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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 |
|---|---|---|---|---|---|---|---|---|
| #36 | 22 | 27796653 | 27799585 | 2932 | 3 | 97 | 1.67206e-23 | 4.61908e-21 |
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 | enst00000424656 | sg00000169184 | mn1-202 | 22 | 27750064 | 27796896 | - | mRNA | nonsense_mediated_decay |
| 2171 | enst00000302326 | sg00000169184 | mn1-201 | 22 | 27748277 | 27801756 | - | mRNA | protein_coding |
| -4770 | enst00000497225 | sg00000169184 | mn1-203 | 22 | 27750678 | 27791883 | - | lnc_RNA | processed_transcript |
| 61030 | enst00000493007 | sg00000180957 | pitpnb-210 | 22 | 27858431 | 27860615 | - | lnc_RNA | retained_intron |
| -80173 | enst00000417957 | sg00000226169 | al121885.1-201 | 22 | 27716480 | 27721677 | + | lnc_RNA | lncrna |
| -81683 | enst00000440255 | sg00000227838 | al121885.2-201 | 22 | 27676559 | 27714970 | - | lnc_RNA | lncrna |
| -89073 | enst00000422833 | sg00000231495 | al121885.3-201 | 22 | 27707580 | 27709931 | + | lnc_RNA | lncrna |
| 97117 | enst00000465179 | sg00000180957 | pitpnb-207 | 22 | 27894161 | 27896702 | - | lnc_RNA | retained_intron |
| 98488 | enst00000477861 | sg00000180957 | pitpnb-209 | 22 | 27854906 | 27898073 | - | lnc_RNA | retained_intron |
| 119614 | enst00000634017 | sg00000180957 | pitpnb-211 | 22 | 27853579 | 27919199 | - | mRNA | protein_coding |
| 119629 | enst00000436663 | sg00000180957 | pitpnb-204 | 22 | 27873775 | 27919214 | - | mRNA | protein_coding |
| 119659 | enst00000471825 | sg00000180957 | pitpnb-208 | 22 | 27910448 | 27919244 | - | lnc_RNA | retained_intron |
| 119670 | enst00000320996 | sg00000180957 | pitpnb-201 | 22 | 27851670 | 27919255 | - | mRNA | protein_coding |
| 119671 | enst00000460566 | sg00000180957 | pitpnb-206 | 22 | 27896900 | 27919256 | - | lnc_RNA | retained_intron |
| 119671 | enst00000335272 | sg00000180957 | pitpnb-202 | 22 | 27851669 | 27919256 | - | mRNA | protein_coding |
| 119721 | enst00000455418 | sg00000180957 | pitpnb-205 | 22 | 27851670 | 27919306 | - | mRNA | protein_coding |
| 119791 | enst00000430853 | sg00000235954 | ttc28-as1-209 | 22 | 27919376 | 27993292 | + | lnc_RNA | lncrna |
| 119799 | enst00000614690 | sg00000277460 | al031591.2-201 | 22 | 27919384 | 27919545 | + | ncRNA | misc_rna |
| 119803 | enst00000662329 | sg00000235954 | ttc28-as1-226 | 22 | 27919388 | 27924916 | + | lnc_RNA | lncrna |
| 119803 | enst00000417497 | sg00000235954 | ttc28-as1-202 | 22 | 27919388 | 28002595 | + | lnc_RNA | lncrna |
| 119803 | enst00000434221 | sg00000235954 | ttc28-as1-211 | 22 | 27919388 | 28002612 | + | lnc_RNA | lncrna |
| 119807 | enst00000424161 | sg00000235954 | ttc28-as1-204 | 22 | 27919392 | 28002588 | + | lnc_RNA | lncrna |
| 119816 | enst00000419253 | sg00000235954 | ttc28-as1-203 | 22 | 27919401 | 27986392 | + | lnc_RNA | lncrna |
| 119836 | enst00000454741 | sg00000235954 | ttc28-as1-217 | 22 | 27919421 | 28002679 | + | lnc_RNA | lncrna |
| 119838 | enst00000665376 | sg00000235954 | ttc28-as1-231 | 22 | 27919423 | 28002640 | + | lnc_RNA | lncrna |
| 119838 | enst00000659843 | sg00000235954 | ttc28-as1-225 | 22 | 27919423 | 28002641 | + | lnc_RNA | lncrna |
| 119838 | enst00000453632 | sg00000235954 | ttc28-as1-216 | 22 | 27919423 | 28002588 | + | lnc_RNA | lncrna |
| 119841 | enst00000437713 | sg00000235954 | ttc28-as1-214 | 22 | 27919426 | 27924963 | + | lnc_RNA | lncrna |
| 119844 | enst00000662682 | sg00000235954 | ttc28-as1-228 | 22 | 27919429 | 28002588 | + | lnc_RNA | lncrna |
| 119848 | enst00000655332 | sg00000235954 | ttc28-as1-224 | 22 | 27919433 | 28002588 | + | lnc_RNA | lncrna |
| 119852 | enst00000436996 | sg00000235954 | ttc28-as1-213 | 22 | 27919437 | 27922570 | + | lnc_RNA | retained_intron |
| 119853 | enst00000665505 | sg00000235954 | ttc28-as1-232 | 22 | 27919438 | 28002636 | + | lnc_RNA | lncrna |
| 119855 | enst00000454996 | sg00000235954 | ttc28-as1-218 | 22 | 27919440 | 27986379 | + | lnc_RNA | lncrna |
| 119872 | enst00000428818 | sg00000235954 | ttc28-as1-207 | 22 | 27919457 | 27924963 | + | lnc_RNA | lncrna |
| 119872 | enst00000435348 | sg00000235954 | ttc28-as1-212 | 22 | 27919457 | 28002640 | + | lnc_RNA | lncrna |
| 119881 | enst00000664946 | sg00000235954 | ttc28-as1-230 | 22 | 27919466 | 28002666 | + | lnc_RNA | lncrna |
| 119883 | enst00000417381 | sg00000235954 | ttc28-as1-201 | 22 | 27919468 | 27923011 | + | lnc_RNA | lncrna |
| 119885 | enst00000654553 | sg00000235954 | ttc28-as1-221 | 22 | 27919470 | 27973089 | + | lnc_RNA | lncrna |
| 119887 | enst00000428858 | sg00000235954 | ttc28-as1-208 | 22 | 27919472 | 27922087 | + | lnc_RNA | retained_intron |
| 119899 | enst00000670661 | sg00000235954 | ttc28-as1-236 | 22 | 27919484 | 27924950 | + | lnc_RNA | lncrna |
| 119899 | enst00000669227 | sg00000235954 | ttc28-as1-234 | 22 | 27919484 | 28002588 | + | lnc_RNA | lncrna |
| 119906 | enst00000452612 | sg00000235954 | ttc28-as1-215 | 22 | 27919491 | 27999476 | + | lnc_RNA | lncrna |
| 119913 | enst00000670585 | sg00000235954 | ttc28-as1-235 | 22 | 27919498 | 27924714 | + | lnc_RNA | lncrna |
| 119914 | enst00000662424 | sg00000235954 | ttc28-as1-227 | 22 | 27919499 | 27986392 | + | lnc_RNA | lncrna |
| 119933 | enst00000425112 | sg00000235954 | ttc28-as1-205 | 22 | 27919518 | 27986229 | + | lnc_RNA | lncrna |
| 120549 | enst00000415296 | sg00000180957 | pitpnb-203 | 22 | 27860196 | 27920134 | - | mRNA | protein_coding |
| 120941 | enst00000636243 | sg00000283225 | mir3199-2-201 | 22 | 27920526 | 27920611 | + | miRNA | mirna |
| 121027 | enst00000582434 | sg00000264073 | mir3199-1-201 | 22 | 27920525 | 27920612 | - | miRNA | mirna |
| 122437 | enst00000611117 | sg00000276150 | al031591.1-201 | 22 | 27922022 | 27922178 | + | ncRNA | misc_rna |
| 140433 | enst00000654619 | sg00000235954 | ttc28-as1-222 | 22 | 27940018 | 27986176 | + | lnc_RNA | lncrna |
| 190491 | enst00000480563 | sg00000100154 | ttc28-206 | 22 | 27983752 | 27990076 | - | lnc_RNA | retained_intron |
| 191885 | enst00000655196 | sg00000235954 | ttc28-as1-223 | 22 | 27991470 | 28002588 | + | lnc_RNA | lncrna |
| 192884 | enst00000428584 | sg00000235954 | ttc28-as1-206 | 22 | 27992469 | 28008581 | + | lnc_RNA | lncrna |
| 193343 | enst00000540665 | sg00000235954 | ttc28-as1-219 | 22 | 27992928 | 27997423 | + | lnc_RNA | lncrna |
| 193528 | enst00000433317 | sg00000235954 | ttc28-as1-210 | 22 | 27993113 | 28000723 | + | lnc_RNA | lncrna |
| 194889 | enst00000615579 | sg00000274342 | al033538.1-201 | 22 | 27994474 | 27994654 | + | ncRNA | misc_rna |
| 194975 | enst00000665529 | sg00000235954 | ttc28-as1-233 | 22 | 27994560 | 28002602 | + | lnc_RNA | lncrna |
| 196654 | enst00000431039 | sg00000100154 | ttc28-202 | 22 | 27983599 | 27996239 | - | mRNA | protein_coding |
| 196839 | enst00000469670 | sg00000100154 | ttc28-205 | 22 | 27992612 | 27996424 | - | lnc_RNA | retained_intron |
| 197826 | enst00000663167 | sg00000235954 | ttc28-as1-229 | 22 | 27997411 | 28002588 | + | lnc_RNA | lncrna |
| 199810 | enst00000654312 | sg00000235954 | ttc28-as1-220 | 22 | 27999395 | 28002612 | + | lnc_RNA | lncrna |
| 202899 | enst00000619378 | sg00000276675 | al033538.2-201 | 22 | 28002484 | 28002595 | + | ncRNA | misc_rna |
| -223080 | enst00000415655 | sg00000224027 | al133456.1-201 | 22 | 27563839 | 27573573 | - | lnc_RNA | lncrna |
| 256868 | enst00000466709 | sg00000239249 | rn7sl757p-201 | 22 | 28056153 | 28056453 | - | ncRNA | misc_rna |
| 294550 | enst00000442232 | sg00000100154 | ttc28-203 | 22 | 28028815 | 28094135 | - | mRNA | protein_coding |
| -336593 | enst00000440477 | sg00000227880 | al050402.1-201 | 22 | 27457247 | 27460060 | - | lnc_RNA | lncrna |
| -360361 | enst00000654206 | sg00000287034 | al050402.2-201 | 22 | 27436292 | 27441774 | + | lnc_RNA | lncrna |
| -376940 | enst00000623572 | sg00000280445 | al049536.1-202 | 22 | 27414493 | 27419713 | - | lnc_RNA | lncrna |
| -381448 | enst00000625043 | sg00000280445 | al049536.1-201 | 22 | 27414462 | 27415205 | - | lnc_RNA | lncrna |
| 433238 | enst00000364339 | sg00000201209 | al023281.2-201 | 22 | 28232756 | 28232823 | - | snoRNA | snorna |
| -464866 | enst00000413244 | sg00000230051 | al020994.2-201 | 22 | 27331787 | 27379265 | + | lnc_RNA | lncrna |
| -464958 | enst00000669277 | sg00000230051 | al020994.2-202 | 22 | 27331695 | 27357622 | + | lnc_RNA | lncrna |
| -465019 | enst00000668323 | sg00000230051 | al020994.2-203 | 22 | 27331634 | 27357627 | + | lnc_RNA | lncrna |
| -478115 | enst00000454387 | sg00000223726 | al020994.1-201 | 22 | 27307483 | 27318538 | - | lnc_RNA | lncrna |
| -486002 | enst00000426467 | sg00000226741 | linc02554-201 | 22 | 27310651 | 27317456 | + | lnc_RNA | lncrna |
| -488851 | enst00000665304 | sg00000226741 | linc02554-204 | 22 | 27307802 | 27318501 | + | lnc_RNA | lncrna |
| -488851 | enst00000657960 | sg00000226741 | linc02554-202 | 22 | 27307802 | 27317456 | + | lnc_RNA | lncrna |
| -488876 | enst00000662296 | sg00000226741 | linc02554-203 | 22 | 27307777 | 27312015 | + | 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