Talk:20.109(S14):Diagnostic primer design (Day2)
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T/R Section
Sensitivity
Team color | Forward (F) primer | Reverse (R) primer | Target site (e.g. bp 60), F | Target side (e.g., bp 300), R | Is bp # for VC or EH? Which gene? |
Red | CAC CAG GTT GAT ACT GCC TGA C | CCT ATC CCG AAC CAA ACC CTG | bp 1 | bp 260 | EH, SSU rRNA |
Green | |||||
Pink | ACC AGG TTG ATT CTG CCT GAC | TCT CTC ACG CTC CCT CTC C | bp1/bp2 | bp252/bp290 | EH/VC SSU rRna |
Specificity
Team Color | Forward primer | Reverse primer | Target site (e.g. bp 60), F | Target side (e.g., bp 300), R | Is bp # for VC or EH? Which gene? |
Yellow | |||||
Blue | GATTCTGCCTGACGTAGATGC | CTGCTGGCACCAAACTTGC | 10 bp | 408 bp | E. hellem (AF118143) |
Orange |
W/F Section
Sensitivity
Team color | Forward (F) primer | Reverse (R) primer | Target site (e.g. bp 60), F | Target site (e.g., bp 300), R | Is bp # for VC or EH? Which gene? |
Pink | ACC AGG TTG ATT CTG CTG ACG | TTGCGAGCATACTATCCCCAG | bp 1/2 | bp 741/768 | VC/EH SSU rRNA |
Red | ACC AGG TTG ATT CTG CCT GAC | ATA TTA CCG CGG CTG CTG | bp 1/2 | bp 380/421 | VC/EH small subunit rRNA |
Orange | CCA GGT TGA CTC TGC CTG ACG TCG | ||||
Yellow | CAC CAG GTT GAT TCT GCC TGA C | CCA TCC ATT TCC AAC GAC CAT G | 1 | 947 | EH |
Specificity
Team color | Forward (F) primer | Reverse (R) primer | Target site (e.g. bp 60), F | Target site (e.g., bp 300), R | Is bp # for VC or EH? Which gene? |
White | |||||
Blue | CAC CAG GTT GAT TCT GCC TGA C | CTG CTG GCA CCA GAC TTG C | 1 | 426 for EH; 386 for VC | Both |
Silver | CAC CAG GTT GAT TCT GCC TGA C | TTC ACC ATA GAC ACT ACT GGA GC | 1 | 441 | EH |
Purple | GTCTGGCTGTGTAGATAACTACG | CACTGTGAGACCTCGCATC | 102 | 465 | VC |
Green | agattgctcccacgtccaag | caacgaccatgcaccactc | 251 | 872 | VC |