Primers | Sequencea (5’–3’) | Degeneracyb | Coveragec | %d (acc.) |
|---|
catAf | GYACCATYGARGGYCCRYWVTAY | 768 | 87 | 98 |
catAr | GAARTGMABRTGNGMNGGRCGNY | 12288 | | |
- aAll the oligonucleotide primers listed in the table above are in 5’–3’ direction. Nucleotide bases other than the standard Watson-crick bases depict the wobble bases. M (A/C), R (A/G), W (A/T), Y (C/T), S (C/G), V (A/C/G), B (C/G/T), N (A/C/G/T). It is noteworthy that all the designed primer pairs are non-degenerate at the 5’ end which serves as a consensus clam region and are degenerated at the 3’ end. bis the total degeneracy present in individual primers. The program introduces degeneracies at some positions within the primers so that they would amplify a maximum number of the input sequences as well as other novel genes within the gene superfamily. cThis specifies the number of genes (out of the 160) sequence sets that each primer matches. dThe last column is the total accumulation coverage. It depicts the percentage of the input sequences covered by the combinations of all three primers
