Research Article
A Degenerate Primer Design Method Based on Ant Colony Optimization
Table 2
DNA sequence analysis at 500 bps and 600 bps under three conditions.
| | ACOH | Primer 3 | Oligo 7 |
| 500 bps up primer (3′- 5′) | CT[TA][TC][CG][TA] | [AC][AT]C[GC][ATC] | A[AG]CG[AT][GAT] | G[GT]C[CT][CG] | [GA][AT]G[TC]C | AG[TC][CG]TG | [TA]A[CTA] | [TG]G[AT][AG]C | [AT]A[AC][GCT] | [CG]CTA | [CG][AT][AT]TC | [AT]G[TC]C |
| 500 bps down primer (3′- 5′) | GAA[CA][CT][GT] | CT[TA][TA][GC] | C[CT]G[TA][TCG] |
| 600 bps up primer (3′- 5′) | [CT][CT]G[TG] | C[GA][TA]G[GT]C[CT] | [CA]A[TA]GT |
| 600 bps down primer (3′- 5′) | G[TG]ACGA[CGA] | G[TA][AG][CTA] | [GC][CT]GA[TAG] | [TA]T[CA] | [CG]C[TA][CA] | [TA]GC[GA]A | GGA[TC]A[GA] | G[TAG]A[TC]A[GA] | [TG][AG]A[TC][TA] | GT[CA][CAT][CA] | G[TGA][CA][CAT] | [GA]G[TA][CA] | [TG][TA]C[CA] | [CA][TG][TA]C | [CT][CGA]T[TA]C | GAC[AG] | [CA][GA][AC][AG] | C[GA]ACA | GC[AG]CGG[TG] | GC[AG]C[AG]G | GC[CAG][CT]G | [TC]C[CAT]A | [TG][TC]C[CAT] | [GA][TG]TC[CT] | [TA]G[TA][TC]G | A[TA]G[TA][TC] | [GA][GTA]GAC | [GA]T[CA] | [GA][GA][TA][CAG] | [GA]G[TA][CA] |
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