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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 |
|---|---|---|---|---|---|---|---|---|
| #61 | 7 | 767536 | 768780 | 1244 | 3 | 46 | 1.85513e-20 | 3.02447e-18 |
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 | enst00000403952 | sg00000164818 | dnaaf5-202 | 7 | 768475 | 786044 | + | mRNA | protein_coding |
| -3629 | enst00000491496 | sg00000164818 | dnaaf5-208 | 7 | 763907 | 772975 | + | lnc_RNA | retained_intron |
| 9402 | enst00000486546 | sg00000164818 | dnaaf5-207 | 7 | 778182 | 779984 | + | lnc_RNA | processed_transcript |
| 11124 | enst00000461576 | sg00000164818 | dnaaf5-206 | 7 | 779904 | 785573 | + | lnc_RNA | retained_intron |
| -39886 | enst00000403562 | sg00000188191 | prkar1b-203 | 7 | 549742 | 727650 | - | mRNA | protein_coding |
| -40195 | enst00000417852 | sg00000188191 | prkar1b-206 | 7 | 607396 | 727341 | - | mRNA | protein_coding |
| -40255 | enst00000537384 | sg00000188191 | prkar1b-211 | 7 | 549198 | 727281 | - | mRNA | protein_coding |
| -40281 | enst00000440747 | sg00000164818 | dnaaf5-205 | 7 | 727255 | 786031 | + | mRNA | protein_coding |
| -40284 | enst00000438961 | sg00000164818 | dnaaf5-204 | 7 | 727252 | 750953 | + | lnc_RNA | processed_transcript |
| -40299 | enst00000488474 | sg00000188191 | prkar1b-210 | 7 | 696713 | 727237 | - | lnc_RNA | processed_transcript |
| -40317 | enst00000437419 | sg00000164818 | dnaaf5-203 | 7 | 727219 | 756792 | + | mRNA | protein_coding |
| -40559 | enst00000478198 | sg00000188191 | prkar1b-209 | 7 | 716619 | 726977 | - | lnc_RNA | processed_transcript |
| -40837 | enst00000297440 | sg00000164818 | dnaaf5-201 | 7 | 726699 | 786475 | + | mRNA | protein_coding |
| 47835 | enst00000452783 | sg00000164828 | sun1-219 | 7 | 816615 | 874920 | + | mRNA | protein_coding |
| 47835 | enst00000389574 | sg00000164828 | sun1-202 | 7 | 816615 | 874902 | + | mRNA | protein_coding |
| 47835 | enst00000457378 | sg00000164828 | sun1-220 | 7 | 816615 | 843872 | + | mRNA | protein_coding |
| 47835 | enst00000450538 | sg00000164828 | sun1-217 | 7 | 816615 | 843006 | + | lnc_RNA | processed_transcript |
| 47835 | enst00000427969 | sg00000164828 | sun1-211 | 7 | 816615 | 842568 | + | lnc_RNA | processed_transcript |
| 47843 | enst00000435699 | sg00000164828 | sun1-214 | 7 | 816623 | 843385 | + | mRNA | protein_coding |
| 47863 | enst00000440380 | sg00000164828 | sun1-216 | 7 | 816643 | 838986 | + | mRNA | protein_coding |
| 47975 | enst00000439679 | sg00000164828 | sun1-215 | 7 | 816755 | 842086 | + | mRNA | protein_coding |
| 48086 | enst00000424128 | sg00000164828 | sun1-209 | 7 | 816866 | 838986 | + | mRNA | protein_coding |
| -54329 | enst00000406797 | sg00000188191 | prkar1b-204 | 7 | 549198 | 713207 | - | mRNA | protein_coding |
| -54467 | enst00000456696 | sg00000188191 | prkar1b-208 | 7 | 680556 | 713069 | - | mRNA | protein_coding |
| -54596 | enst00000544935 | sg00000188191 | prkar1b-212 | 7 | 549197 | 712940 | - | mRNA | protein_coding |
| -54596 | enst00000430040 | sg00000188191 | prkar1b-207 | 7 | 579256 | 712940 | - | mRNA | protein_coding |
| -54964 | enst00000360274 | sg00000188191 | prkar1b-201 | 7 | 549750 | 712572 | - | mRNA | protein_coding |
| 62150 | enst00000457598 | sg00000164828 | sun1-221 | 7 | 830930 | 842035 | + | mRNA | protein_coding |
| 63142 | enst00000421580 | sg00000164828 | sun1-208 | 7 | 831922 | 842019 | + | mRNA | protein_coding |
| 63696 | enst00000401592 | sg00000164828 | sun1-203 | 7 | 832476 | 874934 | + | mRNA | protein_coding |
| 63721 | enst00000340926 | sg00000164828 | sun1-201 | 7 | 832501 | 850767 | + | lnc_RNA | retained_intron |
| 63721 | enst00000413171 | sg00000164828 | sun1-206 | 7 | 832501 | 874902 | + | lnc_RNA | retained_intron |
| 63721 | enst00000405266 | sg00000164828 | sun1-205 | 7 | 832501 | 874900 | + | mRNA | protein_coding |
| 63723 | enst00000403868 | sg00000164828 | sun1-204 | 7 | 832503 | 843818 | + | mRNA | protein_coding |
| 63725 | enst00000467483 | sg00000164828 | sun1-226 | 7 | 832505 | 843834 | + | lnc_RNA | retained_intron |
| 63725 | enst00000425407 | sg00000164828 | sun1-210 | 7 | 832505 | 874920 | + | mRNA | protein_coding |
| 63727 | enst00000483996 | sg00000164828 | sun1-232 | 7 | 832507 | 839180 | + | lnc_RNA | retained_intron |
| 64175 | enst00000469755 | sg00000164828 | sun1-227 | 7 | 832955 | 842073 | + | lnc_RNA | processed_transcript |
| 70016 | enst00000450881 | sg00000164828 | sun1-218 | 7 | 838796 | 852651 | + | mRNA | protein_coding |
| 73036 | enst00000493681 | sg00000164828 | sun1-234 | 7 | 841816 | 848421 | + | lnc_RNA | retained_intron |
| 73132 | enst00000477950 | sg00000164828 | sun1-230 | 7 | 841912 | 843669 | + | lnc_RNA | retained_intron |
| 74141 | enst00000471349 | sg00000164828 | sun1-228 | 7 | 842921 | 848494 | + | lnc_RNA | retained_intron |
| 74561 | enst00000419312 | sg00000164828 | sun1-207 | 7 | 843341 | 851481 | + | mRNA | protein_coding |
| 74590 | enst00000429178 | sg00000164828 | sun1-212 | 7 | 843370 | 874899 | + | mRNA | protein_coding |
| -75742 | enst00000414568 | sg00000188191 | prkar1b-205 | 7 | 596180 | 691794 | - | mRNA | protein_coding |
| 79828 | enst00000433212 | sg00000164828 | sun1-213 | 7 | 848608 | 874902 | + | mRNA | protein_coding |
| 81021 | enst00000464442 | sg00000164828 | sun1-225 | 7 | 849801 | 852907 | + | lnc_RNA | retained_intron |
| 81037 | enst00000480475 | sg00000164828 | sun1-231 | 7 | 849817 | 852878 | + | lnc_RNA | retained_intron |
| 82387 | enst00000488628 | sg00000164828 | sun1-233 | 7 | 851167 | 852824 | + | lnc_RNA | retained_intron |
| 82770 | enst00000463848 | sg00000164828 | sun1-224 | 7 | 851550 | 852773 | + | lnc_RNA | retained_intron |
| 83170 | enst00000457861 | sg00000164828 | sun1-222 | 7 | 851950 | 896435 | + | mRNA | nonsense_mediated_decay |
| 83412 | enst00000459810 | sg00000164828 | sun1-223 | 7 | 852192 | 852902 | + | lnc_RNA | retained_intron |
| 83467 | enst00000475971 | sg00000164828 | sun1-229 | 7 | 852247 | 874902 | + | lnc_RNA | retained_intron |
| 99694 | enst00000497943 | sg00000164828 | sun1-235 | 7 | 868474 | 874902 | + | lnc_RNA | retained_intron |
| 107774 | enst00000265857 | sg00000239857 | get4-201 | 7 | 876554 | 896436 | + | mRNA | protein_coding |
| 109125 | enst00000412734 | sg00000239857 | get4-203 | 7 | 877905 | 891066 | + | mRNA | protein_coding |
| 114763 | enst00000407192 | sg00000239857 | get4-202 | 7 | 883543 | 896436 | + | mRNA | protein_coding |
| 115244 | enst00000441491 | sg00000239857 | get4-205 | 7 | 884024 | 887519 | + | mRNA | protein_coding |
| 117767 | enst00000609998 | sg00000273151 | ac073957.3-201 | 7 | 879790 | 886547 | - | lnc_RNA | lncrna |
| 118253 | enst00000426056 | sg00000239857 | get4-204 | 7 | 887033 | 891054 | + | mRNA | protein_coding |
| 118706 | enst00000483469 | sg00000239857 | get4-207 | 7 | 887486 | 892474 | + | lnc_RNA | retained_intron |
| 123520 | enst00000464468 | sg00000239857 | get4-206 | 7 | 892300 | 895658 | + | lnc_RNA | retained_intron |
| 132619 | enst00000495809 | sg00000105963 | adap1-215 | 7 | 897945 | 901399 | - | lnc_RNA | retained_intron |
| 136297 | enst00000453175 | sg00000105963 | adap1-206 | 7 | 898917 | 905077 | - | mRNA | protein_coding |
| 136358 | enst00000481406 | sg00000105963 | adap1-212 | 7 | 903957 | 905138 | - | lnc_RNA | retained_intron |
| 136836 | enst00000478000 | sg00000105963 | adap1-211 | 7 | 897910 | 905616 | - | lnc_RNA | retained_intron |
| 152109 | enst00000617043 | sg00000105963 | adap1-218 | 7 | 897901 | 920889 | - | mRNA | protein_coding |
| 152109 | enst00000437486 | sg00000105963 | adap1-203 | 7 | 899465 | 920889 | - | mRNA | protein_coding |
| 154558 | enst00000488527 | sg00000105963 | adap1-213 | 7 | 904247 | 923338 | - | lnc_RNA | processed_transcript |
| 158275 | enst00000495686 | sg00000105963 | adap1-214 | 7 | 919968 | 927055 | - | lnc_RNA | retained_intron |
| 158436 | enst00000446141 | sg00000105963 | adap1-204 | 7 | 897909 | 927216 | - | mRNA | protein_coding |
| 158436 | enst00000449296 | sg00000105963 | adap1-205 | 7 | 897901 | 927216 | - | mRNA | protein_coding |
| 158734 | enst00000453823 | sg00000105963 | adap1-207 | 7 | 900533 | 927514 | - | mRNA | protein_coding |
| -164351 | enst00000429872 | sg00000237181 | ac147651.4-201 | 7 | 603185 | 608482 | + | lnc_RNA | lncrna |
| -164853 | enst00000400758 | sg00000188191 | prkar1b-202 | 7 | 550270 | 602683 | - | mRNA | protein_coding |
| 166400 | enst00000454383 | sg00000105963 | adap1-208 | 7 | 900142 | 935180 | - | mRNA | protein_coding |
| 177036 | enst00000611167 | sg00000105963 | adap1-217 | 7 | 897901 | 945816 | - | mRNA | protein_coding |
| 177036 | enst00000463358 | sg00000105963 | adap1-209 | 7 | 904152 | 945816 | - | lnc_RNA | processed_transcript |
| 185900 | enst00000265846 | sg00000105963 | adap1-201 | 7 | 897900 | 954680 | - | mRNA | protein_coding |
| 185917 | enst00000649206 | sg00000105963 | adap1-219 | 7 | 897903 | 954697 | - | mRNA | protein_coding |
| 186570 | enst00000477906 | sg00000105963 | adap1-210 | 7 | 904187 | 955350 | - | lnc_RNA | processed_transcript |
| 186626 | enst00000435943 | sg00000105963 | adap1-202 | 7 | 904247 | 955406 | - | mRNA | protein_coding |
| 186627 | enst00000539900 | sg00000105963 | adap1-216 | 7 | 897901 | 955407 | - | mRNA | protein_coding |
| -205578 | enst00000453149 | sg00000229380 | ac147651.2-201 | 7 | 561958 | 565619 | + | lnc_RNA | lncrna |
| 206336 | enst00000466853 | sg00000240230 | cox19-204 | 7 | 972942 | 975116 | - | lnc_RNA | retained_intron |
| 206769 | enst00000466146 | sg00000240230 | cox19-203 | 7 | 972701 | 975549 | - | lnc_RNA | retained_intron |
| 206769 | enst00000344111 | sg00000240230 | cox19-201 | 7 | 964852 | 975549 | - | mRNA | protein_coding |
| 206769 | enst00000457254 | sg00000240230 | cox19-202 | 7 | 898778 | 975549 | - | mRNA | nonsense_mediated_decay |
| 214401 | enst00000308919 | sg00000073067 | cyp2w1-201 | 7 | 983181 | 989640 | + | mRNA | protein_coding |
| 214578 | enst00000340150 | sg00000073067 | cyp2w1-202 | 7 | 983358 | 989640 | + | mRNA | protein_coding |
| 217621 | enst00000462453 | sg00000073067 | cyp2w1-204 | 7 | 986401 | 987275 | + | lnc_RNA | retained_intron |
| 217634 | enst00000468456 | sg00000073067 | cyp2w1-205 | 7 | 986414 | 987380 | + | lnc_RNA | retained_intron |
| 217877 | enst00000415893 | sg00000073067 | cyp2w1-203 | 7 | 986657 | 988804 | + | mRNA | protein_coding |
| -244963 | enst00000656962 | sg00000223855 | ac147651.1-204 | 7 | 522573 | 525232 | + | lnc_RNA | lncrna |
| -244982 | enst00000662957 | sg00000223855 | ac147651.1-203 | 7 | 522554 | 525238 | + | lnc_RNA | lncrna |
| -244994 | enst00000663680 | sg00000223855 | ac147651.1-202 | 7 | 522542 | 525233 | + | lnc_RNA | lncrna |
| -247145 | enst00000452622 | sg00000223855 | ac147651.1-201 | 7 | 520391 | 525232 | + | lnc_RNA | lncrna |
| -247240 | enst00000405692 | sg00000197461 | pdgfa-204 | 7 | 512357 | 520296 | - | mRNA | protein_coding |
| -247328 | enst00000426681 | sg00000197461 | pdgfa-205 | 7 | 512445 | 520208 | - | lnc_RNA | processed_transcript |
| -248127 | enst00000402802 | sg00000197461 | pdgfa-203 | 7 | 497258 | 519409 | - | mRNA | protein_coding |
| -248142 | enst00000354513 | sg00000197461 | pdgfa-201 | 7 | 498309 | 519394 | - | mRNA | protein_coding |
| -249028 | enst00000400761 | sg00000197461 | pdgfa-202 | 7 | 498493 | 518508 | - | mRNA | protein_coding |
| -254069 | enst00000482462 | sg00000197461 | pdgfa-206 | 7 | 500778 | 513467 | - | lnc_RNA | retained_intron |
| 254246 | enst00000362153 | sg00000199023 | mir339-201 | 7 | 1022933 | 1023026 | - | miRNA | mirna |
| 259559 | enst00000412051 | sg00000146540 | c7orf50-204 | 7 | 997016 | 1028339 | - | mRNA | protein_coding |
| 259572 | enst00000465681 | sg00000146540 | c7orf50-206 | 7 | 1024502 | 1028352 | - | lnc_RNA | retained_intron |
| 260245 | enst00000418941 | sg00000225146 | ac073957.1-201 | 7 | 1029025 | 1043891 | + | lnc_RNA | lncrna |
| -271418 | enst00000434541 | sg00000234471 | ac147651.3-201 | 7 | 484107 | 496118 | - | lnc_RNA | lncrna |
| 275766 | enst00000444847 | sg00000164849 | gpr146-203 | 7 | 1044546 | 1059261 | + | mRNA | protein_coding |
| 275825 | enst00000481403 | sg00000164849 | gpr146-205 | 7 | 1044605 | 1045816 | + | lnc_RNA | processed_transcript |
| 286499 | enst00000474396 | sg00000164849 | gpr146-204 | 7 | 1055279 | 1056552 | + | lnc_RNA | processed_transcript |
| 286505 | enst00000397095 | sg00000164849 | gpr146-201 | 7 | 1055285 | 1059261 | + | mRNA | protein_coding |
| 286526 | enst00000444428 | sg00000146540 | c7orf50-205 | 7 | 997607 | 1055306 | - | mRNA | protein_coding |
| 287877 | enst00000427680 | sg00000164849 | gpr146-202 | 7 | 1056657 | 1057631 | + | mRNA | protein_coding |
| 290481 | enst00000549241 | sg00000257607 | ac073957.2-201 | 7 | 1055360 | 1059261 | - | lnc_RNA | lncrna |
| 305670 | enst00000449721 | sg00000224079 | ac091729.1-201 | 7 | 1074450 | 1078036 | + | lnc_RNA | lncrna |
| 312083 | enst00000415656 | sg00000226291 | ac091729.2-201 | 7 | 1080863 | 1082178 | + | lnc_RNA | lncrna |
| 313428 | enst00000401670 | sg00000164850 | gper1-204 | 7 | 1082208 | 1092881 | + | mRNA | protein_coding |
| 318027 | enst00000397092 | sg00000164850 | gper1-203 | 7 | 1086807 | 1093815 | + | mRNA | protein_coding |
| 318027 | enst00000413368 | sg00000164850 | gper1-205 | 7 | 1086807 | 1091949 | + | mRNA | protein_coding |
| 318096 | enst00000297469 | sg00000164850 | gper1-201 | 7 | 1086876 | 1093815 | + | mRNA | protein_coding |
| 319333 | enst00000397088 | sg00000164850 | gper1-202 | 7 | 1088113 | 1093810 | + | mRNA | protein_coding |
| -321255 | enst00000665027 | sg00000286764 | ac188617.2-201 | 7 | 446281 | 448823 | + | lnc_RNA | lncrna |
| 322848 | enst00000617001 | sg00000164850 | gper1-206 | 7 | 1091628 | 1093809 | + | mRNA | protein_coding |
| 324158 | enst00000619052 | sg00000164850 | gper1-207 | 7 | 1092938 | 1093741 | + | mRNA | protein_coding |
| -342053 | enst00000652788 | sg00000286710 | ac188617.1-203 | 7 | 425483 | 428341 | + | lnc_RNA | lncrna |
| -342054 | enst00000664509 | sg00000286710 | ac188617.1-202 | 7 | 425482 | 439389 | + | lnc_RNA | lncrna |
| -342163 | enst00000659509 | sg00000286710 | ac188617.1-201 | 7 | 425373 | 430834 | + | lnc_RNA | lncrna |
| 358608 | enst00000488073 | sg00000146540 | c7orf50-207 | 7 | 997494 | 1127388 | - | lnc_RNA | processed_transcript |
| 369467 | enst00000397098 | sg00000146540 | c7orf50-202 | 7 | 997006 | 1138247 | - | mRNA | protein_coding |
| 369477 | enst00000397100 | sg00000146540 | c7orf50-203 | 7 | 996987 | 1138257 | - | mRNA | protein_coding |
| 369477 | enst00000357429 | sg00000146540 | c7orf50-201 | 7 | 996986 | 1138257 | - | mRNA | protein_coding |
| 369480 | enst00000491163 | sg00000146540 | c7orf50-208 | 7 | 997633 | 1138260 | - | mRNA | protein_coding |
| 386897 | enst00000471448 | sg00000178381 | zfand2a-204 | 7 | 1152906 | 1155677 | - | lnc_RNA | retained_intron |
| -388177 | enst00000515213 | sg00000249574 | ac226118.1-201 | 7 | 379359 | 382712 | + | lnc_RNA | lncrna |
| 388952 | enst00000574135 | sg00000178381 | zfand2a-207 | 7 | 1152906 | 1157732 | - | mRNA | protein_coding |
| 391373 | enst00000397083 | sg00000178381 | zfand2a-202 | 7 | 1152906 | 1160153 | - | mRNA | protein_coding |
| 391398 | enst00000401903 | sg00000178381 | zfand2a-203 | 7 | 1152071 | 1160178 | - | mRNA | protein_coding |
| 391416 | enst00000316495 | sg00000178381 | zfand2a-201 | 7 | 1152907 | 1160196 | - | mRNA | protein_coding |
| 391439 | enst00000484977 | sg00000178381 | zfand2a-206 | 7 | 1157023 | 1160219 | - | lnc_RNA | retained_intron |
| 391594 | enst00000423008 | sg00000229043 | ac091729.3-201 | 7 | 1160374 | 1165580 | + | lnc_RNA | lncrna |
| 391652 | enst00000662926 | sg00000229043 | ac091729.3-203 | 7 | 1160432 | 1165607 | + | lnc_RNA | lncrna |
| 391652 | enst00000660500 | sg00000229043 | ac091729.3-202 | 7 | 1160432 | 1165580 | + | lnc_RNA | lncrna |
| 391714 | enst00000422230 | sg00000229043 | ac091729.3-204 | 7 | 1160494 | 1164575 | + | lnc_RNA | lncrna |
| 391801 | enst00000659975 | sg00000229043 | ac091729.3-205 | 7 | 1160581 | 1165212 | + | lnc_RNA | lncrna |
| 391811 | enst00000413706 | sg00000229043 | ac091729.3-206 | 7 | 1160591 | 1163491 | + | lnc_RNA | lncrna |
| 391816 | enst00000655003 | sg00000229043 | ac091729.3-207 | 7 | 1160596 | 1165607 | + | lnc_RNA | lncrna |
| 391979 | enst00000478137 | sg00000178381 | zfand2a-205 | 7 | 1160026 | 1160759 | - | lnc_RNA | processed_transcript |
| -434364 | enst00000670013 | sg00000287342 | ac188616.1-201 | 7 | 329776 | 333172 | - | lnc_RNA | lncrna |
| 464092 | enst00000316333 | sg00000164853 | uncx-201 | 7 | 1232872 | 1237326 | + | mRNA | protein_coding |
| -476192 | enst00000510017 | sg00000248767 | ac187653.1-202 | 7 | 291344 | 294422 | + | mRNA | nonsense_mediated_decay |
| -477366 | enst00000506382 | sg00000248767 | ac187653.1-201 | 7 | 290170 | 291488 | + | mRNA | protein_coding |
| 498573 | enst00000453798 | sg00000233082 | ac073094.1-201 | 7 | 1267353 | 1269267 | + | 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