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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 |
|---|---|---|---|---|---|---|---|---|
| #179 | 2 | 104863596 | 104864466 | 870 | 3 | 32 | 1.75118e-14 | 9.69946e-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 |
|---|---|---|---|---|---|---|---|---|---|
| 3030 | enst00000454183 | sg00000229743 | linc01159-203 | 2 | 104865407 | 104867496 | - | lnc_RNA | lncrna |
| 3907 | enst00000651283 | sg00000229743 | linc01159-204 | 2 | 104865410 | 104868373 | - | lnc_RNA | lncrna |
| 7986 | enst00000433433 | sg00000229743 | linc01159-201 | 2 | 104865497 | 104872452 | - | lnc_RNA | lncrna |
| 8017 | enst00000653517 | sg00000229743 | linc01159-205 | 2 | 104869220 | 104872483 | - | lnc_RNA | lncrna |
| 8129 | enst00000434764 | sg00000229743 | linc01159-202 | 2 | 104869846 | 104872595 | - | lnc_RNA | lncrna |
| -9481 | enst00000361360 | sg00000198914 | pou3f3-201 | 2 | 104854115 | 104858574 | + | mRNA | protein_coding |
| -9821 | enst00000666384 | sg00000269707 | ac018730.1-205 | 2 | 104853775 | 104927577 | + | lnc_RNA | lncrna |
| -10106 | enst00000666977 | sg00000269707 | ac018730.1-204 | 2 | 104853490 | 104927722 | + | lnc_RNA | lncrna |
| -10132 | enst00000662784 | sg00000269707 | ac018730.1-203 | 2 | 104853464 | 104927710 | + | lnc_RNA | lncrna |
| -10302 | enst00000653688 | sg00000269707 | ac018730.1-202 | 2 | 104853294 | 104900993 | + | lnc_RNA | lncrna |
| -10309 | enst00000674056 | sg00000198914 | pou3f3-202 | 2 | 104853287 | 104858574 | + | mRNA | protein_coding |
| -10311 | enst00000598623 | sg00000269707 | ac018730.1-201 | 2 | 104853285 | 104926052 | + | lnc_RNA | lncrna |
| -10413 | enst00000447876 | sg00000233639 | pantr1-203 | 2 | 104807573 | 104853183 | - | lnc_RNA | lncrna |
| -12120 | enst00000454729 | sg00000233639 | pantr1-204 | 2 | 104807577 | 104851476 | - | lnc_RNA | lncrna |
| -12135 | enst00000413121 | sg00000233639 | pantr1-201 | 2 | 104807572 | 104851461 | - | lnc_RNA | lncrna |
| -12137 | enst00000661120 | sg00000233639 | pantr1-208 | 2 | 104807585 | 104851459 | - | lnc_RNA | lncrna |
| -12138 | enst00000458253 | sg00000233639 | pantr1-205 | 2 | 104807577 | 104851458 | - | lnc_RNA | lncrna |
| -12143 | enst00000443988 | sg00000233639 | pantr1-202 | 2 | 104807573 | 104851453 | - | lnc_RNA | lncrna |
| -19924 | enst00000659645 | sg00000233639 | pantr1-207 | 2 | 104794848 | 104843672 | - | lnc_RNA | lncrna |
| -19985 | enst00000664478 | sg00000233639 | pantr1-209 | 2 | 104807626 | 104843611 | - | lnc_RNA | lncrna |
| 48234 | enst00000663413 | sg00000269707 | ac018730.1-206 | 2 | 104912700 | 104927071 | + | lnc_RNA | lncrna |
| -49683 | enst00000653760 | sg00000233639 | pantr1-206 | 2 | 104807600 | 104813913 | - | lnc_RNA | lncrna |
| -49735 | enst00000665955 | sg00000233639 | pantr1-210 | 2 | 104807585 | 104813861 | - | lnc_RNA | lncrna |
| 64337 | enst00000663378 | sg00000287135 | ac010884.1-201 | 2 | 104928803 | 104936467 | + | lnc_RNA | lncrna |
| -92314 | enst00000440127 | sg00000213301 | hmgb3p11-201 | 2 | 104771282 | 104771885 | + | pseudogenic_transcript | processed_pseudogene |
| -105877 | enst00000425879 | sg00000234177 | linc01114-203 | 2 | 104746640 | 104757719 | - | lnc_RNA | lncrna |
| -107841 | enst00000424321 | sg00000234177 | linc01114-202 | 2 | 104746638 | 104755755 | - | lnc_RNA | lncrna |
| -108721 | enst00000421071 | sg00000234177 | linc01114-201 | 2 | 104749384 | 104754875 | - | lnc_RNA | lncrna |
| -130362 | enst00000384520 | sg00000207249 | ac068057.1-201 | 2 | 104733234 | 104733362 | + | snoRNA | snorna |
| -140630 | enst00000669335 | sg00000288565 | ac068057.4-201 | 2 | 104656135 | 104722966 | - | lnc_RNA | lncrna |
| -156984 | enst00000624047 | sg00000279904 | ac068057.3-201 | 2 | 104706612 | 104707506 | + | unconfirmed_transcript | tec |
| -160139 | enst00000453322 | sg00000228528 | ac068057.2-204 | 2 | 104703457 | 104705813 | + | lnc_RNA | lncrna |
| -160225 | enst00000662788 | sg00000228528 | ac068057.2-203 | 2 | 104703371 | 104705813 | + | lnc_RNA | lncrna |
| -160357 | enst00000666357 | sg00000228528 | ac068057.2-202 | 2 | 104703239 | 104705753 | + | lnc_RNA | lncrna |
| -160946 | enst00000667846 | sg00000228528 | ac068057.2-201 | 2 | 104702650 | 104705813 | + | lnc_RNA | lncrna |
| 173603 | enst00000258455 | sg00000135972 | mrps9-201 | 2 | 105038069 | 105099960 | + | mRNA | protein_coding |
| 174030 | enst00000456519 | sg00000224509 | mrps9-as2-201 | 2 | 104936241 | 105038496 | - | lnc_RNA | lncrna |
| -185373 | enst00000415161 | sg00000225669 | rpl23ap27-201 | 2 | 104678223 | 104678673 | + | pseudogenic_transcript | processed_pseudogene |
| -204188 | enst00000654825 | sg00000230690 | ac013402.1-203 | 2 | 104659408 | 104666858 | + | lnc_RNA | lncrna |
| -204195 | enst00000656653 | sg00000230690 | ac013402.1-202 | 2 | 104659401 | 104666629 | + | lnc_RNA | lncrna |
| -204259 | enst00000456999 | sg00000230690 | ac013402.1-201 | 2 | 104659337 | 104664837 | + | lnc_RNA | lncrna |
| 224552 | enst00000413583 | sg00000135972 | mrps9-202 | 2 | 105089018 | 105097288 | + | mRNA | nonsense_mediated_decay |
| 227632 | enst00000472220 | sg00000135972 | mrps9-203 | 2 | 105092098 | 105099900 | + | lnc_RNA | retained_intron |
| 238478 | enst00000449177 | sg00000231851 | mrps9-as1-202 | 2 | 105097060 | 105102944 | - | lnc_RNA | lncrna |
| 238502 | enst00000669390 | sg00000231851 | mrps9-as1-204 | 2 | 105092368 | 105102968 | - | lnc_RNA | lncrna |
| 238570 | enst00000432211 | sg00000231851 | mrps9-as1-201 | 2 | 105096998 | 105103036 | - | lnc_RNA | lncrna |
| 238570 | enst00000661548 | sg00000231851 | mrps9-as1-203 | 2 | 105097052 | 105103036 | - | lnc_RNA | lncrna |
| 279647 | enst00000436841 | sg00000226508 | linc01918-201 | 2 | 105144113 | 105145222 | + | lnc_RNA | lncrna |
| 279657 | enst00000452037 | sg00000226508 | linc01918-203 | 2 | 105144123 | 105144912 | + | lnc_RNA | lncrna |
| 279676 | enst00000438148 | sg00000226508 | linc01918-202 | 2 | 105144142 | 105145424 | + | lnc_RNA | lncrna |
| -280444 | enst00000438566 | sg00000236109 | ac013402.3-202 | 2 | 104583152 | 104585354 | + | lnc_RNA | lncrna |
| -280458 | enst00000659877 | sg00000236109 | ac013402.3-201 | 2 | 104583138 | 104621767 | + | lnc_RNA | lncrna |
| -281706 | enst00000424257 | sg00000231626 | ac013402.2-201 | 2 | 104580821 | 104581890 | - | lnc_RNA | lncrna |
| -353087 | enst00000430551 | sg00000234781 | linc01103-201 | 2 | 104488458 | 104510509 | - | lnc_RNA | lncrna |
| -356280 | enst00000658830 | sg00000235597 | linc01102-209 | 2 | 104507316 | 104532746 | + | lnc_RNA | lncrna |
| -357005 | enst00000670643 | sg00000235597 | linc01102-234 | 2 | 104506591 | 104512755 | + | lnc_RNA | lncrna |
| -357005 | enst00000666748 | sg00000235597 | linc01102-229 | 2 | 104506591 | 104512753 | + | lnc_RNA | lncrna |
| -357040 | enst00000664788 | sg00000235597 | linc01102-223 | 2 | 104506556 | 104532698 | + | lnc_RNA | lncrna |
| -357138 | enst00000659047 | sg00000235597 | linc01102-211 | 2 | 104506458 | 104512757 | + | lnc_RNA | lncrna |
| -359397 | enst00000660280 | sg00000235597 | linc01102-214 | 2 | 104504199 | 104512488 | + | lnc_RNA | lncrna |
| -359878 | enst00000659788 | sg00000235597 | linc01102-213 | 2 | 104503718 | 104512760 | + | lnc_RNA | lncrna |
| -360379 | enst00000662105 | sg00000235597 | linc01102-218 | 2 | 104503217 | 104506431 | + | lnc_RNA | lncrna |
| -360392 | enst00000665228 | sg00000235597 | linc01102-225 | 2 | 104503204 | 104507689 | + | lnc_RNA | lncrna |
| -360573 | enst00000660572 | sg00000235597 | linc01102-215 | 2 | 104503023 | 104512758 | + | lnc_RNA | lncrna |
| 377277 | enst00000258456 | sg00000135973 | gpr45-201 | 2 | 105241743 | 105243467 | + | mRNA | protein_coding |
| 385328 | enst00000609349 | sg00000272861 | ac012360.2-201 | 2 | 105249404 | 105249794 | - | lnc_RNA | lncrna |
| -386787 | enst00000670569 | sg00000235597 | linc01102-233 | 2 | 104476809 | 104520894 | + | lnc_RNA | lncrna |
| -386795 | enst00000657656 | sg00000235597 | linc01102-207 | 2 | 104476801 | 104512759 | + | lnc_RNA | lncrna |
| -429113 | enst00000663107 | sg00000235597 | linc01102-220 | 2 | 104434483 | 104532741 | + | lnc_RNA | lncrna |
| -429115 | enst00000666592 | sg00000235597 | linc01102-228 | 2 | 104434481 | 104532744 | + | lnc_RNA | lncrna |
| -429137 | enst00000659098 | sg00000235597 | linc01102-212 | 2 | 104434459 | 104512758 | + | lnc_RNA | lncrna |
| -429203 | enst00000658704 | sg00000235597 | linc01102-208 | 2 | 104434393 | 104520887 | + | lnc_RNA | lncrna |
| -429218 | enst00000447380 | sg00000235597 | linc01102-203 | 2 | 104434378 | 104512754 | + | lnc_RNA | lncrna |
| -429218 | enst00000670863 | sg00000235597 | linc01102-235 | 2 | 104434378 | 104512757 | + | lnc_RNA | lncrna |
| -429218 | enst00000665210 | sg00000235597 | linc01102-224 | 2 | 104434378 | 104532747 | + | lnc_RNA | lncrna |
| -429230 | enst00000667477 | sg00000235597 | linc01102-231 | 2 | 104434366 | 104512757 | + | lnc_RNA | lncrna |
| -429234 | enst00000429464 | sg00000235597 | linc01102-202 | 2 | 104434362 | 104507831 | + | lnc_RNA | lncrna |
| -429242 | enst00000664762 | sg00000235597 | linc01102-222 | 2 | 104434354 | 104520856 | + | lnc_RNA | lncrna |
| -429251 | enst00000657293 | sg00000235597 | linc01102-206 | 2 | 104434345 | 104520893 | + | lnc_RNA | lncrna |
| -429276 | enst00000666546 | sg00000235597 | linc01102-227 | 2 | 104434320 | 104512760 | + | lnc_RNA | lncrna |
| -429288 | enst00000414442 | sg00000235597 | linc01102-201 | 2 | 104434308 | 104507558 | + | lnc_RNA | lncrna |
| -429314 | enst00000661607 | sg00000235597 | linc01102-217 | 2 | 104434282 | 104507569 | + | lnc_RNA | lncrna |
| -429332 | enst00000652812 | sg00000235597 | linc01102-205 | 2 | 104434264 | 104512757 | + | lnc_RNA | lncrna |
| -429333 | enst00000667436 | sg00000235597 | linc01102-230 | 2 | 104434263 | 104512732 | + | lnc_RNA | lncrna |
| -430159 | enst00000666200 | sg00000235597 | linc01102-226 | 2 | 104433437 | 104512771 | + | lnc_RNA | lncrna |
| -430329 | enst00000451400 | sg00000235597 | linc01102-204 | 2 | 104433267 | 104520884 | + | lnc_RNA | lncrna |
| -431192 | enst00000669146 | sg00000235597 | linc01102-232 | 2 | 104432404 | 104512755 | + | lnc_RNA | lncrna |
| -431280 | enst00000664680 | sg00000235597 | linc01102-221 | 2 | 104432316 | 104512752 | + | lnc_RNA | lncrna |
| -433195 | enst00000662445 | sg00000235597 | linc01102-219 | 2 | 104430401 | 104512755 | + | lnc_RNA | lncrna |
| -433249 | enst00000660711 | sg00000235597 | linc01102-216 | 2 | 104430347 | 104512758 | + | lnc_RNA | lncrna |
| -433466 | enst00000658921 | sg00000235597 | linc01102-210 | 2 | 104430130 | 104512758 | + | lnc_RNA | lncrna |
| -440557 | enst00000654112 | sg00000287793 | ac068535.2-201 | 2 | 104423039 | 104429454 | + | lnc_RNA | lncrna |
| 443855 | enst00000595531 | sg00000135966 | tgfbrap1-203 | 2 | 105264391 | 105308321 | - | mRNA | protein_coding |
| 443855 | enst00000258449 | sg00000135966 | tgfbrap1-201 | 2 | 105267121 | 105308321 | - | mRNA | protein_coding |
| -449401 | enst00000661379 | sg00000225765 | linc01831-203 | 2 | 104412146 | 104414195 | - | lnc_RNA | lncrna |
| -449565 | enst00000658461 | sg00000225765 | linc01831-202 | 2 | 104412151 | 104414031 | - | lnc_RNA | lncrna |
| -449588 | enst00000449772 | sg00000225765 | linc01831-201 | 2 | 104412227 | 104414008 | - | lnc_RNA | lncrna |
| -452732 | enst00000416008 | sg00000227157 | ac068535.1-203 | 2 | 104410864 | 104415774 | + | lnc_RNA | lncrna |
| -457089 | enst00000653581 | sg00000227157 | ac068535.1-201 | 2 | 104406507 | 104415774 | + | lnc_RNA | lncrna |
| -457092 | enst00000658233 | sg00000227157 | ac068535.1-204 | 2 | 104406504 | 104415774 | + | lnc_RNA | lncrna |
| -457125 | enst00000669131 | sg00000227157 | ac068535.1-202 | 2 | 104406471 | 104416720 | + | lnc_RNA | lncrna |
| 459744 | enst00000433219 | sg00000235319 | ac012360.1-201 | 2 | 105324210 | 105330529 | + | lnc_RNA | lncrna |
| 465269 | enst00000393359 | sg00000135966 | tgfbrap1-202 | 2 | 105264414 | 105329735 | - | mRNA | protein_coding |
| -467316 | enst00000420053 | sg00000233955 | ahcyp3-201 | 2 | 104395002 | 104396280 | - | pseudogenic_transcript | processed_pseudogene |
| 473009 | enst00000610036 | sg00000272994 | ac012360.3-201 | 2 | 105334027 | 105337475 | - | lnc_RNA | lncrna |
| 473066 | enst00000410049 | sg00000135974 | c2orf49-202 | 2 | 105337532 | 105345596 | + | mRNA | protein_coding |
| 473074 | enst00000258457 | sg00000135974 | c2orf49-201 | 2 | 105337540 | 105349211 | + | mRNA | protein_coding |
| 498572 | enst00000457290 | sg00000238273 | ac108058.1-201 | 2 | 105363038 | 105378839 | + | 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