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["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYA","unmet_PHYA","X.met_WT","X.met_PHYA","X.diff_PHYA.ctrl","FDR_diff_PHYA.WT","logFC_PHYA","logCPM_PHYA","PValue_PHYA","padj_PHYA"]
["Solyc00g005287","SL3.0ch00",2357974,2359974,"-",884,7715,604,5992,10.28,9.157,-1.1232002592993,0.0116473823078555,4.34896448722908,-3.34939923908411,0.122502097723027,1]
["Solyc00g005430","SL3.0ch00",2358571,2360571,"-",628,6534,419,5097,8.769,7.596,-1.1724162999506,0.00933831798523869,4.45167054452312,-3.65100820910541,0.269914950712239,1]
["Solyc00g006480","SL3.0ch00",4232311,4234311,"+",164,2133,82,2042,7.14,3.861,-3.2791071954166,1.81804937784649e-06,0,-3.91085760741443,1,1]
["Solyc00g006683","SL3.0ch00",5682337,5684337,"-",53,58,413,663,47.748,38.383,-9.364848119495,0.031420171307177,0,-3.91085760741443,1,1]
["Solyc00g006820","SL3.0ch00",5819900,5821900,"+",3399,9295,2941,8463,26.776,25.789,-0.98723303629667,0.0391261893777097,-0.509874179454375,1.61308375064248,0.550244682809312,1]
["Solyc00g006870","SL3.0ch00",6404880,6406880,"+",1457,6015,1319,5988,19.499,18.051,-1.4482808717346,0.0125880099395842,0,-3.91085760741443,1,1]
["Solyc00g007970","SL3.0ch00",6941525,6943525,"-",316,533,519,1064,37.22,32.786,-4.4344094758279,0.0160143497785418,0,-3.91085760741443,1,1]
["Solyc00g014390","SL3.0ch00",10022073,10024073,"+",199,1899,175,2002,9.485,8.039,-1.4466388138757,0.0476984924175506,0,-3.91085760741443,1,1]
["Solyc00g020000","SL3.0ch00",10850676,10852676,"+",2464,107374,1418,72768,2.243,1.911,-0.33189191796539,1.01304485603723E-6,2.62692820761746,-3.50132037671225,0.602030709744044,1]
["Solyc00g026907","SL3.0ch00",11445381,11447381,"-",275,4680,222,4506,5.55,4.695,-0.854518073832,0.0284403020274867,0,-3.91085760741443,1,1]
["Solyc00g028960","SL3.0ch00",11558082,11560082,"-",1439,4043,1331,4122,26.25,24.409,-1.8409615303687,0.0143199141913924,0,-3.91085760741443,1,1]
["Solyc00g029070","SL3.0ch00",11558045,11560045,"+",1439,4055,1331,4122,26.192,24.409,-1.7836272516019,0.0166970904382715,0,-3.91085760741443,1,1]
["Solyc00g029190","SL3.0ch00",11564413,11566413,"+",640,1033,400,901,38.255,30.746,-7.5090520740632,1.64189010039197e-05,0,-3.91085760741443,1,1]
["Solyc00g048510","SL3.0ch00",12614041,12616041,"+",4994,13552,4459,13460,26.928,24.884,-2.0434382558603,7.44113027273171e-06,0.744273292695498,2.93275911363102,0.344178314754445,1]
["Solyc00g057280","SL3.0ch00",13036904,13038904,"-",499,5108,359,4545,8.9,7.321,-1.5790351492003,0.00203971170556105,0,-3.91085760741443,1,1]
["Solyc00g058900","SL3.0ch00",13110917,13112917,"-",52,640,16,333,7.514,4.585,-2.9299236464217,0.0390729471936965,0,-3.91085760741443,1,1]
["Solyc00g066150","SL3.0ch00",13435324,13437324,"-",3856,7794,3129,6939,33.099,31.079,-2.0200473688788,0.000948849108312643,0,-3.91085760741443,1,1]
["Solyc00g094520","SL3.0ch00",14585676,14587676,"-",2562,123191,1825,93015,2.037,1.924,-0.11303359427423,0.0290200750241761,1.80124331289941,-2.96074051384601,1,1]
["Solyc00g097260","SL3.0ch00",14687968,14689968,"+",2105,10792,1871,10260,16.322,15.423,-0.89832949542,0.0256747590012765,0,-3.67847119540524,1,1]
["Solyc00g106650","SL3.0ch00",15030856,15032856,"+",39,514,10,248,7.052,3.876,-3.1764722374084,0.038800100568211,-2.76408632134094,-3.29504216861604,0.687282733127547,1]
["Solyc00g112190","SL3.0ch00",15230377,15232377,"-",1852,9583,1440,8049,16.196,15.175,-1.0204234825467,0.0223295598140024,1.78043284496967,-3.5578058957942,1,1]
["Solyc00g117450","SL3.0ch00",15410790,15412790,"-",1740,7801,1524,7273,18.237,17.324,-0.91299430967935,0.0495885403373144,0,-3.91085760741443,1,1]
["Solyc00g117653","SL3.0ch00",15444881,15446881,"-",1255,56151,679,34140,2.186,1.95,-0.23609790513582,0.00838693473816206,2.65327956938785,-3.83524949456005,0.586760169999405,1]
["Solyc00g118680","SL3.0ch00",15446465,15448465,"-",1444,44444,696,27468,3.147,2.471,-0.67555230898046,8.9780247503543e-08,-1.71145608602361,-3.26670310808947,0.583103180596911,1]
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["Solyc00g121230","SL3.0ch00",15526756,15528756,"-",1848,6819,1462,7082,21.322,17.111,-4.2108336153018,4.2091900404374e-12,0,-3.91085760741443,1,1]
["Solyc00g125980","SL3.0ch00",15682094,15684094,"+",1499,44503,916,29175,3.259,3.044,-0.21445441126021,0.0455547549317544,0,-3.91085760741443,1,1]
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["Solyc00g127670","SL3.0ch00",15736452,15738452,"-",2730,13989,2272,13413,16.329,14.485,-1.8435508740998,4.00703915190273e-06,-0.274065281673727,2.41383395958849,0.51233858456344,1]
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["Solyc00g134830","SL3.0ch00",15966197,15968197,"+",503,2075,349,1996,19.511,14.883,-4.6285198191686,1.62007832549622e-05,0,-3.87282557379725,1,1]
["Solyc00g171710","SL3.0ch00",17092060,17094060,"+",3094,8932,2047,7534,25.728,21.365,-4.3623882589705,1.32970398863751E-13,0,-3.91085760741443,1,1]
["Solyc00g180440","SL3.0ch00",17342216,17344216,"-",718,1550,158,475,31.658,24.961,-6.6973427952891,0.000782730484640893,0,-3.62871560262633,1,1]
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["Solyc00g215560","SL3.0ch00",18287741,18289741,"+",146,282,174,455,34.112,27.663,-6.4491924579885,0.014848373424613,-0.131887981808425,-1.49405107058069,0.957120321864977,1]
["Solyc00g226760","SL3.0ch00",18575849,18577849,"+",52,400,228,3016,11.504,7.028,-4.4760647294392,1.02268786881892E-3,-5.58760113603571,-3.33246229076101,0.0336963259098286,0.859052163323415]
["Solyc00g231780","SL3.0ch00",18703657,18705657,"-",1489,2923,1062,2307,33.749,31.523,-2.2261596923795,0.0191889044576772,-1.5051153587726,-1.68550205616151,0.248227187705819,1]
["Solyc00g233480","SL3.0ch00",18745469,18747469,"-",1955,7862,1549,6939,19.914,18.249,-1.6651410251524,0.00262148641581415,1.18533024201514,-0.735922495203965,0.392563740324063,1]
["Solyc00g254110","SL3.0ch00",19246090,19248090,"+",46,38,254,443,54.762,36.442,-18.320010931202,0.000848531776398084,0,-3.91085760741443,1,1]
["Solyc00g255510","SL3.0ch00",19283376,19285376,"-",1113,6162,797,4865,15.299,14.076,-1.2226709442949,0.0264416375838368,0,-3.91085760741443,1,1]
["Solyc00g277510","SL3.0ch00",19798998,19800998,"-",1251,1922,927,1569,39.426,37.139,-2.2869872602972,0.0388438130920183,0.902746187829228,0.867777264740614,0.459185748686563,1]
["Solyc01g005120","SL3.0ch01",107325,109325,"-",895,7630,711,7845,10.499,8.31,-2.1885758000765,1.00749601777696E-6,-0.603942582006485,3.07058858733756,0.26882708047973,1]
["Solyc01g005130","SL3.0ch01",122769,124769,"+",228,2595,117,2541,8.077,4.402,-3.6747084773655,2.47379623195245e-08,-0.106701452437268,4.23302293433656,0.77532486484703,1]
["Solyc01g005150","SL3.0ch01",134364,136364,"-",884,6295,541,5455,12.314,9.023,-3.2910109270042,1.72482198302717E-9,-1.13579255475013,-0.622393732456347,0.140899352739345,1]
["Solyc01g005190","SL3.0ch01",149494,151494,"+",46,811,29,1253,5.368,2.262,-3.1054707765907,0.000125824197354343,-0.154147984764496,-1.30319441572507,0.935445539760569,1]
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["Solyc01g005250","SL3.0ch01",195082,197082,"-",2130,4963,1886,4688,30.03,28.689,-1.3408326964316,0.0405846325160002,-0.0460296332152748,5.69157230540036,0.870266898751897,1]
["Solyc01g005270","SL3.0ch01",203236,205236,"-",3220,5296,3012,5286,37.811,36.298,-1.513275848074,0.0211180135787224,0.294652994164353,2.46412348202021,0.57183358866437,1]
["Solyc01g005370","SL3.0ch01",257883,259883,"+",1862,7106,1462,6144,20.763,19.222,-1.5410447594896,0.00767716153618261,0.483298796295759,4.67630646784509,0.157894220947774,1]
["Solyc01g005380","SL3.0ch01",259020,261020,"+",1183,6551,899,5960,15.296,13.107,-2.1892282739928,1.18480620024984E-4,1.03402162669027,-1.76594930308552,0.377986574586699,1]
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["Solyc01g005420","SL3.0ch01",294380,296380,"-",2765,4688,2767,5128,37.099,35.047,-2.0516562860848,0.00466051234033033,-0.293218891919515,3.03023789403337,0.721859363670994,1]
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["Solyc01g005470","SL3.0ch01",324960,326960,"-",1110,10707,877,9230,9.393,8.677,-0.71609256959671,0.0314150653270453,0.72837721095222,2.29652819623123,0.519617074205707,1]
["Solyc01g005510","SL3.0ch01",348880,350880,"-",2623,4592,2055,4467,36.355,31.509,-4.8460767044024,2.75850767885458e-09,4.40190337836824,-3.29228058508978,0.19943629482241,1]
["Solyc01g005520","SL3.0ch01",348023,350023,"+",2630,4797,1985,4208,35.411,32.052,-3.359019881353,2.90952761714761e-05,-0.859494013196987,4.44900011060952,0.0154268831803067,0.597820972473684]
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["Solyc01g005630","SL3.0ch01",442810,444810,"+",4783,10469,4206,10046,31.36,29.512,-1.8481741746609,0.000388699854398933,0,-3.91085760741443,1,1]
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["Solyc01g005730","SL3.0ch01",488688,490688,"+",558,3029,390,2652,15.556,12.821,-2.7356622561529,0.000968573081519421,0.0106423024426848,7.85887186447853,0.983637846251663,1]
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["Solyc01g005960","SL3.0ch01",623152,625152,"+",4157,8631,2077,4848,32.507,29.993,-2.514258064589,0.000202713688201465,-0.00414020931402563,5.87646190860859,0.988404681675053,1]
["Solyc01g005970","SL3.0ch01",640038,642038,"+",1593,9753,1338,8835,14.04,13.152,-0.88772797499088,0.0283169048786071,0.179812806282748,2.72944048577667,0.654337564663589,1]
["Solyc01g005990","SL3.0ch01",655153,657153,"-",1860,6147,1397,5446,23.23,20.415,-2.8146513843351,3.00169780613341E-5,-0.0950154773711477,1.02438249721118,0.916571132981642,1]
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["Solyc12g097030","SL3.0ch12",66671339,66673339,"+",433,3044,384,3525,12.453,9.823,-2.6297800412358,0.000247614111511781,-0.0409516944138409,3.96263522947328,0.900235029211141,1]
["Solyc12g098180","SL3.0ch12",66787244,66789244,"+",2826,6152,2177,6302,31.477,25.675,-5.8017460931284,6.27047419902406e-17,2.16290975582041,-1.11831569942161,0.220533844271596,1]
["Solyc12g098195","SL3.0ch12",66795127,66797127,"-",3031,6722,2712,6606,31.078,29.105,-1.9726589979183,0.00181693131316134,0,-3.91085760741443,1,1]
["Solyc12g098340","SL3.0ch12",66861159,66863159,"+",736,3597,692,3964,16.986,14.863,-2.1233790386731,0.00351212250481309,0.690737735711,6.04791107518507,0.12095674650379,1]
["Solyc12g098370","SL3.0ch12",66878206,66880206,"+",2307,8304,2071,8153,21.742,20.256,-1.4853291362538,0.00493628668662724,-0.219574480086166,4.20877225497068,0.514139282064948,1]
["Solyc12g098410","SL3.0ch12",66902750,66904750,"+",1081,5957,1080,6731,15.359,13.827,-1.5328224064772,0.00474878323094976,0,-3.79913482239491,1,1]
["Solyc12g098420","SL3.0ch12",66902750,66904750,"+",1081,5957,1080,6731,15.359,13.827,-1.5328224064772,0.00474878323094976,0.155426107301253,5.85955608553069,0.571003924681491,1]
["Solyc12g098520","SL3.0ch12",66984399,66986399,"-",483,3694,414,4282,11.563,8.816,-2.7473093304414,1.58138185861147e-05,0.674798516511315,6.19299003856236,0.129155667293619,1]
["Solyc12g098690","SL3.0ch12",67092874,67094874,"+",110,4623,53,2960,2.324,1.759,-0.56506318945111,0.0476638015162001,-0.219327857443518,5.86465370565277,0.425249160815067,1]
["Solyc12g098720","SL3.0ch12",67113672,67115672,"+",305,3208,143,2294,8.682,5.868,-2.8141678116606,3.87431172574173e-05,0.247648485260333,4.91163296515738,0.484168497342645,1]
["Solyc12g098740","SL3.0ch12",67124328,67126328,"+",582,8399,349,7621,6.48,4.379,-2.1014264464909,2.18731806144519e-09,0.384792893423704,7.91005035557334,0.182029390292554,1]
["Solyc12g098830","SL3.0ch12",67200946,67202946,"-",2976,9050,2676,8571,24.746,23.793,-0.95337136746084,0.042810036058466,-0.585377002567701,6.54433988507719,0.0336946156151299,0.859052163323415]
["Solyc12g098910","SL3.0ch12",67250341,67252341,"+",2686,8026,2602,8221,25.075,24.041,-1.0332892699329,0.0370631869262207,0.794245156270899,0.161585511847664,0.361752420383492,1]
["Solyc12g099040","SL3.0ch12",67322049,67324049,"+",3043,7503,2389,6513,28.855,26.837,-2.0178760886767,0.0011617185114032,1.77387294552974,-3.59313229895585,1,1]
["Solyc12g099100","SL3.0ch12",67349092,67351092,"+",118,1731,78,2217,6.382,3.399,-2.9831352046858,7.4270640633374e-06,0.383727085383318,6.29903157973647,0.22994107036553801,1]
["Solyc12g099210","SL3.0ch12",67415710,67417710,"+",333,8119,272,8380,3.94,3.144,-0.79611409807285,2.85294694719235E-3,-0.405979735116838,0.839649189830102,0.451515816067286,1]
["Solyc12g099250","SL3.0ch12",67435566,67437566,"-",2105,6851,1754,6254,23.504,21.903,-1.6006994345538,0.00722142302655465,0.174359360883156,4.56383621968197,0.599389411022127,1]
["Solyc12g099310","SL3.0ch12",67481789,67483789,"-",784,3720,667,3793,17.407,14.955,-2.4515926052776,0.00110833659694201,0.1468562740814,7.46176055500995,0.649911723325929,1]
["Solyc12g099500","SL3.0ch12",67608122,67610122,"-",1564,7166,1085,5646,17.915,16.119,-1.795787489217,0.00205033784439132,0.314840396648613,7.35397338436693,0.421040423550303,1]
["Solyc12g099660","SL3.0ch12",67691752,67693752,"+",756,9787,492,7349,7.171,6.275,-0.89592468581094,0.00941794429336876,0.194881482137879,6.59794972993847,0.467044270951343,1]
["Solyc12g099720","SL3.0ch12",67724258,67726258,"+",122,3381,56,3373,3.483,1.633,-1.8495998971677,9.13447438460065e-07,-0.973034292373928,-3.79760289006955,1,1]
["Solyc12g099730","SL3.0ch12",67732711,67734711,"-",704,7589,614,7565,8.489,7.507,-0.98205698266982,0.0113110798869141,-1.91692116350207,-2.87597208106449,1,1]
["Solyc12g099870","SL3.0ch12",67816286,67818286,"-",65,1139,20,1103,5.399,1.781,-3.6177271960784,2.14184772302997e-06,-0.198764855062287,-2.7293305007382,0.961332948506248,1]
["Solyc12g099890","SL3.0ch12",67823928,67825928,"-",2961,7788,2438,7140,27.547,25.454,-2.0925827381302,0.000494080397756552,0.153443020149005,5.41789883431855,0.613816542295131,1]
["Solyc12g099900","SL3.0ch12",67825277,67827277,"+",662,7525,432,7379,8.086,5.531,-2.5553280970389,2.12505919941219e-10,0.772098457614761,4.02006486106073,0.102581100032449,1]
["Solyc12g099950","SL3.0ch12",67877817,67879817,"-",613,3305,453,3250,15.646,12.233,-3.4124132896123,1.42510588491835e-05,0,-3.91085760741443,1,1]
["Solyc12g099960","SL3.0ch12",67878660,67880660,"+",49,2343,21,1665,2.048,1.246,-0.8029433818541,0.0313331983025057,0.324699703721178,3.12937542985832,0.534916056810316,1]
["Solyc12g100070","SL3.0ch12",67931171,67933171,"-",3404,6740,2884,6259,33.557,31.543,-2.0135251977776,1.81309188787757E-3,0.289075090655118,3.53694173887021,0.381253956547387,1]
["Solyc12g100110","SL3.0ch12",67937489,67939489,"+",1767,7123,1028,6027,19.876,14.571,-5.3050393860229,4.22727234473133e-18,2.54569711327284,-3.48659240768133,0.626546065817986,1]
["Solyc12g100270","SL3.0ch12",68021914,68023914,"+",1055,5974,922,5734,15.009,13.852,-1.1570839420751,0.0265634088424696,8.37254502676307,2.63727115791274,0.00419127443982538,0.283194841252259]

{"sheet":"PHYA_vs_WT_IG_hypermethylated","index":1,"n_rows":21591,"n_cols":17,"rows_kept":4500,"cut":true,"bounds":{"rows_first":2000,"rows_last":500,"rows_between":2000,"halvings":0}}
["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYA","unmet_PHYA","X.met_WT","X.met_PHYA","X.diff_PHYA.ctrl","FDR_diff_PHYA.WT","logFC_PHYA","logCPM_PHYA","PValue_PHYA","padj_PHYA"]
["Solyc00g005000","SL3.0ch00",14479,16479,"+",1184,8858,1170,7044,11.79,14.244,2.4534937193662,8.86254568757142e-07,0,-2.90243574957455,1,1]
["Solyc00g005040","SL3.0ch00",546343,548343,"+",3357,7750,3640,6977,30.224,34.285,4.060454897275,2.35659413067845e-10,0.479201139911986,1.9093515385174,0.294353780399892,1]
["Solyc00g005050","SL3.0ch00",575385,577385,"-",2233,8002,2494,8117,21.817,23.504,1.6866174353268,0.0022578312222117,0.0432539413816516,6.25879772751795,0.870668343381095,1]
["Solyc00g005060","SL3.0ch00",724013,726013,"-",368,1660,356,1103,18.146,24.4,6.2543175528888,7.35152459852705e-06,0,-3.91085760741443,1,1]
["Solyc00g005080","SL3.0ch00",791775,793775,"-",571,2688,758,2605,17.521,22.539,5.018687471014,3.46438491480398e-07,0,-3.47704062584066,1,1]
["Solyc00g005084","SL3.0ch00",807592,809592,"+",1168,6183,1057,4391,15.889,19.402,3.51262057706,2.43460390460791e-07,0,-3.91085760741443,1,1]
["Solyc00g005092","SL3.0ch00",1125793,1127793,"+",720,7498,679,5710,8.761,10.628,1.8663854784178,1.18348712442584E-4,0.611398718852829,-1.17335822979058,0.607017724938602,1]
["Solyc00g005096","SL3.0ch00",1732561,1734561,"+",1023,8286,1279,7608,10.989,14.392,3.4024431287362,8.6678380743952e-12,0,-3.91085760741443,1,1]
["Solyc00g005280","SL3.0ch00",2188964,2190964,"+",733,1486,1268,1870,33.033,40.408,7.3750054213409,4.12127186967005e-08,0,-3.91085760741443,1,1]
["Solyc00g005283","SL3.0ch00",2354618,2356618,"-",711,4687,862,4447,13.172,16.237,3.0650343768099,6.44641665163745e-06,3.15586622462973,-3.22628728327423,0.109234581913757,1]
["Solyc00g005440","SL3.0ch00",2365409,2367409,"-",928,5231,1189,5794,15.067,17.027,1.9596846627059,1.44009264650465E-3,0,-3.91085760741443,1,1]
["Solyc00g005445","SL3.0ch00",2377779,2379779,"-",645,2388,617,1987,21.266,23.694,2.4282432413953,0.0150181231082481,0,-3.91085760741443,1,1]
["Solyc00g005450","SL3.0ch00",2464349,2466349,"+",615,6108,825,7265,9.148,10.198,1.0500731121161,0.0162395866133308,0,-3.91085760741443,1,1]
["Solyc00g005460","SL3.0ch00",2490753,2492753,"-",1202,5030,1604,5530,19.288,22.484,3.1963318725746,5.5030795538398e-06,0,-3.91085760741443,1,1]
["Solyc00g005470","SL3.0ch00",2491481,2493481,"-",999,4091,1483,5093,19.627,22.552,2.9249841060426,9.39093533777489e-05,0,-3.91085760741443,1,1]
["Solyc00g005480","SL3.0ch00",2610590,2612590,"+",430,2929,549,2300,12.801,19.27,6.468490273194,6.72189970195285e-12,0,-3.91085760741443,1,1]
["Solyc00g005840","SL3.0ch00",3431254,3433254,"-",1907,8887,1584,6698,17.667,19.126,1.4585924894907,0.00565577968318375,-0.752869056625033,3.84266514413295,0.0702628584618866,1]
["Solyc00g005850","SL3.0ch00",3432603,3434603,"-",2680,11475,1941,7586,18.933,20.374,1.4404356808219,0.00368956288976605,0,-3.91085760741443,1,1]
["Solyc00g005890","SL3.0ch00",3566909,3568909,"-",2087,6435,1960,4443,24.49,30.611,6.1210948150734,2.66715407862547e-16,-2.55020402613469,-3.83813194985351,0.668902179025324,1]
["Solyc00g005900","SL3.0ch00",3739496,3741496,"-",895,4029,731,2660,18.176,21.557,3.3807833657258,0.000106568613105182,0,-3.91085760741443,1,1]
["Solyc00g006020","SL3.0ch00",3943107,3945107,"+",753,3745,561,2376,16.741,19.101,2.3603499183157,0.00546866987139839,0,-3.91085760741443,1,1]
["Solyc00g005903","SL3.0ch00",4162096,4164096,"+",7580,13854,9466,15437,35.364,38.011,2.6471102015973,4.74188631016363e-09,0,-3.91085760741443,1,1]
["Solyc00g005907","SL3.0ch00",4172134,4174134,"+",9775,17244,11699,17583,36.178,39.953,3.774627132833,1.09919136285607e-19,0,-3.91085760741443,1,1]
["Solyc00g006483","SL3.0ch00",4286251,4288251,"-",1316,4818,1685,5124,21.454,24.747,3.2924690719139,8.26054488474794E-6,0,-3.91085760741443,1,1]
["Solyc00g006487","SL3.0ch00",4287311,4289311,"-",1344,5937,1779,6370,18.459,21.831,3.3718966126516,2.06605173539257E-7,0,-3.91085760741443,1,1]
["Solyc00g006490","SL3.0ch00",4295107,4297107,"+",5319,9337,5739,8484,36.292,40.35,4.0578336084275,2.48090916105987e-12,0.160907945044588,5.20433464544667,0.553217550671835,1]
["Solyc00g006510","SL3.0ch00",4370359,4372359,"+",105,692,214,876,13.174,19.633,6.4586235078793,1.68224338091858E-4,0,-3.91085760741443,1,1]
["Solyc00g006540","SL3.0ch00",4386391,4388391,"-",921,5097,1261,5881,15.304,17.656,2.3520309974585,0.000222220595993386,0,-3.91085760741443,1,1]
["Solyc00g006560","SL3.0ch00",4583304,4585304,"-",364,2335,302,1640,13.486,15.551,2.0645019000438,0.024880219620504,0,-3.91085760741443,1,1]
["Solyc00g006650","SL3.0ch00",5617777,5619777,"-",1198,2793,2168,4082,30.018,34.688,4.6704605362065,8.4137950218341e-07,0,-3.91085760741443,1,1]
["Solyc00g006655","SL3.0ch00",5619735,5621735,"-",733,1578,896,1704,31.718,34.462,2.7436674100456,0.0208558569251581,0,-3.91085760741443,1,1]
["Solyc00g006660","SL3.0ch00",5628502,5630502,"+",459,829,1139,1437,35.637,44.216,8.5791925465838,3.46283975396074E-7,0,-3.91085760741443,1,1]
["Solyc00g006680","SL3.0ch00",5629656,5631656,"+",20301,54647,6270,16377,27.087,27.686,0.5990060292644,0.0360383052841618,0.0840124766774129,-3.31507523247684,1,1]
["Solyc00g006800","SL3.0ch00",5775062,5777062,"+",4762,4938,5784,4617,49.093,55.61,6.5172539912399,8.35451860064479e-20,-0.0164746550783338,5.65500708364552,0.956627597515352,1]
["Solyc00g006810","SL3.0ch00",5784771,5786771,"+",3143,6522,2618,4664,32.519,35.952,3.432261734886,2.95064565927797e-06,-0.359425767651725,5.40261514279821,0.257491225078621,1]
["Solyc00g006850","SL3.0ch00",6240615,6242615,"-",1312,7232,1245,6395,15.356,16.296,0.94000627487892,0.0481987711425003,0,-3.91085760741443,1,1]
["Solyc00g006860","SL3.0ch00",6280339,6282339,"-",509,4100,565,3702,11.044,13.241,2.1975427072993,0.000995783747090942,0,-3.91085760741443,1,1]
["Solyc00g006867","SL3.0ch00",6390079,6392079,"+",161,8805,233,7236,1.796,3.12,1.3238883108103,4.12127186967005e-08,-0.716583498540333,-0.558251759538668,0.439300483574759,1]
["Solyc00g006880","SL3.0ch00",6433744,6435744,"+",826,4605,905,3488,15.209,20.601,5.3919706125935,6.85895443492835e-12,0,-3.91085760741443,1,1]
["Solyc00g006890","SL3.0ch00",6446980,6448980,"+",1645,5126,1581,4382,24.295,26.513,2.218713326281,0.00251742664400581,0,-3.91085760741443,1,1]
["Solyc00g006900","SL3.0ch00",6518309,6520309,"+",645,3561,490,2113,15.335,18.824,3.4891979681077,1.45537367401263E-4,1.26001717450272,-3.6619627034305,0.710030743265158,1]
["Solyc00g007560","SL3.0ch00",6672572,6674572,"+",2918,8009,2762,6721,26.704,29.126,2.4213106138664,9.24010440864634e-05,0,-3.91085760741443,1,1]
["Solyc00g007555","SL3.0ch00",6673303,6675303,"+",1838,6942,1673,5854,20.934,22.227,1.2927099495726,0.023065722996104,0,-3.91085760741443,1,1]
["Solyc00g007570","SL3.0ch00",6677501,6679501,"-",1541,5385,1655,4883,22.249,25.314,3.0640568870038,2.38643195337952E-5,0,-3.91085760741443,1,1]
["Solyc00g007600","SL3.0ch00",6693238,6695238,"-",2587,6683,2543,5296,27.907,32.44,4.5331346751431,1.83212036721503e-10,-0.882423445377351,-3.21208082084667,0.846172857014662,1]
["Solyc00g007920","SL3.0ch00",6890411,6892411,"-",724,1721,1087,1935,29.611,35.97,6.3581046423027,6.47418313047405e-07,0,-3.91085760741443,1,1]
["Solyc00g007930","SL3.0ch00",6919608,6921608,"-",1381,4302,2399,5560,24.301,30.142,5.8414321488425,1.01680963189046E-13,0,-3.91085760741443,1,1]
["Solyc00g007950","SL3.0ch00",6926603,6928603,"-",288,870,451,1015,24.87,30.764,5.8935173076787,0.000584794108766855,0,-3.91085760741443,1,1]
["Solyc00g007960","SL3.0ch00",6934602,6936602,"-",561,2684,826,2533,17.288,24.591,7.3025163865355,5.68563887464843e-13,0,-3.91085760741443,1,1]
["Solyc00g007980","SL3.0ch00",6942523,6944523,"-",314,870,653,1435,26.52,31.274,4.753676089883,2.4391596067027E-3,0,-3.91085760741443,1,1]
["Solyc00g007990","SL3.0ch00",6954197,6956197,"+",240,558,30,20,30.075,60,29.924812030075,2.28844605806951E-5,0,-3.91085760741443,1,1]
["Solyc00g008000","SL3.0ch00",6974073,6976073,"-",511,2076,886,2530,19.753,25.937,6.1841589500375,2.23621161983048e-08,0,-3.91085760741443,1,1]
["Solyc00g008010","SL3.0ch00",6985748,6987748,"-",371,832,314,557,30.84,36.051,5.2109489002332,0.00753537931792377,0,-3.91085760741443,1,1]
["Solyc00g008020","SL3.0ch00",6991194,6993194,"-",88,231,534,776,27.586,40.763,13.177151882074,9.91297950652997e-06,0,-3.91085760741443,1,1]
["Solyc00g008030","SL3.0ch00",6993244,6995244,"-",771,3271,878,3064,19.075,22.273,3.1982424020138,0.000304619233937332,0,-3.91085760741443,1,1]
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["Solyc12g099580","SL3.0ch12",67662948,67664948,"+",1641,4689,1782,3687,25.924,32.584,6.6594827025917,4.76939286716311e-15,-1.25664371705824,-0.341522734793326,0.249120800137879,1]
["Solyc12g099610","SL3.0ch12",67675562,67677562,"+",1343,9538,1334,7877,12.343,14.483,2.1400681792709,7.70934932589922e-06,0,-3.91085760741443,1,1]
["Solyc12g099630","SL3.0ch12",67679417,67681417,"+",2200,2263,1656,1578,49.294,51.206,1.9117401915648,0.0463972592431618,0.00167405797813383,1.87374492177816,1,1]
["Solyc12g099650","SL3.0ch12",67688849,67690849,"+",1480,6310,1462,5597,18.999,20.711,1.712432584992,0.00523873917327542,-1.01837897982325,4.37963964894875,0.141295001898605,1]
["Solyc12g099670","SL3.0ch12",67708881,67710881,"-",3804,9347,3915,8258,28.926,32.161,3.2357836801152,2.84666325982347e-08,0,-3.91085760741443,1,1]
["Solyc12g099680","SL3.0ch12",67708958,67710958,"+",3792,9526,3906,8416,28.473,31.699,3.226655792938,2.24090003254998e-08,0,-3.91085760741443,1,1]
["Solyc12g099710","SL3.0ch12",67720254,67722254,"+",342,1911,524,913,15.18,36.465,21.28509702211,1.34116387164401e-47,-0.150755330513768,5.2151773837404,0.631229279611536,1]
["Solyc12g099740","SL3.0ch12",67751571,67753571,"-",3509,10977,3726,9934,24.223,27.277,3.0533322525368,5.91855883679675e-09,0.404014816358874,4.85580092332481,0.252497222615823,1]
["Solyc12g099770","SL3.0ch12",67758402,67760402,"+",2383,6276,1976,4549,27.52,30.284,2.7630260013389,0.000146348311357653,0.400644987148377,7.71803527098987,0.240917881689839,1]
["Solyc12g099790","SL3.0ch12",67767903,67769903,"+",691,7311,867,7926,8.635,9.86,1.2247748366559,3.77931793701715E-3,0.316419213280958,0.767000589637595,0.673173771496701,1]
["Solyc12g099800","SL3.0ch12",67779125,67781125,"-",292,3383,339,2239,7.946,13.15,5.204150240391,4.8085716173002e-11,-0.448662970287984,4.92019589445467,0.17355085747043,1]
["Solyc12g099820","SL3.0ch12",67794318,67796318,"-",30,1427,39,596,2.059,6.142,4.082706888818,5.41535661447771e-06,0.268829165429444,4.5023530761018,0.392014918799674,1]
["Solyc12g099850","SL3.0ch12",67807817,67809817,"-",520,976,517,360,34.759,58.951,24.191610924457,1.47651733025606e-29,0,-3.91085760741443,1,1]
["Solyc12g099910","SL3.0ch12",67830642,67832642,"+",7548,8331,7788,6886,47.534,53.073,5.5389837671378,1.71014012647723E-21,0.180225491656214,6.38411987643982,0.536246818629284,1]
["Solyc12g099930","SL3.0ch12",67861697,67863697,"+",788,10195,802,9333,7.175,7.913,0.73844760128684,0.0219607718756963,-1.14617348998894,5.73055490486814,0.0268398646273984,0.77675846735868]
["Solyc12g099940","SL3.0ch12",67866519,67868519,"+",1061,6726,991,5782,13.625,14.632,1.0063526814093,0.0398740384893342,-0.0759132809420175,4.91835712610305,0.816072958428008,1]
["Solyc12g099990","SL3.0ch12",67892678,67894678,"-",136,1579,176,1290,7.93,12.005,4.0754278714019,9.33555481939866E-5,0.296387362290249,6.64603033863791,0.40512343324868,1]
["Solyc12g099995","SL3.0ch12",67891579,67893579,"+",169,2190,188,1929,7.164,8.88,1.7164386965727,0.0179998481359097,0.182079472031205,2.5729533890001,0.728263504342549,1]
["Solyc12g100000","SL3.0ch12",67893948,67895948,"+",44,1347,42,816,3.163,4.895,1.7319129468662,0.0206897372610427,0.109554329148134,5.03909922455397,0.70403666149485,1]
["Solyc12g100020","SL3.0ch12",67905056,67907056,"+",504,4970,462,3530,9.207,11.573,2.3659851672655,1.45537367401263E-4,0,-3.91085760741443,1,1]
["Solyc12g100040","SL3.0ch12",67922372,67924372,"-",1797,7448,1689,6559,19.438,20.478,1.0401577595355,0.0408790527037094,0.161191910926722,4.18102588021319,0.592173401298111,1]
["Solyc12g100050","SL3.0ch12",67925603,67927603,"-",8,1006,52,814,0.789,6.005,5.2156643025359,7.14324711173747e-11,0.615271539049151,4.30586895010759,0.0653974628707034,1]
["Solyc12g100060","SL3.0ch12",67928818,67930818,"-",60,1378,115,1738,4.172,6.206,2.033690433211,0.00543603424544162,0.68605597388861,8.07136467742816,0.0813663004379106,1]
["Solyc12g100120","SL3.0ch12",67944380,67946380,"+",489,8187,600,7936,5.636,7.029,1.3928155231573,1.38643365090306E-4,-0.879039293843625,5.98512636062317,2.08746496920684E-3,0.179914330165277]
["Solyc12g100140","SL3.0ch12",67956977,67958977,"+",941,4444,1003,4008,17.474,20.016,2.5414987677064,0.000634070269733766,-0.337236351335404,3.81081318018535,0.354494047202206,1]
["Solyc12g100150","SL3.0ch12",67963908,67965908,"+",1266,3786,985,2583,25.059,27.607,2.5471198193496,0.00468395304944566,3.20171349412838,-2.47412922827029,0.121878332286905,1]
["Solyc12g100160","SL3.0ch12",67968728,67970728,"+",5920,9540,6438,7889,38.292,44.936,6.6437671713483,2.61233858973661e-30,-0.83532504360804,5.1043759689953,0.02078230991439,0.682632393225424]
["Solyc12g100170","SL3.0ch12",67973773,67975773,"+",132,3733,122,2578,3.415,4.519,1.103253318001,0.0138324710248032,0,-0.840707422538963,1,1]
["Solyc12g100180","SL3.0ch12",67977198,67979198,"+",642,7694,598,6059,7.702,8.983,1.2814898781736,0.00293228286799647,-4.62267484549214,-3.48457333746722,0.156372752824372,1]
["Solyc12g100220","SL3.0ch12",68000736,68002736,"+",12,525,18,96,2.235,15.789,13.554836812702,1.05036750735663E-7,0,-3.57601201221185,1,1]
["Solyc12g100280","SL3.0ch12",68030644,68032644,"-",1120,3867,1231,3357,22.458,26.831,4.372471302457,7.35829872983284e-07,-3.39621793629361,-3.76922177802069,0.436642576787957,1]
["Solyc12g100310","SL3.0ch12",68065572,68067572,"-",1859,7327,1860,5223,20.237,26.26,6.0227416396035,5.71284250551897e-19,-0.114597952561712,5.72997225902678,0.708911743844284,1]
["Solyc12g100300","SL3.0ch12",68050958,68052958,"+",1877,6515,1847,5301,22.367,25.839,3.4728560736556,4.72473762324684e-07,0.893666623659232,-1.78227665393969,0.462474113447645,1]
["Solyc12g100340","SL3.0ch12",68086246,68088246,"-",4522,10282,4469,7808,30.546,36.401,5.8556025608721,1.37809610516193e-23,0,-3.91085760741443,1,1]
["Solyc12g100350","SL3.0ch12",68089938,68091938,"+",5505,7522,4932,5545,42.258,47.075,4.8161578115757,3.01124568238696E-13,0.848725056380615,-0.782669363899267,0.42491066675553,1]
["Solyc12g100353","SL3.0ch12",68098699,68100699,"+",71,5386,103,5260,1.301,1.921,0.61948566677843,6.33658734200302E-3,0,-3.91085760741443,1,1]

{"sheet":"PHYA_vs_WT_BK_hypomethylated","index":2,"n_rows":7281,"n_cols":17,"rows_kept":4500,"cut":true,"bounds":{"rows_first":2000,"rows_last":500,"rows_between":2000,"halvings":0}}
["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYA","unmet_PHYA","X.met_WT","X.met_PHYA","X.diff_PHYA.ctrl","FDR_diff_PHYA.WT","logFC_PHYA","logCPM_PHYA","PValue_PHYA","padj_PHYA"]
["Solyc00g005040","SL3.0ch00",546343,548343,"+",3846,7148,4328,8676,34.983,33.282,-1.7006507898075,0.00423321409210394,-0.0121004254931647,1.9093515385174,0.990056668962073,1]
["Solyc00g005060","SL3.0ch00",724013,726013,"-",338,1076,19,157,23.904,10.795,-13.108364407869,3.72566621121907e-05,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g006510","SL3.0ch00",4370359,4372359,"+",62,170,175,867,26.724,16.795,-9.9295122112648,0.000641511887154645,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g006590","SL3.0ch00",5032575,5034575,"-",612,5481,483,5707,10.044,7.803,-2.2414052302399,1.63435702595548E-5,0.40731068772844,-3.61150191654465,1,1]
["Solyc00g006820","SL3.0ch00",5819900,5821900,"+",3302,8671,3074,8576,27.579,26.386,-1.1924526895099,0.0246368668202844,-1.12822449605065,1.61308375064248,0.333196526132593,1]
["Solyc00g008010","SL3.0ch00",6985748,6987748,"-",53,56,67,113,48.624,37.222,-11.401630988787,0.0378662399459088,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g009090","SL3.0ch00",7841622,7843622,"-",1847,8209,1797,8517,18.367,17.423,-0.94422369113419,0.0451734453067206,-5.12548240610387e-15,-3.59635664645328,1,1]
["Solyc00g013110","SL3.0ch00",9719089,9721089,"-",134,1527,294,4621,8.067,5.982,-2.0857405514456,0.00300186666945195,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g013120","SL3.0ch00",9726388,9728388,"-",375,1418,588,3877,20.915,13.169,-7.7455752088032,2.82484232271112E-13,5.18393241741616,-3.04179885224491,0.0765687606248311,0.486104265180859]
["Solyc00g013130","SL3.0ch00",9727452,9729452,"-",716,4363,1002,10610,14.097,8.629,-5.4682587626694,1.92736524294713E-24,-5.12548240610387e-15,-3.50606629457688,1,1]
["Solyc00g013133","SL3.0ch00",9727784,9729784,"-",747,4732,1170,12088,13.634,8.825,-4.8090143330625,4.81766314250085e-21,2.56982831264948,-3.38388112100868,0.635575684928415,1]
["Solyc00g013137","SL3.0ch00",9730078,9732078,"-",289,1155,683,3288,20.014,17.2,-2.8141526063964,0.0120501886157969,-2.86373073201995,-3.78951150766205,0.650135920579804,1]
["Solyc00g013140","SL3.0ch00",9737602,9739602,"-",1467,16730,2185,36562,8.062,5.639,-2.4226221668821,4.56014136322778e-26,-0.527304947979384,-1.03249406421298,0.608796220114743,1]
["Solyc00g013150","SL3.0ch00",9736648,9738648,"+",1822,25523,2927,54035,6.663,5.139,-1.5244962960907,4.6441540694845e-18,0.347030758434175,-2.82133188471744,0.821581357377339,1]
["Solyc00g013155","SL3.0ch00",9739388,9741388,"-",651,7830,984,17935,7.676,5.201,-2.4748610393166,2.03578749601983e-14,4.84886694567585,-3.15174374011737,0.1255423639893,0.633408903677682]
["Solyc00g013160","SL3.0ch00",9741809,9743809,"-",923,14558,1752,32517,5.962,5.112,-0.84965480810129,1.20147006116117E-4,1.10990615145538,-1.09183566663966,0.243631779396249,0.879070058049534]
["Solyc00g013170","SL3.0ch00",9740381,9742381,"+",977,10635,1654,26217,8.414,5.934,-2.4792260830936,7.35980683613009e-18,2.88564127525632,-1.39935424343059,0.0104967023152805,0.133801157666769]
["Solyc00g013180","SL3.0ch00",9744467,9746467,"-",966,9530,1344,23352,9.204,5.442,-3.7613292268127,2.10502106598499E-35,4.81346475633077,-2.8354164280273,0.0287932551106253,0.266462392961667]
["Solyc00g014830","SL3.0ch00",10125614,10127614,"-",332,12289,526,28400,2.631,1.818,-0.81210316412588,2.67479861222382e-07,-1.94600010205589,-1.51507708153946,0.142127590181532,0.676444296604048]
["Solyc00g014840","SL3.0ch00",10123786,10125786,"+",214,7901,413,20976,2.637,1.931,-0.70619274503421,0.000231039393777133,4.04222189035792,-3.38395309736054,0.283536625048218,0.947187634699231]
["Solyc00g019620","SL3.0ch00",10819131,10821131,"-",957,14315,1406,22984,6.266,5.765,-0.50171218055816,0.0248201353726807,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g019630","SL3.0ch00",10819968,10821968,"-",1951,36109,2740,62684,5.126,4.188,-0.93805111621133,1.21272078497114E-11,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g019730","SL3.0ch00",10829313,10831313,"-",1916,31250,2893,51105,5.777,5.358,-0.41939470547125,0.00609073276508213,2.88126792077287,-2.03310401875312,0.075225729895827,0.481509288996768]
["Solyc00g019750","SL3.0ch00",10831749,10833749,"-",873,8604,1111,12509,9.212,8.157,-1.0546539988537,0.00387348529263287,-2.39038210178159,-3.27883722145106,0.391934759722861,1]
["Solyc00g020000","SL3.0ch00",10850676,10852676,"+",833,24455,1233,43568,3.294,2.752,-0.54188180455168,5.49795369614701e-05,3.7754070379776,-3.50132037671225,0.217762173351408,0.833215167959851]
["Solyc00g020010","SL3.0ch00",10853344,10855344,"-",1887,19699,2536,39670,8.742,6.009,-2.7331527115317,2.35443733704346E-35,-2.91399587475337,-3.39344519584705,0.264290440929867,0.915034139643448]
["Solyc00g020020","SL3.0ch00",10851713,10853713,"+",832,23997,1040,44364,3.351,2.291,-1.0603732064543,1.08175837171119e-15,-0.892926755401264,-3.05381982949616,0.849722338982258,1]
["Solyc00g020030","SL3.0ch00",10854853,10856853,"-",2230,20327,2914,41678,9.886,6.535,-3.3512619603117,3.61138730812568e-50,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g020040","SL3.0ch00",10854013,10856013,"+",2370,19706,3057,41709,10.736,6.829,-3.906797195996,2.51203140524734e-63,-3.52507808538219,-2.82130233030166,0.11518410687319,0.605868402152977]
["Solyc00g021630","SL3.0ch00",11015632,11017632,"-",919,27995,1254,48886,3.178,2.501,-0.67739388300295,4.74396768276807e-08,-1.6905155862302,-1.98897428580773,0.314696930131688,0.990325534847482]
["Solyc00g021650","SL3.0ch00",11017610,11019610,"+",593,24066,911,45136,2.405,1.978,-0.42638813209339,2.09935054265618E-4,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g021655","SL3.0ch00",11037440,11039440,"+",939,1211,1391,1981,43.674,41.251,-2.4229358051256,0.0447264842336478,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g022070","SL3.0ch00",11051610,11053610,"+",1686,16825,2329,30814,9.108,7.027,-2.08097300466,2.86070186451826e-16,-5.12548240610387e-15,-3.87282557379725,1,1]
["Solyc00g022080","SL3.0ch00",11055560,11057560,"-",737,31158,1348,65905,2.311,2.004,-0.30633545516951,1.53532576552246E-3,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g022100","SL3.0ch00",11059261,11061261,"-",543,28468,1055,61512,1.872,1.686,-0.18551143473049,0.028749517379048,0.655931811135432,-1.54422382049232,0.659434503557816,1]
["Solyc00g022103","SL3.0ch00",11060109,11062109,"-",539,25269,1061,56576,2.088,1.841,-0.24766827963985,0.0116372936762533,0.252948044829824,-0.130365875463047,0.759485330303792,1]
["Solyc00g022107","SL3.0ch00",11072272,11074272,"-",2361,12289,1957,12741,16.116,13.315,-2.8013042567608,3.38745632327722e-11,0.688424692922675,-2.03864792398076,0.656727379732835,1]
["Solyc00g023050","SL3.0ch00",11146810,11148810,"-",9226,21759,9126,23060,29.776,28.354,-1.4217552103379,8.77987625206564e-05,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g023570","SL3.0ch00",11184688,11186688,"-",431,17006,753,35777,2.472,2.061,-0.41043599906753,0.00200737051643387,-5.12548240610387e-15,-3.8720324817543,1,1]
["Solyc00g023580","SL3.0ch00",11182928,11184928,"+",389,15075,735,33745,2.516,2.132,-0.38384938358442,0.00583819191312846,-3.8012959854011,-3.69406116842406,0.291841421407309,0.958582396140556]
["Solyc00g023710","SL3.0ch00",11199671,11201671,"-",672,7319,1240,15326,8.409,7.485,-0.92424997076196,0.00817181126932661,-5.12548240610387e-15,-3.87428074584103,1,1]
["Solyc00g025290","SL3.0ch00",11313892,11315892,"+",1156,10178,1342,21740,10.199,5.814,-4.3853457938918,2.48100286400578e-45,-1.22819715601118,-1.17447558515912,0.501848845450273,1]
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["Solyc12g096930","SL3.0ch12",66626624,66628624,"+",1133,6865,921,6184,14.166,12.963,-1.2033391880694,0.0202802813900332,-5.12548240610387e-15,0.980228707235283,1,1]
["Solyc12g097010","SL3.0ch12",66670941,66672941,"-",35,471,14,572,6.917,2.389,-4.5279175491373,0.000328817799096384,-1.11726872378491,-1.13553128545505,0.286582334993755,0.951180874976706]
["Solyc12g098180","SL3.0ch12",66787244,66789244,"+",2625,5263,2724,5914,33.278,31.535,-1.7433200016719,0.0115391002627876,0.282378314356576,-1.11831569942161,0.87544168071254,1]
["Solyc12g098190","SL3.0ch12",66794141,66796141,"-",4864,5492,5514,6545,46.968,45.725,-1.2427567805784,0.0372456256073313,0.023326341224478,4.74397987545438,0.936613365273448,1]
["Solyc12g098195","SL3.0ch12",66795127,66797127,"-",2942,5272,2968,5966,35.817,33.221,-2.595496591104,0.000327938821607474,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g098240","SL3.0ch12",66822209,66824209,"-",343,3332,311,4028,9.333,7.168,-2.165783206576,0.000441689007275824,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g098310","SL3.0ch12",66847837,66849837,"+",1098,8287,880,8891,11.7,9.006,-2.6932775475818,2.12612053761957e-09,-1.26376223897871,3.93054776337667,0.00978328568326523,0.126923671497653]
["Solyc12g098320","SL3.0ch12",66858577,66860577,"-",735,3282,489,2480,18.297,16.47,-1.8270447600057,0.0291403965346244,1.26963369414757,-1.26208373412179,0.438737180020793,1]
["Solyc12g098360","SL3.0ch12",66878794,66880794,"-",1084,4714,1116,5612,18.696,16.587,-2.10870614698,1.63269675827532E-3,0.2543023626662,2.93517062227571,0.581099707922072,1]
["Solyc12g098380","SL3.0ch12",66883857,66885857,"+",87,817,23,361,9.624,5.99,-3.6343104719764,0.0234071828908407,-0.390814795685765,4.63040202445594,0.246177745039541,0.883408099278242]
["Solyc12g098410","SL3.0ch12",66902750,66904750,"+",899,5332,760,5617,14.428,11.918,-2.5100309960313,3.43352454580667e-05,-5.12548240610387e-15,-3.79913482239491,1,1]
["Solyc12g098420","SL3.0ch12",66902750,66904750,"+",899,5332,760,5617,14.428,11.918,-2.5100309960313,3.43352454580667e-05,0.308139727495021,5.85955608553069,0.260088523299306,0.908037706331829]
["Solyc12g098450","SL3.0ch12",66932068,66934068,"-",2669,8454,3057,10543,23.995,22.478,-1.517383825777,3.76482583515248E-3,-2.89609522542311,-2.53228219531303,0.182576558194411,0.769096494346684]
["Solyc12g098460","SL3.0ch12",66934807,66936807,"+",1444,6869,1278,8523,17.37,13.039,-4.3308979695581,2.40796831445256E-15,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g098580","SL3.0ch12",67025973,67027973,"-",2741,5349,2491,5588,33.881,30.833,-3.0483110923634,3.8688862419236E-5,1.27955425131424,0.179830985863639,0.238721285726693,0.869817674670404]
["Solyc12g098600","SL3.0ch12",67028423,67030423,"+",1784,5204,1377,4522,25.529,23.343,-2.1865396257726,0.00323127924108804,-3.7329818934051,4.06796060705703,0.000307778757231652,0.00958939946747537]
["Solyc12g098615","SL3.0ch12",67037193,67039193,"-",3236,6830,3845,8871,32.148,30.237,-1.9103282912832,0.00163466351046337,-3.33875906826661,-2.24139100381161,0.381314635162164,1]
["Solyc12g098620","SL3.0ch12",67044434,67046434,"+",2260,7730,2279,9415,22.623,19.489,-3.1339959764793,3.01169661183219E-8,0.153031390083996,0.471950471458418,0.872903464768201,1]
["Solyc12g098630","SL3.0ch12",67061346,67063346,"-",662,2258,600,2331,22.671,20.471,-2.2004038081351,0.0256156191860833,0.199780867505906,0.109018518100059,0.89125151477176,1]
["Solyc12g098740","SL3.0ch12",67124328,67126328,"+",1432,8296,385,8105,14.72,4.535,-10.185647975947,1.66059040571472e-121,0.217591119464839,7.91005035557334,0.450782798072591,1]
["Solyc12g098757","SL3.0ch12",67156543,67158543,"+",2565,5349,2541,6202,32.411,29.063,-3.3476667611572,4.03249262029376e-06,4.25354007743814,-3.32454856206586,0.172557761101366,0.74731153881507]
["Solyc12g098910","SL3.0ch12",67250341,67252341,"+",2051,6069,2098,7362,25.259,22.178,-3.0810308376467,2.39590149354853e-06,1.70477277845199,0.161585511847664,0.0485587910174852,0.370857816825783]
["Solyc12g099040","SL3.0ch12",67322049,67324049,"+",3343,5711,3708,7415,36.923,33.336,-3.5865768756655,1.85689332165275E-7,-5.12548240610387e-15,-3.59313229895585,1,1]
["Solyc12g099130","SL3.0ch12",67374354,67376354,"+",324,6506,288,6941,4.744,3.984,-0.75982393187355,0.0180706801290887,-0.805403175676353,-2.93925070570666,0.999999999999998,1]
["Solyc12g099140","SL3.0ch12",67381709,67383709,"+",1458,7058,1079,6842,17.121,13.622,-3.4986965281687,1.21382728075187E-9,1.74300966697933,1.99885098853957,0.0500307669179143,0.377543010693205]
["Solyc12g099190","SL3.0ch12",67407606,67409606,"+",2256,7891,1998,7910,22.233,20.166,-2.067649556366,0.000321445628344944,1.12874233190031,3.20378859514667,0.00813554336283275,0.110307852540486]
["Solyc12g099220","SL3.0ch12",67421279,67423279,"-",3135,6816,2683,6432,31.504,29.435,-2.0693741626896,0.00162790179410196,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g099260","SL3.0ch12",67445854,67447854,"-",2273,8775,1966,9400,20.574,17.297,-3.2766573401393,8.61105580019958E-10,4.10443952536139,4.24239351487743,3.55211567907967e-06,0.000284232826866491]
["Solyc12g099360","SL3.0ch12",67517754,67519754,"+",1808,6724,1499,6378,21.191,19.03,-2.160723467428,0.000502070897733687,-0.388795806145552,7.63458964891108,0.214433709338302,0.827832154950069]
["Solyc12g099370","SL3.0ch12",67523898,67525898,"+",2957,8464,2685,8386,25.891,24.253,-1.6383510113749,0.00348373149854212,-1.01088877659946,4.27854115802709,0.0082874874571112,0.111960148622737]
["Solyc12g099390","SL3.0ch12",67534610,67536610,"+",2856,7774,2926,9122,26.867,24.286,-2.5811679590825,1.06319233822559E-5,-1.35441502936186E-4,6.82112596413925,0.999971462158984,1]
["Solyc12g099400","SL3.0ch12",67546725,67548725,"-",2578,5989,2592,7447,30.092,25.819,-4.2729095991026,2.38313554234391e-10,0.0708950441633407,4.36295945458074,0.858149092131856,1]
["Solyc12g099410","SL3.0ch12",67545982,67547982,"+",2465,4931,2460,6409,33.329,27.737,-5.5917647171457,4.82936994777159e-14,-5.12548240610387e-15,-3.79586472962067,1,1]
["Solyc12g099420","SL3.0ch12",67550697,67552697,"+",145,1730,36,964,7.733,3.6,-4.1333333333333,9.53704730579585e-06,-0.581418301735325,3.79986932988691,0.0846341326118266,0.511869065820056]
["Solyc12g099490","SL3.0ch12",67600934,67602934,"+",3282,8809,3011,9369,27.144,24.321,-2.8226705426766,6.57292662366059e-07,0.350415335172827,6.299373887455,0.233303502559024,0.861011453933368]
["Solyc12g099500","SL3.0ch12",67608122,67610122,"-",1368,5834,1341,6731,18.995,16.613,-2.3817405362292,1.21607222872325E-4,1.94772138315319,7.35397338436693,1.49668718609957e-06,1.43521467218256E-4]
["Solyc12g099530","SL3.0ch12",67625847,67627847,"+",1224,5394,935,4520,18.495,17.14,-1.3547752858008,0.0317896846607907,-0.31365324293973,4.55514266895669,0.284043566592704,0.947730437489537]
["Solyc12g099590","SL3.0ch12",67668359,67670359,"-",1106,6197,1068,7261,15.144,12.823,-2.3217933930875,3.34111170889928e-05,2.17521870561079,-0.0443922890031553,0.081019695156905,0.501368937088612]
["Solyc12g099600","SL3.0ch12",67668528,67670528,"+",1135,6432,1106,7613,14.999,12.685,-2.3143983025637,2.25795959093554e-05,0.612488759963513,3.96312420906162,0.0893445124661166,0.526991181050141]
["Solyc12g099650","SL3.0ch12",67688849,67690849,"+",1108,3486,1153,4352,24.118,20.945,-3.1738195023561,0.000148268220962069,0.866047938086501,4.37963964894875,0.233999548425147,0.861700385881877]
["Solyc12g099720","SL3.0ch12",67724258,67726258,"+",136,2172,27,1943,5.893,1.371,-4.5219892846774,4.61061462535665e-15,-5.12548240610387e-15,-3.79760289006955,1,1]
["Solyc12g099730","SL3.0ch12",67732711,67734711,"-",732,5360,552,5205,12.016,9.588,-2.4274311178569,2.60391629757932e-05,6.28735206123485,-2.87597208106449,0.0636323074877246,0.436015397360332]
["Solyc12g099800","SL3.0ch12",67779125,67781125,"-",156,2544,87,2148,5.778,3.893,-1.8851603281133,0.00184666941843864,0.154627005181809,4.92019589445467,0.637681498309948,1]
["Solyc12g099870","SL3.0ch12",67816286,67818286,"-",108,670,4,127,13.882,3.053,-10.828312957476,0.000141556035828743,-5.12548240610387e-15,-2.7293305007382,1,1]
["Solyc12g099880","SL3.0ch12",67817606,67819606,"-",48,810,10,388,5.594,2.513,-3.0818427803352,0.00953060165488218,-5.12548240610387e-15,-3.14200809435297,1,1]
["Solyc12g099940","SL3.0ch12",67866519,67868519,"+",1038,5126,903,5307,16.84,14.541,-2.2986516691903,0.00040383349243704,0.366456060771801,4.91835712610305,0.258863153506146,0.906046146956456]
["Solyc12g099950","SL3.0ch12",67877817,67879817,"-",337,1933,238,2364,14.846,9.147,-5.6990048319321,1.98847175933801e-09,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g099960","SL3.0ch12",67878660,67880660,"+",38,1566,25,1670,2.369,1.475,-0.89415105304585,0.0425880595895418,0.441270047435306,3.12937542985832,0.427384120527413,1]
["Solyc12g099990","SL3.0ch12",67892678,67894678,"-",46,807,17,533,5.393,3.091,-2.3018224448471,0.028563510414153,0.951827521530115,6.64603033863791,0.00790847339200679,0.10808952093439]
["Solyc12g100000","SL3.0ch12",67893948,67895948,"+",39,483,15,626,7.471,2.34,-5.1311707640719,4.03700108273294e-05,-0.220465112305279,5.03909922455397,0.444875227844319,1]
["Solyc12g100010","SL3.0ch12",67897098,67899098,"+",29,594,18,662,4.655,2.647,-2.0078368426022,0.032427555406698,0.861434691163381,-1.95572496270313,0.717231354358796,1]
["Solyc12g100040","SL3.0ch12",67922372,67924372,"-",1291,5551,1100,5518,18.869,16.621,-2.247416075969,0.00057648484625479,-0.289068295033627,4.18102588021319,0.339188527973262,1]
["Solyc12g100170","SL3.0ch12",67973773,67975773,"+",102,1435,45,1300,6.636,3.346,-3.2905795822016,6.22570209600517e-05,6.34061938739743,-0.840707422538963,4.2680800989468E-3,0.070156566626438]
["Solyc12g100240","SL3.0ch12",68007861,68009861,"-",879,3304,791,3496,21.014,18.451,-2.5624952565231,0.00245381965003184,8.1282390733056,-0.75790139990311,0.00439743361610382,0.0719192526661186]
["Solyc12g100280","SL3.0ch12",68030644,68032644,"-",1424,2846,1388,3458,33.349,28.642,-4.706767019034,1.75719734325952E-6,-5.12548240610387e-15,-3.76922177802069,1,1]
["Solyc12g100320","SL3.0ch12",68069678,68071678,"-",250,2630,207,3465,8.681,5.637,-3.0433006535948,2.63692191120435e-06,0.250006869170965,4.36975612256774,0.411901287516179,1]
["Solyc12g100330","SL3.0ch12",68068710,68070710,"+",248,2607,200,3257,8.687,5.785,-2.9011518546344,1.06504301471875E-5,-0.260654353642884,5.77562078176169,0.376857468899633,1]

{"sheet":"PHYA_vs_WT_BK_hypermethylated","index":3,"n_rows":16130,"n_cols":17,"rows_kept":4500,"cut":true,"bounds":{"rows_first":2000,"rows_last":500,"rows_between":2000,"halvings":0}}
["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYA","unmet_PHYA","X.met_WT","X.met_PHYA","X.diff_PHYA.ctrl","FDR_diff_PHYA.WT","logFC_PHYA","logCPM_PHYA","PValue_PHYA","padj_PHYA"]
["Solyc00g005080","SL3.0ch00",791775,793775,"-",401,2162,617,1851,15.646,25,9.354272337105,8.20024644883446e-16,-5.12548240610387e-15,-3.47704062584066,1,1]
["Solyc00g005084","SL3.0ch00",807592,809592,"+",807,4294,1020,3685,15.82,21.679,5.8586374574717,3.69230596481608e-13,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005090","SL3.0ch00",1061916,1063916,"-",133,580,180,612,18.654,22.727,4.0736962896851,0.033371754544844,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005092","SL3.0ch00",1125793,1127793,"+",729,6639,1083,8504,9.894,11.297,1.4024106001307,2.57796326569355E-3,-2.25253814979463,-1.17335822979058,0.146312351198395,0.687958482669144]
["Solyc00g005094","SL3.0ch00",1146952,1148952,"-",4177,6712,5375,7952,38.36,40.332,1.9718448823573,0.00146950544146061,-1.48798212462246,5.51213579848507,0.01172849797744,0.144607002984169]
["Solyc00g005096","SL3.0ch00",1732561,1734561,"+",1068,7483,1636,9111,12.49,15.223,2.7330856104975,8.52326238255864e-08,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005280","SL3.0ch00",2188964,2190964,"+",592,936,875,1091,38.743,44.507,5.7631569136046,0.000550277664350068,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005283","SL3.0ch00",2354618,2356618,"-",486,3395,619,2944,12.523,17.373,4.8504545450272,9.52210179645983e-09,2.22145840938365,-3.22628728327423,0.328960834024076,1]
["Solyc00g005285","SL3.0ch00",2356500,2358500,"-",477,2344,661,2849,16.909,18.832,1.92301127785,0.0290554119875253,1.8090893589006,-3.87049148702182,1,1]
["Solyc00g005287","SL3.0ch00",2357974,2359974,"-",587,5141,725,5271,10.248,12.091,1.8434892349089,1.27027361468137E-3,3.47386019230342,-3.34939923908411,0.274025949441284,0.931650480329383]
["Solyc00g005440","SL3.0ch00",2365409,2367409,"-",630,3642,932,4176,14.747,18.246,3.4986977906435,7.03310174040303e-06,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005445","SL3.0ch00",2377779,2379779,"-",547,2005,765,1666,21.434,31.469,10.034362189535,4.3880623026786e-15,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005460","SL3.0ch00",2490753,2492753,"-",1154,4289,1035,3036,21.202,25.424,4.2221855469784,1.88386154723497e-06,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005470","SL3.0ch00",2491481,2493481,"-",876,3215,869,2467,21.413,26.049,4.6363031794071,3.73876053127847e-06,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005480","SL3.0ch00",2610590,2612590,"+",260,1190,498,1856,17.931,21.155,3.2244455512261,0.0103806198712226,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005840","SL3.0ch00",3431254,3433254,"-",2126,8763,2058,7789,19.524,20.9,1.3754758578591,0.00943739825926453,1.04419105664009,3.84266514413295,0.0144072627014657,0.166931963817954]
["Solyc00g005850","SL3.0ch00",3432603,3434603,"-",2507,10564,2687,9400,19.18,22.23,3.0506317530852,5.19679878493784e-09,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005890","SL3.0ch00",3566909,3568909,"-",1403,3259,1934,3825,30.094,33.582,3.4878390408864,0.000152964426792691,-5.12548240610387e-15,-3.83813194985351,1,1]
["Solyc00g005900","SL3.0ch00",3739496,3741496,"-",489,2367,1140,3631,17.122,23.894,6.7725130295254,5.32391311177438e-12,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g006020","SL3.0ch00",3943107,3945107,"+",876,3541,1414,4653,19.832,23.306,3.4739462613151,2.30250192680195e-05,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005903","SL3.0ch00",4162096,4164096,"+",6353,10033,8935,12019,38.771,42.641,3.8701212041591,1.60999010710317E-13,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc12g099300","SL3.0ch12",67474325,67476325,"+",3526,3651,4471,3896,49.129,53.436,4.3069554801861,1.47974690435988e-07,3.71459543564816,-3.42511387267245,0.351536602470616,1]
["Solyc12g099310","SL3.0ch12",67481789,67483789,"-",164,2926,331,2590,5.307,11.332,6.0242923412539,7.62342987595001e-17,-0.139841148699739,7.46176055500995,0.664789918851188,1]
["Solyc12g099320","SL3.0ch12",67499509,67501509,"-",5416,7811,6017,7361,40.947,44.977,4.0302789013575,8.24153326392964e-11,-0.31184139290288,5.63769944267282,0.224431979587758,0.84656010250198]
["Solyc12g099330","SL3.0ch12",67503363,67505363,"-",700,2466,899,2435,22.11,26.965,4.8546892011364,7.41250178306185e-06,0.604928236404676,6.74897606902199,0.0825745493451351,0.506434581786144]
["Solyc12g099345","SL3.0ch12",67513068,67515068,"-",3484,5744,3420,4999,37.755,40.622,2.8677419791642,1.00606332725748E-4,0.172998223344511,1.48412473308537,0.842216747083659,1]
["Solyc12g099380","SL3.0ch12",67531925,67533925,"-",2660,5666,3590,6030,31.948,37.318,5.3699729774676,1.89949833153751E-13,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g099430","SL3.0ch12",67562885,67564885,"+",795,4248,1071,4881,15.764,17.994,2.2295256759609,0.00162954700039458,1.05622490129066,7.7095346587793,0.0020332932547947,0.0407205112751943]
["Solyc12g099440","SL3.0ch12",67569779,67571779,"+",2303,7924,2413,7767,22.519,23.703,1.1845171579603,0.0279779115984355,0.0937248410592976,8.34987954611291,0.747475908294812,1]
["Solyc12g099450","SL3.0ch12",67580592,67582592,"+",357,6991,365,6134,4.858,5.616,0.75778376523401,0.0280712470619696,4.32689536355731,-0.116080453829851,0.0369767416820132,0.312851713534136]
["Solyc12g099460","SL3.0ch12",67587479,67589479,"-",655,2973,906,3056,18.054,22.867,4.8132145125105,3.4443484153154e-07,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g099470","SL3.0ch12",67596659,67598659,"-",1359,6555,1822,7636,17.172,19.264,2.0920149590761,0.000357477432393477,0.156892258015556,6.04285080568767,0.559253224694227,1]
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["Solyc12g099520","SL3.0ch12",67627400,67629400,"-",1385,3327,1566,3219,29.393,32.727,3.3342336780367,0.000414105578358887,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc12g099560","SL3.0ch12",67653513,67655513,"-",6782,7757,9073,8179,46.647,52.591,5.9440543576942,5.71656773861161E-25,0.0601052115749595,3.78256418239679,0.894721189752134,1]
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["Solyc12g099580","SL3.0ch12",67662948,67664948,"+",1637,3469,2445,4244,32.06,36.553,4.4922277702247,5.60919099467253e-07,0.47230347344247,-0.341522734793326,0.69894324081972,1]
["Solyc12g099610","SL3.0ch12",67675562,67677562,"+",1173,7715,1285,7529,13.198,14.579,1.3815089813951,0.00571312872487088,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g099620","SL3.0ch12",67680945,67682945,"-",1661,5446,2126,5360,23.371,28.4,5.028355354835,1.33099860369342E-11,-1.39132332071767,0.694489556377551,0.0902732058397456,0.530180709673437]
["Solyc12g099630","SL3.0ch12",67679417,67681417,"+",1262,1269,1660,1138,49.862,59.328,9.4663767566662,1.29181432849564e-11,0.324401913708402,1.87374492177816,0.53779616394611,1]
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["Solyc12g100020","SL3.0ch12",67905056,67907056,"+",512,3887,572,3322,11.639,14.689,3.0502566710719,4.76060144157806e-05,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g100070","SL3.0ch12",67931171,67933171,"-",3311,6948,3854,5882,32.274,39.585,7.3109444035471,5.53807296539764e-26,-0.300181730711587,3.53694173887021,0.363566986044835,1]
["Solyc12g100090","SL3.0ch12",67932345,67934345,"+",2851,6872,3078,6947,29.322,30.703,1.3810162447425,0.021629242360742,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g100100","SL3.0ch12",67934890,67936890,"+",1274,4947,1408,4418,20.479,24.168,3.6885022232648,1.72845767382873E-6,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc12g100150","SL3.0ch12",67963908,67965908,"+",669,1959,693,1550,25.457,30.896,5.4395002615952,3.00452095543612E-5,-3.82211543645393,-2.47412922827029,0.236131825508779,0.865377058653266]
["Solyc12g100300","SL3.0ch12",68050958,68052958,"+",2534,6960,2437,6005,26.691,28.868,2.1770255327034,0.000992246703632284,-0.616078534229098,-1.78227665393969,0.539251420014693,1]
["Solyc12g100340","SL3.0ch12",68086246,68088246,"-",4870,9333,6346,10915,34.289,36.765,2.4764308817143,6.23109363858755e-06,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g100350","SL3.0ch12",68089938,68091938,"+",5423,6943,7581,7555,43.854,50.086,6.2317718244016,7.50381527131674e-24,0.160988254401608,-0.782669363899267,0.942733073223583,1]

{"sheet":"PHYB1B2_vs_WT_IG_hypomethylated","index":4,"n_rows":5411,"n_cols":17,"rows_kept":5411}
["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYB1B2","unmet_PHYB1B2","X.met_WT","X.met_PHYB1B2","X.diff_PHYB1B2.ctrl","FDR_diff_PHYB1B2.WT","logFC_PHYB1B2","logCPM_PHYB1B2","PValue_PHYB1B2","padj_PHYB1B2"]
["Solyc00g005090","SL3.0ch00",1061916,1063916,"-",411,1562,280,1299,20.831,17.733,-3.0984792481913,0.0136174810821028,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005285","SL3.0ch00",2356500,2358500,"-",687,3450,634,3635,16.606,14.851,-1.7549831822959,0.017869125755264,-5.12548240610387e-15,-3.87049148702182,1,1]
["Solyc00g005440","SL3.0ch00",2365409,2367409,"-",928,5231,709,4654,15.067,13.22,-1.8471685007625,0.0035752857107942,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005900","SL3.0ch00",3739496,3741496,"-",895,4029,691,3496,18.176,16.503,-1.6728163475319,0.0228516846723374,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005903","SL3.0ch00",4162096,4164096,"+",7580,13854,7304,14433,35.364,33.602,-1.7626813925852,1.09326525748256E-4,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g005907","SL3.0ch00",4172134,4174134,"+",9775,17244,7955,17153,36.178,31.683,-4.4951160555223,1.65431261102233E-26,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g006487","SL3.0ch00",4287311,4289311,"-",1344,5937,1459,6955,18.459,17.34,-1.118855510794,0.0394077405212696,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc00g007970","SL3.0ch00",6941525,6943525,"-",316,533,219,461,37.22,32.206,-5.0143767754452,0.0273241957646358,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc00g008050","SL3.0ch00",7055063,7057063,"-",376,1036,187,659,26.629,22.104,-4.5248762716064,0.0117751352128984,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc00g008070","SL3.0ch00",7078627,7080627,"+",500,1009,327,884,33.135,27.002,-6.1320488847811,4.8511950176153E-4,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g008165","SL3.0ch00",7190282,7192282,"+",494,1160,226,683,29.867,24.862,-5.0045028686665,0.00535997050327019,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g008270","SL3.0ch00",7309768,7311768,"+",319,488,288,608,39.529,32.143,-7.386263055408,1.30264966884283E-3,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g008570","SL3.0ch00",7584122,7586122,"-",488795,497461,20352,33676,49.561,37.669,-11.891305104989,0,-0.00547514378687348,4.3254472958713,0.994264661359307,1]
["Solyc00g008580","SL3.0ch00",7582182,7584182,"+",222005,462543,13651,37520,32.431,26.677,-5.7536691843346,6.78144408168891e-162,-0.179712988461231,5.85972231049318,0.777965643223827,1]
["Solyc00g008910","SL3.0ch00",7693875,7695875,"+",3485,5056,2075,3346,40.803,38.277,-2.5261139876297,0.00227912063087889,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g008915","SL3.0ch00",7737914,7739914,"-",560,523,120,167,51.708,41.812,-9.8963712233086,0.00254567815101754,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g009040","SL3.0ch00",7811311,7813311,"+",8331,10789,8731,12064,43.572,41.986,-1.586121392232,1.11972536182642E-3,-0.870507303597946,-2.81329348036956,0.659327619690772,1]
["Solyc00g009142","SL3.0ch00",8038913,8040913,"+",3203,4400,2400,4286,42.128,35.896,-6.2322054415207,6.78360880740731e-14,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g009760","SL3.0ch00",8404083,8406083,"+",9421,21403,1523,4439,30.564,25.545,-5.0187272659363,1.22448969215204E-14,-0.2212310880653,4.48675295557097,0.70675244836083,1]
["Solyc00g010520","SL3.0ch00",8837560,8839560,"-",1635,2677,1237,2372,37.917,34.275,-3.6420171484297,0.000647870763276255,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc00g011150","SL3.0ch00",9131088,9133088,"-",89518,287576,6061,27106,23.739,18.274,-5.4647204019249,2.02148796098556e-116,-0.182470806741523,4.09570081690159,0.752088708796356,1]
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["Solyc00g011870","SL3.0ch00",9381599,9383599,"-",1763,9106,1674,9582,16.22,14.872,-1.3483752327829,0.00404838622527743,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc00g013186","SL3.0ch00",9906680,9908680,"+",1920,3635,994,2358,34.563,29.654,-4.9095183981405,2.03946137037669e-06,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g014180","SL3.0ch00",9969604,9971604,"+",2631,4716,2429,5130,35.811,32.134,-3.676654769333,2.6567134139421e-06,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g014390","SL3.0ch00",10022073,10024073,"+",199,1899,157,1911,9.485,7.592,-1.8933478139814,0.0189976398491425,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g014840","SL3.0ch00",10123786,10125786,"+",784,46546,470,31016,1.656,1.493,-0.1637277536541,0.0430295933350581,1.82001064977851,-3.38395309736054,0.999999999999999,1]
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["Solyc12g098210","SL3.0ch12",66806573,66808573,"-",1114,8759,1123,9686,11.283,10.389,-0.89380764350043,0.0237568778353542,-5.12548240610387e-15,-3.83270417731911,1,1]
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["Solyc12g098570","SL3.0ch12",67020780,67022780,"-",3932,9694,3831,10127,28.857,27.447,-1.4099720898453,0.00643135383684681,0.15340460844691,6.01358597433491,0.615148317778054,1]
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["Solyc12g098650","SL3.0ch12",67066499,67068499,"+",2167,9870,2115,10542,18.003,16.71,-1.2927037423502,0.00524687691695058,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g098660","SL3.0ch12",67066499,67068499,"+",2167,9870,2115,10542,18.003,16.71,-1.2927037423502,0.00524687691695058,-0.568852452503619,1.66686583979632,0.223081574651465,1]
["Solyc12g098720","SL3.0ch12",67113672,67115672,"+",305,3208,198,3368,8.682,5.552,-3.1295984356797,4.12295730788936e-07,0.331787217244922,4.91163296515738,0.348245788246082,1]
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["Solyc12g100330","SL3.0ch12",68068710,68070710,"+",547,4477,436,4054,10.888,9.71,-1.1772711474898,0.0365478567070794,-0.209758404034518,5.77562078176169,0.473559499765051,1]

{"sheet":"PHYB1B2_vs_WT_IG_hypermethylate","index":5,"n_rows":18384,"n_cols":17,"rows_kept":4500,"cut":true,"bounds":{"rows_first":2000,"rows_last":500,"rows_between":2000,"halvings":0}}
["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYB1B2","unmet_PHYB1B2","X.met_WT","X.met_PHYB1B2","X.diff_PHYB1B2.ctrl","FDR_diff_PHYB1B2.WT","logFC_PHYB1B2","logCPM_PHYB1B2","PValue_PHYB1B2","padj_PHYB1B2"]
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["Solyc00g006540","SL3.0ch00",4386391,4388391,"-",921,5097,1262,6317,15.304,16.651,1.3471855182572,0.0210377275321664,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g006800","SL3.0ch00",5775062,5777062,"+",4762,4938,6452,5523,49.093,53.879,4.7861308998558,5.3497668255311E-12,-0.218194304577594,5.65500708364552,0.467633110687577,1]
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["Solyc00g006820","SL3.0ch00",5819900,5821900,"+",3399,9295,3887,9551,26.776,28.925,2.14900552328,1.02627615404762E-4,0.230064066099273,1.61308375064248,0.789337964976326,1]
["Solyc00g006867","SL3.0ch00",6390079,6392079,"+",161,8805,295,9517,1.796,3.007,1.2108500846474,9.61265022032743e-08,2.22969991726051,-0.558251759538668,0.0146960067334165,0.354946628498543]
["Solyc00g006880","SL3.0ch00",6433744,6435744,"+",826,4605,911,3963,15.209,18.691,3.4820280873633,3.04554810797999E-6,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g006900","SL3.0ch00",6518309,6520309,"+",645,3561,519,2516,15.335,17.1,1.765258855906,0.0265716202928374,0.67602819959697,-3.6619627034305,0.999999999999995,1]
["Solyc00g007570","SL3.0ch00",6677501,6679501,"-",1541,5385,1637,5120,22.249,24.227,1.9772331799867,0.00443933536287733,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g007910","SL3.0ch00",6878481,6880481,"-",274,506,44,41,35.128,51.765,16.636500754148,0.00226143188271502,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc00g007960","SL3.0ch00",6934602,6936602,"-",561,2684,705,2551,17.288,21.652,4.3641985591138,1.04892670730935E-5,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc00g008000","SL3.0ch00",6974073,6976073,"-",511,2076,657,2327,19.753,22.017,2.2648170736131,0.0245810365275395,-5.12548240610387e-15,-3.91085760741443,1,1]
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["Solyc12g099810","SL3.0ch12",67788669,67790669,"-",1100,6134,1101,5425,15.206,16.871,1.6650058281156,0.00551629664884956,-0.293553189008968,4.41427697293298,0.468332481631736,1]
["Solyc12g099820","SL3.0ch12",67794318,67796318,"-",30,1427,56,325,2.059,14.698,12.639137335012,2.25488652180381e-19,0.65166337698031,4.5023530761018,0.0378864755603304,0.596707819393174]
["Solyc12g099860","SL3.0ch12",67798869,67800869,"+",66,2407,49,1105,2.669,4.246,1.577277228382,0.00950183823625916,-0.362832647555434,0.874389676198254,0.477204193643822,1]
["Solyc12g099850","SL3.0ch12",67807817,67809817,"-",520,976,458,601,34.759,43.248,8.4889892088692,1.49503844159159e-05,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g099870","SL3.0ch12",67816286,67818286,"-",65,1139,103,1233,5.399,7.71,2.3109097419778,0.0130952273668724,-0.735903809122288,-2.7293305007382,0.701233042301229,1]
["Solyc12g099910","SL3.0ch12",67830642,67832642,"+",7548,8331,10496,7971,47.534,56.837,9.3020396951764,9.18809412986183e-65,-0.0532833278507167,6.38411987643982,0.855137759915574,1]
["Solyc12g099930","SL3.0ch12",67861697,67863697,"+",788,10195,929,10747,7.175,7.956,0.78176737495554,0.0169806344124509,-2.5975134433329,5.73055490486814,1.65883746527035E-6,0.000403020846533148]
["Solyc12g099970","SL3.0ch12",67880159,67882159,"+",563,4598,796,5411,10.909,12.824,1.9154920907188,1.33188286576527E-3,-0.309983403615528,5.37648289189802,0.408784658258684,1]
["Solyc12g100020","SL3.0ch12",67905056,67907056,"+",504,4970,558,4308,9.207,11.467,2.2601631656791,0.000149110824407675,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g100040","SL3.0ch12",67922372,67924372,"-",1797,7448,1548,5853,19.438,20.916,1.4785586178881,0.0120007194857412,0.0144078598789472,4.18102588021319,0.963326903007547,1]
["Solyc12g100060","SL3.0ch12",67928818,67930818,"-",60,1378,168,1664,4.172,9.17,4.997843924422,2.23215881100288E-8,0.653467639806831,8.07136467742816,0.0967599513911262,0.888700539814624]
["Solyc12g100100","SL3.0ch12",67934890,67936890,"+",1342,5731,1717,6698,18.974,20.404,1.4304789732473,0.0170536024441505,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g100150","SL3.0ch12",67963908,67965908,"+",1266,3786,1027,2749,25.059,27.198,2.1387107975361,0.0152359274335463,3.6305272794115,-2.47412922827029,0.0739565672372533,0.799177793638089]
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["Solyc12g100200","SL3.0ch12",68002905,68004905,"-",18,1000,42,1022,1.768,3.947,2.1791955330369,0.00266731955374022,-0.18964872505212,4.31831169651381,0.544102956501545,1]
["Solyc12g100210","SL3.0ch12",68000239,68002239,"+",12,651,44,1254,1.81,3.39,1.5798757573433,0.0354025707455297,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g100230","SL3.0ch12",68002998,68004998,"+",19,976,43,1051,1.91,3.931,2.0209824258404,0.00466746472516383,4.95288869206422,-0.988849866030116,0.0863012078648626,0.849497602053498]
["Solyc12g100240","SL3.0ch12",68007861,68009861,"-",965,3991,963,3572,19.471,21.235,1.7634922711259,0.0208799115497567,5.65700932933652,-0.75790139990311,0.0487382140376506,0.671367404715473]
["Solyc12g100250","SL3.0ch12",68014918,68016918,"-",1831,8172,1838,6994,18.305,20.811,2.5061797583913,1.65036747389913e-05,4.69620511350371,4.07417047509829,0.0297488703637769,0.530434046405232]
["Solyc12g100280","SL3.0ch12",68030644,68032644,"-",1120,3867,1909,5193,22.458,26.88,4.4213603637551,4.64903687048592e-08,-3.42038634112455,-3.76922177802069,0.436642576787957,1]
["Solyc12g100310","SL3.0ch12",68065572,68067572,"-",1859,7327,2391,6715,20.237,26.257,6.0200950376218,2.47534482218657e-21,-0.0548640505556723,5.72997225902678,0.858519154181172,1]
["Solyc12g100340","SL3.0ch12",68086246,68088246,"-",4522,10282,5170,9244,30.546,35.868,5.3221077694473,2.05705365994877e-21,-5.12548240610387e-15,-3.91085760741443,1,1]
["Solyc12g100350","SL3.0ch12",68089938,68091938,"+",5505,7522,6227,7522,42.258,45.291,3.0321801584732,7.36341726560752e-07,0.370363823361656,-0.782669363899267,0.740798339222548,1]
["Solyc12g100353","SL3.0ch12",68098699,68100699,"+",71,5386,98,5221,1.301,1.842,0.54137040850888,0.0155398273413252,-5.12548240610387e-15,-3.91085760741443,1,1]

{"sheet":"PHYB1B2_vs_WT_BK_hypomethylated","index":6,"n_rows":9673,"n_cols":17,"rows_kept":4500,"cut":true,"bounds":{"rows_first":2000,"rows_last":500,"rows_between":2000,"halvings":0}}
["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYB1B2","unmet_PHYB1B2","X.met_WT","X.met_PHYB1B2","X.diff_PHYB1B2.ctrl","FDR_diff_PHYB1B2.WT","logFC_PHYB1B2","logCPM_PHYB1B2","PValue_PHYB1B2","padj_PHYB1B2"]
["Solyc00g005000","SL3.0ch00",14479,16479,"+",1072,5415,1212,6996,16.525,14.766,-1.7592765377809,0.00281209610602033,6.04128763326081,-2.90243574957455,3.75908594891642E-3,0.0532282367506086]
["Solyc00g005040","SL3.0ch00",546343,548343,"+",3846,7148,4099,9303,34.983,30.585,-4.3977305307718,1.06219895968587E-12,0.425093032391605,1.9093515385174,0.34985315611091,0.966195893156812]
["Solyc00g005050","SL3.0ch00",575385,577385,"-",2657,6685,2336,7622,28.441,23.459,-4.9829214191791,1.10839420685843E-14,-0.0145324026414522,6.25879772751795,0.956543768440776,1]
["Solyc00g005060","SL3.0ch00",724013,726013,"-",338,1076,106,441,23.904,19.378,-4.5253911653897,0.0222126311002309,0,-3.91085760741443,1,1]
["Solyc00g005090","SL3.0ch00",1061916,1063916,"-",133,580,183,1027,18.654,15.124,-3.5296094954389,0.0294297606251046,0,-3.91085760741443,1,1]
["Solyc00g005094","SL3.0ch00",1146952,1148952,"-",4177,6712,4509,7841,38.36,36.51,-1.849691197483,0.00285087369363162,-0.0704275759512502,5.51213579848507,0.903257712935911,1]
["Solyc00g005280","SL3.0ch00",2188964,2190964,"+",592,936,687,1337,38.743,33.943,-4.8007677503466,0.00266426318239821,0,-3.91085760741443,1,1]
["Solyc00g005283","SL3.0ch00",2354618,2356618,"-",486,3395,243,2475,12.523,8.94,-3.5821483846418,5.55906714496904e-06,0.722325688227394,-3.22628728327423,0.999999999999998,1]
["Solyc00g005285","SL3.0ch00",2356500,2358500,"-",477,2344,530,3144,16.909,14.426,-2.4832034876462,0.00468692198455091,0,-3.87049148702182,1,1]
["Solyc00g005287","SL3.0ch00",2357974,2359974,"-",587,5141,586,6095,10.248,8.771,-1.4767629833289,0.00420663165672426,3.1529395323109,-3.34939923908411,0.389562697174123,1]
["Solyc00g005430","SL3.0ch00",2358571,2360571,"-",395,4278,312,4359,8.453,6.68,-1.7733021562671,0.00112838629549989,0,-3.65100820910541,1,1]
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["Solyc00g005450","SL3.0ch00",2464349,2466349,"+",630,5356,398,4686,10.525,7.828,-2.696075789746,1.56526836484435e-06,0,-3.91085760741443,1,1]
["Solyc00g005460","SL3.0ch00",2490753,2492753,"-",1154,4289,682,3359,21.202,16.877,-4.3245326256505,2.00645262364413e-07,0,-3.91085760741443,1,1]
["Solyc00g005470","SL3.0ch00",2491481,2493481,"-",876,3215,609,2719,21.413,18.299,-3.1135786459019,0.000774855030118757,0,-3.91085760741443,1,1]
["Solyc00g005480","SL3.0ch00",2610590,2612590,"+",260,1190,199,1669,17.931,10.653,-7.2779295577051,5.09128202911251e-09,0,-3.91085760741443,1,1]
["Solyc00g005840","SL3.0ch00",3431254,3433254,"-",2126,8763,1655,8121,19.524,16.929,-2.5950761658449,2.0461344363794e-06,0.837137484672467,3.84266514413295,0.0498155402686977,0.31885850539549]
["Solyc00g005850","SL3.0ch00",3432603,3434603,"-",2507,10564,2251,10493,19.18,17.663,-1.5166497591526,0.00145041868978004,0,-3.91085760741443,1,1]
["Solyc00g006090","SL3.0ch00",4007717,4009717,"+",366,1063,213,896,25.612,19.206,-6.4058239696711,1.37248952037155E-4,0,-3.91085760741443,1,1]
["Solyc00g006170","SL3.0ch00",4099287,4101287,"+",355,1269,379,1602,21.86,19.132,-2.7278542707445,0.0282207824793329,0,-3.91085760741443,1,1]
["Solyc00g005903","SL3.0ch00",4162096,4164096,"+",6353,10033,4809,9926,38.771,32.637,-6.1343224170567,2.10188637143201E-28,0,-3.91085760741443,1,1]
["Solyc00g005907","SL3.0ch00",4172134,4174134,"+",5933,11723,4571,10936,33.603,29.477,-4.1262972750456,3.20212340084643e-15,0,-3.91085760741443,1,1]
["Solyc00g006483","SL3.0ch00",4286251,4288251,"-",958,3453,803,3691,21.718,17.868,-3.8501623918922,6.74536417314015e-06,0,-3.91085760741443,1,1]
["Solyc00g006487","SL3.0ch00",4287311,4289311,"-",1149,4949,1297,6287,18.842,17.102,-1.740450109533,0.00624754849598235,0,-3.91085760741443,1,1]
["Solyc00g006510","SL3.0ch00",4370359,4372359,"+",62,170,210,975,26.724,17.722,-9.0026189436927,0.00159228941947242,0,-3.91085760741443,1,1]
["Solyc00g006540","SL3.0ch00",4386391,4388391,"-",915,4590,1118,6301,16.621,15.069,-1.5518370426033,0.0120214777747694,0,-3.91085760741443,1,1]
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["Solyc00g006590","SL3.0ch00",5032575,5034575,"-",612,5481,494,5495,10.044,8.248,-1.7958576444802,0.000589145337732002,-3.34090983633357,-3.61150191654465,0.49656634038494,1]
["Solyc00g006660","SL3.0ch00",5628502,5630502,"+",221,306,47,97,41.935,32.639,-9.2965949820788,0.0273500811201245,0,-3.91085760741443,1,1]
["Solyc00g006680","SL3.0ch00",5629656,5631656,"+",15502,38162,1391,5062,28.887,21.556,-7.3312841831135,1.77530730797143E-35,2.25004503381293,-3.31507523247684,0.277680236936339,0.865886991401381]
["Solyc00g006805","SL3.0ch00",5780749,5782749,"-",4171,5764,2687,4522,41.983,37.273,-4.7100353993285,1.17090565719899E-9,0.216038328688776,-2.36691828856068,0.933881245757083,1]
["Solyc00g006810","SL3.0ch00",5784771,5786771,"+",2902,4783,2228,4467,37.762,33.279,-4.483307685991,3.76053348785188e-08,-0.7354827677193,5.40261514279821,0.0207505426694962,0.176683519559436]
["Solyc00g006840","SL3.0ch00",6186900,6188900,"+",667,2746,498,2649,19.543,15.825,-3.7183292614427,9.46880381159698e-05,0,-3.91085760741443,1,1]
["Solyc00g006850","SL3.0ch00",6240615,6242615,"-",1276,7634,1041,6914,14.321,13.086,-1.2348782891418,0.0139640055426407,0,-3.91085760741443,1,1]
["Solyc00g006870","SL3.0ch00",6404880,6406880,"+",1115,4775,1159,5852,18.93,16.531,-2.3992251807068,3.63628426067761E-4,0,-3.91085760741443,1,1]
["Solyc00g006890","SL3.0ch00",6446980,6448980,"+",1160,3259,1230,3820,26.25,24.356,-1.8938472258631,0.0220515646721347,0,-3.91085760741443,1,1]
["Solyc00g006900","SL3.0ch00",6518309,6520309,"+",611,2678,508,3031,18.577,14.354,-4.2227377153726,3.72123555722044e-06,1.76064708979632,-3.6619627034305,0.999999999999998,1]
["Solyc00g007560","SL3.0ch00",6672572,6674572,"+",2396,5702,2391,7282,29.588,24.718,-4.8692644638994,1.13118788624732e-12,0,-3.91085760741443,1,1]
["Solyc00g007555","SL3.0ch00",6673303,6675303,"+",1412,5248,1250,5571,21.201,18.326,-2.8754425147916,3.34445179023322e-05,0,-3.91085760741443,1,1]
["Solyc00g007570","SL3.0ch00",6677501,6679501,"-",1233,4248,1245,4683,22.496,21.002,-1.49387061819,0.0322879011042978,0,-3.91085760741443,1,1]
["Solyc00g007600","SL3.0ch00",6693238,6695238,"-",1492,4127,1149,3460,26.553,24.929,-1.6232816076595,0.0371722118837321,-0.521401923649833,-3.21208082084667,0.84466142596443,1]
["Solyc00g007950","SL3.0ch00",6926603,6928603,"-",190,570,70,379,25,15.59,-9.4097995545657,1.20821184033237E-4,0,-3.91085760741443,1,1]
["Solyc00g007980","SL3.0ch00",6942523,6944523,"-",267,622,121,567,30.034,17.587,-12.446536479452,1.7953762034752e-08,0,-3.91085760741443,1,1]
["Solyc00g008000","SL3.0ch00",6974073,6976073,"-",519,1611,381,1467,24.366,20.617,-3.7493140662155,0.0037513513212402,0,-3.91085760741443,1,1]
["Solyc00g008010","SL3.0ch00",6985748,6987748,"-",53,56,51,128,48.624,28.492,-20.132233099277,0.000589760220312535,0,-3.91085760741443,1,1]
["Solyc00g008090","SL3.0ch00",7086900,7088900,"-",196,838,189,1147,18.956,14.147,-4.8088059857075,1.63595651072092E-3,0,-3.91085760741443,1,1]
["Solyc00g008100","SL3.0ch00",7087321,7089321,"-",503,2308,435,2601,17.894,14.328,-3.5659246635535,2.04722232928262E-4,0,-3.91085760741443,1,1]
["Solyc00g008160","SL3.0ch00",7159867,7161867,"-",459,827,232,548,35.692,29.744,-5.9484786856482,0.00454675524147238,0,-3.91085760741443,1,1]
["Solyc00g008165","SL3.0ch00",7190282,7192282,"+",314,456,25,93,40.779,21.186,-19.592780101255,4.42161240114265e-05,0,-3.91085760741443,1,1]
["Solyc00g008570","SL3.0ch00",7584122,7586122,"-",255897,309226,10205,24504,45.282,29.402,-15.88005052257,0,-0.378534275089891,4.3254472958713,0.505884165502298,1]
["Solyc00g008580","SL3.0ch00",7582182,7584182,"+",142129,280439,9417,29072,33.635,24.467,-9.1678558685033,2.87607188674921e-305,-0.11682368832629,5.85972231049318,0.854529952600251,1]
["Solyc00g008800","SL3.0ch00",7659775,7661775,"-",611,2170,276,1332,21.971,17.164,-4.8063350990463,1.32772352860487E-4,0,-3.91085760741443,1,1]
["Solyc00g008910","SL3.0ch00",7693875,7695875,"+",1423,2131,1255,2501,40.039,33.413,-6.6261866962962,9.18668683977831e-09,0,-3.91085760741443,1,1]
["Solyc00g009030","SL3.0ch00",7802222,7804222,"-",2858,5788,2745,5905,33.056,31.734,-1.3216442766811,0.0378921934564087,0.639813686083865,-2.21618464730913,0.770119319513824,1]
["Solyc00g009142","SL3.0ch00",8038913,8040913,"+",1313,1944,851,2363,40.313,26.478,-13.835262482855,4.8290248234834e-31,0,-3.91085760741443,1,1]
["Solyc00g009143","SL3.0ch00",8048016,8050016,"+",1976,3223,852,1974,38.007,30.149,-7.8586891403663,4.37622197943099e-12,0,-3.91085760741443,1,1]
["Solyc00g009146","SL3.0ch00",8215570,8217570,"-",468,2080,254,1704,18.367,12.972,-5.3949261011861,1.22261885363891E-6,0,-3.87428074584103,1,1]
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["Solyc00g009765","SL3.0ch00",8624891,8626891,"+",639,1150,513,1441,35.718,26.254,-9.4644400873529,9.21729837474344e-10,0,-3.91085760741443,1,1]
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["Solyc12g099370","SL3.0ch12",67523898,67525898,"+",2957,8464,2879,9778,25.891,22.746,-3.144596331334,2.46698262387223e-08,0.791375121659153,4.27854115802709,0.035858903839291,0.256161628225237]
["Solyc12g099400","SL3.0ch12",67546725,67548725,"-",2578,5989,2858,7161,30.092,28.526,-1.5664133325857,0.0132719796406255,-0.421886441182774,4.36295945458074,0.27941663428919,0.868001925938487]
["Solyc12g099410","SL3.0ch12",67545982,67547982,"+",2465,4931,2711,5961,33.329,31.262,-2.067295027331,0.00412626075406298,1.8991275478714,-3.79586472962067,0.999999999999999,1]
["Solyc12g099460","SL3.0ch12",67587479,67589479,"-",655,2973,743,3991,18.054,15.695,-2.3590517167093,3.46464221216959E-3,0,-3.91085760741443,1,1]
["Solyc12g099500","SL3.0ch12",67608122,67610122,"-",1368,5834,1489,7025,18.995,17.489,-1.5058817804179,0.0104075883556033,0.385727637629595,7.35397338436693,0.324917534979485,0.932866462606054]
["Solyc12g099515","SL3.0ch12",67624521,67626521,"-",2854,8959,2407,9520,24.16,20.181,-3.9787222207763002,5.22646997867385e-13,1.91240243366122,2.37241961404225,1.43040768376679E-4,0.00473291600675029]
["Solyc12g099590","SL3.0ch12",67668359,67670359,"-",1106,6197,1182,8380,15.144,12.361,-2.7830305172956,3.11267700301149e-07,1.08541316625175,-0.0443922890031553,0.431209977982435,1]
["Solyc12g099600","SL3.0ch12",67668528,67670528,"+",1135,6432,1224,8653,14.999,12.392,-2.6069123858988,1.00873484203255e-06,0.700846337654935,3.96312420906162,0.0527111125480669,0.330597578689656]
["Solyc12g099650","SL3.0ch12",67688849,67690849,"+",1108,3486,1148,4611,24.118,19.934,-4.1843990020579,4.99382231396084E-7,2.14629792521128,4.37963964894875,0.00360038901018052,0.051614715076608]
["Solyc12g099690","SL3.0ch12",67712386,67714386,"+",1087,6896,983,7113,13.616,12.142,-1.4746365052416,4.11033882206196E-3,0,-3.91085760741443,1,1]
["Solyc12g099710","SL3.0ch12",67720254,67722254,"+",581,557,568,1121,51.054,33.629,-17.425115057526,2.07168638487624E-19,-0.184830748814143,5.2151773837404,0.555327335432958,1]
["Solyc12g099730","SL3.0ch12",67732711,67734711,"-",732,5360,546,6520,12.016,7.727,-4.2886143014396,6.20540395583964E-16,3.28603618722232,-2.87597208106449,0.493401936046174,1]
["Solyc12g099870","SL3.0ch12",67816286,67818286,"-",108,670,24,528,13.882,4.348,-9.5339219850229,5.19295393018676e-09,0,-2.7293305007382,1,1]
["Solyc12g099880","SL3.0ch12",67817606,67819606,"-",48,810,5,388,5.594,1.272,-4.3221409633623,2.07516936956172E-4,0,-3.14200809435297,1,1]
["Solyc12g099890","SL3.0ch12",67823928,67825928,"-",2870,6358,3029,8278,31.101,26.789,-4.312282010419,3.21934414601886e-11,0.37504180743506,5.41789883431855,0.217876919705857,0.761513764187414]
["Solyc12g100000","SL3.0ch12",67893948,67895948,"+",39,483,35,719,7.471,4.642,-2.8293545534925,0.0239505610468873,-0.221317604896178,5.03909922455397,0.442006548311373,1]
["Solyc12g100110","SL3.0ch12",67937489,67939489,"+",1755,6785,1856,7864,20.55,19.095,-1.4557010822949,0.00967157654253433,2.94494217286977,-3.48659240768133,0.626546065817986,1]
["Solyc12g100160","SL3.0ch12",67968728,67970728,"+",6855,8145,7598,9564,45.7,44.272,-1.4277706561007,0.00740769042503762,-0.916701673541591,5.1043759689953,0.0114404840416871,0.115236055534516]
["Solyc12g100170","SL3.0ch12",67973773,67975773,"+",102,1435,41,1984,6.636,2.025,-4.6116131312401,1.41104998293194E-11,6.58475308073962,-0.840707422538963,0.0029491791284651,0.0452925028196392]
["Solyc12g100270","SL3.0ch12",68021914,68023914,"+",662,3116,989,5333,17.522,15.644,-1.8787150637677,0.00992804299325451,11.045793695664,2.63727115791274,0.000312550408634253,0.00845635629049166]
["Solyc12g100280","SL3.0ch12",68030644,68032644,"-",1424,2846,1617,3860,33.349,29.523,-3.8254843866986,5.99448267365514e-05,0,-3.76922177802069,1,1]
["Solyc12g100300","SL3.0ch12",68050958,68052958,"+",2534,6960,2342,7164,26.691,24.637,-2.0534700711903,0.00103087685175002,-1.09274219681248,-1.78227665393969,0.300992077044751,0.897755554681175]

{"sheet":"PHYB1B2_vs_WT_BK_hypermethylate","index":7,"n_rows":13510,"n_cols":17,"rows_kept":4500,"cut":true,"bounds":{"rows_first":2000,"rows_last":500,"rows_between":2000,"halvings":0}}
["Supplementary Table 14. Total differentially methylated promoters (DMPs) in CHH context"]
["ID","chr","from","to","strand","met_WT","unmet_WT","met_PHYB1B2","unmet_PHYB1B2","X.met_WT","X.met_PHYB1B2","X.diff_PHYB1B2.ctrl","FDR_diff_PHYB1B2.WT","logFC_PHYB1B2","logCPM_PHYB1B2","PValue_PHYB1B2","padj_PHYB1B2"]
["Solyc00g005084","SL3.0ch00",807592,809592,"+",807,4294,928,4479,15.82,17.163,1.3425095664217,0.0388440074265035,0,-3.91085760741443,1,1]
["Solyc00g005890","SL3.0ch00",3566909,3568909,"-",1403,3259,1604,3306,30.094,32.668,2.5736443455384,0.00498763958115415,0,-3.83813194985351,1,1]
["Solyc00g006490","SL3.0ch00",4295107,4297107,"+",6287,8905,7332,9462,41.384,43.658,2.2748264867785,4.59842293304528E-5,-0.222283107716461,5.20433464544667,0.412361765160252,1]
["Solyc00g006800","SL3.0ch00",5775062,5777062,"+",5787,4973,6674,5400,53.783,55.276,1.4932713569912,0.0160159597090057,0.511194549628484,5.65500708364552,0.0900915218657262,0.461462631260675]
["Solyc00g006820","SL3.0ch00",5819900,5821900,"+",3302,8671,3855,9431,27.579,29.016,1.4367862589718,0.00831467194364202,1.57121783580727,1.61308375064248,0.0795324725747731,0.427198900593856]
["Solyc00g007925","SL3.0ch00",6898252,6900252,"-",264,656,315,493,28.696,38.985,10.289496340938,8.52732013254783e-06,0,-3.91085760741443,1,1]
["Solyc00g008020","SL3.0ch00",6991194,6993194,"-",37,245,97,138,13.121,41.277,28.156028368794,1.00360138164461e-12,0,-3.91085760741443,1,1]
["Solyc00g008040","SL3.0ch00",7005181,7007181,"-",512,2386,612,2442,17.667,20.039,2.3719359330532,0.013587300583909,0,-3.91085760741443,1,1]
["Solyc00g008055","SL3.0ch00",7069205,7071205,"-",1,19,45,149,5,23.196,18.19587628866,0.0477393579196936,0,-3.91085760741443,1,1]
["Solyc00g008130","SL3.0ch00",7119747,7121747,"-",179,379,221,358,32.079,38.169,6.0904042936468,0.0219560335987044,0,-3.91085760741443,1,1]
["Solyc00g009020","SL3.0ch00",7793998,7795998,"+",1608,5020,1754,4903,24.261,26.348,2.0874927667447,0.00440857035118283,0.190117269525115,7.62400916820391,0.459075707578805,1]
["Solyc00g009050","SL3.0ch00",7822149,7824149,"-",7605,10668,8595,11620,41.619,42.518,0.89915041931643,0.0438074133361058,5.87051709319639,-1.83143939226503,0.00260560370971653,0.0416803369808322]
["Solyc00g009070","SL3.0ch00",7829317,7831317,"-",1967,6199,2496,7320,24.088,25.428,1.3401922336457,0.0244361346226875,0,-3.91085760741443,1,1]
["Solyc00g009080","SL3.0ch00",7829231,7831231,"+",1967,6189,2496,7287,24.117,25.514,1.3964318000764,0.0201592744059312,0.28544828785722,3.62499260680716,0.478855561418004,1]
["Solyc00g009090","SL3.0ch00",7841622,7843622,"-",1847,8209,2492,9325,18.367,21.088,2.7211186787855,7.03550098252395e-07,0,-3.59635664645328,1,1]
["Solyc00g009110","SL3.0ch00",7871111,7873111,"+",433,7589,1375,8897,5.398,13.386,7.9882469820144,1.75426160245091E-74,1.47506682181694,3.27195840491963,0.022500245987099,0.186250700298369]
["Solyc00g009140","SL3.0ch00",7885380,7887380,"+",964,2729,1433,2907,26.103,33.018,6.9149942411911,3.66070345875885e-11,-0.937953818681007,3.36058126720056,0.0376763145216783,0.264634316652211]
["Solyc00g009148","SL3.0ch00",8298357,8300357,"+",1492,2552,874,1298,36.894,40.239,3.3452464875322,0.00715078894737166,0,-3.91085760741443,1,1]
["Solyc00g009650","SL3.0ch00",8316387,8318387,"-",941,1318,64,46,41.656,58.182,16.526218358888,6.60004402697696E-4,0,-3.91085760741443,1,1]
["Solyc03g043580","SL3.0ch00",9309777,9311777,"+",149,1365,180,1222,9.841,12.839,2.9973221874016,0.00823295118217286,0,-3.91085760741443,1,1]
["Solyc00g011890","SL3.0ch00",9403098,9405098,"-",3666,8158,4898,10393,31.005,32.032,1.0271780679889,0.0426836890620465,-0.320787952594974,7.36530330208955,0.330645478883871,0.941011149955126]
["Solyc00g020545","SL3.0ch00",10945268,10947268,"+",12674,71276,8003,37068,15.097,17.756,2.6593471495685,9.65315009287723e-34,-2.57331702043306,-3.07629557896507,0.198185763578075,0.725039213630009]
["Solyc00g020940","SL3.0ch00",10946755,10948755,"+",15283,75225,9590,39405,16.886,19.573,2.6876257095187,2.47308257280263E-34,0,-3.91085760741443,1,1]
["Solyc00g024160","SL3.0ch00",11230391,11232391,"-",1466,14590,1594,13691,9.131,10.429,1.2979815982628,1.14503910767612E-4,3.65209184002688,-3.38126235307709,0.340695365285218,0.954117743933737]
["Solyc00g026160","SL3.0ch00",11372264,11374264,"+",6101,17353,4739,10948,26.013,30.21,4.1971073515517,7.35933735167016E-19,1.62847199814322,-2.69198441899597,0.351719255069518,0.968963753804189]
["Solyc00g026907","SL3.0ch00",11445381,11447381,"-",163,4003,397,4645,3.913,7.874,3.9612335593687,3.70799828442649e-15,0,-3.91085760741443,1,1]
["Solyc00g027770","SL3.0ch00",11475330,11477330,"+",2822,3238,2990,3199,46.568,48.312,1.7438636738128,0.0331639994889777,-0.269609051961755,6.00804120453292,0.317448054488868,0.922528600337815]
["Solyc00g028550","SL3.0ch00",11530930,11532930,"-",466,3200,778,4063,12.711,16.071,3.3596576253052,1.68356100637166e-05,0,-3.91085760741443,1,1]
["Solyc00g028560","SL3.0ch00",11532006,11534006,"-",2103,7320,2854,8842,22.318,24.402,2.0837715819763,0.000370127537544297,0,-3.91085760741443,1,1]
["Solyc00g028760","SL3.0ch00",11537778,11539778,"+",3804,12445,4773,14503,23.411,24.761,1.3506898523396,0.00243080058849053,0,-3.91085760741443,1,1]
["Solyc00g030820","SL3.0ch00",11677156,11679156,"-",2464,6562,3659,8602,27.299,29.843,2.5436760793245,5.70902299565209e-05,-1.27504574835814,-2.52453426152791,0.604617948268432,1]
["Solyc00g032035","SL3.0ch00",11769366,11771366,"-",3582,6210,3020,4733,36.581,38.953,2.3717811321614,0.00110817959717262,0,-3.91085760741443,1,1]
["Solyc00g032947","SL3.0ch00",11830799,11832799,"-",7,112,67,369,5.882,15.367,9.4846195358878,0.00438132084804556,4.48531781157751,-3.57533435268597,0.221221558995564,0.768579075551467]
["Solyc00g039290","SL3.0ch00",12147085,12149085,"+",108,570,439,1596,15.929,21.572,5.6432780326586,1.14393762453071E-3,0,-3.91085760741443,1,1]
["Solyc00g044755","SL3.0ch00",12523754,12525754,"-",2919,4758,4216,5744,38.023,42.329,4.3066521655202,1.46621296713046e-08,0,-3.91085760741443,1,1]
["Solyc00g046580","SL3.0ch00",12523754,12525754,"-",2919,4758,4216,5744,38.023,42.329,4.3066521655202,1.46621296713046e-08,0,-3.91085760741443,1,1]
["Solyc00g048515","SL3.0ch00",12620943,12622943,"+",59,255,119,369,18.79,24.385,5.5954369844419,0.0398567943897693,0,-3.91085760741443,1,1]
["Solyc00g052540","SL3.0ch00",12815691,12817691,"-",3884,7177,4354,7102,35.114,38.006,2.8919191264895,8.56702828072601e-06,0,-3.91085760741443,1,1]
["Solyc00g052545","SL3.0ch00",12827121,12829121,"+",87,136,421,240,39.013,63.691,24.677923787168,3.72456693490862E-10,0,-3.91085760741443,1,1]
["Solyc00g053440","SL3.0ch00",12855297,12857297,"+",158,5129,287,6403,2.988,4.29,1.3015227863816,0.000175150451927502,0.00832595680136293,6.45674876136853,0.985495032545101,1]
["Solyc00g057280","SL3.0ch00",13036904,13038904,"-",566,5064,845,6654,10.053,11.268,1.2148831211835,0.0171675132319512,0,-3.91085760741443,1,1]
["Solyc00g057880","SL3.0ch00",13059178,13061178,"+",2338,8130,3732,10774,22.335,25.727,3.392550832536,1.41493851811189E-9,-0.168343552980202,2.5364340037737,0.732336869701422,1]
["Solyc00g058900","SL3.0ch00",13110917,13112917,"-",21,428,108,522,4.677,17.143,12.465797009227,1.9147367801255e-10,0,-3.91085760741443,1,1]
["Solyc00g065940","SL3.0ch00",13426175,13428175,"-",60,272,160,490,18.072,24.615,6.5430954587581,0.0153659621763482,0,-3.91085760741443,1,1]
["Solyc00g066350","SL3.0ch00",13437927,13439927,"+",2635,7893,3480,9070,25.028,27.729,2.7005882246092,4.80348835177841e-06,0,-3.91085760741443,1,1]
["Solyc00g066155","SL3.0ch00",13437927,13439927,"+",2635,7893,3480,9070,25.028,27.729,2.7005882246092,4.80348835177841e-06,0,-3.91085760741443,1,1]
["Solyc00g069680","SL3.0ch00",13584480,13586480,"-",16,290,161,866,5.229,15.677,10.447970165022,6.49910783546928e-07,0,-3.83030431092775,1,1]
["Solyc01g058600","SL3.0ch00",13582322,13584322,"+",1111,2489,1517,2706,30.861,35.922,5.0612189859763,3.31929673977616e-06,0,-3.91085760741443,1,1]
["Solyc00g069887","SL3.0ch00",13629190,13631190,"+",3717,6352,6402,8167,36.915,43.943,7.0273333505982,2.6034615579397e-27,0,-3.91085760741443,1,1]
["Solyc00g073900","SL3.0ch00",13761621,13763621,"+",1768,10577,2100,11686,14.322,15.233,0.9112572278084901,0.0246600784938323,0,-3.91085760741443,1,1]
["Solyc00g074210","SL3.0ch00",13775616,13777616,"+",2317,7143,2905,8281,24.493,25.97,1.4773620302334,0.0104654441528235,0,-3.91085760741443,1,1]
["Solyc00g075030","SL3.0ch00",13808149,13810149,"+",1062,4522,1588,5482,19.019,22.461,3.4424786113486,2.98177000936821e-06,0,-3.91085760741443,1,1]
["Solyc00g075035","SL3.0ch00",13829621,13831621,"-",1269,4875,1668,5052,20.654,24.821,4.1671316964286,3.46044376902532e-08,0,-3.91085760741443,1,1]
["Solyc00g084870","SL3.0ch00",14214156,14216156,"+",1,183,14,280,0.543,4.762,4.2184265010352,0.00865065032511133,0,-3.91085760741443,1,1]
["Solyc00g090430","SL3.0ch00",14430232,14432232,"+",3923,15027,6394,18754,20.702,25.425,4.7236341858834,3.36412706008801e-30,0,-3.76012062124585,1,1]
["Solyc00g096060","SL3.0ch00",14645519,14647519,"-",2095,8966,2850,11292,18.94,20.153,1.2123152294233,0.0112439588713517,0,-3.91085760741443,1,1]
["Solyc00g099160","SL3.0ch00",14760965,14762965,"-",436,3887,670,4008,10.086,14.322,4.2367712713558,2.00793594278929e-09,0,-3.91085760741443,1,1]
["Solyc00g102400","SL3.0ch00",14873561,14875561,"+",4935,6391,6089,6964,43.572,46.648,3.0759685931948,2.04878989791858E-6,0,-3.91085760741443,1,1]
["Solyc00g104200","SL3.0ch00",14939878,14941878,"+",466,1107,200,351,29.625,36.298,6.6727201193461,0.00307816691841296,0,-3.91085760741443,1,1]
["Solyc00g104330","SL3.0ch00",14948892,14950892,"-",1984,12988,2497,14698,13.251,14.522,1.2702606559869,0.000910396865453084,0,-3.91085760741443,1,1]
["Solyc00g104940","SL3.0ch00",14969207,14971207,"-",3997,10900,5915,11844,26.831,33.307,6.4761500260004,9.914270832073e-36,3.76707907403795,0.894012979898723,8.19035246914923e-06,0.000518751405904413]
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