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-A2-A0EU-01A-22D-A060-02	TCGA-A7-A0D9-01A-31D-A060-02	TCGA-AO-A0JF-01A-11D-A060-02	TCGA-AO-A0JJ-01A-11D-A060-02	TCGA-AO-A0JL-01A-11D-A060-02	TCGA-AR-A0TU-01A-31D-A106-02	TCGA-B6-A0RE-01A-11D-A060-02	TCGA-B6-A0RG-01A-11D-A060-02	TCGA-B6-A0RI-01A-11D-A060-02	TCGA-B6-A0X4-01A-11D-A106-02	TCGA-BH-A0BM-01A-11D-A060-02	TCGA-BH-A0DK-01A-21D-A060-02	TCGA-BH-A0GY-01A-11D-A060-02	TCGA-BH-A0H6-01A-21D-A060-02	TCGA-BH-A0H7-01A-13D-A060-02	TCGA-BH-A0HB-01A-11D-A060-02	TCGA-BH-A0HK-01A-11D-A060-02	TCGA-BH-A0HX-01A-21D-A060-02	TCGA-BH-A0W5-01A-11D-A106-02	
Amplification Peak 1	8p11.23	chr8:36121788-39714022(probes 1307:1362)  	chr8:37427095-38115723(probes 1326:1335)  	chr8:37265418-38149137(probes 1322:1338)  	0.16436	 0.16436		0: t<0.3; 1: 0.3<t< 0.9; 2: t>0.9	2	2	0	0	1	1	0	2	0	0	0	0	2	2	2	1	0	2	1	
Amplification Peak 2	20q13.2	chr20:46463398-63025520(probes 3120:3298)	chr20:51719009-51788385(probes 3195:3196)	chr20:51719009-53006757(probes 3195:3199)	0.21956	 0.21956		0: t<0.3; 1: 0.3<t< 0.9; 2: t>0.9	2	2	0	0	1	0	0	0	0	0	0	0	2	0	2	1	0	1	1	
Deletion Peak 1	8p21.3 	chr8:1-26298992(probes 1198:1236)              	chr8:18335062-22699484(probes 1224:1235)    	chr8:1-27204368(probes 1198:1238)              	0.17922	 0.17922		0: t>-0.3; 1: -0.3>t> -1.3; 2: t< -1.3	1	1	0	0	1	1	0	1	0	0	0	0	0	1	1	1	1	1	1	
Deletion Peak 2	11q22.3	chr11:78569205-135006516(probes 1947:1985)	chr11:85800523-135006516(probes 1968:1985)	chr11:85800523-135006516(probes 1968:1985)	0.17922	 0.17922		0: t>-0.3; 1: -0.3>t> -1.3; 2: t< -1.3	0	0	0	0	1	1	0	1	0	0	0	1	0	0	1	1	1	1	0	
Amplification Peak 1 - CN values	8p11.23	chr8:36121788-39714022(probes 1307:1362)  	chr8:37427095-38115723(probes 1326:1335)  	chr8:37265418-38149137(probes 1322:1338)  	0.16436	 0.16436		Actual Copy Change Given	1.2064	6	-0.0038541	0	0.38432	0.45542	-0.21793	3.5164	0	-0.0058923	0.00085634	0	4.0604	2.2497	1.0393	0.61534	-0.77841	1.5392	0.69203	
Amplification Peak 2 - CN values	20q13.2	chr20:46463398-63025520(probes 3120:3298)	chr20:51719009-51788385(probes 3195:3196)	chr20:51719009-53006757(probes 3195:3199)	0.21956	 0.21956		Actual Copy Change Given	1.0785	6	0.0028464	0.018546	0.5935	-0.37518	0.12776	0.032423	0.046113	0.00096455	-0.002503	0.011223	4.74	0	3.1647	0.57837	-0.0034491	0.7638	0.31878	
Deletion Peak 1 - CN values	8p21.3 	chr8:1-26298992(probes 1198:1236)              	chr8:18335062-22699484(probes 1224:1235)    	chr8:1-27204368(probes 1198:1238)              	0.17922	 0.17922		Actual Copy Change Given	-1.0618	-0.80263	-0.0038541	0	-0.4164	-0.43589	-0.21793	-0.87564	0	-0.0058923	0.00085634	-0.035692	-0.0919	-0.75924	-1.2581	-0.50736	-0.78081	-0.46116	-0.33197	
Deletion Peak 2 - CN values	11q22.3	chr11:78569205-135006516(probes 1947:1985)	chr11:85800523-135006516(probes 1968:1985)	chr11:85800523-135006516(probes 1968:1985)	0.17922	 0.17922		Actual Copy Change Given	0.34235	-0.0010255	-0.043464	-0.0042101	-0.51066	-0.36793	0.065237	-0.89984	-0.0043892	0.0014317	-1.4958e-05	-0.52891	0.31968	0.052672	-0.59061	-0.69187	-0.77932	-0.47874	0.0019986	
