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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 |
|---|---|---|---|---|---|---|---|---|
| #14 | 17 | 83133989 | 83135844 | 1855 | 3 | 67 | 4.35442e-28 | 3.09319e-25 |
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 | enst00000654400 | sg00000262898 | ac139099.2-206 | 17 | 83135734 | 83146190 | + | lnc_RNA | lncrna |
| 306 | enst00000625083 | sg00000279143 | ac139099.3-201 | 17 | 83132647 | 83136150 | - | unconfirmed_transcript | tec |
| 8107 | enst00000651869 | sg00000262898 | ac139099.2-201 | 17 | 83143951 | 83200082 | + | lnc_RNA | lncrna |
| 8148 | enst00000652318 | sg00000262898 | ac139099.2-202 | 17 | 83143992 | 83221442 | + | lnc_RNA | lncrna |
| 8287 | enst00000572343 | sg00000262898 | ac139099.2-203 | 17 | 83144131 | 83177607 | + | lnc_RNA | lncrna |
| -29734 | enst00000573312 | sg00000261888 | ac144831.1-201 | 17 | 83104255 | 83106910 | + | lnc_RNA | lncrna |
| -35612 | enst00000619443 | sg00000274370 | ac130371.2-201 | 17 | 83098377 | 83098987 | + | lnc_RNA | lncrna |
| -39740 | enst00000574053 | sg00000176845 | metrnl-205 | 17 | 83094249 | 83094847 | + | mRNA | protein_coding |
| -41596 | enst00000571940 | sg00000176845 | metrnl-204 | 17 | 83092393 | 83094476 | + | lnc_RNA | processed_transcript |
| -49916 | enst00000571814 | sg00000176845 | metrnl-203 | 17 | 83084073 | 83094844 | + | mRNA | protein_coding |
| -53790 | enst00000570778 | sg00000176845 | metrnl-202 | 17 | 83080199 | 83094745 | + | mRNA | protein_coding |
| -54380 | enst00000320095 | sg00000176845 | metrnl-201 | 17 | 83079609 | 83095122 | + | mRNA | protein_coding |
| 76152 | enst00000572850 | sg00000262898 | ac139099.2-204 | 17 | 83211996 | 83220929 | + | lnc_RNA | lncrna |
| -82179 | enst00000320865 | sg00000175711 | b3gntl1-201 | 17 | 82943791 | 83051810 | - | mRNA | protein_coding |
| -82180 | enst00000571218 | sg00000175711 | b3gntl1-203 | 17 | 83030761 | 83051809 | - | mRNA | nonsense_mediated_decay |
| 84582 | enst00000574856 | sg00000262898 | ac139099.2-205 | 17 | 83220426 | 83221190 | + | lnc_RNA | lncrna |
| -84823 | enst00000576599 | sg00000175711 | b3gntl1-211 | 17 | 82943791 | 83049166 | - | mRNA | protein_coding |
| -84849 | enst00000571954 | sg00000175711 | b3gntl1-206 | 17 | 82960376 | 83049140 | - | lnc_RNA | processed_transcript |
| -85205 | enst00000573629 | sg00000175711 | b3gntl1-210 | 17 | 83011428 | 83048784 | - | lnc_RNA | processed_transcript |
| -85207 | enst00000570947 | sg00000175711 | b3gntl1-202 | 17 | 82943791 | 83048782 | - | lnc_RNA | processed_transcript |
| 87112 | enst00000574098 | sg00000262094 | ac139099.1-202 | 17 | 83220548 | 83222956 | - | lnc_RNA | lncrna |
| 90659 | enst00000573737 | sg00000262094 | ac139099.1-201 | 17 | 83220527 | 83226503 | - | lnc_RNA | lncrna |
| 91053 | enst00000425566 | sg00000232938 | rpl23ap87-201 | 17 | 83226897 | 83240804 | + | lnc_RNA | processed_transcript |
| 91861 | enst00000575205 | sg00000262094 | ac139099.1-204 | 17 | 83221069 | 83227705 | - | lnc_RNA | lncrna |
| 91877 | enst00000570366 | sg00000262094 | ac139099.1-203 | 17 | 83220875 | 83227721 | - | lnc_RNA | lncrna |
| 104082 | enst00000573039 | sg00000232938 | rpl23ap87-202 | 17 | 83239926 | 83240391 | + | pseudogenic_transcript | transcribed_processed_pseudogene |
| -127001 | enst00000572977 | sg00000175711 | b3gntl1-208 | 17 | 82942155 | 83006988 | - | mRNA | nonsense_mediated_decay |
| -152907 | enst00000576197 | sg00000262339 | ac130371.1-204 | 17 | 82981082 | 82981738 | + | lnc_RNA | lncrna |
| -154633 | enst00000574647 | sg00000262339 | ac130371.1-203 | 17 | 82979356 | 82981738 | + | lnc_RNA | lncrna |
| -155268 | enst00000573207 | sg00000262339 | ac130371.1-202 | 17 | 82978721 | 82981734 | + | lnc_RNA | lncrna |
| -155464 | enst00000577023 | sg00000262339 | ac130371.1-201 | 17 | 82978525 | 82981508 | + | lnc_RNA | lncrna |
| -172657 | enst00000571394 | sg00000175711 | b3gntl1-205 | 17 | 82946894 | 82961332 | - | lnc_RNA | retained_intron |
| -177188 | enst00000573363 | sg00000175711 | b3gntl1-209 | 17 | 82943791 | 82956801 | - | lnc_RNA | retained_intron |
| -184041 | enst00000571301 | sg00000175711 | b3gntl1-204 | 17 | 82943796 | 82949948 | - | lnc_RNA | retained_intron |
| -189940 | enst00000572267 | sg00000175711 | b3gntl1-207 | 17 | 82942465 | 82944049 | - | lnc_RNA | processed_transcript |
| -194588 | enst00000572794 | sg00000141556 | tbcd-209 | 17 | 82939401 | 82942702 | + | mRNA | protein_coding |
| -194947 | enst00000572389 | sg00000141556 | tbcd-208 | 17 | 82939042 | 82942704 | + | lnc_RNA | retained_intron |
| -196419 | enst00000576691 | sg00000141556 | tbcd-223 | 17 | 82937570 | 82942704 | + | lnc_RNA | processed_transcript |
| -196773 | enst00000576432 | sg00000141556 | tbcd-220 | 17 | 82937216 | 82942704 | + | lnc_RNA | retained_intron |
| -201302 | enst00000573364 | sg00000141556 | tbcd-212 | 17 | 82932687 | 82937847 | + | lnc_RNA | retained_intron |
| -202040 | enst00000576603 | sg00000141556 | tbcd-221 | 17 | 82931949 | 82942571 | + | lnc_RNA | processed_transcript |
| -203531 | enst00000575132 | sg00000141556 | tbcd-218 | 17 | 82930458 | 82941433 | + | lnc_RNA | retained_intron |
| -204564 | enst00000576677 | sg00000141556 | tbcd-222 | 17 | 82929425 | 82942704 | + | lnc_RNA | retained_intron |
| -204851 | enst00000577051 | sg00000141556 | tbcd-226 | 17 | 82929138 | 82942659 | + | mRNA | protein_coding |
| -207123 | enst00000570679 | sg00000141556 | tbcd-203 | 17 | 82926866 | 82929259 | + | lnc_RNA | retained_intron |
| -212973 | enst00000574886 | sg00000141556 | tbcd-216 | 17 | 82921016 | 82927213 | + | lnc_RNA | retained_intron |
| -213529 | enst00000574818 | sg00000141556 | tbcd-215 | 17 | 82920460 | 82929132 | + | lnc_RNA | retained_intron |
| -215707 | enst00000571113 | sg00000262663 | ac087222.1-201 | 17 | 82918282 | 82918785 | + | lnc_RNA | lncrna |
| -225712 | enst00000571618 | sg00000141556 | tbcd-205 | 17 | 82908277 | 82927311 | + | lnc_RNA | processed_transcript |
| -233447 | enst00000574422 | sg00000141556 | tbcd-213 | 17 | 82900542 | 82926439 | + | mRNA | protein_coding |
| -238164 | enst00000571796 | sg00000141556 | tbcd-207 | 17 | 82895825 | 82929791 | + | lnc_RNA | retained_intron |
| -240881 | enst00000572953 | sg00000141556 | tbcd-210 | 17 | 82893108 | 82921575 | + | mRNA | protein_coding |
| -240925 | enst00000574975 | sg00000141556 | tbcd-217 | 17 | 82893064 | 82925056 | + | mRNA | protein_coding |
| -247905 | enst00000572984 | sg00000141556 | tbcd-211 | 17 | 82886084 | 82911765 | + | mRNA | protein_coding |
| -249188 | enst00000576760 | sg00000141556 | tbcd-224 | 17 | 82884801 | 82926476 | + | mRNA | protein_coding |
| -249837 | enst00000571316 | sg00000141556 | tbcd-204 | 17 | 82884152 | 82914153 | + | mRNA | protein_coding |
| -269698 | enst00000574801 | sg00000141556 | tbcd-214 | 17 | 82864291 | 82911789 | + | lnc_RNA | processed_transcript |
| -273595 | enst00000576996 | sg00000141556 | tbcd-225 | 17 | 82860394 | 82920606 | + | mRNA | protein_coding |
| -275393 | enst00000571712 | sg00000141556 | tbcd-206 | 17 | 82858596 | 82921576 | + | mRNA | protein_coding |
| -275470 | enst00000576160 | sg00000141556 | tbcd-219 | 17 | 82858519 | 82921510 | + | mRNA | protein_coding |
| -293967 | enst00000572562 | sg00000141579 | znf750-202 | 17 | 82829929 | 82840022 | - | mRNA | protein_coding |
| -293967 | enst00000269394 | sg00000141579 | znf750-201 | 17 | 82829434 | 82840022 | - | mRNA | protein_coding |
| -337894 | enst00000576836 | sg00000263098 | ac068014.1-201 | 17 | 82795486 | 82796095 | - | lnc_RNA | lncrna |
| -381831 | enst00000539345 | sg00000141556 | tbcd-202 | 17 | 82752158 | 82942709 | + | mRNA | protein_coding |
| -381924 | enst00000355528 | sg00000141556 | tbcd-201 | 17 | 82752065 | 82945914 | + | mRNA | protein_coding |
| -388921 | enst00000572594 | sg00000262410 | ac024361.1-201 | 17 | 82745068 | 82745709 | + | lnc_RNA | lncrna |
| -397917 | enst00000570734 | sg00000167363 | fn3k-202 | 17 | 82736072 | 82749895 | + | lnc_RNA | retained_intron |
| -397917 | enst00000572813 | sg00000167363 | fn3k-203 | 17 | 82736072 | 82737933 | + | lnc_RNA | processed_transcript |
| -398264 | enst00000573841 | sg00000167363 | fn3k-204 | 17 | 82735725 | 82741526 | + | lnc_RNA | retained_intron |
| -398359 | enst00000574496 | sg00000167363 | fn3k-205 | 17 | 82735630 | 82741056 | + | lnc_RNA | retained_intron |
| -398374 | enst00000300784 | sg00000167363 | fn3k-201 | 17 | 82735615 | 82751196 | + | mRNA | protein_coding |
| -399846 | enst00000570919 | sg00000263321 | ac024361.3-201 | 17 | 82729164 | 82734143 | - | lnc_RNA | lncrna |
| -406874 | enst00000571594 | sg00000141560 | fn3krp-203 | 17 | 82727115 | 82730328 | + | mRNA | nonsense_mediated_decay |
| -411380 | enst00000576363 | sg00000141560 | fn3krp-208 | 17 | 82722609 | 82727097 | + | lnc_RNA | retained_intron |
| -414972 | enst00000571482 | sg00000141560 | fn3krp-202 | 17 | 82719017 | 82726493 | + | lnc_RNA | retained_intron |
| -417202 | enst00000573158 | sg00000141560 | fn3krp-204 | 17 | 82716787 | 82727143 | + | mRNA | protein_coding |
| -417215 | enst00000577128 | sg00000141560 | fn3krp-209 | 17 | 82716774 | 82727113 | + | mRNA | protein_coding |
| -417229 | enst00000574206 | sg00000141560 | fn3krp-205 | 17 | 82716760 | 82726906 | + | mRNA | nonsense_mediated_decay |
| -417240 | enst00000574356 | sg00000141560 | fn3krp-206 | 17 | 82716749 | 82726916 | + | mRNA | nonsense_mediated_decay |
| -417267 | enst00000574832 | sg00000141560 | fn3krp-207 | 17 | 82716722 | 82727501 | + | mRNA | nonsense_mediated_decay |
| -417283 | enst00000269373 | sg00000141560 | fn3krp-201 | 17 | 82716706 | 82728013 | + | mRNA | protein_coding |
| -417734 | enst00000574471 | sg00000263063 | ac024361.2-201 | 17 | 82713908 | 82716255 | - | lnc_RNA | lncrna |
| -435291 | enst00000571995 | sg00000141542 | rab40b-206 | 17 | 82654973 | 82698698 | - | mRNA | protein_coding |
| -435302 | enst00000269347 | sg00000141542 | rab40b-201 | 17 | 82657067 | 82698687 | - | mRNA | protein_coding |
| -435327 | enst00000538809 | sg00000141542 | rab40b-202 | 17 | 82657911 | 82698662 | - | mRNA | protein_coding |
| -435335 | enst00000572603 | sg00000141542 | rab40b-207 | 17 | 82661081 | 82698654 | - | lnc_RNA | processed_transcript |
| -437119 | enst00000571554 | sg00000141542 | rab40b-204 | 17 | 82661011 | 82696870 | - | lnc_RNA | processed_transcript |
| -465682 | enst00000580000 | sg00000266107 | mir4525-201 | 17 | 82668233 | 82668307 | - | miRNA | mirna |
| -469094 | enst00000570676 | sg00000141542 | rab40b-203 | 17 | 82657793 | 82664895 | - | lnc_RNA | retained_intron |
| -472958 | enst00000576148 | sg00000141542 | rab40b-210 | 17 | 82657915 | 82661031 | - | mRNA | protein_coding |
| -474230 | enst00000574132 | sg00000141542 | rab40b-209 | 17 | 82657706 | 82659759 | - | lnc_RNA | retained_intron |
| -474400 | enst00000576359 | sg00000141542 | rab40b-211 | 17 | 82657068 | 82659589 | - | lnc_RNA | retained_intron |
| -475140 | enst00000573395 | sg00000141542 | rab40b-208 | 17 | 82657977 | 82658849 | - | lnc_RNA | retained_intron |
| -477108 | enst00000571880 | sg00000141542 | rab40b-205 | 17 | 82655037 | 82656881 | - | lnc_RNA | processed_transcript |
| -485140 | enst00000624661 | sg00000279613 | ac124283.5-201 | 17 | 82648849 | 82650657 | + | unconfirmed_transcript | tec |
| -485436 | enst00000574828 | sg00000141580 | wdr45b-208 | 17 | 82626789 | 82648553 | - | lnc_RNA | processed_transcript |
| -485541 | enst00000571817 | sg00000141580 | wdr45b-203 | 17 | 82619064 | 82648448 | - | mRNA | nonsense_mediated_decay |
| -485545 | enst00000573616 | sg00000141580 | wdr45b-206 | 17 | 82616524 | 82648444 | - | mRNA | nonsense_mediated_decay |
| -485545 | enst00000392325 | sg00000141580 | wdr45b-201 | 17 | 82614562 | 82648444 | - | mRNA | protein_coding |
| -485671 | enst00000572583 | sg00000141580 | wdr45b-205 | 17 | 82614576 | 82648318 | - | mRNA | nonsense_mediated_decay |
| -497406 | enst00000571835 | sg00000141580 | wdr45b-204 | 17 | 82616015 | 82636583 | - | lnc_RNA | processed_transcript |
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