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Table 2.

Calculated MESF Values for Multiplexed Analysis

DNA sample		ddNTP terminator reaction		SNP analyzed[i]
DNA sample		ddNTP terminator reaction		503	504	505	506	507	509	510	511	512	513	514	515
CEPH1	A	−40	989	15,415	2,866	1,727	23,113	1,800	2,051	2,986	4,750	2,114	37,943
	C	1,118	3,062	2,341	4,263	3,128	3,060	22,545	26,298	4,676	34,825	2,862	2,502
	G	30,260	17,380	10,218	40,707	44,653	854	1,713	2,077	18,400	3,360	31,014	2,052
	T	1,677	2,997	766	4,868	2,630	3,428	1,862	3,097	2,139	31,556	1,350	3,399
CEPH2	A	24,324	1,281	1,158	36,042	2,001	14,220	2,671	2,695	3,273	5,775	31,821	20,874
	C	682	2,983	1,701	6,047	56,597	1,108	23,931	27,097	4,258	35,886	2,979	813
	G	13,750	8,003	20,345	19,321	19,224	616	1,348	2,082	2,544	3,418	15,880	1,400
	T	2,681	10,827	781	3,629	2,011	24,111	2,846	3,200	17,666	36,343	3,463	30,878
CEPH3	A	−300	1,404	31,515	8,101	1,950	13,979	2,155	3,071	3,236	5,454	1,392	41,198
	C	852	2,574	616	5,550	8,467	1,321	11,044	22,882	1,511	4,293	2,145	1,331
	G	27,595	15,679	1,128	41,843	43,402	288	886	1,563	10,563	3,606	31,904	1,612
	T	1,154	2,407	1,681	4,091	1,661	22,340	10,387	3,386	13,856	63,945	1,021	3,665
CEPH4	A	21,336	1,409	14,919	3,654	1,707	29,352	2,341	2,062	2,487	5,333	1,090	39,260
	C	747	1,235	992	5,141	2,310	1,788	30,619	12,469	2,622	5,754	2,299	1,856
	G	14,173	8,235	10,605	49,175	49,640	1,174	2,042	2,679	10,182	4,703	31,362	1,152
	T	1,843	10,360	1,424	5,601	3,083	4,322	3,176	10,497	11,547	57,578	1,695	3,436
CEPH5	A	667	1,509	16,122	3,563	1,332	27,454	1,379	2,370	4,242	5,533	2,124	38,337
	C	621	3,295	−225	7,332	2,046	3,560	30,488	22,694	3,809	32,136	2,506	2,943
	G	30,852	17,229	10,238	48,006	48,465	1,235	2,052	2,901	3,591	4,860	32,230	2,980
	T	2,125	2,449	2,170	5,201	2,163	3,127	3,233	3,685	25,453	34,144	2,932	3,118
CEPH6	A	21,077	1,331	14,439	37,356	1,884	12,900	2,253	2,886	3,023	5,775	1,520	33,546
	C	2,873	2,006	1,083	6,681	57,081	2,337	30,141	22,979	4,060	7,013	2,746	3,118
	G	13,735	7,809	10,383	25,831	22,917	900	1,996	2,685	4,185	4,661	30,584	2,295
	T	1,939	10,925	516	5,166	2,234	22,665	2,799	4,301	27,736	69,067	2,289	2,794
CEPH7	A	466	1,012	31,337	37,161	2,412	12,493	2,495	3,040	3,820	6,882	1,848	39,483
	C	1,154	2,472	2,215	5,889	54,698	2,098	37,761	23,440	3,622	7,953	2,947	3,590
	G	33,017	18,848	1,344	25,874	22,774	1,346	2,650	3,494	4,091	5,444	32,169	1,363
	T	2,428	1,276	1,304	5,636	1,828	21,973	2,774	4,218	26,748	67,520	1,186	2,820

[i] Twelve SNPs (SNP503–SNP515) were amplified separately and pooled. The pooled samples were then analyzed in a multiplexed single base chain reaction as described in Methods. MESF values indicating the presence of a particular allele are indicated in boldface type. Sequences of PCR primers and capture oligonucleotides will be provided upon request.