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Recently, RNAse activity could be identified in the N-terminal part of PA, which is most likely necessary to cleave the primer off the remaining host mRNA [21], [22].
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Mis-assemblies in the draft genome caused by chimeric clones were corrected manually and Sanger sequencing of PCR products, as well as Sanger primer walks off the 3Kbp clones joined the remaining 15 gaps.
To obtain accurate data, we eliminated reads with more than 2 mismatched bases in the forward primer, cut off low-quality bases from the 3′ end, and discarded reads with ambiguous bases, short reads, or reads with an average accuracy less than 0.2.
If primers are in excess, removal of free primer by off-target hybridization will not have a noticeable effect on the reaction dynamics.
Such a mechanism provides a straightforward model of primer hand-off in eukaryotic replication, by removing the need for molecular transactions between primer-bound Pol α and the replicative apparatus deputed to leading and lagging strand synthesis.
A fundamental mechanistic disparity is that E. coli SSB plays a critical role in a three-point switch that mediates RNA primer hand-off from the primase, DnaG, to the polymerase, DnaE, during lagging strand synthesis (Yuzhakov et al., 1999).
The primers for off-target site analysis can be found in Table S3.
See Additional file 1: Primers for off-target effects determination.
At the load command, the powder man would slip a primer protector off the end of the powder case, extract the case from the scuttle, and lift it into the gun's rammer tray.
Tags and primers are trimmed off (step 5).
Read prefixes (e.g. primers) are trimmed off in the output files since they do not provide information after filtering.
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