Peak file = 0110.bed Genome = hg19 Organism = human Peak/BED file conversion summary: BED/Header formatted lines: 103 peakfile formatted lines: 0 Duplicated Peak IDs: 0 Peak File Statistics: Total Peaks: 103 Redundant Peak IDs: 0 Peaks lacking information: 0 (need at least 5 columns per peak) Peaks with misformatted coordinates: 0 (should be integer) Peaks with misformatted strand: 0 (should be either +/- or 0/1) Peak file looks good! Reading Positions... ----------------------- Finding Closest TSS... Annotating:....................... Annotation Number of peaks Total size (bp) Log2 Enrichment 3UTR 0.0 21206653 -6.658 miRNA 0.0 48673 -6.658 ncRNA 0.0 4979460 -6.658 TTS 0.0 27136640 -6.658 pseudo 0.0 1670742 -6.658 Exon 0.0 33177447 -6.658 Intron 33.0 1154618759 -0.241 Intergenic 67.0 1714795795 0.210 Promoter 0.0 30232689 -6.658 5UTR 1.0 2434010 3.605 snoRNA 0.0 119 -6.658 snRNA 0.0 87 -6.658 NOTE: If this part takes more than 2 minutes, there is a good chance your machine ran out of memory: consider hitting ctrl+C and rerunning the command with "-noann" To capture annotation stats in a file, use "-annStats " next time Annotating:........................ Annotation Number of peaks Total size (bp) Log2 Enrichment 3UTR 0.0 21206653 -6.687 Other 5.0 3843749 5.240 Unknown? 0.0 17957 -6.687 RNA 0.0 112622 -6.687 miRNA 0.0 48673 -6.687 ncRNA 0.0 4979460 -6.687 TTS 0.0 27136640 -6.687 LINE 42.0 607825210 1.006 LINE? 0.0 9910 -6.687 srpRNA 0.0 243241 -6.687 SINE 10.0 368723711 -0.344 RC 0.0 428190 -6.687 tRNA 0.0 91350 -6.687 DNA? 0.0 255895 -6.687 pseudo 0.0 1670742 -6.687 DNA 0.0 93390610 -6.687 Exon 0.0 33177447 -6.687 Intron 9.0 613331729 -1.230 Intergenic 3.0 866221636 -3.313 Promoter 0.0 30232689 -6.687 5UTR 1.0 2434010 3.577 snoRNA 0.0 119 -6.687 LTR? 0.0 20793 -6.687 scRNA 0.0 112951 -6.687 CpG-Island 2.0 9052843 2.682 Low_complexity 1.0 15123811 0.942 LTR 0.0 254515913 -6.687 Simple_repeat 5.0 24316833 2.579 snRNA 0.0 310855 -6.687 Unknown 0.0 1220747 -6.687 SINE? 0.0 41615 -6.687 Satellite 25.0 12424293 5.869 rRNA 0.0 160750 -6.687 Counting Tags in Peaks from each directory... Organism: human Loading Gene Informaiton... Outputing Annotation File... PeakID (cmd=annotatePeaks.pl 0110.bed hg19) Chr Start End Strand Peak Score Focus Ratio/Region Size Annotation Detailed Annotation Distance to TSS Nearest PromoterID Entrez ID Nearest Unigene Nearest Refseq Nearest Ensembl Gene Name Gene Alias Gene Description Gene Type 13-PTNLD9-TUMOR_peak_8900 chr11 5486308 5486420 + 19.44707 NA intron (NR_038321, intron 1 of 4) AluYa5|SINE|Alu 11726 NM_001004754 390064 Hs.553733 NM_001004754 HPRD:15000 OR51I2 OR11-38 olfactory receptor, family 51, subfamily I, member 2 protein-coding 13-PTNLD9-TUMOR_peak_20692 chr17 22223679 22223805 + 18.06614 NA Intergenic ALR/Alpha|Satellite|centr 201305 NM_001190452 100462977 Hs.740185 NM_001190452 ENSG00000256618 MTRNR2L1 HN1 MT-RNR2-like 1 protein-coding 13-PTNLD9-TUMOR_peak_51014 chr8 59952758 59952871 + 17.28058 NA intron (NM_014729, intron 1 of 8) AluYa5|SINE|Alu 78953 NM_014729 9760 Hs.491805 NM_014729 HPRD:12113 TOX TOX1 thymocyte selection-associated high mobility group box protein-coding 13-PTNLD9-TUMOR_peak_6306 chr10 3453369 3453511 + 17.28058 NA Intergenic Intergenic -238407 NM_001242307 10531 Hs.528300 NM_014889 HPRD:07142 PITRM1 MP1|PreP pitrilysin metallopeptidase 1 protein-coding 13-PTNLD9-TUMOR_peak_49852 chr7 157943999 157944187 + 17.02694 NA intron (NM_130842, intron 5 of 21) (CCTG)n|Simple_repeat|Simple_repeat 296816 NR_038966 100506585 Hs.661265 NR_038966 ENSG00000233038 LOC100506585 - uncharacterized LOC100506585 ncRNA 13-PTNLD9-TUMOR_peak_7082 chr10 42442494 42442612 + 15.07166 NA Intergenic ALR/Alpha|Satellite|centr 420940 NR_024380 441666 Hs.255729 NR_024380 ENSG00000215146 LOC441666 - zinc finger protein 91 pseudogene pseudo 13-PTNLD9-TUMOR_peak_50795 chr8 43805730 43805849 + 14.29659 NA Intergenic ALR/Alpha|Satellite|centr 658204 NM_001005365 340441 Hs.531579 NM_001002920 POTEA A26A1|CT104.3|POTE-8|POTE8 POTE ankyrin domain family, member A protein-coding 13-PTNLD9-TUMOR_peak_52620 chr9 1778207 1778319 + 13.86151 NA Intergenic AluYa5|SINE|Alu -236956 NM_003070 6595 Hs.298990 NM_003070 HPRD:02483 SMARCA2 BAF190|BRM|NCBRS|SNF2|SNF2L2|SNF2LA|SWI2|Sth1p|hBRM|hSNF2a SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 protein-coding 13-PTNLD9-TUMOR_peak_38255 chr4 44597450 44597583 + 13.70440 NA Intergenic L1PA5|LINE|L1 56142 NM_182592 285525 Hs.596000 NM_182592 HPRD:08259 YIPF7 FinGER9 Yip1 domain family, member 7 protein-coding 13-PTNLD9-TUMOR_peak_53416 chr9 66808530 66808638 + 13.17064 NA Intergenic ALR/Alpha|Satellite|centr -114383 NR_121570 101928381 Hs.708686 NR_121570 LOC101928381 - uncharacterized LOC101928381 ncRNA 13-PTNLD9-TUMOR_peak_41714 chr5 110325333 110325487 + 12.41900 NA Intergenic L1PA5|LINE|L1 -80368 NR_045089 85480 Hs.389874 NM_033035 HPRD:06108 TSLP - thymic stromal lymphopoietin protein-coding 13-PTNLD9-TUMOR_peak_33060 chr22 29516079 29516400 + 12.30181 NA intron (NM_001039570, intron 3 of 8) intron (NM_001039570, intron 3 of 8) 47173 NM_001039570 83999 Hs.229335 NM_032045 HPRD:11182 KREMEN1 KREMEN|KRM1 kringle containing transmembrane protein 1 protein-coding 13-PTNLD9-TUMOR_peak_55225 chrUn_gl000216 6833 6943 + 11.49894 NA NA (CATTC)n|Satellite|Satellite NA NA 13-PTNLD9-TUMOR_peak_45542 chr6 77792803 77792932 + 11.46425 NA Intergenic L1PA2|LINE|L1 380253 NM_000863 3351 Hs.123016 NM_000863 HTR1B 5-HT1B|5-HT1DB|HTR1D2|HTR1DB|S12 5-hydroxytryptamine (serotonin) receptor 1B, G protein-coupled protein-coding 13-PTNLD9-TUMOR_peak_56180 chrX 76167551 76167665 + 11.06772 NA intron (NR_110403, intron 1 of 3) L1PA3|LINE|L1 -27823 NR_029909 494333 NR_029909 MIR384 MIRN384|hsa-mir-384 microRNA 384 ncRNA 13-PTNLD9-TUMOR_peak_27361 chr2 79054350 79054501 + 10.95577 NA Intergenic L1PA3|LINE|L1 -198387 NM_001008387 130120 Hs.447084 NM_198448 HPRD:10137 REG3G LPPM429|PAP IB|PAP-1B|PAP1B|PAPIB|REG III|REG-III|UNQ429 regenerating islet-derived 3 gamma protein-coding 13-PTNLD9-TUMOR_peak_15191 chr14 19013756 19013852 + 10.88911 NA Intergenic ALR/Alpha|Satellite|centr -363790 NM_001013354 440153 Hs.534880 NM_001013354 HPRD:18633 OR11H12 - olfactory receptor, family 11, subfamily H, member 12 protein-coding 13-PTNLD9-TUMOR_peak_7126 chr10 42815116 42815236 + 10.66403 NA Intergenic (CATTC)n|Satellite|Satellite 48317 NR_024380 441666 Hs.255729 NR_024380 ENSG00000215146 LOC441666 - zinc finger protein 91 pseudogene pseudo 13-PTNLD9-TUMOR_peak_56061 chrX 66541487 66541633 + 10.63197 NA Intergenic L1PA3|LINE|L1 -222314 NM_000044 367 Hs.76704 NM_000044 HPRD:02437 AR AIS|DHTR|HUMARA|HYSP1|KD|NR3C4|SBMA|SMAX1|TFM androgen receptor protein-coding 13-PTNLD9-TUMOR_peak_16215 chr14 71836920 71837043 + 10.58004 NA Intergenic L1PA2|LINE|L1 -28073 NR_001276 319139 NR_001276 ENSG00000207444 SNORD56B RNU56B small nucleolar RNA, C/D box 56B snoRNA 13-PTNLD9-TUMOR_peak_19189 chr16 34351434 34351538 + 10.19617 NA Intergenic L1PA3|LINE|L1 53276 NR_002837 606551 Hs.646441 NR_002837 UBE2MP1 - ubiquitin-conjugating enzyme E2M pseudogene 1 pseudo 13-PTNLD9-TUMOR_peak_16688 chr14 105628831 105628985 + 10.19617 NA intron (NM_002226, intron 2 of 25) intron (NM_002226, intron 2 of 25) 6253 NM_145159 3714 Hs.433445 NM_002226 HPRD:03981 JAG2 HJ2|SER2 jagged 2 protein-coding 13-PTNLD9-TUMOR_peak_8302 chr10 108809011 108809130 + 10.19617 NA intron (NM_001013031, intron 1 of 26) L1PA3|LINE|L1 115396 NM_001206572 114815 Hs.591915 NM_052918 HPRD:12098 SORCS1 hSorCS sortilin-related VPS10 domain containing receptor 1 protein-coding 13-PTNLD9-TUMOR_peak_6626 chr10 20827349 20827453 + 10.19617 NA Intergenic L1PA2|LINE|L1 -13498 NR_039822 100616383 NR_039822 miRBase:MI0017306 MIR4675 - microRNA 4675 ncRNA 13-PTNLD9-TUMOR_peak_49936 chr8 735651 735832 + 10.19617 NA intron (NR_073397, intron 1 of 3) intron (NR_073397, intron 1 of 3) 48136 NR_073397 619343 Hs.667939 NR_073397 ERICH1-AS1 C8orf68 ERICH1 antisense RNA 1 ncRNA 13-PTNLD9-TUMOR_peak_53808 chr9 86467113 86467217 + 10.17514 NA intron (NM_017576, intron 15 of 17) AluY|SINE|Alu -34413 NM_001135953 80318 Hs.522255 NM_025211 HPRD:17042 GKAP1 GKAP42 G kinase anchoring protein 1 protein-coding 13-PTNLD9-TUMOR_peak_11734 chr11 134321498 134321739 + 10.13364 NA intron (NR_033852, intron 1 of 5) intron (NR_033852, intron 1 of 5) 15242 NR_033852 283177 Hs.504390 NR_033852 LOC283177 - uncharacterized LOC283177 ncRNA 13-PTNLD9-TUMOR_peak_51026 chr8 61460389 61460601 + 10.08542 NA intron (NM_001242644, intron 1 of 6) SVA_F|Other|Other 31026 NM_001242644 5862 Hs.369017 NM_002865 HPRD:01539 RAB2A LHX|RAB2 RAB2A, member RAS oncogene family protein-coding 13-PTNLD9-TUMOR_peak_39866 chr4 171277713 171277838 + 10.06858 NA Intergenic L1PA2|LINE|L1 -266237 NM_001286683 51166 Hs.529735 NM_016228 HPRD:12392 AADAT KAT2|KATII aminoadipate aminotransferase protein-coding 13-PTNLD9-TUMOR_peak_56382 chrX 115442932 115443123 + 10.06666 NA Intergenic L1PA3|LINE|L1 -124720 NM_007231 11254 Hs.522109 NM_007231 HPRD:02344 SLC6A14 BMIQ11 solute carrier family 6 (amino acid transporter), member 14 protein-coding 13-PTNLD9-TUMOR_peak_39536 chr4 145716516 145716617 + 9.99122 NA Intergenic L1P1|LINE|L1 -149395 NR_037595 646576 Hs.632595 NR_037595 ENSG00000248890 HHIP-AS1 - HHIP antisense RNA 1 ncRNA 13-PTNLD9-TUMOR_peak_45366 chr6 55209431 55209528 + 9.75174 NA intron (NM_207410, intron 3 of 8) L1PA5|LINE|L1 17212 NM_207410 389400 Hs.526967 NM_207410 HPRD:15622 GFRAL C6orf144|GRAL|UNQ9356|bA360D14.1 GDNF family receptor alpha like protein-coding 13-PTNLD9-TUMOR_peak_30 chr1 724466 724572 + 9.66825 NA Intergenic (GAATG)n|Satellite|Satellite -10451 NR_033908 100288069 Hs.527521 NR_033908 ENSG00000228327 LOC100288069 - uncharacterized LOC100288069 ncRNA 13-PTNLD9-TUMOR_peak_28225 chr2 119754581 119754711 + 9.51215 NA Intergenic L1PA4|LINE|L1 54901 NM_006770 8685 Hs.67726 NM_006770 HPRD:05337 MARCO SCARA2 macrophage receptor with collagenous structure protein-coding 13-PTNLD9-TUMOR_peak_9774 chr11 48892930 48893048 + 9.33775 NA Intergenic ALR/Alpha|Satellite|centr -160163 NM_001206626 283116 Hs.448644 NM_001206626 ENSG00000182053 TRIM49B - tripartite motif containing 49B protein-coding 13-PTNLD9-TUMOR_peak_12541 chr12 38145401 38145519 + 9.28600 NA Intergenic ALR/Alpha|Satellite|centr -565097 NM_001013620 144245 Hs.259305 NM_001013620 ALG10B ALG10|KCR1 ALG10B, alpha-1,2-glucosyltransferase protein-coding 13-PTNLD9-TUMOR_peak_7021 chr10 39105267 39105366 + 9.25832 NA Intergenic (CATTC)n|Satellite|Satellite 115589 NR_045000 399746 Hs.742607 NR_045000 ENSG00000227264 ACTR3BP5 FKSG74 ACTR3B pseudogene 5 pseudo 13-PTNLD9-TUMOR_peak_55222 chrUn_gl000216 2399 2681 + 9.15710 NA NA Intergenic NA NA 13-PTNLD9-TUMOR_peak_11929 chr12 6039118 6039244 + 9.14604 NA intron (NM_001278597, intron 1 of 25) CT-rich|Low_complexity|Low_complexity 15244 NM_001278596 57101 Hs.148970 NM_020373 HPRD:11634 ANO2 C12orf3|TMEM16B anoctamin 2, calcium activated chloride channel protein-coding 13-PTNLD9-TUMOR_peak_8899 chr11 5400051 5400147 + 9.12528 NA intron (NR_038321, intron 1 of 4) L1PA3|LINE|L1 -10508 NM_001004756 390059 Hs.553731 NM_001004756 HPRD:15002 OR51M1 HOR5'Beta7|OR11-40 olfactory receptor, family 51, subfamily M, member 1 protein-coding 13-PTNLD9-TUMOR_peak_4886 chr1 198993031 198993141 + 9.09697 NA Intergenic L1HS|LINE|L1 -4993 NR_110525 102800316 Hs.568480 NR_110525 LINC01222 TCONS_00000112 long intergenic non-protein coding RNA 1222 ncRNA 13-PTNLD9-TUMOR_peak_56842 chrY 13143730 13143858 + 8.85083 NA Intergenic (CATTC)n|Simple_repeat|Simple_repeat 1389595 NR_033667 352887 Hs.546221 NR_033667 ENSG00000206159 GYG2P1 GYG2P glycogenin 2 pseudogene 1 pseudo 13-PTNLD9-TUMOR_peak_24484 chr19 20585299 20585455 + 8.61117 NA intron (NR_036455, intron 2 of 2) CpG -6055 NR_036053 100302179 NR_036053 miRBase:MI0006407 MIR1270 MIR1270-1|MIR1270-2|MIRN1270|hsa-mir-1270|hsa-mir-1270-1 microRNA 1270 ncRNA 13-PTNLD9-TUMOR_peak_14374 chr13 19182689 19182790 + 8.54431 NA Intergenic L1PA2|LINE|L1 131500 NR_047508 100874164 Hs.739604 NR_047508 LINC00417 - long intergenic non-protein coding RNA 417 ncRNA 13-PTNLD9-TUMOR_peak_54630 chr9 123257155 123257293 + 8.44772 NA intron (NM_001011649, intron 12 of 36) CpG 85224 NR_073556 55755 Hs.269560 NM_018249 HPRD:09740 CDK5RAP2 C48|Cep215|MCPH3 CDK5 regulatory subunit associated protein 2 protein-coding 13-PTNLD9-TUMOR_peak_12503 chr12 34664743 34664860 + 8.02622 NA Intergenic ALR/Alpha|Satellite|centr 489585 NM_032834 84920 Hs.102971 NM_032834 ALG10 ALG10A|DIE2|KCR1 ALG10, alpha-1,2-glucosyltransferase protein-coding 13-PTNLD9-TUMOR_peak_4762 chr1 185238033 185238157 + 8.02622 NA intron (NM_017673, intron 16 of 18) AluY|SINE|Alu 48366 NM_006469 10625 Hs.497183 NM_006469 HPRD:10004 IVNS1ABP FLARA3|HSPC068|KLHL39|ND1|NS-1|NS1-BP|NS1BP influenza virus NS1A binding protein protein-coding 13-PTNLD9-TUMOR_peak_12552 chr12 38621022 38621118 + 8.02622 NA Intergenic L1PA4|LINE|L1 -89487 NM_001013620 144245 Hs.259305 NM_001013620 ALG10B ALG10|KCR1 ALG10B, alpha-1,2-glucosyltransferase protein-coding 13-PTNLD9-TUMOR_peak_14936 chr13 90915444 90915562 + 8.02622 NA Intergenic AluYa5|SINE|Alu 32067 NR_030754 693207 NR_030754 miRBase:MI0003636 MIR622 MIRN622|hsa-mir-622 microRNA 622 ncRNA 13-PTNLD9-TUMOR_peak_14580 chr13 34348833 34348993 + 8.02622 NA Intergenic AluYa5|SINE|Alu -43293 NM_002915 5983 Hs.115474 NM_002915 HPRD:02676 RFC3 RFC38 replication factor C (activator 1) 3, 38kDa protein-coding 13-PTNLD9-TUMOR_peak_25207 chr19 47314280 47314382 + 7.82536 NA Intergenic AluY|SINE|Alu 19630 NR_024258 100170220 Hs.541243 NR_024258 SNAR-E - small ILF3/NF90-associated RNA E snRNA 13-PTNLD9-TUMOR_peak_22431 chr18 1769366 1769476 + 7.82536 NA Intergenic L1PA4|LINE|L1 -409791 NR_023926 56651 Hs.541165 NM_031416 LINC00470 C18orf2 long intergenic non-protein coding RNA 470 ncRNA 13-PTNLD9-TUMOR_peak_23181 chr18 47871512 47871618 + 7.77935 NA Intergenic L1HS|LINE|L1 -29827 NM_145060 220134 Hs.134726 NM_145060 HPRD:12689 SKA1 C18orf24 spindle and kinetochore associated complex subunit 1 protein-coding 13-PTNLD9-TUMOR_peak_32781 chr22 20315942 20316057 + 7.67078 NA Intergenic AluYa5|SINE|Alu -8371 NM_033257 85359 Hs.410965 NM_033257 HPRD:16800 DGCR6L DGCR6 DiGeorge syndrome critical region gene 6-like protein-coding 13-PTNLD9-TUMOR_peak_50786 chr8 43778971 43779120 + 7.64215 NA Intergenic ALR/Alpha|Satellite|centr 631460 NM_001005365 340441 Hs.531579 NM_001002920 POTEA A26A1|CT104.3|POTE-8|POTE8 POTE ankyrin domain family, member A protein-coding 13-PTNLD9-TUMOR_peak_39894 chr4 176129146 176129240 + 7.47272 NA Intergenic L1PA2|LINE|L1 289684 NM_001278126 11086 Hs.126838 NM_014269 HPRD:05306 ADAM29 CT73|svph1 ADAM metallopeptidase domain 29 protein-coding 13-PTNLD9-TUMOR_peak_47663 chr7 61779524 61779618 + 7.07474 NA Intergenic (GAATG)n|Satellite|Satellite 984863 NR_003952 643955 Hs.583308 NR_003952 ENSG00000185037 ZNF733P ZNF733 zinc finger protein 733, pseudogene pseudo 13-PTNLD9-TUMOR_peak_51781 chr8 122521135 122521229 + 7.06528 NA Intergenic L1PA2|LINE|L1 -130404 NR_002835 594842 Hs.668686 NR_002835 HAS2-AS1 HAS2-AS|HAS2AS|HASNT|NCRNA00077 HAS2 antisense RNA 1 ncRNA 13-PTNLD9-TUMOR_peak_32058 chr21 29218104 29218198 + 7.02596 NA intron (NR_049807, intron 2 of 4) intron (NR_049807, intron 2 of 4) 65378 NR_049807 100846993 NR_049807 MIR5009 - microRNA 5009 ncRNA 13-PTNLD9-TUMOR_peak_901 chr1 30196312 30196433 + 6.98680 NA Intergenic (CCA)n|Simple_repeat|Simple_repeat 314087 NR_110790 101929406 Hs.639413 NR_110790 ENSG00000233399 LOC101929406 - uncharacterized LOC101929406 ncRNA 13-PTNLD9-TUMOR_peak_6177 chr1 246981253 246981347 + 6.98680 NA Intergenic Intergenic 28381 NR_015422 149134 Hs.720494 NM_207326 LINC01341 - long intergenic non-protein coding RNA 1341 ncRNA 13-PTNLD9-TUMOR_peak_35128 chr3 95572218 95572312 + 6.98680 NA Intergenic L1PA2|LINE|L1 -170228 NR_077228 100287639 Hs.591320 NR_077228 ENSG00000244681 MTHFD2P1 - methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase pseudogene 1 pseudo 13-PTNLD9-TUMOR_peak_55981 chrX 61710650 61710792 + 6.84822 NA Intergenic ALR/Alpha|Satellite|centr 860497 NM_001012968 139886 Hs.612782 NM_001012968 HPRD:12556 SPIN4 - spindlin family, member 4 protein-coding 13-PTNLD9-TUMOR_peak_56037 chrX 63518470 63518576 + 6.84535 NA intron (NM_017677, intron 12 of 13) L1PA2|LINE|L1 -68012 NM_130388 142689 Hs.56281 NM_130388 HPRD:06451 ASB12 - ankyrin repeat and SOCS box containing 12 protein-coding 13-PTNLD9-TUMOR_peak_9804 chr11 50750166 50750284 + 6.62471 NA Intergenic ALR/Alpha|Satellite|centr 381907 NR_024504 646813 Hs.684179 NR_024504 LOC646813 - DEAH (Asp-Glu-Ala-His) box helicase 9 pseudogene pseudo 13-PTNLD9-TUMOR_peak_19175 chr16 33973679 33973773 + 6.61134 NA Intergenic ALR/Alpha|Satellite|centr -11223 NR_038368 649159 Hs.532675 NM_001040069 ENSG00000256642 LINC00273 NCRNA00273|TOP long intergenic non-protein coding RNA 273 ncRNA 13-PTNLD9-TUMOR_peak_51629 chr8 113674662 113674756 + 6.55805 NA intron (NM_198124, intron 18 of 71) L1PA3|LINE|L1 18987 NR_031745 100302225 NR_031745 miRBase:MI0010487 MIR2053 hsa-mir-2053 microRNA 2053 ncRNA 13-PTNLD9-TUMOR_peak_9798 chr11 50700418 50700539 + 6.46129 NA Intergenic ALR/Alpha|Satellite|centr 332160 NR_024504 646813 Hs.684179 NR_024504 LOC646813 - DEAH (Asp-Glu-Ala-His) box helicase 9 pseudogene pseudo 13-PTNLD9-TUMOR_peak_56042 chrX 63792887 63793063 + 6.36260 NA Intergenic L1PA3|LINE|L1 -177642 NM_017677 55613 Hs.442892 NM_017677 HPRD:06664 MTMR8 - myotubularin related protein 8 protein-coding 13-PTNLD9-TUMOR_peak_32600 chr21 47217740 47217834 + 6.06205 NA Intergenic (TGGA)n|Simple_repeat|Simple_repeat 38546 NR_038876 100129027 Hs.689591 NR_038876 ENSG00000205424 LOC100129027 - uncharacterized LOC100129027 ncRNA 13-PTNLD9-TUMOR_peak_35105 chr3 90453708 90453802 + 6.03978 NA Intergenic ALR/Alpha|Satellite|centr 1297081 NM_182644 2042 Hs.123642 NM_005233 HPRD:01555 EPHA3 EK4|ETK|ETK1|HEK|HEK4|TYRO4 EPH receptor A3 protein-coding 13-PTNLD9-TUMOR_peak_24603 chr19 28672407 28672508 + 5.99683 NA Intergenic L1PA3|LINE|L1 -387609 NR_027301 148189 Hs.706547 NR_027301 ENSG00000261824 LINC00662 - long intergenic non-protein coding RNA 662 ncRNA 13-PTNLD9-TUMOR_peak_35299 chr3 109660354 109660448 + 5.97975 NA Intergenic L1PA4|LINE|L1 531564 NR_109841 401082 Hs.477089 NM_001145553 LINC01205 - long intergenic non-protein coding RNA 1205 ncRNA 13-PTNLD9-TUMOR_peak_35221 chr3 102956054 102956148 + 5.97975 NA Intergenic L1PA2|LINE|L1 802242 NM_175056 131368 Hs.352213 NM_175056 HPRD:14048 ZPLD1 - zona pellucida-like domain containing 1 protein-coding 13-PTNLD9-TUMOR_peak_48890 chr7 120892840 120892934 + 5.97975 NA intron (NM_024913, intron 18 of 22) L1PA4|LINE|L1 -72534 NM_016087 51384 Hs.272375 NM_016087 HPRD:05882 WNT16 - wingless-type MMTV integration site family, member 16 protein-coding 13-PTNLD9-TUMOR_peak_54902 chr9 132445745 132445839 + 5.97975 NA intron (NM_016307, intron 1 of 3) AluY|SINE|Alu 17872 NM_016307 51450 Hs.660115 NM_016307 HPRD:05244 PRRX2 PMX2|PRX2 paired related homeobox 2 protein-coding 13-PTNLD9-TUMOR_peak_55708 chrX 36249733 36249827 + 5.85389 NA intron (NM_001098843, intron 1 of 18) L1PA3|LINE|L1 2884 NM_001098843 645090 Hs.632791 NM_001098843 ENSG00000205081 CXorf30 - chromosome X open reading frame 30 protein-coding 13-PTNLD9-TUMOR_peak_40264 chr5 9192059 9192230 + 5.55528 NA intron (NM_003966, intron 10 of 22) intron (NM_003966, intron 10 of 22) -138137 NR_039779 100616326 NR_039779 MIR4636 - microRNA 4636 ncRNA 13-PTNLD9-TUMOR_peak_19420 chr16 56773640 56773734 + 5.54537 NA intron (NM_014669, intron 1 of 21) SVA_F|Other|Other 9670 NM_014669 9688 Hs.276878 NM_014669 HPRD:14854 NUP93 NIC96 nucleoporin 93kDa protein-coding 13-PTNLD9-TUMOR_peak_22425 chr18 1633496 1633679 + 5.51932 NA Intergenic L1PA2|LINE|L1 -273957 NR_023926 56651 Hs.541165 NM_031416 LINC00470 C18orf2 long intergenic non-protein coding RNA 470 ncRNA 13-PTNLD9-TUMOR_peak_52132 chr8 133309170 133309264 + 5.51916 NA intron (NM_004519, intron 1 of 14) L1PA4|LINE|L1 150292 NM_001204824 3786 Hs.374023 NM_004519 HPRD:09077 KCNQ3 BFNC2|EBN2|KV7.3 potassium voltage-gated channel, KQT-like subfamily, member 3 protein-coding 13-PTNLD9-TUMOR_peak_35908 chr3 130587265 130587409 + 5.30189 NA intron (NM_001199182, intron 1 of 26) SVA_E|Other|Other 17968 NM_001199180 27032 Hs.584884 NM_014382 HPRD:05089 ATP2C1 ATP2C1A|BCPM|HHD|PMR1|SPCA1|hSPCA1 ATPase, Ca++ transporting, type 2C, member 1 protein-coding 13-PTNLD9-TUMOR_peak_40809 chr5 49438324 49438453 + 5.13904 NA Intergenic ALR/Alpha|Satellite|centr 298846 NM_198449 133418 Hs.561411 NM_198449 HPRD:13271 EMB GP70 embigin protein-coding 13-PTNLD9-TUMOR_peak_40762 chr5 45613622 45613772 + 5.01205 NA intron (NM_021072, intron 2 of 7) L1PA2|LINE|L1 82523 NM_021072 348980 Hs.353176 NM_021072 HCN1 BCNG-1|BCNG1|EIEE24|HAC-2 hyperpolarization activated cyclic nucleotide-gated potassium channel 1 protein-coding 13-PTNLD9-TUMOR_peak_31749 chr20 60250553 60250720 + 5.00829 NA intron (NM_001252339, intron 1 of 14) intron (NM_001252339, intron 1 of 14) 75819 NM_001252339 1002 Hs.473231 NM_001794 HPRD:04304 CDH4 CAD4|R-CAD|RCAD cadherin 4, type 1, R-cadherin (retinal) protein-coding 13-PTNLD9-TUMOR_peak_56821 chrY 10042929 10043171 + 4.94812 NA Intergenic ALR/Alpha|Satellite|centr 294643 NR_001540 252955 Hs.522846 NR_001540 ENSG00000239225 TTTY23 NCRNA00148|TTTY23B testis-specific transcript, Y-linked 23 (non-protein coding) ncRNA 13-PTNLD9-TUMOR_peak_32634 chr22 16850064 16850221 + 4.86730 NA Intergenic HSATII|Satellite|Satellite 223558 NM_014406 150160 Hs.128342 NM_014406 HPRD:16708 CCT8L2 CESK1 chaperonin containing TCP1, subunit 8 (theta)-like 2 protein-coding 13-PTNLD9-TUMOR_peak_8474 chr10 122653561 122653655 + 4.84653 NA intron (NM_018117, intron 19 of 28) L1PA4|LINE|L1 -42917 NR_033850 283089 Hs.568750 NR_033850 ENSG00000227165 WDR11-AS1 - WDR11 antisense RNA 1 ncRNA 13-PTNLD9-TUMOR_peak_55702 chrX 34270137 34270231 + 4.79794 NA Intergenic L1PA2|LINE|L1 -119737 NM_203408 158724 Hs.143268 NM_203408 HPRD:10947 FAM47A - family with sequence similarity 47, member A protein-coding 13-PTNLD9-TUMOR_peak_611 chr1 21058718 21058858 + 4.77462 NA 5' UTR (NM_001103161, exon 1 of 10) 5' UTR (NM_001103161, exon 1 of 10) 345 NM_001103161 400745 Hs.591522 NM_001103160 ENSG00000189410 SH2D5 - SH2 domain containing 5 protein-coding 13-PTNLD9-TUMOR_peak_27600 chr2 90481657 90481792 + 4.74335 NA Intergenic (GCTG)n|Simple_repeat|Simple_repeat 1366251 NR_027238 654342 Hs.469287 NR_027238 ENSG00000143429 LOC654342 - lymphocyte-specific protein 1 pseudogene pseudo 13-PTNLD9-TUMOR_peak_51028 chr8 61460937 61461059 + 4.70064 NA intron (NM_001242644, intron 1 of 6) SVA_F|Other|Other 31529 NM_001242644 5862 Hs.369017 NM_002865 HPRD:01539 RAB2A LHX|RAB2 RAB2A, member RAS oncogene family protein-coding 13-PTNLD9-TUMOR_peak_7102 chr10 42546283 42546379 + 4.55886 NA Intergenic ALR/Alpha|Satellite|centr 317162 NR_024380 441666 Hs.255729 NR_024380 ENSG00000215146 LOC441666 - zinc finger protein 91 pseudogene pseudo 13-PTNLD9-TUMOR_peak_49692 chr7 151435171 151435299 + 4.51588 NA intron (NM_001040633, intron 3 of 15) intron (NM_001040633, intron 3 of 15) 76722 NM_001040633 51422 Hs.647072 NM_016203 HPRD:04119 PRKAG2 AAKG|AAKG2|CMH6|H91620p|WPWS protein kinase, AMP-activated, gamma 2 non-catalytic subunit protein-coding 13-PTNLD9-TUMOR_peak_31917 chr21 10851393 10851552 + 4.43897 NA Intergenic (GAATG)n|Satellite|Satellite 139471 NM_001290224 7179 Hs.122986 NM_199259 HPRD:05064 TPTE CT44|PTEN2 transmembrane phosphatase with tensin homology protein-coding 13-PTNLD9-TUMOR_peak_56387 chrX 116912062 116912156 + 4.08627 NA Intergenic L1PA3|LINE|L1 195592 NM_033495 90293 Hs.348262 NM_033495 HPRD:06461 KLHL13 BKLHD2 kelch-like family member 13 protein-coding 13-PTNLD9-TUMOR_peak_24241 chr19 15818815 15818973 + 4.08627 NA Intergenic L1PA2|LINE|L1 -19940 NM_013939 26538 Hs.247694 NM_013939 HPRD:17668 OR10H2 - olfactory receptor, family 10, subfamily H, member 2 protein-coding 13-PTNLD9-TUMOR_peak_56202 chrX 80967455 80967651 + 3.90158 NA Intergenic L1PA3|LINE|L1 -510112 NM_030763 79366 Hs.282204 NM_030763 HPRD:02310 HMGN5 NBP-45|NSBP1 high mobility group nucleosome binding domain 5 protein-coding 13-PTNLD9-TUMOR_peak_39571 chr4 147590085 147590191 + 3.61743 NA Intergenic L1PA3|LINE|L1 30093 NM_004575 5458 Hs.266 NM_004575 HPRD:00220 POU4F2 BRN3.2|BRN3B|Brn-3b POU class 4 homeobox 2 protein-coding 13-PTNLD9-TUMOR_peak_49856 chr7 158107697 158107965 + 3.38558 NA intron (NM_130842, intron 2 of 21) intron (NM_130842, intron 2 of 21) 217674 NR_030325 693180 NR_030325 MIR595 MIRN595|hsa-mir-595 microRNA 595 ncRNA 13-PTNLD9-TUMOR_peak_45770 chr6 95564663 95564898 + 3.36332 NA Intergenic L1PA3|LINE|L1 460547 NR_104136 101927288 Hs.616643 NR_047502 MANEA-AS1 - MANEA antisense RNA 1 (head to head) ncRNA 13-PTNLD9-TUMOR_peak_27580 chr2 89875991 89876096 + 2.79795 NA Intergenic (GAATG)n|Satellite|Satellite 764159 NR_039635 100616399 NR_039635 miRBase:MI0016776 MIR4436A - microRNA 4436a ncRNA 13-PTNLD9-TUMOR_peak_39784 chr4 160445294 160445388 + 2.54857 NA Intergenic SVA_F|Other|Other 256343 NM_014247 9693 Hs.744884 NM_014247 ENSG00000109756 RAPGEF2 CNrasGEF|NRAPGEP|PDZ-GEF1|PDZGEF1|RA-GEF|RA-GEF-1|Rap-GEP|nRap GEP Rap guanine nucleotide exchange factor (GEF) 2 protein-coding Done annotating peaks file