Supplementary Table 2: Discrete copy number assignments of loci in Tables 3 and 5									

Family #	Sample ID	"RP11-1068E21, chr15:28321608-28499440"	"RP11-261P7, chr15:28207785-28330872"	"RP11-141H9, chr17:45061319-45230413"	"RP11-1143M16, chr22:24050173-24204080"	"RP11-97F19, chr2:89779383-89954029"	"CTD-3065P9, chr4:70432218-70591332"	"RP11-958F14, chr11:55221653-55393983"	"RP11-177L24, chr10:46859266-47011568"
"4, Father"	 NA18501	1	1	3	2			1	3
"4, Child"	 NA18500 	1	1	4	2		2	1	3
"4, Mother"	 NA18502 	1	1	3	2	2		1	3
"5, Father"	 NA18504 	1	1	4	2	1	3	1	3
"5, Child"	 NA18503 	1	1	4	2	2	4	1	4
"5, Mother"	 NA18505	1	1	4	2			1	3
"9, Father"	 NA18507								
"9, Child"	 NA18506	1	1	4	2	1	2	1	3
"9, Mother"	 NA18508	1	1	4	2	1	3	1	3
"12, Father"	 NA18859	1	1	2	2	1	2	1	3
"12, Child"	 NA18860	1	1	3	2	1	2	1	3
"12, Mother"	 NA18858	1	1	4	2	1	2	1	3
"13, Father"	 NA18516 	2	2	3	2	1	3	1	3
"13, Child"	 NA18515 	2	2	3	2	1	2	1	3
"13, Mother"	 NA18517 	1	1	4	2	1		1	3
"16, Father"	 NA18522	1	1	2	2	1	2	1	3
"16, Child"	 NA18521	1	1		2	1		1	3
"16, Mother"	 NA18523	2		2	2	1		1	3
"17, Father"	 NA18871 		2	3	2	1	2	1	3
"17, Child"	 NA18872 	2	2	2	2	1	1	1	3
"17, Mother"	 NA18870 	2		3	2	1	1	1	3
"18, Father"	 NA18853	1	1	2	2	1	1	1	3
"18, Child"	 NA18854	1	1	3	2	1	1	2	3
"18, Mother"	 NA18852	2	2	3	2	1	1	2	3
"23, Father"	 NA18856 	1	1	3	2	1	1	1	3
"23, Child"	 NA18857 		1	2	2	1	1	1	3
"23, Mother"	 NA18855 	1	1	3	2	1	2	1	3
"24, Father"	 NA18862 	1	1	2	2	1	1	1	3
"24, Child"	 NA18863 	1	1	3	2	1		1	4
"24, Mother"	 NA18861		1		2	1		1	4
"28, Father"	 NA18913	1	1		2	1	1	1	3
"28, Child"	 NA18914	1	1	2	2	1	2	1	3
"28, Mother"	 NA18912	1	1	3	2		3	1	3
"40, Father"	 NA19092	1	1	3	2	1	2	1	3
"40, Child"	 NA19094	1	1	2	2	1	3	2	3
"40, Mother"	 NA19093	1	1	3	2	1	3	2	3
"42, Father"	 NA19101	1	1	1	2	1		1	3
"42, Child"	 NA19103	1	1	1	2	1	2	1	3
"42, Mother"	 NA19102	2	2	2	2	1	2	1	3
"43, Father"	 NA19138 	2	2	3	1	1	1	1	4
"43, Child"	 NA19139 	1	1	3	1	2	1	1	
"43, Mother"	 NA19137 	1	1	4	2	3		1	3
"45, Father"	 NA19200 	1	1	3	2	1	1	1	3
"45, Child"	 NA19202	2	2	2	2	1	2	1	3
"45, Mother"	 NA19201 	2	2	2	2	1	3	1	3
"47, Father"	 NA19171	1	1	3	2	1	1	1	3
"47, Child"	 NA19173	1	1	2	2	1	1	1	3
"47, Mother"	 NA19172	1	1	2	2	1	1	1	3
"48, Father"	 NA19203 	1	1	3	2	1	1	1	3
"48, Child"	 NA19205 	1	1	3	2	1	1	1	3
"48, Mother"	 NA19204 	1	1	3	2	1	1	1	4
"50, Father"	 NA19210 	1	1		2	1	2	1	3
"50, Child"	 NA19211 	1	1	3	2	1	2	2	3
"50, Mother"	 NA19209 		1	3	2	1	2	2	3
"51, Father"	 NA19207	3	3	2	2	1	2	1	3
"51, Child"	 NA19208	2	2	3	2	1	2	1	3
"51, Mother"	 NA19206	1	1	3	2	1	1	1	3
"56, Father"	 NA19160	1	1	2	2	1	3	1	3
"56, Child"	 NA19161	1	1	1	2	1	2	1	3
"56, Mother"	 NA19159	1	1	1	2	1	1	1	3
"58, Father"	 NA19223 	3	3	3	1	1	2	1	3
"58, Child"	 NA19221 	2		4	1	1	2	1	3
"58, Mother"	 NA19222 	1	1	4	2	1	2	1	3
"60, Father"	 NA19119	2	2	1	2	1	4	1	3
"60, Child"	 NA19120	1	1	2	2	1	2	1	3
"60, Mother"	 NA19116	2	2	3	2	1	1	1	3
"71, Father"	 NA19141	1	1	2	3	1	1	1	2
"71, Child"	 NA19142	2	2	2	3	1	1	1	1
"71, Mother"	 NA19140	2	2	3	2	1	2	1	2
"72, Father"	 NA19153 	2	2	3	2	1	3	1	3
"72, Child"	 NA19154 	3	3	2	2	1	2	1	3
"72, Mother"	 NA19152 	2	2	2	2	1	2	1	3
"74, Father"	 NA19144 	1	1	4	2			1	3
"74, Child"	 NA19145 	1	1	4	2	1	2	1	3
"74, Mother"	 NA19143	1	1	3	3	1	2	1	3
"77, Father"	 NA19128	1	1	2	2	1	2	1	3
"77, Child"	 NA19129	1	1	2	2	2		1	3
"77, Mother"	 NA19127	2	2	2	2	2	2	1	3
"101, Father"	 NA19130	1	1	3	2	1	2	1	3
"101, Child"	 NA19132	2	2	2	2	1	2	1	3
"101, Mother"	 NA19131	2	2	3	2	1	2	1	3
"105, Father"	 NA19098	1	1	3	2	1	2	1	3
"105, Child"	 NA19100	1	1	2	2	1	1	1	3
"105, Mother"	 NA19099	2	2	2	1	1	1	1	3
"112, Father"	 NA19192 	1	1	2	2	1		1	3
"112, Child"	 NA19194 	1	1		2	1	1	1	3
"112, Mother"	 NA19193	1	1	3	2	1	2	1	3
"117, Father"	 NA19239 	1	1	3	2	1		2	2
"117, Child"	 NA19240 	1	1	2	2	1	1	1	3
"117, Mother"	 NA19238 	1	1	2	2	1	1	1	3