Table 1. Higher mismatch rate with Ex Taq DNA polymerase and a lower reverse transcription reaction temperature.
Library | RT reaction temperature | PCR polymerase | Mismatch rate per nucleotidea |
---|---|---|---|
Structure-seq2 (–DMS) | 55°C | Q5 | 0.89% |
Structure-seq2 biotin variation (–DMS) | 55°C | Q5 | 0.83% |
Ex Taq DNA polymerase | 55°C | Ex Taq | 1.15% |
Lower RT reaction temperature | 50°C | Q5 | 0.97% |
aReads with more than three mismatches are not included as they cannot be confidently mapped.