -351608 | enst00000654875 | sg00000247416 | ap000802.1-204 | 11 | 112959329 | 112962583 | - | lnc_RNA | lncrna |
| -352229 | enst00000649843 | sg00000247416 | ap000802.1-202 | 11 | 112959535 | 112961962 | - | lnc_RNA | lncrna |
| -352711 | enst00000621850 | sg00000149294 | ncam1-230 | 11 | 112961480 | 113263293 | + | mRNA | protein_coding |
| -352752 | enst00000615525 | sg00000149294 | ncam1-223 | 11 | 112961439 | 113133951 | + | lnc_RNA | processed_transcript |
| -352754 | enst00000529356 | sg00000149294 | ncam1-210 | 11 | 112961437 | 113221903 | + | mRNA | protein_coding |
| -352755 | enst00000531044 | sg00000149294 | ncam1-213 | 11 | 112961436 | 113275489 | + | mRNA | protein_coding |
| -352756 | enst00000620046 | sg00000149294 | ncam1-227 | 11 | 112961435 | 113270239 | + | mRNA | protein_coding |
| -352766 | enst00000617166 | sg00000149294 | ncam1-224 | 11 | 112961425 | 113041216 | + | lnc_RNA | processed_transcript |
| -352789 | enst00000613217 | sg00000149294 | ncam1-220 | 11 | 112961402 | 113232222 | + | mRNA | protein_coding |
| -352789 | enst00000316851 | sg00000149294 | ncam1-201 | 11 | 112961402 | 113278436 | + | mRNA | protein_coding |
| -352823 | enst00000401611 | sg00000149294 | ncam1-202 | 11 | 112961368 | 113263012 | + | mRNA | protein_coding |
| -352823 | enst00000621128 | sg00000149294 | ncam1-228 | 11 | 112961368 | 113265197 | + | mRNA | protein_coding |
| -352916 | enst00000619839 | sg00000149294 | ncam1-226 | 11 | 112961275 | 113275387 | + | mRNA | protein_coding |
| -352944 | enst00000621518 | sg00000149294 | ncam1-229 | 11 | 112961247 | 113265195 | + | mRNA | protein_coding |
| -352944 | enst00000615112 | sg00000149294 | ncam1-221 | 11 | 112961247 | 113278411 | + | mRNA | protein_coding |
| -352944 | enst00000615285 | sg00000149294 | ncam1-222 | 11 | 112961247 | 113278411 | + | mRNA | protein_coding |
| -352944 | enst00000618266 | sg00000149294 | ncam1-225 | 11 | 112961247 | 113278411 | + | mRNA | protein_coding |
| 378323 | enst00000545265 | sg00000166682 | tmprss5-210 | 11 | 113690230 | 113693737 | - | lnc_RNA | processed_transcript |
| 379000 | enst00000545412 | sg00000166682 | tmprss5-211 | 11 | 113690952 | 113694414 | - | lnc_RNA | processed_transcript |
| 390888 | enst00000538770 | sg00000166682 | tmprss5-204 | 11 | 113693226 | 113706302 | - | mRNA | protein_coding |
| 390888 | enst00000539732 | sg00000166682 | tmprss5-206 | 11 | 113693207 | 113706302 | - | mRNA | protein_coding |
| 390888 | enst00000544634 | sg00000166682 | tmprss5-209 | 11 | 113687981 | 113706302 | - | mRNA | protein_coding |
| 390892 | enst00000536856 | sg00000166682 | tmprss5-202 | 11 | 113687550 | 113706306 | - | mRNA | protein_coding |
| 390894 | enst00000299882 | sg00000166682 | tmprss5-201 | 11 | 113687550 | 113706308 | - | mRNA | protein_coding |
| 390894 | enst00000538091 | sg00000166682 | tmprss5-203 | 11 | 113698838 | 113706308 | - | mRNA | nonsense_mediated_decay |
| 390894 | enst00000544476 | sg00000166682 | tmprss5-208 | 11 | 113688088 | 113706308 | - | mRNA | protein_coding |
| 390929 | enst00000540540 | sg00000166682 | tmprss5-207 | 11 | 113687550 | 113706343 | - | mRNA | protein_coding |
| 390932 | enst00000645981 | sg00000166682 | tmprss5-213 | 11 | 113687697 | 113706346 | - | mRNA | nonsense_mediated_decay |
| 390932 | enst00000538955 | sg00000166682 | tmprss5-205 | 11 | 113687697 | 113706346 | - | mRNA | protein_coding |
| 390959 | enst00000545579 | sg00000166682 | tmprss5-212 | 11 | 113687547 | 113706373 | - | mRNA | protein_coding |
| 396306 | enst00000321235 | sg00000256091 | mtrf1lp1-201 | 11 | 113711720 | 113712398 | + | pseudogenic_transcript | processed_pseudogene |
| 435872 | enst00000479709 | sg00000243353 | rps29p19-201 | 11 | 113751116 | 113751286 | - | pseudogenic_transcript | processed_pseudogene |
| 454246 | enst00000397185 | sg00000257070 | ap003170.5-201 | 11 | 113769660 | 113769994 | + | pseudogenic_transcript | processed_pseudogene |
| 456277 | enst00000543486 | sg00000256603 | ap003170.4-201 | 11 | 113770393 | 113771691 | - | lnc_RNA | lncrna |
| 458277 | enst00000535142 | sg00000086827 | zw10-202 | 11 | 113733275 | 113773691 | - | mRNA | nonsense_mediated_decay |
| 458278 | enst00000200135 | sg00000086827 | zw10-201 | 11 | 113733187 | 113773692 | - | mRNA | protein_coding |
| 458321 | enst00000538209 | sg00000086827 | zw10-203 | 11 | 113747640 | 113773735 | - | mRNA | nonsense_mediated_decay |
| 464333 | enst00000453129 | sg00000228607 | cldn25-201 | 11 | 113779747 | 113780500 | + | mRNA | protein_coding |
| 473817 | enst00000393544 | sg00000256167 | atf4p4-201 | 11 | 113789231 | 113791160 | + | lnc_RNA | processed_transcript |
| 473828 | enst00000544730 | sg00000255870 | ap003170.2-201 | 11 | 113789242 | 113790027 | + | pseudogenic_transcript | processed_pseudogene |
| 474904 | enst00000438498 | sg00000256167 | atf4p4-202 | 11 | 113790318 | 113791366 | + | pseudogenic_transcript | transcribed_processed_pseudogene |
| 476052 | enst00000546055 | sg00000257101 | lrrc37a13p-201 | 11 | 113791466 | 113791752 | + | pseudogenic_transcript | processed_pseudogene |
| -479067 | enst00000669768 | sg00000288070 | ac016902.1-201 | 11 | 112822806 | 112835124 | - | lnc_RNA | lncrna |
| 486287 | enst00000544272 | sg00000048028 | usp28-211 | 11 | 113798979 | 113801701 | - | lnc_RNA | retained_intron |
| 493761 | enst00000538224 | sg00000048028 | usp28-206 | 11 | 113804928 | 113809175 | - | mRNA | protein_coding |
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