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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 |
|---|---|---|---|---|---|---|---|---|
| #3 | 16 | 54936192 | 54939415 | 3223 | 3 | 107 | 4.19706e-45 | 1.39133e-41 |
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 | enst00000558156 | sg00000259725 | ac106738.2-202 | 16 | 54938031 | 54938671 | - | lnc_RNA | lncrna |
| 0 | enst00000559802 | sg00000259725 | ac106738.2-201 | 16 | 54937786 | 54938671 | - | lnc_RNA | lncrna |
| -1279 | enst00000560487 | sg00000259711 | ac106738.1-201 | 16 | 54934913 | 54954665 | + | lnc_RNA | lncrna |
| -4120 | enst00000558597 | sg00000176842 | irx5-203 | 16 | 54932072 | 54934069 | + | lnc_RNA | retained_intron |
| -4993 | enst00000320990 | sg00000176842 | irx5-201 | 16 | 54931199 | 54934485 | + | mRNA | protein_coding |
| -4993 | enst00000620085 | sg00000176842 | irx5-205 | 16 | 54931199 | 54933960 | + | mRNA | protein_coding |
| -4993 | enst00000560154 | sg00000176842 | irx5-204 | 16 | 54931199 | 54933960 | + | mRNA | protein_coding |
| -5327 | enst00000394636 | sg00000176842 | irx5-202 | 16 | 54930865 | 54934485 | + | mRNA | protein_coding |
| -7003 | enst00000660344 | sg00000245694 | crnde-220 | 16 | 54917956 | 54929189 | - | lnc_RNA | lncrna |
| -7043 | enst00000560208 | sg00000245694 | crnde-209 | 16 | 54924859 | 54929149 | - | lnc_RNA | lncrna |
| -7306 | enst00000558952 | sg00000245694 | crnde-205 | 16 | 54919157 | 54928886 | - | lnc_RNA | lncrna |
| -7334 | enst00000668556 | sg00000245694 | crnde-224 | 16 | 54916492 | 54928858 | - | lnc_RNA | lncrna |
| -7345 | enst00000557792 | sg00000245694 | crnde-203 | 16 | 54918967 | 54928847 | - | lnc_RNA | lncrna |
| -7349 | enst00000661493 | sg00000245694 | crnde-222 | 16 | 54852903 | 54928843 | - | lnc_RNA | lncrna |
| -7354 | enst00000502066 | sg00000245694 | crnde-202 | 16 | 54917968 | 54928838 | - | lnc_RNA | lncrna |
| -7365 | enst00000559598 | sg00000245694 | crnde-207 | 16 | 54917970 | 54928827 | - | lnc_RNA | lncrna |
| -7380 | enst00000560912 | sg00000245694 | crnde-210 | 16 | 54919173 | 54928812 | - | lnc_RNA | lncrna |
| -7476 | enst00000559432 | sg00000245694 | crnde-206 | 16 | 54919066 | 54928716 | - | lnc_RNA | lncrna |
| -7614 | enst00000501177 | sg00000245694 | crnde-201 | 16 | 54918863 | 54928578 | - | lnc_RNA | lncrna |
| -7898 | enst00000655114 | sg00000245694 | crnde-216 | 16 | 54919047 | 54928294 | - | lnc_RNA | lncrna |
| -8002 | enst00000657142 | sg00000245694 | crnde-217 | 16 | 54918942 | 54928190 | - | lnc_RNA | lncrna |
| -8466 | enst00000661312 | sg00000245694 | crnde-221 | 16 | 54918917 | 54927726 | - | lnc_RNA | lncrna |
| -11048 | enst00000613942 | sg00000245694 | crnde-212 | 16 | 54851640 | 54925144 | - | lnc_RNA | lncrna |
| -12304 | enst00000558031 | sg00000245694 | crnde-204 | 16 | 54919011 | 54923888 | - | lnc_RNA | lncrna |
| -15576 | enst00000560029 | sg00000245694 | crnde-208 | 16 | 54918870 | 54920616 | - | lnc_RNA | lncrna |
| -62022 | enst00000658082 | sg00000245694 | crnde-218 | 16 | 54851643 | 54874170 | - | lnc_RNA | lncrna |
| -62024 | enst00000637011 | sg00000245694 | crnde-214 | 16 | 54847247 | 54874168 | - | lnc_RNA | lncrna |
| 68567 | enst00000568888 | sg00000260147 | mtnd5p34-201 | 16 | 55007982 | 55008306 | + | pseudogenic_transcript | processed_pseudogene |
| -87873 | enst00000659020 | sg00000245694 | crnde-219 | 16 | 54847247 | 54848319 | - | lnc_RNA | lncrna |
| -87882 | enst00000654070 | sg00000245694 | crnde-215 | 16 | 54847175 | 54848310 | - | lnc_RNA | lncrna |
| -87914 | enst00000635991 | sg00000245694 | crnde-213 | 16 | 54845189 | 54848278 | - | lnc_RNA | lncrna |
| -87943 | enst00000667913 | sg00000245694 | crnde-223 | 16 | 54847247 | 54848249 | - | lnc_RNA | lncrna |
| -87959 | enst00000561591 | sg00000245694 | crnde-211 | 16 | 54847247 | 54848233 | - | lnc_RNA | lncrna |
| -88876 | enst00000659355 | sg00000286357 | ac106742.1-201 | 16 | 54847316 | 54854991 | + | lnc_RNA | lncrna |
| 109903 | enst00000650608 | sg00000285775 | ac109136.1-201 | 16 | 55045700 | 55049318 | - | lnc_RNA | lncrna |
| -278530 | enst00000637560 | sg00000283258 | ac007491.1-201 | 16 | 54628963 | 54657662 | - | lnc_RNA | lncrna |
| -301855 | enst00000637961 | sg00000283258 | ac007491.1-202 | 16 | 54631754 | 54634337 | - | lnc_RNA | lncrna |
| 352260 | enst00000470547 | sg00000239555 | rn7sl841p-201 | 16 | 55291379 | 55291675 | - | ncRNA | misc_rna |
| -377092 | enst00000637822 | sg00000283304 | linc02183-201 | 16 | 54542808 | 54559100 | - | lnc_RNA | lncrna |
| 383271 | enst00000637882 | sg00000283423 | ac109462.3-201 | 16 | 55321575 | 55322686 | - | lnc_RNA | lncrna |
| 384345 | enst00000290552 | sg00000159387 | irx6-201 | 16 | 55323760 | 55330760 | + | mRNA | protein_coding |
| 386385 | enst00000558315 | sg00000159387 | irx6-202 | 16 | 55325800 | 55327796 | + | lnc_RNA | processed_transcript |
| 392940 | enst00000573934 | sg00000263207 | ac109462.2-201 | 16 | 55332355 | 55332967 | + | lnc_RNA | lncrna |
| 394173 | enst00000558730 | sg00000259283 | ac109462.1-201 | 16 | 55259969 | 55333588 | - | lnc_RNA | lncrna |
| 413673 | enst00000491087 | sg00000240760 | rpl31p56-201 | 16 | 55352721 | 55353088 | - | pseudogenic_transcript | processed_pseudogene |
| -444796 | enst00000660981 | sg00000286845 | ac007343.1-201 | 16 | 54490281 | 54491396 | - | lnc_RNA | lncrna |
| 450285 | enst00000570308 | sg00000087245 | mmp2-208 | 16 | 55389700 | 55506237 | + | mRNA | protein_coding |
| 486715 | enst00000611626 | sg00000274508 | ac007336.2-201 | 16 | 55425574 | 55426130 | - | lnc_RNA | lncrna |
| 488536 | enst00000620495 | sg00000260135 | mmp2-as1-203 | 16 | 55426797 | 55427951 | - | lnc_RNA | lncrna |
| 489223 | enst00000664911 | sg00000260135 | mmp2-as1-204 | 16 | 55426803 | 55428638 | - | 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