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["Supplementary Table 1. Detailed informtions of each sample. "]
[null,"HIVID","Targeted sequencing","Whole exome sequencing","RNA sequencing","HPV integration depth of coverage","Targertd sequencing depth of coverage (FFPE samples)","WES depth of coverage  (Tumor)","WES-Depth (Germline tissues)","Clean reads of RNA sequencing ","HPV Genome","Used in Figures","Germline tissues"]
["S001#","Y","N","Y","Y",4342.51,"NA",308.27,131.94,83294002,"AF534061.1","Figure 4A","Blood"]
["S002#","Y","N","Y","Y",4009.91,"NA",285.81,139.199,71887072,"AF534061.1","Figure 4A","Blood"]
["S003#","Y","Y","N","N",998.83,443.33,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S004#","Y","Y","N","N",9523.13,412.24,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S005#","Y","Y","N","N",3669.14,350.25,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S006#","Y","N","N","N",13663.7,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S007#","Y","Y","N","N",2991.33,492.55,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S008#","Y","Y","N","N",1714.53,584.9,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S009#","Y","Y","N","N",237.91,705.15,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S010#","Y","Y","N","N",300.97,192.08,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S011#","Y","N","N","N",2472.03,"NA","NA","NA","NA","HQ644236.1","Figure 4A","NA"]
["S012#","Y","Y","N","N",5461.03,513.91,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S013#","Y","Y","N","N",3634.09,280.38,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S014#","Y","Y","N","N",228.68,462.18,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S015#","Y","Y","N","N",1732.78,297.39,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S016#","Y","Y","N","N",627.3,446.16,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S017#","Y","N","N","N",14193.73,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S018#","Y","N","N","N",8399.14,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S019#","Y","N","N","N",20174.06,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S020#","Y","Y","N","N",2521.33,295.16,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S021#","Y","Y","N","N",7239.21,652.9,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S022#","Y","Y","N","N",134.35,687.44,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S023#","Y","Y","N","N",1850.22,335.2,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S024#","Y","Y","N","N",5390.84,827.53,"NA","NA","NA","HQ537713.1","Supplementary Figure 3D","NA"]
["S025#","Y","N","N","N",1898.59,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S026#","Y","Y","N","N",6472.84,598.29,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S027#","Y","Y","N","N",300.23,582.89,"NA","NA","NA","AF534061.1","NA","NA"]
["S028#","Y","Y","N","N",2282.15,597.96,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S029#","Y","Y","N","N",6017.13,395.03,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S030#","Y","Y","N","N",3181.91,684.67,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S031#","Y","Y","N","N",11481.27,241.69,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S032#","Y","N","N","N",2624.56,"NA","NA","NA","NA","GQ180789.1","Supplementary Figure 3B","NA"]
["S033#","Y","Y","N","N",10382.82,607.75,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S034#","Y","Y","N","N",12484.38,887.33,"NA","NA","NA","AF536179.1","Figure 4A","NA"]
["S035#","Y","Y","N","N",10922.59,323.12,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S036#","Y","Y","N","N",15128.07,350.05,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S037#","Y","Y","N","N",3071.43,516.23,"NA","NA","NA","HQ537691.1","Supplementary Figure 3C","NA"]
["S038#","Y","Y","N","N",1338.29,617.53,"NA","NA","NA","GQ180784.1","Supplementary Figure 3B","NA"]
["S039#","Y","Y","N","N",19.6,688.86,"NA","NA","NA","AF125673.1","Figure 4A","NA"]
["S040#","Y","Y","N","N",8948.3,288.46,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S041#","Y","Y","N","N",111.92,169.73,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S042#","Y","Y","N","N",261.47,230.98,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S043#","Y","Y","N","N",700.14,689.9,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S044#","Y","N","N","N",923.47,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S045#","Y","Y","N","N",1297.36,442.79,"NA","NA","NA","AF534061.1","NA","NA"]
["S046#","Y","Y","N","N",881.15,582.06,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S047#","Y","Y","N","N",1526.16,327.4,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S048#","Y","Y","N","N",5228.98,254.96,"NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S049#","Y","N","Y","Y",1664.37,"NA",273.984,156.889,77831962,"AF534061.1","Figure 4A","Blood"]
["S050#","Y","N","N","N",1817.5,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S054#","Y","N","N","N",13803.48,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S055#","Y","N","N","N",21968.14,"NA","NA","NA","NA","AF534061.1","NA","NA"]
["S056#","Y","N","N","N",15050.79,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S057#","Y","N","N","N",9950.14,"NA","NA","NA","NA","NC001526.4","Supplementary Figure 3A","NA"]
["S058#","Y","N","N","N",208.66,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S059#","Y","N","N","N",3435.9,"NA","NA","NA","NA","HQ644236.1","Figure 4A","NA"]
["S060#","Y","N","N","N",1217.59,"NA","NA","NA","NA","AF534061.1","NA","NA"]
["S061#","Y","N","N","N",7945.42,"NA","NA","NA","NA","NC001526.4","Supplementary Figure 3A","NA"]
["S062#","Y","N","N","N",21346.73,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S063#","Y","N","N","N",6218.8,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S064#","Y","N","N","N",14796.17,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S065#","Y","N","N","N",10748.11,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S066#","Y","N","N","N",1137.99,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S067#","Y","N","N","N",8677.11,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S068#","Y","N","Y","Y",11295.4,"NA",334.459,166.423,89746976,"AF534061.1","Figure 4A","NA"]
["S069#","Y","N","Y","Y",18580.91,"NA",289.605,135.959,79296566,"AF534061.1","Figure 4A","NA"]
["S070#","Y","N","Y","Y",13348.75,"NA",286.442,150.586,68712504,"AF534061.1","Figure 4A","NA"]
["S071#","Y","N","Y","Y",22353.42,"NA",411.429,163.15,79374016,"AF534061.1","Figure 4A","NA"]
["S072#","Y","N","Y","Y",21540.94,"NA",283.693,139.084,89201952,"AF534061.1","Figure 4A","NA"]
["S073#","Y","N","N","N",1062.53,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S074#","Y","N","N","N",3118.43,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S075#","Y","N","N","N",22574.08,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S076#","Y","N","N","N",9431.66,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S077#","Y","N","N","N",20553.99,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S078#","Y","N","Y","Y",19215.46,"NA",286.486,132.948,70011842,"NC001526.4","Supplementary Figure 3A","Blood"]
["S079#","Y","N","N","N",2889.47,"NA","NA","NA","NA","AF534061.1","NA","NA"]
["S080#","Y","N","N","N",20873.67,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S081#","Y","N","N","N",12555.54,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S082#","Y","N","N","N",32169.47,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S083#","Y","N","N","N",5677.13,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S084#","Y","N","N","N",1938.82,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S085#","Y","N","N","N",4695.35,"NA","NA","NA","NA","AY262282.1","Supplementary Figure 3B","NA"]
["S086#","Y","N","N","N",75.27,"NA","NA","NA","NA","AF534061.1","NA","NA"]
["S087#","Y","N","N","N",3084.57,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S088#","Y","N","N","N",8509.08,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S089#","Y","N","N","N",9881.31,"NA","NA","NA","NA","HQ644236.1","Figure 4A","NA"]
["S090#","Y","N","N","N",18665.5,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S091#","Y","N","Y","Y",18649.41,"NA",267.107,146.673,62020530,"AF534061.1","Figure 4A","Blood"]
["S092#","Y","N","Y","Y",22412.59,"NA",268.887,142.102,67122188,"AF534061.1","Figure 4A","Blood"]
["S093#","Y","N","Y","Y",428.54,"NA",285.858,149.765,70599798,"AF534061.1","Figure 4A","Blood"]
["S094#","Y","N","Y","Y",10401.97,"NA",273.341,144.487,79011830,"AF534061.1","Figure 4A","Blood"]
["S095#","Y","N","N","N",988.03,"NA","NA","NA","NA","AY262282.1","Supplementary Figure 3B","NA"]
["S096#","Y","N","N","N",2241.75,"NA","NA","NA","NA","AF534061.1","Figure 4A","NA"]
["S097#","Y","N","Y","Y",744.88,"NA",282.349,158.744,71631686,"GQ180789.1","Supplementary Figure 3B","Blood"]
["S098#","Y","N","Y","N",10194.69,"NA",300.046,151.446,"NA","AF534061.1","Figure 4A","Blood"]
["S099#","Y","N","Y","Y",957.55,"NA",274.035,145.846,69538024,"AF534061.1","Figure 4A","Blood"]
["S100#","Y","N","Y","Y",15171.17,"NA",291.249,143.691,65077734,"AF534061.1","Figure 4A","Blood"]
["S101#","Y","N","Y","Y",2760.2,"NA",275.651,150.152,62429708,"AF534061.1","Figure 4A","Blood"]
["S102#","Y","N","Y","Y",17256.37,"NA",277.353,143.211,66221830,"HQ644236.1","Figure 4A","Normal epithelium"]
["S103#","Y","N","Y","Y",16279.76,"NA",311.463,174.819,89845432,"AF125673.1","Figure 4A","Blood"]
["S104#","Y","N","Y","Y",3741.18,"NA",302.193,188.377,91780004,"AF534061.1","Figure 4A","Blood"]
["S105#","Y","N","Y","N",16751.52,"NA",290.513,171.676,109558848,"AF534061.1","Figure 4A","Blood"]
["S106#","Y","N","Y","N",15928.07,"NA",295.118,181.78,"NA","AF125673.1","Figure 4A","Blood"]
["S107#","Y","N","Y","Y",19304.98,"NA",310.563,177.838,"NA","AF534061.1","Figure 4A","Normal epithelium"]
["S108#","Y","N","Y","Y",15884.52,"NA",273.075,192.319,79690040,"AF534061.1","Figure 4A","Blood"]
["S109#","Y","N","Y","Y",30283.7,"NA",309.108,159.252,71023118,"AF534061.1","Figure 4A","Blood"]
["S110#","Y","N","Y","Y",18856.19,"NA",304.151,169.129,106062420,"AF534061.1","Figure 4A","Blood"]
["S111#","Y","N","Y","Y",36.98,"NA",273.567,152.586,93744376,"AF534061.1","Figure 4A","Blood"]
["S112#","Y","N","Y","Y",20141.85,"NA",303.516,168.249,82495776,"AF534061.1","Figure 4A","Blood"]
[null,"\"Y\" indicates the sample received this detection method while \"N\" indicated the dample did not receive this method"]