Cacao Primers by Dye

Theobroma cacao microsatellite primers developed by CIRAD and USDA-Miami.

Click on the column title to view the primers sorted by the respective heading.

 

Primer name	Upper Sequence ( 5' - 3' )	Lower Sequence ( 5' - 3' )	Microsatellite	Ta	Dye	Notes
SHRSTc004	tggatgagtcacacgatagtag	cgcatcttttccctttttacac	(ag)	51	6-FAM
SHRSTc018	gttttatttcccaccgttg	actggttccagtcaagtc	(ag)	51	6-FAM
SHRSTc023	gttcctttttcttcttcagc	acaaactcaaccccttttac	(ag)	51	6-FAM
SHRSTc025	caaaaacaaacactttcccc	caagcacgaaaaggtaaaac	(ag)	51	6-FAM
SHRSTc028	aggctaacccaatcaatatc	cttccacaactttcttcttc	(agg)	51	6-FAM
SHRSTc032	ttgtgggaaaccaaggag	gtaatgtgatgtgggtgag	(ag)	52	6-FAM
SHRSTc034	ccaacattatctcatcactcc	gctctccactatgaaggt	(ag)	52	6-FAM
SHRSTc037	aatctaaccagaggtccg	cgatttagtaaagttgcccc	(gcc)	53	6-FAM
mTcCIR003	catcccagtatctcatcc	ctgctcatttctttcatatca	(ct)20(ta)21	** 61	6-FAM	** Temperature modified from original protocol
mTcCIR004	cgactaaaacccaaaccatcaa	aattattaggcaacccgaact	(tctctg)2(tc)8	51	6-FAM
mTcCIR006	ttccctctaaactaccctaaat	taaagcaaagcaatctaacata	(tg)7(ga)13	46	6-FAM
mTcCIR007	atgcgaatgacaactggt	gctttcagtcctttgctt	(ga)11	51	6-FAM
mTcCIR011	tttggtgattattagcag	gattcgatttgatgtgag	(tc)13	46	6-FAM
mTcCIR016	accttcaccagctcacc	taaattctactagcaaattacc	(tc)9N37(tc)13	46	6-FAM
mTcCIR018	gatagctaaggggattgagga	ggtaattcaatcatttgaggata	(ga)12	51	6-FAM
mTcCIR021	gtcgttgttgatgtcggt	ggtgagtgtgtgtgtttgtct	(tc)11N5(ca)12	** 61	6-FAM	** Temperature modified from original protocol
mTcCIR030	tgaagatcctactgttgag	tgataataactccttagtgg	(ca)11	46	6-FAM
mTcCIR033	tgggttgaagatttggt	caacaatgaaaataggca	(tg)11	51	6-FAM
mTcCIR035	tttccttgtattgaccta	atataaacacacttcagagat	(gt)11	46	6-FAM
mTcCIR043	tcatgagaatgcatgtg	ctggacatgaagaagttat	(tg)5(ta)(ga)15	46	6-FAM
mTcCIR045	gtcattgctgtgtg	catagcattaactgtgtctg	(gt)9	51	6-FAM
mTcCIR048	cagactgccgcacacttag	tccatccactcctctcactc	(gt)10	51	6-FAM
mTcCIR049	gtaaagcacatatactaaatgtca	tttaacctttgtaagaagtattca	(tg)8	46	6-FAM
mTcCIR054	aacctcttgtcacgtta	gaaggcatacttactactgt	(ca)15	46	6-FAM
mTcCIR060	cgctactaacaaacatcaaa	agagcaaccatcactaatca	(ct)7(ca)20	51	6-FAM
mTcCIR061	gcagtctgaaacaagataa	tgactataatataaggcgaa	(ca)18	46	6-FAM
mTcCIR067	atagctccttttgacacga	ttctcttttccacctcttt	(ga)10	46	6-FAM
mTcCIR070	ggtatgaaggattgagag	ttcctattcgtatttatggg	(ga)11 aa(ga)4	46	6-FAM
mTcCIR072	cactaggaaagaggaag	aaaagaggaagattgct	(ga)10	46	6-FAM
mTcCIR073	ccagtcaaggaagtatct	aatgtctgcaatgttagc	(ct)4 tt(ct)2 gg(tc)8	46	6-FAM
mTcCIR075	cattcatctttttctttctctc	tccttctccaaccga	(ag)10	48	6-FAM
mTcCIR079	atttttctttagcgcact	taactaccttcccacctc	(tc)8	48	6-FAM
mTcCIR080	gctggggtttctttgtatt	ttctcatttctttattgggtt	(ct)10 cc(ct)2	46	6-FAM
mTcCIR084	catgggacgctgcct	ctcttattaaattgaattctct	(ga)11	46	6-FAM
mTcCIR087	taagggggcaacataaat	caaatagcgcagagacaat	(ag)21	48	6-FAM
mTcCIR093	gttgccactgctctcgct	cccttttattgttccccatta	(ct)8	48	6-FAM
mTcCIR096	atagagaaagacccaaatc	agacaacaaatttatgtaatg	(tc)8	46	6-FAM
mTcCIR097	cttcttctggtcaatcttct	gctgcatccatcatcc	(tc)3 c(tc)10	46	6-FAM
mTcCIR101	gaactcaccgaagagaaac	gagccgtcaccaatgc	(tc)18	51	6-FAM
mTcCIR102	ttgtgaaaagattgcga	ttgcttgttattgctactat	(ga)9	46	6-FAM
mTcCIR103	gagagatggcttaaggat	accatactattgaaacattg	(ga)10	46	6-FAM
mTcCIR106	acgaaaaataccctaaaaa	tgctgttgttgtcttgct	(ga)9	46	6-FAM
mTcCIR107	ttgcctggaagagaga	gatggaaagagaaataatagt	(ag)11	46	6-FAM
mTcCIR108	ttctttgtgccctctct	ccttcccaacgactatc	(ct)15	48	6-FAM
mTcCIR110	gtgaaaagtggggattg	taaagtaagagtggtgatggt	(ag)8	48	6-FAM
mTcCIR111	ttaataagatccaaccaaca	cacattcacccacaagtc	(ga)18	46	6-FAM
mTcCIR112	ttactttgtaggctgctg	cattccactcattttgct	(tc)8	46	6-FAM
mTcCIR113	ggaaagttacagcaagagaga	acaagcccggtgaagg	(ag)9	51	6-FAM
mTcCIR119	tggacttgtgctggaac	gcaagaaataaaataggaac	(ag)12	46	6-FAM
mTcCIR120	tggaaagtgcttactcttatg	tctagtttcaggggctct	(ag)13	46	6-FAM
mTcCIR124	cagcgtcttggaataac	acccacacacaagacac	(ct)12	46	6-FAM
mTcCIR125	catgcaaatgcttagg	tgaaccacagctgacac	(tg)11	46	6-FAM
mTcCIR127	cgtttgtcttgcgttc	atgtgtttttgcctcttac	(tc)8	48	6-FAM
mTcCIR129	cagtgaggatgaggttc	cgacataccagtttacataa	(tc)16	46	6-FAM
mTcCIR130	accggcggctgatctac	cgcgccaaccaataaag	(ag)17	51	6-FAM
mTcCIR137	cagctgtcacggaaac	gcctcttaccctcatt	(tc)10	46	6-FAM
mTcCIR138	ctgccaagtcaagtaagttc	ctgtggtatcaatcaatctaat	(ca)11	46	6-FAM
mTcCIR140	gattcatagtggaaacacagt	ggaaaacagagaggaagagt	(ca)07	48	6-FAM
mTcCIR142	ccatttacaactcccattcata	aactatccatccaccctacctc	(ga)08	48	6-FAM
mTcCIR145	cagacttccaactcaaaact	tgagaatagatggaccgat	(ct)17	48	6-FAM
mTcCIR146	gcaaggtctttttacgat	atggacacgtctaagttg	(ct)19	46	6-FAM
mTcCIR150	ctgatattgcatggaaa	gcaccaaattgatctg	(ag)13	46	6-FAM
mTcCIR151	caggggctctgtgttt	accaagaacggggaga	(ga)12	51	6-FAM
mTcCIR159	tgggcgatgccaaaag	ccacagaactatgtcataggct	(ag)07	51	6-FAM
mTcCIR161	ttggggcactaactttt	tttttacattcaattccatc	(tc)11	46	6-FAM
mTcCIR164	agaacggttcaggacaatc	aggacaatgatgaagaaataag	(ct)08	48	6-FAM
mTcCIR165	ttcacttccctccccac	ctgggtttggagtagcttg	(ct)11	51	6-FAM
mTcCIR168	ggtagtattgaggtgcgtat	gtgaatgaatggatgtgaaa	(tc)9	48	6-FAM
mTcCIR170	ctcttgcacggcacagga	ttgccccacccatacg	(tg)7	51	6-FAM
mTcCIR172	cgttccagtgtgggtga	tgttttcgctctactgcttc	(tg)9(ag)4	51	6-FAM
mTcCIR176	tcaccaattctctgctc	aatgaaattacctccttac	(tg)16	46	6-FAM
mTcCIR177	gatccttgaaaccacaca	taatttctctttacacattctc	(ca)7	46	6-FAM
mTcCIR185	atccccctgcctaaagag	cctgaatgaagtaagacccaat	(ca)18	51	6-FAM
mTcCIR188	gtcctattcggtgtaactac	ttctgcttctctttgctc	(tc)9(ac)8	48	6-FAM
mTcCIR191	agtgtgtatgtgcatgagaa	aaatcccgtgaaccaa	(ga)13	48	6-FAM
mTcCIR192	tcacttcacaataatttcaag	aaattgaattccagttgtag	(tg)16	46	6-FAM
mTcCIR193	aacctgtgatggaccg	aaatggtgaattaggctc	(tg)9	48	6-FAM
mTcCIR202	tctctcatagctcaagca	cctgagtcaaagtgtcct	(tg)7 (ga)9	48	6-FAM
mTcCIR204	attacctgccgatgaag	tgggtttggaatgatgt	(ct)10	46	6-FAM
mTcCIR210	caaaccccaaacctcaa	cagttatggaaattattgctcta	(ag)11...(aag)4	48	6-FAM
mTcCIR227	acatcattaaggagaaaca	caaatcacctcaaataatc	(ct)8	46	6-FAM
mTcCIR228	ccccctgatactgtgtg	gaaacctaatctcgtaatatgt	(ga)8	48	6-FAM
mTcCIR234	ttgtgtcggtttgattc	gaaagagagggaaagtga	(tc)9	48	6-FAM
mTcCIR237	gaagacaaggatggagact	gcaaagagagcaggaga	(tc)10	51	6-FAM
mTcCIR238	ttggctttcttttagtta	aaatataatcattactttccta	(ag)9	46	6-FAM
mTcCIR243	acagcagtagacgcattc	aaaaggcttggcacag	(tc)9...(ca)11	51	6-FAM
mTcCIR246	tatcctctctctctgtgtatc	gcagcactcaaccacta	(tg)8	48	6-FAM
mTcCIR257	catacagaaaccagaaaat	tatagggtaaagcgaaat	(ct)7 (ca)12	48	6-FAM
mTcCIR258	taactcacaatccatcat	atggtcattatcaaaatc	(tc)7 (ac)10	46	6-FAM
mTcCIR260	tggcaacacatacatta	gtgtatgcctagatgaga	(ac)17	46	6-FAM
mTcCIR261	gttgatctgcttaatgttct	gtagccgtttacatctattat	(tc)21	48	6-FAM
mTcCIR262	gtttctttgctccgtatct	tttgccaaccctgtgt	(tc)14	48	6-FAM
mTcCIR274	gaaaggtaaatggctgaa	cgatcatcacgactgct	(ct)6 cacg (ca)6 (ct)2	48	6-FAM
mTcCIR276	tcctgctttttaatacat	gtcctatctgcctcact	(ga)14	46	6-FAM
mTcCIR278	tggcatctgtctgtc	gtatatgaccgtttgtag	(tctg)3 (tc)10 (ta)8	42	6-FAM
mTcCIR280	atttgtcatttgttgttgt	gccttggtattgactgt	(ct)8 (ca)9	46	6-FAM
mTcCIR282	tggtgaggggagagaa	agcaaaggcaataataatg	(ga)2 gg (ga)6	48	6-FAM
mTcCIR284	gaaatccattgctctga	tggtcttctttggttga	(ag)9	46	6-FAM
mTcCIR286	gttctgcttcatctgttta	ttcaacccacaaccat	(ct)18	46	6-FAM
mTcCIR288	acaacacaaggcaaaga	cccatttagcaccaac	(ga)10 aa (ga)3...(ga)11	48	6-FAM
mTcCIR289	cttccgccactaataaa	ctatacataacagcagcca	(ct)10	46	6-FAM
mTcCIR290	agcgagagacaaagataat	gactgaaatggtggtaaag	(ct)19 cacc (ca)18	48	6-FAM	Same as mTcCir053
SHRSTc002	gagagagaaaacgagagctg	cccaagtaaaatattgcaaccc	(ag)	64.6	HEX
SHRSTc012	ccaccacccttacctttgaaac	gggaaagggaaaggctgacatc	(caa)	51	HEX	Same as SHRSTc11
SHRSTc022	ttaccgctgtgtgtttag	ttttctccttcttcttcctc	(ag)	51	HEX
SHRSTc027	tgtggagcacaaggtaac	gcaatagaagaggatgaagg	(caa)	51	HEX
SHRSTc029	ccatttaatttagcagcacc	atttcgtcgcttactacg	(aaagt)	51	HEX
SHRSTc041	ccgataactcctcaacac	gtagatggagagaacgaag	(ctt)	52	HEX
SHRSTc043	gctccattttcagccatc	ccctttaactctcctttcc	(agg)	52	HEX
mTcCIR001	gcagggcaggtccagtgaagca	tgggcaaccagaaaacgat	(ct)14	51	HEX
mTcCIR008	ctagtttcccatttacca	tcctcagcattttctttc	(tc)5tt(tc)17ttt(ct)4	46	HEX
mTcCIR013	cagtctaacaaaggtgag	tgccccacttgacaacta	(ag)13	46	HEX
mTcCIR015	cagccgcctcttgttag	tatttgggattcttgatg	(tc)19	46	HEX
mTcCIR017	aaggatgaaggatgtaagagag	cccatacgagctgtgagt	(gt)7N4(ga)12	51	HEX
mTcCIR019	cacaacccgtgctgatta	gttgttgaggttgttaggag	(ct)28	46	HEX
mTcCIR022	attctcgcaaaaacttag	gatggaaggagtgtaaatag	(tc)12N146(ct)10	46	HEX
mTcCIR024	tttggggtgatttcttctga	tctgtctcgtcttttggtga	(ag)13	46	HEX
mTcCIR029	cgacatttcgactttcatc	ttttgtttctttctttttcatt	(ca)10	46	HEX
mTcCIR031	gcatgcttctttactcca	ttacctgccaatgacttac	(gt)12	46	HEX
mTcCIR037	ctgggtgctgatagataa	aataccctccacacaaat	(gt)15	46	HEX
mTcCIR042	ttgctgaagtatcttttgac	gctccacccctatttg	(ca)21	46	HEX
mTcCIR044	cccatcaaaagtattagaag	atcaagcaatggtcaac	(gt)10	51	HEX
mTcCIR046	tatgctctctctcgtataat	caagaatgttttgatactga	(ct)15(ca)13	46	HEX	Same as mTcCir181
mTcCIR053	ttgactgaaatggtggtaa	cagttgactgttgacttgaa	(gt)26	51	HEX	Same as mTcCir290
mTcCIR057	tgtagatgtgattttatagtttg	ggagggataagaagcag	(ac)13	46	HEX
mTcCIR058	tttttggtgatggaactat	tggttaagcaacactaaact	(gt)40	51	HEX
mTcCIR064	gagaaagtaaaaggagagag	tgttagagaaatgagaagtg	(ga)11	46	HEX	Same as mTcCir098
mTcCIR068	atttagctgtagccgttt	ccagttgatctgcttaatg	(ga)17	48	HEX
mTcCIR071	cgactaaccagcagaaac	ctcctcctcctccat	(ga)10	46	HEX
mTcCIR076	agccaaagaaaggat	tgaatccgagacaaag	(tc)21 ttt(tc)58	46	HEX	Same as mTcCir077
mTcCIR078	tgaaaatacgttctgtctga	caaaaagttttctgaaagtc	(tc)2 t(tc)9	46	HEX
mTcCIR082	atcatgtgccccttctaa	ggcagctaagtgttcattc	(ag)6 aa(ag)7	46	HEX
mTcCIR094	aatttgtagggtatttgaagag	ccatgcccagtgagtag	(ag)16	51	HEX
mTcCIR095	ctccttccctttctctc	catcgtcttcctctcatc	(tc)4 cc (tc)21	48	HEX
mTcCIR098	ccagttgctaattttcttc	gcacatagttttggcaat	(tc)8	46	HEX	Same as mTcCir064
mTcCIR104	aataggaaagggtaagtgaat	caagcatataaagccaaca	(ga)10	46	HEX
mTcCIR109	ggaaagtgtaggaaagtagac	ggaccaaaaagagcata	(ct)12	46	HEX
mTcCIR117	tgtggaataaaagagcaat	cactggtgtagcaaatgata	(tc)10	46	HEX
mTcCIR118	tctgcctgaaaatgtctc	tggggcactaacttttg	(ga)10	46	HEX
mTcCIR121	catgtgcatttaggtgtc	tctggcttcttagtgatac	(tg)12	46	HEX
mTcCIR122	catgaaaccagaaaatc	atagggtaaagcgaaat	(ct)7(ca)14	46	HEX
mTcCIR123	attcccttagctttatgttatg	ctcgcgccctttctct	(ca)4(tg)6	51	HEX
mTcCIR128	tagagagggggtagatga	tggaatgatttggagac	(ag)20	46	HEX
mTcCIR132	gaagccatggttcagag	cccagatacaaactaattaaac	(tc)10	46	HEX
mTcCIR133	ggatcacatccgtttaga	aatttcagccctccaa	(ag)11	48	HEX
mTcCIR134	cgtcccaaaatcaacac	atagtctgcccttccaa	(gt)15	46	HEX
mTcCIR143	gtgccagcctttttga	tcagcccacagaactatg	(ga)17	51	HEX
mTcCIR153	gcctctcacaccattatctg	tacattcattacttcactgctg	(tc)09	51	HEX
mTcCIR154	ccttgtaagtgtggcaat	tggaacaagaggttgtca	(ga)14	48	HEX
mTcCIR156	ggcaggaccaaatgat	aaaaccaggaacaccag	(ct)11	51	HEX
mTcCIR157	actaatgctgttggcttc	tcactcgactcgactgtc	(ag)09	48	HEX
mTcCIR158	tgtaggttatgcagcgtgttc	gatgaggggtgtagctgtttg	(ct)08	51	HEX
mTcCIR162	aagattgaggtcactcagg	taagttttttgctttactcttc	(ga)19	48	HEX
mTcCIR163	cataacgcagaccagtgt	tttgatcatcggcttg	(ag)09	48	HEX
mTcCIR169	cttttggctgtatgttcg	ctgccctctctttctcac	(ga)9 aa(gt)7	51	HEX
mTcCIR171	atttctcatttctcaagtgt	tatggcatttcgtagc	(gt)20	48	HEX
mTcCIR173	tccggatggcaatatgt	ctaccccatgattctgaact	(ca)7	48	HEX
mTcCIR174	tggcagcaatacttcaaa	tcccgatgttccactc	(tg)7	48	HEX
mTcCIR178	catctgtttgcacatatttg	gcttggtcccttaacac	(tg)8	48	HEX
mTcCIR180	atggtttcgattgtctgt	caaaatctaagctgataaaac	(gt)9	46	HEX
mTcCIR182	ctaattgttcaaggaggtc	aagtgtttttggcactatc	(tg)9	46	HEX
mTcCIR184	ggttttctagctcctcc	aggaaagaatgactcatacta	(ca)8(ct)13	48	HEX
mTcCIR186	aaggctaaagaacaaatg	cgtagacgtcacacaata	(tg)8	46	HEX
mTcCIR189	gaatagaaattttatgcac	tcaaacaacataggtcac	(gt)12	46	HEX
mTcCIR190	aagaaactgaagcacaat	cacaaagagcataaactg	(tg)12	46	HEX
mTcCIR197	ggatttattttattgtaaactcc	aatgatttctacattgtcacca	(at)9(gt)18	46	HEX
mTcCIR198	tgggaccataaggaaatc	cccaggtgaagtaagaca	(ca)3 ta(ca)6	46	HEX
mTcCIR201	aactcccatcctacacga	ggaatgcagtatcattaaatc	(ca)8	46	HEX
mTcCIR203	gtggatttgggtgggat	attgtgttttggctatgttc	(ac)8	51	HEX
mTcCIR205	ggggtttgttttatgtat	tgtgggatcgtcttct	(tc)8	48	HEX
mTcCIR206	catgagcaaagcaaata	aagtaaaatgaaggtgtga	(ct)24	48	HEX
mTcCIR207	tggttgacaaggtaaaa	tggatgtgcaagtaagt	(tc)9	46	HEX
mTcCIR208	gcaagcccctaaaact	aaaaagcaaaagaagaaga	(ct)10...(ac)11	48	HEX
mTcCIR211	tggtgctaactcaaatc	caaacaagaaggctaaa	(tc)9	46	HEX
mTcCIR212	gagaaacacttcaggatac	gtcatttggcagattta	(tc)8	46	HEX
mTcCIR215	gcttcaactccaaatcac	tagcatcccgtattgtg	(ag)13	48	HEX
mTcCIR216	actgcccaggaatca	tctttgtttctgccttat	(ga)12	46	HEX
mTcCIR218	tgaccaaggaagctctc	ggtgggaaaggtggta	(ct)11	48	HEX
mTcCIR219	gcgaaccaagacaaatac	atgggtggcaatttct	(ag)8	48	HEX
mTcCIR220	tgaagtgtgtgtttgtgta	ccaatagagggatgtaata	(tc)10	48	HEX
mTcCIR224	tcagaaagcaatgtggta	aagcaatatcaagtggtaag	(tc)13 (ac)8	48	HEX
mTcCIR230	gtggaagccttatgattatgt	atttatgcccatgcagac	(ct)8	48	HEX
mTcCIR232	gctgttgtctacttttgaat	caccctttgaatcagtcta	(tc)18	48	HEX
mTcCIR233	ccagaagccaaaagaga	atggattaagaaggaggaa	(ga)15	48	HEX
mTcCIR236	gaagtcaaaggaaagtcaa	tcagaaaacgcaaataaa	(ct)5 tt (ct)14 t (ct)2	51	HEX
mTcCIR240	catacctactactgctctct	agtgatttatgggacttt	(ct)22	46	HEX
mTcCIR241	cagttggagggcattt	acgagtgagagagtgaagtt	(ct)23	51	HEX
mTcCIR247	cattttataattccttct	acattctttattttcact	(ac)9atac (at)3	42	HEX
mTcCIR248	tgatagatttgcgtttaca	cccagaaaagaagaagat	(tg)8	48	HEX
mTcCIR250	cccagaggaccatcac	actgctctctctctactcatc	(ac)22	48	HEX
mTcCIR251	tctatgggatttgatgag	agatacagcaggaacaca	(ct)7 (ca)12	46	HEX
mTcCIR252	aatgtgtgctttgtttcta	ttcaagggcgtaactc	(ac)10	46	HEX
mTcCIR253	tggctactaaacacctacta	gggaggggagtaagtt	(ac)7	46	HEX
mTcCIR255	tttacctccaccatctt	tggcacttatctattactgt	(ac)11	48	HEX
mTcCIR256	agaagggtgtcaacatta	gaacagtcaaacataagagta	(ac)13 (atac)4	46	HEX
mTcCIR259	tttcctgatttccatta	agaggttccaaaatacat	(ca)8	46	HEX
mTcCIR266	tcgtcgccatcataga	gtcgttattcggagttca	(ct)15	51	HEX
mTcCIR267	cactaccccttttcctt	ttcatggctctttttctat	(ga)9	48	HEX
mTcCIR271	gcacctttgttatcttg	ggaacccactgaaact	(ct)12	46	HEX
mTcCIR273	agaatgatcgcagagag	acggcattagagagaga	(ct)4 ac (ct)13 tt (ct)4	46	HEX
mTcCIR275	ggtttggttttggtaagac	taagagagagtgatgctgaca	(ct)11	53	HEX
mTcCIR279	gtccatctacatcataagc	cagcaacagcatcact	(ct)9	46	HEX
mTcCIR281	ccgctgttttggtatttc	ggatgaggggtggttg	(tc)12 (ca)14	51	HEX
SHRSTc003	gaacagtgtgaggaatatggtg	cccagggtttggagaaaatag	(ag)	51	NED
SHRSTc011	ccaccacccttacctttgaaac	acgagactccaaaacggacg	(caa)	51	NED	Same as SHRSTc12
SHRSTc013	aatactgctcacccgactc	ataaccccaaaactctgcttc	(ctt)	51	NED
SHRSTc019	gtcactgattccattctgtaag	tgcgtcaaatatggttctg	(ag)	51	NED
SHRSTc021	cgattagagaaaccataagcac	caagtagaagtaagactcctcc	(ag)	51	NED
SHRSTc024	tagggaacttccacacac	ttttaatgctggagctgc	(ag)	51	NED
SHRSTc031	agttcctctacccatacag	ggccagtaagaaggtaaag	(ag)	52	NED
SHRSTc033	ttaagggggtatgcagtg	cgcaaaaacaagtatgacc	(ag)	52	NED
SHRSTc039	tctgtatatttcagggagcc	actgtcgtcttgccttac	(atc)	52	NED
SHRSTc044	ccaatatgtagagcatattagc	tctcctttatctgctccc	(gt)	51	NED
mTcCIR002	cagggagctgtgttattggtca	agttattgtcggcaaggaggat	(ga)3N5(ag)2gg(ag)4	51	NED
mTcCIR009	accatgcttcctccttca	acatttataccccaacca	(ct)8N15(ct)5N9(tc)10	51	NED
mTcCIR010	acagatggcctacacact	caagcaagcctcatactc	(tg)13	46	NED
mTcCIR012	tctgaccccaaacctgta	attccagttaaagcacat	(cata)4N18(tg)6	** 59	NED	** Temperature modified from original protocol
mTcCIR025	cttcgtagtgaatgtaggag	ttaggtaggtagggttatct	(ct)21	46	NED
mTcCIR026	gcattcatcaatacattc	gcactcaaagttcatactac	(tc)9c(ct)4tt(ct)11	46	NED
mTcCIR028	gatcaatcagaagcaaacacat	taaagcagcctaccaagaaaag	(tc)8	46	NED
mTcCIR032	gacttactcccatcctac	tgattggcacactttt	(ca)10	46	NED
mTcCIR034	gaaattgatacaagagaca	acataatcttcgcacat	(gt)16	46	NED
mTcCIR040	aatccgacagtctttaatc	cctaggccagagaattga	(ac)15	51	NED	Same as mTcCir062
mTcCIR047	tttgctttcacatattgag	ctccaagtgttttcacca	(ca)10	46	NED
mTcCIR055	gatattgtcccattatttg	ttccgccttgttctc	(ca)6(gcacac)5	46	NED
mTcCIR056	atacttttacttccttttg	tcttatttttctttaccag	(tc)14N(tg)15	46	NED
mTcCIR062	gttatgtgtatgcttaggc	aaatcacacaaacacaaat	(gt)20	46	NED	Same as mTcCir040
mTcCIR065	catgaaagctaagtgcct	aaaaatgcgttacaagtgtg	(ga)10	51	NED
mTcCIR066	tatccgccagaaacaga	ccaacagtagagtccagagt	(ag)20	51	NED
mTcCIR069	tcggtgttccatcagta	catgctatgagattgaaag	(ct)20	46	NED
mTcCIR074	attgcagaagacaacccag	ttatgggcgggtgaa	(ga)16 gg(ga)9	51	NED
mTcCIR077	gttctcccccactctct	aataaataaataaacaatacg	(tc)9	46	NED	Same as mTcCir076
mTcCIR081	tgaaactcccatactactga	acaatctgtccattattctg	(ct)15	46	NED
mTcCIR083	gtgtgtttgtgcatgtgt	acccaacccatcacc	(tc)8	48	NED
mTcCIR085	ttgaagtagagagttgtaagaa	ttatggtgttggttgtgat	(ag)16	46	NED
mTcCIR086	taacaaggaaaatgctctc	gttgaaccgaaggaaag	(ct)8 tt (ct)6	48	NED
mTcCIR088	ctaggattccatagaagtaa	ttggacctcaattatatgt	(ct)10	46	NED
mTcCIR089	agagggaaatgaaaacagc	gcaatgcacagagaatagtaa	(ag)9	51	NED
mTcCIR090	ccacttcaaaaaccattcta	gcaactgtcaaccattatcta	(ct)10	48	NED
mTcCIR091	ttttgctgagtgttgctgt	atccgagaaatagaataggtta	(ct)10	46	NED
mTcCIR092	gttccaaatcatctcactt	tcgtctatttctcttcactct	(ag)9	46	NED
mTcCIR099	cggaaaatgaaacagac	aataaaagaaaagaaccatac	(ga)9	48	NED
mTcCIR100	tgatggaataaactaagaaca	taagaagccaggtcagg	(ag)6 c(ag)4	48	NED
mTcCIR105	gtttacaacttatcgctctg	aatttgtatcccttattattta	(ct)8	46	NED
mTcCIR114	cagatgaatggaataactt	gcatgaacacaaacacac	(tc)9(tg)5 g(tg)4	48	NED
mTcCIR115	gtgattcaaattcaaatatg	aatagcaagagagtgatgag	(tc)11	46	NED
mTcCIR116	gaattttgtgatgatggaac	cagaggacttgaggcttat	(ga)16 aa(ga)10	48	NED
mTcCIR126	aactctcactatcatccac	aacaaatcatcaaacactt	(ga)11	46	NED
mTcCIR131	tgagtaagaaaaagtagaaaa	gatcatcggtaaagtaaaat	(ga)9 c(ga)4	46	NED
mTcCIR135	attagagagggggtagatga	ctagtggggttgacatttg	(ag)20	51	NED
mTcCIR136	gaggaggtgagagcca	ggtttgtatttttgattgag	(ga)7 gc(ga)7	48	NED
mTcCIR139	cttccctccccaatct	ttagctctaggttttccag	(tc)10	51	NED
mTcCIR141	tgttgcataaaacacgagttc	cctaaaatccttcctaacagc	(tc)14	51	NED
mTcCIR144	ccactgacacgcaatgaa	ctaggacttaggaaagtgtttg	(tc)09	48	NED
mTcCIR147	tgaagcaatttgaaatctgt	aaccacatcataatgatttaag	(tc)16	48	NED
mTcCIR148	cgtcctatcacttctctttc	ttgcctttacagccattt	(tc)06 cc(tc)06	51	NED
mTcCIR149	atgaagttatagaagggtgtc	cattctgaaacaaccaaag	(ca)12	46	NED
mTcCIR152	cagtagtcaaaacatcaaa	gtaatccaaataataagcat	(tc)9 cc(tc)15	46	NED
mTcCIR155	cttggactattggaaaac	aaggatacaataaggtaaatac	(tc)12	46	NED
mTcCIR160	gattgttgtttggtatgc	gtgaaggtgaaggtgtg	(ga)08	48	NED
mTcCIR166	atgaaccactatgtaagacc	attccaaaggattagcag	(ct)09(ca)08	48	NED
mTcCIR167	gtagaaccataaacaacatt	acaatcattaaaaatacgag	(ga)16	46	NED
mTcCIR175	ttacaatcaacagaacctc	tatattgatgcgaaagtc	(ca)7	46	NED
mTcCIR179	tttccatttctcatttctcaag	atgttttcattttcgtatccaa	(gt)16	51	NED
mTcCIR181	ctttatgctgtctctcgta	ccaagaatgttttgatactg	(ct)12(ca)9	46	NED	Same as mTcCir046
mTcCIR183	gttatcttagtttctagccac	gtagtcttacaccttgattg	(ac)9	46	NED
mTcCIR187	ttcacctagtgtaatggtct	gcaggcttcaatttagag	(tg)8	48	NED
mTcCIR194	acacacagcctaaaacgaaa	gggatgtgacggatatttac	(tg)14	46	NED
mTcCIR195	caagttgaataaagtcctaag	aaaataaagaaaatgaagtaa	(ca)10	46	NED
mTcCIR196	ctgtctaatatggattttgaac	ggtgtcaaatctccaagtg	(ca)11	46	NED
mTcCIR199	gattcttatttgattttcctta	gcacggttacatttattaca	(tg)14 tc (tg)7	46	NED
mTcCIR200	gccaatttctgaccca	cttaaaataagcccaaatac	(tg)8	46	NED
mTcCIR209	tacgggctaatggtga	aggtatgctgtatttatggt	(tg)6 tat (ga)9	48	NED
mTcCIR213	gatctcgcaaaactaaca	taagtaaaatgaaggtgtga	(ct)26	48	NED
mTcCIR214	ttatggcaatggcaga	ggatttttttatggctactt	(ca)18 (ta)7	46	NED
mTcCIR217	agtttccatctatattgtta	tattgtctacggttctct	(ct)11	42	NED
mTcCIR221	atgtagttgggctgtga	tgttaagagggaaatgaa	(tc)9	48	NED
mTcCIR222	ctacagaaaataggcaata	tcattgtattatcaggtaga	(ga)9	46	NED
mTcCIR223	ggtccacactcaacact	ttattccattttcatttact	(tc)4 gc (tc)2 gc (tc)15	46	NED
mTcCIR225	aagacaaagggaagaaga	aggggaagagcaaatc	(tc)10	48	NED
mTcCIR226	taacccaaattcaaagtc	tttcaacagcctcatct	(tc)11	46	NED
mTcCIR229	atctcggtaatagcacataa	cgcaatcctacaacaca	(tc)8	48	NED
mTcCIR231	aggaggagttgctgaa	caggttccaattttgtat	(ag)8	46	NED
mTcCIR235	ttcggatggcaactaact	aaaacagcggaacaggta	(ag)8	48	NED
mTcCIR239	ctccacagtcaaaataaca	ttaaatcccgcaaagt	(ct)9	46	NED
mTcCIR242	tttcggcattccacta	gtaaaaacaataatcttcaacta	(ct)9...(ca)9	48	NED
mTcCIR244	tggcaataacaatgaaca	attttgatgattgatgaaga	(ta)4 cata (ca)17 (ta)4	46	NED
mTcCIR245	gcaaatagacagcaaat	ttcaaaggagtataggtaa	(gt)8	46	NED
mTcCIR249	tctcaagttcaagggtct	gacacaaatgccgttat	(ct)4 tt (ct)28 (ac)16	48	NED
mTcCIR254	acaactccaaagaacaag	ggtaaacctcgtcataat	(ac)21 (at)9	46	NED
mTcCIR263	accaggagtttttcttg	attagtcagctcatcattat	(tc)9	46	NED
mTcCIR264	tgctatccacaaccagt	taactcacttttgccacta	(ct)8	46	NED
mTcCIR265	tgaatgctggaaaaatgt	gtgtctgctttggtttgt	(ag)18	48	NED
mTcCIR268	tgtaatccaaataataagcat	cagtgaagaggcaagaga	(ga)17 gg (ga)9	48	NED
mTcCIR269	tcgtcattaccatttgtt	aatgtctgcaatgttagc	(ct)4 tt (ct)2 gt (ct)6	48	NED
mTcCIR270	ttagtgagatggtgacaat	aatcaaggaaaagttatca	(ct)10 (ca)9	46	NED
mTcCIR272	tttgcctttcctttct	tttgtcaatttggatagtg	(ct)5 (tc)4...(at)4 (ca)7	48	NED
mTcCIR277	accaagatcaaagtcaagaa	gataagaaccaagtgaagaga	(ag)16 aa (ag)11	51	NED
mTcCIR283	atcaatacccaccacaca	cccttttcctctttttct	(tc)11	48	NED
mTcCIR285	tactacctctaccctcttgt	ataaattccttcccttct	(ag)16	46	NED
mTcCIR287	tcctttctgtttgttcct	ttatccgtgtctccttct	(tc)9	48	NED
mTcCIR291	agtcccataggttccaat	cgaggttatccccaaa	(ct)12	51	NED

-mTcCIR primers developed in CIRAD, Montpellier, France
-SHRSTc primers developed in USDA-SHRS Miami, Florida, USA