{"text_format":"3","workbook":"xlsx","n_sheets":5,"sheets":["Supplemental Table 3A","Supplemental Table 3B","Supplemental Table 3C","Supplemental Table 3D","Supplemental Table 3E"],"read":"whole","date_system":"1900"}

{"sheet":"Supplemental Table 3A","index":0,"n_rows":107,"n_cols":9,"rows_kept":107}
["Supplemental Table 3. Summary of the differential analysis of the TE families between the IPF patients and the donors in AT2 cells based on SQuIRE and REdiscoverTE analysis. "]
["A. Differential TE expression in exonic region in AT2 cells – RediscoverTE."]
["repName","repClass","repFamily","baseMean","log2FoldChange","lfcSE","stat","pvalue","padj"]
["Plat_L3","LINE","CR1",169.038603153556,-1.23859771401406,0.201773756908853,-6.13854711826357,{"v":8.32796124355412e-10,"d":"8.33E-10"},{"v":6.03292428234541e-08,"d":"6.03E-08"}]
["MER65C","LTR","ERV1",36.3536078731147,1.68939843741978,0.304112913021506,5.55516837688611,{"v":2.77344285100067E-8,"d":"2.77E-08"},{"v":1.25103923992722E-6,"d":"1.25E-06"}]
["MER63B","DNA","hAT-Blackjack",17.9242618440337,1.74236803082689,0.319761593406604,5.44895968357063,{"v":5.06652954635925e-08,"d":"5.07E-08"},{"v":2.09106358896337e-06,"d":"2.09E-06"}]
["L1MC5a","LINE","L1",526.966893725486,0.748139608553036,0.139822433845731,5.35064072320807,{"v":8.76433685871922e-08,"d":"8.76E-08"},{"v":3.34949491161257e-06,"d":"3.35E-06"}]
["MER104","DNA","TcMar-Tc2",53.0349536543201,0.851844120631583,0.162617559582061,5.23832803063141,{"v":1.6203786543255E-7,"d":"1.62E-07"},{"v":5.67436496149657e-06,"d":"5.67E-06"}]
["(GGCACAG)n","Simple_repeat","Simple_repeat",44.4072879461814,-1.21045502269015,0.231674134187761,-5.22481729319482,{"v":1.74327156434365e-07,"d":"1.74E-07"},{"v":6.02645503183643e-06,"d":"6.03E-06"}]
["LTR57","LTR","ERVL",41.7958790255381,1.16990288755799,0.228838032370305,5.11236211673439,{"v":3.18155198941955e-07,"d":"3.18E-07"},{"v":1.01860031239094e-05,"d":"1.02E-05"}]
["L4_C_Mam","LINE","RTE-X",44.1885983281729,1.9140159640321,0.378864642216593,5.05197833409295,{"v":4.37257309543573e-07,"d":"4.37E-07"},{"v":1.31982094378152e-05,"d":"1.32E-05"}]
["FLAM_A","SINE","Alu",391.880863257521,-0.641947631782523,0.140962206076883,-4.55404075779285,{"v":5.26251530716237E-6,"d":"5.26E-06"},1.11830754355706E-4]
["MLT1L","LTR","ERVL-MaLR",498.582217049128,-0.827588177206868,0.182096550365584,-4.54477679860146,{"v":5.49934967776104e-06,"d":"5.50E-06"},0.000115849147552001]
["L1M3c","LINE","L1",13.3878949966681,1.69845750294776,0.375212568795811,4.52665407344617,{"v":5.99249132978161e-06,"d":"5.99E-06"},1.2366137720335E-4]
["(TC)n","Simple_repeat","Simple_repeat",50.9785357562799,0.804570055696838,0.180699984881624,4.45251866636241,{"v":8.4868859671629e-06,"d":"8.49E-06"},0.000163850237590381]
["MER1B","DNA","hAT-Charlie",151.718776700362,-0.464680800968106,0.105815973789643,-4.39140504336208,{"v":1.12620518388162E-5,"d":"1.13E-05"},0.000207680451386315]
["LTR89","LTR","ERVL?",81.1036304808435,1.43730333271349,0.328333254188046,4.3775746573946,{"v":1.20007259754278e-05,"d":"1.20E-05"},2.18643857336097E-4]
["HERVIP10FH-int","LTR","ERV1",14.358028061811,1.86700179924944,0.429834787428481,4.34353350136901,{"v":1.40209084568665E-5,"d":"1.40E-05"},0.00024887610199306]
["(TGCGGC)n","Simple_repeat","Simple_repeat",8.22762945008865,2.1085276195715,0.500392884408441,4.2137442103402,{"v":2.51171731027243E-5,"d":"2.51E-05"},0.000405551268700541]
["(TCT)n","Simple_repeat","Simple_repeat",668.831261142115,1.11897483378025,0.271069718524145,4.12799644265901,{"v":3.65937774613057e-05,"d":"3.66E-05"},5.58175858850388E-4]
["MER34","LTR","ERV1",45.7282155466447,-1.12862893867662,0.276036822799976,-4.08868978866075,{"v":4.33816533380383e-05,"d":"4.34E-05"},0.000640770519298547]
["(TGCACA)n","Simple_repeat","Simple_repeat",42.8214284390163,-0.601871653665204,0.152515227738804,-3.94630531382719,{"v":7.93663986251422e-05,"d":"7.94E-05"},1.05595600977793E-3]
["LTR37A","LTR","ERV1",19.0337354472755,1.16669988206108,0.295703105453757,3.94551109049322,{"v":7.9629946025175e-05,"d":"7.96E-05"},0.00105830204279241]
["MER91A","DNA","hAT-Tip100",23.695805466749,0.922430751330514,0.237783035731434,3.87929588203407,1.0475926587231E-4,1.31657061843046E-3]
["L1MC","LINE","L1",39.5404204073024,0.689215556049212,0.180458289990665,3.81925128562875,1.33857348830445E-4,1.60655298784235E-3]
["AluJb","SINE","Alu",5097.52511520296,-0.310557832363314,0.081512731777009,-3.80993037029963,0.000139005935392751,1.65850346121499E-3]
["Charlie22a","DNA","hAT-Charlie",60.8773183963749,-0.604532094095927,0.163841865895206,-3.68972906157324,0.000224493014175071,0.00245146337152686]
["LTR41B","LTR","ERVL",260.027251136109,-0.653041182158419,0.178277977763297,-3.66305020031961,0.000249229671440127,2.66423212116577E-3]
["L1MB2","LINE","L1",69.5154792161467,0.499669256845187,0.139067710276484,3.59299262101736,0.000326901848755726,0.00329317312810459]
["L4_A_Mam","LINE","RTE-X",58.1643033721066,1.21072209596569,0.339662030099953,3.5644905484708,0.000364563587149292,0.00359709562492951]
["GA-rich","Low_complexity","Low_complexity",1117.49476054679,0.370432813700411,0.104827835763309,3.53372566554565,0.000409746133624277,0.00394592030587061]
["L4_B_Mam","LINE","RTE-X",39.4585906905214,0.842216670008877,0.23883016226891501,3.52642506293057,0.000421210346227561,0.00403232058471418]
["AluSg7","SINE","Alu",472.905458920972,-0.495752411344038,0.142102010695857,-3.48870792831428,0.000485361167596106,0.00452680431023147]
["U4","snRNA","snRNA",15.8584966826737,1.18907197226328,0.353551993285316,3.36321671167528,0.000770398604976001,0.00653325652665131]
["MER20","DNA","hAT-Charlie",860.196191500681,-0.297049566444185,0.0883238849630486,-3.36318501579114,0.00077048706853783,0.00653325652665131]
["LTR85a","LTR","Gypsy?",7.94678686921596,1.92139460056475,0.571472911988327,3.36217965936414,0.000773297927848418,0.00655022482130032]
["Charlie1b","DNA","hAT-Charlie",84.8851272465824,0.471566685426375,0.140435447033953,3.35788930349162,0.000785400592451977,0.00662867787641383]
["Tigger5b","DNA","TcMar-Tigger",32.6477486194487,-0.687283947059186,0.204801481658291,-3.35585436928581,0.000791202199301366,0.00666003987951632]
["MER57A-int","LTR","ERV1",109.81255040973,-0.543350523495703,0.163676071063755,-3.31966988188552,0.000901239515679312,7.41148104591852E-3]
["MLT2E","LTR","ERVL",9.19542724339201,-1.22507865900534,0.373527984760628,-3.27975067193538,1.03898863236217E-3,0.00825611530129831]
["LTR81","LTR","Gypsy",5.44715629676111,-3.03298670903392,0.925626836663391,-3.27668406845996,1.05033824678329E-3,8.32703295735405E-3]
["MER103C","DNA","hAT-Charlie",275.434259142177,-0.343077517854502,0.105336480587929,-3.25696772798594,1.12609235020292E-3,0.00877022116647124]
["LTR33A","LTR","ERVL",52.9612517221393,0.758417294578796,0.233589191646969,3.24679960246199,0.00116710536153945,0.00904031692111058]
["L1PA15","LINE","L1",46.9092405621184,1.29780981733795,0.400232277534867,3.24264156137404,0.00118427098991193,0.00913224093269084]
["MLT1E","LTR","ERVL-MaLR",108.996348384696,-0.955311262199768,0.294767381635788,-3.24089882977671,0.00119153463582735,0.00917682086393466]
["MLT1B-int","LTR","ERVL-MaLR",29.7736414083398,0.592801519713004,0.183508360742016,3.23037880844236,0.001236263031194,0.00946125236235131]
["L1ME3B","LINE","L1",260.901514340517,-0.498443918315023,0.154726331352695,-3.22145502938884,1.27541476357679E-3,0.0096936315322523]
["MER65B","LTR","ERV1",5.36322227254753,1.88857535416387,0.588604247384933,3.20856562376924,0.00133398862570423,0.0100475592702018]
["(CCAGCC)n","Simple_repeat","Simple_repeat",127.985205493698,-0.555675505009139,0.174139268843929,-3.19098333591351,0.00141789458027719,0.0105195553880057]
["MER66-int","LTR","ERV1",4.83023880994712,1.73571964175656,0.546107387867103,3.17834858183415,0.00148116559851303,0.0108792151164389]
["Charlie1","DNA","hAT-Charlie",116.071304842559,0.410386056328962,0.129859894690286,3.16022169360084,0.00157649134905561,0.0113931780997265]
["LTR86A1","LTR","ERVL",12.0067023293077,-0.982060030226383,0.311661954614685,-3.15104238963183,0.00162688876819939,0.0116705103832878]
["LTR41","LTR","ERVL",64.9297161656549,-0.544181242405872,0.17310554959907,-3.14363833895708,1.66861524334712E-3,0.0118952247864282]
["LTR48","LTR","ERV1",35.0278174338367,0.697502218945726,0.22583171716232,3.08859281464164,2.01106864180677E-3,0.0138256696315487]
["LTR56","LTR","ERV1",5.23358110597683,-1.73553997411156,0.562931554636252,-3.08303906543844,2.04898255330579E-3,0.0140385964437112]
["OldhAT1","DNA","hAT-Ac",177.244129448304,-0.420652502455749,0.136750413125886,-3.07606019492253,2.09755494350927E-3,0.014266665742456]
["(TTCTGA)n","Simple_repeat","Simple_repeat",1.09684642226321,3.04205709626184,0.989709128577401,3.07368802451531,0.00211430406541093,0.01436850491722]
["L1PA6","LINE","L1",37.4924744084173,1.45224061196846,0.473031681998764,3.07007049894018,0.00214008248460348,0.0144990289604571]
["MSTA","LTR","ERVL-MaLR",145.926273272828,0.712386839421141,0.232436302513941,3.0648690919458,0.00217765290682729,0.0147165916855708]
["MER4-int","LTR","ERV1",170.967596369413,0.617703477199935,0.20341946714449,3.0365996227941,2.39263029321988E-3,0.0158084268869752]
["LTR16B2","LTR","ERVL",19.3279727977779,0.873494254264882,0.288896968353957,3.0235493963186,0.0024982824018862,0.0163506788913091]
["LTR6B","LTR","ERV1",2.86287083162179,1.9571734136147,0.648310944154718,3.01888072577042,0.00253710394926302,0.0165467451332209]
["MER63A","DNA","hAT-Blackjack",51.9421933165003,0.466099550460251,0.154474949039551,3.01731480319773,2.55024817888718E-3,0.0166101510481036]
["X7C_LINE","LINE","CR1",10.104146097432,1.12280034319665,0.378549061448028,2.9660629428104,0.00301638749398067,0.0188907591493994]
["MER57F","LTR","ERV1",34.4012343057498,1.20404928798076,0.407443508616747,2.95513184654347,3.12535456277968E-3,0.0194029430876278]
["MER74A","LTR","ERVL",65.142826691431,-0.786552583115868,0.267014888899365,-2.94572555994175,0.00322198133210945,0.0198656105100691]
["L1MEc","LINE","L1",119.039895276879,0.600250053515577,0.204652299844575,2.93302373817173,0.00335678225562287,0.0204782281999638]
["LTR78","LTR","ERV1",71.8779802714293,-0.60850583192539,0.209870526298459,-2.8994344401654,0.00373836515142772,0.022395123548469]
["U13_","snRNA","snRNA",3.3148796391256,1.35353892014929,0.467465849361307,2.89548193092311,0.00378576824065183,0.022634398537605]
["MER67B","LTR","ERV1",17.6364576038476,-0.829554084385046,0.288466930579018,-2.87573373738176,0.00403089579679191,0.0237258741684565]
["MLT1O","LTR","ERVL-MaLR",87.5428707786683,0.87362581444623,0.307533136456635,2.84075343721349,0.00450070950870748,0.0258638925780992]
["MamRep564","Unknown","Unknown",36.6275958896336,-0.676229309765472,0.238254580929064,-2.83826362174672,0.00453597024308173,0.0260356967500254]
["MER45A","DNA","hAT-Tip100",17.7763481319154,0.708177650396065,0.249544644827772,2.83787957415327,0.00454143134168748,0.0260547176832321]
["LTR16C","LTR","ERVL",90.8761489653523,-0.450006627985981,0.158773851567996,-2.83426158364157,0.00459317171376466,0.0262612669190531]
["AluSg","SINE","Alu",1566.9858396527,-0.199834971030785,0.070726092404133,-2.8254773342901,0.00472102279416669,0.0268124926676427]
["UCON80_AMi","Unknown","Unknown",26.0522109149769,0.541265105136199,0.191808987963173,2.82189646524865,0.00477405870876259,0.0270251590259507]
["L1PREC2","LINE","L1",205.333131881628,0.440703135859011,0.156444638975109,2.81699097358733,0.00484758880355267,0.0273775390003761]
["Tigger1","DNA","TcMar-Tigger",213.294550225065,0.372021151503997,0.132813462882104,2.80108012720242,0.00509318710629881,0.0284679809838783]
["(GTCTGC)n","Simple_repeat","Simple_repeat",6.42988244128204,-1.06353467923387,0.37989515332719,-2.79954790135974,0.00511742232233944,0.0285624666325974]
["UCON29","DNA","PiggyBac?",16.3412882334674,-0.608550042987903,0.218719699370416,-2.78232845390521,0.0053970388885289,0.0297723778331771]
["ERV3-16A3_I-int","LTR","ERVL",127.670640444893,0.760129568074481,0.275910811600843,2.75498290068514,0.00586952029088458,0.0317595358794174]
["MLT2B2","LTR","ERVL",26.7590307612343,0.611917347374139,0.222231803937531,2.75350933814203,0.00589600881658034,0.0318318892015065]
["MER46C","DNA","TcMar-Tigger",60.9600116657698,0.447938797302367,0.163594971103386,2.73809637473078,0.00617959637572338,0.0328945919820257]
["MER124","DNA?","DNA?",99.9541765108373,-0.493149362945482,0.180572536926196,-2.73103192401313,6.3136355522215E-3,0.0334175152849098]
["MER34B-int","LTR","ERV1",212.285192125055,0.453638900201933,0.166352438979894,2.72697474701145,0.00639179306286734,0.0337219343236792]
["MER4B","LTR","ERV1",29.0431852878333,1.12225690065973,0.414498651429039,2.70750434721705,0.00677911829264336,0.0352659469937554]
["Tigger19a","DNA","TcMar-Tigger",93.4561496333227,0.4032960678547,0.149717945107503,2.69370560466294,0.00706625479021988,0.0365092338192583]
["(ACTGTTT)n","Simple_repeat","Simple_repeat",1.25539799963523,-2.92196353842649,1.09339379544202,-2.67237984210916,0.00753153420028915,0.0383739810985969]
["MLT1H2","LTR","ERVL-MaLR",21.4346949819466,0.584295020050478,0.218793102603487,2.67053674497857,0.00757300823109298,0.0385125238374192]
["(CCGGAG)n","Simple_repeat","Simple_repeat",36.3807794377141,-1.04070075644208,0.391123272220668,-2.6607998816673,0.00779552740908399,0.0392983859830771]
["MST-int","LTR","ERVL-MaLR",368.533802971421,0.560074202220284,0.211155679781091,2.65242309750286,0.00799163303532901,0.040045622651531]
["U14","snRNA","snRNA",15.2027228395041,1.53580333971683,0.579109800772651,2.65200716283467,0.00800148444287282,0.0400647313972553]
["(GAAGAT)n","Simple_repeat","Simple_repeat",78.2170654471413,0.44785776076643,0.169087176232599,2.6486796381906,0.00808068911691635,0.0403668512740481]
["MER102c","DNA","hAT-Charlie",50.4267291022113,0.640477179071732,0.242242746276929,2.64394781233014,0.00819452895203544,0.0408179040656806]
["AluSq2","SINE","Alu",3349.26078392025,-0.283090420447092,0.107295625247149,-2.63841531092262,0.00832945024242526,0.0413456941057837]
["MER77","LTR","ERVL",149.506732219113,-0.465615861895962,0.176521621398727,-2.63772708525166,0.00834637226248867,0.0414127503713095]
["AmnSINE1","SINE","5S-Deu-L2",43.3698124874727,0.442498509165307,0.168172027303649,2.63122539616138,0.00850775904523315,0.0419750898173887]
["Charlie16a","DNA","hAT-Charlie",82.5949201765874,0.490115617435104,0.187628770591969,2.61215599232883,0.0089973190421206,0.0438032457577588]
["Tigger15a","DNA","TcMar-Tigger",209.583317780796,-0.486691693735305,0.186832621151534,-2.60496101128167,0.00918847152021285,0.0444460488045695]
["MER65-int","LTR","ERV1",1243.49681576163,1.28105139941494,0.493149214884972,2.59769530346661,0.0093851731951171,0.0451903537895043]
["LTR16A1","LTR","ERVL",33.1256218320345,-0.533823577839948,0.205999063873345,-2.59138836751298,0.00955895486328299,0.0457909033995562]
["LTR65","LTR","ERV1",19.6418994716269,-0.808535557408689,0.31342011823575,-2.57971811752212,0.00988809916784562,0.0469663900756701]
["MER5A","DNA","hAT-Charlie",688.759903479979,-0.211772110285445,0.0822812268127146,-2.57375975649309,0.0100600100029877,0.0475713801154534]
["MER4CL34","LTR","ERV1",4.02628209551652,-1.45357202081513,0.565334963446826,-2.57116950975889,0.0101355703388632,0.0478075842533592]
["L1M4c","LINE","L1",5031.49631263124,0.905999022716089,0.353001802465725,2.56655636426688,0.01027139304992,0.0483026192805248]
["L1MEj","LINE","L1",1.74842971733126,1.59538253110369,0.621999953702777,2.56492387436099,0.010319844378774,0.0484413894359939]
["MLT1A0-int","LTR","ERVL-MaLR",28.8526265648095,1.22901303543385,0.479219297107477,2.5646150788419,0.0103290320889705,0.0484751403471544]

{"sheet":"Supplemental Table 3B","index":1,"n_rows":41,"n_cols":9,"rows_kept":41}
["Supplemental Table 3. Summary of the differential analysis of the TE families between the IPF patients and the donors in AT2 cells based on SQuIRE and REdiscoverTE analysis. "]
["B. Differential TE expression in intronic region in AT2 cells – RediscoverTE."]
["repName","repClass","repFamily","baseMean","log2FoldChange","lfcSE","stat","pvalue","padj"]
["L1MC3","LINE","L1",747.933638422366,-0.626289384552036,0.152120274449097,-4.11706714847932,{"v":3.83724299609595E-5,"d":"3.84E-05"},5.99138170289092E-4]
["(TTCT)n","Simple_repeat","Simple_repeat",6.70198442795596,1.83830939294083,0.447880287522289,4.10446595698711,{"v":4.0524993892421e-05,"d":"4.05E-05"},0.000626360441877937]
["L1M2b","LINE","L1",5.43584010846527,1.68772467836036,0.431284315718439,3.91325308352317,{"v":9.10610081247093e-05,"d":"9.11E-05"},0.00121305741002671]
["HERVE-int","LTR","ERV1",1521.49108856869,-0.740491672206612,0.190378199590147,-3.88958228305956,0.000100416917590086,0.00131621917984051]
["MLT2A1","LTR","ERVL",60.6282338776122,0.740898584876486,0.214375757309044,3.456074484245,0.000548103840837233,0.00515449055386968]
["LTR19C","LTR","ERV1",8.22755342780568,-1.71968591679822,0.49812356922575,-3.45232794238422,0.000555771800408136,0.00520722879991445]
["HERVL40-int","LTR","ERVL",111.946911849768,-1.08228115650107,0.317340050079211,-3.41047767601637,0.000648491926972016,0.00586660089621878]
["HERVL32-int","LTR","ERVL",14.1863161186818,-1.28456222698559,0.380999844444076,-3.37155577808679,0.000747449014501788,6.55838322251605E-3]
["MER65-int","LTR","ERV1",57.9091110616382,1.53471146930416,0.461986507182581,3.32198331649029,0.000893800379227686,0.00759761335541979]
["L1PA2","LINE","L1",105.602143133723,0.628410762181819,0.190347176130845,3.30139261824324,0.000962061531978439,0.00802943544860829]
["LTR53-int","LTR","ERVL",4.56193216122775,1.37459736714557,0.420465975422305,3.26922378383879,0.00107842972640004,0.00880645714578273]
["(CGCACA)n","Simple_repeat","Simple_repeat",1.84714383386881,-3.45365532396957,1.05716782172668,-3.2668941042196,0.00108734345154747,0.008853834273405]
["LTR85b","LTR","Gypsy?",16.2302923165907,1.25513886369572,0.384201204634657,3.2668790429464,0.0010874012994239,0.008853834273405]
["(ATGG)n","Simple_repeat","Simple_repeat",5.38296264442358,1.4549246844524,0.445691448530476,3.26442135977601,1.09687907690004E-3,0.00891846784795789]
["LTR2B","LTR","ERV1",13.3545065633811,1.00906469830398,0.311314053489577,3.24130789147869,0.00118982599328268,0.00946682597708321]
["MER65D","LTR","ERV1",14.5137740658659,1.1308667992747,0.354214373176569,3.19260562222015,1.40995369003444E-3,0.0108075862010212]
["LTR86B1","LTR","ERVL",15.7464207529653,1.29305738023352,0.405206650106816,3.19110601934263,0.00141729262198825,0.0108468711819644]
["PRIMA41-int","LTR","ERV1",16.6577595897654,1.11603442355876,0.352085214879844,3.16978497361677,0.00152551784328638,0.0114881393566158]
["(GAAA)n","Simple_repeat","Simple_repeat",3.7037065867278,1.54185182177888,0.499912715980036,3.08424205364773,0.00204071487671707,0.0143990302562831]
["Harlequin-int","LTR","ERV1",106.975950364626,0.699147205502025,0.229637894175376,3.04456373810884,0.00233018048883354,0.015990129304046]
["LTR14C","LTR","ERVK",5.11361194305647,2.21303830288273,0.734399859497083,3.01339695843381,0.00258340754637076,0.0173202840916778]
["(CT)n","Simple_repeat","Simple_repeat",10.7754145148849,1.21584038405929,0.409374181656422,2.96999771490161,0.00297801964244427,0.019331087758505498]
["L1PBa","LINE","L1",125.933661027233,0.843083599093724,0.294648232064004,2.86132244265626,0.00421877740674419,0.0254060002238002]
["LTR38C","LTR","ERV1",3.96208075818111,-1.70557840735807,0.597446154293141,-2.85478179933386,0.00430664062514344,0.0257767119557205]
["LTR06","LTR","ERV1",0.91206537258849,2.4934486228282,0.885009339869437,2.81742633721363,0.00484102179767314,0.0281967075604842]
["MER57B1","LTR","ERV1",26.0579641637944,0.710616759455644,0.252287051714554,2.81669929005972,0.00485199305286892,0.0282404670489862]
["L1M3b","LINE","L1",9.39747765544837,1.17249985755819,0.417431295413004,2.80884512120283,0.00497195593826336,0.0288086510349044]
["LTR90A","LTR","LTR",4.16937533722317,1.51795040386717,0.548778248326793,2.76605424594606,0.00567390956261921,0.0319207811686667]
["LTR2C","LTR","ERV1",169.269690688616,-0.460223957739696,0.170057200814161,-2.70628915174625,6.80397740188969E-3,0.036625761017687]
["LTR78B","LTR","ERV1",31.5871515534852,0.797700870058667,0.296925024769854,2.68653971040993,0.00721963658074516,0.038349231776907]
["MLT1F2-int","LTR","ERVL-MaLR",5.58563223164004,1.16577073152343,0.435389169897897,2.67753727497818,0.0074165599660623,0.0390733088276547]
["MLT1I-int","LTR","ERVL-MaLR",10.2207610082165,1.23250299185189,0.461546186639771,2.67037845296691,7.57657970461568E-3,0.0396944075285874]
["THE1A-int","LTR","ERVL-MaLR",166.048116855625,0.726057635384541,0.276418426205227,2.62666149052408,0.00862270660230526,0.0438073551105919]
["(C)n","Simple_repeat","Simple_repeat",72.2711736260622,-0.62088592502889,0.236898724755872,-2.6208917995178,0.00877000915804043,0.0443533617575711]
["LTR45","LTR","ERV1",4.65665919519662,1.14435991706243,0.437192118769261,2.61752183521495,0.00885708214303767,0.0446830309596657]
["HERVK14-int","LTR","ERVK",34.5783617904657,0.698311496143399,0.267418006488474,2.61131067916138,0.0090195912692753,0.0453274129563928]
["MER66A","LTR","ERV1",5.55496062552899,1.07593984622261,0.417389227945022,2.57778537198935,0.00994357381304259,0.048726226700028]
["LTR60B","LTR","ERV1",3.76503429343705,1.33877556416213,0.519490461256191,2.57709364080488,0.0099634955007672,0.0487781200595114]

{"sheet":"Supplemental Table 3C","index":2,"n_rows":97,"n_cols":9,"rows_kept":97}
["Supplemental Table 3. Summary of the differential analysis of the TE families between the IPF patients and the donors in AT2 cells based on SQuIRE and REdiscoverTE analysis. "]
["C. Differential TE expression in intergenic region in AT2 cells– RediscoverTE."]
["repName","repClass","repFamily","baseMean","log2FoldChange","lfcSE","stat","pvalue","padj"]
["(GGAAT)n","Simple_repeat","Simple_repeat",4.5863145569395,4.20878980006486,0.953926826096033,4.41206776550087,{"v":1.02388054453148E-5,"d":"1.02E-05"},1.99956905717805E-4]
["(TGCTGCTG)n","Simple_repeat","Simple_repeat",1.2347773930331,3.77409031376665,1.22694434938625,3.07600773878175,2.09792399967812E-3,0.0148615841361203]
["(TGTGTC)n","Simple_repeat","Simple_repeat",1.27389366550123,3.58981665679082,0.960916769395489,3.73582475727754,0.000187100938076189,0.00220756128071188]
["(TGGAA)n","Simple_repeat","Simple_repeat",1.93475252236517,3.43733124351099,1.19401944820129,2.87878999683723,3.99204064787664E-3,0.0243960897798403]
["MER57F","LTR","ERV1",12.0198145959977,2.92562242218285,0.50649018665175,5.77626674570584,{"v":7.63762580403947e-09,"d":"7.64E-09"},{"v":4.28702510861343e-07,"d":"4.29E-07"}]
["(TTCCA)n","Simple_repeat","Simple_repeat",2.31244528377651,2.85808923374691,0.920413144551316,3.10522426876049,1.9013480120941E-3,0.0137061675746281]
["(TCCAT)n","Simple_repeat","Simple_repeat",3.06652282214276,2.8501603393902,0.71255352188409,3.9999245696716,{"v":6.33626764281186e-05,"d":"6.34E-05"},0.000918023742355886]
["UCON26","Unknown","Unknown",1.48373713929519,2.84924138494893,0.878659237551118,3.24271488101571,1.1839662948617E-3,0.00948809492973268]
["(GCAG)n","Simple_repeat","Simple_repeat",1.0323253810406,2.50876439376319,0.970267144617822,2.58564294141009,0.00971975612415137,0.0479234244905355]
["(GCGCC)n","Simple_repeat","Simple_repeat",1.76167903360154,2.43429548896802,0.772818534761542,3.14989273609895,0.00163330417305442,0.0121214680741792]
["LSAU","Satellite","Satellite",1.23841208644444,2.3555243249678,0.772198102601599,3.05041454651577,2.28525701093144E-3,0.0158163340590317]
["(GATTC)n","Simple_repeat","Simple_repeat",8.95546979857363,2.33107740966542,0.710708208310315,3.27993596022689,0.00103830652245717,0.00858452152061598]
["LTR26E","LTR","ERV1",1.52122870351515,2.16519423536117,0.761685768157851,2.84263449033284,0.00447423494353023,0.0266979074102958]
["Ricksha_a","DNA","MULE-MuDR",7.11185043750138,2.15413478815358,0.744200378820871,2.89456287507761,0.00379686861062173,0.0234573792124931]
["MER57C1","LTR","ERV1",5.95494015406318,2.13459405201962,0.475840589132485,4.48594361382925,{"v":7.25919389630421E-6,"d":"7.26E-06"},0.000150099457898913]
["(GATG)n","Simple_repeat","Simple_repeat",10.8775949458639,1.98000611077019,0.602722518653646,3.28510392343246,0.00101944762404815,0.00846816187345347]
["MLT2E","LTR","ERVL",14.0660665993907,1.92632630709773,0.498367944068897,3.86526928552094,1.10966700580884E-4,1.43836338718698E-3]
["ALR/Alpha","Satellite","centr",157.979239952705,1.92615837475613,0.384747934829677,5.00628645507562,{"v":5.54901591379984e-07,"d":"5.55E-07"},{"v":1.70483787816596e-05,"d":"1.70E-05"}]
["(CATT)n","Simple_repeat","Simple_repeat",13.2111772925038,1.79792186377198,0.647420074610307,2.77705609430504,0.00548537112786742,0.031210387250996]
["Mam_R4","LINE","Dong-R4",6.0694764994853,1.61432324100358,0.446749708969339,3.61348470652136,0.000302109182631647,0.00322206796062052]
["L1PBb","LINE","L1",6.59678633602097,1.55008228240928,0.460414779345378,3.36670835070325,0.000760710934291793,0.00670940597342529]
["(GCAGCG)n","Simple_repeat","Simple_repeat",2.12574260397295,1.52409347122726,0.569390626495242,2.67670980221168,0.00743490006385434,0.0392039125596271]
["L1PA12","LINE","L1",127.157529144007,1.50222182007296,0.379224575657207,3.96129870399238,{"v":7.45432099230725e-05,"d":"7.45E-05"},0.00104427386284829]
["MER85","DNA","PiggyBac",5.61817286668247,1.48376361151381,0.391305997692567,3.79182435296976,1.4954467089146E-4,0.00183283944530269]
["(AATGG)n","Simple_repeat","Simple_repeat",6.22341675188603,1.40324647037109,0.502504728246991,2.79250401337789,5.23018187867873E-3,0.0300389705600453]
["MamGypsy2-LTR","LTR","Gypsy",6.95293943684505,1.39678639508443,0.463307927700949,3.01481220495327,0.00257138414192234,0.0173777145825044]
["HERVK14-int","LTR","ERVK",36.6704807111079,1.29518702279573,0.42746156369912,3.02994966749193,0.00244594496885572,0.0166925719759777]
["HERVK11D-int","LTR","ERVK",3.26969548937715,1.28247336278729,0.492009554965008,2.60660255445344,0.00914454351782737,0.0458199414219242]
["LTR1","LTR","ERV1",5.87184444959809,1.1250459173632,0.423178166117045,2.65856324225392,0.0078474620833303,0.04083623081613]
["MSR1","Satellite","Satellite",11.9915796014675,1.10684368665047,0.352467537152437,3.14027128737184,1.68791448020539E-3,0.0124514849044803]
["Tigger3","DNA","TcMar-Tigger",24.5902040006675,1.10469259655578,0.338166521857,3.26671188646794,0.00108804351112638,0.00889304673459255]
["(CCGCCGC)n","Simple_repeat","Simple_repeat",4.77153148581823,1.10425358670629,0.408481533621144,2.70331335891051,6.86519911060764E-3,0.0368930601085967]
["(TGAGA)n","Simple_repeat","Simple_repeat",10.396064188155,1.07293050673837,0.353945216463208,3.03134625595343,0.00243465873763069,0.0166337270099943]
["MER51A","LTR","ERV1",33.5349610488811,1.05769185110536,0.292412310499285,3.61712490592269,0.000297893571247643,0.00318526781790395]
["BSR/Beta","Satellite","Satellite",20.4520335056754,1.01452123999095,0.360762144921699,2.81216101598227,0.00492098626350628,0.0286986679640112]
["MamRep434","DNA","TcMar-Tigger",12.0985519189661,1.01433116803951,0.341029431994181,2.97432148922798,2.93637251547582E-3,0.0191951616570413]
["LTR14B","LTR","ERVK",16.0070385818849,1.01077572255698,0.38831602540694,2.60297195176976,0.0092419514308221,0.0462021442828624]
["MSTD-int","LTR","ERVL-MaLR",16.1982764357429,1.00821319607704,0.33685810635371,2.99299074910309,0.00276258122880734,0.0183423056706937]
["Ricksha_0","DNA","MULE-MuDR",18.8026596089483,0.948873913191843,0.351950600356841,2.69604288848999,0.00701686314687418,0.0375143852060409]
["HERV9NC-int","LTR","ERV1",14.249554975146,0.937262890366596,0.327263324052583,2.86394111860821,0.00418405780377559,0.0252865704869844]
["BLACKJACK","DNA","hAT-Blackjack",26.9488579152372,0.927891917209911,0.250175248562203,3.70896770381025,0.000208105967448049,0.00239886037531294]
["L1MEg1","LINE","L1",9.51881762053041,0.921675686843608,0.340467957727711,2.70708495740653,0.00678768846076023,0.0366896521040617]
["L1M3c","LINE","L1",19.3537437666491,0.907158046340693,0.328392020591741,2.76242414388162,0.0057373891994199,0.032313079464061]
["HERV9-int","LTR","ERV1",16.5394486816115,0.897617566163163,0.308607968485021,2.9086013902027,0.00363049431463779,0.0226086690223192]
["L1PA10","LINE","L1",369.525362363801,0.894211744944126,0.308457000206582,2.89898347045212,0.00374374630413726,0.0232338521120646]
["LTR12D","LTR","ERV1",15.9518177014716,0.888683870751573,0.312411805041427,2.84459119793418,0.00444684539996934,0.0265617784037501]
["MLT1J-int","LTR","ERVL-MaLR",46.5155940667435,0.864479805847903,0.247286198726697,3.4958675829836,0.00047252312674985,4.61402762312657E-3]
["MLT1E2-int","LTR","ERVL-MaLR",23.8094580558742,0.814046748927386,0.285120281669211,2.85509941334802,0.00430233594602511,0.0258388428131318]
["SVA_B","Retroposon","SVA",58.4613314979476,0.813777295800732,0.245193705684309,3.31891593028282,9.03676312418455E-4,0.00771165935483026]
["MER34A","LTR","ERV1",36.70550534639,0.782909368236945,0.275850431238217,2.8381661928991,0.00453735510309857,0.0269718244231815]
["L1M7","LINE","L1",31.498352479373,0.747193445251582,0.224524659453996,3.3278903398345,0.000875063042871735,0.00752144689774611]
["L1MEc","LINE","L1",463.726398911437,0.725210588636516,0.214185697469895,3.38589643100912,0.00070946153962598,0.00634703808623844]
["AluYh3","SINE","Alu",38.5222381159961,0.720092307358048,0.222202788725146,3.24069878460781,0.00119237104561815,0.00953667754641374]
["L1HS","LINE","L1",40.9396168546151,0.710555953054615,0.2238214721679,3.1746549880683,1.50014752336998E-3,0.0114309593772835]
["MLT2B1","LTR","ERVL",55.8970262535948,0.706810110311894,0.240965546797283,2.93324136876096,0.00335443000059384,0.0211971667176087]
["LTR5A","LTR","ERVK",98.3825303097672,0.697223648291126,0.20090147045635,3.470475585407,0.000519537571774686,0.00496632585831921]
["LOR1a","LTR","ERV1",21.6402570357965,0.6849256085384,0.240366390031037,2.84950657390145,0.00437871008562323,0.0262407438864437]
["L1MCa","LINE","L1",259.912639756732,0.629198483618593,0.214789683534973,2.92937013204427,0.00339649710163523,0.0213966468107553]
["MER51B","LTR","ERV1",16.1703517379642,0.624931130386859,0.233506393861787,2.6762913000008,0.00744419122250349,0.0392363385430876]
["PRIMA4-int","LTR","ERV1",33.5606919404846,0.601392458591593,0.204953258298591,2.93429079188114,0.0033431083919139,0.0211563621518179]
["LTR9B","LTR","ERV1",26.1293649981244,0.573849122816638,0.212303690715109,2.70296348068055,0.00687242966129875,0.0369239724843881]
["L1ME4c","LINE","L1",76.1568130440336,0.560608665388714,0.208667656081538,2.68661025822638,7.21811209550935E-3,0.0383249702385434]
["L1MA9","LINE","L1",312.459579781395,0.559968502446561,0.164146439834093,3.41139596455784,0.000646311598192828,0.00589181426994907]
["HSMAR2","DNA","TcMar-Mariner",68.7451278567544,0.547810545033874,0.195017074453389,2.80903888323279,0.00496896447746728,0.0288726226655554]
["MLT2A2","LTR","ERVL",90.6757284208917,0.538999829067823,0.174828366330525,3.08302274042192,0.00204909495992657,0.0145860056737093]
["MER39","LTR","ERV1",44.2354761496967,0.535331196251164,0.208278521194421,2.57026597452865,0.0101620460853127,0.0495466693575915]
["L1MA6","LINE","L1",205.743020218776,0.528917227227342,0.196875761345599,2.68655330454251,0.00721934279929354,0.0383249702385434]
["L1MC2","LINE","L1",157.260062537415,0.485736424191567,0.1683657334566,2.88500762132085,0.00391404186372856,0.0240445001653251]
["L1MDa","LINE","L1",277.650005806807,0.459672865705213,0.15219561700668,3.02027663309803,0.00252543908227584,0.017132106843315]
["MLT1H","LTR","ERVL-MaLR",159.540435998051,0.432814588552194,0.162760293931602,2.65921483733668,0.00783230016938338,0.0407913247770763]
["Tigger1","DNA","TcMar-Tigger",482.874526570313,0.391141076362375,0.144364715608515,2.70939526125665,0.00674059839112823,0.0365141328591631]
["AluSc","SINE","Alu",540.189007554247,0.38896395539758,0.119518879230351,3.25441434777782,0.00113626418412257,0.00917904488713244]
["MIR3","SINE","MIR",917.502909591863,0.354134819198784,0.119449734187854,2.96471835292535,0.00302960157116341,0.0196573685179985]
["L1ME3D","LINE","L1",236.634735386016,-0.339189772937998,0.10939043472491,-3.10072607162571,0.00193046787242865,0.0138800306613479]
["HERVE_a-int","LTR","ERV1",263.525908227512,-0.434348536631108,0.163958518182974,-2.64913675388543,0.0080697670207926,0.0417063191900181]
["MER41C","LTR","ERV1",29.1144982696479,-0.462724126667351,0.172835478178325,-2.67725198289399,0.00742287858828099,0.0391570562572508]
["MER11C","LTR","ERVK",226.922846422605,-0.547796005901124,0.177332072897898,-3.08909717768046,2.00765758090905E-3,0.0143441850846528]
["LTR1A2","LTR","ERV1",28.6439682757949,-0.551806355193241,0.21420053905791,-2.57612029185444,0.00999158792084777,0.0489929099110592]
["MamGypLTR1b","LTR","Gypsy",38.5748805180393,-0.641034265087257,0.199463510517806,-3.21379215387885,1.30994458457684E-3,0.0102827768175865]
["Tigger4","DNA","TcMar-Tigger",69.6619020941647,-0.667704575662298,0.243059609657144,-2.74708157642543,0.00601281769167058,0.0334978525985385]
["LTR7C","LTR","ERV1",33.0123523349947,-0.677783202549925,0.191930168827783,-3.53140523290059,0.000413357950113378,0.0041365604478894]
["(GCGGCG)n","Simple_repeat","Simple_repeat",24.3213983999175,-0.68032304784758,0.218700140533376,-3.1107572504909,0.00186608274469049,0.0135026114707066]
["MER41E","LTR","ERV1",33.5010715729427,-0.719792398699136,0.27689034129667,-2.59955762750108,0.00933440042483514,0.046537855052202]
["MER99","DNA","hAT?",72.9314391246725,-0.811004252614634,0.255899767316109,-3.16922622134631,1.5284537963032E-3,0.0115725125565508]
["HERVP71A-int","LTR","ERV1",15.54046858512,-0.824432001691578,0.300111842921105,-2.7470825331885,0.00601280015078421,0.0334978525985385]
["HERVE-int","LTR","ERV1",763.308533559648,-0.858429582043573,0.159760675723121,-5.37322202824997,{"v":7.73419971968206e-08,"d":"7.73E-08"},{"v":3.14121692029624e-06,"d":"3.14E-06"}]
["MER91C","DNA","hAT-Tip100",16.779552683699,-0.984518716046069,0.299422051550756,-3.28806349080532,1.00879086469984E-3,0.00839359700815207]
["LTR2C","LTR","ERV1",80.6663179129077,-1.02052614260111,0.212164002463048,-4.81008149711376,{"v":1.5086877008319E-6,"d":"1.51E-06"},{"v":4.00893631823183E-5,"d":"4.01E-05"}]
["HSMAR1","DNA","TcMar-Mariner",82.8152757928377,-1.05261740572467,0.213680139014134,-4.92613590847132,{"v":8.38716714663366E-7,"d":"8.39E-07"},{"v":2.45309907480815E-5,"d":"2.45E-05"}]
["MER50-int","LTR","ERV1",55.2572867298853,-1.09898222302223,0.298749388533103,-3.67860911253532,2.34509361385646E-4,0.00263261790053514]
["(ATAC)n","Simple_repeat","Simple_repeat",13.5300360276414,-1.22228916668218,0.345638371072147,-3.53632370992468,0.00040573719554437,0.00407499142352524]
["LTR53B","LTR","ERVL",13.2749840361849,-1.36564852699729,0.369884989932856,-3.69208960667797,2.22419067144777E-4,2.52641357850943E-3]
["(ACC)n","Simple_repeat","Simple_repeat",7.25455319586021,-1.47852662552635,0.50203885936946,-2.94504418917555,0.00322908541282741,0.0206600486943547]
["(AGC)n","Simple_repeat","Simple_repeat",14.8211991351499,-1.67901296268022,0.353375655292745,-4.75135436618939,{"v":2.02058662812463e-06,"d":"2.02E-06"},{"v":5.15002171400989e-05,"d":"5.15E-05"}]

{"sheet":"Supplemental Table 3D","index":3,"n_rows":25,"n_cols":8,"rows_kept":25}
["Supplemental Table 3. Summary of the differential analysis of the TE families between the IPF patients and the donors in AT2 cells based on SQuIRE and REdiscoverTE analysis. "]
["D. Summary of all changes obtained by SQuIRE and REdiscoverTE.  "]
["SQUIRE summary "]
["INTERGENIC AT2",null,null,"INTRONIC AT2",null,null,"EXONIC"]
["DNA",12,null,"DNA",14,null,"DNA",31]
["LINE",22,null,"LINE",13,null,"DNA?",1]
["LTR",45,null,"LTR",40,null,"LINE",23]
["Retroposon",3,null,"srpRNA",1,null,"LTR",68]
["SINE",6,{"$nulls":4},"RC",1]
[{"$nulls":6},"SINE",6]
[{"$nulls":6},"rRNA",1]
[{"$nulls":6},"scRNA",1]
[{"$nulls":6},"snRNA",3]
["REDISCOVER TE"]
[]
["INTERGENIC AT2",null,null,"INTRONIC",null,null,"EXONIC"]
["DNA",12,{"$nulls":4},"DNA",21]
["LINE",16,null,"LINE",5,null,"DNA?",1]
["LTR",38,null,"LTR",27,null,"LINE",16]
["Retroposon",1,null,"Simple_repeat",6,null,"LTR",43]
["SINE",3,{"$nulls":4},"SINE",6]
["Satellite",4,{"$nulls":4},"Simple_repeat",11]
["Simple_repeat",19,{"$nulls":4},"Unknown",2]
["Unknown",1,{"$nulls":4},"snRNA",3]
[{"$nulls":6},"Low_complexity",1]

{"sheet":"Supplemental Table 3E","index":4,"n_rows":92,"n_cols":9,"rows_kept":92}
["Supplemental Table 3. Summary of the differential analysis of the TE families between the IPF patients and the donors in AT2 cells based on SQuIRE and REdiscoverTE analysis. "]
[" E. Differential TE expression in intergenic region in AT2 cells- SQuIRE"]
[]
["repName","repClass","repFamily","baseMean","log2FoldChange","lfcSE","stat","pvalue","padj"]
["MER66B","LTR","ERV1",2.08723514757404,4.61057779541186,1.30723888808461,3.52695887296267,0.00042036205332996,0.00384513176081781]
["MER57F","LTR","ERV1",8.40421638826847,4.42720431549287,0.711849620050042,6.21929715321284,{"v":4.99386762567325e-10,"d":"4.99E-10"},{"v":3.73423556805933e-08,"d":"3.73E-08"}]
["L1PB","LINE","L1",2.19882371146763,3.94397081573966,1.47877569961816,2.66705141067577,0.00765199655762197,0.0365796457061996]
["MER83B","LTR","ERV1",3.83413294329776,3.02629069540965,0.904612401495354,3.34540040619286,0.000821638612604308,0.00651748265582417]
["HERV35I-int","LTR","ERV1",14.5772617543703,2.91332417700766,0.861893806084451,3.38014283945579,0.00072448167538258,0.005896832043656]
["LTR65","LTR","ERV1",3.97212397130317,2.8452039392662,0.885364706695049,3.21359538927972,0.00131084248412346,0.00938977706209152]
["L1PBa1","LINE","L1",4.24195626893634,2.72247300855648,0.980235046236769,2.77736754976101,0.00548011700933313,0.0283165034794053]
["L1PA12","LINE","L1",61.2805174032083,2.64358996591896,0.487167451979626,5.42645029994639,{"v":5.74858223366685e-08,"d":"5.75E-08"},{"v":2.23562727670828e-06,"d":"2.24E-06"}]
["MER85","DNA","PiggyBac",10.1619259684862,2.49821724288219,0.60200576312275,4.14982280223253,{"v":3.32732752305076e-05,"d":"3.33E-05"},0.00048964951829215]
["Ricksha_a","DNA","MULE-MuDR",7.35131857506294,2.34129934670086,0.84336926801821,2.77612599306892,0.00550108860699852,0.0284097807773068]
["HERV9NC-int","LTR","ERV1",3.37518976384554,2.31148379328642,0.872057088716502,2.65061063454971,0.00803464079574755,0.0378967224199426]
["BLACKJACK","DNA","hAT-Blackjack",5.93718558443615,2.1679600390298,0.564428593364838,3.84098194973703,0.000122543126202233,0.00142941078407741]
["MER51A","LTR","ERV1",15.6866877604241,2.15355708997397,0.500464700467051,4.30311486097659,{"v":1.68413483053219e-05,"d":"1.68E-05"},0.000279852395732968]
["MER34A","LTR","ERV1",11.1128424434722,1.99593174178528,0.641608871336576,3.11082316805787,1.86566625527806E-3,0.0123627272211239]
["MLT2E","LTR","ERVL",11.2261560378678,1.95490647786952,0.671900569226919,2.90951752000867,0.00361987097412193,0.0206490671167468]
["Plat_L3","LINE","CR1",4.13462849684542,1.6784360801645,0.628085023997622,2.6723071177237,0.00753316680311283,0.0361713921543358]
["LTR9B","LTR","ERV1",6.69840607338837,1.51090827246006,0.562422218479391,2.68643062598961,0.00722199438185548,0.0349969933230326]
["L1MEc","LINE","L1",199.308760183777,1.31203332399276,0.277373765217937,4.73019978281606,{"v":2.24298996191527e-06,"d":"2.24E-06"},{"v":5.13820676829782e-05,"d":"5.14E-05"}]
["L1PA15","LINE","L1",27.3001955574347,1.28407578189137,0.392786219853784,3.26914671896933,1.07872350468567E-3,0.00810253935022169]
["L1PA10","LINE","L1",312.216823584874,1.20338080408221,0.37869995887695,3.17766288554897,0.00148467267717414,0.0102980972460854]
["LTR5A","LTR","ERVK",59.8450287455969,1.05087465930416,0.327764934823469,3.20618390698246,0.00134507992823388,0.00957166161696794]
["SVA_B","Retroposon","SVA",42.8082218067293,0.953405190809356,0.326160762663807,2.92311430419387,0.00346549271888351,0.0200338587567134]
["MLT1J-int","LTR","ERVL-MaLR",25.0142544733923,0.952920300808472,0.317913415769147,2.99742084964553,0.00272274551530737,0.0166174199582213]
["L1MCa","LINE","L1",155.746061842613,0.921331342886791,0.304619430869848,3.02453241494119,0.00249017785425207,0.0154648283689962]
["MLT1J","LTR","ERVL-MaLR",38.4099221130158,0.916205256011677,0.256643982120923,3.5699463842483,0.000357054300341289,0.00335445038548417]
["L1ME4c","LINE","L1",15.3684637370183,0.821849323316492,0.272800251560276,3.01264136897213,0.00258984777980926,0.0159652312029461]
["L1ME5","LINE","L1",21.4871103816885,0.753068364484879,0.266371361237877,2.82713712534723,0.00469662115826846,0.0252467405629305]
["Tigger14a","DNA","TcMar-Tigger",33.5889820053402,0.74581547199694,0.249043577369595,2.99471875514424,0.0027469799958776,0.0167361509383226]
["MIR3","SINE","MIR",355.546530065777,0.67224874350308,0.179730621835938,3.74031278941839,0.000183791395230307,0.00196446409951279]
["AluSc","SINE","Alu",281.479735568354,0.65996235186593,0.148323001442655,4.44949431609963,{"v":8.60727076503049e-06,"d":"8.61E-06"},0.000161068917317127]
["MER101-int","LTR","ERV1",25.9046229570741,0.648709534162841,0.236619726198,2.74156996369783,0.00611463371568607,0.0308668186608247]
["L1MA6","LINE","L1",126.411541360305,0.617967639241362,0.239939867324739,2.57551046489908,0.010009224437107,0.0443448178036086]
["L1MA9","LINE","L1",134.82093890904,0.603275663830878,0.175031580279168,3.44666752633256,0.000567546564014702,0.00488079431746164]
["AluJr4","SINE","Alu",45.7682024085404,0.592715858769818,0.185935035891454,3.18775778824081,1.43380586149488E-3,0.0100705837427256]
["L1ME1","LINE","L1",525.114978436269,0.475287863028477,0.166610196306263,2.85269373403055,4.33503791033362E-3,0.0237967837542784]
["MLT1A0","LTR","ERVL-MaLR",137.422217940536,-0.365923327317006,0.118102180955632,-3.09836215009844,1.94593475278986E-3,0.0128069659311518]
["MER5B","DNA","hAT-Charlie",115.147405944312,-0.396295071849812,0.15228919394448,-2.60225339425127,9.26133950540034E-3,0.0418477868341536]
["FLAM_A","SINE","Alu",45.1794714065222,-0.497405189248498,0.188536869609889,-2.63823829406792,0.00833379977962721,0.0388396875972238]
["MLT1F","LTR","ERVL-MaLR",97.624232361904,-0.504138107703664,0.187719725537829,-2.68558941400152,0.00724019995222917,0.035066739895012]
["THE1D","LTR","ERVL-MaLR",40.1984356285552,-0.520906897719549,0.199184937022124,-2.61519222039211,0.00891772526002348,0.0407176660136229]
["L1MD1","LINE","L1",150.978190819223,-0.531431100928419,0.15649861447917,-3.39575594772537,0.000684393531025645,0.00564547937363979]
["L1ME3D","LINE","L1",172.803055523899,-0.571312477066886,0.112959691948807,-5.05766674121071,{"v":4.24417286056984e-07,"d":"4.24E-07"},{"v":1.24714951709556E-5,"d":"1.25E-05"}]
["MER11C","LTR","ERVK",206.456153031924,-0.581053358152274,0.191426763029167,-3.03538203831896,2.40231175819247E-3,0.0150461439536774]
["MER50","LTR","ERV1",35.1881366801567,-0.591459455730329,0.212868964190087,-2.77851427511138,0.00546081137868228,0.0282643852872427]
["MLT1A1","LTR","ERVL-MaLR",77.4622744692892,-0.694558002462009,0.163286453073841,-4.25361681503313,{"v":2.10345127416171e-05,"d":"2.10E-05"},0.000334136322868779]
["SVA_A","Retroposon","SVA",41.5654732144873,-0.704376401365455,0.194140716660764,-3.6281745193939,0.000285432299457803,0.00279134882962588]
["MLT1L","LTR","ERVL-MaLR",56.4033199821666,-0.714046227735836,0.245684065750616,-2.90635953762112,0.00365661027753335,0.0208116788537209]
["L1PA16","LINE","L1",473.657432694174,-0.720790959677355,0.242640397101773,-2.97061399621361,0.00297205079489781,0.017806528764773]
["MER4B","LTR","ERV1",93.6610333586824,-0.766264612251034,0.24592829361913,-3.1158050217587,1.83443521004208E-3,0.0121870476446162]
["L1MA7","LINE","L1",119.123978487757,-0.798830164019433,0.311712134436766,-2.56271757101418,0.0103856493330824,0.045671532269197]
["HERVE-int","LTR","ERV1",1163.58307632487,-0.816899698795497,0.146657374727404,-5.57012356394548,{"v":2.5455873825269E-8,"d":"2.55E-08"},{"v":1.11619019409188E-6,"d":"1.12E-06"}]
["Tigger4","DNA","TcMar-Tigger",49.8935048244694,-0.829543095644064,0.294311542833233,-2.81858838310705,0.00482353294428447,0.0257932815436375]
["L1MC5","LINE","L1",69.9424324050932,-0.871320161680858,0.333263403289104,-2.61450898322908,0.00893558107032817,0.04075489484453]
["AluYj4","SINE","Alu",18.7070414512463,-0.885153111041143,0.293613113723893,-3.01469202044402,0.00257240319275793,0.0158843090737771]
["MER91A","DNA","hAT-Tip100",16.9069746411735,-0.929633484900516,0.357520108488777,-2.60022712800698,0.00931620772350695,0.0420152436212682]
["MER41C","LTR","ERV1",20.3850581313827,-0.952952657335852,0.253711444947328,-3.75604915077319,1.72616806783347E-4,0.00187997996493764]
["MamGypLTR1b","LTR","Gypsy",21.7670868538943,-1.02875861938783,0.319905602248283,-3.21581932969525,1.30072692515098E-3,0.00934255778528844]
["MER99","DNA","hAT?",66.6404745143901,-1.03116548200975,0.282645288240789,-3.64826701491407,2.64015171766101E-4,2.61950328189721E-3]
["MamSINE1","SINE","tRNA-RTE",18.4828133337721,-1.07650061294738,0.377799584031639,-2.84939597195859,0.00438023274748497,0.0239711540000258]
["MER52A","LTR","ERV1",17.6703470171726,-1.081108789247,0.345042617159324,-3.13326161894893,1.72875278694204E-3,0.0116017539276902]
["Zaphod2","DNA","hAT-Tip100",8.14680873201323,-1.1439641674139,0.399782115178564,-2.86146909524189,0.00421682613330126,0.023286855815694]
["LTR1A2","LTR","ERV1",14.5505956380955,-1.19745316677532,0.35307294916699,-3.39151772912789,0.00069506666073351,5.71813561010416E-3]
["SVA_C","Retroposon","SVA",30.8431604691745,-1.21613553819607,0.239224719976665,-5.08365330436878,{"v":3.70243481647843e-07,"d":"3.70E-07"},{"v":1.12447695599837E-5,"d":"1.12E-05"}]
["MLT1J2","LTR","ERVL-MaLR",49.7934143159109,-1.22034810531512,0.254798731955694,-4.78945909953479,{"v":1.67231478588183e-06,"d":"1.67E-06"},{"v":3.97958997235398e-05,"d":"3.98E-05"}]
["LTR2B","LTR","ERV1",23.1945742132793,-1.28342786739953,0.34324280944786,-3.73912528412192,0.000184661684324324,0.00196951691233752]
["LTR41B","LTR","ERVL",30.8676647641,-1.35852330827986,0.412538081826079,-3.29308582195958,0.000990942218361035,0.00756364402769761]
["MER63A","DNA","hAT-Blackjack",27.0293100489684,-1.36929842967261,0.386418025664074,-3.54356768766007,3.94751963492333E-4,0.00364714332920215]
["MER50-int","LTR","ERV1",37.2804683479947,-1.39452737966298,0.418233807042332,-3.33432485892234,0.000855067297316081,0.00674194724994827]
["HAL1b","LINE","L1",4.66419561836159,-1.45185490452203,0.56765562907721,-2.55763323774695,0.0105387177149465,0.046168066769812]
["LTR2C","LTR","ERV1",69.8466238849284,-1.4744357257628,0.260925955022104,-5.6507821371695,{"v":1.59719418614733e-08,"d":"1.60E-08"},{"v":7.73168080373163e-07,"d":"7.73E-07"}]
["LTR16A2","LTR","ERVL",8.04154524835765,-1.48103011253098,0.467306371150024,-3.16929150545545,1.52811049389637E-3,0.0105437331339924]
["L1PA15-16","LINE","L1",24.0220677169845,-1.50543626057222,0.506538343549234,-2.97200849598842,0.00295858496892398,0.0177389734365569]
["HSMAR1","DNA","TcMar-Mariner",64.9204528553128,-1.54748002603768,0.29202909986426,-5.29906104137214,{"v":1.16399718193861e-07,"d":"1.16E-07"},{"v":4.12557382692886e-06,"d":"4.13E-06"}]
["LTR16","LTR","ERVL",6.04259001486236,-1.56533726217006,0.537652815723989,-2.91142762837058,3.59781243620767E-3,0.0205621876643174]
["MLT1F2-int","LTR","ERVL-MaLR",6.18950018101495,-1.57319677894999,0.574956641157529,-2.73620072599345,0.00621531009564696,0.0312635026550249]
["LTR2752","LTR","ERV1",6.35820489672767,-1.62598861714714,0.5409898944623,-3.00558038845298,0.0026507451775959,0.0162742704074932]
["MER77B","LTR","ERVL",4.44138051163021,-1.76473471027628,0.59935245362033,-2.9444022454844,0.00323579147525415,0.018920020402829]
["L1MEb","LINE","L1",17.1332318378259,-1.76474113016583,0.403907587378843,-4.36917053630537,{"v":1.2471934538183e-05,"d":"1.25E-05"},0.000220715482149372]
["MER91C","DNA","hAT-Tip100",6.94440788288721,-1.77951723055221,0.602243333703497,-2.95481432664279,0.00312857274349376,0.0184574945339466]
["LTR78","LTR","ERV1",5.69194727423128,-1.81183542584711,0.630539234024754,-2.87346976695185,0.00405989933877898,0.0225693104674643]
["HERVP71A-int","LTR","ERV1",5.10613091135343,-1.87418026075602,0.595899515711562,-3.14512801460842,1.6601416862948E-3,0.0112438535785688]
["LTR53B","LTR","ERVL",11.2030606544325,-1.96802015422661,0.465911920685047,-4.2240176025824,{"v":2.39985293416e-05,"d":"2.40E-05"},0.00037222002296689]
["LTR16B2","LTR","ERVL",3.98676638906999,-2.11279501215873,0.782660273781749,-2.69950460363841,6.94427950031817E-3,0.03397340994903]
["LTR47A","LTR","ERVL",9.29150567796777,-2.23391037734912,0.61829106074391,-3.61304006993299,0.000302627915359738,0.00293609731173121]
["MER57D","LTR","ERV1",2.81175822426627,-2.56721341209929,0.924140260313873,-2.77794780981338,0.00547034038741013,0.0282887103810032]
["LTR49-int","LTR","ERV1",23.3459102155031,-2.58393370661627,0.604079684490971,-4.27747161997946,{"v":1.8902804805372E-5,"d":"1.89E-05"},0.000307714242827273]
["LTR56","LTR","ERV1",6.2661975701142,-2.74845950069103,0.805492261802435,-3.41214885732217,0.000644529063719413,0.00538581479958472]
["L4_A_Mam","LINE","RTE-X",15.2982381735157,-3.68148975420624,0.824329987215074,-4.46603885738019,{"v":7.96811437227599e-06,"d":"7.97E-06"},1.50486102544165E-4]