Table S3.

Other primers

Conc, nM	Name	Sequence (5′ to 3′)
Initial PCR
600	Calpha Rev	ACACATCAGAATCCTTACTTTGTG
600	Cbeta Rev	GCAGTATCTGGAGTCATTGAGG
600	Stepout	ATTGGGCAGGTTGTCCCTGATT
First nested PCR
200	Calpha nest 1	AATCGGTGAATAGGCAGACAGAC
200	Cbeta nest 1	TGATGGCTCAAACACAGCG
1,550	Valpha block	TTTTTTTATTGGGCAGGTTGTCCCTGATTTTT/3PHOS/
1,550	Vbeta block	TTTTTTTAATCAGGGACAACCTGCCCAATTTT/3PHOS/
Second nested PCR
400	Calpha nest2	CAAGCAGAAGACGGCATACGAGATINDEXXGTGACTGGAGTTCAGACGTGTGCTCTTCCGATCTNNNNNNTCAGGGTTCTGGATAT
400	Cbeta nest2	AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCTNNNNNNXXXXCCTCGGGTGGGAACAC

INDEXX, internal indices used to differentiate among samples; NNNNN, zero to eight randomized nucleotides to provide cluster diversification for the MiSeq analysis; XXXX, a second set of internal indices used to differentiate among samples.