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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 |
|---|---|---|---|---|---|---|---|---|
| #123 | 13 | 50132274 | 50133978 | 1704 | 3 | 52 | 1.46044e-16 | 1.18082e-14 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| -6458 | enst00000618151 | sg00000274270 | al137060.3-201 | 13 | 50125816 | 50128463 | + | lnc_RNA | lncrna |
| -6554 | enst00000425586 | sg00000231607 | dleu2-203 | 13 | 50027133 | 50125720 | - | lnc_RNA | lncrna |
| -6733 | enst00000621282 | sg00000231607 | dleu2-208 | 13 | 49982552 | 50125541 | - | lnc_RNA | lncrna |
| -6868 | enst00000662092 | sg00000231607 | dleu2-214 | 13 | 50049189 | 50125406 | - | lnc_RNA | lncrna |
| -6887 | enst00000666359 | sg00000231607 | dleu2-216 | 13 | 50049190 | 50125387 | - | lnc_RNA | lncrna |
| -27441 | enst00000617920 | sg00000273541 | al137060.1-201 | 13 | 50104833 | 50105174 | + | ncRNA | misc_rna |
| -32943 | enst00000425606 | sg00000214359 | rpl18p10-201 | 13 | 50099331 | 50099868 | + | pseudogenic_transcript | processed_pseudogene |
| 38111 | enst00000495613 | sg00000232150 | st13p4-201 | 13 | 50172089 | 50173181 | + | pseudogenic_transcript | processed_pseudogene |
| -49153 | enst00000652773 | sg00000176124 | dleu1-241 | 13 | 50083121 | 50105297 | + | lnc_RNA | lncrna |
| -49972 | enst00000659280 | sg00000176124 | dleu1-244 | 13 | 50082302 | 50105241 | + | lnc_RNA | lncrna |
| -49979 | enst00000618107 | sg00000276089 | al137060.6-201 | 13 | 50082295 | 50082484 | + | ncRNA | misc_rna |
| -50103 | enst00000478860 | sg00000176124 | dleu1-221 | 13 | 50082171 | 50083971 | + | lnc_RNA | lncrna |
| -50103 | enst00000378180 | sg00000176124 | dleu1-201 | 13 | 50082171 | 50105297 | + | lnc_RNA | lncrna |
| -50103 | enst00000486895 | sg00000176124 | dleu1-230 | 13 | 50082171 | 50390291 | + | lnc_RNA | lncrna |
| -50103 | enst00000463474 | sg00000176124 | dleu1-207 | 13 | 50082171 | 50528064 | + | lnc_RNA | lncrna |
| -50103 | enst00000468168 | sg00000176124 | dleu1-209 | 13 | 50082171 | 50528064 | + | lnc_RNA | lncrna |
| -50103 | enst00000461527 | sg00000176124 | dleu1-204 | 13 | 50082171 | 50492761 | + | lnc_RNA | lncrna |
| -50103 | enst00000467721 | sg00000176124 | dleu1-208 | 13 | 50082171 | 50528534 | + | lnc_RNA | lncrna |
| -50103 | enst00000468522 | sg00000176124 | dleu1-210 | 13 | 50082171 | 50528534 | + | lnc_RNA | lncrna |
| -50103 | enst00000491341 | sg00000176124 | dleu1-233 | 13 | 50082171 | 50528534 | + | lnc_RNA | lncrna |
| -50103 | enst00000491615 | sg00000176124 | dleu1-235 | 13 | 50082171 | 50528534 | + | lnc_RNA | lncrna |
| -50103 | enst00000476738 | sg00000176124 | dleu1-220 | 13 | 50082171 | 50528064 | + | lnc_RNA | lncrna |
| -50103 | enst00000490577 | sg00000176124 | dleu1-232 | 13 | 50082171 | 50528534 | + | lnc_RNA | lncrna |
| -50105 | enst00000655550 | sg00000176124 | dleu1-242 | 13 | 50082169 | 50107202 | + | lnc_RNA | lncrna |
| -50105 | enst00000469754 | sg00000176124 | dleu1-213 | 13 | 50082169 | 50107218 | + | lnc_RNA | lncrna |
| -50233 | enst00000458725 | sg00000231607 | dleu2-207 | 13 | 50043492 | 50082041 | - | lnc_RNA | lncrna |
| -50233 | enst00000449579 | sg00000231607 | dleu2-206 | 13 | 50049189 | 50082041 | - | lnc_RNA | lncrna |
| -50251 | enst00000433070 | sg00000231607 | dleu2-204 | 13 | 50043908 | 50082023 | - | lnc_RNA | lncrna |
| -50271 | enst00000668305 | sg00000231607 | dleu2-218 | 13 | 50027090 | 50082003 | - | lnc_RNA | lncrna |
| -50283 | enst00000659339 | sg00000231607 | dleu2-212 | 13 | 50044724 | 50081991 | - | lnc_RNA | lncrna |
| -50296 | enst00000235290 | sg00000231607 | dleu2-201 | 13 | 50043437 | 50081978 | - | lnc_RNA | lncrna |
| -50301 | enst00000421758 | sg00000231607 | dleu2-202 | 13 | 50049189 | 50081973 | - | lnc_RNA | lncrna |
| -50302 | enst00000443587 | sg00000231607 | dleu2-205 | 13 | 50044515 | 50081972 | - | lnc_RNA | lncrna |
| -50431 | enst00000620994 | sg00000275559 | al137060.5-201 | 13 | 50081843 | 50081978 | + | ncRNA | misc_rna |
| 51902 | enst00000484529 | sg00000176124 | dleu1-226 | 13 | 50185880 | 50390291 | + | lnc_RNA | lncrna |
| 51902 | enst00000475913 | sg00000176124 | dleu1-219 | 13 | 50185880 | 50492761 | + | lnc_RNA | lncrna |
| 51902 | enst00000485007 | sg00000176124 | dleu1-229 | 13 | 50185880 | 50528064 | + | lnc_RNA | lncrna |
| -56704 | enst00000615567 | sg00000277752 | al137060.8-201 | 13 | 50075570 | 50075653 | + | ncRNA | misc_rna |
| -64167 | enst00000610717 | sg00000273612 | al137060.2-201 | 13 | 50068107 | 50068164 | + | ncRNA | misc_rna |
| -82683 | enst00000620005 | sg00000274878 | al137060.4-201 | 13 | 50049591 | 50049663 | + | ncRNA | misc_rna |
| -83073 | enst00000607334 | sg00000283785 | mir15a-201 | 13 | 50049119 | 50049201 | - | miRNA | mirna |
| -83213 | enst00000385271 | sg00000208006 | mir16-1-201 | 13 | 50048973 | 50049061 | - | miRNA | mirna |
| -87131 | enst00000621691 | sg00000277066 | al137060.7-201 | 13 | 50045143 | 50045232 | + | ncRNA | misc_rna |
| 87295 | enst00000473075 | sg00000176124 | dleu1-217 | 13 | 50221273 | 50336404 | + | lnc_RNA | lncrna |
| -87625 | enst00000614667 | sg00000277913 | al137060.9-201 | 13 | 50044649 | 50044768 | + | ncRNA | misc_rna |
| 90303 | enst00000483444 | sg00000176124 | dleu1-225 | 13 | 50224281 | 50401366 | + | lnc_RNA | lncrna |
| -116830 | enst00000312942 | sg00000198553 | kcnrg-201 | 13 | 50015444 | 50020922 | + | mRNA | protein_coding |
| -117020 | enst00000360473 | sg00000198553 | kcnrg-202 | 13 | 50015254 | 50020920 | + | mRNA | protein_coding |
| -133489 | enst00000656688 | sg00000231607 | dleu2-210 | 13 | 49993711 | 49998785 | - | lnc_RNA | lncrna |
| -135114 | enst00000651713 | sg00000231607 | dleu2-209 | 13 | 49956733 | 49997160 | - | lnc_RNA | lncrna |
| -135138 | enst00000658343 | sg00000231607 | dleu2-211 | 13 | 49975947 | 49997136 | - | lnc_RNA | lncrna |
| -135215 | enst00000457662 | sg00000204977 | trim13-206 | 13 | 49997059 | 50013168 | + | mRNA | protein_coding |
| -135232 | enst00000378182 | sg00000204977 | trim13-202 | 13 | 49997042 | 50018467 | + | mRNA | protein_coding |
| -135237 | enst00000356017 | sg00000204977 | trim13-201 | 13 | 49997037 | 50013180 | + | mRNA | protein_coding |
| -135255 | enst00000478111 | sg00000204977 | trim13-208 | 13 | 49997019 | 50020481 | + | lnc_RNA | processed_transcript |
| -135255 | enst00000420995 | sg00000204977 | trim13-204 | 13 | 49997019 | 50014331 | + | mRNA | protein_coding |
| -135461 | enst00000474805 | sg00000204977 | trim13-207 | 13 | 49996813 | 50020481 | + | lnc_RNA | processed_transcript |
| -135771 | enst00000378183 | sg00000204977 | trim13-203 | 13 | 49996503 | 50012740 | + | mRNA | protein_coding |
| -135773 | enst00000579844 | sg00000264864 | mir3613-201 | 13 | 49996415 | 49996501 | - | miRNA | mirna |
| -136386 | enst00000442421 | sg00000204977 | trim13-205 | 13 | 49995888 | 50012327 | + | mRNA | protein_coding |
| -152728 | enst00000668133 | sg00000231607 | dleu2-217 | 13 | 49974773 | 49979546 | - | lnc_RNA | lncrna |
| -152826 | enst00000661799 | sg00000231607 | dleu2-213 | 13 | 49956825 | 49979448 | - | lnc_RNA | lncrna |
| -153091 | enst00000665220 | sg00000231607 | dleu2-215 | 13 | 49956670 | 49979183 | - | lnc_RNA | lncrna |
| 159444 | enst00000469127 | sg00000176124 | dleu1-212 | 13 | 50293422 | 50415202 | + | lnc_RNA | lncrna |
| 176184 | enst00000463357 | sg00000176124 | dleu1-206 | 13 | 50310162 | 50390291 | + | lnc_RNA | lncrna |
| 195656 | enst00000489542 | sg00000176124 | dleu1-231 | 13 | 50329634 | 50401366 | + | lnc_RNA | lncrna |
| -195784 | enst00000378195 | sg00000123178 | spryd7-202 | 13 | 49912706 | 49936490 | - | mRNA | protein_coding |
| -195934 | enst00000361840 | sg00000123178 | spryd7-201 | 13 | 49912702 | 49936340 | - | mRNA | protein_coding |
| -195967 | enst00000613924 | sg00000123178 | spryd7-204 | 13 | 49912710 | 49936307 | - | mRNA | protein_coding |
| -196521 | enst00000492258 | sg00000123178 | spryd7-203 | 13 | 49931018 | 49935753 | - | lnc_RNA | processed_transcript |
| -223544 | enst00000363194 | sg00000200064 | rny4p9-201 | 13 | 49908634 | 49908730 | - | ncRNA | misc_rna |
| 227785 | enst00000445636 | sg00000223676 | rpl34p26-201 | 13 | 50361410 | 50361763 | - | pseudogenic_transcript | processed_pseudogene |
| -241683 | enst00000318353 | sg00000181358 | ctage10p-201 | 13 | 49890591 | 49892998 | + | pseudogenic_transcript | processed_pseudogene |
| -242546 | enst00000410216 | sg00000222148 | rny4p30-201 | 13 | 49889634 | 49889728 | - | ncRNA | misc_rna |
| 253180 | enst00000652118 | sg00000286191 | al158195.1-201 | 13 | 50372788 | 50387158 | - | lnc_RNA | lncrna |
| 256220 | enst00000479420 | sg00000176124 | dleu1-222 | 13 | 50390198 | 50648642 | + | lnc_RNA | lncrna |
| 256220 | enst00000491482 | sg00000176124 | dleu1-234 | 13 | 50390198 | 50528064 | + | lnc_RNA | lncrna |
| 256220 | enst00000474630 | sg00000176124 | dleu1-218 | 13 | 50390198 | 50528064 | + | lnc_RNA | lncrna |
| 256220 | enst00000470726 | sg00000176124 | dleu1-215 | 13 | 50390198 | 50723236 | + | lnc_RNA | lncrna |
| 263441 | enst00000647700 | sg00000176124 | dleu1-237 | 13 | 50397419 | 50654079 | + | lnc_RNA | lncrna |
| 263466 | enst00000480262 | sg00000176124 | dleu1-223 | 13 | 50397444 | 50415202 | + | lnc_RNA | lncrna |
| 267248 | enst00000469095 | sg00000176124 | dleu1-211 | 13 | 50401226 | 50528534 | + | lnc_RNA | lncrna |
| 267248 | enst00000484869 | sg00000176124 | dleu1-228 | 13 | 50401226 | 50631599 | + | lnc_RNA | lncrna |
| 267248 | enst00000483169 | sg00000176124 | dleu1-224 | 13 | 50401226 | 50409122 | + | lnc_RNA | lncrna |
| 281111 | enst00000462427 | sg00000176124 | dleu1-205 | 13 | 50415089 | 50533861 | + | lnc_RNA | lncrna |
| 281111 | enst00000460525 | sg00000176124 | dleu1-203 | 13 | 50415089 | 50533861 | + | lnc_RNA | lncrna |
| 281111 | enst00000470593 | sg00000176124 | dleu1-214 | 13 | 50415089 | 50528534 | + | lnc_RNA | lncrna |
| 281111 | enst00000472136 | sg00000176124 | dleu1-216 | 13 | 50415089 | 50495469 | + | lnc_RNA | lncrna |
| 281111 | enst00000498557 | sg00000176124 | dleu1-236 | 13 | 50415089 | 50475566 | + | lnc_RNA | lncrna |
| -339388 | enst00000615830 | sg00000276436 | al136301.1-201 | 13 | 49792886 | 49793307 | + | lnc_RNA | lncrna |
| -339592 | enst00000261667 | sg00000102753 | kpna3-201 | 13 | 49699320 | 49792682 | - | mRNA | protein_coding |
| 358666 | enst00000484606 | sg00000176124 | dleu1-227 | 13 | 50492644 | 50512893 | + | lnc_RNA | lncrna |
| 393471 | enst00000428276 | sg00000186047 | dleu7-202 | 13 | 50520933 | 50527449 | - | lnc_RNA | processed_transcript |
| -426522 | enst00000436760 | sg00000102753 | kpna3-202 | 13 | 49701210 | 49705752 | - | mRNA | protein_coding |
| -440788 | enst00000242827 | sg00000123179 | ebpl-201 | 13 | 49660674 | 49691486 | - | mRNA | protein_coding |
| -440811 | enst00000378268 | sg00000123179 | ebpl-202 | 13 | 49668170 | 49691463 | - | mRNA | protein_coding |
| -440811 | enst00000495963 | sg00000123179 | ebpl-207 | 13 | 49660723 | 49691463 | - | lnc_RNA | processed_transcript |
| -440811 | enst00000378284 | sg00000123179 | ebpl-205 | 13 | 49660723 | 49691463 | - | mRNA | protein_coding |
| -440811 | enst00000378272 | sg00000123179 | ebpl-204 | 13 | 49660723 | 49691463 | - | mRNA | protein_coding |
| -440817 | enst00000378270 | sg00000123179 | ebpl-203 | 13 | 49660834 | 49691457 | - | mRNA | protein_coding |
| -440836 | enst00000473576 | sg00000123179 | ebpl-206 | 13 | 49660723 | 49691438 | - | 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