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["Additional File 4: List of transposable element insertions identified in the sequenced population, along with allele frequency estimates for each sample."]
["Chromosome:Start-End","TE_Family","Generation_0_Replicate_1","Generation_0_Replicate_2","Generation_1_Population_1_Set_1","Generation_1_Population_1_Set_2","Generation_1_Population_1_Set_3","Generation_2_Population_1_Set_1","Generation_2_Population_1_Set_2","Generation_2_Population_1_Set_3","Generation_1_Population_2_Set_1","Generation_1_Population_2_Set_2","Generation_1_Population_2_Set_3","Generation_2_Population_2_Set_1","Generation_2_Population_2_Set_2","Generation_2_Population_2_Set_3"]
["Chr1:1001678-1002178","ATCOPIA93",0.000476356823017562,0.000203431206347054,0.0010264778649260401,0.000262727697337693,0.000802234371285952,0.000112325894862962,0.000189555492370391,0.000494940607127145,0.000374278177799957,0.00156981177209323,0.000464006363515843,0.00391908475515617,0.00499383877034827,0.0007626883609133771]
["Chr1:10044548-10045048","ATCOPIA93",0.000190542729207025,0.000610293619041161,0.000631678686108333,0.000700607192900514,0.010830164012360399,0.008199790324996261,0.0108046630651123,0.00032996040475143004,0.00507948955585656,0.00040366588425254504,0.000397719740156436,0.0005938007204782071,0.000389130293793372,0.0139363964130535]
["Chr1:10045143-10045965","ATCOPIA93",9.52713646035123e-05,0,0,0,8.91371523651058e-05,0,0,0.00016498020237571502,0.00010693662222855901,0.000134555294750848,6.62866233594061e-05,0.00207830252167373,0,0.00228806508274013]
["Chr1:10045143-10045965","ATCOPIA93",9.52713646035123e-05,0,0,0,8.91371523651058e-05,0,0,0.00016498020237571502,0.00010693662222855901,0.000134555294750848,6.62866233594061e-05,0.00207830252167373,0,0.00228806508274013]
["Chr1:10069572-10070477","ATCOPIA93",0.0012385277398456601,0.000203431206347054,0.00465863031004896,0.010071228397944899,0.0031198003327787,0.00101093305376666,0.00113733295422235,0.0017322921249450101,0.000962429600057033,0.00139040471242543,0.0011931592204693102,0.0206642650726416,0.00674492509241845,0.017819173523158]
["Chr1:1008110-1008610","VANDAL21",0.00014472827266806602,0,0,0,3.46608436449343e-05,0,0,3.46608436449343e-05,9.80231988237216e-05,0,4.53247518469836e-05,3.64870288612398e-05,0.00119262506446622,8.58405940169106e-05]
["Chr1:10121255-10121755","ATCOPIA93",0.0039061259487440103,0.000203431206347054,0.000157919671527083,0.000700607192900514,0.0006685286427382931,0.00157256252808147,9.47777461851957e-05,0.00321711394632644,0.00219220075568546,0.0042609176671102,0.00265146493437624,0.000890701080717311,0.0009728257344834301,0.00221872977720255]
["Chr1:10163292-10164115","ATCOPIA93",0.000190542729207025,0.000610293619041161,0.000394799178817708,0.000262727697337693,0.00115878298074638,0.00584094653287405,0.005117998294000571,0.000412450505939287,0.00010693662222855901,0.00040366588425254504,0.000464006363515843,0.0005938007204782071,0.00064855048965562,0.00027734122215031904]
["Chr1:10197563-10198063","ATCOPIA93",0.0011432563752421501,0.0012205872380823201,0.0017371163867979202,0.000262727697337693,0.00271868314713573,0.0008986071589036991,0,0.000577430708315002,0.0023526056890283,0.0006279247088372931,0.0005302929868752491,0.00748188907802541,0.00538296906414164,0.0189285384117593]
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["Chr1:10218030-10218736","ATCOPIA93",9.52713646035123e-05,0,7.89598357635416e-05,0,0.0019164487758497701,0.000112325894862962,0,0.00032996040475143004,0.000267341555571398,0.00017940705966779802,0.00132573246718812,0.00017814021614346201,0.00025942019586224803,0.004784136082093]
["Chr1:10218030-10218736","ATCOPIA93",9.52713646035123e-05,0,7.89598357635416e-05,0,0.0019164487758497701,0.000112325894862962,0,0.0035470743510778702,0.000267341555571398,0.00017940705966779802,0.00132573246718812,0.00017814021614346201,0.00025942019586224803,0.004784136082093]
["Chr1:10304893-10306512","ATCOPIA93",0.000476356823017562,0.0012205872380823201,0,0.000262727697337693,0.00035654860946042304,0.00044930357945185,0,0.00032996040475143004,0.000320809866685678,0.000269110589501697,6.62866233594061e-05,0.00225644273781719,0.0055126791620727705,0.0011787001941388601]
["Chr1:10315692-10316937","ATCOPIA93",0.0010479850106386401,0.0013223028412558502,0.000631678686108333,0.00192666978047641,0.00833432374613739,0.00606559832259997,0.0010425552080371501,0.000577430708315002,0.000160404933342839,0.00035881411933559604,0.000397719740156436,0.00023752028819128303,0.00155652117517349,0.000416011833225478]
["Chr1:10338479-10339418","ATCOPIA93",0.00028581409381053704,0,0.00134231720798021,8.75758991125642e-05,0.0028523888756833904,0.000336977684588887,0.0008529997156667611,0.000412450505939287,0.00679047551151351,0.00022425882458474702,0.000132573246718812,5.9380072047820696e-05,0.0005188403917244961,0.00221872977720255]
["Chr1:10353574-10354525","ATCOPIA93",0.0005716281876210741,0,0,0,0.00013370572854765902,0,0,0.00032996040475143004,0.000267341555571398,8.97035298338989e-05,0.00033143311679703,0.000296900360239104,0.006874635190349571,0.0023574003882777103]
["Chr1:10378136-10378636","ATCOPIA93",0.00028581409381053704,0.0009154404285617411,0.00165815655103437,0.000262727697337693,0.0006685286427382931,0.000224651789725925,9.47777461851957e-05,0.00032996040475143004,0.0038497184002281304,0.0037226964881068103,0.00152459233726634,0.00023752028819128303,0.00012971009793112402,0.000208005916612739]
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["Chr1:10396773-10397646","ATCOPIA93",9.52713646035123e-05,0,0,0,0.00013370572854765902,0,0,0.00016498020237571502,0.000160404933342839,0.00017940705966779802,0,0.00391908475515617,0.00025942019586224803,0.0023574003882777103]
["Chr1:10422053-10422932","VANDAL21",0.000289456545336131,0,0,0,0.00024262590551454,0,0,0.00024262590551454,0.0127756902466917,0.006751581515418,0.00892897611385578,0.00021892217316743902,0.00032233109850438404,0.00025752178205073204]
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["Chr1:10443977-10444924","ATCOPIA93",0.0010479850106386401,0.00030514680952058003,0,0,0.0012033515569289301,0.0014602366332185101,0,0.0132809062912451,0.00048121480002851603,0.000134555294750848,0.00033143311679703,0.00035628043228692403,0.000194565146896686,0.0044374595544051]
["Chr1:10445559-10446519","ATCOPIA93",0.00171488456286322,0.000508578015867634,0.000157919671527083,0.00043787949556282104,0.0040111718564297605,0.0030327991612999904,0.00132688844659274,0.00420699516058073,0.0011228345333998701,0.000807331768505091,0.00132573246718812,0.00118760144095641,0.00201050651793242,0.0010400295830637]
["Chr1:10455118-10455618","ATCOPIA93",0.0005716281876210741,0,0,0,0.00106964582838127,0,0,0.00123735151781786,0.0036893134668852905,0.0219773648093052,0.008285827919925761,0.00083132100866949,0.0010376807834489902,0.0012480354996764402]
["Chr1:10612183-10612683","ATCOPIA93",0.0005716281876210741,0.0032548993015528603,0.0015002368795072902,0.0008757589911256421,0.0100279296410744,0.0122435225400629,0.00398066533977822,0.000494940607127145,0.0017109859556569502,0.000448517649169495,0.0005302929868752491,0.0009500811527651321,0.0005188403917244961,0.0007626883609133771]
["Chr1:10612748-10613248","ATCOPIA93",0.00238178411508781,0.0032548993015528603,0.0010264778649260401,0.0011384866884633401,0.004144877584977421,0.009997004642803651,0.00047388873092597903,0.000577430708315002,0.0017109859556569502,0.0041263623723593506,0.00371205090812674,0.0009500811527651321,0.00233478176276023,0.00416011833225478]
["Chr1:10613440-10613940","ATCOPIA93",0.0013337991044491701,0.000101715603173527,0,8.75758991125642e-05,0.000490254338008082,0.00044930357945185,0,0.000412450505939287,0.00021387324445711802,0.00017940705966779802,0.000198859870078218,0.00475040576382566,0.00155652117517349,0.00485347138763058]
["Chr1:1063768-1064268","ATCOPIA93",9.52713646035123e-05,0,7.89598357635416e-05,0,0.0038328975516995502,0.00101093305376666,9.47777461851957e-05,0,0.000267341555571398,0.00017940705966779802,6.62866233594061e-05,0.00011876014409564101,0.0031778973993125403,0.00208005916612739]
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["Chr1:10648272-10649148","ATCOPIA93",9.52713646035123e-05,0.00040686241269410705,0.000868558193398958,0.000262727697337693,0.00111421440456382,0.00044930357945185,0.000189555492370391,0.000412450505939287,0.000320809866685678,0.000313962354418646,0.0005302929868752491,0.00249396302600847,0.0014916661262079302,0.0120643431635389]
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["Chr1:10804547-10805307","ATCOPIA93",0.00038108545841404904,0.000712009222214688,7.89598357635416e-05,0.000700607192900514,0.00031198003327787005,0,0,0.00032996040475143004,0.000534683111142796,0.00304992001435256,0.0005302929868752491,0.00017814021614346201,0.000194565146896686,0.00700286585929555]
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