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


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