Unique Name Descriptor Wide Peak Limits Peak Limits Region Limits q values Residual q values after removing segments shared with higher peaks Broad or Focal Amplitude Threshold TCGA-N5-A4RA-01A-11D-A28Q-01 TCGA-N5-A4RD-01A-11D-A28Q-01 TCGA-N5-A4RF-01A-11D-A28Q-01 TCGA-N5-A4RJ-01A-11D-A28Q-01 TCGA-N5-A4RM-01A-11D-A28Q-01 TCGA-N5-A4RN-01A-12D-A28Q-01 TCGA-N5-A4RO-01A-11D-A28Q-01 TCGA-N5-A4RS-01A-11D-A28Q-01 TCGA-N5-A4RT-01A-11D-A28Q-01 TCGA-N5-A4RU-01A-31D-A28Q-01 TCGA-N5-A4RV-01A-21D-A28Q-01 TCGA-N5-A59E-01A-11D-A28Q-01 TCGA-N5-A59F-01A-11D-A28Q-01 TCGA-N6-A4V9-01A-11D-A28Q-01 TCGA-N6-A4VC-01A-11D-A28Q-01 TCGA-N6-A4VD-01A-11D-A28Q-01 TCGA-N6-A4VE-01A-11D-A28Q-01 TCGA-N6-A4VF-01A-31D-A28Q-01 TCGA-N6-A4VG-01A-31D-A28Q-01 TCGA-N7-A4Y0-01A-12D-A28Q-01 TCGA-N7-A4Y5-01A-12D-A28Q-01 TCGA-N7-A4Y8-01A-11D-A28Q-01 TCGA-N7-A59B-01A-11D-A28Q-01 TCGA-N8-A4PI-01A-21D-A28Q-01 TCGA-N8-A4PL-01A-11D-A28Q-01 TCGA-N8-A4PM-01A-11D-A28Q-01 TCGA-N8-A4PN-01A-11D-A28Q-01 TCGA-N8-A4PO-01A-11D-A28Q-01 TCGA-N8-A4PP-01A-11D-A28Q-01 TCGA-N8-A4PQ-01A-11D-A28Q-01 TCGA-N8-A56S-01A-11D-A28Q-01 TCGA-N9-A4PZ-01A-22D-A28Q-01 TCGA-N9-A4Q1-01A-11D-A28Q-01 TCGA-N9-A4Q3-01A-11D-A28Q-01 TCGA-N9-A4Q4-01A-11D-A28Q-01 TCGA-N9-A4Q7-01A-11D-A28Q-01 TCGA-N9-A4Q8-01A-31D-A28Q-01 TCGA-NA-A4QV-01A-11D-A28Q-01 TCGA-NA-A4QW-01A-11D-A28Q-01 TCGA-NA-A4QX-01A-11D-A28Q-01 TCGA-NA-A4QY-01A-11D-A28Q-01 TCGA-NA-A4R0-01A-11D-A28Q-01 TCGA-NA-A4R1-01A-11D-A28Q-01 TCGA-NA-A5I1-01A-21D-A28Q-01 TCGA-ND-A4W6-01A-11D-A28Q-01 TCGA-ND-A4WA-01A-12D-A28Q-01 TCGA-ND-A4WC-01A-21D-A28Q-01 TCGA-ND-A4WF-01A-11D-A28Q-01 TCGA-NF-A4WU-01A-11D-A28Q-01 TCGA-NF-A4WX-01A-11D-A28Q-01 TCGA-NF-A4X2-01A-11D-A28Q-01 TCGA-NF-A5CP-01A-12D-A28Q-01 TCGA-NG-A4VU-01A-11D-A28Q-01 TCGA-NG-A4VW-01A-11D-A28Q-01 TCGA-QM-A5NM-01A-11D-A28Q-01 TCGA-QN-A5NN-01A-11D-A28Q-01 Amplification Peak 1 1q22 chr1:155870519-156017401(probes 70304:70347) chr1:155900136-155922194(probes 70315:70322) chr1:154375278-156447940(probes 69587:70546) 3.9555e-06 3.9555e-06 0: t<0.1; 1: 0.10.9 1 1 1 0 1 2 0 2 1 2 1 1 1 1 1 0 1 1 2 0 0 1 2 0 1 2 2 2 1 0 2 2 2 1 1 1 1 1 0 0 1 1 2 0 0 0 0 2 0 1 1 1 2 1 1 2 Amplification Peak 2 2p14 chr2:68076781-68330783(probes 168123:168255) chr2:68198824-68227513(probes 168173:168193) chr2:68198824-68233824(probes 168173:168196) 0.23226 0.23226 0: t<0.1; 1: 0.10.9 0 0 0 1 0 0 0 2 0 1 0 1 1 0 1 0 0 0 0 0 1 2 2 0 1 0 0 1 1 1 1 0 1 2 1 0 0 2 2 0 1 1 2 0 1 1 0 0 1 2 0 1 2 0 0 0 Amplification Peak 3 2q13 chr2:113940840-114236564(probes 187897:188005) chr2:113957708-114019128(probes 187905:187930) chr2:113954880-114265074(probes 187904:188007) 0.082234 0.082234 0: t<0.1; 1: 0.10.9 2 0 0 1 0 0 0 1 0 1 0 0 1 0 1 0 0 0 2 0 1 2 1 0 1 2 1 1 1 0 2 2 0 0 1 1 0 2 2 0 1 1 2 0 0 1 0 0 1 1 0 1 2 0 0 0 Amplification Peak 4 3p25.1 chr3:13643232-13895816(probes 266216:266394) chr3:13812874-13820612(probes 266336:266340) chr3:13637574-14008703(probes 266212:266448) 0.010479 0.010479 0: t<0.1; 1: 0.10.9 2 0 0 0 0 0 0 0 0 2 2 0 1 0 0 0 0 0 2 0 1 0 0 0 0 0 1 2 0 2 0 0 0 1 0 0 1 2 0 1 0 0 0 1 1 1 0 0 0 0 1 0 1 1 0 1 Amplification Peak 5 3q26.2 chr3:168526502-168800760(probes 350400:350541) chr3:168693090-168797062(probes 350499:350539) chr3:166935890-198022430(probes 349556:365354) 5.5483e-09 5.5483e-09 0: t<0.1; 1: 0.10.9 2 2 0 1 0 1 1 0 2 0 0 2 1 0 1 0 2 0 0 0 2 1 2 0 1 0 2 2 1 1 1 2 2 2 2 0 2 2 1 1 0 1 2 0 0 2 0 2 0 2 1 0 2 1 1 1 Amplification Peak 6 4p16.3 chr4:1797980-1834421(probes 365580:365596) chr4:1798030-1816689(probes 365581:365584) chr4:1297570-2106835(probes 365488:365680) 3.6225e-07 3.6225e-07 0: t<0.1; 1: 0.10.9 2 0 0 0 0 0 1 2 2 1 2 0 0 0 0 0 2 1 0 0 0 0 1 0 0 2 2 0 0 1 0 2 1 0 2 0 1 1 0 1 2 0 1 2 1 0 1 0 0 2 0 0 1 0 0 0 Amplification Peak 7 5p13.2 chr5:36321031-36701657(probes 488305:488599) chr5:36419547-36579796(probes 488385:488498) chr5:36342711-36662888(probes 488319:488568) 0.048609 0.048609 0: t<0.1; 1: 0.10.9 2 0 0 0 1 1 0 0 2 1 0 2 0 0 0 0 1 1 2 0 2 0 0 0 0 0 1 1 1 1 0 1 0 0 0 0 2 0 2 2 0 1 0 2 1 0 0 0 0 2 0 2 2 1 0 1 Amplification Peak 8 6p24.2 chr6:11367262-11448879(probes 574790:574842) chr6:11414338-11448422(probes 574824:574841) chr6:11325934-11685761(probes 574755:575011) 0.0044967 0.0044967 0: t<0.1; 1: 0.10.9 1 0 2 1 2 2 0 0 1 2 1 2 1 0 1 0 2 1 1 1 0 0 0 0 1 2 1 2 2 0 0 1 2 2 1 1 2 2 1 1 0 1 0 0 1 1 0 2 0 2 2 0 2 0 0 2 Amplification Peak 9 8p11.21 chr8:42725564-47463861(probes 769057:769128) chr8:42727453-42745876(probes 769058:769061) chr8:37892293-61090894(probes 766313:776724) 4.7072e-06 0.00033359 0: t<0.1; 1: 0.10.9 1 1 1 0 1 2 0 0 1 2 0 2 2 0 0 0 1 1 1 2 2 1 1 1 0 1 0 2 0 0 0 0 1 1 0 0 2 0 2 0 2 1 2 2 0 0 0 0 0 1 1 0 2 1 2 2 Amplification Peak 10 8q11.23 chr8:48357987-57188018(probes 769455:774279) chr8:55128561-55382066(probes 773039:773241) chr8:37892293-61090894(probes 766313:776724) 4.2724e-06 0.0018108 0: t<0.1; 1: 0.10.9 2 1 1 0 1 1 0 0 0 2 1 2 2 0 0 0 1 1 1 2 2 1 1 1 0 1 0 2 2 2 0 2 0 0 2 0 2 1 1 2 2 1 0 2 2 0 0 0 0 1 1 2 2 1 2 2 Amplification Peak 11 8q24.21 chr8:128630217-129102510(probes 815644:815980) chr8:128837441-128853417(probes 815798:815805) chr8:127942684-130062992(probes 815149:816616) 4.9268e-06 0.0022538 0: t<0.1; 1: 0.10.9 0 1 1 0 2 0 0 0 1 2 2 2 0 1 1 0 1 1 1 2 2 1 1 1 0 2 0 2 1 2 2 1 0 0 2 1 2 0 1 2 2 1 2 2 2 1 0 2 0 2 1 2 2 2 2 2 Amplification Peak 12 8q24.21 chr8:129548135-129565078(probes 816346:816363) chr8:129548139-129565045(probes 816347:816362) chr8:127942684-130062992(probes 815149:816616) 1.1742e-08 0.0018451 0: t<0.1; 1: 0.10.9 0 1 2 0 2 0 0 0 1 2 2 1 0 1 1 2 1 1 1 2 2 1 1 2 0 2 0 2 2 2 0 1 0 0 2 0 2 0 0 2 2 1 2 2 2 1 0 2 0 2 1 2 2 1 2 2 Amplification Peak 13 10q22.2 chr10:76500842-77828069(probes 936782:937582) chr10:77071496-77091549(probes 937080:937087) chr10:76490337-78399850(probes 936777:938003) 0.0061735 0.0061735 0: t<0.1; 1: 0.10.9 0 0 0 2 0 1 0 0 0 0 1 1 1 0 0 0 1 0 1 1 1 0 1 2 1 0 1 1 0 1 0 1 1 0 0 0 0 2 2 0 0 2 0 2 0 1 0 1 0 0 0 0 1 1 0 1 Amplification Peak 14 11q13.1 chr11:63669372-63995301(probes 1008244:1008348) chr11:63798693-63829504(probes 1008268:1008273) chr11:63583208-64162683(probes 1008222:1008402) 0.0089022 0.0089022 0: t<0.1; 1: 0.10.9 0 0 0 0 1 0 0 0 1 2 1 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 1 0 1 0 2 0 0 1 2 2 1 0 1 0 0 1 0 2 0 0 0 2 0 2 1 0 1 0 0 0 Amplification Peak 15 12q12 chr12:44445547-46909264(probes 1072835:1074233) chr12:45379740-45628957(probes 1073368:1073503) chr12:45309616-46049768(probes 1073337:1073769) 0.07307 0.11021 0: t<0.1; 1: 0.10.9 0 1 0 0 1 0 1 0 1 1 0 2 0 1 0 0 1 0 0 0 0 1 0 0 0 1 1 1 1 0 1 0 1 2 1 1 0 0 1 0 0 2 2 0 0 0 0 0 0 1 0 0 0 0 0 0 Amplification Peak 16 12q15 chr12:69164647-71445992(probes 1086953:1088507) chr12:71176062-71211436(probes 1088309:1088332) chr12:70983414-71342269(probes 1088176:1088417) 0.052337 0.20407 0: t<0.1; 1: 0.10.9 0 0 0 0 1 0 0 0 1 0 0 2 0 0 0 0 1 0 1 0 1 0 0 0 2 1 0 0 1 0 1 0 1 0 1 1 0 2 0 0 0 0 0 0 1 0 0 2 0 1 0 0 0 0 0 0 Amplification Peak 17 13q31.3 chr13:90659392-96245151(probes 1164687:1168354) chr13:91995937-92010656(probes 1165485:1165487) chr13:90660063-96254944(probes 1164688:1168356) 0.0028198 0.0028198 0: t<0.1; 1: 0.10.9 0 2 1 0 0 1 1 0 0 0 2 2 1 0 0 0 0 0 0 0 1 1 0 0 2 2 1 0 0 0 0 0 0 1 1 0 1 2 1 1 2 1 0 0 1 1 0 0 0 2 1 0 1 0 0 0 Amplification Peak 18 16p11.2 chr16:30907404-30943981(probes 1287125:1287137) chr16:30910330-30918486(probes 1287126:1287127) chr16:30320016-46515526(probes 1286946:1287521) 0.0041649 0.0041649 0: t<0.1; 1: 0.10.9 0 0 0 1 1 2 0 0 0 2 0 2 0 0 1 0 0 0 1 0 0 0 0 0 0 0 1 0 0 0 1 0 2 0 0 0 0 0 2 1 1 1 1 0 0 0 0 1 0 1 0 0 1 0 1 1 Amplification Peak 19 17q12 chr17:37822312-37969982(probes 1329279:1329384) chr17:37839410-37876933(probes 1329290:1329337) chr17:37671491-38023440(probes 1329217:1329396) 0.0049012 0.066674 0: t<0.1; 1: 0.10.9 1 1 0 1 0 0 0 0 2 1 1 0 0 0 2 0 1 1 0 0 1 0 2 1 1 2 1 0 1 2 0 0 0 0 1 1 0 0 1 0 1 0 1 2 1 2 0 0 1 1 0 0 0 0 0 0 Amplification Peak 20 17q25.1 chr17:73581977-73764636(probes 1347981:1348046) chr17:73698681-73730482(probes 1348032:1348042) chr17:73018624-74285610(probes 1347755:1348227) 0.0006294 0.0038434 0: t<0.1; 1: 0.10.9 0 1 0 1 1 2 0 2 0 1 1 0 0 2 0 0 2 1 1 0 1 1 2 0 0 1 1 2 0 1 0 2 2 0 1 1 2 0 1 0 1 0 2 0 1 2 0 0 2 2 1 0 1 0 0 0 Amplification Peak 21 19p13.2 chr19:10492041-10767789(probes 1396725:1396827) chr19:10495381-10508826(probes 1396726:1396729) chr19:10041108-11216573(probes 1396553:1397017) 0.00085866 0.00085866 0: t<0.1; 1: 0.10.9 1 0 0 0 0 0 0 0 0 0 2 0 0 0 1 0 2 0 2 0 1 0 2 0 0 0 0 1 1 0 0 2 0 1 1 0 2 0 0 0 1 0 0 0 0 0 0 0 0 2 1 1 2 0 1 0 Amplification Peak 22 19q12 chr19:30712323-30831808(probes 1404053:1404128) chr19:30714973-30723313(probes 1404054:1404054) chr19:24052993-41318305(probes 1402195:1410012) 8.1133e-22 8.1133e-22 0: t<0.1; 1: 0.10.9 2 0 0 2 2 1 2 2 2 0 1 2 0 2 1 0 1 0 1 0 2 2 1 0 2 1 2 1 2 1 2 2 2 2 2 0 1 2 2 2 1 1 2 2 2 2 0 2 1 1 1 1 2 0 1 1 Amplification Peak 23 20q11.21 chr20:29983442-30369453(probes 1433806:1433972) chr20:30190878-30221421(probes 1433895:1433901) chr20:26197900-32514235(probes 1433733:1435055) 4.3292e-10 0.00027546 0: t<0.1; 1: 0.10.9 2 2 1 2 1 1 2 2 2 1 1 2 1 1 0 0 1 1 2 1 1 1 1 2 1 2 2 1 0 1 2 1 2 1 2 1 1 2 1 2 2 1 2 1 1 2 0 2 0 1 0 1 2 0 1 0 Amplification Peak 24 20q11.21 chr20:30535307-30882795(probes 1434050:1434207) chr20:30664375-30756913(probes 1434113:1434151) chr20:26197900-32514235(probes 1433733:1435055) 2.6112e-12 6.5998e-06 0: t<0.1; 1: 0.10.9 1 1 1 2 1 1 2 2 1 2 1 2 1 1 0 0 2 1 2 1 1 1 1 2 1 2 2 1 1 1 2 2 2 0 2 1 1 2 1 2 2 1 1 2 1 2 0 1 0 1 0 1 2 0 1 0 Amplification Peak 25 Xp11.21 chrX:55567455-56241386(probes 1513579:1513879) chrX:55648031-55720128(probes 1513612:1513630) chrX:55567933-56242612(probes 1513580:1513881) 0.039793 0.039793 0: t<0.1; 1: 0.10.9 1 0 0 1 2 2 2 2 1 2 1 2 1 0 0 0 0 0 0 1 2 0 1 1 0 0 0 0 0 0 0 2 1 1 0 0 1 1 2 0 0 1 0 0 1 0 0 0 0 1 1 0 2 1 0 1 Deletion Peak 1 1p36.21 chr1:1-19401404(probes 1:8683) chr1:15478067-15548635(probes 6598:6657) chr1:1-17394637(probes 1:7249) 0.0051125 0.0051125 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 0 0 0 0 0 0 0 0 0 1 0 1 1 1 1 0 1 0 0 0 0 0 0 0 0 1 1 1 1 1 1 1 1 0 0 0 0 0 0 0 0 1 0 0 0 1 0 0 0 0 0 0 1 1 Deletion Peak 2 2q22.1 chr2:140708948-143637838(probes 201131:202972) chr2:140976294-142894275(probes 201265:202535) chr2:141809228-142062177(probes 201766:201912) 2.139e-05 2.139e-05 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 0 0 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0 1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 1 0 1 0 0 0 0 1 0 1 0 0 1 0 0 0 0 0 Deletion Peak 3 3p14.2 chr3:52578475-61547330(probes 287974:293008) chr3:59701447-61026630(probes 292625:292626) chr3:47084400-93740691(probes 285868:310076) 4.5515e-05 4.5515e-05 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 0 1 0 1 1 1 0 0 1 1 1 1 0 1 0 1 0 1 1 1 1 1 1 0 1 1 0 1 1 1 1 1 1 0 1 0 1 1 0 0 0 0 0 0 1 1 1 1 1 1 0 1 0 Deletion Peak 4 3q13.31 chr3:116297365-118620828(probes 322504:324135) chr3:116568608-116572991(probes 322741:322742) chr3:116160980-116940208(probes 322412:323032) 1.4755e-07 1.4755e-07 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 1 0 1 0 1 0 1 1 0 1 1 0 0 0 0 0 0 0 0 1 0 1 1 1 0 1 0 0 1 0 0 0 0 1 0 0 1 0 1 0 0 0 0 0 0 1 1 0 0 1 1 0 1 0 Deletion Peak 5 4q22.1 chr4:90844993-93240505(probes 414969:416114) chr4:91035787-92525194(probes 415016:415801) chr4:91747665-91750453(probes 415409:415410) 0.00032325 0.00059727 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 1 1 1 1 0 0 1 1 0 1 1 1 0 1 0 1 0 1 1 0 0 1 0 0 1 1 1 1 1 1 0 1 0 0 1 1 1 1 0 0 1 1 1 0 1 0 1 1 0 1 0 1 1 Deletion Peak 6 4q34.3 chr4:179280062-184209734(probes 463152:465448) chr4:183087331-183091269(probes 465109:465110) chr4:181521852-184215831(probes 464298:465451) 9.3416e-05 0.0023178 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 1 1 0 1 0 1 1 0 1 1 1 1 0 1 0 0 0 1 1 0 0 1 0 0 1 1 1 1 1 1 1 1 0 0 1 1 1 1 0 1 1 1 1 0 1 0 1 0 0 1 0 1 1 Deletion Peak 7 5q12.1 chr5:58151172-59818245(probes 498350:499384) chr5:58260298-59818245(probes 498428:499384) chr5:50124857-86593709(probes 493303:513634) 1.7147e-07 1.7147e-07 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 0 0 0 0 1 0 0 1 1 0 1 0 0 1 0 0 0 1 0 1 1 1 0 1 1 0 1 0 1 0 0 1 0 1 0 1 0 0 0 0 1 1 1 0 1 0 1 1 1 1 0 1 0 0 0 Deletion Peak 8 6q26 chr6:161693099-163153207(probes 659136:659782) chr6:161767520-163153207(probes 659177:659782) chr6:162132257-162136708(probes 659480:659481) 0.059335 0.061353 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 0 0 0 1 0 1 0 1 0 0 0 1 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 1 1 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 Deletion Peak 9 7q11.22 chr7:69000716-70601215(probes 699077:699979) chr7:69054978-70260048(probes 699100:699816) chr7:69747461-69752140(probes 699459:699460) 0.12048 0.11618 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 0 0 1 0 0 0 0 0 1 0 0 1 0 1 0 1 0 0 0 1 0 0 0 0 1 1 0 0 1 0 0 0 0 0 0 1 0 0 0 0 0 0 0 1 0 0 0 1 0 0 0 0 0 0 0 Deletion Peak 10 7q36.2 chr7:105676846-159138663(probes 716752:744518) chr7:150925815-159138663(probes 740737:744518) chr7:150925815-159138663(probes 740737:744518) 0.10142 0.1027 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 0 0 0 0 0 0 0 1 1 1 1 1 0 1 0 1 0 0 0 1 0 0 0 0 1 1 1 0 1 0 0 1 1 0 0 1 0 1 0 0 0 0 1 1 0 0 0 1 0 0 0 1 0 0 0 Deletion Peak 11 8p21.3 chr8:1-29007074(probes 744519:761258) chr8:23240651-23322810(probes 757264:757312) chr8:18082355-26742583(probes 753583:759741) 0.0031922 0.0031282 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 0 0 1 0 1 1 0 1 1 0 1 1 0 1 0 0 0 1 0 1 0 0 0 0 0 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 0 1 0 0 0 1 1 0 0 1 Deletion Peak 12 9p23 chr9:7887952-12687261(probes 829910:831879) chr9:8310705-10619051(probes 830146:831475) chr9:9212436-9216979(probes 830811:830812) 0.0109 0.010603 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 0 0 1 1 0 0 1 0 0 1 1 1 1 0 0 1 1 1 0 1 1 0 0 0 1 1 1 0 0 1 0 1 1 1 1 1 1 1 1 1 1 0 0 0 1 0 0 0 1 1 1 1 0 1 1 Deletion Peak 13 9q21.13 chr9:35113248-141213431(probes 846536:893297) chr9:77460004-77708217(probes 853221:853369) chr9:77460235-77476385(probes 853222:853223) 0.089783 0.18085 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 0 1 0 0 1 0 0 1 0 1 1 1 1 1 0 1 1 1 0 1 1 1 0 0 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 0 1 0 1 1 0 1 0 1 0 1 1 0 1 1 Deletion Peak 14 9q33.3 chr9:80943738-141213431(probes 855691:893297) chr9:129982880-130157933(probes 888036:888153) chr9:130073747-130074594(probes 888095:888096) 0.074222 0.10651 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 0 0 1 0 1 0 0 1 0 1 1 1 1 1 0 0 1 1 0 1 1 1 0 0 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 0 0 1 1 0 1 0 1 1 1 1 0 1 1 Deletion Peak 15 10q23.31 chr10:76992208-135534747(probes 937043:973790) chr10:89617402-89735907(probes 945234:945423) chr10:89662107-89788681(probes 945300:945470) 0.1218 0.11618 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 0 1 1 0 1 0 1 0 0 0 0 1 0 0 1 1 0 0 0 1 0 1 0 1 0 0 0 0 0 1 0 0 1 1 1 1 0 1 0 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 Deletion Peak 16 11q14.1 chr11:78125247-104168773(probes 1014559:1030717) chr11:83165646-85348794(probes 1017933:1019107) chr11:84068601-84188661(probes 1018521:1018522) 0.061343 0.097418 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 0 1 1 1 0 0 0 1 1 1 1 1 0 0 0 1 0 1 0 0 0 1 0 0 1 0 1 0 1 0 0 0 0 1 1 0 0 0 1 0 1 1 1 0 1 0 1 0 0 0 0 1 0 Deletion Peak 17 11q23.2 chr11:102666317-135006516(probes 1029866:1050596) chr11:114267647-114287191(probes 1036922:1036930) chr11:114279387-114281498(probes 1036927:1036928) 0.086462 0.13008 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 0 1 0 1 0 0 0 1 1 1 1 1 0 0 0 1 0 1 0 0 0 1 0 0 1 1 0 0 1 0 0 0 0 0 1 0 0 0 1 1 1 1 1 0 1 0 1 1 0 0 0 1 0 Deletion Peak 18 12q23.1 chr12:99476105-100107912(probes 1105444:1105754) chr12:99119341-100380401(probes 1105236:1105896) chr12:99427291-99838089(probes 1105419:1105657) 5.7219e-05 9.3416e-05 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 0 0 0 1 0 0 1 0 1 0 1 1 0 0 0 1 0 0 0 0 1 0 1 0 0 0 1 1 0 0 0 0 1 0 0 1 0 1 1 1 1 1 0 0 0 0 0 1 0 1 0 0 0 0 1 Deletion Peak 19 12q24.31 chr12:120875791-133851895(probes 1118515:1124058) chr12:121160616-121180993(probes 1118649:1118659) chr12:121110007-123354544(probes 1118621:1119609) 0.033261 0.14808 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 0 1 0 0 0 1 1 0 0 1 1 0 0 0 0 0 0 0 0 1 0 1 1 0 0 0 1 0 0 0 1 1 0 0 1 0 1 1 1 1 1 0 0 0 0 0 1 0 0 0 0 0 0 1 Deletion Peak 20 13q12.11 chr13:20795889-23727991(probes 1124564:1126190) chr13:21342910-21489860(probes 1124688:1124754) chr13:21183705-23530218(probes 1124597:1126054) 0.016422 0.052055 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 1 0 1 1 1 0 1 1 1 0 1 0 0 0 1 1 1 0 0 0 1 1 0 0 0 1 1 0 1 1 0 0 1 1 0 1 0 1 1 0 0 1 0 0 0 1 1 0 1 1 0 0 1 1 Deletion Peak 21 13q14.2 chr13:48875329-49152025(probes 1142564:1142829) chr13:48875753-49060837(probes 1142565:1142781) chr13:48173969-49982095(probes 1142160:1143312) 4.9801e-05 0.0002993 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 1 0 1 1 1 0 1 1 1 0 0 0 0 0 1 1 1 0 1 0 1 1 0 0 0 1 1 0 1 1 1 0 0 1 1 1 0 1 0 1 1 0 0 0 0 1 1 0 1 1 0 1 1 1 Deletion Peak 22 14q21.1 chr14:39652220-44977111(probes 1190729:1192964) chr14:39733894-39859149(probes 1190767:1190826) chr14:39786160-39802812(probes 1190797:1190798) 0.11381 0.11593 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 0 1 1 0 1 0 1 0 0 1 1 0 1 0 0 0 1 0 1 0 1 1 1 0 0 1 1 1 1 0 1 0 1 1 0 0 0 1 0 1 0 1 1 1 0 0 1 0 0 0 1 0 0 0 Deletion Peak 23 15q15.1 chr15:28096454-40886552(probes 1232146:1238032) chr15:40377093-40403060(probes 1237777:1237787) chr15:1-64874580(probes 1229502:1252539) 4.9548e-10 4.9548e-10 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 1 1 1 1 0 1 1 0 1 0 1 0 0 1 1 1 0 1 1 1 1 1 1 1 1 1 1 0 0 1 0 1 1 1 1 1 1 1 0 1 1 0 1 0 1 1 1 1 1 1 0 1 1 Deletion Peak 24 16p13.3 chr16:1-1834723(probes 1273715:1273965) chr16:711906-1394506(probes 1273725:1273818) chr16:719934-731770(probes 1273727:1273728) 0.13407 0.13395 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 1 0 1 1 1 0 0 1 0 1 1 1 1 0 1 1 0 0 1 1 1 1 1 1 0 1 1 1 0 0 1 0 1 1 1 1 1 0 1 0 1 1 0 0 0 1 0 1 1 0 0 0 0 0 Deletion Peak 25 16q23.1 chr16:78098006-79299841(probes 1306686:1307751) chr16:78129058-79247026(probes 1306717:1307722) chr16:75828511-90354753(probes 1304925:1314214) 0.00018522 0.000172 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 1 1 0 1 1 1 1 0 1 1 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 1 1 0 0 0 0 0 1 1 0 1 0 1 1 1 0 1 0 0 1 0 1 1 1 1 0 0 1 Deletion Peak 26 17p13.1 chr17:8449768-25626166(probes 1317709:1323869) chr17:8920141-9149144(probes 1318033:1318168) chr17:8889658-9349729(probes 1318019:1318318) 0.044844 0.043513 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 0 1 0 1 0 1 1 0 0 0 1 1 1 1 0 1 1 1 1 1 0 0 1 1 1 1 1 1 1 1 1 0 1 1 0 1 1 1 0 1 0 Deletion Peak 27 17q21.31 chr17:13490949-47779174(probes 1321129:1333408) chr17:41319825-41522092(probes 1330991:1330995) chr17:41338488-41522092(probes 1330994:1330995) 0.19877 0.20448 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 0 0 1 0 1 0 1 0 0 1 1 1 1 0 0 0 1 0 1 1 1 0 0 1 0 1 0 1 1 1 1 0 1 0 1 0 0 1 0 1 1 0 0 0 0 0 0 0 0 1 1 0 1 0 Deletion Peak 28 18q22.2 chr18:47089955-78077248(probes 1376299:1393325) chr18:67944549-67998976(probes 1389006:1389026) chr18:67850775-68007620(probes 1388956:1389037) 0.12533 0.1218 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 0 1 1 1 1 0 0 0 0 1 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 1 1 1 1 0 1 1 1 0 1 0 1 1 1 1 0 1 0 0 1 1 0 0 1 Deletion Peak 29 19p13.3 chr19:1-4675277(probes 1393326:1394300) chr19:1-753949(probes 1393326:1393398) chr19:1-10269568(probes 1393326:1396652) 5.1843e-14 3.9072e-05 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 0 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 0 1 0 0 0 0 Deletion Peak 30 19p13.3 chr19:1-4675277(probes 1393326:1394300) chr19:2094593-2166993(probes 1393658:1393680) chr19:1-10269568(probes 1393326:1396652) 8.0449e-14 4.217e-05 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0 1 0 1 0 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 0 1 0 0 0 0 Deletion Peak 31 19q13.33 chr19:37145637-59128983(probes 1408055:1417019) chr19:48206763-49274867(probes 1412731:1413217) chr19:48178259-49288661(probes 1412722:1413222) 0.12448 0.1218 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 0 0 0 1 0 1 0 1 0 1 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 1 0 1 0 1 0 1 0 1 0 0 1 1 1 0 1 0 0 0 0 0 1 0 0 0 0 1 0 0 0 Deletion Peak 32 20p12.1 chr20:14301156-16252980(probes 1425760:1426924) chr20:13965126-16036135(probes 1425595:1426710) chr20:15467744-15471214(probes 1426153:1426154) 0.0036614 0.003526 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 1 0 0 1 0 0 0 0 0 0 1 0 1 0 0 0 1 0 Deletion Peak 33 22q13.31 chr22:41958863-51304566(probes 1486323:1491174) chr22:45590413-45829559(probes 1488582:1488719) chr22:41979972-51304566(probes 1486324:1491174) 0.0013619 0.0014203 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 0 1 1 1 1 1 1 1 1 0 1 1 0 1 1 1 1 0 1 1 1 1 1 1 0 1 1 0 1 1 0 0 1 1 0 1 0 1 0 1 1 1 0 1 1 1 0 1 1 0 1 0 1 0 Deletion Peak 34 Xp21.1 chrX:32117084-32611359(probes 1504161:1504466) chrX:30870233-34033668(probes 1503500:1504722) chrX:31794349-32088546(probes 1503916:1504133) 2.7242e-06 2.7242e-06 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 0 1 0 0 0 1 0 1 1 1 0 0 0 1 0 0 0 0 0 0 1 0 1 1 0 0 0 1 1 0 1 1 0 0 0 0 0 0 0 1 0 0 1 0 1 1 0 1 0 0 0 0 0 0 0 0 Deletion Peak 35 Xq25 chrX:120183502-155270560(probes 1538424:1553684) chrX:122309030-122628683(probes 1539418:1539635) chrX:122302263-122591153(probes 1539414:1539615) 0.063955 0.063817 0: t>-0.1; 1: -0.1>t> -1.3; 2: t< -1.3 1 1 1 0 1 0 1 0 1 0 0 1 1 1 1 0 0 0 0 0 1 0 0 0 0 0 0 0 1 0 1 0 1 1 0 0 1 1 1 0 0 0 1 0 0 0 0 0 0 0 1 0 1 0 1 1 Amplification Peak 1 - CN values 1q22 chr1:155870519-156017401(probes 70304:70347) chr1:155900136-155922194(probes 70315:70322) chr1:154375278-156447940(probes 69587:70546) 3.9555e-06 3.9555e-06 Actual Copy Change Given 0.20244 0.29708 0.16205 0.055943 0.32801 1.1663 0.067661 1.1009 0.49694 1.7252 0.65443 0.48871 0.28327 0.1345 0.54277 0.0051359 0.58309 0.33444 2.6865 -0.0051315 -0.40809 0.77022 1.9343 0.054945 0.49303 2.2563 1.2447 1.3345 0.24653 0.061651 1.2319 1.8256 2.8706 0.69746 0.44765 0.37677 0.65479 0.53854 0 -0.0041546 0.5989 0.24871 3.6108 -0.25055 -0.096704 0 0.00069327 1.217 0.0558 0.72811 0.78369 0.17875 3.1032 0.76255 0.63938 2.2868 Amplification Peak 2 - CN values 2p14 chr2:68076781-68330783(probes 168123:168255) chr2:68198824-68227513(probes 168173:168193) chr2:68198824-68233824(probes 168173:168196) 0.23226 0.23226 Actual Copy Change Given 0.0024969 0.05694 0.067375 0.44155 -0.072351 -0.0099249 0.032281 1.8254 -0.0077801 0.56917 0.0058309 0.72074 0.46656 0.066372 0.54718 -0.00041585 -0.072541 -0.051622 0 0.0056919 0.33133 1.7244 2.6069 -0.21317 0.5135 0.099142 0 0.7562 0.29787 0.29772 0.1682 0.075847 0.71848 1.3559 0.3738 0.016202 -0.01037 1.0727 1.469 -0.069198 0.51089 0.21868 2.2257 0 0.34518 0.7802 -0.00013862 0.024408 0.65406 2.3298 -0.30334 0.7336 1.3233 -0.016429 0.018103 0.099724 Amplification Peak 3 - CN values 2q13 chr2:113940840-114236564(probes 187897:188005) chr2:113957708-114019128(probes 187905:187930) chr2:113954880-114265074(probes 187904:188007) 0.082234 0.082234 Actual Copy Change Given 3.5343 0.05694 0.067375 0.44155 -0.072351 -0.0099249 0.0030522 0.8685 -0.039986 0.56917 -0.0027917 -0.020138 0.44282 0.065942 0.25293 -0.00041585 -0.092081 -0.051622 1.2414 0.0056919 0.34934 1.7735 0.4321 -0.21317 0.5135 1.1022 0.66993 0.55156 0.20167 0.019783 1.002 1.0769 -0.0088526 -0.054016 0.3738 0.12859 -0.036674 1.3141 1.1022 -0.069198 0.5102 0.21253 1.0572 0 0.036023 0.7802 -0.00013862 0.014749 0.65406 0.60142 -0.30334 0.14712 1.3736 -0.016429 -0.0041546 0.099724 Amplification Peak 4 - CN values 3p25.1 chr3:13643232-13895816(probes 266216:266394) chr3:13812874-13820612(probes 266336:266340) chr3:13637574-14008703(probes 266212:266448) 0.010479 0.010479 Actual Copy Change Given 0.91663 -0.83777 -0.33416 -0.026304 0.086377 -0.020687 0.031436 0.0090249 0.024778 2.54 1.1722 0.084643 0.14995 -0.90624 -0.55307 0.0084743 0.087245 -0.065616 2.4009 -0.0071958 0.37801 -0.39553 -0.65333 -0.099604 -0.60526 -0.40628 0.61407 1.9775 -0.31354 2.4794 -0.16013 -0.42451 -0.61662 0.66604 -0.72615 -0.15052 0.29342 2.3663 -0.063569 0.16775 -0.58716 -0.019177 -1.0142 0.10074 0.12491 0.66769 0.001803 0.053521 -0.43007 -0.16879 0.57541 -0.10224 0.81649 0.36674 -0.94327 0.37874 Amplification Peak 5 - CN values 3q26.2 chr3:168526502-168800760(probes 350400:350541) chr3:168693090-168797062(probes 350499:350539) chr3:166935890-198022430(probes 349556:365354) 5.5483e-09 5.5483e-09 Actual Copy Change Given 1.0274 0.91642 -0.31249 0.56223 0.039054 0.62224 0.72962 0.013486 1.2616 -0.014916 -0.037503 2.9035 0.37216 0.049824 0.54577 -0.0084385 1.185 -0.061052 -0.056038 -0.005799 1.1911 0.51821 3.6569 -0.1763 0.27096 0.042874 1.2723 0.95199 0.62407 0.86334 0.19466 1.3237 3.0214 1.3276 3.1465 0.0029133 3.6569 1.6371 0.39031 0.60901 0.011121 0.4832 1.0821 0.097106 -0.072519 2.334 0.001803 1.6384 -0.43007 2.5297 0.17211 -0.20908 3.6569 0.35561 0.71528 0.36182 Amplification Peak 6 - CN values 4p16.3 chr4:1797980-1834421(probes 365580:365596) chr4:1798030-1816689(probes 365581:365584) chr4:1297570-2106835(probes 365488:365680) 3.6225e-07 3.6225e-07 Actual Copy Change Given 1.3952 -0.33514 -0.33699 -0.5852 -0.16447 0.034254 0.22592 1.1771 2.9118 0.62806 1.2702 -0.017803 -0.3369 -0.028901 -0.49507 -0.010784 3.3144 0.33735 -0.49403 -0.035857 -0.30809 -0.36997 0.47581 0.0024969 -0.18519 2.0379 1.293 -0.4709 0.082476 0.14935 -0.19437 2.7377 0.61407 -0.59517 3.6244 -0.057385 0.387 0.53011 -0.48188 0.20947 1.0999 0.013772 0.56756 3.6569 0.48251 -0.15504 0.87787 -0.67159 0.037924 1.9247 -0.6146 -0.37775 0.70532 -0.020138 -0.47173 -0.26588 Amplification Peak 7 - CN values 5p13.2 chr5:36321031-36701657(probes 488305:488599) chr5:36419547-36579796(probes 488385:488498) chr5:36342711-36662888(probes 488319:488568) 0.048609 0.048609 Actual Copy Change Given 1.1085 0.09217 -0.0070576 -0.005814 0.14251 0.55 0.0091705 -0.010652 2.1358 0.60214 -0.039937 1.1681 0.047622 0.093911 -0.68205 -0.013677 0.34665 0.20667 2.5751 -0.039394 1.8519 -0.54699 -0.073877 0.018523 0.010703 -0.41179 0.14459 0.64612 0.35447 0.83078 0.048972 0.62351 -0.0051977 0.0073609 -0.066252 -0.04983 0.95509 -0.012162 1.7428 1.0375 -0.013953 0.24887 0.035524 1.9087 0.57219 -0.1377 -0.0011087 0.094927 0.064654 3.3181 0.0351 1.8365 1.5164 0.34892 0 0.84218 Amplification Peak 8 - CN values 6p24.2 chr6:11367262-11448879(probes 574790:574842) chr6:11414338-11448422(probes 574824:574841) chr6:11325934-11685761(probes 574755:575011) 0.0044967 0.0044967 Actual Copy Change Given 0.41028 -0.93157 0.90395 0.45635 1.5079 2.2803 0.040468 -0.0063731 0.67523 1.4875 0.66401 0.92959 0.2858 -0.084262 0.5102 0.015028 1.7837 0.21787 0.46246 0.84929 0 0.092605 -0.021647 -0.087844 0.55904 1.014 0.65295 1.8763 1.2351 -0.38929 0.098706 0.19542 1.1375 2.4389 0.48699 0.3129 0.90412 1.9406 0.39031 0.12727 -0.0039272 0.13435 -0.46961 0.016286 0.10614 0.67917 0.004719 3.6569 0.055515 2.0857 1.3969 -0.035585 1.4921 -0.0073339 -0.45917 1.3279 Amplification Peak 9 - CN values 8p11.21 chr8:42725564-47463861(probes 769057:769128) chr8:42727453-42745876(probes 769058:769061) chr8:37892293-61090894(probes 766313:776724) 4.7072e-06 0.00033359 Actual Copy Change Given 0.63007 0.10512 0.27588 -0.81409 0.1933 3.2267 -0.015329 -0.026036 0.20712 1.1571 -0.005261 3.6569 2.2669 0.094782 -0.0012473 -0.0048461 0.23194 0.54202 0.47942 1.6003 3.6569 0.77349 0.5345 0.89989 -0.0045695 0.10409 -0.64311 2.3427 -0.78091 -0.40351 -0.10368 -0.52718 0.55089 0.69764 -0.21156 -0.28323 3.6569 0.084643 3.0795 -0.77956 1.1407 0.24171 1.1635 1.6245 -0.28037 -1.0325 -0.0091286 0.061508 0.098706 0.74518 0.68068 -0.68205 3.6116 0.76102 1.0496 2.5891 Amplification Peak 10 - CN values 8q11.23 chr8:48357987-57188018(probes 769455:774279) chr8:55128561-55382066(probes 773039:773241) chr8:37892293-61090894(probes 766313:776724) 4.2724e-06 0.0018108 Actual Copy Change Given 3.6569 0.10512 0.27588 -0.041024 0.1933 0.52987 0.028481 -0.026036 0.036602 1.1571 0.59009 1.0105 2.2669 0.094782 -0.0012473 -0.0048461 0.23194 0.54202 0.47942 1.6003 1.8636 0.77349 0.5345 0.89989 -0.0045695 0.10409 0.039761 3.6569 1.3849 2.3241 -0.10368 2.1606 -0.6804 0.0093098 3.6569 -0.28323 2.6386 0.11712 0.85324 1.5431 1.1407 0.78871 0.003191 1.6245 1.7576 -1.0325 -0.0091286 0.061508 0.098706 0.74518 0.68068 2.1315 1.6992 0.76102 2.0463 2.5891 Amplification Peak 11 - CN values 8q24.21 chr8:128630217-129102510(probes 815644:815980) chr8:128837441-128853417(probes 815798:815805) chr8:127942684-130062992(probes 815149:816616) 4.9268e-06 0.0022538 Actual Copy Change Given 0.038347 0.13317 0.88266 -0.052801 1.0013 -0.041702 -0.59292 -0.017947 0.79174 2.9926 1.8895 1.1362 -0.15784 0.10235 0.52906 -0.0048461 0.22129 0.54202 0.47942 1.5881 1.8463 0.74518 0.54438 0.89989 0.0072217 1.1738 -0.13419 1.204 0.33966 1.9573 3.6569 0.68254 -0.035857 -0.67279 0.9304 0.67901 2.6143 -0.014228 0.72338 1.0574 1.3047 0.13155 1.482 1.6245 1.7056 0.6971 -0.017254 3.6569 0.073063 3.6569 0.68068 2.7417 1.6394 2.2924 1.0762 2.8882 Amplification Peak 12 - CN values 8q24.21 chr8:129548135-129565078(probes 816346:816363) chr8:129548139-129565045(probes 816347:816362) chr8:127942684-130062992(probes 815149:816616) 1.1742e-08 0.0018451 Actual Copy Change Given 0.038347 0.13317 3.2744 -0.052801 1.0013 -0.041702 -0.59292 -0.017947 0.10215 2.9926 1.8895 0.43226 -0.15784 0.10235 0.52906 3.6569 0.22129 0.54202 0.47942 1.5881 1.8463 0.74518 0.54438 2.5808 0.0072217 3.6569 -0.13419 1.204 2.0682 1.9573 -0.14747 0.68254 -0.035857 -0.67279 0.9304 -0.29792 2.6143 -0.014228 -0.052936 1.0574 1.3047 0.13155 1.5771 1.6245 1.7056 0.6971 -0.017254 3.6569 0.073063 3.6569 0.68068 2.7417 3.6569 0.76638 1.0762 2.8882 Amplification Peak 13 - CN values 10q22.2 chr10:76500842-77828069(probes 936782:937582) chr10:77071496-77091549(probes 937080:937087) chr10:76490337-78399850(probes 936777:938003) 0.0061735 0.0061735 Actual Copy Change Given -0.5394 -0.028901 -0.041974 3.6569 -0.12836 0.61462 -0.55056 0.012649 -0.58514 -0.027671 0.85166 0.16775 0.22133 -0.63301 0.045141 0.0024969 0.18223 -0.51097 0.40427 0.84534 0.42764 -0.52604 0.54894 2.6111 0.39413 0.018663 0.67994 0.22913 0.015866 0.5095 0.015168 0.72584 0.65756 -0.028628 -0.1609 -0.29621 -0.16064 3.6569 1.2948 -0.30169 -0.0023553 2.7427 -0.45201 0.91582 0 0.75049 -0.005261 0.73948 0.038347 -0.038986 0.088283 -0.013953 0.43688 0.37578 0.045849 0.38091 Amplification Peak 14 - CN values 11q13.1 chr11:63669372-63995301(probes 1008244:1008348) chr11:63798693-63829504(probes 1008268:1008273) chr11:63583208-64162683(probes 1008222:1008402) 0.0089022 0.0089022 Actual Copy Change Given -0.5097 -0.85074 -0.029175 -0.080275 0.2609 -0.0047079 -0.64518 -0.012818 0.11516 1.7293 0.67936 -0.15835 -0.34653 -0.87642 -0.51866 0.010424 1.1941 -0.052297 -0.41751 -0.017254 -0.38487 -0.54875 -0.013953 -0.053881 -0.6368 0.081322 0.63171 0.069352 0.30649 0.072827 1.0424 -1.1279 -0.57051 0.60864 3.1305 1.5127 0.11946 -1.1861 0.38089 0.035947 -0.076958 0.11111 -0.42789 2.1557 -0.029311 -0.16829 0.0016642 1.6574 -0.031223 2.171 0.19041 -0.15886 0.44257 -0.017941 -0.4065 0 Amplification Peak 15 - CN values 12q12 chr12:44445547-46909264(probes 1072835:1074233) chr12:45379740-45628957(probes 1073368:1073503) chr12:45309616-46049768(probes 1073337:1073769) 0.07307 0.11021 Actual Copy Change Given -0.023414 0.10906 0.0037465 0.0041642 0.1283 0.064654 0.67011 0.006659 0.58249 0.11946 0.035947 2.3878 -0.24812 0.10614 -0.0055375 -0.0012473 0.69783 0 -0.64659 -0.0024938 -0.39397 0.60006 -0.024798 -0.38336 -0.13691 0.10628 0.66253 0.85201 0.57469 -0.37527 0.11697 0.062508 0.63646 1.1121 0.14102 0.44647 -0.45854 -0.011335 0.39629 -0.20074 -0.57881 3.6569 3.259 0.062651 -0.02562 0.017948 0.00027728 -0.64387 -0.63225 0.20779 0 0.096525 -0.092916 -0.018078 -0.47818 -0.39453 Amplification Peak 16 - CN values 12q15 chr12:69164647-71445992(probes 1086953:1088507) chr12:71176062-71211436(probes 1088309:1088332) chr12:70983414-71342269(probes 1088176:1088417) 0.052337 0.20407 Actual Copy Change Given -0.023414 0.096718 0.0037465 0.0068044 0.23861 0.038157 -0.58412 0.014603 0.55525 -0.49569 0.035947 3.0329 -0.25116 0.028903 -0.0123 -0.0012473 0.16655 0 0.4668 -0.0024938 0.30882 -0.53195 -0.059135 -0.39063 3.6569 0.1041 -0.011473 -0.3702 0.63134 0.012376 0.13007 0.079447 0.67734 -0.64499 0.35398 0.44647 -0.45715 2.5243 -0.49319 -0.29532 -0.57881 -0.01354 -0.97998 0.036088 0.43665 -0.0027862 0.00027728 3.532 -0.64781 0.20779 0 0.096525 -0.014228 -0.018078 0.0058301 -0.39453 Amplification Peak 17 - CN values 13q31.3 chr13:90659392-96245151(probes 1164687:1168354) chr13:91995937-92010656(probes 1165485:1165487) chr13:90660063-96254944(probes 1164688:1168356) 0.0028198 0.0028198 Actual Copy Change Given -0.0033243 2.8649 0.23194 0.027216 -0.76124 0.58524 0.73815 -0.015335 -0.59081 -0.29331 3.0679 1.2223 0.33496 0.026935 0.0063203 -0.009788 -0.2103 -0.73891 -0.31902 -0.019551 0.3647 0.48975 -0.18748 -0.22404 3.6569 1.0063 0.64808 -0.51786 -0.29047 0 -0.1431 0 -1.2398 0.70645 0.47873 -0.2396 0.31049 3.6569 0.78717 0.14786 1.7886 0.46195 0.0048579 -0.016841 0.46041 0.6937 -0.0042929 -0.58265 -0.50567 1.1652 0.37677 -0.12017 0.54453 -0.03504 -0.97998 -0.41432 Amplification Peak 18 - CN values 16p11.2 chr16:30907404-30943981(probes 1287125:1287137) chr16:30910330-30918486(probes 1287126:1287127) chr16:30320016-46515526(probes 1286946:1287521) 0.0041649 0.0041649 Actual Copy Change Given -0.51146 -0.32704 -0.58775 0.46707 0.23132 3.3447 -0.61911 0.048539 -0.52914 3.6569 -0.00013862 2.9161 -0.34811 -0.8296 0.17332 0.030029 -0.28579 -0.49832 0.27458 -0.005261 -0.25895 -0.48995 -0.60613 -0.37752 -0.080141 -0.30627 0.83884 -0.51086 -0.31389 -0.39697 0.11052 -0.0022168 2.7315 -0.65183 -0.03817 -0.39127 -0.22342 -0.14194 0.95816 0.16145 0.79588 0.19558 0.14221 -0.79352 0.04259 -0.058477 -0.016727 0.48182 0.06308 0.60142 -0.47986 0.049966 0.81845 0.0072217 0.13509 0.32382 Amplification Peak 19 - CN values 17q12 chr17:37822312-37969982(probes 1329279:1329384) chr17:37839410-37876933(probes 1329290:1329337) chr17:37671491-38023440(probes 1329217:1329396) 0.0049012 0.066674 Actual Copy Change Given 0.64689 0.22731 0.0048579 0.54665 -0.78429 0.036935 -0.58823 0.043877 3.6569 0.10191 0.65719 -0.34836 -0.43843 -0.83731 1.9485 0.057653 0.25371 0.10609 -0.65927 0.02525 0.38842 0.079447 3.6569 0.74461 0.54294 2.4278 0.77975 -0.47916 0.10103 1.3223 -0.75625 -0.21763 -0.46504 -0.034086 0.49355 0.24934 -0.18181 0.0052749 0.57826 -0.76338 0.53608 -0.27834 0.59476 1.1292 0.29963 2.5488 0.0058309 -0.70145 0.57719 0.68999 0.017544 -0.1526 -0.16714 0.016565 -0.95225 0.053398 Amplification Peak 20 - CN values 17q25.1 chr17:73581977-73764636(probes 1347981:1348046) chr17:73698681-73730482(probes 1348032:1348042) chr17:73018624-74285610(probes 1347755:1348227) 0.0006294 0.0038434 Actual Copy Change Given -0.51907 0.22129 0.0048579 0.65995 0.29437 1.2041 -0.56654 1.0451 -0.05123 0.64378 0.65719 -0.29804 -0.43377 1.273 0.086233 0.057653 1.2427 0.15289 0.45343 0.02525 0.37143 0.17001 1.6495 0.027778 -0.048342 0.18768 0.81142 1.0182 -0.089037 0.12093 0.071535 2.3596 3.1662 -0.04963 0.48595 0.24934 1.4498 0.030732 0.57576 -0.76338 0.50409 -0.14734 2.005 0.015866 0.30282 2.5488 0.0058309 0.059223 1.0934 1.0712 0.58471 -0.11652 0.83274 0.016565 -0.95225 0.042024 Amplification Peak 21 - CN values 19p13.2 chr19:10492041-10767789(probes 1396725:1396827) chr19:10495381-10508826(probes 1396726:1396729) chr19:10041108-11216573(probes 1396553:1397017) 0.00085866 0.00085866 Actual Copy Change Given 0.66734 -0.72958 -0.29703 -0.16103 -0.72906 -0.56813 0.022024 -0.87588 -0.65629 0.074121 1.8034 -0.34664 0.088548 -0.79503 0.1428 0.070243 3.6569 -0.051892 2.6684 0.042449 0.3252 -0.059135 1.6043 0.031295 -0.63651 -0.8544 -0.015741 0.3031 0.23194 -0.79252 -0.69965 3.5171 -0.035312 0.69484 0.41295 -0.18307 3.6569 -0.56236 -0.1351 -0.75711 0.48837 -0.27691 -0.98416 0.09188 -0.28928 -0.23921 -0.010094 -0.0076101 -0.63831 1.0172 0.12417 0.24435 3.0055 0.027989 0.10643 -0.03817 Amplification Peak 22 - CN values 19q12 chr19:30712323-30831808(probes 1404053:1404128) chr19:30714973-30723313(probes 1404054:1404054) chr19:24052993-41318305(probes 1402195:1410012) 8.1133e-22 8.1133e-22 Actual Copy Change Given 1.3879 -0.3217 -0.29703 1.6607 1.9592 0.58291 3.6569 3.6569 3.6569 0.038347 0.49096 1.5871 0.088548 1.283 0.11257 0.050446 0.10789 -0.051892 0.41295 0.042449 2.4892 1.434 0.5516 0.031295 3.3517 0.16535 3.6569 0.28007 1.1939 0.40377 1.0964 1.7887 2.9823 3.6569 3.6569 0.016425 0.26388 3.6569 2.9437 3.6569 0.48837 0.75651 1.1899 1.0714 2.0208 3.6569 -0.064156 2.5589 0.39795 0.20228 0.12417 0.20305 1.7195 0.027989 0.10643 0.85561 Amplification Peak 23 - CN values 20q11.21 chr20:29983442-30369453(probes 1433806:1433972) chr20:30190878-30221421(probes 1433895:1433901) chr20:26197900-32514235(probes 1433733:1435055) 4.3292e-10 0.00027546 Actual Copy Change Given 1.3849 1.3711 0.39662 1.7997 0.18434 0.69192 3.3602 0.94296 0.95501 0.24809 0.58041 2.6072 0.75815 0.2185 0.065513 0.035665 0.2904 0.16306 1.4885 0.86533 0.70242 0.16895 0.63317 0.92067 0.56721 1.2571 3.1508 0.76155 -0.28928 0.74594 3.6569 0.76427 2.4788 0.80558 3.1744 0.35855 0.86632 2.2815 0.15756 1.9448 1.4144 0.25887 1.1685 0.14533 0.25636 3.0061 -0.00013862 2.9461 -0.11574 0.72905 -0.089037 0.22422 1.3177 0.0013868 0.66545 0.067661 Amplification Peak 24 - CN values 20q11.21 chr20:30535307-30882795(probes 1434050:1434207) chr20:30664375-30756913(probes 1434113:1434151) chr20:26197900-32514235(probes 1433733:1435055) 2.6112e-12 6.5998e-06 Actual Copy Change Given 0.10045 0.24062 0.39662 1.7997 0.18434 0.69192 3.3602 2.9485 0.30595 1.9009 0.58041 2.6072 0.75815 0.2185 0.065513 0.035665 2.5751 0.16306 1.4885 0.86533 0.70242 0.16895 0.63317 0.92067 0.56721 1.2571 3.1508 0.76155 0.47667 0.74594 3.6569 1.7748 3.6569 -0.033269 3.6569 0.35855 0.86632 2.2815 0.15756 1.9448 1.4144 0.25887 0.10424 3.6569 0.25636 3.0061 -0.00013862 0.13036 -0.11574 0.72905 -0.089037 0.22422 1.3177 0.0013868 0.66545 0.067661 Amplification Peak 25 - CN values Xp11.21 chrX:55567455-56241386(probes 1513579:1513879) chrX:55648031-55720128(probes 1513612:1513630) chrX:55567933-56242612(probes 1513580:1513881) 0.039793 0.039793 Actual Copy Change Given 0.80811 -0.26697 -0.58412 0.85601 1.7498 3.6569 1.0906 1.1861 0.41641 1.1436 0.12402 1.0218 0.82627 -0.23349 0.018803 0.018523 -0.078011 -0.0084745 -0.033269 0.18434 1.0324 -0.041974 0.35023 0.30569 0.0070826 -0.045093 -0.083598 -0.809 -0.14387 -0.07067 -0.13975 3.6569 0.75949 0.44477 -0.074108 0.031718 0.8793 0.32753 1.1314 -0.30392 0.032422 0.48458 -0.26444 -0.074678 0.1655 -0.23693 0.034536 -0.3983 -0.08559 0.1431 0.31867 0.032987 1.05 0.11888 -0.12473 0.47735 Deletion Peak 1 - CN values 1p36.21 chr1:1-19401404(probes 1:8683) chr1:15478067-15548635(probes 6598:6657) chr1:1-17394637(probes 1:7249) 0.0051125 0.0051125 Actual Copy Change Given 0.15248 -0.26733 0.23272 0.017264 0.17317 0.0416 0.026795 0.069949 0.050027 0.00041593 0.66401 -0.3356 0.41011 -0.53966 -0.466 -0.83922 -0.77617 0.11163 -1.2929 0.0072039 0.40987 1.1115 0.63153 0.080889 -0.045228 0.17664 0.82353 -0.40287 -0.27059 -0.33364 -0.25491 -0.52736 -0.61633 -0.67187 -0.75435 0.167 0.087679 0.023987 -0.0073339 0.084209 0.54081 0.27584 0.13022 -0.72075 0.13097 -0.063687 0.0054139 -0.18836 -0.057116 -0.034904 0.1939 0.026514 -0.035993 0.0054139 -0.35897 -0.34919 Deletion Peak 2 - CN values 2q22.1 chr2:140708948-143637838(probes 201131:202972) chr2:140976294-142894275(probes 201265:202535) chr2:141809228-142062177(probes 201766:201912) 2.139e-05 2.139e-05 Actual Copy Change Given 0.58202 0.037985 0.042732 -1.2758 -1.2929 -0.0099249 0.0030522 0.8685 -0.039986 0.56917 -0.0027917 -0.068127 0.44282 0 0.25293 -0.00041585 -0.0832 -0.051622 0.011261 0.0056919 -0.3751 -0.67518 0.4321 -0.22379 0.5135 0.076422 -0.016292 0 0.063795 0.45649 0.1634 0.40061 -0.0088526 0.53778 0.3738 -0.84339 -0.072007 0.47804 -0.97948 -0.069198 -0.12901 0.21253 -0.038986 0 0.036023 -0.278 -0.00013862 -0.71453 0.65406 0.0146 -0.30334 0.14712 1.3774 -0.016429 -0.044551 0.099724 Deletion Peak 3 - CN values 3p14.2 chr3:52578475-61547330(probes 287974:293008) chr3:59701447-61026630(probes 292625:292626) chr3:47084400-93740691(probes 285868:310076) 4.5515e-05 4.5515e-05 Actual Copy Change Given -0.49062 -0.90016 -0.31249 -0.026304 -0.82822 0.0023581 -0.62016 -1.0026 -0.61646 0.053948 -0.039397 -0.30145 -0.28798 -0.92406 -0.55307 -0.0084385 -0.89932 -0.065616 -0.64267 -0.012431 -1.2086 -0.22441 -0.63765 -0.10775 -0.60526 -0.40827 0.64634 -1.1531 -0.30322 0.12859 -0.16548 -0.55937 -0.61662 -0.63699 -0.69712 -0.15052 0.29342 -0.60167 3.2912 -0.78749 -0.56485 -0.0099565 0.060508 0.09333 0.13539 0.66769 0.001803 -0.63349 -0.43007 -0.16879 -0.33877 -0.10224 -0.1595 0.36592 -0.94327 0.36182 Deletion Peak 4 - CN values 3q13.31 chr3:116297365-118620828(probes 322504:324135) chr3:116568608-116572991(probes 322741:322742) chr3:116160980-116940208(probes 322412:323032) 1.4755e-07 1.4755e-07 Actual Copy Change Given 0.32398 -0.10118 -0.31249 -0.026304 -1.2929 0.62224 -0.81532 0.0045737 -0.63456 -0.5289 -0.038325 -0.7211 -0.23521 0.049824 0.53362 -0.0084385 1.0534 -0.065616 -0.045635 -0.012431 1.5247 -1.2929 0.51263 -0.10368 -0.60526 -0.47883 0.60738 -0.57172 0.5633 0.15577 -0.22761 0.52136 0.63254 0.62606 0 -0.15052 0.23457 1.588 -1.2929 0.60901 -0.57209 -0.024251 0.064225 0.09333 -0.072519 2.334 0.001803 -1.2929 -0.43007 0.40487 0.17211 -1.0609 -1.2929 0.35561 -1.09 0.36182 Deletion Peak 5 - CN values 4q22.1 chr4:90844993-93240505(probes 414969:416114) chr4:91035787-92525194(probes 415016:415801) chr4:91747665-91750453(probes 415409:415410) 0.00032325 0.00059727 Actual Copy Change Given -0.58588 -0.51619 -0.33699 -0.57373 -0.52614 -0.63925 -0.61191 0.00040962 0.38248 -0.17246 -0.68597 2.0812 -0.28786 -0.16421 -0.57846 -0.010784 -0.27595 0.0039425 -0.52102 -0.035857 -0.40224 -0.45747 -0.095516 0.0024969 -0.13665 -0.076278 -0.0094137 -0.69949 -0.33133 -0.75426 -0.72279 -0.30604 -0.59331 2.1005 -0.72447 -0.064106 0.37463 -0.61191 -0.53966 -0.34435 -0.56465 0.17633 -0.034223 -0.11868 -0.47997 -0.15683 0.016146 -0.58353 0.037924 -0.21246 -0.55407 -0.021373 -0.20933 -0.020138 -0.48586 -0.1707 Deletion Peak 6 - CN values 4q34.3 chr4:179280062-184209734(probes 463152:465448) chr4:183087331-183091269(probes 465109:465110) chr4:181521852-184215831(probes 464298:465451) 9.3416e-05 0.0023178 Actual Copy Change Given -0.59536 -0.53906 -0.3567 -0.56763 -1.2929 -0.035721 -0.64151 -0.016848 -0.60326 -0.56027 0.63737 -0.37921 -0.38123 -0.16421 -0.57357 -0.019863 -0.28762 0.0039425 -0.065716 0.0079175 -1.2759 -0.45404 1.0426 -0.010585 -0.1499 -0.069466 -0.020962 -0.71952 -0.28572 -0.73784 -0.99579 -0.32073 -0.56753 -0.62598 -0.71462 -0.064106 0.3382 -1.2024 -0.39063 -0.33306 -0.58647 0.22176 -1.0413 -0.15388 -0.53266 -0.1655 -0.0016629 -1.2929 0.0097276 -0.18295 0.73625 -0.021373 -0.22576 -0.027654 -0.50121 -0.1707 Deletion Peak 7 - CN values 5q12.1 chr5:58151172-59818245(probes 498350:499384) chr5:58260298-59818245(probes 498428:499384) chr5:50124857-86593709(probes 493303:513634) 1.7147e-07 1.7147e-07 Actual Copy Change Given -0.50235 0.09217 -0.0070576 -0.005814 0.0086135 -0.63178 0.0091705 -0.010652 -0.61636 -0.62655 -0.00069303 -0.57763 0.047622 0.062223 -0.68205 -0.0081624 0.25402 0.20667 -0.64321 0.5585 -0.40556 -0.54699 -0.69333 0.018523 -0.61806 -0.41179 0.14459 -0.55291 0.26169 -0.78917 0.045282 0.01433 -0.58265 0.0073609 -0.71844 -0.046532 -0.34366 -0.012162 -0.036674 0.074552 0.020527 -0.25515 -1.0239 -0.86168 0.012237 -1.0125 -0.0011087 -0.68278 -0.51948 -0.11417 -0.47807 0.0086135 -0.14785 0.34892 0 0.84218 Deletion Peak 8 - CN values 6q26 chr6:161693099-163153207(probes 659136:659782) chr6:161767520-163153207(probes 659177:659782) chr6:162132257-162136708(probes 659480:659481) 0.059335 0.061353 Actual Copy Change Given 0.39446 0.095072 0.87707 0.48389 -0.50588 1.0808 -0.85961 1.0147 -0.61521 0.47324 0.63408 0.61371 -0.26432 -0.084262 0.10655 -0.014007 0.1667 0.21787 -0.67332 0.84929 0.33602 -0.042517 -0.053071 -0.024524 -0.52542 0 0.33663 0.88542 -0.30193 -0.35088 -0.046041 1.2843 0.6491 -0.044706 0.075847 0.27029 0.48785 -0.0089906 0.39429 0.12373 -0.57427 -0.0069195 0.04429 0.026373 0.0073134 0.67491 -0.0020784 0.39612 0.075991 -0.074544 0.10392 -0.035585 1.5184 -0.022195 0.0058603 -0.41245 Deletion Peak 9 - CN values 7q11.22 chr7:69000716-70601215(probes 699077:699979) chr7:69054978-70260048(probes 699100:699816) chr7:69747461-69752140(probes 699459:699460) 0.12048 0.11618 Actual Copy Change Given 0.62934 0.11976 0.0098669 -1.1225 0.0054139 -0.017941 -0.02384 1.0013 0.031949 -0.3011 -0.027238 0.48337 -0.35453 0.10599 -0.55106 -0.006505 -0.32739 0.15677 0.22299 -0.013264 -0.40556 0.23442 -0.044144 0.031999 0.00458 -0.38134 -0.14451 0.16312 0.24981 -0.31902 -0.0071958 0.52136 0.61625 -0.038508 0.43041 0.2107 -0.27894 0.59332 -0.028491 0.14578 0 -0.01037 0.083054 0.027778 -0.45704 0.016969 0 0.027919 -0.28905 0.58202 0.25762 0.1685 1.5257 -0.016979 1.099 -0.026577 Deletion Peak 10 - CN values 7q36.2 chr7:105676846-159138663(probes 716752:744518) chr7:150925815-159138663(probes 740737:744518) chr7:150925815-159138663(probes 740737:744518) 0.10142 0.1027 Actual Copy Change Given 0.51682 0.11125 -0.021784 -0.014503 0.3543 1.0772 -0.035283 -0.0016692 -0.62602 -0.45889 -0.1025 -0.45939 -0.39063 0.082476 -0.55627 -0.006505 -0.34159 0.73393 0.21514 0.0033837 -0.40556 0.12638 -0.092251 0.040044 -0.015879 -0.41124 -0.20447 -0.26049 0.094245 -0.70028 0 0.64561 -0.65445 -0.67884 0.41195 0.39994 -0.24582 -0.04726 -0.54552 0.14028 -0.052066 -0.031632 1.181 -0.85892 -0.80352 0.84078 -0.0099565 0.48458 -0.32952 0.58112 0.25762 0.026654 -0.21874 -0.016979 1.0904 0.28485 Deletion Peak 11 - CN values 8p21.3 chr8:1-29007074(probes 744519:761258) chr8:23240651-23322810(probes 757264:757312) chr8:18082355-26742583(probes 753583:759741) 0.0031922 0.0031282 Actual Copy Change Given 0.077718 0.15278 0.27588 -1.247 0.22792 -0.62503 -1.2929 -0.0016692 -0.5522 -1.2243 -0.028901 -0.62893 -0.37347 0.094782 -1.1406 -0.0048461 0.23194 0.54202 -0.66411 1.6003 -1.2929 0.81415 0.5345 0.89989 -0.0008316 0.10409 -0.64311 -1.2163 -0.78091 -0.40351 0.026654 -0.67609 -0.56569 -0.64779 -0.14245 -0.28323 -1.0994 -1.183 -0.92607 -0.77956 -0.62093 -0.30263 0.056085 -0.81721 -0.7726 -1.0578 -0.0091286 -0.66883 0.098706 0.80286 0.68068 -0.68205 -0.16485 0.76102 1.0358 -0.2554 Deletion Peak 12 - CN values 9p23 chr9:7887952-12687261(probes 829910:831879) chr9:8310705-10619051(probes 830146:831475) chr9:9212436-9216979(probes 830811:830812) 0.0109 0.010603 Actual Copy Change Given -0.57368 0.075559 0.33593 -0.57486 -0.3773 0.014051 0.09275 -0.99806 -0.015753 0.18616 -0.72588 -0.78866 -0.38616 -1.2929 -0.0088526 -0.0038779 -0.35499 -0.208 -0.14541 0.015447 -0.39224 -0.57437 0.58041 -0.0047079 0.38849 -0.18081 -0.64161 -0.48231 0.93793 0.036653 -0.23647 0.62333 -1.1895 -0.6642 -0.18823 -0.12499 -0.50608 -0.56376 -0.926 -0.33941 -0.56793 -0.21614 0.040185 -0.0026322 -0.030677 -0.14465 -0.0064587 -0.03286 0.0086135 -0.70082 -0.49454 -0.32286 -0.20336 0.00041593 -0.45497 -0.42048 Deletion Peak 13 - CN values 9q21.13 chr9:35113248-141213431(probes 846536:893297) chr9:77460004-77708217(probes 853221:853369) chr9:77460235-77476385(probes 853222:853223) 0.089783 0.18085 Actual Copy Change Given -0.55299 0 -0.13406 0.048546 0.033127 -0.62319 0.031014 -0.029317 -0.58886 -0.053611 -0.66949 -0.136 -0.41014 -0.90274 -0.52788 0.012376 -0.87938 -0.208 -0.17474 -0.036877 -0.38531 -0.54351 -0.61383 0 0.38849 -0.17853 -0.65618 -0.67626 -0.24594 -0.38078 -0.79118 -0.5794 -0.61475 -0.62484 -0.77073 -0.12499 -0.50608 -0.56376 1.6015 -0.37074 -0.58353 0.22487 -0.98716 -0.0026322 -0.4579 -0.15017 -0.0064587 -0.56296 -0.016979 -0.62389 0.06123 -0.19875 -1.0401 0.00041593 -0.45439 -0.40573 Deletion Peak 14 - CN values 9q33.3 chr9:80943738-141213431(probes 855691:893297) chr9:129982880-130157933(probes 888036:888153) chr9:130073747-130074594(probes 888095:888096) 0.074222 0.10651 Actual Copy Change Given -0.52869 0.071391 -0.079609 -0.60448 0.033127 -0.60322 0.050148 -0.01272 -0.60742 0.52136 -0.64321 -0.15528 -0.37741 -0.85821 -0.49298 0.012376 0.76926 -0.208 -0.17474 0 -0.38531 -0.53012 -0.61383 0 0.38849 -0.12356 -0.68452 -0.67626 -0.24594 -0.36906 -0.20685 0.73815 -0.61431 -0.65361 -0.74403 -0.12499 -0.48197 -0.56246 -0.81063 -0.39374 -0.58353 -0.2497 0.11976 0.040185 -0.4579 -0.18667 0.0065262 -0.65491 -0.042924 -1.0349 -0.1549 -0.13277 -0.14387 0.00041593 -0.90987 -0.40573 Deletion Peak 15 - CN values 10q23.31 chr10:76992208-135534747(probes 937043:973790) chr10:89617402-89735907(probes 945234:945423) chr10:89662107-89788681(probes 945300:945470) 0.1218 0.11618 Actual Copy Change Given -0.5394 -1.2929 -0.041974 -0.53338 -0.12836 0.58166 -0.55056 0.012649 -0.59987 -0.027671 0.85166 0.16775 0.22133 -0.63301 0.0058898 0 -0.89962 -0.51097 0.40427 0.84534 0.42764 -0.52604 0.54894 -0.83195 0.39413 -0.45918 0.67994 0.16613 0.019923 0.5095 0.044574 -0.6537 0.65756 -0.012438 -0.17003 -0.29621 -0.16663 -0.59556 0.41479 -0.30169 -0.014228 -0.22502 -0.46855 0.083776 0 0.75049 -0.0049844 0.036512 0.038347 -0.038986 0.088283 -0.013953 0.43688 0.37578 0.045849 0.38091 Deletion Peak 16 - CN values 11q14.1 chr11:78125247-104168773(probes 1014559:1030717) chr11:83165646-85348794(probes 1017933:1019107) chr11:84068601-84188661(probes 1018521:1018522) 0.061343 0.097418 Actual Copy Change Given -0.59722 -0.85074 -0.27488 -0.051991 -0.80807 -0.64434 -1.2799 -0.012818 -0.011523 0.29008 -0.71038 -1.1147 -0.34653 -0.88472 -0.55817 0.010424 0.21364 -0.052297 -0.41751 -0.017254 -0.38487 0.60341 -0.05496 0.04954 -0.60979 -0.020275 1.2958 -0.52217 0.30649 -0.39542 0.20228 -0.5597 0.086522 -0.0059522 0.4997 0.17332 -1.1385 -0.5791 0.39031 0.035947 -0.076958 -0.12642 0 -0.82472 -0.82277 -0.15606 -0.0011087 -0.84676 -0.031223 -0.21156 0.19041 -0.063838 0.42654 -0.017941 -0.4065 0 Deletion Peak 17 - CN values 11q23.2 chr11:102666317-135006516(probes 1029866:1050596) chr11:114267647-114287191(probes 1036922:1036930) chr11:114279387-114281498(probes 1036927:1036928) 0.086462 0.13008 Actual Copy Change Given -0.56604 -0.85074 -0.27488 -0.053257 -0.82048 -0.022195 -0.63349 -0.012818 -0.023615 0.26797 -0.68942 -0.39096 -0.37535 -0.92167 -0.51702 0.010424 0.21364 -0.052297 -0.41751 -0.017254 -0.38487 0.62242 -0.083315 0.04954 -0.60854 0.51609 1.3513 -0.52217 -0.29461 0.02525 0.19102 -1.1807 0.07743 -0.0059522 0.48423 0.17332 0 -0.5791 0.39031 0.035947 -0.076958 -0.12642 -1.0071 -0.82472 -0.19937 -0.15606 -0.0040362 -0.859 -0.040688 -0.21466 -0.4825 -0.063838 0.43614 -0.017941 -0.44903 0 Deletion Peak 18 - CN values 12q23.1 chr12:99476105-100107912(probes 1105444:1105754) chr12:99119341-100380401(probes 1105236:1105896) chr12:99427291-99838089(probes 1105419:1105657) 5.7219e-05 9.3416e-05 Actual Copy Change Given -0.0026322 0.11536 -0.0011558 0.0068044 -0.45297 0.044574 0.0016642 -0.98191 0.55525 -0.53114 0.035947 -0.37685 -0.77711 0.028903 -0.0123 -0.0012473 -1.0539 0 0.43986 -0.0024938 0.30882 -0.53195 -0.024935 -0.39063 -0.056712 0.1041 -0.015191 -0.35524 -0.77965 -0.0023553 0.074265 0.079447 0.60991 -0.64499 0.35398 0.38541 -0.45715 -0.01106 -0.49016 -0.29532 -0.57881 -0.28373 -1.2929 0.036088 -0.053476 -0.0027862 0.00027728 0.050819 -0.64781 0.48561 -0.54895 0.15502 -0.070804 -0.018078 0.019643 -0.39453 Deletion Peak 19 - CN values 12q24.31 chr12:120875791-133851895(probes 1118515:1124058) chr12:121160616-121180993(probes 1118649:1118659) chr12:121110007-123354544(probes 1118621:1119609) 0.033261 0.14808 Actual Copy Change Given 0.017963 -0.87159 -0.0011558 -1.1756 0.22993 0.6403 0.017684 -0.9676 -0.11304 0.068665 0.035947 -0.34676 -0.27117 0.18828 -0.0123 0.013213 0.13761 0.030133 0.42603 -0.0024938 0.30882 -1.2188 -0.024935 -0.39063 -0.64424 0.14801 -0.015191 0.99629 -0.33318 -0.0023553 0.021884 0.079447 -0.63991 -0.64499 0.35398 0.38541 -0.45715 0.019783 -0.49016 -0.29532 -0.57881 -0.28373 -0.97253 0.12447 -0.053476 -0.0027862 0.00027728 0.029466 -0.64781 1.2297 -0.02562 0.15502 0 -0.018078 0.046295 -0.39453 Deletion Peak 20 - CN values 13q12.11 chr13:20795889-23727991(probes 1124564:1126190) chr13:21342910-21489860(probes 1124688:1124754) chr13:21183705-23530218(probes 1124597:1126054) 0.016422 0.052055 Actual Copy Change Given 0.028622 -0.35874 -0.16967 0.027216 -0.76124 -0.62579 -0.62169 -0.012169 -0.59081 -0.48344 -0.70874 0.56632 -0.45565 0.071966 0.055515 -0.0019399 -0.91078 -0.13371 -0.31902 -0.016841 0.37751 0.48975 -0.22207 -0.22797 -0.024524 -0.0081624 0.6653 -0.50279 -0.29047 0 -0.17094 -0.72985 -0.0069195 -0.026304 -0.197 -0.24998 0.32543 -0.58265 0.82941 -0.78049 -1.1662 0.4599 0.040185 -0.8875 0.46041 0.6937 -0.0042929 -0.63887 -0.6508 1.0904 -0.49781 -0.12017 0.54453 -0.027671 -0.97224 -0.41432 Deletion Peak 21 - CN values 13q14.2 chr13:48875329-49152025(probes 1142564:1142829) chr13:48875753-49060837(probes 1142565:1142781) chr13:48173969-49982095(probes 1142160:1143312) 4.9801e-05 0.0002993 Actual Copy Change Given 0.028622 -0.35874 -0.16967 0.027216 -0.76124 -0.62808 -0.63017 -0.012169 -0.59081 -0.28465 -0.10216 0.56632 0.33496 0.071966 0.055515 -0.009788 -0.88712 -0.78704 -0.31902 -0.019551 -0.39157 0.48975 -0.19097 -0.22404 0.57362 -0.0081624 0.64808 -0.51909 -0.29047 0 -0.15694 -0.72985 -1.1848 0.66309 0.47118 -0.2396 -1.2929 -0.57427 0.82941 -0.78049 1.7576 -0.26949 -1.0162 -0.016841 0.46041 0.6937 -0.0042929 -0.58265 -0.50567 1.1652 -0.47109 -0.12017 0.54453 -0.40385 -1.2929 -0.41432 Deletion Peak 22 - CN values 14q21.1 chr14:39652220-44977111(probes 1190729:1192964) chr14:39733894-39859149(probes 1190767:1190826) chr14:39786160-39802812(probes 1190797:1190798) 0.11381 0.11593 Actual Copy Change Given -0.15349 -0.86042 0.53731 -0.25624 -0.67747 -0.043737 -0.57249 -0.017398 -0.59841 -0.038986 -0.0098477 -0.51812 -0.77905 0.077286 -0.53916 -0.0029091 0.24047 0.12959 -0.55086 -0.0070576 -0.3938 0.12167 -0.64283 -0.40606 -0.60883 0.10585 -0.01849 -0.48029 -0.31003 -0.38537 -0.7001 0.018803 -0.428 -0.014228 -0.73976 -0.31447 0.40827 0.68924 -0.071739 -0.31196 0.59566 -0.28988 0.02525 -0.53551 -0.42669 -0.15581 0.0027745 0.052952 -0.26925 -0.038714 0.09667 0.13732 -0.12278 -0.010646 -0.066252 0.16685 Deletion Peak 23 - CN values 15q15.1 chr15:28096454-40886552(probes 1232146:1238032) chr15:40377093-40403060(probes 1237777:1237787) chr15:1-64874580(probes 1229502:1252539) 4.9548e-10 4.9548e-10 Actual Copy Change Given -0.43539 -0.87455 -0.62836 -0.58833 -0.78858 -0.58353 -0.57565 0.015977 -0.61002 -0.55717 0.7057 -0.33676 0.49493 -0.12278 0.60539 0.023566 -0.87104 -0.14454 -0.63538 0.022024 -1.2929 -0.50691 -0.63434 -0.37808 -0.59633 -0.41849 -0.66966 -1.1943 -0.76021 -0.36454 0.77445 0.10205 -0.58833 0.007208 -0.74742 -0.24691 -0.56077 -0.16457 -0.95869 -0.30357 -0.59818 -0.020035 -1.0053 -0.46579 -0.035176 -0.15101 0.006109 -0.65351 -0.6508 -1.1477 -1.039 -0.15975 -0.1508 0 -0.45993 -0.39141 Deletion Peak 24 - CN values 16p13.3 chr16:1-1834723(probes 1273715:1273965) chr16:711906-1394506(probes 1273725:1273818) chr16:719934-731770(probes 1273727:1273728) 0.13407 0.13395 Actual Copy Change Given 0.75586 -0.22797 -0.58775 0.42671 -0.64452 -0.61738 -0.61911 0.080594 0.11062 -0.65892 0.73246 -0.35806 -0.30792 -0.83914 -0.4595 0.0406 -0.40008 -0.49832 0.26435 -0.005261 -0.25895 -0.50487 -0.60613 -1.2755 -0.11247 -0.29863 0.17136 -0.4822 -0.28857 -0.4252 -0.066118 -0.042381 -0.14836 0.026935 -0.69142 -0.27129 -0.22342 -0.14194 -0.23043 0.18102 -0.77855 0.19558 -0.41353 -0.79352 -0.0015243 -0.058477 -0.0084385 -0.36488 0.06308 -0.47226 -0.47986 -0.01154 2.8162 0.0072217 0.13509 0.32382 Deletion Peak 25 - CN values 16q23.1 chr16:78098006-79299841(probes 1306686:1307751) chr16:78129058-79247026(probes 1306717:1307722) chr16:75828511-90354753(probes 1304925:1314214) 0.00018522 0.000172 Actual Copy Change Given -0.51811 -0.34192 -0.61027 -1.2136 -0.86861 0.026514 -0.61911 -0.99667 -0.49531 -0.60705 -0.023018 -0.37504 -0.44857 -0.8509 -0.47986 0.028622 -0.80094 -0.49832 0.24156 -0.41773 -0.38531 -1.1912 -1.2929 -0.36906 -0.61393 -0.31289 -0.67306 -1.2074 -0.79686 -0.80906 0.12741 0.013772 -0.015054 -0.0099565 0.091445 -0.39127 -0.22342 0.46246 -0.45201 0.16145 -0.60022 -0.27164 -0.97827 0.22623 -0.50898 -0.053761 -0.025483 -0.67857 0.06308 -1.0467 -0.43626 -0.62197 -0.16497 0.0072217 0.072069 -0.40188 Deletion Peak 26 - CN values 17p13.1 chr17:8449768-25626166(probes 1317709:1323869) chr17:8920141-9149144(probes 1318033:1318168) chr17:8889658-9349729(probes 1318019:1318318) 0.044844 0.043513 Actual Copy Change Given -0.49527 -0.83155 -0.3642 -0.61786 -0.81589 -1.2783 -0.62284 0.068515 -1.2929 -0.56634 -0.65333 -0.2978 -0.4644 -0.83446 -0.4825 0.057653 -0.85106 0.30338 -0.67884 0.02525 -0.38027 -0.49214 0.63116 1.3157 0.54101 -0.88827 -0.68933 -0.48041 -0.46613 -0.010556 -0.82214 -0.60729 -0.6123 -1.2929 -0.7402 0.24934 0.037076 -0.54703 -0.43572 -0.76021 -0.60303 -0.27834 -0.96409 -0.81524 -0.1955 -0.23283 0.0058309 -0.70145 -0.65724 0.008892 -0.48407 -0.1526 -0.16714 0.016565 -0.9667 0.060365 Deletion Peak 27 - CN values 17q21.31 chr17:13490949-47779174(probes 1321129:1333408) chr17:41319825-41522092(probes 1330991:1330995) chr17:41338488-41522092(probes 1330994:1330995) 0.19877 0.20448 Actual Copy Change Given -0.46696 -0.79143 0.0048579 0.58077 -0.78429 0.036935 -0.58823 0.043877 -0.6223 0.10191 0.65719 -0.34836 -0.45576 -0.80559 -0.48155 0.057653 0.25371 0.10609 -0.65927 0.02525 -0.32999 -0.53358 -0.57812 0.027778 0.54294 -0.86271 0.77975 -0.4863 0.10103 -0.28572 -0.68269 -0.21763 -0.48684 -0.034086 -0.73091 0.24934 -0.18181 -0.0063668 0.57826 -0.76338 0.53608 -0.27834 -0.46664 0.13643 0.29963 2.5488 0.0058309 0.59854 0.0020805 -0.011909 0.017544 -0.11652 -0.16714 0.016565 -0.95225 0.03235 Deletion Peak 28 - CN values 18q22.2 chr18:47089955-78077248(probes 1376299:1393325) chr18:67944549-67998976(probes 1389006:1389026) chr18:67850775-68007620(probes 1388956:1389037) 0.12533 0.1218 Actual Copy Change Given -0.041817 -0.14798 0.83333 -0.58166 -0.72738 -0.6434 -0.62474 -0.018222 -0.039324 0.60882 -0.062898 -0.73433 -0.54118 -0.90964 0 0.0029133 0.17784 0.17705 0.32769 -0.013677 0.38974 0.076854 0.53485 0.035524 -0.10224 0.10718 -0.64884 0.053777 0.49528 0.079447 -0.0059522 0.34534 -0.58667 -0.64057 -0.77337 -0.20073 -0.032587 -0.54391 -0.94005 -0.77209 -0.010094 -0.2954 0.016146 -0.40749 -0.24788 -0.14247 -0.73556 0.69129 -0.29059 -0.019314 -0.096968 -0.34595 -0.49455 -0.020275 0.044999 -0.84587 Deletion Peak 29 - CN values 19p13.3 chr19:1-4675277(probes 1393326:1394300) chr19:1-753949(probes 1393326:1393398) chr19:1-10269568(probes 1393326:1396652) 5.1843e-14 3.9072e-05 Actual Copy Change Given -0.48165 -0.72958 -0.29703 -0.73993 -0.72906 -0.56813 -0.65221 -0.87588 -0.62115 -0.54573 -0.60844 -1.0493 -0.34549 -0.90606 -0.43604 0.070243 -0.93001 -0.051892 -0.66799 0.042449 -0.42805 -0.74229 -0.63074 -0.76432 -0.63651 -0.90449 -0.76802 -1.1986 -0.33664 -0.79252 -0.69965 -0.60107 -0.6846 -0.67049 -0.79244 -0.18307 -0.5937 -0.56236 -0.1351 -0.73073 -0.64715 -0.28299 -1.017 -0.76261 -0.28928 -0.23921 -0.010094 -0.68328 -0.63831 -0.81597 0.12417 -0.59214 0.57987 0.068378 0.10643 -0.03817 Deletion Peak 30 - CN values 19p13.3 chr19:1-4675277(probes 1393326:1394300) chr19:2094593-2166993(probes 1393658:1393680) chr19:1-10269568(probes 1393326:1396652) 8.0449e-14 4.217e-05 Actual Copy Change Given -0.48165 -0.72958 -0.29703 -0.73993 -0.72906 -0.56813 -0.65221 -0.87588 -0.65629 -0.54573 -0.60844 -0.34664 -0.95341 -0.79503 0.62879 0.070243 -0.93001 -0.051892 -0.66799 0.042449 -0.42805 -0.74229 0.36756 -0.76432 -0.63651 0.23907 -0.76802 -1.1986 -0.33664 -0.79252 -0.69965 -0.55527 -0.6846 -0.67049 -0.79244 -0.18307 -0.5937 -0.56236 -0.1351 -0.75711 -0.64715 -0.27691 -1.0989 -0.76261 -0.28928 -0.23921 -0.010094 -0.68328 -0.63831 -0.81597 0.12417 -0.59214 0.57987 0.068378 0.10643 -0.03817 Deletion Peak 31 - CN values 19q13.33 chr19:37145637-59128983(probes 1408055:1417019) chr19:48206763-49274867(probes 1412731:1413217) chr19:48178259-49288661(probes 1412722:1413222) 0.12448 0.1218 Actual Copy Change Given -0.48817 0.1495 -0.073743 0.37035 -0.80352 0.58291 -0.58667 0.097827 -0.13295 0.069128 -0.59058 0.23845 0.088548 0.24482 -0.466 0.050446 0.10789 -0.051892 0.35267 0.042449 0.64498 0.6217 0.52967 0.031295 1.5098 0.16971 -0.68533 0.28529 -0.18534 0.40377 -0.70127 1.0595 -0.61767 -0.09089 -0.77549 0.016425 1.2141 -0.55547 -0.10631 -0.76372 1.5303 -0.29296 1.0321 1.0382 -0.055499 0.51018 -0.015054 -0.21317 0.38535 0.18389 0.12417 0.20305 -0.1246 0.027989 0.10643 0.85561 Deletion Peak 32 - CN values 20p12.1 chr20:14301156-16252980(probes 1425760:1426924) chr20:13965126-16036135(probes 1425595:1426710) chr20:15467744-15471214(probes 1426153:1426154) 0.0036614 0.003526 Actual Copy Change Given 0.17076 0.12035 0.40069 -1.2472 0.18434 0.69192 0.070673 0.99316 0.71446 0.2771 0.58041 1.0776 0.75815 0.2185 0.065513 0.035665 0.2904 0.16306 -0.1431 0.86533 -0.059869 0.16895 0.63317 0.05637 0.56721 0.15054 0.11873 0.76155 -0.28928 -0.070937 -0.48974 0.58309 0.40594 0.026797 0.71189 0.35855 0.86632 0.0351 -1.2829 0.17422 1.1223 -0.27284 0.078871 0.1601 0.25636 0.061349 -0.00013862 0.41446 -0.11574 0.72905 -1.0513 0.22422 -0.0971 0.0013868 -0.38369 0.074696 Deletion Peak 33 - CN values 22q13.31 chr22:41958863-51304566(probes 1486323:1491174) chr22:45590413-45829559(probes 1488582:1488719) chr22:41979972-51304566(probes 1486324:1491174) 0.0013619 0.0014203 Actual Copy Change Given -0.57832 -0.80053 0.51751 -1.2929 -0.82162 -0.61134 -0.5938 -0.95109 -0.63229 -1.2543 -0.68829 0.24404 -0.48428 -0.80484 0.15935 -0.86466 -0.86484 -0.50297 -0.6936 0.040609 -0.39224 -0.49996 -0.59828 -0.83057 -0.60574 -0.91153 -0.022469 -0.45149 -0.30251 0.043582 -0.381 -0.54492 0.028622 0.57816 -0.72509 -0.14695 -0.045228 -0.55647 0.42116 -0.76979 0.49753 -0.26252 -0.94883 -0.79494 -0.036946 -0.19626 -0.807 -0.68478 0.029606 -0.76817 -0.27248 0.81357 -1.105 0.02806 -0.55353 0.49978 Deletion Peak 34 - CN values Xp21.1 chrX:32117084-32611359(probes 1504161:1504466) chrX:30870233-34033668(probes 1503500:1504722) chrX:31794349-32088546(probes 1503916:1504133) 2.7242e-06 2.7242e-06 Actual Copy Change Given 0.167 -0.61507 0.45156 0 0.11459 -0.77609 0.81045 -0.7196 -0.16553 -1.0889 0.11946 1.0218 1.0086 -0.23349 0.018803 0.018523 -0.031768 -0.0084745 -0.033269 0.18434 -0.46987 -0.076545 -0.19837 -0.63282 0.0070826 -0.079875 0.91279 -0.809 -0.14862 -0.07067 -0.11495 -0.48092 0.7922 0.44477 -0.074108 0.031718 0.8793 0.32753 0.36035 -0.30392 0.032422 0.027919 -1.1823 -0.074678 -1.0331 -0.22688 0.034536 -0.3983 -0.08559 0.092177 0.31803 0.032987 0.99115 0.11888 -0.086784 0.47735 Deletion Peak 35 - CN values Xq25 chrX:120183502-155270560(probes 1538424:1553684) chrX:122309030-122628683(probes 1539418:1539635) chrX:122302263-122591153(probes 1539414:1539615) 0.063955 0.063817 Actual Copy Change Given -0.76877 -0.26697 -0.1246 0.023444 -0.24922 0.27096 -0.85868 0.51263 -0.22125 0.37743 0.089851 -0.35738 -0.40385 -0.23423 -0.20361 0.0079938 -0.035585 -0.0084745 -0.013127 0.18434 -1.2929 -0.068797 0.35969 0.30569 0.0070826 -0.068127 -0.074411 0.48592 -0.90775 -0.058596 -0.12004 -0.010232 -0.46499 -0.13536 -0.090582 0.031718 -0.33737 -0.64846 -0.47997 0.19527 0.032422 0.020483 -0.7211 -0.074678 -0.018054 0.60483 0.0085474 0.18703 -0.08559 0.10687 -0.20809 0.07096 -0.34955 0.11888 -0.12797 -0.10395